Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005993.1 Hibiscus syriacus cultivar Beakdansim tig00014105_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: 48550
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Found at i:3596 original size:80 final size:81
Alignment explanation
Indices: 3445--3614 Score: 288
Period size: 80 Copynumber: 2.1 Consensus size: 81
3435 ATGCATTTAG
* * *
3445 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGC
1 TCTTTTATTCAAAGGTATTTAAACTTTCATCTAACTGGCATGATTGACACCTTTATGTCAAATGC
3510 ACAGCTAGGCAATTAA
66 ACAGCTAGGCAATTAA
*
3526 TCTTTTATTCAAATGTATTTAAACTTTCATCTAACT-GCATGATTGACACCTTTATGTCAAATGC
1 TCTTTTATTCAAAGGTATTTAAACTTTCATCTAACTGGCATGATTGACACCTTTATGTCAAATGC
*
3590 ACAGCTAGGTAATTAA
66 ACAGCTAGGCAATTAA
3606 TCTTTTATT
1 TCTTTTATT
3615 TTAAACAGTT
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
80 51 0.61
81 33 0.39
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (81 bp):
TCTTTTATTCAAAGGTATTTAAACTTTCATCTAACTGGCATGATTGACACCTTTATGTCAAATGC
ACAGCTAGGCAATTAA
Found at i:17617 original size:42 final size:41
Alignment explanation
Indices: 17557--17635 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 41
17547 GCCATCAGTA
* *
17557 AGTCTTTCGAGCATGATGATTAAATCCTTTGGGTCATCTGCC
1 AGTCTTTCGAGCAAGATGA-TAAATCCTTTGGGCCATCTGCC
* **
17599 AGTCTTTCGAGTAAGATGATATGTCCTTTGGGCCATC
1 AGTCTTTCGAGCAAGATGATAAATCCTTTGGGCCATC
17636 CGTAAGACCT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 15 0.47
42 17 0.53
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (41 bp):
AGTCTTTCGAGCAAGATGATAAATCCTTTGGGCCATCTGCC
Found at i:17638 original size:256 final size:256
Alignment explanation
Indices: 17165--17702 Score: 780
Period size: 256 Copynumber: 2.1 Consensus size: 256
17155 AGTTTCCCAT
** * *
17165 AATGAGAAAGAAATTTCCAAAGTTTCTCATTTAGTATTTTCAGAAAATTAAATTTTTGAAAAGTA
1 AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTCAAAAAATGAAATTTTTGAAAAGTA
* *
17230 AGAAAGTGATTTCCAATGTTTCTTACCAGTAAACTATTTTCCAAATTGGTAAGTCCTTCAGGCCA
66 AGAAAGTGATTTCCAAAGTTTCTTACCAGTAAACTATTTTCCAAATTGGTAAGTCATTCAGGCCA
* * * *
17295 TTAGTAAGTCTTTTGAGCATGATGATTAAATCATTCGGGTCATCTATAAGTCTTTCAAGCGAGAT
131 TCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTCATCTACAAGTCTTTCAAGCAAGAT
* * *
17360 GATAAGCCATTTGGGTCATCCGTAAGACCTTCAGGTAGAATGTTTTCACA-AGAATTTGAAA
196 GATAAGCCATTTGGGCCATCCGTAAGACCTTCAAGCAGAATGTTTTCACATA-AATTTGAAA
17421 AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTCAAAAAATGAAATTTTTGAAAAGTA
1 AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTCAAAAAATGAAATTTTTGAAAAGTA
17486 AGAAAGTGATTTCCAAAGTTT-TTACCTAGTAAACTA-TTTCCTAAATTGGTAAGTCATTCCA-G
66 AGAAAGTGATTTCCAAAGTTTCTTACC-AGTAAACTATTTTCC-AAATTGGTAAGTCATT-CAGG
* * * * * *
17548 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTCATCTGCCAGTCTTTCGAGTAA
128 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTCATCTACAAGTCTTTCAAGCAA
* * *
17613 GATGATATGTCC-TTTGGGCCATCCGTAAGACCTTCAAGCAGGATGTTTTCACATAACTTTGAAA
193 GATGATAAG-CCATTTGGGCCATCCGTAAGACCTTCAAGCAGAATGTTTTCACATAAATTTGAAA
* *
17677 AATGGGAAAGCGATTTTCAAAGTTTC
1 AATGAGAAAGCGATTTCCAAAGTTTC
17703 CCGTAATGAG
Statistics
Matches: 253, Mismatches: 24, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
255 10 0.04
256 238 0.94
257 5 0.02
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Consensus pattern (256 bp):
AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTCAAAAAATGAAATTTTTGAAAAGTA
AGAAAGTGATTTCCAAAGTTTCTTACCAGTAAACTATTTTCCAAATTGGTAAGTCATTCAGGCCA
TCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTCATCTACAAGTCTTTCAAGCAAGAT
GATAAGCCATTTGGGCCATCCGTAAGACCTTCAAGCAGAATGTTTTCACATAAATTTGAAA
Found at i:17945 original size:287 final size:287
Alignment explanation
Indices: 17421--17985 Score: 828
Period size: 287 Copynumber: 2.0 Consensus size: 287
17411 GAATTTGAAA
*
17421 AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTCAAAAAATGAAATTTTTGAAAAGTA
1 AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTACTTTCAAAAAATGAAATTTTTGAAAAGTA
* * * *
17486 AGAAAGTGATTTCCAAAGTTTTTACCTAGTAAACTATTTCCTAAATTGGTAAGTCATTCCAGCCA
66 AGAAAGCGATTTCCAAAATTTTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCATTCCAGCCA
* * ** * *
17551 TCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTCATCTGCCAGTCTTTCGAGTAAGAT
131 TCAGTAAGTCTTTCAAGCATGATGATTAAATCATTCAGGTCATCTGCAAGTCTTTCGAGCAAGAT
* * *
17616 GATATGTCCTTTGGGCCATCCGTAAGACCTTCAAGCAGGATG-TTTTCACAT-AACTTTGAAAAA
196 GATAAGTCATTTGAGCCATCCGTAAGACCTTCAAGCAGGATGTTTTTCACATGAA-TTTGAAAAA
* *
17679 TGGGAAAGCGATTTTCAAAGTTTCCCGT
260 TGAGAAAGCGATTTCCAAAGTTTCCCGT
* * *
17707 AATGAGAAAGTGATTTCCAAAGTTTCTCATTTAGTACTTTCAGAAAATTAAATTTTTGAAAAGTA
1 AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTACTTTCAAAAAATGAAATTTTTGAAAAGTA
* **
17772 AGAAAGCGATTTCCAAAATTTCTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCCTTCGGGCC
66 AGAAAGCGATTTCCAAAATTT-TTACCCAGTAAACTATTTCCCAAATTGGTAAGTCATTCCAGCC
* * *
17837 ATTAGTAAGTCTTTCAAGCATGATGATTAAATCATTCAGGTCATCTGTAAGTCTTTCGAGCGAGA
130 ATCAGTAAGTCTTTCAAGCATGATGATTAAATCATTCAGGTCATCTGCAAGTCTTTCGAGCAAGA
* * * *
17902 TGATAAGTCATTTGATCCATCTGTAAGACCTTCAGGTAGGATGTTTTTCACATGAATTTGAAAAA
195 TGATAAGTCATTTGAGCCATCCGTAAGACCTTCAAGCAGGATGTTTTTCACATGAATTTGAAAAA
*
17967 TGAGAAAGTGATTTCCAAA
260 TGAGAAAGCGATTTCCAAA
17986 TTTTTTCATT
Statistics
Matches: 246, Mismatches: 30, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
286 80 0.33
287 130 0.53
288 34 0.14
289 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (287 bp):
AATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTACTTTCAAAAAATGAAATTTTTGAAAAGTA
AGAAAGCGATTTCCAAAATTTTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCATTCCAGCCA
TCAGTAAGTCTTTCAAGCATGATGATTAAATCATTCAGGTCATCTGCAAGTCTTTCGAGCAAGAT
GATAAGTCATTTGAGCCATCCGTAAGACCTTCAAGCAGGATGTTTTTCACATGAATTTGAAAAAT
GAGAAAGCGATTTCCAAAGTTTCCCGT
Found at i:18190 original size:259 final size:257
Alignment explanation
Indices: 17707--18333 Score: 873
Period size: 259 Copynumber: 2.4 Consensus size: 257
17697 AGTTTCCCGT
* * *
17707 AATGAGAAAGTGATTTCCAAAGTTTCTCATTTAGTACTTTCAGAAAATTAAATTTTTGAAAAGTA
1 AATGAGAAAGTGATTTCCAAAGTTTTTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAAGTA
* * * *
17772 AGAAAGCGATTTCCAAAATTTCTTACCCAGTAAACTATTTCCCAAATTGGTAAGTCCTTCGGGCC
66 AGAAAGTGATTTCCAAAGTTTCTTACCCAGTAAACTATTT-CCAAATTGATAAGTCATTCGGGCC
* * *
17837 ATTAGTAAGTCTTTCAAGCATGATGATTAAATCATTCAGGTCATCTGTAAGTCTTTCGAGCGAGA
130 ATCAGTAAGTCTTTCAAGCATGATGATTAAATCATTCAGGTCATCTGTAACTCTTTCGAGCAAGA
* * *
17902 TGATAAGTCATTTGATCCATCTGTAAGACCTTC-AGGTAGGATGTTTTTCACATGA-ATTTGAAA
195 TGATAAGTCATTTGAGCCATCTATAAGACCTTCGA-GTAGGATG-TTCTCACATGATATTTGAAA
* *
17965 AATGAGAAAGTGATTTCCAAATTTTTTCATTTAGTATTTTCAGAAAATGAATTTTTTTGAAAAGT
1 AATGAGAAAGTGATTTCCAAAGTTTTTCATTTAGTATTTTCAGAAAATGAA-ATTTTTGAAAAGT
*
18030 ATGAAAGTGATTTCCAAAGTTTCTTACCCAGTAAACTATTTACCAAATTGATAAGTCATTCGGGC
65 AAGAAAGTGATTTCCAAAGTTTCTTACCCAGTAAACTATTT-CCAAATTGATAAGTCATTCGGGC
* * * * * *
18095 CATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCTGGTCTTTTGTCACTCTTTCGAGTAAG
129 CATCAGTAAGTCTTTCAAGCATGATGATTAAATCATTCAGGTCATCTGTAACTCTTTCGAGCAAG
* * * * *
18160 AT-ATTAAGTCCTTTGGGCCCTCTATAAGACCTTCGAGTAGGATGTTCTCACATGATTTTTGAGA
194 ATGA-TAAGTCATTTGAGCCATCTATAAGACCTTCGAGTAGGATGTTCTCACATGATATTTGAAA
* ** * * *
18224 AATGAGAAAGCGATTTTTAAAGTTTTTCATTTAATGTTTTTAGAAAATGAAATTTTTGAAAAGTA
1 AATGAGAAAGTGATTTCCAAAGTTTTTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAAGTA
*
18289 AGAAAGTGATTTCCAAAGTTTTTTACCCAGTAAACTATTTCCAAA
66 AGAAAGTGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAA
18334 ATTAGATTAT
Statistics
Matches: 327, Mismatches: 38, Indels: 9
0.87 0.10 0.02
Matches are distributed among these distances:
257 5 0.02
258 109 0.33
259 212 0.65
260 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (257 bp):
AATGAGAAAGTGATTTCCAAAGTTTTTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAAGTA
AGAAAGTGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAATTGATAAGTCATTCGGGCCA
TCAGTAAGTCTTTCAAGCATGATGATTAAATCATTCAGGTCATCTGTAACTCTTTCGAGCAAGAT
GATAAGTCATTTGAGCCATCTATAAGACCTTCGAGTAGGATGTTCTCACATGATATTTGAAA
Found at i:18890 original size:38 final size:38
Alignment explanation
Indices: 18772--19193 Score: 355
Period size: 38 Copynumber: 10.7 Consensus size: 38
18762 GAAGCTTCAA
* * * *
18772 CTTGACTCCCTCATGAAGAGGAGTAAATGTTT-TTCATT
1 CTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTT-ATT
* * * * * * * *
18810 CTTAACTTACTCGTAAAAAGAAGTCGATTTTTTTTCATT
1 CTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTT-ATT
* **
18849 CTTGACTTCCTCATTAAGAGAAGTTGATCTTTGTTATT
1 CTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATT
* * * *
18887 CTTGACTTCCTCGTGAAGAGATGTCAATATATGTTATT
1 CTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATT
* **
18925 CTTGACTTCCTCGTGAAGATTAGTCAATCTTTCAATGTTATT
1 CTTGACTTCCTCATGAAGAGAAGTCAATC-TT---TGTTATT
* *
18967 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTGGTTATT
1 CTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATT
* * *
19005 CTTGACTCCCTTATGAAGACG-AGTCAATCTTTCAATTTTTATT
1 CTTGACTTCCTCATGAAGA-GAAGTCAATC--T---TTGTTATT
*
19048 CTTGACTTCCTCATGAAGAGAAGTCAATTTTTGTTATT
1 CTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATT
* * *
19086 CTTGAC-TCTCTCGTGAAGTGGAGTCAATCTTTGTTATT
1 CTTGACTTC-CTCATGAAGAGAAGTCAATCTTTGTTATT
*
19124 CTTGACTTCCTCATGAAGAGGAGTCAATCTTTCAATGTTATT
1 CTTGACTTCCTCATGAAGAGAAGTCAATC-TT---TGTTATT
* * *
19166 ATTGACTTTCTCATGAAGAGGAGTCAAT
1 CTTGACTTCCTCATGAAGAGAAGTCAAT
19194 ATTTCAGTGT
Statistics
Matches: 316, Mismatches: 50, Indels: 32
0.79 0.13 0.08
Matches are distributed among these distances:
37 2 0.01
38 173 0.55
39 39 0.12
40 1 0.00
41 3 0.01
42 68 0.22
43 30 0.09
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.40
Consensus pattern (38 bp):
CTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATT
Found at i:18955 original size:76 final size:76
Alignment explanation
Indices: 18772--19193 Score: 325
Period size: 80 Copynumber: 5.4 Consensus size: 76
18762 GAAGCTTCAA
* * * * * * * * * *
18772 CTTGACTCCCTCATGAAGAGGAGTAAATGTTTT-TCATTCTTAACTTACTCGTAAAAAGAAGTCG
1 CTTGACTTCCTCATGAAGATGAGTCAATCTTTTGTTATTCTTGACTTCCTCATGAAGAGAAGTC-
* * *
18836 ATTTTTTTTCATT
65 AATATTGTT-ATT
* ** * *
18849 CTTGACTTCCTCATTAAGA-GAAGTTGATC-TTTGTTATTCTTGACTTCCTCGTGAAGAGATGTC
1 CTTGACTTCCTCATGAAGATG-AGTCAATCTTTTGTTATTCTTGACTTCCTCATGAAGAGAAGTC
18912 AATATATGTTATT
65 AATAT-TGTTATT
* * *
18925 CTTGACTTCCTCGTGAAGATTAGTCAATCTTTCAATGTTATTCTTGACTTCCTCGTGAAGAGAAG
1 CTTGACTTCCTCATGAAGATGAGTCAATCTTT---TGTTATTCTTGACTTCCTCATGAAGAGAAG
*
18990 TCAATCTTGGTTATT
63 TCAATATT-GTTATT
* * * *
19005 CTTGACTCCCTTATGAAGACGAGTCAATCTTTCAATTTTTATTCTTGACTTCCTCATGAAGAGAA
1 CTTGACTTCCTCATGAAGATGAGTCAATC-TT---TTGTTATTCTTGACTTCCTCATGAAGAGAA
*
19070 GTCAATTTTTGTTATT
62 GTCAA-TATTGTTATT
* *
19086 CTTGAC-TCTCTCGTGAAG-TGGAGTCAATC-TTTGTTATTCTTGACTTCCTCATGAAGAGGAGT
1 CTTGACTTC-CTCATGAAGAT-GAGTCAATCTTTTGTTATTCTTGACTTCCTCATGAAGAGAAGT
*
19148 CAATCTTTCAATGTTATT
64 CAA----T-ATTGTTATT
* * *
19166 ATTGACTTTCTCATGAAGAGGAGTCAAT
1 CTTGACTTCCTCATGAAGATGAGTCAAT
19194 ATTTCAGTGT
Statistics
Matches: 282, Mismatches: 41, Indels: 41
0.77 0.11 0.11
Matches are distributed among these distances:
76 66 0.23
77 51 0.18
79 4 0.01
80 94 0.33
81 63 0.22
82 3 0.01
84 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.40
Consensus pattern (76 bp):
CTTGACTTCCTCATGAAGATGAGTCAATCTTTTGTTATTCTTGACTTCCTCATGAAGAGAAGTCA
ATATTGTTATT
Found at i:18976 original size:42 final size:42
Alignment explanation
Indices: 18880--19691 Score: 418
Period size: 45 Copynumber: 19.0 Consensus size: 42
18870 AGTTGATCTT
*
18880 TGTTATTCTTGACTTCCTCGTGAAGA-GATGTCAA--TAT--A
1 TGTTATTCTTGACTTCCTCGTGAAGAGGA-GTCAATCTTTCAA
**
18918 TGTTATTCTTGACTTCCTCGTGAAGATTAGTCAATCTTTCAA
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
*
18960 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATC-TT---
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * ** *
18998 GGTTATTCTTGACTCCCTTATGAAGACGAGTCAATCTTTCAA
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * *
19040 TTTTTATTCTTGACTTCCTCATGAAGAGAAGTCAAT-TTT---
1 -TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
*
19079 TGTTATTCTTGAC-TCTCTCGTGAAGTGGAGTCAATC-TT---
1 TGTTATTCTTGACTTC-CTCGTGAAGAGGAGTCAATCTTTCAA
*
19117 TGTTATTCTTGACTTCCTCATGAAGAGGAGTCAATCTTTCAA
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * * * *
19159 TGTTATTATTGACTTTCTCATGAAGAGGAGTCAATATTTCAG
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * * ***
19201 TGTTGTCATCCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTTG
1 TG-T-T-ATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * * ** * *
19246 TGTTGTCCATATTGACTCCCTCGTGAAGAACAATCAATCTTTTAA
1 TGTTAT---TCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* ** * *
19291 TGTTATTCTTGACTTTCTCGTGAAGAGTTGTCAATATTTCAG
1 TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * * * * * *
19333 TGTTGTCATCCTTGACTTTCTCGTGAAGAGGGGTCTATGTTTTAG
1 TG-T-T-ATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * ** * * * **
19378 TGTTGTCCTTATTGACTTTATCGCGAAGAGCAGCCAATCTTTCGG
1 TG-T-T-ATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * * * *
19423 TGTTATCTTCCTTGACTTTCTCGTGAAGAGGAGTTAATATTTTAG
1 TGTTA--TT-CTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * * *
19468 TGTTGTCCTTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAG
1 TG-T-T-ATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * * ** * * * * *
19513 TGTTGTCTTTCTTGTCTTTCTCACGGAGAAGATTTAATCTTTCAG
1 TG-T-T-ATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * * * *
19558 TGTTATCTTCTTTGACTTTCTCGTGAAGAGGAGTCACTATTTTAG
1 TGTTA--TTC-TTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * * * * *
19603 TGTTGTCCTTCTTGACTTTCTCGCGAAGATGAGTCAATATTTCAG
1 TG-T-T-ATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
* * * *
19648 TGTTGTATTTCTTGCCTTTCTCGTAAAGAGGAGTCCATCTTTCA
1 TG-T-TA-TTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCA
19692 GATTTGGTCT
Statistics
Matches: 619, Mismatches: 116, Indels: 71
0.77 0.14 0.09
Matches are distributed among these distances:
37 2 0.00
38 122 0.20
39 7 0.01
40 2 0.00
41 2 0.00
42 107 0.17
43 34 0.05
44 10 0.02
45 324 0.52
46 7 0.01
47 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (42 bp):
TGTTATTCTTGACTTCCTCGTGAAGAGGAGTCAATCTTTCAA
Found at i:19067 original size:161 final size:163
Alignment explanation
Indices: 18879--19317 Score: 457
Period size: 161 Copynumber: 2.7 Consensus size: 163
18869 AAGTTGATCT
*
18879 TTGTTATTCTTGACTTCCTCGTGAAGAGATGTCAATATATGTTATTCTTGACTTCCTCGTGAAGA
1 TTGTTATTCTTGACTTCCTCGTGAAGAGA-GTCAATATTTGTTATTCTTGACTTCCTCGTGAAGA
* *
18944 TTAGTCAATCTTTCAATGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATC-TT-GGTTATTCT
65 TCAGTCAATCTTT-AATGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTAGGTTATTAT
* *
19007 TGACTCCCTTATGAAGACGAGTCAATCTTTCAAT-
129 TGACTCCCTCATGAAGACGAGTCAATATTTCAATG
* *
19041 TT-TTATTCTTGACTTCCTCATGAAGAGAAGTCAATTTTTGTTATTCTTGAC-TCTCTCGTGAAG
1 TTGTTATTCTTGACTTCCTCGTGAAGAG-AGTCAATATTTGTTATTCTTGACTTC-CTCGTGAAG
* * * *
19104 -TGGAGTCAATC-TT--TGTTATTCTTGACTTCCTCATGAAGAGGAGTCAATCTTTCAATGTTAT
64 AT-CAGTCAATCTTTAATGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTT--AGGTTAT
** * *
19165 TATTGACTTTCTCATGAAGAGGAGTCAATATTTCAGTG
126 TATTGACTCCCTCATGAAGACGAGTCAATATTTCAATG
* * * *
19203 TTGTCATCCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTTGTGT-TGTCCATATTGACTCCCT
1 TTGTTATTCTTGACTTCCTCGTGAAGA-GAGTCAATA--TTTGT-TAT-T-C---TTGACTTCCT
* * *
19267 CGTGAAGAACAATCAATCTTTTAATGTTATTCTTGACTTTCTCGTGAAGAG
57 CGTGAAGATCAGTCAATC-TTTAATGTTATTCTTGACTTCCTCGTGAAGAG
19318 TTGTCAATAT
Statistics
Matches: 228, Mismatches: 25, Indels: 36
0.79 0.09 0.12
Matches are distributed among these distances:
157 34 0.15
158 2 0.01
160 5 0.02
161 96 0.42
162 5 0.02
163 27 0.12
164 1 0.00
165 6 0.03
166 2 0.01
167 1 0.00
170 21 0.09
171 1 0.00
172 2 0.01
174 25 0.11
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (163 bp):
TTGTTATTCTTGACTTCCTCGTGAAGAGAGTCAATATTTGTTATTCTTGACTTCCTCGTGAAGAT
CAGTCAATCTTTAATGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTAGGTTATTATTG
ACTCCCTCATGAAGACGAGTCAATATTTCAATG
Found at i:19113 original size:119 final size:119
Alignment explanation
Indices: 18846--19363 Score: 422
Period size: 132 Copynumber: 4.2 Consensus size: 119
18836 ATTTTTTTTC
* * * ** * * *
18846 ATTCTTGACTTCCTCATTAAGAGAAGTTGATCTTTGTTATTCTTGACTTCCTCGTGAAGA-GATG
1 ATTCTTGACTT-CTCGTGAAGAGGAGTCAATCTTGGTTATTCTTGACTCCCTCATGAAGACGA-G
* * ** *
18910 TCAA--TAT--ATGTTATTCTTGACTTCCTCGTGAAGATTAGTCAATCTTTCAATGTT
64 TCAATCTTTCAATGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATATTT--ATGTT
* *
18964 ATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTGGTTATTCTTGACTCCCTTATGAAGACGAGT
1 ATTCTTGACTT-CTCGTGAAGAGGAGTCAATCTTGGTTATTCTTGACTCCCTCATGAAGACGAGT
*
19029 CAATCTTTCAATTTTTATTCTTGACTTCCTCATGAAGAGAAGTCAAT-TTT-TGTT
65 CAATCTTTCAA-TGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATATTTATGTT
* * * *
19083 ATTCTTGACTCTCTCGTGAAGTGGAGTCAATCTTTGTTATTCTTGACTTCCTCATGAAGAGGAGT
1 ATTCTTGACT-TCTCGTGAAGAGGAGTCAATCTTGGTTATTCTTGACTCCCTCATGAAGACGAGT
* * *
19148 CAATCTTTCAATGTTATTATTGACTTTCTCATGAAGAGGAGTCAATATTTCAGTGTTGT
65 CAATCTTTCAATGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATATTT-A-TG-T-T
* * * * *
19207 CATCCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTTGTGTTGTCCATATTGACTCCCTCGTGA
1 -ATTCTTGAC-TTCTCGTGAAGAGGAGTC-A-A-TCTTG-GTTAT---TCTTGACTCCCTCATGA
* * * * **
19272 AGAAC-AATCAATCTTTTAATGTTATTCTTGACTTTCTCGTGAAGAGTTGTCAATATTTCAGTGT
57 AG-ACGAGTCAATCTTTCAATGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATATTT-A-TG-
19336 TGT
118 T-T
*
19339 CATCCTTGACTTTCTCGTGAAGAGG
1 -ATTCTTGAC-TTCTCGTGAAGAGG
19364 GGTCTATGTT
Statistics
Matches: 339, Mismatches: 38, Indels: 32
0.83 0.09 0.08
Matches are distributed among these distances:
118 88 0.26
119 77 0.23
120 3 0.01
122 6 0.02
123 32 0.09
124 1 0.00
125 24 0.07
126 2 0.01
127 1 0.00
128 3 0.01
129 4 0.01
132 97 0.29
133 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (119 bp):
ATTCTTGACTTCTCGTGAAGAGGAGTCAATCTTGGTTATTCTTGACTCCCTCATGAAGACGAGTC
AATCTTTCAATGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATATTTATGTT
Found at i:19231 original size:45 final size:45
Alignment explanation
Indices: 19116--19692 Score: 517
Period size: 45 Copynumber: 13.0 Consensus size: 45
19106 GAGTCAATCT
* * * * *
19116 TTGTTATTCTTGACTTCCTCATGAAGAGGAGTCAATCTTTCAATG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTG
* *
19161 -T-T-ATTATTGACTTTCTCATGAAGAGGAGTCAATATTTCAGTG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTG
* **
19203 TTGTCATCCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTTGTG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTG
* ** ** * * * *
19248 TTGTCCA-TATTGACTCCCTCGTGAAGAACAATCAATCTTTTAATG
1 TTGT-CATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTG
**
19293 -T-T-ATTCTTGACTTTCTCGTGAAGAGTTGTCAATATTTCAGTG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTG
* * * * *
19335 TTGTCATCCTTGACTTTCTCGTGAAGAGGGGTCTATGTTTTAGTG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTG
* * * * * * * *
19380 TTGTCCTTATTGACTTTATCGCGAAGAGCAGCCAATCTTTCGGTG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTG
* * *
19425 TTATC-TTCCTTGACTTTCTCGTGAAGAGGAGTTAATATTTTAGTG
1 TTGTCATT-CTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTG
* * *
19470 TTGTCCTTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTG
* * ** * * * * *
19515 TTGTCTTTCTTGTCTTTCTCACGGAGAAGATTTAATCTTTCAGTG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTG
* * *
19560 TTATC-TTCTTTGACTTTCTCGTGAAGAGGAGTCACTATTTTAGTG
1 TTGTCATTC-TTGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTG
* * *
19605 TTGTCCTTCTTGACTTTCTCGCGAAGATGAGTCAATATTTCAGTG
1 TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTG
* * * *
19650 TTGT-ATTTCTTGCCTTTCTCGTAAAGAGGAGTCCATCTTTCAG
1 TTGTCA-TTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAG
19693 ATTTGGTCTT
Statistics
Matches: 427, Mismatches: 92, Indels: 26
0.78 0.17 0.05
Matches are distributed among these distances:
41 1 0.00
42 64 0.15
43 4 0.01
44 9 0.02
45 342 0.80
46 7 0.02
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (45 bp):
TTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTG
Found at i:19688 original size:135 final size:132
Alignment explanation
Indices: 19138--19692 Score: 615
Period size: 135 Copynumber: 4.2 Consensus size: 132
19128 ACTTCCTCAT
* * *
19138 GAAGAGGAGTCAATCTTTCAATGTTATTATTGACTTTCTCATGAAGAGGAGTCAATATTTCAGTG
1 GAAGAGGAGTCAATCTTTCAGTGTTATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTG
* * **
19203 TTGTCATCCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTTGTGTTGTCCATATTGACTCCCTC
66 TTGTCATCCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTTATTGACTTTCTC
*
19268 GT
131 GC
** * * * **
19270 GAAGAACAATCAATCTTTTAATGTTATTCTTGACTTTCTCGTGAAGAGTTGTCAATATTTCAGTG
1 GAAGAGGAGTCAATCTTTCAGTGTTATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTG
* * * *
19335 TTGTCATCCTTGACTTTCTCGTGAAGAGGGGTCTATGTTTTAGTGTTGTCCTTATTGACTTTATC
66 TTGTCATCCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTTATTGACTTTCTC
19400 GC
131 GC
* * * * *
19402 GAAGAGCAGCCAATCTTTCGGTGTTATCTTCCTTGACTTTCTCGTGAAGAGGAGTTAATATTTTA
1 GAAGAGGAGTCAATCTTTCAGTGTTA--TT-CTTGACTTTCTCGTGAAGAGGAGTCAATATTTCA
* * * * * *
19467 GTGTTGTCCTTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCTTTCTTGTCTTT
63 GTGTTGTCATCCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTTATTGACTTT
*
19532 CTCAC
128 CTCGC
* * * * * *
19537 GGAGAAGATTTAATCTTTCAGTGTTATCTTCTTTGACTTTCTCGTGAAGAGGAGTCACTATTTTA
1 GAAGAGGAGTCAATCTTTCAGTGTTA--TTC-TTGACTTTCTCGTGAAGAGGAGTCAATATTTCA
* * * * * ** * *
19602 GTGTTGTCCTTCTTGACTTTCTCGCGAAGATGAGTCAATATTTCAGTGTTGTATTTCTTGCCTTT
63 GTGTTGTCATCCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTTATTGACTTT
*
19667 CTCGT
128 CTCGC
* *
19672 AAAGAGGAGTCCATCTTTCAG
1 GAAGAGGAGTCAATCTTTCAG
19693 ATTTGGTCTT
Statistics
Matches: 359, Mismatches: 60, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
132 135 0.38
134 3 0.01
135 221 0.62
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.41
Consensus pattern (132 bp):
GAAGAGGAGTCAATCTTTCAGTGTTATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTG
TTGTCATCCTTGACTTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTTATTGACTTTCTC
GC
Found at i:20147 original size:135 final size:133
Alignment explanation
Indices: 19685--20125 Score: 559
Period size: 132 Copynumber: 3.3 Consensus size: 133
19675 GAGGAGTCCA
* *
19685 TCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAATTTTGATTGAATCTTCCCTGAA
1 TCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAA-TTCGATTCAATCTTCCCTGAA
* ** * * *
19750 GAGTAGGAAGTGAATCAAACTTTTTTCTTGAGTCTGATCT-CCCTAAAGAGTAGCGGAGTATATT
65 GAGAAGGAAGTGAATCAAA-AATTTTCTCGAGTCTGATCTCCCCTAAAGAGTATCGGAGCATATT
*
19814 TTTCT
129 CTTCT
* * * * *
19819 TCTTTCAGATTTGGTCTTCCTGAAGAGAAGTGAATCAAATCGATTCTAATTCAATCTTTCCTGAA
1 TCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAATTC-GATTCAATCTTCCCTGAA
* * *
19884 GAGAAGTGAAGTGGATC--AAAGTTT-TCGAGTCTGATCTCCCCTAAAGAGTAGT-GGAACATAT
65 GAGAAG-GAAGTGAATCAAAAATTTTCTCGAGTCTGATCTCCCCTAAAGAGTA-TCGGAGCATAT
19945 TCTTCT
128 TCTTCT
**
19951 TCTTTCAGATTTGGTCTTCCTGAAGAGCAACGAAGCAAATCAAGTTCGATTCAATCTTCCCTGAA
1 TCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAA-TTCGATTCAATCTTCCCTGAA
* * * * *
20016 GAGAAGCAAAGTGAATCAAAAATTTTCTCGAGTCTAATCTCCCCTAAAGAATATCAGAGCAAATT
65 GAGAAG-GAAGTGAATCAAAAATTTTCTCGAGTCTGATCTCCCCTAAAGAGTATCGGAGCATATT
20081 CTTCT
129 CTTCT
*
20086 TCTTTCAGATTTGTTCTTCCTGAAGAGCAGTGAAGCAAAT
1 TCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAAT
20126 AAACCTCGAT
Statistics
Matches: 262, Mismatches: 36, Indels: 17
0.83 0.11 0.05
Matches are distributed among these distances:
131 12 0.05
132 95 0.36
133 6 0.02
134 67 0.26
135 82 0.31
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (133 bp):
TCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAATTCGATTCAATCTTCCCTGAAG
AGAAGGAAGTGAATCAAAAATTTTCTCGAGTCTGATCTCCCCTAAAGAGTATCGGAGCATATTCT
TCT
Found at i:20402 original size:12 final size:12
Alignment explanation
Indices: 20339--20399 Score: 52
Period size: 12 Copynumber: 4.8 Consensus size: 12
20329 ATCGTCCTGA
*
20339 TATTTATATTAT
1 TATTTTTATTAT
20351 TATTTTTAATT-T
1 TATTTTT-ATTAT
*
20363 TATTATTATTGCTAT
1 TATTTTTA-T--TAT
20378 TATTTTTATTAT
1 TATTTTTATTAT
20390 TATATTTTAT
1 TAT-TTTTAT
20400 ATTTTTGTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
11 1 0.03
12 20 0.50
13 9 0.22
14 2 0.05
15 8 0.20
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (12 bp):
TATTTTTATTAT
Found at i:20402 original size:21 final size:20
Alignment explanation
Indices: 20338--20405 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 20
20328 TATCGTCCTG
*
20338 ATATTTATATTATTATTTTT
1 ATATTTTTATTATTATTTTT
**
20358 A-A-TTTTATTATTATTGCT
1 ATATTTTTATTATTATTTTT
20376 ATTATTTTTATTATTATATTTT
1 A-TATTTTTATTATTAT-TTTT
20398 ATATTTTT
1 ATATTTTT
20406 GTAGGCACAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 14 0.36
19 1 0.03
20 2 0.05
21 19 0.49
22 3 0.08
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (20 bp):
ATATTTTTATTATTATTTTT
Found at i:21490 original size:13 final size:13
Alignment explanation
Indices: 21462--21504 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
21452 CTATAAAGTT
* *
21462 AAAAAAATAAATG
1 AAAAAAAAAAAAG
* *
21475 AAAATAAAATAAG
1 AAAAAAAAAAAAG
21488 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
21501 AAAA
1 AAAA
21505 GTTTGTATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:26483 original size:26 final size:26
Alignment explanation
Indices: 26446--26501 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
26436 GATCAGACCA
* *
26446 CCGACGCAGACGCAGCGACTCGCTTT
1 CCGACGCAGACGCAACGACTCCCTTT
*
26472 CCGACGCTGACGCAACGACTCCCTTT
1 CCGACGCAGACGCAACGACTCCCTTT
26498 CCGA
1 CCGA
26502 TTTATCTACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.20, C:0.41, G:0.23, T:0.16
Consensus pattern (26 bp):
CCGACGCAGACGCAACGACTCCCTTT
Found at i:27864 original size:5 final size:5
Alignment explanation
Indices: 27855--27884 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
27845 AATAAAATAA
*
27855 ATCGG GTCGG ATCGG ATCGG ATCGG ATCGG
1 ATCGG ATCGG ATCGG ATCGG ATCGG ATCGG
27885 GTTTTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.17, C:0.20, G:0.43, T:0.20
Consensus pattern (5 bp):
ATCGG
Found at i:33629 original size:30 final size:30
Alignment explanation
Indices: 33573--33631 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
33563 GTGCAAGGGT
*
33573 TAAGGAACGAAAGCTTAAGTAGCTCAATGA
1 TAAGGAACGAAAGCTTAAGCAGCTCAATGA
* *
33603 TAAGGAATGAAAGC-TAAGGCATCTCAATG
1 TAAGGAACGAAAGCTTAA-GCAGCTCAATG
33632 CCAAGGAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (30 bp):
TAAGGAACGAAAGCTTAAGCAGCTCAATGA
Found at i:36403 original size:18 final size:18
Alignment explanation
Indices: 36380--36422 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
36370 TTTTAATTAA
* *
36380 TTTATTTAATTATTTTCT
1 TTTATTTAATCATTATCT
*
36398 TTTATTTAATCCTTATCT
1 TTTATTTAATCATTATCT
36416 TTTATTT
1 TTTATTT
36423 TAAAAACAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTAATCATTATCT
Found at i:37366 original size:22 final size:22
Alignment explanation
Indices: 37341--37382 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
37331 AAACAAAATA
*
37341 AAACAAGAATATATAATATAGT
1 AAACAAGAATATACAATATAGT
37363 AAACAAGAATATACAATATA
1 AAACAAGAATATACAATATA
37383 CTATTATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (22 bp):
AAACAAGAATATACAATATAGT
Found at i:41593 original size:47 final size:46
Alignment explanation
Indices: 41518--41619 Score: 150
Period size: 47 Copynumber: 2.2 Consensus size: 46
41508 AAAACGAGAG
*
41518 GGAAAAATATGGCGTTAATATAAAAATATTTGTTTTGACATAAAGT
1 GGAAAAATATGGCGTTAATATAAAAATATTTGATTTGACATAAAGT
* * *
41564 GGAAGAAATATGGCGTTAATATCATAATATTTGATTTGACGTAAAGT
1 GGAA-AAATATGGCGTTAATATAAAAATATTTGATTTGACATAAAGT
*
41611 GGGAAAATA
1 GGAAAAATA
41620 ATTTTCCCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
46 9 0.18
47 41 0.82
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (46 bp):
GGAAAAATATGGCGTTAATATAAAAATATTTGATTTGACATAAAGT
Found at i:45487 original size:18 final size:18
Alignment explanation
Indices: 45461--45504 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
45451 GTGAAGTATG
*
45461 AATGGTGTTGTCGTGGCA
1 AATGTTGTTGTCGTGGCA
*
45479 AATGTTGTTGTCGTGGTA
1 AATGTTGTTGTCGTGGCA
*
45497 AGTGTTGT
1 AATGTTGT
45505 AAGGTTAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.07, G:0.36, T:0.41
Consensus pattern (18 bp):
AATGTTGTTGTCGTGGCA
Done.