Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000715.1 Hibiscus syriacus cultivar Beakdansim tig00001387_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: 73707
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:1074 original size:16 final size:17
Alignment explanation
Indices: 1044--1075 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1034 GGTTAAATAA
1044 TATATTTTATAATAATT
1 TATATTTTATAATAATT
1061 TATATTTT-TAATAAT
1 TATATTTTATAATAAT
1076 ATAAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATTTTATAATAATT
Found at i:4412 original size:22 final size:20
Alignment explanation
Indices: 4380--4433 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
4370 GATTTTTATT
*
4380 TTTATTTTTATTATTATAATTA
1 TTTA-TTTTATTAATA-AATTA
*
4402 TTTATTATTATTAATAAATTT
1 TTTATT-TTATTAATAAATTA
4423 TTTATTTTATT
1 TTTATTTTATT
4434 TTTTATAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 5 0.17
21 12 0.41
22 12 0.41
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTATTTTATTAATAAATTA
Found at i:4673 original size:39 final size:39
Alignment explanation
Indices: 4588--4673 Score: 122
Period size: 38 Copynumber: 2.3 Consensus size: 39
4578 TGCAAGCCAT
* * * *
4588 GAAA-GGGGGATTTTTTTTTATTGGTTTTGATCCTATGA
1 GAAAGGGGGGATTTTTATTGATTGGTTCTGATCCCATGA
4626 GAAAGGGGGGA-TTTTATTGATTGGTTCTGATCCCATGA
1 GAAAGGGGGGATTTTTATTGATTGGTTCTGATCCCATGA
4664 GAAAGGGGGG
1 GAAAGGGGGG
4674 CACCATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
38 37 0.86
39 6 0.14
ACGTcount: A:0.23, C:0.07, G:0.34, T:0.36
Consensus pattern (39 bp):
GAAAGGGGGGATTTTTATTGATTGGTTCTGATCCCATGA
Found at i:5785 original size:25 final size:24
Alignment explanation
Indices: 5743--5790 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
5733 TGTACTAACT
*
5743 TTTATTTATCTTTGTTATCTATTTA
1 TTTATTTATCTTTATTAT-TATTTA
5768 TTTATTTAT-TATTATTATTATTT
1 TTTATTTATCT-TTATTATTATTT
5791 TTTCCTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTATTTATCTTTATTATTATTTA
Found at i:5914 original size:18 final size:19
Alignment explanation
Indices: 5877--5914 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
5867 AAAGGTAAGT
*
5877 AATTTGAATTGAATTTTTA
1 AATTTGAATTGAAATTTTA
*
5896 AATTTG-ATTTAAATTTTA
1 AATTTGAATTGAAATTTTA
5914 A
1 A
5915 TTTTCGTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (19 bp):
AATTTGAATTGAAATTTTA
Found at i:7637 original size:25 final size:23
Alignment explanation
Indices: 7609--7657 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 23
7599 TTACATTTTG
7609 TTATTTTCATTTCTTTACGTTCACA
1 TTATTTTCATTTCTTTA--TTCACA
* *
7634 TTATTTTCTTTTTTTTATTCACA
1 TTATTTTCATTTCTTTATTCACA
7657 T
1 T
7658 GTCTCATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.32
25 15 0.68
ACGTcount: A:0.18, C:0.16, G:0.02, T:0.63
Consensus pattern (23 bp):
TTATTTTCATTTCTTTATTCACA
Found at i:9575 original size:16 final size:16
Alignment explanation
Indices: 9554--9584 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9544 AGGTTCGAAA
9554 CCAGTTCAAAACAAAT
1 CCAGTTCAAAACAAAT
*
9570 CCAGTTCAACACAAA
1 CCAGTTCAAAACAAA
9585 CTCAACCCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.29, G:0.06, T:0.16
Consensus pattern (16 bp):
CCAGTTCAAAACAAAT
Found at i:9917 original size:106 final size:105
Alignment explanation
Indices: 9753--10639 Score: 1314
Period size: 106 Copynumber: 8.4 Consensus size: 105
9743 TTCCAATTTC
* * * * * *
9753 ATTCAGAGTCTATTTCAACTTCGCAGCGAAGAAAATTGGACTCCAGATAACGCAAGTTCAACTTC
1 ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
9818 ACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCCA
66 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCA
* *
9858 CTTCTAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
1 ATTC-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
* * * *
9923 CACGACGAAGGTACCGCTGGTTGTCAATAAATAACTTCCCA
65 CACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCA
* * *
9964 ATTTCAGAGCCAATTTCAATTTCACAGCGAATGATATTGGACTCCAGACAACGCATGTTCAACTT
1 A-TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
* *
10029 CACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTT--TA
65 CACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTTCCCA
*
10069 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTT
1 A-TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
* * *
10134 CACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCA
65 CACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCA
*
10175 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
1 A-TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
* * * *
10240 TACGATGAAGGGACCGTTGGTTGTCAATAAAC-ATTTCCCA
65 CACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCA
*
10280 ATATCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTT
1 AT-TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
* *
10345 CACGACGAAGGGACCGCTGGTTGTCAA-AAACAACTTCTCA
65 CACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCA
*
10385 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
1 A-TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
*
10450 CACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
65 CACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCA
*
10491 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
1 A-TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
*
10556 CACGACGAAGAGACCGCTGGTTGTCAACAAACAATTTCCCA
65 CACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCA
* ** *
10597 GTTCTAGAGCCAATTTCAACTTCATGGCGGAGGATATTGGACT
1 ATTC-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACT
10640 TGGAACAATA
Statistics
Matches: 721, Mismatches: 51, Indels: 19
0.91 0.06 0.02
Matches are distributed among these distances:
104 7 0.01
105 287 0.40
106 422 0.59
107 5 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (105 bp):
ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCA
Found at i:10152 original size:211 final size:210
Alignment explanation
Indices: 9728--10639 Score: 1344
Period size: 211 Copynumber: 4.3 Consensus size: 210
9718 AAAAGTTGTC
* * * * * *
9728 TGTCAACAAACAACTTTCCAATTTCATTCAGAGTCTATTTCAACTTCGCAGCGAAGAAAATTGGA
1 TGTCAACAAACAACTTCCCAA--T--TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * *
9793 CTCCAGATAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCCA
62 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTTCAA
*
9858 CTTCTAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
126 TTTC-AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
*
9923 CACGACGAAGGTACCGCTGGT
190 CACGACGAAGGGACCGCTGGT
* * * *
9944 TGTCAATAAATAACTTCCCAATTTCAGAGCCAATTTCAATTTCACAGCGAATGATATTGGACTCC
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * *
10009 AGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTTTAATTTC
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTTCAATTTC
* *
10074 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGA
130 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
10139 TGAAGGGACCGCTGGT
195 CGAAGGGACCGCTGGT
* *
10155 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * * *
10220 AGACAACGCAAGTTCAACTTTACGATGAAGGGACCGTTGGTTGTCAATAAAC-ATTTCCCAATAT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTT--CAATTT
* *
10284 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACG
129 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
10349 ACGAAGGGACCGCTGGT
194 ACGAAGGGACCGCTGGT
* *
10366 TGTCAA-AAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
10430 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TT-TCAATTT
10495 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
129 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
10560 ACGAAGAGACCGCTGGT
194 ACGAAGGGACCGCTGGT
* * ** *
10577 TGTCAACAAACAATTTCCC-AGTTCTAGAGCCAATTTCAACTTCATGGCGGAGGATATTGGACT
1 TGTCAACAAACAACTTCCCAATTTC-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACT
10640 TGGAACAATA
Statistics
Matches: 636, Mismatches: 53, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
209 3 0.00
210 107 0.17
211 368 0.58
212 139 0.22
214 1 0.00
216 18 0.03
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (210 bp):
TGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCAATTTCA
GAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
GAAGGGACCGCTGGT
Found at i:10418 original size:316 final size:315
Alignment explanation
Indices: 9728--10639 Score: 1432
Period size: 316 Copynumber: 2.9 Consensus size: 315
9718 AAAAGTTGTC
* * * * *
9728 TGTCAACAAACAACTTTCCAATTTCATTCAGAGTCTATTTCAACTTCGCAGCGAAGAAAATTGGA
1 TGTCAACAAACAACTTT-CAA--T--TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * *
9793 CTCCAGATAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA-TTTTCC
61 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCA
*
9857 ACTTCTAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
126 ATTTC-AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
* * * *
9922 TCACGACGAAGGTACCGCTGGTTGTCAATAAATAACTTCCCAATTTCAGAGCCAATTTCAATTTC
190 TCACGACGAAGGGACCGCTGGTTGTCAATAAA-CATTTCCCAA-TTCAGAGCCAATTTCAACTTC
*
9987 ACAGCGAATGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGT
253 ACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
10050 TGTCAACAAATAACTTTTAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCA
1 TGTCAACAAACAACTTTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCA
* *
10115 GACAACGCATGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 GACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
*
10180 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTTACGA
131 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
10245 TGAAGGGACCGTTGGTTGTCAATAAACATTTCCCAATATCAGAGCCAATTTCAACTTCACAGCGA
196 CGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAAT-TCAGAGCCAATTTCAACTTCACAGCGA
10310 AGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGT
260 AGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGT
*
10366 TGTCAA-AAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAACTT-TCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
10430 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
65 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
10495 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
130 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * **
10560 ACGAAGAGACCGCTGGTTGTCAACAAACAATTTCCCAGTTCTAGAGCCAATTTCAACTTCATGGC
195 ACGAAGGGACCGCTGGTTGTCAATAAAC-ATTTCCCAATTC-AGAGCCAATTTCAACTTCACAGC
*
10625 GGAGGATATTGGACT
258 GAAGGATATTGGACT
10640 TGGAACAATA
Statistics
Matches: 548, Mismatches: 37, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
315 9 0.02
316 293 0.53
317 219 0.40
318 8 0.01
319 1 0.00
321 2 0.00
322 16 0.03
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (315 bp):
TGTCAACAAACAACTTTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCA
GACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTCAGAGCCAATTTCAACTTCACAGCGAA
GGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGT
Found at i:11203 original size:18 final size:16
Alignment explanation
Indices: 11163--11205 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
11153 GAATTTTTTA
*
11163 TTTTTATTATTATAAT
1 TTTTTATTATAATAAT
11179 TTATTTATTAATAATAAAT
1 TT-TTTATT-ATAAT-AAT
11198 TTTTTATT
1 TTTTTATT
11206 TTATTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 2 0.09
17 6 0.26
18 10 0.43
19 5 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTATTATAATAAT
Found at i:11412 original size:38 final size:38
Alignment explanation
Indices: 11362--11446 Score: 127
Period size: 38 Copynumber: 2.3 Consensus size: 38
11352 TGCAAGCCAT
* * * *
11362 GAAA-GGGGGATTTTTTTTATTGGTTTTGATCCTATGA
1 GAAAGGGGGGATTTTATTGATTGGTTCTGATCCCATGA
11399 GAAAGGGGGGATTTTATTGATTGGTTCTGATCCCATGA
1 GAAAGGGGGGATTTTATTGATTGGTTCTGATCCCATGA
11437 GAAAGGGGGG
1 GAAAGGGGGG
11447 CACATTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
37 4 0.09
38 39 0.91
ACGTcount: A:0.24, C:0.07, G:0.34, T:0.35
Consensus pattern (38 bp):
GAAAGGGGGGATTTTATTGATTGGTTCTGATCCCATGA
Found at i:19099 original size:15 final size:15
Alignment explanation
Indices: 19079--19107 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19069 GTAAGAGCAG
19079 AGCAAGGAAAGCAAA
1 AGCAAGGAAAGCAAA
19094 AGCAAGGAAAGCAA
1 AGCAAGGAAAGCAA
19108 CTTATCAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.14, G:0.28, T:0.00
Consensus pattern (15 bp):
AGCAAGGAAAGCAAA
Found at i:23589 original size:17 final size:17
Alignment explanation
Indices: 23567--23605 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
23557 TGAATCAAAT
23567 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
23584 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
23601 -AATTA
1 TAATTA
23606 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:23852 original size:87 final size:87
Alignment explanation
Indices: 23746--23918 Score: 328
Period size: 87 Copynumber: 2.0 Consensus size: 87
23736 CGGTTAAAGA
*
23746 AAAAAAAAAGTTCGGTTAATTCGAAAATGATAGTTCGATCGGTTCGGCCACCAAATTAACCAAAT
1 AAAAAAAAAGTTCGATTAATTCGAAAATGATAGTTCGATCGGTTCGGCCACCAAATTAACCAAAT
23811 GAACACCCCTAGTGGGAAGAGG
66 GAACACCCCTAGTGGGAAGAGG
*
23833 AAAAAAAAAGTTCGATTAATTCGAAAATGATAGTTCGATCGGTTCGGCCACCGAATTAACCAAAT
1 AAAAAAAAAGTTCGATTAATTCGAAAATGATAGTTCGATCGGTTCGGCCACCAAATTAACCAAAT
23898 GAACACCCCTAGTGGGAAGAG
66 GAACACCCCTAGTGGGAAGAG
23919 CTCATCTCCC
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (87 bp):
AAAAAAAAAGTTCGATTAATTCGAAAATGATAGTTCGATCGGTTCGGCCACCAAATTAACCAAAT
GAACACCCCTAGTGGGAAGAGG
Found at i:30291 original size:12 final size:12
Alignment explanation
Indices: 30249--30303 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 12
30239 AAATGTAAAT
30249 ATACTAATAATA
1 ATACTAATAATA
*
30261 ATAATAATAATTCTA
1 ATACTAATAA---TA
30276 ATACTAATAATA
1 ATACTAATAATA
*
30288 ATACTTAATTATA
1 ATAC-TAATAATA
30301 ATA
1 ATA
30304 TTTTTTTGAC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
12 15 0.42
13 10 0.28
15 11 0.31
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (12 bp):
ATACTAATAATA
Found at i:30817 original size:111 final size:111
Alignment explanation
Indices: 30619--30823 Score: 288
Period size: 111 Copynumber: 1.8 Consensus size: 111
30609 TGAGGATGGC
* * *
30619 TGGTTATCTAGGGGTGACACTACTCCTACGTGACGAGGAGGTCTGGTCAGTGGATGACACTGTTT
1 TGGTTATCTAGGGGTGACACTACTCCTACATGACGAGGAGGTCTGGTCAGTGGATGACACGGGTT
* * * *
30684 CTACGTGATGAGGATGATATACCATCTTTAGGGATGATAACACGGT
66 ATACGCGATGAGGAAGACATACCATCTTTAGGGATGATAACACGGT
* **
30730 TGGTTATCTAGGGGTGACAC-AGCTCCTACATGATGAGGAGGTCTGGTTGGTGGATGACACGGGT
1 TGGTTATCTAGGGGTGACACTA-CTCCTACATGACGAGGAGGTCTGGTCAGTGGATGACACGGGT
30794 TATACGCGATGAGGACAG-CATACCATCTTT
65 TATACGCGATGAGGA-AGACATACCATCTTT
30824 CAGGATAATG
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
110 1 0.01
111 80 0.98
112 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.28
Consensus pattern (111 bp):
TGGTTATCTAGGGGTGACACTACTCCTACATGACGAGGAGGTCTGGTCAGTGGATGACACGGGTT
ATACGCGATGAGGAAGACATACCATCTTTAGGGATGATAACACGGT
Found at i:30949 original size:66 final size:63
Alignment explanation
Indices: 30834--30989 Score: 179
Period size: 66 Copynumber: 2.4 Consensus size: 63
30824 CAGGATAATG
* * *
30834 GTTTCAAGGGAAACCGACTCAAATATGTCTTTCAAGATAAACTGTCTCAAAGGAGACA-AAATT
1 GTTTCAAGGGAAA-CGTCTCAAAGATGTCTTTCAAGAGAAACTGTCTCAAAGGAGACACAAATT
* * *
30897 CGTTTCAAGGGAAACGTTCTCAAAGATGGGTGTTTCAAGAGAAACTGTCTCAAGGGAGACACAAC
1 -GTTTCAAGGGAAACG-TCTCAAAGAT--GTCTTTCAAGAGAAACTGTCTCAAAGGAGACACAAA
30962 TT
62 TT
* *
30964 GTTTAAAGGGAAACACTCTCAAAGAT
1 GTTTCAAGGGAAAC-GTCTCAAAGAT
30990 TATAAATTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
63 2 0.03
64 21 0.27
66 52 0.66
67 4 0.05
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.24
Consensus pattern (63 bp):
GTTTCAAGGGAAACGTCTCAAAGATGTCTTTCAAGAGAAACTGTCTCAAAGGAGACACAAATT
Found at i:33270 original size:31 final size:31
Alignment explanation
Indices: 33222--33345 Score: 187
Period size: 31 Copynumber: 4.0 Consensus size: 31
33212 CCCGAAGGAC
* * *
33222 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
* *
33253 CAGTCTATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
33284 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
33315 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
33346 TCCTCGACCC
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
31 84 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:41032 original size:3 final size:3
Alignment explanation
Indices: 41024--41100 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
41014 ATCCCAACAG
41024 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
41072 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
41101 CTTAATTATA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:43928 original size:20 final size:20
Alignment explanation
Indices: 43891--43928 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43881 GAGTTTTTTT
*
43891 TTATAATTAATTTATTATGA
1 TTATAATTAATATATTATGA
43911 TTATAATATAATAT-TTAT
1 TTATAAT-TAATATATTAT
43929 TTTAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TTATAATTAATATATTATGA
Found at i:46233 original size:25 final size:25
Alignment explanation
Indices: 46177--46234 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
46167 GAGGATCTTC
*
46177 AATT-ATAAAATAAAATAATTAATT
1 AATTAATAAAACAAAATAATTAATT
* *
46201 -ATGAAATAAAACAAAATAATTATTT
1 AAT-TAATAAAACAAAATAATTAATT
46226 AATTAATAA
1 AATTAATAA
46235 TATATTTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
23 2 0.07
25 23 0.85
26 2 0.07
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (25 bp):
AATTAATAAAACAAAATAATTAATT
Found at i:47461 original size:23 final size:23
Alignment explanation
Indices: 47381--47461 Score: 56
Period size: 25 Copynumber: 3.3 Consensus size: 23
47371 TATTAATACA
* * *
47381 AATTTTTTAATAAAATTTATTTTAT
1 AATTTATTAA-AATATTTAATTT-T
* *
47406 AATTTATAAAAAATGTTTAATATTTT
1 AATTTAT-TAAAATATTT-A-ATTTT
47432 AGA-TTATTAAAATATTTAATTTT
1 A-ATTTATTAAAATATTTAATTTT
47455 AATTTAT
1 AATTTAT
47462 ATATATATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
22 1 0.02
23 10 0.23
24 1 0.02
25 19 0.43
26 9 0.20
27 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
AATTTATTAAAATATTTAATTTT
Found at i:48228 original size:18 final size:19
Alignment explanation
Indices: 48187--48227 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
48177 TAAAAGTTTC
48187 TTTTCTTGATATTTTTAGT
1 TTTTCTTGATATTTTTAGT
48206 TTTTCTTGATATTTTTAGT
1 TTTTCTTGATATTTTTAGT
48225 TTT
1 TTT
48228 CAATCAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.15, C:0.05, G:0.10, T:0.71
Consensus pattern (19 bp):
TTTTCTTGATATTTTTAGT
Found at i:49664 original size:26 final size:24
Alignment explanation
Indices: 49598--49664 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 24
49588 ATAAAGTAAA
*
49598 ATAAATAATAATTT-TATTTAATTT
1 ATAAA-AATAATTTATATATAATTT
* **
49622 GTAAAAATAATACATATATAATATT
1 ATAAAAATAATTTATATATAAT-TT
49647 ATAAGAAATAATTTATAT
1 ATAA-AAATAATTTATAT
49665 TTGTTGGAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
23 6 0.18
24 11 0.33
25 5 0.15
26 11 0.33
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (24 bp):
ATAAAAATAATTTATATATAATTT
Found at i:51480 original size:34 final size:35
Alignment explanation
Indices: 51442--51509 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
51432 AGTTGACTAT
* * *
51442 TATAATATTTATATGGTATTTTATAGTG-TTAATC
1 TATAATATTAATATGATAATTTATAGTGATTAATC
*
51476 TATAATATTAATGTGATAATTTATAGTGATTAAT
1 TATAATATTAATATGATAATTTATAGTGATTAAT
51510 GATATAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 24 0.83
35 5 0.17
ACGTcount: A:0.37, C:0.01, G:0.12, T:0.50
Consensus pattern (35 bp):
TATAATATTAATATGATAATTTATAGTGATTAATC
Found at i:52128 original size:19 final size:20
Alignment explanation
Indices: 52104--52143 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
52094 AAAACATATT
52104 ATTTTTAGTAATT-AATTTA
1 ATTTTTAGTAATTAAATTTA
*
52123 ATTTTTAGTATTTAAATTTA
1 ATTTTTAGTAATTAAATTTA
52143 A
1 A
52144 AATATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
ATTTTTAGTAATTAAATTTA
Found at i:54663 original size:15 final size:15
Alignment explanation
Indices: 54635--54672 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
54625 GATATTTAGT
54635 TGGG-CGGGCAGATG
1 TGGGACGGGCAGATG
*
54649 TGGGACGGGCGGATG
1 TGGGACGGGCAGATG
*
54664 CGGGACGGG
1 TGGGACGGG
54673 TAATGTCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.13, C:0.16, G:0.61, T:0.11
Consensus pattern (15 bp):
TGGGACGGGCAGATG
Found at i:59165 original size:16 final size:17
Alignment explanation
Indices: 59134--59167 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
59124 ATTATTGTGT
*
59134 AAGATGGAATTGAAAGG
1 AAGAAGGAATTGAAAGG
59151 AAGAAGGAA-TGAAAGG
1 AAGAAGGAATTGAAAGG
59167 A
1 A
59168 CAATAGAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (17 bp):
AAGAAGGAATTGAAAGG
Found at i:59882 original size:64 final size:64
Alignment explanation
Indices: 59813--59969 Score: 187
Period size: 64 Copynumber: 2.5 Consensus size: 64
59803 TTGAAGGTGT
** *
59813 ATCGATGCACAGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAAGATCGAATGCA-ATTAGT
1 ATCGATGCACAGGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCATATTA-T
59875 GC
63 GC
* *
59877 ATCGATGCATAAGGTA-TGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATTTTATGC
1 ATCGATGCA-CAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
* *
59941 ACCGATGCACAAGTAGTGCATCGATGCAT
1 ATCGATGCACAGGTAGTGCATCGATGCAT
59970 ACCTTCATTA
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
63 4 0.05
64 64 0.80
65 12 0.15
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (64 bp):
ATCGATGCACAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
Found at i:60369 original size:14 final size:14
Alignment explanation
Indices: 60350--60398 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
60340 TGATATGAGA
60350 ACATGACATGAGCT
1 ACATGACATGAGCT
* **
60364 ACATGATCATAAGAG
1 ACATGA-CATGAGCT
*
60379 AAATGACATGAGCT
1 ACATGACATGAGCT
60393 ACATGA
1 ACATGA
60399 TCACAAGAGA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (14 bp):
ACATGACATGAGCT
Found at i:60385 original size:29 final size:29
Alignment explanation
Indices: 60346--60455 Score: 186
Period size: 29 Copynumber: 3.8 Consensus size: 29
60336 TATGTGATAT
*
60346 GAGAACATGACATGAGCTACATGATCATAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
60376 GAGAAATGACATGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
*
60405 GAGAAATGACATGAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
60434 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
60456 ACATATAAAA
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
28 7 0.09
29 65 0.84
30 5 0.06
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.18
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:60558 original size:15 final size:15
Alignment explanation
Indices: 60540--60573 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
60530 GAGGGTATAA
60540 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
* *
60555 TAGTCTTTCGGGATG
1 TAGTCCTTCGGGACG
60570 TAGT
1 TAGT
60574 GGTCCTACGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.18, G:0.32, T:0.35
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:63463 original size:13 final size:14
Alignment explanation
Indices: 63437--63467 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
63427 TTCTCTTGTG
63437 ATCATGTATCTCAT
1 ATCATGTATCTCAT
63451 ATCATGT-TCTCAT
1 ATCATGTATCTCAT
63464 ATCA
1 ATCA
63468 CATGTCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (14 bp):
ATCATGTATCTCAT
Found at i:63477 original size:12 final size:12
Alignment explanation
Indices: 63460--63495 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
63450 TATCATGTTC
63460 TCATATCACATG
1 TCATATCACATG
*
63472 TCATATCACATA
1 TCATATCACATG
63484 TCATATCACATG
1 TCATATCACATG
63496 AACATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (12 bp):
TCATATCACATG
Found at i:63911 original size:64 final size:63
Alignment explanation
Indices: 63803--63986 Score: 235
Period size: 64 Copynumber: 2.9 Consensus size: 63
63793 TAATGAAGGT
* * ** * **
63803 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTATTATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGT-TTATTATTAATGGG
* **
63867 ATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTTATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATG-TTTATTATTAATGGG
* *
63931 ATGCATCAATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTT-TTATT
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTTTATTATT
63987 TTAAAAGAGT
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
62 5 0.05
63 3 0.03
64 96 0.91
65 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTTTATTATTAATGGG
Found at i:64000 original size:64 final size:64
Alignment explanation
Indices: 63803--64011 Score: 224
Period size: 64 Copynumber: 3.3 Consensus size: 64
63793 TAATGAAGGT
* * ** ** * * *** *
63803 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTATTATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTTTTATTATTAAAGAG
* * *
63867 ATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTTATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTTTTATTATTAAAGAG
* **
63931 ATGCATCAATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTTTTATT-TTAAA-AG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATG-TTTTATTATTAAAGAG
63994 AGTGCATCGATGCACTAC
1 A-TGCATCGATGCACTAC
64012 CAATGCATTG
Statistics
Matches: 125, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
63 2 0.02
64 116 0.93
65 7 0.06
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTTTTATTATTAAAGAG
Found at i:65728 original size:13 final size:13
Alignment explanation
Indices: 65710--65735 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65700 ATGGAAATAG
65710 GTACACCATGTAA
1 GTACACCATGTAA
65723 GTACACCATGTAA
1 GTACACCATGTAA
65736 CCGTATAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (13 bp):
GTACACCATGTAA
Found at i:70199 original size:15 final size:15
Alignment explanation
Indices: 70179--70211 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
70169 CGTAGGACCC
70179 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
70194 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
70209 CTA
1 CTA
70212 TTATACCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.18, T:0.15
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:70375 original size:12 final size:12
Alignment explanation
Indices: 70356--70391 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
70346 TATCATGTTC
70356 TCATATCACATG
1 TCATATCACATG
* *
70368 TTATATCACATA
1 TCATATCACATG
70380 TCATATCACATG
1 TCATATCACATG
70392 AACATATATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (12 bp):
TCATATCACATG
Found at i:70894 original size:64 final size:64
Alignment explanation
Indices: 70697--70922 Score: 206
Period size: 64 Copynumber: 3.5 Consensus size: 64
70687 TAATGAAGGT
* * * ** ** * *** *
70697 ATGCATCGATGCACTACTGATACATCGGTGCATAAAAGGTATTCGATGTATT-ATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGT-TTCATTATTAAAGAG
* * * *
70761 ATACATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAAAGAG
** *
70825 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTTTTATT-TTAAA-AG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATG-TTTCATTATTAAAGAG
** *
70888 AGTGCATCGATGCACTACCAATGCATCGATACACC
1 A-TGCATCGATGCACTACTTATGCATCGATGCACC
70923 TTCAAACAAT
Statistics
Matches: 135, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
63 4 0.03
64 125 0.93
65 6 0.04
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAAAGAG
Done.