Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008376.1 Hibiscus syriacus cultivar Beakdansim tig00111136_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: 143518
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Found at i:4301 original size:5 final size:5
Alignment explanation
Indices: 4287--4335 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
4277 GTCCGTCCGT
* * * *
4287 CTCGT CTCGG CTCGG CACGA CACGG CTCGG CTCGG CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
4336 TGGTCGTGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.06, C:0.41, G:0.35, T:0.18
Consensus pattern (5 bp):
CTCGG
Found at i:4344 original size:6 final size:6
Alignment explanation
Indices: 4333--4393 Score: 86
Period size: 6 Copynumber: 10.2 Consensus size: 6
4323 TCGGCTCGGC
* * * *
4333 TCGTGG TCGTGG TCGTGG TCGAGG TCGAGG TCGAGG TCGAGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
4381 TCGTGG TCGTGG T
1 TCGTGG TCGTGG T
4394 AATACGTGTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.07, C:0.16, G:0.49, T:0.28
Consensus pattern (6 bp):
TCGTGG
Found at i:4691 original size:22 final size:22
Alignment explanation
Indices: 4666--4720 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
4656 TCAGGAGTTA
* *
4666 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
4688 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
4710 CGGGAGTTATA
1 CAGGAGTTATA
4721 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:6680 original size:33 final size:33
Alignment explanation
Indices: 6605--6680 Score: 101
Period size: 27 Copynumber: 2.5 Consensus size: 33
6595 ATCGGCACAG
*
6605 TATTCATAAAAGCTGATTTAAAAATAATTCAAA
1 TATTCATAAAAGCTGATTTAAAAACAATTCAAA
6638 TATT--T----GCTGATTTAAAAACAATTCAAA
1 TATTCATAAAAGCTGATTTAAAAACAATTCAAA
6665 TATTCATAAAAGCTGA
1 TATTCATAAAAGCTGA
6681 CCAAAGATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
27 25 0.69
29 1 0.03
31 1 0.03
33 9 0.25
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (33 bp):
TATTCATAAAAGCTGATTTAAAAACAATTCAAA
Found at i:13947 original size:27 final size:26
Alignment explanation
Indices: 13892--13945 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
13882 GAATTAAAAT
13892 ATTCTTTTTTTAGTAAATGGACTAAA
1 ATTCTTTTTTTAGTAAATGGACTAAA
*
13918 ATTCTGTTTTCTTA-TAATATGGAGTAAA
1 ATTCT-TTTT-TTAGTAA-ATGGACTAAA
13946 TTTTAACTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.21
27 7 0.29
28 12 0.50
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.46
Consensus pattern (26 bp):
ATTCTTTTTTTAGTAAATGGACTAAA
Found at i:20223 original size:18 final size:19
Alignment explanation
Indices: 20181--20224 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
20171 ATATTTGACT
*
20181 TTATTTATAATTTTTTAAA
1 TTATTTATAATTTTTAAAA
20200 TCTATTTATAA-TTTTAAAA
1 T-TATTTATAATTTTTAAAA
20219 TTATTT
1 TTATTT
20225 TATATGTCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 5 0.22
19 9 0.39
20 9 0.39
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTTATAATTTTTAAAA
Found at i:20228 original size:19 final size:20
Alignment explanation
Indices: 20182--20224 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
20172 TATTTGACTT
*
20182 TATTTATAATTTTTTAAATC
1 TATTTATAATTTTTAAAATC
20202 TATTTATAA-TTTTAAAAT-
1 TATTTATAATTTTTAAAATC
20220 TATTT
1 TATTT
20225 TATATGTCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.23
19 8 0.36
20 9 0.41
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTATAATTTTTAAAATC
Found at i:25064 original size:33 final size:33
Alignment explanation
Indices: 25022--25087 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
25012 AAAACAGGAA
25022 ACTAAGCTCTTTAGCTTAAATTAGGCACTGGAT
1 ACTAAGCTCTTTAGCTTAAATTAGGCACTGGAT
25055 ACTAAGCTCTTTAGCTTAAATTAGGCACTGGAT
1 ACTAAGCTCTTTAGCTTAAATTAGGCACTGGAT
25088 TGAGAAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (33 bp):
ACTAAGCTCTTTAGCTTAAATTAGGCACTGGAT
Found at i:28610 original size:45 final size:45
Alignment explanation
Indices: 28513--28796 Score: 304
Period size: 45 Copynumber: 6.3 Consensus size: 45
28503 TCATTGATAA
* ** * * *
28513 CATCCATTCATGCTTATAATGCA-CCATTATGCCTGTTTATTTATGG
1 CATCCTTTCATGCCGATAATGCACCCA-TATGCAT-TTCAATTATGG
* * *
28559 CA-CCTTTCATGCCGATAATGCACCCATATACATCTCACTTATGG
1 CATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGG
* * *
28603 CATCCTTTCATGCCGATAATGCACCCATGTGCATATCAATTATGA
1 CATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGG
*
28648 CATCCTTTCATGCCGATAATGCACCTATATGCATTTCAATTATGG
1 CATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGG
* * *
28693 CATCCTTTCATGTCGATAATGTACCCATATGCATTTCAATTATGA
1 CATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGG
* ** * * * * *
28738 CATCATTTCATGCCTTTTATACA-CTATTATACATTTCATTTATGG
1 CATCCTTTCATGCCGATAATGCACCCA-TATGCATTTCAATTATGG
28783 CATCCTTTCATGCC
1 CATCCTTTCATGCC
28797 TTTTATACAA
Statistics
Matches: 202, Mismatches: 33, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
44 12 0.06
45 185 0.92
46 5 0.02
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.37
Consensus pattern (45 bp):
CATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGG
Found at i:28946 original size:81 final size:80
Alignment explanation
Indices: 28833--29080 Score: 379
Period size: 81 Copynumber: 3.1 Consensus size: 80
28823 ACATCTAGTT
**
28833 TTTTACTCAAAGACATTTAACCTTTCATCTAACTAGCATGATTGACACATTTCTGTCAAATGCAC
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GCATGATTGACACATTTCTGTCAAATGCAC
**
28898 AGTTAGGTCATTAATC
65 AACTAGGTCATTAATC
*
28914 TTTTACTCAAAGGTATTTAACCTTTGATCTAACTGACATGATTGACACATTTCTGTCAAATGCAC
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTG-CATGATTGACACATTTCTGTCAAATGCAC
* *
28979 AACCAGGCCATTAATC
65 AACTAGGTCATTAATC
* *
28995 TTTTACTCAAAGGTATTTAACCTTTCATATAACTGGCATAATTGACACATTTCTGTCAAATGCAC
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GCATGATTGACACATTTCTGTCAAATGCAC
*
29060 AACTATGTCATTAATC
65 AACTAGGTCATTAATC
29076 TTTTA
1 TTTTA
29081 TATTAGAATA
Statistics
Matches: 152, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 150 0.99
82 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (80 bp):
TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGCATGATTGACACATTTCTGTCAAATGCACA
ACTAGGTCATTAATC
Found at i:29775 original size:19 final size:19
Alignment explanation
Indices: 29751--29791 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
29741 GTATCGAAAC
* *
29751 TACTATATTATGGTACCGA
1 TACTATATTACGGTACCAA
29770 TACTATATTACGGTACCAA
1 TACTATATTACGGTACCAA
29789 TAC
1 TAC
29792 CATTTCTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (19 bp):
TACTATATTACGGTACCAA
Found at i:32700 original size:15 final size:16
Alignment explanation
Indices: 32669--32701 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32659 ATAATACATA
*
32669 TATTTTTTTATATTAT
1 TATTGTTTTATATTAT
32685 TATTGTTTTA-ATTAT
1 TATTGTTTTATATTAT
32700 TA
1 TA
32702 CAACATGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TATTGTTTTATATTAT
Found at i:41384 original size:65 final size:63
Alignment explanation
Indices: 41312--41471 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 63
41302 GAATAAATTG
* * * * * *
41312 AACATCGAATGCATTATATGCATCGATGCTCATGCTATGCATCGATGCACTC-AGGTTTTTATGA
1 AACATCGAATGCATT-TATGCATCGATGCACAAGCCATGCATCGAAGCACTCGAGCTTGTT-TG-
41376 A
63 A
41377 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGAAGCACTCGAGCTTGTTTGA
1 AACATCGAATGCATTT-ATGCATCGATGCACAAGCCATGCATCGAAGCACTCGAGCTTGTTTGA
*
41441 AACATCGAATGCACTTCATGCATCGATGCAC
1 AACATCGAATGCA-TTTATGCATCGATGCAC
41472 TCGTAGTGCA
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
64 29 0.34
65 50 0.59
66 6 0.07
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTATGCATCGATGCACAAGCCATGCATCGAAGCACTCGAGCTTGTTTGA
Found at i:48757 original size:45 final size:46
Alignment explanation
Indices: 48661--48768 Score: 148
Period size: 45 Copynumber: 2.4 Consensus size: 46
48651 ATGCACATAC
* *
48661 CATGCATCGATGCACTCAGGTTTTTATGAAAACATCGAATGCATTT
1 CATGCATCGATGCACTCAGGTTGTTATGAAAACATCGAATGCACTT
* * *
48707 GATGCATCGATGCACTCGGGCTTGTT-TG-ATACATCGAATGCACTT
1 CATGCATCGATGCACTCAGG-TTGTTATGAAAACATCGAATGCACTT
48752 CATGCATCGATGCACTC
1 CATGCATCGATGCACTC
48769 TTAGTGCACC
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
45 31 0.56
46 20 0.36
47 4 0.07
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (46 bp):
CATGCATCGATGCACTCAGGTTGTTATGAAAACATCGAATGCACTT
Found at i:48766 original size:17 final size:19
Alignment explanation
Indices: 48738--48786 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
48728 TTGTTTGATA
48738 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
48756 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
48775 CACCGATGCACT
1 CATCGATGCACT
48787 GAGGGTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:48950 original size:17 final size:18
Alignment explanation
Indices: 48928--48965 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
48918 TGATAAAAAA
48928 CAAGAAATAACA-AGAAT
1 CAAGAAATAACAGAGAAT
* *
48945 CAAGAATTAAGAGAGAAT
1 CAAGAAATAACAGAGAAT
48963 CAA
1 CAA
48966 AGAGAAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.13
Consensus pattern (18 bp):
CAAGAAATAACAGAGAAT
Found at i:50547 original size:3 final size:3
Alignment explanation
Indices: 50534--50635 Score: 54
Period size: 3 Copynumber: 33.7 Consensus size: 3
50524 ATTACTATAT
* *
50534 TTA TATA TTA TTA -TA TT- TTAA TTA TTTA TTA -TA TT- TAA TAA TTA
1 TTA T-TA TTA TTA TTA TTA TT-A TTA -TTA TTA TTA TTA TTA TTA TTA
* *
50578 ATA TTA TTA GTTA TTA TTA TTA TTA -TA TTTA TTTA TTA -TA TTA TAA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA
*
50624 TTT TTCA TTA TT
1 TTA TT-A TTA TT
50636 TCAAAATTTA
Statistics
Matches: 79, Mismatches: 8, Indels: 24
0.71 0.07 0.22
Matches are distributed among these distances:
2 11 0.14
3 49 0.62
4 19 0.24
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:50548 original size:16 final size:16
Alignment explanation
Indices: 50524--50616 Score: 71
Period size: 16 Copynumber: 6.3 Consensus size: 16
50514 ATCTATTTTA
*
50524 ATTACTATATTTATAT
1 ATTATTATATTTATAT
50540 ATTATTATATTT-TA-
1 ATTATTATATTTATAT
50554 ATTATT-TA-TTATAT
1 ATTATTATATTTATAT
*
50568 -TTA--ATAATTA-AT
1 ATTATTATATTTATAT
50580 ATTATTAGT-TATTAT-T
1 ATTATTA-TAT-TTATAT
*
50596 ATTATTATATTTATTT
1 ATTATTATATTTATAT
50612 ATTAT
1 ATTAT
50617 ATTATAATTT
Statistics
Matches: 63, Mismatches: 2, Indels: 24
0.71 0.02 0.27
Matches are distributed among these distances:
12 6 0.10
13 13 0.21
14 6 0.10
15 8 0.13
16 30 0.48
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (16 bp):
ATTATTATATTTATAT
Found at i:50613 original size:13 final size:13
Alignment explanation
Indices: 50531--50619 Score: 64
Period size: 13 Copynumber: 7.0 Consensus size: 13
50521 TTAATTACTA
50531 TATTTA-TATA-T
1 TATTTATTATATT
* *
50542 TATTATATTTTAAT
1 TATT-TATTATATT
50556 TATTTATTATATT
1 TATTTATTATATT
* *
50569 TAATAATTA-ATAT
1 TATTTATTATAT-T
50582 TA-TTAGTTAT-TAT
1 TATTTA-TTATAT-T
50595 TA-TTATTATATT
1 TATTTATTATATT
50607 TATTTATTATATT
1 TATTTATTATATT
50620 ATAATTTTTC
Statistics
Matches: 64, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
11 4 0.06
12 13 0.20
13 42 0.66
14 5 0.08
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (13 bp):
TATTTATTATATT
Found at i:50714 original size:163 final size:160
Alignment explanation
Indices: 50471--50957 Score: 703
Period size: 163 Copynumber: 3.0 Consensus size: 160
50461 TCAAATTCAA
*
50471 ATTTCAAAATTT-TCAAAATATATAATAATTATTTTTATAAAATATCTATTTTAATTACTATATT
1 ATTTCAAAATTTAT-AAAATATATTATAATTATTTTTATAAAATATCTATTTTAATTACTATATT
50535 TATATATTATTATATTTTAATTATTTATTATATTTAATAATTAATATTATTAGTTATTATTATTA
65 TATATATTATTATATTTTAATTATTTATTATATTTAATAATTAATATTATTA-TTATTATTATTA
*
50600 TTATATTTATTTATTATATTATAATTTTTCATT
129 TTATATTTATTTATTATAATATAATTTTT-ATT
* *
50633 ATTTCAAAATTTATAAAATATATTATAATTATTTTTTATAAAATATATATTTTAATTACAATA-T
1 ATTTCAAAATTTATAAAATATATTATAATTA-TTTTTATAAAATATCTATTTTAATTACTATATT
* * *
50697 TACTATATTATTATATTTTAATAATTTATTACATTTAGTAATTAATATTATTATTAATTATTATT
65 TA-TATATTATTATATTTTAATTATTTATTATATTTAATAATT-A-A-TATTATT-ATTATTATT
*
50762 ATTATTATATTTATTTATTACAATATAA--TTTATT
125 ATTATTATATTTATTTATTATAATATAATTTTTATT
* *
50796 ATTTCAAAATTTATAAAATATATTTTAATTAGTTTTTATAAAATTTCTATTTTAATTACTATATT
1 ATTTCAAAATTTATAAAATATATTATAATTA-TTTTTATAAAATATCTATTTTAATTACTATATT
* *
50861 TATATATTATTATATTTTAATTATTTATTATAATTAATAATTAATAATTAATATTATTAATAATT
65 TATATATTATTATATTTTAATTATTTATTATATTTAATAATTAAT-A-T--TATTATT-ATTATT
50926 ATTATTATATTTATTTATTATAATATAATTTT
125 ATTATTATATTTATTTATTATAATATAATTTT
50958 GTTTCTACGT
Statistics
Matches: 291, Mismatches: 19, Indels: 26
0.87 0.06 0.08
Matches are distributed among these distances:
160 1 0.00
161 2 0.01
162 33 0.11
163 167 0.57
164 43 0.15
165 1 0.00
166 43 0.15
167 1 0.00
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.56
Consensus pattern (160 bp):
ATTTCAAAATTTATAAAATATATTATAATTATTTTTATAAAATATCTATTTTAATTACTATATTT
ATATATTATTATATTTTAATTATTTATTATATTTAATAATTAATATTATTATTATTATTATTATT
ATATTTATTTATTATAATATAATTTTTATT
Found at i:50874 original size:16 final size:15
Alignment explanation
Indices: 50843--50930 Score: 78
Period size: 16 Copynumber: 6.1 Consensus size: 15
50833 ATAAAATTTC
*
50843 TATTT-TAATTACTA
1 TATTTATAATTATTA
50857 TATTTATATATTATTA
1 TATTTATA-ATTATTA
50873 TATTT-TAATTATT-
1 TATTTATAATTATTA
*
50886 TA-TTATAATTAATA
1 TATTTATAATTATTA
* *
50900 -ATTAATAATTAATA
1 TATTTATAATTATTA
*
50914 TTATTAATAATTATTA
1 -TATTTATAATTATTA
50930 T
1 T
50931 TATATTTATT
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
12 2 0.03
13 10 0.16
14 22 0.35
15 5 0.08
16 24 0.38
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTTATAATTATTA
Found at i:50879 original size:30 final size:27
Alignment explanation
Indices: 50805--50893 Score: 85
Period size: 27 Copynumber: 3.3 Consensus size: 27
50795 TATTTCAAAA
*
50805 TTTATAAAA--TATATTTTAATTAGTT
1 TTTATAAAATTTATATTTTAATTACTT
*
50830 TTTATAAAATTTCTATTTTAATTACTAT
1 TTTATAAAATTTATATTTTAATTACT-T
* *
50858 ATTTATATATTATTATATTTTAATTA-TT
1 -TTTATAAAAT-TTATATTTTAATTACTT
50886 TATTATAA
1 T-TTATAA
50894 TTAATAATTA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
25 9 0.17
27 14 0.27
28 7 0.13
29 9 0.17
30 13 0.25
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (27 bp):
TTTATAAAATTTATATTTTAATTACTT
Found at i:50900 original size:7 final size:7
Alignment explanation
Indices: 50890--50926 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
50880 ATTATTTATT
50890 ATAATTA
1 ATAATTA
50897 ATAATTA
1 ATAATTA
50904 ATAATTA
1 ATAATTA
50911 ATATTATTA
1 ATA--ATTA
50920 ATAATTA
1 ATAATTA
50927 TTATTATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 21 0.75
9 7 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
ATAATTA
Found at i:50931 original size:16 final size:14
Alignment explanation
Indices: 50860--50949 Score: 66
Period size: 13 Copynumber: 6.5 Consensus size: 14
50850 ATTACTATAT
50860 TTATATATTAT-TATA
1 TTATA-ATTATAT-TA
*
50875 TTTTAATTAT-TTA
1 TTATAATTATATTA
*
50888 TTATAATTA-ATAA
1 TTATAATTATATTA
50901 TTAATAATTAATATTA
1 TT-ATAATT-ATATTA
50917 TTAATAA-T-TATTA
1 TT-ATAATTATATTA
*
50930 TTATATTTAT-TTA
1 TTATAATTATATTA
50943 TTATAAT
1 TTATAAT
50950 ATAATTTTGT
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
12 3 0.05
13 31 0.49
14 13 0.21
15 6 0.10
16 10 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATAATTATATTA
Found at i:56792 original size:21 final size:21
Alignment explanation
Indices: 56763--56815 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
56753 ATTCTGACTA
56763 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
56784 TCGCGTTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCAAAT
*
56805 TCGCAATGCGA
1 TCGCATTGCGA
56816 ATATGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:56847 original size:20 final size:20
Alignment explanation
Indices: 56805--56870 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
56795 TTTTCCGAAT
* *
56805 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGATTATG-ACTA
56825 TCGCAATGCGATTATGACTA
1 TCGCAATGCGATTATGACTA
* *
56845 TCGC-ATCGCGATTCTGACTG
1 TCGCAAT-GCGATTATGACTA
56865 TCGCAA
1 TCGCAA
56871 CACTGAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
19 3 0.08
20 35 0.90
21 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (20 bp):
TCGCAATGCGATTATGACTA
Found at i:57757 original size:24 final size:24
Alignment explanation
Indices: 57691--57768 Score: 120
Period size: 24 Copynumber: 3.2 Consensus size: 24
57681 GTATTCGAAA
* *
57691 TTTGATCTTGGTCAATACCCGAAC
1 TTTGATCTTGGTCAATACTCGGAC
57715 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATCTTGGTCAATACTCGGAC
* *
57739 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACTCGGAC
57763 TTTGAT
1 TTTGAT
57769 GATGTTTCAG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCGGAC
Found at i:60023 original size:18 final size:18
Alignment explanation
Indices: 60000--60039 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
59990 AGAAAAAGGC
*
60000 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
*
60018 AATCAAAATCCCAATCAC
1 AATCAAAATCCCAATCAA
60036 AATC
1 AATC
60040 GGCTTCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.28, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:60349 original size:140 final size:140
Alignment explanation
Indices: 60094--60363 Score: 486
Period size: 140 Copynumber: 1.9 Consensus size: 140
60084 AAACGTTGTA
*
60094 TTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGTTTGAACATTACTA
1 TTATGTATAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGTTTGAACATTACTA
* *
60159 TGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATTGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
60224 TATGTGTATT
131 TATGTGTATT
* *
60234 TTATGTATAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTATAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGTTTGAACATTACTA
*
60299 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGTGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
60364 CGCAACGCGA
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 124 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (140 bp):
TTATGTATAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGTTTGAACATTACTA
TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
TATGTGTATT
Found at i:60359 original size:20 final size:20
Alignment explanation
Indices: 60334--60587 Score: 222
Period size: 20 Copynumber: 13.7 Consensus size: 20
60324 TTACACATTC
* *
60334 ATTTGAATATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
60354 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
60374 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
*
60393 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
60408 ATTTGTCTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
60428 ATTTGTCTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
60448 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
60468 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
60488 ATTTGACTATCGCAA--C-A
1 ATTTGACTATCGCAACGCGA
**
60505 A---GAAAATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
60522 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
60542 A----A--ATCGCAAAGCGT
1 ATTTGACTATCGCAACGCGA
*
60556 ATTAGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
60576 A-TTGACTTTCGC
1 ATTTGACTATCGC
60588 GTTGTGATTT
Statistics
Matches: 189, Mismatches: 27, Indels: 37
0.75 0.11 0.15
Matches are distributed among these distances:
14 28 0.15
15 3 0.02
16 2 0.01
17 3 0.02
18 1 0.01
19 11 0.06
20 141 0.75
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:60572 original size:34 final size:34
Alignment explanation
Indices: 60362--60572 Score: 172
Period size: 34 Copynumber: 5.9 Consensus size: 34
60352 GAATTTGACT
* * *
60362 ATCGCAACGCGAATTTGATTATCGCAACTCA-AAA
1 ATCGCAACGCGTATTTGACTATCGCAAC-GAGAAA
* * * *
60396 ATCGCAACGCGAATTTGTCTATCGCAACGCGAATTTGTCT
1 ATCGCAACGCGTATTTGACTATCGCAACGAGAA------A
* *
60436 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGA
1 ATCGCAACGCGTATTTGACTATCGCAACGAGAA----A
* *
60474 TTATCGCAACGGGTATTTGACTATCGCAACAAGAAA
1 --ATCGCAACGCGTATTTGACTATCGCAACGAGAAA
*
60510 ATCGCAACGCGAATTTGACTATCGCAACGAGAAA
1 ATCGCAACGCGTATTTGACTATCGCAACGAGAAA
* *
60544 ATCGCAAAGCGTATTAGACTATCGCAACG
1 ATCGCAACGCGTATTTGACTATCGCAACG
60573 CGAATTGACT
Statistics
Matches: 149, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
34 85 0.57
36 1 0.01
38 2 0.01
40 61 0.41
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (34 bp):
ATCGCAACGCGTATTTGACTATCGCAACGAGAAA
Found at i:60632 original size:20 final size:20
Alignment explanation
Indices: 60577--60634 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
60567 GCAACGCGAA
* *
60577 TTGACTTTCGCGTTGTGATT
1 TTGACTTTAGCGTTGCGATT
* * *
60597 TTGTCTTTCGCATTGCGATT
1 TTGACTTTAGCGTTGCGATT
*
60617 TTGAGTTTAGCGTTGCGA
1 TTGACTTTAGCGTTGCGA
60635 AAGTGTACCT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.12, C:0.16, G:0.26, T:0.47
Consensus pattern (20 bp):
TTGACTTTAGCGTTGCGATT
Found at i:60793 original size:14 final size:14
Alignment explanation
Indices: 60758--60794 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
60748 AATATTAAAC
*
60758 AAATCAACTTTTAT
1 AAATCAATTTTTAT
60772 AAATCAATTTTTAT
1 AAATCAATTTTTAT
60786 AAATCAATT
1 AAATCAATT
60795 AAACAAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATCAATTTTTAT
Found at i:62765 original size:18 final size:19
Alignment explanation
Indices: 62741--62787 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
62731 TGAAACTTAA
62741 AATCGCAACACGAA-TGAC
1 AATCGCAACACGAATTGAC
* *
62759 TATCGCAACGCGAATTTGAC
1 AATCGCAACACGAA-TTGAC
62779 AATCGCAAC
1 AATCGCAAC
62788 GGAGAATCGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.50
20 12 0.50
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (19 bp):
AATCGCAACACGAATTGAC
Found at i:62783 original size:20 final size:18
Alignment explanation
Indices: 62741--62788 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
62731 TGAAACTTAA
*
62741 AATCGCAACACGAATGAC
1 AATCGCAACGCGAATGAC
*
62759 TATCGCAACGCGAATTTGAC
1 AATCGCAACGCGAA--TGAC
62779 AATCGCAACG
1 AATCGCAACG
62789 GAGAATCGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.48
20 13 0.52
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (18 bp):
AATCGCAACGCGAATGAC
Found at i:62861 original size:20 final size:20
Alignment explanation
Indices: 62836--62877 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
62826 CTTTCGTTGT
62836 GATAGTCAAATTCGCATTGC
1 GATAGTCAAATTCGCATTGC
**
62856 GATAGTCATTTTCGCATTGC
1 GATAGTCAAATTCGCATTGC
62876 GA
1 GA
62878 AAGTAAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (20 bp):
GATAGTCAAATTCGCATTGC
Found at i:63048 original size:18 final size:18
Alignment explanation
Indices: 63025--63074 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
63015 TTTACTAAGC
63025 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
63043 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
63061 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
63075 TACGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:64798 original size:20 final size:20
Alignment explanation
Indices: 64775--64830 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
64765 TCTGAAACTT
*
64775 AAAATCGCACCACGAAAATG
1 AAAATCGCAACACGAAAATG
64795 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
64815 ACTATCGCAACGCGAA
1 AAAATCGCAACACGAA
64831 TTTGACTATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:64836 original size:20 final size:20
Alignment explanation
Indices: 64787--64851 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
64777 AATCGCACCA
** *
64787 CGAAAATGAAAATCGCAACA
1 CGAAAATGACTATCGCAACG
64807 CGAAAATGACTATCGCAACG
1 CGAAAATGACTATCGCAACG
**
64827 CGAATTTGACTATCGCAACG
1 CGAAAATGACTATCGCAACG
*
64847 TGAAA
1 CGAAA
64852 CTAAAATCGC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.17
Consensus pattern (20 bp):
CGAAAATGACTATCGCAACG
Found at i:65502 original size:20 final size:20
Alignment explanation
Indices: 65474--65560 Score: 129
Period size: 20 Copynumber: 4.3 Consensus size: 20
65464 GAAAATTGCA
*
65474 TTGCGATAGTCAGCATCGCG
1 TTGCGATAGTCAGAATCGCG
* *
65494 TTACGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
65514 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
* *
65534 TTGCGATAGTCATAATCGCA
1 TTGCGATAGTCAGAATCGCG
65554 TTGCGAT
1 TTGCGAT
65561 TTACATATTC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:65601 original size:22 final size:22
Alignment explanation
Indices: 65576--65627 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
65566 TATTCGCATT
65576 GCGATAGTCGAAAAATCGCAAC
1 GCGATAGTCGAAAAATCGCAAC
* * * *
65598 GCGA-ATTTGGAAAATCGCAAT
1 GCGATAGTCGAAAAATCGCAAC
65619 GCGATAGTC
1 GCGATAGTC
65628 AGAATCGCGT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (22 bp):
GCGATAGTCGAAAAATCGCAAC
Found at i:66229 original size:105 final size:102
Alignment explanation
Indices: 66013--66469 Score: 387
Period size: 105 Copynumber: 4.4 Consensus size: 102
66003 CCATAAAAAT
* * * * * * * * *
66013 ATTTTCAGTGTCAAATAAATTCATTACATTTTCTATTGATAATAGTGTTGAACATTAGGTCATTG
1 ATTTTTAGTGTCAAAAAAATT-ATCACAATTTCTATTG-TAATAGTGTCGAACATTTGATCACTA
** * * * * * *
66078 AAAGGTTCTTATTGTGGCTACATTTG-TGGTTACAAAATAT
64 AAAAATACTTAGTGTGACAACA--TGATGGTCACAAAATAA
* ** *
66118 ATTTTTTGTGTCAAATAAACCTATCACAATTTCTATTGTTAATAGTGTTGAACATTTGATCACTA
1 ATTTTTAGTGTCAAA-AAAATTATCACAATTTCTATTG-TAATAGTGTCGAACATTTGATCACTA
66183 AAACAATACTTAGTGTGACAACATAGATGGTCACAAAATAA
64 AAA-AATACTTAGTGTGACAACAT-GATGGTCACAAAATAA
* * *
66224 ATTTTTAATGTCCAACAAAATTATCACAATTTCTATTGATAATAGTGTCGACCATTTGATCACTA
1 ATTTTTAGTGT-CAAAAAAATTATCACAATTTCTATTG-TAATAGTGTCGAACATTTGATCACTA
* * * *
66289 AAAAATACTTAGAGTAACAACAGTGACGGTCACAAAATAG
64 AAAAATACTTAGTGTGACAACA-TGATGGTCACAAAATAA
* * * * * *
66329 ATTTTTAGTGTCAAACAATTTCATCACAATTTTTATTGAAATTAGTGTGGAACATTTGGTCACT-
1 ATTTTTAGTGTCAAAAAAATT-ATCACAATTTCTATTGTAA-TAGTGTCGAACATTTGATCACTA
* * * * * *
66393 AAAAATACTTAGTGTGATAACATTAAGGGTTATAAAATAT
64 AAAAATACTTAGTGTGACAACA-TGATGGTCACAAAATAA
* * *
66433 ATTTTCAGTATCGAAAAAATTATCACAATTTCTATTG
1 ATTTTTAGTGTCAAAAAAATTATCACAATTTCTATTG
66470 ATAACAATGG
Statistics
Matches: 288, Mismatches: 56, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
103 15 0.05
104 57 0.20
105 128 0.44
106 85 0.30
107 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (102 bp):
ATTTTTAGTGTCAAAAAAATTATCACAATTTCTATTGTAATAGTGTCGAACATTTGATCACTAAA
AAATACTTAGTGTGACAACATGATGGTCACAAAATAA
Found at i:66260 original size:106 final size:105
Alignment explanation
Indices: 66109--66469 Score: 392
Period size: 105 Copynumber: 3.4 Consensus size: 105
66099 ATTTGTGGTT
* * * ** *
66109 ACAAAATATATTTTTTGTGTCAAATAAACCTATCACAATTTCTATTGTTAATAGTGTTGAACATT
1 ACAAAATAAATTTTTAGTGTCAAACAAAATTATCACAATTTCTATTG-TAATAGTGTCGAACATT
*
66174 TGATCACTAAAACAATACTTAGTGTGACAACA-TAGATGGTC
65 TGATCACTAAAA-AATACTTAGTGTGACAACAGTAGACGGTC
* * *
66215 ACAAAATAAATTTTTAATGTCCAACAAAATTATCACAATTTCTATTGATAATAGTGTCGACCATT
1 ACAAAATAAATTTTTAGTGTCAAACAAAATTATCACAATTTCTATTG-TAATAGTGTCGAACATT
* *
66280 TGATCACTAAAAAATACTTAGAGTAACAACAGT-GACGGTC
65 TGATCACTAAAAAATACTTAGTGTGACAACAGTAGACGGTC
* * * * *
66320 ACAAAATAGATTTTTAGTGTCAAAC-AATTTCATCACAATTTTTATTGAAATTAGTGTGGAACAT
1 ACAAAATAAATTTTTAGTGTCAAACAAAATT-ATCACAATTTCTATTGTAA-TAGTGTCGAACAT
* * * * *
66384 TTGGTCACT-AAAAATACTTAGTGTGATAACATTA-AGGGTT
64 TTGATCACTAAAAAATACTTAGTGTGACAACAGTAGACGGTC
* * * * *
66424 ATAAAATATATTTTCAGTATCGAA-AAAATTATCACAATTTCTATTG
1 ACAAAATAAATTTTTAGTGTCAAACAAAATTATCACAATTTCTATTG
66470 ATAACAATGG
Statistics
Matches: 215, Mismatches: 35, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
103 15 0.07
104 53 0.25
105 79 0.37
106 68 0.32
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (105 bp):
ACAAAATAAATTTTTAGTGTCAAACAAAATTATCACAATTTCTATTGTAATAGTGTCGAACATTT
GATCACTAAAAAATACTTAGTGTGACAACAGTAGACGGTC
Found at i:68448 original size:22 final size:22
Alignment explanation
Indices: 68423--68491 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
68413 TATTTTCTTA
68423 ACTATAGATAAAATATACTAAT
1 ACTATAGATAAAATATACTAAT
* *
68445 ACTAT--ATACAACT-TAAT-AT
1 ACTATAGATA-AAATATACTAAT
68464 ACTATAGATAAAATATACTAAT
1 ACTATAGATAAAATATACTAAT
68486 ACTATA
1 ACTATA
68492 TACAACTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
19 7 0.18
20 9 0.24
21 9 0.24
22 13 0.34
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (22 bp):
ACTATAGATAAAATATACTAAT
Found at i:68467 original size:19 final size:19
Alignment explanation
Indices: 68443--68505 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
68433 AAATATACTA
68443 ATACTATATACAACTTAAT
1 ATACTATATACAACTTAAT
* *
68462 ATACTATAGATA-AAATATACT
1 ATACTAT--ATACAACT-TAAT
68483 AATACTATATACAACTTAAT
1 -ATACTATATACAACTTAAT
68503 ATA
1 ATA
68506 AACAAATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
19 10 0.29
20 9 0.26
21 9 0.26
22 7 0.20
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.35
Consensus pattern (19 bp):
ATACTATATACAACTTAAT
Found at i:68472 original size:41 final size:41
Alignment explanation
Indices: 68423--68505 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
68413 TATTTTCTTA
68423 ACTATAGATAAAATATACTAATACTATATACAACTTAATAT
1 ACTATAGATAAAATATACTAATACTATATACAACTTAATAT
68464 ACTATAGATAAAATATACTAATACTATATACAACTTAATAT
1 ACTATAGATAAAATATACTAATACTATATACAACTTAATAT
68505 A
1 A
68506 AACAAATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.34
Consensus pattern (41 bp):
ACTATAGATAAAATATACTAATACTATATACAACTTAATAT
Found at i:69100 original size:28 final size:29
Alignment explanation
Indices: 69046--69102 Score: 107
Period size: 28 Copynumber: 2.0 Consensus size: 29
69036 TTTATACTTC
69046 TTCCTTCTATATGACTATATGAAATCAAT
1 TTCCTTCTATATGACTATATGAAATCAAT
69075 TTCCTTCTATATG-CTATATGAAATCAAT
1 TTCCTTCTATATGACTATATGAAATCAAT
69103 ATATAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 15 0.54
29 13 0.46
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (29 bp):
TTCCTTCTATATGACTATATGAAATCAAT
Found at i:71716 original size:4 final size:4
Alignment explanation
Indices: 71699--71764 Score: 51
Period size: 4 Copynumber: 15.2 Consensus size: 4
71689 AACAAAATTC
* * * *
71699 TAAA TAAC TAAA TAAA TAAA TAAA TTCAAA AAAA TGAA TAAAA TAATT
1 TAAA TAAA TAAA TAAA TAAA TAAA -T-AAA TAAA TAAA T-AAA TAA-A
71747 TGAAA TAAA TAAA TAAA T
1 T-AAA TAAA TAAA TAAA T
71765 CGAACAAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
4 38 0.78
5 6 0.12
6 5 0.10
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:71716 original size:12 final size:12
Alignment explanation
Indices: 71699--71764 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 12
71689 AACAAAATTC
*
71699 TAAATAACTAAA
1 TAAATAAATAAA
71711 TAAATAAATAAA
1 TAAATAAATAAA
* *
71723 TTCAAAAAAATGAA
1 -T-AAATAAATAAA
*
71737 TAAAATAATTTGAAA
1 T-AAATAA-AT-AAA
71752 TAAATAAATAAA
1 TAAATAAATAAA
71764 T
1 T
71765 CGAACAAAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
12 15 0.36
13 8 0.19
14 16 0.38
15 3 0.07
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (12 bp):
TAAATAAATAAA
Found at i:71756 original size:23 final size:23
Alignment explanation
Indices: 71707--71763 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
71697 TCTAAATAAC
71707 TAAATAAAT-AAATAAATTCAAA
1 TAAATAAATAAAATAAATTCAAA
* * * *
71729 AAAATGAATAAAATAATTTGAAA
1 TAAATAAATAAAATAAATTCAAA
71752 TAAATAAATAAA
1 TAAATAAATAAA
71764 TCGAACAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAATAAATAAAATAAATTCAAA
Found at i:71816 original size:22 final size:20
Alignment explanation
Indices: 71770--71818 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
71760 TAAATCGAAC
71770 AAAATTATTAAAGAAATAAA
1 AAAATTATTAAAGAAATAAA
*
71790 TAAATTATTCAAA-ATAATTAAA
1 AAAATTATT-AAAGA-AA-TAAA
71812 AAAATTA
1 AAAATTA
71819 AAACAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 9 0.38
21 5 0.21
22 10 0.42
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAATTATTAAAGAAATAAA
Found at i:74926 original size:32 final size:32
Alignment explanation
Indices: 74885--74949 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
74875 GTTAGGCTAT
74885 ACAGAGAATATTATACTGAACTTTTTTTTCCA
1 ACAGAGAATATTATACTGAACTTTTTTTTCCA
74917 ACAGAGAATATTATACTGAACTTTTTTTTCCA
1 ACAGAGAATATTATACTGAACTTTTTTTTCCA
74949 A
1 A
74950 ACAAAGTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.40
Consensus pattern (32 bp):
ACAGAGAATATTATACTGAACTTTTTTTTCCA
Found at i:76244 original size:24 final size:24
Alignment explanation
Indices: 76217--76269 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
76207 ATTTCGACGT
76217 TTGGTTCATAAAAAATATTATTCA
1 TTGGTTCATAAAAAATATTATTCA
76241 TTGGTTCATAAAAAATATTATTCA
1 TTGGTTCATAAAAAATATTATTCA
76265 TTGGT
1 TTGGT
76270 AATATTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (24 bp):
TTGGTTCATAAAAAATATTATTCA
Found at i:82285 original size:20 final size:21
Alignment explanation
Indices: 82260--82340 Score: 69
Period size: 20 Copynumber: 3.9 Consensus size: 21
82250 TTTTGGTGTA
82260 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAATCGATTCCCCCCTT
*
82280 GAGGGAA-CTGATTCCCCCTTT
1 GAGGGAATC-GATTCCCCCCTT
* **
82301 GAAGGGGAACCGATTCCCCCCAC
1 G-A-GGGAATCGATTCCCCCCTT
*
82324 G-GGGAATCGATACCCCC
1 GAGGGAATCGATTCCCCC
82341 TGGGGTTCTG
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.02
20 23 0.46
21 9 0.18
22 1 0.02
23 15 0.30
24 1 0.02
ACGTcount: A:0.22, C:0.35, G:0.26, T:0.17
Consensus pattern (21 bp):
GAGGGAATCGATTCCCCCCTT
Found at i:82297 original size:21 final size:23
Alignment explanation
Indices: 82262--82321 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
82252 TTGGTGTAGA
*
82262 GGGAATCGA-TCCCCCCTTG-A-
1 GGGAACCGATTCCCCCCTTGAAG
* *
82282 GGGAACTGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCCTTGAAG
82305 GGGAACCGATTCCCCCC
1 GGGAACCGATTCCCCCC
82322 ACGGGGAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 7 0.22
21 9 0.28
22 1 0.03
23 15 0.47
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (23 bp):
GGGAACCGATTCCCCCCTTGAAG
Found at i:87040 original size:18 final size:20
Alignment explanation
Indices: 86980--87047 Score: 95
Period size: 21 Copynumber: 3.5 Consensus size: 20
86970 ATACACAAAT
86980 GATCAATCCTTTGTGAAAGG
1 GATCAATCCTTTGTGAAAGG
87000 GATCAATCCTTTTGTGAAAGG
1 GATCAATCC-TTTGTGAAAGG
*
87021 GATCGATCCTTT-TG-AAGG
1 GATCAATCCTTTGTGAAAGG
*
87039 GATCGATCC
1 GATCAATCC
87048 CAAACATGGT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
18 13 0.28
19 2 0.04
20 12 0.26
21 19 0.41
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (20 bp):
GATCAATCCTTTGTGAAAGG
Found at i:89539 original size:31 final size:31
Alignment explanation
Indices: 89503--89577 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
89493 AATGTCCAAG
*
89503 TGATCAAAACTTAATAAAACAATAACGTCAC
1 TGATCAAAACTTAATAAAACAATAACATCAC
* * *
89534 TGATCAAAACTAAATAAAACAATAATATCAG
1 TGATCAAAACTTAATAAAACAATAACATCAC
*
89565 TGATCAAAGCTTA
1 TGATCAAAACTTA
89578 TGTTTTTTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (31 bp):
TGATCAAAACTTAATAAAACAATAACATCAC
Found at i:89747 original size:42 final size:42
Alignment explanation
Indices: 89688--89807 Score: 231
Period size: 42 Copynumber: 2.9 Consensus size: 42
89678 TTTCCCCGAA
*
89688 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
89730 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
89772 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
89808 TGTAATTCAT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:90031 original size:31 final size:29
Alignment explanation
Indices: 89986--90092 Score: 85
Period size: 31 Copynumber: 3.6 Consensus size: 29
89976 ATCAAAATAT
89986 TAATTATTAAAATATTTAAATATATTATTAA
1 TAATTA-TAAAATA-TTAAATATATTATTAA
*
90017 TAATTATAATAATA-TAATATTATATTTTTAA
1 TAATTATAA-AATATTAA-A-TATATTATTAA
* * *
90048 TATTATATAAAATAATCAATTATATTA-TAA
1 TAAT-TATAAAAT-ATTAAATATATTATTAA
*
90078 TAA-TATAAGATATTA
1 TAATTATAAAATATTA
90093 TATTTTTATT
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
27 3 0.05
28 7 0.11
29 3 0.05
30 9 0.15
31 32 0.52
32 6 0.10
33 2 0.03
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (29 bp):
TAATTATAAAATATTAAATATATTATTAA
Found at i:90124 original size:26 final size:29
Alignment explanation
Indices: 90006--90170 Score: 110
Period size: 29 Copynumber: 5.6 Consensus size: 29
89996 AATATTTAAA
* *
90006 TATATTATTAATAAT-TATAATAATATAATAT
1 TATATT-TTAATAATATATAAT-AT-TTATTT
* * * *
90037 TATATTTTTAATATTATATAA-AATAATCAAT
1 TATA-TTTTAATAATATATAATATTTAT--TT
*
90068 TATATTATAATAATATA-AGATATTATATTT
1 TATATTTTAATAATATATA-ATATT-TATTT
90098 T-TATTTTAATAATATATAATATTT-TTT
1 TATATTTTAATAATATATAATATTTATTT
90125 TATATATTTAATAATGA-ATAATA-TTATTT
1 TATAT-TTTAATAAT-ATATAATATTTATTT
*
90154 ATATATTTCAATAATAT
1 -TATATTTTAATAATAT
90171 TTTATTAAAT
Statistics
Matches: 111, Mismatches: 9, Indels: 30
0.74 0.06 0.20
Matches are distributed among these distances:
27 4 0.04
28 7 0.06
29 50 0.45
30 22 0.20
31 19 0.17
32 9 0.08
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (29 bp):
TATATTTTAATAATATATAATATTTATTT
Found at i:90191 original size:22 final size:24
Alignment explanation
Indices: 90145--90217 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
90135 ATAATGAATA
*
90145 ATATT-ATTTATATAT-TTCAATAAT
1 ATATTAATTAATATATATT-AA-AAT
*
90169 AT-TTTATTAA-ATATATTAAAAT
1 ATATTAATTAATATATATTAAAAT
* *
90191 ATATTAATTAATATTTTTTAAAAT
1 ATATTAATTAATATATATTAAAAT
90215 ATA
1 ATA
90218 ATATAGTACT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
22 5 0.12
23 15 0.37
24 21 0.51
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (24 bp):
ATATTAATTAATATATATTAAAAT
Found at i:90374 original size:20 final size:20
Alignment explanation
Indices: 90337--90375 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
90327 TTTTCAGATG
**
90337 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATCAAATTCA
*
90357 TTTTCCAGAATTCAAATTC
1 TTTTCCAGAAATCAAATTC
90376 CAGTAATTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATCAAATTCA
Found at i:90382 original size:29 final size:30
Alignment explanation
Indices: 90349--90420 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
90339 TTCCAGAAAT
90349 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
90378 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
90408 GTAATTCATTTTC
1 GTAATTCATTTTC
90421 TGGAAAACCA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 16 0.38
30 26 0.62
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:90385 original size:15 final size:15
Alignment explanation
Indices: 90349--90415 Score: 91
Period size: 15 Copynumber: 4.5 Consensus size: 15
90339 TTCCAGAAAT
**
90349 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
90364 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
90378 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
90393 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
90408 GTAATTCA
1 GTAATTCA
90416 TTTTCTGGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 12 0.27
15 33 0.73
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.39
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:97869 original size:17 final size:18
Alignment explanation
Indices: 97842--97877 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
97832 ACATTATGCT
*
97842 TTGGTTGCATTTTAGGCA
1 TTGGTTGCATTGTAGGCA
97860 TTGG-TGCATTGTAGGCA
1 TTGGTTGCATTGTAGGCA
97877 T
1 T
97878 AATAAATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.17, C:0.11, G:0.31, T:0.42
Consensus pattern (18 bp):
TTGGTTGCATTGTAGGCA
Found at i:97999 original size:10 final size:10
Alignment explanation
Indices: 97986--98010 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
97976 AAAATGTATA
97986 ATATTTCCAT
1 ATATTTCCAT
97996 ATATTTCCAT
1 ATATTTCCAT
98006 ATATT
1 ATATT
98011 AGTTGCTCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (10 bp):
ATATTTCCAT
Found at i:103277 original size:3 final size:3
Alignment explanation
Indices: 103271--103342 Score: 92
Period size: 3 Copynumber: 23.3 Consensus size: 3
103261 TTTTTTCGTC
**
103271 ATT ATT A-T ATT AAA ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
103318 ATT ATT ATAT ATAT ATTT ATT ATT A
1 ATT ATT AT-T AT-T A-TT ATT ATT A
103343 CAAATAATAC
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
2 2 0.03
3 51 0.82
4 8 0.13
5 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:104045 original size:23 final size:23
Alignment explanation
Indices: 104019--104062 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
104009 CGCCGGCGTA
104019 AATAGTGACCGACCGGTGATCAG
1 AATAGTGACCGACCGGTGATCAG
* *
104042 AATAGTGATCGATCGGTGATC
1 AATAGTGACCGACCGGTGATC
104063 GGAGCTCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (23 bp):
AATAGTGACCGACCGGTGATCAG
Found at i:104830 original size:62 final size:62
Alignment explanation
Indices: 104730--104887 Score: 264
Period size: 62 Copynumber: 2.6 Consensus size: 62
104720 AGTAATGACA
* * *
104730 AATTAAAATAATAGTAAAAGTCCATAGTGCTATTATTATTAATAAAAAGGTAGAAGCATTAT
1 AATTAAAATAATAATAAAAATCCATAGTGCTATCATTATTAATAAAAAGGTAGAAGCATTAT
*
104792 AATTAAAATAATAATAAAAATCAATAGTGCTATCATTATTAATAAAAAGGTAGAAGCATTAT
1 AATTAAAATAATAATAAAAATCCATAGTGCTATCATTATTAATAAAAAGGTAGAAGCATTAT
*
104854 AATTAAAATAATAAT-AAAACCCATAGTGCTATCA
1 AATTAAAATAATAATAAAAATCCATAGTGCTATCA
104888 CATATGTATA
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
61 17 0.19
62 73 0.81
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.30
Consensus pattern (62 bp):
AATTAAAATAATAATAAAAATCCATAGTGCTATCATTATTAATAAAAAGGTAGAAGCATTAT
Found at i:104866 original size:31 final size:31
Alignment explanation
Indices: 104769--104867 Score: 87
Period size: 31 Copynumber: 3.2 Consensus size: 31
104759 CTATTATTAT
104769 TAATAAAAAGGTAGAAGCATTATAATTAAAA
1 TAATAAAAAGGTAGAAGCATTATAATTAAAA
** *** * *
104800 TAATAATAAAAATCA-ATAGTGCTATCATT--AT
1 TAATAA-AAAGGT-AGA-AGCATTATAATTAAAA
104831 TAATAAAAAGGTAGAAGCATTATAATTAAAA
1 TAATAAAAAGGTAGAAGCATTATAATTAAAA
104862 TAATAA
1 TAATAA
104868 TAAAACCCAT
Statistics
Matches: 48, Mismatches: 14, Indels: 12
0.65 0.19 0.16
Matches are distributed among these distances:
29 9 0.19
30 5 0.10
31 20 0.42
32 5 0.10
33 9 0.19
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.29
Consensus pattern (31 bp):
TAATAAAAAGGTAGAAGCATTATAATTAAAA
Found at i:105059 original size:9 final size:9
Alignment explanation
Indices: 105045--105077 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
105035 TAGCTTCCGC
105045 TAATTAATT
1 TAATTAATT
105054 TAATTAATT
1 TAATTAATT
*
105063 TTA-TAATT
1 TAATTAATT
105071 TAATTAA
1 TAATTAA
105078 GAGAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TAATTAATT
Found at i:105290 original size:22 final size:22
Alignment explanation
Indices: 105239--105297 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
105229 ACGCGATTCT
105239 GACTATCGCATTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
* * * *
105261 AAAT-TCGCGTTGCGATTTTTC
1 GACTATCGCATTGCGATTTTCC
*
105282 GACTATCGCAATGCGA
1 GACTATCGCATTGCGA
105298 ATATGTAAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (22 bp):
GACTATCGCATTGCGATTTTCC
Found at i:105338 original size:40 final size:40
Alignment explanation
Indices: 105282--105368 Score: 147
Period size: 40 Copynumber: 2.2 Consensus size: 40
105272 GCGATTTTTC
* *
105282 GACTATCGCAATGCGAATATGTAAATCGCAATGCGATTAT
1 GACTATCACAACGCGAATATGTAAATCGCAATGCGATTAT
*
105322 GACTATCACAACGCGAATATGTAAATTGCAATGCGATTAT
1 GACTATCACAACGCGAATATGTAAATCGCAATGCGATTAT
105362 GACTATC
1 GACTATC
105369 GCAATGTGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (40 bp):
GACTATCACAACGCGAATATGTAAATCGCAATGCGATTAT
Found at i:105372 original size:20 final size:20
Alignment explanation
Indices: 105282--105432 Score: 117
Period size: 20 Copynumber: 7.5 Consensus size: 20
105272 GCGATTTTTC
*
105282 GACTATCGCAATGCGAATAT
1 GACTATCGCAATGCGATTAT
*
105302 GTA-AATCGCAATGCGATTAT
1 G-ACTATCGCAATGCGATTAT
* * *
105322 GACTATCACAACGCGAATAT
1 GACTATCGCAATGCGATTAT
* *
105342 GTA-AATTGCAATGCGATTAT
1 G-ACTATCGCAATGCGATTAT
* *
105362 GACTATCGCAATGTGATTCT
1 GACTATCGCAATGCGATTAT
* * *
105382 GACTATCGCAACGTGATTCT
1 GACTATCGCAATGCGATTAT
* * * *
105402 GATTGTCGCAACGCGATTCT
1 GACTATCGCAATGCGATTAT
*
105422 GACTGTCGCAA
1 GACTATCGCAA
105433 CACTGAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
19 2 0.02
20 103 0.96
21 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (20 bp):
GACTATCGCAATGCGATTAT
Found at i:106029 original size:9 final size:9
Alignment explanation
Indices: 106015--106047 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
106005 TATCTTCTGC
106015 TAATTAATT
1 TAATTAATT
106024 TAATTAATT
1 TAATTAATT
*
106033 TTA-TAATT
1 TAATTAATT
106041 TAATTAA
1 TAATTAA
106048 AGAATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TAATTAATT
Found at i:108646 original size:11 final size:11
Alignment explanation
Indices: 108630--108659 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
108620 AACACCTGGT
108630 ATTGCATTCAC
1 ATTGCATTCAC
*
108641 ATTGCATCCAC
1 ATTGCATTCAC
108652 ATTGCATT
1 ATTGCATT
108660 TACTTTTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.37
Consensus pattern (11 bp):
ATTGCATTCAC
Found at i:113055 original size:66 final size:67
Alignment explanation
Indices: 112823--113056 Score: 316
Period size: 67 Copynumber: 3.5 Consensus size: 67
112813 CTCTCTTTTT
* * *
112823 CAAGACTTGATATTCCC-T--GAGTGACAGTGGAACAAGTTTGTCCCGATTCAATGGATCAAACT
1 CAAGATTTGATATTCCCTTCAGAGT-A-AGTGGAACAAGTCTGCCCCGATTCAATGGATCAAACT
112885 CCTC
64 CCTC
*
112889 CAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCTGATTCAATGGATCAAACTCC
1 CAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGATCAAACTCC
112954 TC
66 TC
** *
112956 CAAGATTTGATATTCCCTTCAGAAAAAGTGGAACAAGTCTGCCCCGATTC-A-GGAATCAAAATC
1 CAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGG-ATCAAACTC
*
113019 CTT
65 CTC
* *
113022 CAAGATATGATATTCCCTTCAGAGTAAGCGGAACA
1 CAAGATTTGATATTCCCTTCAGAGTAAGTGGAACA
113057 TGTCACTCTT
Statistics
Matches: 151, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
65 2 0.01
66 58 0.38
67 86 0.57
68 1 0.01
69 4 0.03
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (67 bp):
CAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGATCAAACTCC
TC
Found at i:113205 original size:112 final size:113
Alignment explanation
Indices: 112954--113459 Score: 693
Period size: 112 Copynumber: 4.5 Consensus size: 113
112944 ATCAAACTCC
** * *
112954 TCCAAGATTTGATATTCCCTTCAGAAAAAGTGGAACAAGTCTGCCCCGATTC-AGGAATCAAAAT
1 TCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGAATCAAACT
* *
113018 CCTTCAAGATATGATATTCCCTTCAGAGTAAGCGGAACATGTCACTC-TT
66 CC-TC-AGATATGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTT
* * *
113067 TCCAAGATTTGATATTCCCTTTAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATTAATC-AATT
1 TCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGAATCAAACT
* * *
113131 ACC-CAGATCTGATATTCCCTTCAGAGTAAGTGGATCAGGTCTCTCTTT
66 -CCTCAGATATGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTT
* * *
113179 TCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTACCCCTATTCAAGGAATCAAACT
1 TCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGAATCAAACT
* *
113244 CCTTCACATATGATATTCCCTTCAGAGTAAGCGAAACAGG--TCTCTTT
66 CC-TCAGATATGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTT
* * *
113291 CCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAATCTGCCCC-ATTCAATGGATCAAACT
1 TCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGAATCAAACT
*
113355 CCTTCAGATATGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTTCTTT
66 CC-TCAGATATGATATTCCCTTCAGAGTAAGCGGAACAGGTCTC-TCTTT
* * *
113405 TTCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCTCAATTCAAT
1 TCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAAT
113460 ATTCCTTGAA
Statistics
Matches: 349, Mismatches: 34, Indels: 18
0.87 0.08 0.04
Matches are distributed among these distances:
111 88 0.25
112 111 0.32
113 57 0.16
114 86 0.25
115 7 0.02
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (113 bp):
TCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGAATCAAACT
CCTCAGATATGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTT
Found at i:113371 original size:225 final size:225
Alignment explanation
Indices: 112954--113446 Score: 735
Period size: 225 Copynumber: 2.2 Consensus size: 225
112944 ATCAAACTCC
** *
112954 TCCAAGATTTGATATTCCCTTCAGAAAAAGTGGAACAAGTCTGCCCCGATTCAGGAATCAAAATC
1 TCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTACCCCGATTCAGGAATCAAAATC
* * *
113019 CTTCAAGATATGATATTCCCTTCAGAGTAAGCGGAACATGTCACTCTTTCCAAGATTTGATATTC
66 CTTCAACATATGATATTCCCTTCAGAGTAAGCGAAACAGGT-ACTCTTTCCAAGATTTGATATTC
* * * * *
113084 CCTTTAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATTAATCAATTACCCAGATCTGATATTCC
130 CCTTCAGAGTAAGTGGAACAAATCTGCCCCGATTCAATGAATCAACTACCCAGATATGATATTCC
* *
113149 CTTCAGAGTAAGTGGATCAGGTCTC-TCTTT
195 CTTCAGAGTAAGCGGAACAGGTCTCTTCTTT
* *
113179 TCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTACCCCTATTCAAGGAATCAAACT
1 TCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTACCCCGATTC-AGGAATCAAAAT
113244 CCTTC-ACATATGATATTCCCTTCAGAGTAAGCGAAACAGGT-CTCTTTCCCAAGATTTGATATT
65 CCTTCAACATATGATATTCCCTTCAGAGTAAGCGAAACAGGTACTCTTT-CCAAGATTTGATATT
*
113307 CCCTTCAGAGTAAGTGGAACAAATCTGCCCC-ATTCAATGGATCAAACT-CCTTCAGATATGATA
129 CCCTTCAGAGTAAGTGGAACAAATCTGCCCCGATTCAATGAATC-AACTACC--CAGATATGATA
*
113370 TTCCCTTCAGAGTAAGCGGAACATGTCTCTTCTTT
191 TTCCCTTCAGAGTAAGCGGAACAGGTCTCTTCTTT
*
113405 TTCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCT
1 TCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCT
113447 GCCTCAATTC
Statistics
Matches: 244, Mismatches: 18, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
223 18 0.07
224 47 0.19
225 117 0.48
226 62 0.25
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (225 bp):
TCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTACCCCGATTCAGGAATCAAAATC
CTTCAACATATGATATTCCCTTCAGAGTAAGCGAAACAGGTACTCTTTCCAAGATTTGATATTCC
CTTCAGAGTAAGTGGAACAAATCTGCCCCGATTCAATGAATCAACTACCCAGATATGATATTCCC
TTCAGAGTAAGCGGAACAGGTCTCTTCTTT
Found at i:113458 original size:49 final size:49
Alignment explanation
Indices: 113360--113458 Score: 128
Period size: 49 Copynumber: 2.0 Consensus size: 49
113350 AAACTCCTTC
* * **
113360 AGATATGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTTCTTTTTCA
1 AGATATGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCCTCTAATTCA
* *
113409 AGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCTC-AATTCA
1 AGATATGATATTCCCTTCAGAGTAAGCGGAACAAGTCT-CCTCTAATTCA
113458 A
1 A
113459 TATTCCTTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 40 0.93
50 3 0.07
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (49 bp):
AGATATGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCCTCTAATTCA
Found at i:115209 original size:62 final size:61
Alignment explanation
Indices: 115108--115266 Score: 264
Period size: 62 Copynumber: 2.6 Consensus size: 61
115098 AAATAATGAC
*
115108 TAATTAAAATAATAATAAAAACCAATAGTGCTATTATTATTAATAAAAAGGTAGAAGCATTA
1 TAATTAAAATAATAAT-AAAACCAATAGTGCTATCATTATTAATAAAAAGGTAGAAGCATTA
* *
115170 TAATTAAAATAATGATACAAATCAATAGTGCTATCATTATTAATAAAAAGGTAGAAGCATTA
1 TAATTAAAATAATAATA-AAACCAATAGTGCTATCATTATTAATAAAAAGGTAGAAGCATTA
*
115232 TAATTAAAATAATAATAAAACCCATAGTGCTATCA
1 TAATTAAAATAATAATAAAACCAATAGTGCTATCA
115267 CATATGTATA
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
61 17 0.19
62 73 0.81
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (61 bp):
TAATTAAAATAATAATAAAACCAATAGTGCTATCATTATTAATAAAAAGGTAGAAGCATTA
Found at i:115434 original size:9 final size:9
Alignment explanation
Indices: 115420--115452 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
115410 TATCTTCTGC
115420 TAATTAATT
1 TAATTAATT
115429 TAATTAATT
1 TAATTAATT
*
115438 TTA-TAATT
1 TAATTAATT
115446 TAATTAA
1 TAATTAA
115453 AAATAATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TAATTAATT
Found at i:127876 original size:32 final size:32
Alignment explanation
Indices: 127827--127887 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
127817 ATGTGCTATG
* * *
127827 TGATATATGTTATATGATATGAGATTAAGTGA
1 TGATATATGATATATGATATAAGAATAAGTGA
127859 TGATATAT-ATATGATGATATAAGAATAAG
1 TGATATATGATAT-ATGATATAAGAATAAG
127888 ACATGAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 3 0.12
32 22 0.88
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.38
Consensus pattern (32 bp):
TGATATATGATATATGATATAAGAATAAGTGA
Found at i:128169 original size:23 final size:23
Alignment explanation
Indices: 128136--128200 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
128126 GAGTCGAGGG
*
128136 TCTACGCGGTCCTTCGGGATAAT
1 TCTACGTGGTCCTTCGGGATAAT
128159 TCTACGTGGTCCTTCGGGATAAT
1 TCTACGTGGTCCTTCGGGATAAT
*
128182 TATACGTGGTCCTTCGGGA
1 TCTACGTGGTCCTTCGGGA
128201 CATTTATGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.17, C:0.23, G:0.28, T:0.32
Consensus pattern (23 bp):
TCTACGTGGTCCTTCGGGATAAT
Found at i:129058 original size:21 final size:21
Alignment explanation
Indices: 129032--129072 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
129022 GAAATTTATG
129032 TGCATCGATGCACTGTAGCAA
1 TGCATCGATGCACTGTAGCAA
129053 TGCATCGATGCACTGTAGCA
1 TGCATCGATGCACTGTAGCA
129073 CTATTCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (21 bp):
TGCATCGATGCACTGTAGCAA
Found at i:129100 original size:22 final size:22
Alignment explanation
Indices: 129072--129124 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
129062 GCACTGTAGC
* *
129072 ACTATTCATTATTGTTTACGGT
1 ACTATTCATTACTGTTCACGGT
129094 ACTATTCATTACTGTTCACGGT
1 ACTATTCATTACTGTTCACGGT
*
129116 ACCATTCAT
1 ACTATTCAT
129125 ACCATATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (22 bp):
ACTATTCATTACTGTTCACGGT
Found at i:130833 original size:2 final size:2
Alignment explanation
Indices: 130826--130851 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
130816 ACTAGAAATA
130826 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
130852 GGATAGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:134438 original size:32 final size:32
Alignment explanation
Indices: 134389--134449 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
134379 ATGTGCTATG
* * *
134389 TGATATATGTTATATGATATGAGATTAAGTGA
1 TGATATATGATATATGATATAAGAATAAGTGA
134421 TGATATAT-ATATGATGATATAAGAATAAG
1 TGATATATGATAT-ATGATATAAGAATAAG
134450 ACATGAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 3 0.12
32 22 0.88
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.38
Consensus pattern (32 bp):
TGATATATGATATATGATATAAGAATAAGTGA
Found at i:134905 original size:23 final size:23
Alignment explanation
Indices: 134879--134926 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
134869 GTGGTCCTCT
134879 GGGACATTTCTACGCGGTCATTC
1 GGGACATTTCTACGCGGTCATTC
*
134902 GGGACATTTCTACGCGGTCCTTC
1 GGGACATTTCTACGCGGTCATTC
134925 GG
1 GG
134927 ACAATATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (23 bp):
GGGACATTTCTACGCGGTCATTC
Found at i:135580 original size:21 final size:21
Alignment explanation
Indices: 135550--135590 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
135540 GAAACTCCTG
*
135550 TAGCAGTGCATCGATGCACTA
1 TAGCAATGCATCGATGCACTA
135571 TAGCAATGCATCGATGCACT
1 TAGCAATGCATCGATGCACT
135591 GTTCATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (21 bp):
TAGCAATGCATCGATGCACTA
Found at i:138713 original size:18 final size:20
Alignment explanation
Indices: 138687--138737 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 20
138677 GGCCAAATTG
*
138687 GTATTGATACTCA-TGG-GA
1 GTATCGATACTCATTGGAGA
138705 GTATCGATACT-ATTGGAAGA
1 GTATCGATACTCATTGG-AGA
*
138725 TTATCGATACTCA
1 GTATCGATACTCA
138738 ACATTAGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.04
18 13 0.48
20 12 0.44
21 1 0.04
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (20 bp):
GTATCGATACTCATTGGAGA
Found at i:138925 original size:10 final size:10
Alignment explanation
Indices: 138910--138939 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
138900 AGTTTATTGA
138910 AGGGTTTATG
1 AGGGTTTATG
*
138920 AGGGTTTATA
1 AGGGTTTATG
138930 AGGGTTTATG
1 AGGGTTTATG
138940 CTCAGGTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (10 bp):
AGGGTTTATG
Done.