Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01018991.1 Corchorus olitorius cultivar O-4 contig19024, 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: 65021
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Found at i:6553 original size:21 final size:19
Alignment explanation
Indices: 6527--6584 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
6517 CTGCTCTTAA
6527 TAATCTCATCTGTACAGTACC
1 TAATCTCATCTGTACAGT--C
* *
6548 TAATCTAATCTGTACAGTG
1 TAATCTCATCTGTACAGTC
6567 TAATCTCATCTGTACAGT
1 TAATCTCATCTGTACAGT
6585 TGCTAAACAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.50
21 17 0.50
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (19 bp):
TAATCTCATCTGTACAGTC
Found at i:10754 original size:13 final size:13
Alignment explanation
Indices: 10736--10766 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
10726 ATGGCTCAAT
10736 GGGTAGTATAAAA
1 GGGTAGTATAAAA
10749 GGGTAGTATAAAA
1 GGGTAGTATAAAA
10762 GGGTA
1 GGGTA
10767 AGGAATCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (13 bp):
GGGTAGTATAAAA
Found at i:11068 original size:2 final size:2
Alignment explanation
Indices: 11029--11055 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11019 TTTGTTCTTT
11029 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
11056 TCTTTCTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11971 original size:4 final size:4
Alignment explanation
Indices: 11960--12198 Score: 135
Period size: 4 Copynumber: 61.5 Consensus size: 4
11950 AAAGATTTTT
* * * * **
11960 TTTA -TTA TTTA TTCA CT-A TTTA TTTC TTTA TTTT TTTA ACTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * *
12005 TCTA TTTA TTTA -CTA TTTA TCTA TTTA TTTA TTT- TTAA CTATTA TCTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -T-TTA TTTA
* * *
12053 TTTA TTTA -CTA TTTA TCTT- TTTA TTTA TTT- TTAA CTATTA TCTA TTTA
1 TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA -T-TTA TTTA TTTA
* * *
12101 TTTA -CTA TTTA TCTT- TTTA TTTA TTAA TTTA ATTA -TTA TTTA TTTA
1 TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * **
12147 TTTA -CTA TTTA TTTT TTTA TTTA TTAA TTTA GCTA -TTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
12193 TTTA TT
1 TTTA TT
12199 ATTATTATTT
Statistics
Matches: 176, Mismatches: 40, Indels: 38
0.69 0.16 0.15
Matches are distributed among these distances:
3 28 0.16
4 136 0.77
5 8 0.05
6 4 0.02
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:12010 original size:19 final size:20
Alignment explanation
Indices: 11988--12123 Score: 79
Period size: 19 Copynumber: 6.5 Consensus size: 20
11978 TTTATTTCTT
11988 TATTTTTTTAACTA-TTATC
1 TATTTTTTTAACTATTTATC
*
12007 TATTTATTT-ACTATTTATC
1 TATTTTTTTAACTATTTATC
12026 TATTTATTTATTTTTAACTA-TTATC
1 ----TA-TT-TTTTTAACTATTTATC
*
12051 TATTTATTT-ACTATTTATC
1 TATTTTTTTAACTATTTATC
12070 TTTTTATTTATTTTTAACTA-TTATC
1 ----TA-TT-TTTTTAACTATTTATC
*
12095 TATTTATTT-ACTATTTATC
1 TATTTTTTTAACTATTTATC
12114 T-TTTTATTTA
1 TATTTT-TTTA
12124 TTAATTTAAT
Statistics
Matches: 92, Mismatches: 6, Indels: 37
0.68 0.04 0.27
Matches are distributed among these distances:
18 15 0.16
19 35 0.38
20 4 0.04
21 4 0.04
23 4 0.04
24 4 0.04
25 18 0.20
26 8 0.09
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTTTTTTAACTATTTATC
Found at i:12021 original size:7 final size:8
Alignment explanation
Indices: 11975--12275 Score: 91
Period size: 8 Copynumber: 37.1 Consensus size: 8
11965 TATTTATTCA
11975 CTATTTAT
1 CTATTTAT
* *
11983 TTCTTTAT
1 CTATTTAT
* * *
11991 TTTTTTAA
1 CTATTTAT
11999 CTA-TTAT
1 CTATTTAT
12006 CTATTTATTT
1 CTATTTA--T
12016 ACTATTTAT
1 -CTATTTAT
12025 CTATTTAT
1 CTATTTAT
* *
12033 TTATTTTTAA
1 CTA--TTTAT
12043 CTA-TTAT
1 CTATTTAT
12050 CTATTTATTT
1 CTATTTA--T
12060 ACTATTTAT
1 -CTATTTAT
*
12069 CTTTTTAT
1 CTATTTAT
* *
12077 TTATTTTTAA
1 CTA--TTTAT
12087 CTA-TTAT
1 CTATTTAT
12094 CTATTTATTT
1 CTATTTA--T
12104 ACTATTTAT
1 -CTATTTAT
*
12113 CTTTTTAT
1 CTATTTAT
* *
12121 TTATTAAT
1 CTATTTAT
* *
12129 TTAATTAT
1 CTATTTAT
12137 -TATTTAT
1 CTATTTAT
*
12144 TTATTTA-
1 CTATTTAT
12151 CTATTTAT
1 CTATTTAT
* *
12159 TTTTTTAT
1 CTATTTAT
* *
12167 TTATTAAT
1 CTATTTAT
* **
12175 TTAGCTAT
1 CTATTTAT
12183 -TATTTAT
1 CTATTTAT
*
12190 TTATTTAT
1 CTATTTAT
12198 -TA-TTAT
1 CTATTTAT
*
12204 -TATTTTT
1 CTATTTAT
* ** *
12211 TTAGCTAC
1 CTATTTAT
12219 CTATTTAT
1 CTATTTAT
12227 CTA-TTATT
1 CTATTTA-T
* *
12235 CTCTGTAT
1 CTATTTAT
12243 CTATTTAT
1 CTATTTAT
*
12251 CCATTTAT
1 CTATTTAT
* * *
12259 CTCTATAC
1 CTATTTAT
12267 CTATTTAT
1 CTATTTAT
12275 C
1 C
12276 CTTTTTTTAT
Statistics
Matches: 215, Mismatches: 55, Indels: 46
0.68 0.17 0.15
Matches are distributed among these distances:
6 6 0.03
7 43 0.20
8 125 0.58
9 5 0.02
10 15 0.07
11 21 0.10
ACGTcount: A:0.25, C:0.10, G:0.01, T:0.64
Consensus pattern (8 bp):
CTATTTAT
Found at i:12055 original size:44 final size:44
Alignment explanation
Indices: 11961--12201 Score: 337
Period size: 44 Copynumber: 5.5 Consensus size: 44
11951 AAGATTTTTT
*
11961 TTAT-TATTTATTCACTATTTAT-TTCTTTA-TT-TTTTTAACTA
1 TTATCTATTTATTTACTATTTATCTT-TTTATTTATTTTTAACTA
*
12002 TTATCTATTTATTTACTATTTATCTATTTATTTATTTTTAACTA
1 TTATCTATTTATTTACTATTTATCTTTTTATTTATTTTTAACTA
12046 TTATCTATTTATTTACTATTTATCTTTTTATTTATTTTTAACTA
1 TTATCTATTTATTTACTATTTATCTTTTTATTTATTTTTAACTA
*
12090 TTATCTATTTATTTACTATTTATCTTTTTATTTATTAATTTAATTA
1 TTATCTATTTATTTACTATTTATCTTTTTATTTATT--TTTAACTA
* * *
12136 TTATTTATTTATTTACTATTTATTTTTTTATTTATTAATTTAGCTA
1 TTATCTATTTATTTACTATTTATCTTTTTATTTATT--TTTAACTA
* *
12182 TTATTTATTTATTTATTATT
1 TTATCTATTTATTTACTATT
12202 ATTATTTTTT
Statistics
Matches: 185, Mismatches: 9, Indels: 7
0.92 0.04 0.03
Matches are distributed among these distances:
41 4 0.02
42 21 0.11
43 3 0.02
44 89 0.48
46 68 0.37
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.66
Consensus pattern (44 bp):
TTATCTATTTATTTACTATTTATCTTTTTATTTATTTTTAACTA
Found at i:12191 original size:15 final size:14
Alignment explanation
Indices: 11962--12192 Score: 82
Period size: 15 Copynumber: 15.9 Consensus size: 14
11952 AGATTTTTTT
*
11962 TATTATTTATTCAC
1 TATTATTTATTTAC
*
11976 TATTTATTTCTTTA-
1 TA-TTATTTATTTAC
* ** *
11990 T-TTTTTTAACTAT
1 TATTATTTATTTAC
12003 TATCTATTTATTTAC
1 TAT-TATTTATTTAC
* *
12018 TATTTATCTATTTATT
1 TA-TTATTTATTTA-C
** *
12034 TATT-TTTAACTAT
1 TATTATTTATTTAC
12047 TATCTATTTATTTAC
1 TAT-TATTTATTTAC
*
12062 TATTTATCTT-TTTATT
1 TA-TTAT-TTATTTA-C
** *
12078 TATT-TTTAACTAT
1 TATTATTTATTTAC
12091 TATCTATTTATTTAC
1 TAT-TATTTATTTAC
*
12106 TATTTATCTT-TTTATT
1 TA-TTAT-TTATTTA-C
* *
12122 TATTAATTTAATTAT
1 TATT-ATTTATTTAC
12137 TATTTATTTATTTAC
1 TA-TTATTTATTTAC
*
12152 TATTTATTTTTTTA-
1 TA-TTATTTATTTAC
*
12166 T-TTATTAATTTAGC
1 TATTATTTATTTA-C
12180 TATTATTTATTTA
1 TATTATTTATTTA
12193 TTTATTATTA
Statistics
Matches: 162, Mismatches: 32, Indels: 45
0.68 0.13 0.19
Matches are distributed among these distances:
12 16 0.10
13 11 0.07
14 16 0.10
15 99 0.61
16 20 0.12
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTTATTTAC
Found at i:18397 original size:30 final size:28
Alignment explanation
Indices: 18358--18421 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 28
18348 TCCTTTTTTC
*
18358 AAAT-ATATTTCTAAAT-TTTCATTATTA
1 AAATAATATTT-TAAATATTTCAATATTA
*
18385 TTAAATAATATTTTAATTATTTCAATATTA
1 --AAATAATATTTTAAATATTTCAATATTA
18415 AAATAAT
1 AAATAAT
18422 GAAAATTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 7 0.23
29 8 0.26
30 16 0.52
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (28 bp):
AAATAATATTTTAAATATTTCAATATTA
Found at i:19930 original size:22 final size:22
Alignment explanation
Indices: 19889--19930 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
19879 TAGAGATCAG
* *
19889 ATTATCAAAATTTTATAGTGTT
1 ATTATCAAAATTTCAAAGTGTT
19911 ATTATCAAAATTTCAAAGTG
1 ATTATCAAAATTTCAAAGTG
19931 AGGCTATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (22 bp):
ATTATCAAAATTTCAAAGTGTT
Found at i:20034 original size:22 final size:22
Alignment explanation
Indices: 19984--20035 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
19974 CGGGTCAACT
* *
19984 AAATTTT-ATAGATAGGTTATC
1 AAATTTTCATAAAGAGGTTATC
*
20005 AAAATTTCATAAAGAGGTTATC
1 AAATTTTCATAAAGAGGTTATC
20027 AAATTTTCA
1 AAATTTTCA
20036 AAATGTGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (22 bp):
AAATTTTCATAAAGAGGTTATC
Found at i:20188 original size:22 final size:22
Alignment explanation
Indices: 20160--20701 Score: 128
Period size: 22 Copynumber: 24.7 Consensus size: 22
20150 TCAGGCAGGA
20160 TATCAAAATTTCATATGAAGGT
1 TATCAAAATTTCATATGAAGGT
**
20182 TATCAAAATTTCATAGTTTA-GT
1 TATCAAAATTTCATA-TGAAGGT
* * * *
20204 TTTCAAAATTTCAT-GGTATGT
1 TATCAAAATTTCATATGAAGGT
* *
20225 AGATCAAAATTTCATAGTG-AGAT
1 -TATCAAAATTTCATA-TGAAGGT
*
20248 TAACAAAATTTCATAATG-AGGT
1 TATCAAAATTTCAT-ATGAAGGT
** * *
20270 TATCAAAAAATCATAGGGAGGT
1 TATCAAAATTTCATATGAAGGT
*
20292 TATCAAAA--T--T-TGTA-GT
1 TATCAAAATTTCATATGAAGGT
* * *
20308 TATCAAGATTTCATAAGGAGGT
1 TATCAAAATTTCATATGAAGGT
* *
20330 TATCAAAATTAT-ATAGGGAGGTT
1 TATCAAAATT-TCATATGAAGG-T
*
20353 TATCAAAATTTTATAGCTAGGAAGGTT
1 TATCAAAATTTCATA--T--GAAGG-T
* * *
20380 TATCAAAGTTTAATA-GCGAGGT
1 TATCAAAATTTCATATG-AAGGT
* * *
20402 TATCACAATTTCATAGTG-TGAT
1 TATCAAAATTTCATA-TGAAGGT
* * *
20424 TATCAAAATTTCAGAGTG-TGAT
1 TATCAAAATTTCATA-TGAAGGT
20446 TA-CTAACAA-TTCATATGAA-GT
1 TATC-AA-AATTTCATATGAAGGT
* * * *
20467 T-TTAAATTTTCATAACG-TGGT
1 TATCAAAATTTCAT-ATGAAGGT
* * *
20488 TATGAATATATCATATTG-AGGT
1 TATCAAAATTTCATA-TGAAGGT
* * **
20510 TATCAACATCTCATAGTGTTGGT
1 TATCAAAATTTCATA-TGAAGGT
20533 TATCAAAATTTCAT-TGGGAA-GT
1 TATCAAAATTTCATAT--GAAGGT
20555 TATCAAAATTTCATAGTG-AGGT
1 TATCAAAATTTCATA-TGAAGGT
* * * *
20577 CT-TCAAAATTCCTTAGGGAGGT
1 -TATCAAAATTTCATATGAAGGT
* * *
20599 TAACAAAATTTCATAAGAAAGT
1 TATCAAAATTTCATATGAAGGT
** **
20621 TAAAAAAAATTT-ATAAAAAGGT
1 T-ATCAAAATTTCATATGAAGGT
* * * **
20643 TCTCGAAATTCCATA-GTATCGT
1 TATCAAAATTTCATATG-AAGGT
* * * **
20665 TATTAAAATTTTATAGGAAAAT
1 TATCAAAATTTCATATGAAGGT
20687 TATCAAAATTTCATA
1 TATCAAAATTTCATA
20702 AGGAGATCAT
Statistics
Matches: 387, Mismatches: 88, Indels: 90
0.68 0.16 0.16
Matches are distributed among these distances:
16 9 0.02
17 2 0.01
18 2 0.01
19 1 0.00
20 11 0.03
21 26 0.07
22 262 0.68
23 52 0.13
24 3 0.01
27 19 0.05
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (22 bp):
TATCAAAATTTCATATGAAGGT
Found at i:20217 original size:44 final size:43
Alignment explanation
Indices: 20160--20613 Score: 184
Period size: 44 Copynumber: 10.3 Consensus size: 43
20150 TCAGGCAGGA
*
20160 TATCAAAATTTCATATGAAGGTTATCAAAATTTCATAGTTTAG-T
1 TATCAAAATTTCATATG-AGGTTATCAAAATTTCATAG-TGAGAT
* * * *
20204 TTTCAAAATTTCAT-GGTATGTAGATCAAAATTTCATAGTGAGAT
1 TATCAAAATTTCATATG-AGGT-TATCAAAATTTCATAGTGAGAT
* ** * *
20248 TAACAAAATTTCATAATGAGGTTATCAAAAAATCATAGGGAGGT
1 TATCAAAATTTCAT-ATGAGGTTATCAAAATTTCATAGTGAGAT
* * *
20292 TATCAAAA-TT--TGT-A-GTTATCAAGATTTCATAAG-GAGGT
1 TATCAAAATTTCATATGAGGTTATCAAAATTTCAT-AGTGAGAT
* * *
20330 TATCAAAATTAT-ATAGGGAGGTTTATCAAAATTTTATAGCTAGGAAGGTT
1 TATCAAAATT-TCATA-TGAGG-TTATCAAAATTTCATAG-T--G-A-GAT
* * * * *
20380 TATCAAAGTTTAATAGCGAGGTTATCACAATTTCATAGTGTGAT
1 TATCAAAATTTCATA-TGAGGTTATCAAAATTTCATAGTGAGAT
* * *
20424 TATCAAAATTTCAGAGTGTGATTA-CTAACAA-TTCATA-TGA-AGT
1 TATCAAAATTTCATA-TGAGGTTATC-AA-AATTTCATAGTGAGA-T
* * * * * * * * *
20467 T-TTAAATTTTCATAACGTGGTTATGAATATATCATATTGAGGT
1 TATCAAAATTTCAT-ATGAGGTTATCAAAATTTCATAGTGAGAT
* * * * *
20510 TATCAACATCTCATAGTGTTGGTTATCAAAATTTCATTGGGA-AGT
1 TATCAAAATTTCATA-TG-AGGTTATCAAAATTTCATAGTGAGA-T
* * * *
20555 TATCAAAATTTCATAGTGAGGTCT-TCAAAATTCCTTAGGGAGGT
1 TATCAAAATTTCATA-TGAGGT-TATCAAAATTTCATAGTGAGAT
*
20599 TAACAAAATTTCATA
1 TATCAAAATTTCATA
20614 AGAAAGTTAA
Statistics
Matches: 309, Mismatches: 68, Indels: 66
0.70 0.15 0.15
Matches are distributed among these distances:
38 26 0.08
39 4 0.01
40 2 0.01
41 3 0.01
42 23 0.07
43 22 0.07
44 136 0.44
45 53 0.17
46 2 0.01
48 2 0.01
49 17 0.06
50 19 0.06
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (43 bp):
TATCAAAATTTCATATGAGGTTATCAAAATTTCATAGTGAGAT
Found at i:20378 original size:27 final size:27
Alignment explanation
Indices: 20329--20396 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
20319 CATAAGGAGG
*
20329 TTATCAAAA--TTATA--TAGGGAGGT
1 TTATCAAAATTTTATAGCTAGGAAGGT
20352 TTATCAAAATTTTATAGCTAGGAAGGT
1 TTATCAAAATTTTATAGCTAGGAAGGT
* *
20379 TTATCAAAGTTTAATAGC
1 TTATCAAAATTTTATAGC
20397 GAGGTTATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 9 0.24
25 5 0.13
27 24 0.63
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.37
Consensus pattern (27 bp):
TTATCAAAATTTTATAGCTAGGAAGGT
Found at i:20935 original size:2 final size:2
Alignment explanation
Indices: 20928--20966 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
20918 ATAATTTGCC
20928 TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20967 GCCGGGTGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21846 original size:178 final size:178
Alignment explanation
Indices: 21476--21858 Score: 504
Period size: 178 Copynumber: 2.2 Consensus size: 178
21466 TTCCACCATA
* * * * *
21476 AGCACAAATTATGTAATATTAAGTAGACTGTCTATTTCCATTAACCGAAACAACTAATTCTTTGG
1 AGCAAAAATTATATAATATTAAGTAGACCGTCTATTCCCATTAACCGAAACAACAAATTCTTTGG
*
21541 AAGCATTTTTTATACCTCGAAAATTAAATTTAGTTTTCGAGTCCTTCATGAAAGTTGTAGATCAT
66 AAGAATTTTTTATACCTCGAAAATTAAATTTAGTTTTCGAGTCCTTCATGAAAGTTGTAGATCAT
* * * *
21606 GGAACAACCTTTCAAGAGACACTTGAATCATCTCAATCAGACATCTGG
131 GGAACAACCTTTCAACAGACACTTAAATCACCTCAATCAGAAATCTGG
* *
21654 AGCAAAAGTTATATAATATTAAGTGGACCGTCTATTCCCATTAACCGAAACAACAAATT-TTTCG
1 AGCAAAAATTATATAATATTAAGTAGACCGTCTATTCCCATTAACCGAAACAACAAATTCTTT-G
* * *
21718 GAAGAATTTTTTATA-CTTGAAACATTAAATTTAGTTTTCGAGTCCTTCATGAGAGTTGTAGATG
65 GAAGAATTTTTTATACCTCGAAA-ATTAAATTTAGTTTTCGAGTCCTTCATGAAAGTTGTAGATC
* * * * *
21782 ATGGAATAATCTTTTAACAGACACTTAAATCACCTTAATCGGATAATC-GG
129 ATGGAACAACCTTTCAACAGACACTTAAATCACCTCAATCAGA-AATCTGG
* *
21832 AG-AGAAAATTATATAATGTTAAATAGA
1 AGCA-AAAATTATATAATATTAAGTAGA
21859 TCGTTTAGTC
Statistics
Matches: 177, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
177 10 0.06
178 164 0.93
179 3 0.02
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (178 bp):
AGCAAAAATTATATAATATTAAGTAGACCGTCTATTCCCATTAACCGAAACAACAAATTCTTTGG
AAGAATTTTTTATACCTCGAAAATTAAATTTAGTTTTCGAGTCCTTCATGAAAGTTGTAGATCAT
GGAACAACCTTTCAACAGACACTTAAATCACCTCAATCAGAAATCTGG
Found at i:35908 original size:92 final size:93
Alignment explanation
Indices: 35751--35938 Score: 306
Period size: 92 Copynumber: 2.0 Consensus size: 93
35741 ATATGGGTGA
35751 TTATATAGCGGTGTTTGCCCAAACGTTGCTATATGATTCTCTTAAACTGAATATAGCAGCACTTC
1 TTATATAGCGGTGTTTGCCCAAACGTTGCTATATGATTCTCTTAAACTGAATATAGCAGCACTTC
* *
35816 TCAACAAATCACCGCAGT-TTCGGGCGT
66 TCAACAAATCACCACAATCTTCGGGCGT
* * * *
35843 TTATATAGCGGTGTTTGCTCAAACGTTGCTATATGATTCTCTTAAATTGAATATAGCGGCGCTTC
1 TTATATAGCGGTGTTTGCCCAAACGTTGCTATATGATTCTCTTAAACTGAATATAGCAGCACTTC
*
35908 TCAACAAATCACCACAATCTTCTGGCGT
66 TCAACAAATCACCACAATCTTCGGGCGT
35936 TTA
1 TTA
35939 ATCATATAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
92 77 0.88
93 11 0.12
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (93 bp):
TTATATAGCGGTGTTTGCCCAAACGTTGCTATATGATTCTCTTAAACTGAATATAGCAGCACTTC
TCAACAAATCACCACAATCTTCGGGCGT
Found at i:38609 original size:22 final size:22
Alignment explanation
Indices: 38591--39288 Score: 251
Period size: 22 Copynumber: 31.0 Consensus size: 22
38581 ATACATAGGA
*
38591 AGGTTATCAATATTTCATAGTG
1 AGGTTATCAAAATTTCATAGTG
* *
38613 TGGTTACCAAAATTTCATA-TGG
1 AGGTTATCAAAATTTCATAGT-G
*
38635 AGGTTATCAAAACTTCATAGTG
1 AGGTTATCAAAATTTCATAGTG
*
38657 TA-GTTATCAAAATTTTATA-TAG
1 -AGGTTATCAAAATTTCATAGT-G
** ***
38679 AAATTA-CAAAAATTTCATAAAA
1 AGGTTATC-AAAATTTCATAGTG
* * **
38701 AGATTATCAAAATTTCTTACAG
1 AGGTTATCAAAATTTCATAGTG
* * *
38723 ATGTTAACAAAATTTCATACG-A
1 AGGTTATCAAAATTTCATA-GTG
* * *
38745 AGGTTATCGATATTTTATAGTG
1 AGGTTATCAAAATTTCATAGTG
* * *
38767 TGGTTATCTAAATTTTATAAG-G
1 AGGTTATCAAAATTTCAT-AGTG
* * *
38789 ATGTTAACAAAATTTCATAGGG
1 AGGTTATCAAAATTTCATAGTG
38811 AGGGATGTTATCAAAA-TT--T-GT-
1 A--G--GTTATCAAAATTTCATAGTG
* * * *
38832 -GCTTATCCAAATTTCCTAGAG
1 AGGTTATCAAAATTTCATAGTG
* * *
38853 AGGTTAGCAAAATGTCATAGGG
1 AGGTTATCAAAATTTCATAGTG
* * * ** *
38875 AGATTATGAAAATTTTACGGAG
1 AGGTTATCAAAATTTCATAGTG
** * **
38897 ATATTATCAAAATTACATAGAA
1 AGGTTATCAAAATTTCATAGTG
* * *
38919 AGGATATCACAATTTCATTCTCAAATGG
1 AGGTTATCAAAATTTCA---T--AGT-G
*
38947 AGGTTATCAAAATTTCATGGTG
1 AGGTTATCAAAATTTCATAGTG
* * *
38969 TGATTA-CAAAATTTTATGAG-G
1 AGGTTATCAAAATTTCAT-AGTG
*
38990 AGGTTATCAAATTTTTCATAGTG
1 AGGTTATCAAA-ATTTCATAGTG
* * *
39013 TGGTTA-C-CAATTTTATAGTG
1 AGGTTATCAAAATTTCATAGTG
* * * *
39033 TGATTATCAAAATTTAATAGGG
1 AGGTTATCAAAATTTCATAGTG
* * *
39055 AGATTATCACAATTTCACAATTCACACTG
1 AGGTTATCAAAATTT--C-A-T---AGTG
39084 AGGTTATCAAAATTTCATAGTG
1 AGGTTATCAAAATTTCATAGTG
* * * *
39106 TGATTATCAAAATTTAATAGGG
1 AGGTTATCAAAATTTCATAGTG
* * *
39128 AGATTATCACAATTTCACAATTCACACTG
1 AGGTTATCAAAATTT--C-A-T---AGTG
39157 AGGTTATCAAAATTTCATAGTG
1 AGGTTATCAAAATTTCATAGTG
* *
39179 TGCTTATCAAAATTTCATAGTG
1 AGGTTATCAAAATTTCATAGTG
* *
39201 TGGTTATCAAAATTTCACAGTG
1 AGGTTATCAAAATTTCATAGTG
* *
39223 TGGTTATCAAATTTTCATAAG-G
1 AGGTTATCAAAATTTCAT-AGTG
* * * *
39245 TGGTTATCCATATTTCATAATG
1 AGGTTATCAAAATTTCATAGTG
* *
39267 AGGTTATCAAATTTTCACAGTG
1 AGGTTATCAAAATTTCATAGTG
39289 TGAAAATCAA
Statistics
Matches: 499, Mismatches: 127, Indels: 100
0.69 0.17 0.14
Matches are distributed among these distances:
16 8 0.02
17 2 0.00
18 1 0.00
19 1 0.00
20 15 0.03
21 25 0.05
22 358 0.72
23 20 0.04
25 8 0.02
26 13 0.03
27 3 0.01
28 15 0.03
29 30 0.06
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (22 bp):
AGGTTATCAAAATTTCATAGTG
Found at i:39140 original size:73 final size:73
Alignment explanation
Indices: 38946--39219 Score: 343
Period size: 73 Copynumber: 3.9 Consensus size: 73
38936 TTCTCAAATG
* * *
38946 GAGGTTATCAAAATTTCATGGTGTGATTA-CAAAATTTTAT-GAGGAGGTTATCA-AATTT----
1 GAGGTTATCAAAATTTCATAGTGTGATTATCAAAATTTAATAG-GGAGATTATCACAATTTCACA
* *
39004 -TTCATAGT
65 ATTCACACT
* * *
39012 GTGGTTA-C-CAATTTTATAGTGTGATTATCAAAATTTAATAGGGAGATTATCACAATTTCACAA
1 GAGGTTATCAAAATTTCATAGTGTGATTATCAAAATTTAATAGGGAGATTATCACAATTTCACAA
39075 TTCACACT
66 TTCACACT
39083 GAGGTTATCAAAATTTCATAGTGTGATTATCAAAATTTAATAGGGAGATTATCACAATTTCACAA
1 GAGGTTATCAAAATTTCATAGTGTGATTATCAAAATTTAATAGGGAGATTATCACAATTTCACAA
39148 TTCACACT
66 TTCACACT
* * * * * *
39156 GAGGTTATCAAAATTTCATAGTGTGCTTATCAAAATTTCATAGTGTGGTTATCAAAATTTCACA
1 GAGGTTATCAAAATTTCATAGTGTGATTATCAAAATTTAATAGGGAGATTATCACAATTTCACA
39220 GTGTGGTTAT
Statistics
Matches: 181, Mismatches: 17, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
64 16 0.09
65 21 0.12
66 12 0.07
71 12 0.07
72 1 0.01
73 119 0.66
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (73 bp):
GAGGTTATCAAAATTTCATAGTGTGATTATCAAAATTTAATAGGGAGATTATCACAATTTCACAA
TTCACACT
Found at i:39298 original size:66 final size:66
Alignment explanation
Indices: 39162--39303 Score: 169
Period size: 66 Copynumber: 2.1 Consensus size: 66
39152 CACTGAGGTT
* * * **
39162 ATCAAAATTTCATAGTGTGCTTATCAAAATTTCATAGTGTGGTTATCAAAATTTCACAGTGTGGT
1 ATCAAATTTTCATAGTGTGCTTATCAAAATTTCATAATGAGGTTATCAAAATTTCACAGTGTGAA
*
39227 T
66 A
* * * *
39228 ATCAAATTTTCATAAG-GTGGTTATCCATATTTCATAATGAGGTTATCAAATTTTCACAGTGTGA
1 ATCAAATTTTCAT-AGTGTGCTTATCAAAATTTCATAATGAGGTTATCAAAATTTCACAGTGTGA
39292 AA
65 AA
39294 ATCAATATTT
1 ATCAA-ATTT
39304 CTACGTTCGA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
66 58 0.91
67 6 0.09
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (66 bp):
ATCAAATTTTCATAGTGTGCTTATCAAAATTTCATAATGAGGTTATCAAAATTTCACAGTGTGAA
A
Found at i:41171 original size:106 final size:104
Alignment explanation
Indices: 40944--41204 Score: 407
Period size: 106 Copynumber: 2.5 Consensus size: 104
40934 AATTTTTCTA
* * **
40944 ACCCTTAAAGTAAAATTTTAATTTTAATTTGGGCTAAACTTAGTG-AATTAGTTATATACTTTAT
1 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGCTAAACTTAGTGAAATTAGTTATATACTTTAT
*
41008 TTCTAAAACCCTATAACAATATTATTAATTATGGAATTT
66 TTCTAAAACCCTATAACAATATTATTAATTATGAAATTT
* * *
41047 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGCTAAACTTAGTGAAATTAGTTTTGTATTTTAT
1 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGCTAAACTTAGTGAAATTAGTTATATACTTTAT
*
41112 TTCTAAAACCCTATAACAATAAATTATTAATTTTGAAATTT
66 TTCTAAAACCCTATAACAAT--ATTATTAATTATGAAATTT
41153 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTA
1 ACCCTTAAAATAAAAATAAAATTTTAATTT-GGGCTAAACTTAGTGAAATTA
41205 AGGCTAAACT
Statistics
Matches: 145, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
103 41 0.28
104 36 0.25
106 47 0.32
107 21 0.14
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (104 bp):
ACCCTTAAAATAAAAATAAAATTTTAATTTGGGCTAAACTTAGTGAAATTAGTTATATACTTTAT
TTCTAAAACCCTATAACAATATTATTAATTATGAAATTT
Found at i:47036 original size:68 final size:65
Alignment explanation
Indices: 46925--47054 Score: 179
Period size: 68 Copynumber: 2.0 Consensus size: 65
46915 CACCCCCTTA
* * *
46925 GTATTTTCGGAAAAAAAAATGTATGGCGGCGTTTAAACACCTCTAAATGACGGTGTTTAAACTTG
1 GTATTTTCGAAAAAAAAAATGTATGACGGCGTTTAAACACCTCTAAATGACGGCGTTTAAACTTG
* * *
46990 GTATTTTCGAAAAAAAAAAATTTGTATGATGGCGTTTAAACGCCTCTACATGACGGCGTTTAAAC
1 GTATTTTCG-AAAAAAAAAA--TGTATGACGGCGTTTAAACACCTCTAAATGACGGCGTTTAAAC
47055 GCTGCTATAT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
65 9 0.16
66 9 0.16
68 38 0.68
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (65 bp):
GTATTTTCGAAAAAAAAAATGTATGACGGCGTTTAAACACCTCTAAATGACGGCGTTTAAACTTG
Found at i:54488 original size:39 final size:39
Alignment explanation
Indices: 54434--54511 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
54424 AAAGGTACTT
54434 GCCCATATTTTATTACTGTTGAAGAAATCAAATCAAAGA
1 GCCCATATTTTATTACTGTTGAAGAAATCAAATCAAAGA
54473 GCCCATATTTTATTACTGTTGAAGAAATCAAATCAAAGA
1 GCCCATATTTTATTACTGTTGAAGAAATCAAATCAAAGA
54512 ATCGCGAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (39 bp):
GCCCATATTTTATTACTGTTGAAGAAATCAAATCAAAGA
Found at i:54717 original size:7 final size:7
Alignment explanation
Indices: 54705--54731 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
54695 TAAAATTGCC
54705 TGCTCAG
1 TGCTCAG
54712 TGCTCAG
1 TGCTCAG
54719 TGCTCAG
1 TGCTCAG
54726 TGCTCA
1 TGCTCA
54732 ACAAAAGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.30, G:0.26, T:0.30
Consensus pattern (7 bp):
TGCTCAG
Found at i:54859 original size:7 final size:6
Alignment explanation
Indices: 54840--54891 Score: 77
Period size: 6 Copynumber: 8.3 Consensus size: 6
54830 ATATTGAAAC
*
54840 AAACAA AAACAA AAACCA AAACAAA AAACAAA AAACAA AAACAA AAACAA
1 AAACAA AAACAA AAACAA AAAC-AA AAAC-AA AAACAA AAACAA AAACAA
54890 AA
1 AA
54892 CAACAAGACA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 31 0.72
7 12 0.28
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACAA
Found at i:54868 original size:19 final size:19
Alignment explanation
Indices: 54836--54897 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
54826 AATGATATTG
54836 AAAC-AAAC-AAAAACAAA
1 AAACAAAACAAAAAACAAA
*
54853 AACCAAAACAAAAAACAAA
1 AAACAAAACAAAAAACAAA
54872 AAACAAAA-ACAAAAACAAA
1 AAACAAAACA-AAAAACAAA
54891 ACAACAA
1 A-AACAA
54898 GACAGAAGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.08
18 5 0.13
19 26 0.67
20 5 0.13
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (19 bp):
AAACAAAACAAAAAACAAA
Found at i:58069 original size:22 final size:22
Alignment explanation
Indices: 58044--58113 Score: 97
Period size: 22 Copynumber: 3.2 Consensus size: 22
58034 TATTTTTATG
*
58044 AAATTTTGATAACTACCCTATT
1 AAATTTTGATAACTACCCTATA
* *
58066 AAATTTTGATAACTACCATATG
1 AAATTTTGATAACTACCCTATA
*
58088 AAATTTTGATAATTA-CCTATA
1 AAATTTTGATAACTACCCTATA
58109 AAATT
1 AAATT
58114 GTGGTAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 9 0.21
22 34 0.79
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (22 bp):
AAATTTTGATAACTACCCTATA
Found at i:58128 original size:43 final size:44
Alignment explanation
Indices: 58040--58143 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 44
58030 TGAATATTTT
* * *
58040 TATGAAATTTTGATAACTACCCTATTAAATTTTGATAACTACCA
1 TATGAAATTTTGATAACTACCCTATAAAATTGTGATAAATACCA
* * *
58084 TATGAAATTTTGATAATTA-CCTATAAAATTGTGGTAAATTCCA
1 TATGAAATTTTGATAACTACCCTATAAAATTGTGATAAATACCA
* *
58127 TAAGAAACTTTGATAAC
1 TATGAAATTTTGATAAC
58144 CTAACAATGA
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
43 33 0.65
44 18 0.35
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (44 bp):
TATGAAATTTTGATAACTACCCTATAAAATTGTGATAAATACCA
Found at i:64387 original size:40 final size:41
Alignment explanation
Indices: 64326--64629 Score: 212
Period size: 40 Copynumber: 7.9 Consensus size: 41
64316 CAAAATCTTC
* * *
64326 GATGGGATATTTCCCCT-AATTGAAAGCTTGAAAAAGACTA
1 GATGGGATCTTTACCCTAAATTGAAAACTTGAAAAAGACTA
* * *
64366 AATGGGATCTTT-CCTTAAATTGAAAACTTG-AAAA-ACTC
1 GATGGGATCTTTACCCTAAATTGAAAACTTGAAAAAGACTA
* * *
64404 GACGGGATCTTT-CCCTAAAATTTAAAAATTTTGAAGAAAGACTA
1 GATGGGATCTTTACCCT-AAA-TTGAAAA-CTTGAA-AAAGACTA
64448 GATGGGATCTTTACCCTAAATT-AAAACTCTGAAAAAGAC-A
1 GATGGGATCTTTACCCTAAATTGAAAACT-TGAAAAAGACTA
*
64488 GGATGAGATCTTT-CCCTAAATT-AAAA--T-------ACTA
1 -GATGGGATCTTTACCCTAAATTGAAAACTTGAAAAAGACTA
* *
64519 GATGGGATCTTT-CCCTAAATTGAAATCTTG---AATACTA
1 GATGGGATCTTTACCCTAAATTGAAAACTTGAAAAAGACTA
* *
64556 GATGGGATCTTT-CCCTAATTTTGAAATCTTG-AAAA-ACTA
1 GATGGGATCTTTACCCTAA-ATTGAAAACTTGAAAAAGACTA
*
64595 GGTGGGATCTTT-CCCTAAATT-AAAACTTTGAAAAA
1 GATGGGATCTTTACCCTAAATTGAAAAC-TTGAAAAA
64630 TACTTTGGTG
Statistics
Matches: 221, Mismatches: 20, Indels: 47
0.77 0.07 0.16
Matches are distributed among these distances:
30 22 0.10
31 4 0.02
33 1 0.00
37 27 0.12
38 32 0.14
39 35 0.16
40 44 0.20
41 21 0.10
42 9 0.04
43 5 0.02
44 17 0.08
45 4 0.02
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (41 bp):
GATGGGATCTTTACCCTAAATTGAAAACTTGAAAAAGACTA
Found at i:64514 original size:82 final size:81
Alignment explanation
Indices: 64353--64507 Score: 204
Period size: 82 Copynumber: 1.9 Consensus size: 81
64343 AATTGAAAGC
* * *
64353 TTGAAAAAGACTAAATGGGATCTTTCCTTAAATTGAAAACTTGAAAAACTCGACGGGATCTTTCC
1 TTGAAAAAGACTAAATGGGATCTTTCCCTAAATTGAAAACTTGAAAAACACGACGAGATCTTTCC
64418 CTAAAATTTAAAAATT
66 CTAAAATTTAAAAATT
* * *
64434 TTGAAGAAAGACTAGATGGGATCTTTACCCTAAATT-AAAACTCTGAAAAAGACAGGATGAGATC
1 TTGAA-AAAGACTAAATGGGATCTTT-CCCTAAATTGAAAACT-TG-AAAA-ACACGACGAGATC
64498 TTTCCCTAAA
61 TTTCCCTAAA
64508 TTAAAATACT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
81 5 0.08
82 25 0.40
83 10 0.16
84 4 0.06
85 19 0.30
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (81 bp):
TTGAAAAAGACTAAATGGGATCTTTCCCTAAATTGAAAACTTGAAAAACACGACGAGATCTTTCC
CTAAAATTTAAAAATT
Found at i:64530 original size:30 final size:32
Alignment explanation
Indices: 64489--64618 Score: 102
Period size: 37 Copynumber: 3.8 Consensus size: 32
64479 AAAAAGACAG
*
64489 GATGAGATCTTTCCCTAAATT-AA-AATACTA
1 GATGGGATCTTTCCCTAAATTAAATAATACTA
64519 GATGGGATCTTTCCCTAAATTGAAATCTTGAATACTA
1 GATGGGATCTTTCCCTAAATT-AAA---T-AATACTA
* *
64556 GATGGGATCTTTCCCTAATTTTGAAATCTTGAAAAACTA
1 GATGGGATCTTTCCCTAA-ATT-AAA---T--AATACTA
*
64595 GGTGGGATCTTTCCCTAAATTAAA
1 GATGGGATCTTTCCCTAAATTAAA
64619 ACTTTGAAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
30 20 0.24
32 2 0.02
37 28 0.33
38 12 0.14
39 23 0.27
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (32 bp):
GATGGGATCTTTCCCTAAATTAAATAATACTA
Found at i:64562 original size:37 final size:38
Alignment explanation
Indices: 64511--64615 Score: 167
Period size: 37 Copynumber: 2.8 Consensus size: 38
64501 CCCTAAATTA
64511 AAATACTAGATGGGATCTTTCCCTAAATTGAAATCTTG
1 AAATACTAGATGGGATCTTTCCCTAAATTGAAATCTTG
*
64549 -AATACTAGATGGGATCTTTCCCTAATTTTGAAATCTTG
1 AAATACTAGATGGGATCTTTCCCTAA-ATTGAAATCTTG
* *
64587 AAAAACTAGGTGGGATCTTTCCCTAAATT
1 AAATACTAGATGGGATCTTTCCCTAAATT
64616 AAAACTTTGA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
37 25 0.41
38 13 0.21
39 23 0.38
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (38 bp):
AAATACTAGATGGGATCTTTCCCTAAATTGAAATCTTG
Found at i:64606 original size:39 final size:38
Alignment explanation
Indices: 64510--64629 Score: 163
Period size: 37 Copynumber: 3.1 Consensus size: 38
64500 TCCCTAAATT
64510 AAAATACTAGATGGGATCTTTCCCTAAATTGAAATCTTG
1 AAAA-ACTAGATGGGATCTTTCCCTAAATTGAAATCTTG
* *
64549 -AATACTAGATGGGATCTTTCCCTAATTTTGAAATCTTG
1 AAAAACTAGATGGGATCTTTCCCTAA-ATTGAAATCTTG
* *
64587 AAAAACTAGGTGGGATCTTTCCCTAAATT-AAAACTTTG
1 AAAAACTAGATGGGATCTTTCCCTAAATTGAAATC-TTG
64625 AAAAA
1 AAAAA
64630 TACTTTGGTG
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
37 26 0.36
38 23 0.32
39 23 0.32
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (38 bp):
AAAAACTAGATGGGATCTTTCCCTAAATTGAAATCTTG
Done.