Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01013115.1 Corchorus olitorius cultivar O-4 contig13148, 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: 75545
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Found at i:2483 original size:22 final size:21
Alignment explanation
Indices: 2454--2511 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
2444 AACTAAATTG
*
2454 TTATTAATTAGTGTTAATTAG
1 TTATTAATTAGTGTTAATTAA
**
2475 TGTATTAATTAGCCTTAATTAA
1 T-TATTAATTAGTGTTAATTAA
2497 TTAATTAATTAGTGT
1 TT-ATTAATTAGTGT
2512 ATTTTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.50
Consensus pattern (21 bp):
TTATTAATTAGTGTTAATTAA
Found at i:2484 original size:12 final size:12
Alignment explanation
Indices: 2455--2486 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
2445 ACTAAATTGT
2455 TATTAATTAGTG
1 TATTAATTAGTG
2467 --TTAATTAGTG
1 TATTAATTAGTG
2477 TATTAATTAG
1 TATTAATTAG
2487 CCTTAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.56
12 8 0.44
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (12 bp):
TATTAATTAGTG
Found at i:10122 original size:40 final size:40
Alignment explanation
Indices: 10061--10514 Score: 381
Period size: 40 Copynumber: 10.7 Consensus size: 40
10051 CTTTACCTAA
* * *
10061 TTTGCCC-TCCCCACCGGAAGGTGTTGTTTAAATTCCTAG
1 TTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAATTCCCAG
* *
10100 TTTGCCCTTCCTCATCGGAAGGTGTTATCTAAGTCTACCTTACCCAG
1 TTTGCCCTTCCTCATCGGAAGGTGTTGTTTAA----A--TT-CCCAG
* * *
10147 TTTGCCCTTCCTCACCGGAAGGTGTTGTCTAATTTCCCAG
1 TTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAATTCCCAG
*
10187 TTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAGTCTACTTTACCAG
1 TTTGCCCTTCCTCATCGGAAGGTGTTGTTTAA----A--TTCCCAG
* * *
10233 TTTGCCCTTCCCCATCGGAAGGTGTTGTCTAAGTCTACTTCACCCAA
1 TTTGCCCTTCCTCATCGGAAGGTGTTGTTTAA----A-TT--CCCAG
* * *
10280 TTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATCCCCAG
1 TTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAATTCCCAG
* *
10320 TTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAGTTTAGTTTACCAA
1 TTTGCCCTTCCTCATCGGAAGGTGTTGTTTAA----A--TTCCCAG
* *
10366 TTTGCCCTTCCCCATCGGAAGGTGTTGTTTAAATTCCCAA
1 TTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAATTCCCAG
* * *
10406 CTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATTCCCAG
1 TTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAATTCCCAG
* * * * * *
10446 CTTGCCCTTCCT-AACTGGAATGCGTTGTTTGAATTCCTAG
1 TTTGCCCTTCCTCATC-GGAAGGTGTTGTTTAAATTCCCAG
* *
10486 TCTGCCCTTCCTCATTGGAAGGTGTTGTT
1 TTTGCCCTTCCTCATCGGAAGGTGTTGTT
10515 CCTATTCCCT
Statistics
Matches: 348, Mismatches: 43, Indels: 47
0.79 0.10 0.11
Matches are distributed among these distances:
39 9 0.03
40 184 0.53
41 3 0.01
42 2 0.01
43 1 0.00
44 2 0.01
45 2 0.01
46 78 0.22
47 67 0.19
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.35
Consensus pattern (40 bp):
TTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAATTCCCAG
Found at i:10133 original size:86 final size:87
Alignment explanation
Indices: 9912--10457 Score: 559
Period size: 86 Copynumber: 6.3 Consensus size: 87
9902 CAGTCTTGCC
9912 TTGTCT-AATTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACTTTACCCAGTT
1 TTGTCTAAATTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACTTTACCCAGTT
* * *
9976 TGCCCTTCCTCACCGAAAGATG
66 TGCCCTTCCCCACCGGAAGGTG
* * * * * *
9998 TTGTCTAAATTTCCAATTTTCCCTTCCTCATCGGAAGGTGTTGTTTAAGTCTACTTTACCTAATT
1 TTGTCTAAATTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACTTTACCCAGTT
10063 TGCCC-TCCCCACCGGAAGGTG
66 TGCCCTTCCCCACCGGAAGGTG
* * * *
10084 TTGTTTAAATTCCTAGTTTGCCCTTCCTCATCGGAAGGTGTTATCTAAGTCTACCTTACCCAGTT
1 TTGTCTAAATTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACTTTACCCAGTT
*
10149 TGCCCTTCCTCACCGGAAGGTG
66 TGCCCTTCCCCACCGGAAGGTG
* *
10171 TTGTCTAATTTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAGTCTACTTTA-CCAGTT
1 TTGTCTAAATTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACTTTACCCAGTT
*
10235 TGCCCTTCCCCATCGGAAGGTG
66 TGCCCTTCCCCACCGGAAGGTG
* * * * *
10257 TTGTCTAAGTCTACTTCACCCAATTTGCCCTTCCCCACCGGAAGGTGTTGTTTAA----A---TC
1 TTGTCTAA----A-TT--CCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACTTTA
* *
10315 CCCAGTTTGCCCTTCCTCATCGGAAGGTG
59 CCCAGTTTGCCCTTCCCCACCGGAAGGTG
* * * * *
10344 TTGTTTAAGTTTAGTTTACCAATTTGCCCTTCCCCATCGGAAGGTGTTGTTTAA----A--TT-C
1 TTGTCTAA----A--TTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACTTTAC
**
10402 CCAACTTGCCCTTCCCCACCGGAAGGTG
60 CCAGTTTGCCCTTCCCCACCGGAAGGTG
* *
10430 TTGTTTAAATTCCCAGCTTGCCCTTCCT
1 TTGTCTAAATTCCCAGTTTGCCCTTCCT
10458 AACTGGAATG
Statistics
Matches: 401, Mismatches: 47, Indels: 30
0.84 0.10 0.06
Matches are distributed among these distances:
80 15 0.04
82 1 0.00
86 183 0.46
87 163 0.41
88 2 0.00
89 1 0.00
91 2 0.00
93 34 0.08
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (87 bp):
TTGTCTAAATTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACTTTACCCAGTT
TGCCCTTCCCCACCGGAAGGTG
Found at i:10158 original size:133 final size:135
Alignment explanation
Indices: 9914--10437 Score: 401
Period size: 133 Copynumber: 4.0 Consensus size: 135
9904 GTCTTGCCTT
* * * *
9914 GTCTAA-TTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACTTTACCCAGTTTG
1 GTCTAATTTCCCAATTTGCCCTTCCCCACCGGAAGGTGTTGTTTAA---TAC-TTA-CCAGTTTG
* * * * * * * *
9978 CCCTTCCTCACCGAAAGATGTTGTCTAA----A-TT--TCCAATTTTCCCTTCCTCATCGGAAGG
61 CCCTTCCCCATCGGAAGGTGTTATCTAAGTCTACTTCACCCAATTTGCCCTTCCTCACCGGAAGG
10036 TGTTGTTTAA
126 TGTTGTTTAA
* *
10046 GTCTACTTTACCTAATTTGCCC-TCCCCACCGGAAGGTGTTGTTTAA-A-TT-CCTAGTTTGCCC
1 GTCTAATTT-CCCAATTTGCCCTTCCCCACCGGAAGGTGTTGTTTAATACTTACC-AGTTTGCCC
* *
10107 TTCCTCATCGGAAGGTGTTATCTAAGTCTACCTT-ACCCAGTTTGCCCTTCCTCACCGGAA-G-G
64 TTCCCCATCGGAAGGTGTTATCTAAGTCTA-CTTCACCCAATTTGCCCTTCCTCACCGGAAGGTG
10169 -TG-TT--
128 TTGTTTAA
* * *
10173 GTCTAATTTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAGTCTACTTTACCAGTTTGC
1 GTCTAATTTCCCAATTTGCCCTTCCCCACCGGAAGGTGTTGTTTAA---TAC-TTACCAGTTTGC
* *
10238 CCTTCCCCATCGGAAGGTGTTGTCTAAGTCTACTTCACCCAATTTGCCCTTCCCCACCGGAAGGT
62 CCTTCCCCATCGGAAGGTGTTATCTAAGTCTACTTCACCCAATTTGCCCTTCCTCACCGGAAGGT
10303 GTTGTTT-A
127 GTTGTTTAA
* * * * * *
10311 ----AA-TCCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAGTTTAGTTTACCAATTTGC
1 GTCTAATTTCCCAATTTGCCCTTCCCCACCGGAAGGTGTTGTTTAA---TA-CTTACCAGTTTGC
* * * *
10371 CCTTCCCCATCGGAAGGTGTTGTTTAA----A-TT--CCCAACTTGCCCTTCCCCACCGGAAGGT
62 CCTTCCCCATCGGAAGGTGTTATCTAAGTCTACTTCACCCAATTTGCCCTTCCTCACCGGAAGGT
10429 GTTGTTTAA
127 GTTGTTTAA
10438 ATTCCCAGCT
Statistics
Matches: 337, Mismatches: 29, Indels: 57
0.80 0.07 0.13
Matches are distributed among these distances:
125 2 0.01
126 74 0.22
127 33 0.10
128 2 0.01
129 4 0.01
130 3 0.01
131 2 0.01
132 11 0.03
133 186 0.55
134 15 0.04
135 1 0.00
136 2 0.01
137 2 0.01
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (135 bp):
GTCTAATTTCCCAATTTGCCCTTCCCCACCGGAAGGTGTTGTTTAATACTTACCAGTTTGCCCTT
CCCCATCGGAAGGTGTTATCTAAGTCTACTTCACCCAATTTGCCCTTCCTCACCGGAAGGTGTTG
TTTAA
Found at i:10214 original size:173 final size:172
Alignment explanation
Indices: 9918--10457 Score: 649
Period size: 173 Copynumber: 3.1 Consensus size: 172
9908 TGCCTTGTCT
9918 AATTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACTTTACCCAGTTTGCCCTT
1 AATTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTAC-TTACCCAGTTTGCCCTT
* * *
9983 CCTCACCGAAAGATGTTGTCTAAATTTCCAATTTTCCCTTCCTCATCGGAAGGTGTTGTTTAAGT
65 CCTCACCGGAAGGTGTTGTCTAAATTTCCAATTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAGT
10048 CTACTTTACCTAATTTGCCC-TCCCCACCGGAAGGTGTTGTTTA
130 CTACTTTACC-AATTTGCCCTTCCCCACCGGAAGGTGTTGTTTA
* *
10091 AATTCCTAGTTTGCCCTTCCTCATCGGAAGGTGTTATCTAAGTCTACCTTACCCAGTTTGCCCTT
1 AATTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTA-CTTACCCAGTTTGCCCTT
*
10156 CCTCACCGGAAGGTGTTGTCT-AATTTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAG
65 CCTCACCGGAAGGTGTTGTCTAAATTT-CCAATTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAG
* * *
10220 TCTACTTTACCAGTTTGCCCTTCCCCATCGGAAGGTGTTGTCTA
129 TCTACTTTACCAATTTGCCCTTCCCCACCGGAAGGTGTTGTTTA
* * * * *
10264 AGTCTACTTCACCCAATTTGCCCTTCCCCACCGGAAGGTGTTGTTTAA----A--TCCCCAGTTT
1 A----A-TT--CCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACTTACCCAGTTT
* * *
10323 GCCCTTCCTCATCGGAAGGTGTTGTTTAAGTTTAGTTTACCAATTTGCCCTTCCCCATCGGAAGG
59 GCCCTTCCTCACCGGAAGGTGTTGTCTAA----A-TTT-CCAATTTGCCCTTCCTCATCGGAAGG
* *
10388 TGTTGTTTAA----A--TTCCCAACTTGCCCTTCCCCACCGGAAGGTGTTGTTTA
118 TGTTGTTTAAGTCTACTTTACCAATTTGCCCTTCCCCACCGGAAGGTGTTGTTTA
*
10437 AATTCCCAGCTTGCCCTTCCT
1 AATTCCCAGTTTGCCCTTCCT
10458 AACTGGAATG
Statistics
Matches: 322, Mismatches: 29, Indels: 39
0.83 0.07 0.10
Matches are distributed among these distances:
166 14 0.04
168 2 0.01
169 1 0.00
172 13 0.04
173 216 0.67
174 2 0.01
175 1 0.00
176 1 0.00
177 1 0.00
178 3 0.01
179 37 0.11
180 31 0.10
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (172 bp):
AATTCCCAGTTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACTTACCCAGTTTGCCCTTC
CTCACCGGAAGGTGTTGTCTAAATTTCCAATTTGCCCTTCCTCATCGGAAGGTGTTGTTTAAGTC
TACTTTACCAATTTGCCCTTCCCCACCGGAAGGTGTTGTTTA
Found at i:11406 original size:4 final size:4
Alignment explanation
Indices: 11397--11432 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
11387 TTTAGTACTA
*
11397 ATTT ATTT ATTT ATTT ATTT ATTT ACTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
11433 TGAACAGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:15225 original size:46 final size:44
Alignment explanation
Indices: 15061--15221 Score: 177
Period size: 40 Copynumber: 3.6 Consensus size: 44
15051 TAATTCCCAG
* *
15061 TTTGCGCTTCCTCATCGGAAGGTGTTGTCTAAGTCTACTTTACCCAG
1 TTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGT-TA-TTTA-CCAA
* *
15108 TTTGCCCTTCCTCACCGGAAGATGTTGTCTAA---ATTT-CCAA
1 TTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTTATTTACCAA
* *
15148 TTTTCCCTTCCTCATCGGAAGGTGTTGTTTAAGTTTAGTTTACCAA
1 TTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAG-TTA-TTTACCAA
* *
15194 TTTGCCATTCCCCATCGGAAGGTGTTGT
1 TTTGCCCTTCCTCATCGGAAGGTGTTGT
15222 TTAAATTCCC
Statistics
Matches: 97, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
40 31 0.32
42 3 0.03
43 1 0.01
44 1 0.01
45 3 0.03
46 29 0.30
47 29 0.30
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (44 bp):
TTTGCCCTTCCTCATCGGAAGGTGTTGTCTAAGTTATTTACCAA
Found at i:15239 original size:40 final size:40
Alignment explanation
Indices: 15103--15341 Score: 187
Period size: 40 Copynumber: 5.8 Consensus size: 40
15093 GTCTACTTTA
* * * * *
15103 CCCAGTTTGCCCTTCCTCACCGGAAGATGTTGTCTAAATT
1 CCCAGCTTGCCCTTCCCCATCGGAAGGTGTTGTTTAAATT
* ** * *
15143 TCCAATTTTCCCTTCCTCATCGGAAGGTGTTGTTTAAGTTTAGTTT
1 CCCAGCTTGCCCTTCCCCATCGGAAGGTGTTGTTTAA----A--TT
* ** *
15189 ACCAATTTGCCATTCCCCATCGGAAGGTGTTGTTTAAATT
1 CCCAGCTTGCCCTTCCCCATCGGAAGGTGTTGTTTAAATT
*
15229 CCCAGCTTGCCC-TCCCCACCGGAAGGTGTTGTTTAAATT
1 CCCAGCTTGCCCTTCCCCATCGGAAGGTGTTGTTTAAATT
* * * * *
15268 CCCAGCTTGCCCTT-CCTAACTGGAATGCGTTGTTTGAATT
1 CCCAGCTTGCCCTTCCCCATC-GGAAGGTGTTGTTTAAATT
**
15308 CCCAG-TCTGCCCTTCGTCATCGGAAGGTGTTGTT
1 CCCAGCT-TGCCCTTCCCCATCGGAAGGTGTTGTT
15342 CCTATTCCAT
Statistics
Matches: 163, Mismatches: 26, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
39 43 0.26
40 81 0.50
41 2 0.01
42 1 0.01
44 1 0.01
46 35 0.21
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (40 bp):
CCCAGCTTGCCCTTCCCCATCGGAAGGTGTTGTTTAAATT
Found at i:16249 original size:4 final size:4
Alignment explanation
Indices: 16240--16279 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
16230 TTTAGTACTA
16240 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
16280 TGAACAGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:20355 original size:18 final size:19
Alignment explanation
Indices: 20327--20366 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
20317 ATGTTGCGAC
20327 TAATAAATAACACTAAAAA
1 TAATAAATAACACTAAAAA
* *
20346 TAAT-AATAACATTAATAA
1 TAATAAATAACACTAAAAA
20364 TAA
1 TAA
20367 ATGCTATGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (19 bp):
TAATAAATAACACTAAAAA
Found at i:21623 original size:35 final size:35
Alignment explanation
Indices: 21584--21676 Score: 89
Period size: 35 Copynumber: 2.6 Consensus size: 35
21574 AAATGGCATA
*
21584 ATTATAA-AAATACATAATAAAGCATACTAATATTG
1 ATTATAACAAATA-ATAATAAAGAATACTAATATTG
* * * *
21619 ATTATAACTACTAATAATAAATAATACTAATATTA
1 ATTATAACAAATAATAATAAAGAATACTAATATTG
* *
21654 ATAATAACACTAATAATCATAAA
1 ATTATAACA--AATAATAATAAA
21677 ATCAAAAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
35 33 0.72
36 3 0.07
37 10 0.22
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (35 bp):
ATTATAACAAATAATAATAAAGAATACTAATATTG
Found at i:21632 original size:19 final size:18
Alignment explanation
Indices: 21608--21668 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
21598 TAATAAAGCA
*
21608 TACTAATATTGATTATAAC
1 TACTAATATT-ATAATAAC
*
21627 TACTAATAATA-AATAA-
1 TACTAATATTATAATAAC
21643 TACTAATATTAATAATAAC
1 TACTAATATT-ATAATAAC
21662 -ACTAATA
1 TACTAATA
21669 ATCATAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
16 9 0.25
17 5 0.14
18 13 0.36
19 9 0.25
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (18 bp):
TACTAATATTATAATAAC
Found at i:21951 original size:21 final size:19
Alignment explanation
Indices: 21927--21972 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
21917 ATACATATCT
21927 AATATTAT-TTTATATATATA
1 AATATTATATTTA-AT-TATA
21947 AA-ATATATATTTAATTATA
1 AATAT-TATATTTAATTATA
21966 AATATTA
1 AATATTA
21973 CTAAACGGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 10 0.43
20 9 0.39
21 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATATTATATTTAATTATA
Found at i:26386 original size:3 final size:3
Alignment explanation
Indices: 26378--26449 Score: 56
Period size: 3 Copynumber: 24.0 Consensus size: 3
26368 AGGTCTCCAA
* * * * *
26378 CTT CTT CTT CTT CTT CTAC CTT -TT CTG CTT CTC CAT CTT CTC CTT
1 CTT CTT CTT CTT CTT CT-T CTT CTT CTT CTT CTT CTT CTT CTT CTT
* * *
26423 CTT CTT CTT CCT CTG CTT CAT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
26450 GTTTAGGTTC
Statistics
Matches: 51, Mismatches: 16, Indels: 4
0.72 0.23 0.06
Matches are distributed among these distances:
2 2 0.04
3 47 0.92
4 2 0.04
ACGTcount: A:0.04, C:0.38, G:0.03, T:0.56
Consensus pattern (3 bp):
CTT
Found at i:31121 original size:2 final size:2
Alignment explanation
Indices: 31114--31153 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
31104 CAGTTGTTAA
* *
31114 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT TT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31154 CTAAAATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:32377 original size:45 final size:44
Alignment explanation
Indices: 32326--32416 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 44
32316 TCATGATTGA
*
32326 TCACCCTTTAACTTTTTGTTTGTAGAAGTTACATTTGAATAACTT
1 TCACCCTTTAACTTTTTGTTTGTAAAAGTTACA-TTGAATAACTT
32371 TCACCCTTTAACTTTTTGTTTGTAAAAGTTACATTGAATAACTT
1 TCACCCTTTAACTTTTTGTTTGTAAAAGTTACATTGAATAACTT
32415 TC
1 TC
32417 TTAGTTTCTT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 13 0.29
45 32 0.71
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.46
Consensus pattern (44 bp):
TCACCCTTTAACTTTTTGTTTGTAAAAGTTACATTGAATAACTT
Found at i:32585 original size:18 final size:18
Alignment explanation
Indices: 32562--32597 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
32552 ACTTTCTTGG
32562 ATAATTCTGTAATAATTA
1 ATAATTCTGTAATAATTA
32580 ATAATTCTGTAATAATTA
1 ATAATTCTGTAATAATTA
32598 TGTTCTGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (18 bp):
ATAATTCTGTAATAATTA
Found at i:32605 original size:16 final size:16
Alignment explanation
Indices: 32566--32617 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
32556 TCTTGGATAA
*
32566 TTCTGTAATAATTAATAA
1 TTCTGTAATAATT-AT-G
32584 TTCTGTAATAATTATG
1 TTCTGTAATAATTATG
* *
32600 TTCTGTTATAATTTTG
1 TTCTGTAATAATTATG
32616 TT
1 TT
32618 TTAATTATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
16 16 0.52
17 2 0.06
18 13 0.42
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.54
Consensus pattern (16 bp):
TTCTGTAATAATTATG
Found at i:32622 original size:11 final size:11
Alignment explanation
Indices: 32603--32661 Score: 73
Period size: 11 Copynumber: 5.4 Consensus size: 11
32593 AATTATGTTC
*
32603 TGTTATAATTT
1 TGTTATAATTA
*
32614 TGTTTTAATTA
1 TGTTATAATTA
*
32625 TGTTATAATTC
1 TGTTATAATTA
*
32636 TGTTCTAATTA
1 TGTTATAATTA
*
32647 TGTTATAATTT
1 TGTTATAATTA
32658 TGTT
1 TGTT
32662 CTCTTTTGCT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 40 1.00
ACGTcount: A:0.25, C:0.03, G:0.10, T:0.61
Consensus pattern (11 bp):
TGTTATAATTA
Found at i:32628 original size:22 final size:22
Alignment explanation
Indices: 32603--32663 Score: 104
Period size: 22 Copynumber: 2.8 Consensus size: 22
32593 AATTATGTTC
*
32603 TGTTATAATTTTGTTTTAATTA
1 TGTTATAATTTTGTTCTAATTA
*
32625 TGTTATAATTCTGTTCTAATTA
1 TGTTATAATTTTGTTCTAATTA
32647 TGTTATAATTTTGTTCT
1 TGTTATAATTTTGTTCT
32664 CTTTTGCTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.25, C:0.05, G:0.10, T:0.61
Consensus pattern (22 bp):
TGTTATAATTTTGTTCTAATTA
Found at i:32652 original size:27 final size:26
Alignment explanation
Indices: 32580--32652 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 26
32570 GTAATAATTA
* *
32580 ATAATTCTGTAATAATTATGTTCTGTT
1 ATAATTCTGT-TTAATTATGTTATGTT
* *
32607 ATAATTTTG-TT--TTA-ATTATGTT
1 ATAATTCTGTTTAATTATGTTATGTT
32629 ATAATTCTGTTCTAATTATGTTAT
1 ATAATTCTGTT-TAATTATGTTAT
32653 AATTTTGTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
22 14 0.40
23 4 0.11
24 1 0.03
25 1 0.03
26 3 0.09
27 12 0.34
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (26 bp):
ATAATTCTGTTTAATTATGTTATGTT
Found at i:34477 original size:3 final size:3
Alignment explanation
Indices: 34469--34494 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
34459 GAATGGGGCT
34469 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
34495 TCATGAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:35095 original size:14 final size:14
Alignment explanation
Indices: 35076--35232 Score: 199
Period size: 14 Copynumber: 11.3 Consensus size: 14
35066 TGAGTTTTAA
*
35076 TTGATTTCCTGTTT
1 TTGAGTTCCTGTTT
*
35090 TTGA-TTTCTGTTT
1 TTGAGTTCCTGTTT
*
35103 TTGAGTTGCTGTTT
1 TTGAGTTCCTGTTT
35117 TTGAGTTCCTGTTT
1 TTGAGTTCCTGTTT
* *
35131 TTGATTTGCTGTTT
1 TTGAGTTCCTGTTT
35145 TTGAGTTCCTGTTT
1 TTGAGTTCCTGTTT
* *
35159 TTTAGTTCATGTTT
1 TTGAGTTCCTGTTT
35173 TTGAGTTCCTGTTT
1 TTGAGTTCCTGTTT
*
35187 TTTAGTTCCTGTTT
1 TTGAGTTCCTGTTT
* *
35201 TTTAGTTCATGTTT
1 TTGAGTTCCTGTTT
**
35215 TTGAGTTGTTGTTT
1 TTGAGTTCCTGTTT
35229 TTGA
1 TTGA
35233 CTTGCTGGTT
Statistics
Matches: 126, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
13 12 0.10
14 114 0.90
ACGTcount: A:0.09, C:0.10, G:0.20, T:0.62
Consensus pattern (14 bp):
TTGAGTTCCTGTTT
Found at i:35759 original size:304 final size:304
Alignment explanation
Indices: 35210--36405 Score: 2189
Period size: 304 Copynumber: 3.9 Consensus size: 304
35200 TTTTAGTTCA
** * *
35210 TGTTTTTGAGTTGTTGTTTTTGACTTGCTGGTTGTTTTCTTGTAGGTTTGTTGTGCCCGTGATGT
1 TGTTTTTGAGTTCCTGTTTTTGACTTGCTGGCTGTTTTCTTGTAGGTTTGTTGTGCCTGTGATGT
35275 GAACTTTGAAGTTTGAAGGAAGGATTTACTAGTGTTGCTGGCTGCTGCTCAGTTTCTGCCACTCT
66 GAACTTTGAAGTTTGAAGGAAGGATTTACTAGTGTTGCTGGCTGCTGCTCAGTTTCTGCCACTCT
35340 TATTAGTCACTTTTGGAGTTTTGGTTTATATATTGTGTTCAATATTCAATGTATAGAATAGAACA
131 TATTAGTCACTTTTGGAGTTTTGGTTTATATATTGTGTTCAATATTCAATGTATAGAATAGAACA
35405 CGAACACCACTCATTCATTTTGCTACTACTTAGGTAGTAGAGATGCTGCCTGCATGTAATTTTTG
196 CGAACACCACTCATTCATTTTGCTACTACTTAGGTAGTAGAGATGCTGCCTGCATGTAATTTTTG
35470 AGATTGCAGGTCATTTTGTAAGTATCTTGAGCAAATTGTTTAAC
261 AGATTGCAGGTCATTTTGTAAGTATCTTGAGCAAATTGTTTAAC
**
35514 TGTTTTTGAGTTCCTGTTTTTGACTTTTTGGCTGTTTTCTTGTAGGTTTGTTGTGCCTGTGATGT
1 TGTTTTTGAGTTCCTGTTTTTGACTTGCTGGCTGTTTTCTTGTAGGTTTGTTGTGCCTGTGATGT
*
35579 GAACTTTGAAGTTTGAAGGAAGGATTTACTAGTGTTGTTGGCTGCTGCTCAGTTTCTGCCACTCT
66 GAACTTTGAAGTTTGAAGGAAGGATTTACTAGTGTTGCTGGCTGCTGCTCAGTTTCTGCCACTCT
35644 TATTAGTCACTTTTGGAGTTTTGGTTTATATATTGTGTTCAATATTCAATGTATAGAATAGAACA
131 TATTAGTCACTTTTGGAGTTTTGGTTTATATATTGTGTTCAATATTCAATGTATAGAATAGAACA
*
35709 CGAACACCACTCATTCATTTTGCTACTACTTAGGTAGTAGAGATGCTGCCTACATGTAATTTTTG
196 CGAACACCACTCATTCATTTTGCTACTACTTAGGTAGTAGAGATGCTGCCTGCATGTAATTTTTG
*
35774 AGATTGCAGGTCATTTTGTAAGTATTTTGAGCAAATTGTTTAAC
261 AGATTGCAGGTCATTTTGTAAGTATCTTGAGCAAATTGTTTAAC
* *
35818 TGTTTTTGAGTTCCTGTTTTTGACTTGCTGGCTGTTTTCTTGTAGGATTGTTGTGCCTATGATGT
1 TGTTTTTGAGTTCCTGTTTTTGACTTGCTGGCTGTTTTCTTGTAGGTTTGTTGTGCCTGTGATGT
35883 GAACTTTGAAGTTTGAAGGAAGGATTTACTAGTGTTGCTGGCTGCTGCTCAGTTTCTGCCACTCT
66 GAACTTTGAAGTTTGAAGGAAGGATTTACTAGTGTTGCTGGCTGCTGCTCAGTTTCTGCCACTCT
*
35948 TATTAGTCACTTTTGGAGTTTTGGTTTATATATTGTGTTCAATATTCAATTTATAGAATAGAACA
131 TATTAGTCACTTTTGGAGTTTTGGTTTATATATTGTGTTCAATATTCAATGTATAGAATAGAACA
* * *
36013 CGAACACTACTCATTCATTTTGCTATTACTTCGGTAGTAGAGATGCTGCCTGCATGTAATTTTTG
196 CGAACACCACTCATTCATTTTGCTACTACTTAGGTAGTAGAGATGCTGCCTGCATGTAATTTTTG
36078 AGATTGCAGGTCATTTTGTAAGTATCTTGAGCTAAATTGTTTAAC
261 AGATTGCAGGTCATTTTGTAAGTATCTTGAGC-AAATTGTTTAAC
*
36123 TGTTTTTGAGTTCCTG-TTTTGACTT-TTGGCTGTTTTCTTGTAGGTTTGTTGTGCCTGTGATGT
1 TGTTTTTGAGTTCCTGTTTTTGACTTGCTGGCTGTTTTCTTGTAGGTTTGTTGTGCCTGTGATGT
* *
36186 GAACTTTGAAGTTTGAAGGAAGGATTTACTAGTGTTGTTGGCTGCTGCTCAGTTTCTACCACTCT
66 GAACTTTGAAGTTTGAAGGAAGGATTTACTAGTGTTGCTGGCTGCTGCTCAGTTTCTGCCACTCT
*
36251 TATTAGTCACTTTTGGAGTTTTGGTTTATATATTGTGTTTAATATTCAATGTATAGAATAGAACA
131 TATTAGTCACTTTTGGAGTTTTGGTTTATATATTGTGTTCAATATTCAATGTATAGAATAGAACA
*
36316 CGAACACTACTCATTCATTTTGCTACTACTTAGGTAGTAGAGATGCTGCCTGCATGTAATTTTTG
196 CGAACACCACTCATTCATTTTGCTACTACTTAGGTAGTAGAGATGCTGCCTGCATGTAATTTTTG
36381 AGATTGCAGGTCATTTTGTAAGTAT
261 AGATTGCAGGTCATTTTGTAAGTAT
36406 TTTGTGCAGC
Statistics
Matches: 862, Mismatches: 29, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
303 249 0.29
304 585 0.68
305 28 0.03
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.43
Consensus pattern (304 bp):
TGTTTTTGAGTTCCTGTTTTTGACTTGCTGGCTGTTTTCTTGTAGGTTTGTTGTGCCTGTGATGT
GAACTTTGAAGTTTGAAGGAAGGATTTACTAGTGTTGCTGGCTGCTGCTCAGTTTCTGCCACTCT
TATTAGTCACTTTTGGAGTTTTGGTTTATATATTGTGTTCAATATTCAATGTATAGAATAGAACA
CGAACACCACTCATTCATTTTGCTACTACTTAGGTAGTAGAGATGCTGCCTGCATGTAATTTTTG
AGATTGCAGGTCATTTTGTAAGTATCTTGAGCAAATTGTTTAAC
Found at i:42397 original size:2 final size:2
Alignment explanation
Indices: 42390--42436 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
42380 TAGGAAAAAT
42390 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
42432 AC AC A
1 AC AC A
42437 TATATATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:42441 original size:2 final size:2
Alignment explanation
Indices: 42436--42460 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
42426 ACACACACAC
42436 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
42461 CTAGAAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43567 original size:32 final size:32
Alignment explanation
Indices: 43526--43599 Score: 139
Period size: 32 Copynumber: 2.3 Consensus size: 32
43516 GACAATGGAG
*
43526 AGCATGGAAAGGATGAGCAAGGGCTGCAAGGA
1 AGCATGGAAAGGATGAGAAAGGGCTGCAAGGA
43558 AGCATGGAAAGGATGAGAAAGGGCTGCAAGGA
1 AGCATGGAAAGGATGAGAAAGGGCTGCAAGGA
43590 AGCATGGAAA
1 AGCATGGAAA
43600 TGCATGAAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.41, C:0.11, G:0.39, T:0.09
Consensus pattern (32 bp):
AGCATGGAAAGGATGAGAAAGGGCTGCAAGGA
Found at i:45320 original size:2 final size:2
Alignment explanation
Indices: 45313--45337 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
45303 TTGTGGTAAT
45313 CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA C
45338 TATTTGAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:46209 original size:18 final size:19
Alignment explanation
Indices: 46186--46223 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
46176 GTGCATGGGC
*
46186 TGCATGGAG-GCATGGAGA
1 TGCATGGAGACCATGGAGA
46204 TGCATGGAGACCATGGAGA
1 TGCATGGAGACCATGGAGA
46223 T
1 T
46224 AACGATGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.29, C:0.13, G:0.39, T:0.18
Consensus pattern (19 bp):
TGCATGGAGACCATGGAGA
Found at i:57906 original size:43 final size:42
Alignment explanation
Indices: 57851--58179 Score: 427
Period size: 43 Copynumber: 7.8 Consensus size: 42
57841 CAATTACCAA
*
57851 AAAGTCCCCAAACACATATATAACACAGGGGCATCTCTATTCC
1 AAAGTCCCCAAACACATATATAACACAGAGGCATCTCTATT-C
* * *
57894 AAAGTCCTCAAACACATATATAACACAGAGGCACCTATATTC
1 AAAGTCCCCAAACACATATATAACACAGAGGCATCTCTATTC
* *
57936 -AAGTCCCCAAACACATATATAACACAGGGGCA-CCCTTATTAC
1 AAAGTCCCCAAACACATATATAACACAGAGGCATCTC-TATT-C
*
57978 AAAGTCCTCAAACACATATATAACACAGAGGCAT-T-TATATC
1 AAAGTCCCCAAACACATATATAACACAGAGGCATCTCTAT-TC
* *
58019 AAAGTCCCCAAACACATATATAACACAGGGGCATCCCTATTAC
1 AAAGTCCCCAAACACATATATAACACAGAGGCATCTCTATT-C
*
58062 AAAGTCCTCAAACACATATATAACACAGAGGCAT-T-TATATC
1 AAAGTCCCCAAACACATATATAACACAGAGGCATCTCTAT-TC
* *
58103 AAAGTCCCCAAACACATATATAACATAGGGGCATCTCTATTAC
1 AAAGTCCCCAAACACATATATAACACAGAGGCATCTCTATT-C
* *
58146 AAAGTTCTCAAACACATATATAACACAGAGGCAT
1 AAAGTCCCCAAACACATATATAACACAGAGGCAT
58180 TTTTCCTTAT
Statistics
Matches: 250, Mismatches: 24, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
40 1 0.00
41 105 0.42
42 7 0.03
43 137 0.55
ACGTcount: A:0.41, C:0.26, G:0.11, T:0.22
Consensus pattern (42 bp):
AAAGTCCCCAAACACATATATAACACAGAGGCATCTCTATTC
Found at i:58208 original size:84 final size:84
Alignment explanation
Indices: 57851--58181 Score: 567
Period size: 84 Copynumber: 3.9 Consensus size: 84
57841 CAATTACCAA
* *
57851 AAAGTCCCCAAACACATATATAACACAGGGGCATCTCTATTCCAAAGTCCTCAAACACATATATA
1 AAAGTCCCCAAACACATATATAACACAGGGGCATCCCTATTACAAAGTCCTCAAACACATATATA
**
57916 ACACAGAGGCACCTATATTC
66 ACACAGAGGCATTTATA-TC
57936 -AAGTCCCCAAACACATATATAACACAGGGGCA-CCCTTATTACAAAGTCCTCAAACACATATAT
1 AAAGTCCCCAAACACATATATAACACAGGGGCATCCC-TATTACAAAGTCCTCAAACACATATAT
57999 AACACAGAGGCATTTATATC
65 AACACAGAGGCATTTATATC
58019 AAAGTCCCCAAACACATATATAACACAGGGGCATCCCTATTACAAAGTCCTCAAACACATATATA
1 AAAGTCCCCAAACACATATATAACACAGGGGCATCCCTATTACAAAGTCCTCAAACACATATATA
58084 ACACAGAGGCATTTATATC
66 ACACAGAGGCATTTATATC
* * *
58103 AAAGTCCCCAAACACATATATAACATAGGGGCATCTCTATTACAAAGTTCTCAAACACATATATA
1 AAAGTCCCCAAACACATATATAACACAGGGGCATCCCTATTACAAAGTCCTCAAACACATATATA
58168 ACACAGAGGCATTT
66 ACACAGAGGCATTT
58182 TTCCTTATGG
Statistics
Matches: 236, Mismatches: 7, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
83 4 0.02
84 229 0.97
85 3 0.01
ACGTcount: A:0.41, C:0.26, G:0.11, T:0.22
Consensus pattern (84 bp):
AAAGTCCCCAAACACATATATAACACAGGGGCATCCCTATTACAAAGTCCTCAAACACATATATA
ACACAGAGGCATTTATATC
Found at i:58295 original size:2 final size:2
Alignment explanation
Indices: 58288--58338 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
58278 ACCAAATTCC
* *
58288 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
58330 TA CA TA TA T
1 TA TA TA TA T
58339 GTGACAAAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:65562 original size:15 final size:14
Alignment explanation
Indices: 65544--65574 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
65534 AATTATATGC
65544 AAATGCAACTAAACT
1 AAATGCAACT-AACT
65559 AAATGCAACTAACT
1 AAATGCAACTAACT
65573 AA
1 AA
65575 TTCAAACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.19, G:0.06, T:0.19
Consensus pattern (14 bp):
AAATGCAACTAACT
Done.