Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004564.1 Hibiscus syriacus cultivar Beakdansim tig00010143_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: 106544
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:729 original size:58 final size:57
Alignment explanation
Indices: 590--791 Score: 182
Period size: 58 Copynumber: 3.6 Consensus size: 57
580 ATTTTGACGA
* * * * * *
590 TTTATTTTTTTAT-AAA-ATAG-ATAATTGAAGATTATGAAGAAAATAAATTT-AATT
1 TTTATTTTTTTTTAAAAGATAGAATCATTAAAGATTCTAAAG-AAATAAATTTAAAAT
* * *
644 GTTTATTTCTTTTTAAAAGATAAAATCATTAAAGATTCTTAAGAAATAAATTTAAAAT
1 -TTTATTTTTTTTTAAAAGATAGAATCATTAAAGATTCTAAAGAAATAAATTTAAAAT
* * * *
702 TTTATTTATTTTTTTCAAA-ATAGAATCATTCAAGATTCTAAAAAAATAAA-TTAAACAA
1 TTTA-TT-TTTTTTTAAAAGATAGAATCATTAAAGATTCTAAAGAAATAAATTTAAA-AT
* *
760 TTTATTTTCTTTTAAAAGATACAATCATTAAA
1 TTTATTTTTTTTTAAAAGATAGAATCATTAAA
792 TATTTCCAAA
Statistics
Matches: 120, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
55 11 0.09
56 12 0.10
57 36 0.30
58 52 0.43
59 9 0.08
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (57 bp):
TTTATTTTTTTTTAAAAGATAGAATCATTAAAGATTCTAAAGAAATAAATTTAAAAT
Found at i:803 original size:57 final size:55
Alignment explanation
Indices: 705--827 Score: 117
Period size: 57 Copynumber: 2.2 Consensus size: 55
695 TTAAAATTTT
* * *
705 ATTTATTT-TTTTCAAA-ATAGAATCATTCAAGATTCTAAAAAAATAAATTAAACA
1 ATTTATTTCTTTTAAAAGATAAAATCATTAAAGATTCTAAAAAAATAAATTAAA-A
* * * * *
759 ATTTATTTTCTTTTAAAAGATACAATCATTAAATATT-TCCAAAAAGTAAATTCAATA
1 ATTTA-TTTCTTTTAAAAGATAAAATCATTAAAGATTCT-AAAAAAATAAATT-AAAA
816 ATTTATTTCTTT
1 ATTTATTTCTTT
828 ATTCAAGATT
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
54 5 0.09
55 3 0.05
56 15 0.26
57 32 0.56
58 2 0.04
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (55 bp):
ATTTATTTCTTTTAAAAGATAAAATCATTAAAGATTCTAAAAAAATAAATTAAAA
Found at i:809 original size:115 final size:116
Alignment explanation
Indices: 589--823 Score: 266
Period size: 115 Copynumber: 2.0 Consensus size: 116
579 AATTTTGACG
* * * * ***
589 ATTTATTTTTTTATAAAATAGATAATTGAAGATTATGAAGAAAATAAATTTAATTGTTTATTTCT
1 ATTTATTTTTTTACAAAATAGATAATTCAAGATTATGAAAAAAATAAATTAAACAATTTATTTCT
* *
654 TTTTAAAAGATAAAATCATTAAAGATTCTTAAGAAATAAATTTAA-AATTTT
66 TTTTAAAAGATAAAATCATTAAAGATTCTCAAGAAATAAATTCAATAA-TTT
* *
705 ATTTATTTTTTT-CAAAATAGAATCATTCAAGATTCT-AAAAAAATAAATTAAACAATTTATTT-
1 ATTTATTTTTTTACAAAATAG-ATAATTCAAGATTATGAAAAAAATAAATTAAACAATTTATTTC
* *
767 TCTTTTAAAAGATACAATCATTAAATATT-TCCAA-AAAGTAAATTCAATAATTT
65 T-TTTTAAAAGATAAAATCATTAAAGATTCT-CAAGAAA-TAAATTCAATAATTT
820 ATTT
1 ATTT
824 CTTTATTCAA
Statistics
Matches: 101, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
114 5 0.05
115 70 0.69
116 26 0.26
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (116 bp):
ATTTATTTTTTTACAAAATAGATAATTCAAGATTATGAAAAAAATAAATTAAACAATTTATTTCT
TTTTAAAAGATAAAATCATTAAAGATTCTCAAGAAATAAATTCAATAATTT
Found at i:892 original size:57 final size:58
Alignment explanation
Indices: 828--979 Score: 186
Period size: 56 Copynumber: 2.7 Consensus size: 58
818 TTATTTCTTT
* * *
828 ATTCAAGATTGC-CAAGAAAATAAGTTTAACAATTTATTTCCTTTTAAAAGAT-GAATC
1 ATTCAAGATT-CTCAAGAAAATAAATTTAACAATTTATTTCCTTTTAAAAGATAAAATA
* *
885 ATTCAAGATTCTC-AGAAAATAAATTTGATAA-TTATTTCCTTTTAAAAGATAAAATA
1 ATTCAAGATTCTCAAGAAAATAAATTTAACAATTTATTTCCTTTTAAAAGATAAAATA
* * * *
941 AGTCAAGATTCTTAATAAAATAAATTTAACTATTTATTT
1 ATTCAAGATTCTCAAGAAAATAAATTTAACAATTTATTT
980 TTCTTACAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
55 19 0.24
56 30 0.38
57 25 0.31
58 6 0.08
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (58 bp):
ATTCAAGATTCTCAAGAAAATAAATTTAACAATTTATTTCCTTTTAAAAGATAAAATA
Found at i:1228 original size:45 final size:45
Alignment explanation
Indices: 1161--1324 Score: 179
Period size: 45 Copynumber: 3.6 Consensus size: 45
1151 GAATTAATCC
* * *
1161 TTTAATTTTAATG-ACTCAATAATCGAAAGGAACTAATCATTTGAT
1 TTTAATTTTAA-GAACCCAATAATCAAAAGGAACTAATCATTTCAT
* * ** *
1206 TTTAATTTTAAGAACCCCATAATAAAAAACAACTAATCATTTTAT
1 TTTAATTTTAAGAACCCAATAATCAAAAGGAACTAATCATTTCAT
* *
1251 TTTAATTTT-AGCAACCCAATAATCAAAAGGAACCAATCCTTTCAT
1 TTTAATTTTAAG-AACCCAATAATCAAAAGGAACTAATCATTTCAT
* * *
1296 TTTACTTTTGACAACCCAATAATCAAAAG
1 TTTAATTTTAAGAACCCAATAATCAAAAG
1325 ATTTTGATTA
Statistics
Matches: 100, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
44 3 0.03
45 96 0.96
46 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.34
Consensus pattern (45 bp):
TTTAATTTTAAGAACCCAATAATCAAAAGGAACTAATCATTTCAT
Found at i:7230 original size:2 final size:2
Alignment explanation
Indices: 7223--7259 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7213 AAATGAAAAC
7223 TA TA TA TA TA 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 TA TA TA TA TA T
7260 TTGCCTATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11403 original size:20 final size:20
Alignment explanation
Indices: 11389--11442 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
11379 CGTTTATGTT
11389 CGTTCGTTTGTGTTTCTTTA
1 CGTTCGTTTGTGTTTCTTTA
*
11409 CGTTTGTTTGTGTTTCTTTA
1 CGTTCGTTTGTGTTTCTTTA
*
11429 CGTTCGTTTATGTT
1 CGTTCGTTTGTGTT
11443 GTTTATCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.06, C:0.13, G:0.20, T:0.61
Consensus pattern (20 bp):
CGTTCGTTTGTGTTTCTTTA
Found at i:13127 original size:21 final size:21
Alignment explanation
Indices: 13084--13141 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
13074 AATCAGTTCC
13084 CAGAATCGCAATGCGATAGTA
1 CAGAATCGCAATGCGATAGTA
* **
13105 CA-AATTCGCATTGCGATTTTA
1 CAGAA-TCGCAATGCGATAGTA
*
13126 CAGAATCGCAACGCGA
1 CAGAATCGCAATGCGA
13142 ATATGAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 2 0.07
21 26 0.87
22 2 0.07
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (21 bp):
CAGAATCGCAATGCGATAGTA
Found at i:13154 original size:20 final size:20
Alignment explanation
Indices: 13129--13402 Score: 119
Period size: 20 Copynumber: 13.6 Consensus size: 20
13119 GATTTTACAG
*
13129 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGAA
* *
13149 AATCGCAACGCGAACA-TATA
1 AATCGCAACGCGAATACGA-A
* * ** *
13169 AATCGCAATGCGATTTTGAC
1 AATCGCAACGCGAATACGAA
* * * *
13189 TATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATACG-AA
* * * *
13210 AATCGCAACACGTATCCGTA
1 AATCGCAACGCGAATACGAA
* **
13230 AATTGCAGTGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
* * *
13251 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
* * *
13271 AATCGCAACGAGAATGCGTA
1 AATCGCAACGCGAATACGAA
* *
13291 AATCGCAACGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
*
13311 AATCGCAACGAGAATAC-ATA
1 AATCGCAACGCGAATACGA-A
* * * * *
13331 AATCGCAATGTGTATTCGTA
1 AATCGCAACGCGAATACGAA
13351 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
* *
13372 AATCGCAACGCGTAT-CGTA
1 AATCGCAACGCGAATACGAA
13391 AATCGCAACGCG
1 AATCGCAACGCG
13403 GTTTTTAAAG
Statistics
Matches: 188, Mismatches: 53, Indels: 27
0.70 0.20 0.10
Matches are distributed among these distances:
19 15 0.08
20 129 0.69
21 44 0.23
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATACGAA
Found at i:13305 original size:40 final size:41
Alignment explanation
Indices: 13190--13400 Score: 275
Period size: 40 Copynumber: 5.2 Consensus size: 41
13180 GATTTTGACT
* * *
13190 ATCGCAACGAGTATCCGTAAAATCGCAACACGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* ** *
13231 ATTGCAGTGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
13272 ATCGCAACGAGAATGCGT-AAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * * *
13312 ATCGCAACGAGAATACAT-AAATCGCAATGTGTATTCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
13352 ATCGCAACGACAATACGTAAAATCGCAACGCGTAT-CGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
13392 ATCGCAACG
1 ATCGCAACG
13401 CGGTTTTTAA
Statistics
Matches: 146, Mismatches: 23, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
40 85 0.58
41 61 0.42
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.20
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:13372 original size:60 final size:60
Alignment explanation
Indices: 13190--13400 Score: 214
Period size: 60 Copynumber: 3.5 Consensus size: 60
13180 GATTTTGACT
* * **
13190 ATCGCAACGAGTATCCGTAAAATCGCAAC-ACGTATCCGTAAATTGCAGTGACAATACGTAAA
1 ATCGCAACGCGTAT-CGT-AAATCGCAACGA-GTATCCGTAAATCGCAACGACAATACGTAAA
* * *
13252 ATCGCAACGCGTATCCGTAAATCGCAACGAGAATGCGTAAATCGCAACG-C-GTATCTGT-AA
1 ATCGCAACGCGTAT-CGTAAATCGCAACGAGTATCCGTAAATCGCAACGACAATA-C-GTAAA
* * * * * *
13312 ATCGCAACGAGAATACATAAATCGCAATGTGTATTCGTAAATCGCAACGACAATACGTAAA
1 ATCGCAACGCGTAT-CGTAAATCGCAACGAGTATCCGTAAATCGCAACGACAATACGTAAA
13373 ATCGCAACGCGTATCGTAAATCGCAACG
1 ATCGCAACGCGTATCGTAAATCGCAACG
13401 CGGTTTTTAA
Statistics
Matches: 123, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
59 2 0.02
60 59 0.48
61 42 0.34
62 20 0.16
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.20
Consensus pattern (60 bp):
ATCGCAACGCGTATCGTAAATCGCAACGAGTATCCGTAAATCGCAACGACAATACGTAAA
Found at i:13411 original size:19 final size:19
Alignment explanation
Indices: 13190--13402 Score: 160
Period size: 20 Copynumber: 10.6 Consensus size: 19
13180 GATTTTGACT
*
13190 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGTAT-CGT-AA
*
13211 ATCGCAACACGTATCCGTAA
1 ATCGCAACGCGTAT-CGTAA
* ** *
13231 ATTGCAGTGAC-AATACGTAAA
1 ATCGCAACG-CGTAT-CGT-AA
13252 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTAT-CGTAA
* *
13272 ATCGCAACGAGAATGCGTAA
1 ATCGCAACGCGTAT-CGTAA
13292 ATCGCAACGCGTATCTGTAA
1 ATCGCAACGCGTATC-GTAA
* * *
13312 ATCGCAACGAGAATACATAA
1 ATCGCAACGCGTAT-CGTAA
* *
13332 ATCGCAATGTGTATTCGTAA
1 ATCGCAACGCGTA-TCGTAA
*
13352 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTAT-CGT-AA
13373 ATCGCAACGCGTATCGTAA
1 ATCGCAACGCGTATCGTAA
13392 ATCGCAACGCG
1 ATCGCAACGCG
13403 GTTTTTAAAG
Statistics
Matches: 153, Mismatches: 29, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
19 15 0.10
20 93 0.61
21 45 0.29
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.20
Consensus pattern (19 bp):
ATCGCAACGCGTATCGTAA
Found at i:14011 original size:19 final size:19
Alignment explanation
Indices: 13987--14031 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
13977 GCAACGAGAG
*
13987 AATCGCAACGCGAAA-TGAA
1 AATCGCAACGAGAAACT-AA
14006 AATCGCAACGAGAAACTAA
1 AATCGCAACGAGAAACTAA
14025 AATCGCA
1 AATCGCA
14032 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.49, C:0.22, G:0.18, T:0.11
Consensus pattern (19 bp):
AATCGCAACGAGAAACTAA
Found at i:14011 original size:33 final size:34
Alignment explanation
Indices: 13953--14018 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
13943 CTAAACTTAA
**
13953 AATCGCAACACGAAAATGACTATCGCAACGAGAG
1 AATCGCAACACGAAAATGAAAATCGCAACGAGAG
*
13987 AATCGCAACGCG-AAATGAAAATCGCAACGAGA
1 AATCGCAACACGAAAATGAAAATCGCAACGAGA
14019 AACTAAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 18 0.62
34 11 0.38
ACGTcount: A:0.45, C:0.23, G:0.21, T:0.11
Consensus pattern (34 bp):
AATCGCAACACGAAAATGAAAATCGCAACGAGAG
Found at i:14170 original size:20 final size:19
Alignment explanation
Indices: 14027--14178 Score: 152
Period size: 20 Copynumber: 8.1 Consensus size: 19
14017 GAAACTAAAA
*
14027 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
14046 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
14060 TCTCGTTACGATTTTAATT
1 TCGCGTTGCGATTTTCATT
*
14079 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
14098 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
14117 TCCGCGTTGCGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
14137 TACGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
*
14157 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
14177 TC
1 TC
14179 AACCAAAAGA
Statistics
Matches: 113, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
14 9 0.08
16 2 0.02
17 3 0.03
19 46 0.41
20 52 0.46
21 1 0.01
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:17368 original size:19 final size:20
Alignment explanation
Indices: 17324--17377 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
17314 TCTTTTAGTT
17324 GAAATGAAAATCGCAACGCG
1 GAAATGAAAATCGCAACGCG
*
17344 GAAATGAATATCGCAACGC-
1 GAAATGAAAATCGCAACGCG
17363 GAAATGAAAATCGCA
1 GAAATGAAAATCGCA
17378 TTGGTTTCGC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (20 bp):
GAAATGAAAATCGCAACGCG
Found at i:17440 original size:21 final size:21
Alignment explanation
Indices: 17414--17472 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
17404 CGCGTTGCGA
17414 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
17435 TTCTCTCGTTGCGATAGTCAT
1 TTCTCTCGTTGCGATTTTCAT
17456 TT-TCAT-GTTGCGATTTT
1 TTCTC-TCGTTGCGATTTT
17473 AAGTTTAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 11 0.33
21 22 0.67
ACGTcount: A:0.12, C:0.20, G:0.17, T:0.51
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:18056 original size:20 final size:20
Alignment explanation
Indices: 18031--18252 Score: 194
Period size: 20 Copynumber: 10.6 Consensus size: 20
18021 CTTTAAAAAT
18031 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
18051 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
18071 CGCGTTGCAATTTTACGTATTGT
1 CGCGTTGCGA-TTTACGGA-T-A
* *
18094 CGTTGCGATTACGCGATTTACGTATT
1 C---GCG-TT--GCGATTTACGGATA
* **
18120 CTCGTTGCGATTTACATATA
1 CGCGTTGCGATTTACGGATA
* *
18140 CGCGTTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
**
18160 CTTGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
18180 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
18200 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
18221 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
18242 CTCGTTGCGAT
1 CGCGTTGCGAT
18253 AGTCAGAATC
Statistics
Matches: 168, Mismatches: 21, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
20 100 0.60
21 43 0.26
22 3 0.02
23 3 0.02
26 5 0.03
27 3 0.02
28 8 0.05
29 3 0.02
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:18161 original size:40 final size:40
Alignment explanation
Indices: 18106--18275 Score: 218
Period size: 41 Copynumber: 4.2 Consensus size: 40
18096 TTGCGATTAC
*
18106 GCGATTTACGTATTCTCGTTGCGATTTACATATACGCGTT
1 GCGATTTACGTATTCTCGTTGCGATTTACAGATACGCGTT
* *
18146 GCGATTTACGTATTCTTGTTGCGATTTACGGATACGCGTT
1 GCGATTTACGTATTCTCGTTGCGATTTACAGATACGCGTT
* *
18186 GCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCGTT
1 GCGA-TTTACGTATTCTCGTTGCGATTTACAGATACGCGTT
* * *
18227 GCGATTTTACGGATACTCGTTGCGATAGT-CAGA-ATCGCGTT
1 GCGA-TTTACGTATTCTCGTTGCGAT-TTACAGATA-CGCGTT
18268 GCGATTTA
1 GCGATTTA
18276 TATGTTCGCG
Statistics
Matches: 117, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
40 46 0.39
41 70 0.60
42 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (40 bp):
GCGATTTACGTATTCTCGTTGCGATTTACAGATACGCGTT
Found at i:18175 original size:69 final size:69
Alignment explanation
Indices: 18037--18171 Score: 191
Period size: 69 Copynumber: 2.0 Consensus size: 69
18027 AAATCGCGTT
* *
18037 GCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCAATTTTACGTATTGTCGTTGCGA
1 GCGATTTACGGATACGCGTTGCGATTTACAGATACGCGTTGCAATTTTACGTATTCTCGTTGCGA
18102 TTAC
66 TTAC
* * * * * *
18106 GCGATTTACGTATTCTCGTTGCGATTTACATATACGCGTTGCGA-TTTACGTATTCTTGTTGCGA
1 GCGATTTACGGATACGCGTTGCGATTTACAGATACGCGTTGCAATTTTACGTATTCTCGTTGCGA
18170 TT
66 TT
18172 TACGGATACG
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
68 20 0.34
69 38 0.66
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.39
Consensus pattern (69 bp):
GCGATTTACGGATACGCGTTGCGATTTACAGATACGCGTTGCAATTTTACGTATTCTCGTTGCGA
TTAC
Found at i:18208 original size:41 final size:40
Alignment explanation
Indices: 18106--18252 Score: 222
Period size: 41 Copynumber: 3.6 Consensus size: 40
18096 TTGCGATTAC
**
18106 GCGATTTACGTATTCTCGTTGCGATTTACATATACGCGTT
1 GCGATTTACGTATTCTCGTTGCGATTTACGGATACGCGTT
*
18146 GCGATTTACGTATTCTTGTTGCGATTTACGGATACGCGTT
1 GCGATTTACGTATTCTCGTTGCGATTTACGGATACGCGTT
*
18186 GCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCGTT
1 GCGA-TTTACGTATTCTCGTTGCGATTTACGGATACGCGTT
* *
18227 GCGATTTTACGGATACTCGTTGCGAT
1 GCGA-TTTACGTATTCTCGTTGCGAT
18253 AGTCAGAATC
Statistics
Matches: 98, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 41 0.42
41 57 0.58
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.39
Consensus pattern (40 bp):
GCGATTTACGTATTCTCGTTGCGATTTACGGATACGCGTT
Found at i:18268 original size:61 final size:60
Alignment explanation
Indices: 18106--18275 Score: 157
Period size: 61 Copynumber: 2.8 Consensus size: 60
18096 TTGCGATTAC
* * * * * * **
18106 GCGATTTACGTATTCTCGTTGCGAT-TTAC-ATATACGCGTTGCGATTTACGTATTCTTGTT
1 GCGATTTACGGATACGCGTTGCGATGTCACGA-AT-CGCGTTGCGATTTACGGATACGCGTT
* * * *
18166 GCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCGTT
1 GCGATTTACGGATACGCGTTGCGATGTCACGAATCG-CGTTGCGATTTACGGATACGCGTT
*
18227 GCGATTTTACGGATACTCGTTGCGATAGTCA-GAATCGCGTTGCGATTTA
1 GCGA-TTTACGGATACGCGTTGCGAT-GTCACGAATCGCGTTGCGATTTA
18276 TATGTTCGCG
Statistics
Matches: 91, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
60 23 0.25
61 42 0.46
62 24 0.26
63 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (60 bp):
GCGATTTACGGATACGCGTTGCGATGTCACGAATCGCGTTGCGATTTACGGATACGCGTT
Found at i:18284 original size:20 final size:20
Alignment explanation
Indices: 18261--18309 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
18251 ATAGTCAGAA
*
18261 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
*
18281 TCGCGTTGTGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
18301 TCGCGTTGC
1 TCGCGTTGC
18310 AATTCTGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:18369 original size:63 final size:60
Alignment explanation
Indices: 18295--18415 Score: 152
Period size: 63 Copynumber: 2.0 Consensus size: 60
18285 GTTGTGATTT
*
18295 TCATATTCGCGTTGCAATTCTGGAAAATCGCAATGCGAATTTGTACTATCGCATTGCGATTCA
1 TCATAATCGCGTTGCAATTCTGG-AAATCGCAATGCG-ATTTGTA-TATCGCATTGCGATTCA
* * ** * *
18358 TCATAATCGCGTTGCGATTCTGGAGATCGCGTTGCGATTTTTATTTCGCATTGCGATT
1 TCATAATCGCGTTGCAATTCTGGAAATCGCAATGCGATTTGTATATCGCATTGCGATT
18416 TTGTTAGTCA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
60 14 0.27
61 6 0.12
62 10 0.20
63 21 0.41
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (60 bp):
TCATAATCGCGTTGCAATTCTGGAAATCGCAATGCGATTTGTATATCGCATTGCGATTCA
Found at i:19157 original size:2 final size:2
Alignment explanation
Indices: 19144--19173 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19134 TTTTAAATAA
*
19144 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19174 GTTACGTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22012 original size:16 final size:16
Alignment explanation
Indices: 21991--22022 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21981 TTCTCATCTC
21991 ATAAAACTTTATAAAT
1 ATAAAACTTTATAAAT
*
22007 ATAAAATTTTATAAAT
1 ATAAAACTTTATAAAT
22023 TTGTTTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAAAACTTTATAAAT
Found at i:25348 original size:2 final size:2
Alignment explanation
Indices: 25341--25368 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25331 TTTAAGTTAA
25341 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25369 TACTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26161 original size:14 final size:15
Alignment explanation
Indices: 26142--26173 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
26132 TAATGAGAAT
26142 AAATATTA-AAAATA
1 AAATATTATAAAATA
26156 AAATATTATAAAATA
1 AAATATTATAAAATA
26171 AAA
1 AAA
26174 AATACCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATATTATAAAATA
Found at i:28416 original size:138 final size:139
Alignment explanation
Indices: 28227--28515 Score: 406
Period size: 138 Copynumber: 2.1 Consensus size: 139
28217 CAATATACAT
* * * *
28227 TGAGGAAGTCTGATTGTCTAAGGATGACACTGCTCCTTCGTGTTAAAGAGATCTG-GTCGGTGGA
1 TGAGGAAGTCTGAATGTCTAAGGATGACACTGCTCCTTCGCGTTAAAGAGATC-GAATCAGTGGA
* *
28291 CGACATTGTTCCTATGTGATGAGGACGTCTAGCCGTCTTTAGGG-TAATTTGGAGACAACACAGT
65 CGACATTGTTCCTATGTGATGAGGACGTCTAGCCGTATTTAGGGATAATTTGGAGACAACACAAT
* *
28355 TCCTGCTTGA
130 TCCTACGTGA
* * *
28365 TGAGGAAGTCTTAATGTC-AGAGGATGACACTGCTCCTAT-GCGTTGAGGAGATCGAATCAGTGG
1 TGAGGAAGTCTGAATGTCTA-AGGATGACACTGCTCCT-TCGCGTTAAAGAGATCGAATCAGTGG
* *
28428 ACGACATTGTTCCTATGTGATGAGGACGTCTATCCGTATTTAGGGATAATTTGTAGACAACACAA
64 ACGACATTGTTCCTATGTGATGAGGACGTCTAGCCGTATTTAGGGATAATTTGGAGACAACACAA
28493 TTCCTACGTGA
129 TTCCTACGTGA
28504 TGAGGAAGTCTG
1 TGAGGAAGTCTG
28516 GTTGCCTGAG
Statistics
Matches: 133, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
137 2 0.02
138 93 0.70
139 38 0.29
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (139 bp):
TGAGGAAGTCTGAATGTCTAAGGATGACACTGCTCCTTCGCGTTAAAGAGATCGAATCAGTGGAC
GACATTGTTCCTATGTGATGAGGACGTCTAGCCGTATTTAGGGATAATTTGGAGACAACACAATT
CCTACGTGA
Found at i:28563 original size:138 final size:138
Alignment explanation
Indices: 28227--28563 Score: 378
Period size: 138 Copynumber: 2.4 Consensus size: 138
28217 CAATATACAT
* * * * * * *
28227 TGAGGAAGTCTGATTGTCTA-AGGATGACACTGCTCCTTCGTGTT-AAAGAGATCTGGTCGGTGG
1 TGAGGAAGTCTGAATG-CCAGAGAATGACACTGCTCCTACGCGTTGAGA-AGATCTGGTCAGTGG
* *
28290 ACGACATTGTTCCTATGTGATGAGGACGTCTAGCCGTCTTTAGGGTAATTTGGAGACAACACAGT
64 ACGACATTGTTCCTATGTGATGAGGACGTCTAGCCGTATTTAGGGTAATTTGGAGACAACACAAT
* *
28355 TCCTGCTTGA
129 TCCTACGTGA
* * * * * *
28365 TGAGGAAGTCTTAATGTCAGAGGATGACACTGCTCCTATGCGTTGAGGAGATC-GAATCAGTGGA
1 TGAGGAAGTCTGAATGCCAGAGAATGACACTGCTCCTACGCGTTGAGAAGATCTG-GTCAGTGGA
* *
28429 CGACATTGTTCCTATGTGATGAGGACGTCTATCCGTATTTAGGGATAATTTGTAGACAACACAAT
65 CGACATTGTTCCTATGTGATGAGGACGTCTAGCCGTATTTAGGG-TAATTTGGAGACAACACAAT
28494 TCCTACGTGA
129 TCCTACGTGA
** * * *
28504 TGAGGAAGTCTGGTTGCCTGAGAATGACGA-TGTTCC-ACGTGTTGAGAAGATCTGGTCAGT
1 TGAGGAAGTCTGAATGCCAGAGAATGAC-ACTGCTCCTACGCGTTGAGAAGATCTGGTCAGT
28564 TACCTGAAAT
Statistics
Matches: 165, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
137 2 0.01
138 107 0.65
139 55 0.33
140 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (138 bp):
TGAGGAAGTCTGAATGCCAGAGAATGACACTGCTCCTACGCGTTGAGAAGATCTGGTCAGTGGAC
GACATTGTTCCTATGTGATGAGGACGTCTAGCCGTATTTAGGGTAATTTGGAGACAACACAATTC
CTACGTGA
Found at i:29134 original size:66 final size:66
Alignment explanation
Indices: 28997--29238 Score: 229
Period size: 67 Copynumber: 3.6 Consensus size: 66
28987 AGGAGAATTA
* * * * *
28997 TCTCAAGCGAGATGAAATTTGTTTTGAGGAAAAACAATCTCAAATGTTTGTGTCTT-AAGGAAGA
1 TCTCAAGCGAGATAAAATTTGTTTTGA-GAAAAACAATCTCAAAGGTTTATGTTTTAAAAGAA-A
*
29061 CTG
64 ATG
* *
29064 TCTCAAGTGAGATAAAATTTGTTTTGAGAAAAACAATATCAAA-GTCTTATGTTTTAAAAGAAAA
1 TCTCAAGCGAGATAAAATTTGTTTTGAGAAAAACAATCTCAAAGGT-TTATGTTTTAAAAGAAAA
29128 TG
65 TG
** * * * * * *
29130 TCTCAAATGAGATAAAACTTT-ATTTCAAAAGAAACAATCTCAAAGGTTTATGTTTCAAGACAAA
1 TCTCAAGCGAGATAAAA-TTTGTTTTGAGAA-AAACAATCTCAAAGGTTTATGTTTTAAAAGAAA
*
29194 TTG
64 ATG
* * * *
29197 TCTCAAGCGAGACAAAATTTGTTTTTAGGAAAACTATCTCAA
1 TCTCAAGCGAGATAAAATTTGTTTTGAGAAAAACAATCTCAA
29239 GTGAGATCAA
Statistics
Matches: 145, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
65 2 0.01
66 61 0.42
67 80 0.55
68 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (66 bp):
TCTCAAGCGAGATAAAATTTGTTTTGAGAAAAACAATCTCAAAGGTTTATGTTTTAAAAGAAAAT
G
Found at i:36161 original size:31 final size:30
Alignment explanation
Indices: 36124--36192 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
36114 GTTTCTCTCC
*
36124 TCTCTTTTCTTTTTCTT-G-TATATTTTTTCT
1 TCTCTTTTCTTTTT-TTGGTTAAATTTTTT-T
36154 TCTTCTTTTCTTTTTTTGGTTAAATTTTTTT
1 TC-TCTTTTCTTTTTTTGGTTAAATTTTTTT
36185 TCTCTTTT
1 TCTCTTTT
36193 TTGTTATTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
30 10 0.29
31 16 0.46
32 9 0.26
ACGTcount: A:0.07, C:0.14, G:0.04, T:0.74
Consensus pattern (30 bp):
TCTCTTTTCTTTTTTTGGTTAAATTTTTTT
Found at i:36697 original size:30 final size:30
Alignment explanation
Indices: 36657--36726 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 30
36647 GCTTGGTTGG
*
36657 TTAT-GGCTTGGGTTGCTGGGCTTGTTTCT
1 TTATAGGCTTGGGTTGATGGGCTTGTTTCT
36686 TTATAGGCTTGGGTTGATGGGCTTGTTTCT
1 TTATAGGCTTGGGTTGATGGGCTTGTTTCT
**
36716 TTGCAGGCTTG
1 TTATAGGCTTG
36727 AATCAGGTGG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
29 4 0.11
30 33 0.89
ACGTcount: A:0.07, C:0.13, G:0.34, T:0.46
Consensus pattern (30 bp):
TTATAGGCTTGGGTTGATGGGCTTGTTTCT
Found at i:36799 original size:3 final size:3
Alignment explanation
Indices: 36791--36837 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
36781 ATGTAATTAG
36791 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
36838 ATTAGAACCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:41418 original size:18 final size:16
Alignment explanation
Indices: 41381--41424 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
41371 TATATCATAA
*
41381 TTTATATATTTTTTAT
1 TTTATTTATTTTTTAT
41397 TTTATTTATTTGTTTAAT
1 TTTATTTATTT-TTT-AT
41415 TTTA-TTATTT
1 TTTATTTATTT
41425 ACCTAATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 10 0.40
17 9 0.36
18 6 0.24
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTATTTATTTTTTAT
Found at i:41422 original size:17 final size:15
Alignment explanation
Indices: 41381--41424 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
41371 TATATCATAA
41381 TTTATATATTTTTTAT
1 TTTAT-TATTTTTTAT
41397 TTTATTTATTTGTTTAAT
1 TTTA-TTATTT-TTT-AT
41415 TTTATTATTT
1 TTTATTATTT
41425 ACCTAATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 9 0.36
17 10 0.40
18 6 0.24
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTATTATTTTTTAT
Found at i:56435 original size:20 final size:20
Alignment explanation
Indices: 56410--56455 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
56400 CCGGTTCACC
*
56410 CCGGTTTTACCAGTTTTCAG
1 CCGGTTGTACCAGTTTTCAG
*
56430 CCGGTTGTACCGGTTTTCAG
1 CCGGTTGTACCAGTTTTCAG
56450 CCGGTT
1 CCGGTT
56456 CATTGCCAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.11, C:0.26, G:0.26, T:0.37
Consensus pattern (20 bp):
CCGGTTGTACCAGTTTTCAG
Found at i:59257 original size:21 final size:20
Alignment explanation
Indices: 59232--59270 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
59222 TTTGGGTTTG
*
59232 AATATCGATATTGGGATGAAA
1 AATATCGATACT-GGATGAAA
*
59253 AATATTGATACTGGATGA
1 AATATCGATACTGGATGA
59271 TTAAGGGCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (20 bp):
AATATCGATACTGGATGAAA
Found at i:63349 original size:17 final size:18
Alignment explanation
Indices: 63316--63353 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
63306 TAATAATGAG
63316 TTATTATACAATATATTT
1 TTATTATACAATATATTT
*
63334 TTATTATA-ATTATATTT
1 TTATTATACAATATATTT
63351 TTA
1 TTA
63354 ATATTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATTATACAATATATTT
Found at i:63383 original size:26 final size:25
Alignment explanation
Indices: 63325--63385 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
63315 GTTATTATAC
*
63325 AATATATTTTTATTATAATTATATT
1 AATATATTTTTATTATAATTAAATT
**
63350 TTTAATATTTTTATTATAATTTAAATT
1 AAT-ATATTTTTATTATAA-TTAAATT
63377 AATATATTT
1 AATATATTT
63386 CATATATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.03
26 21 0.72
27 7 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
AATATATTTTTATTATAATTAAATT
Found at i:64344 original size:18 final size:18
Alignment explanation
Indices: 64323--64357 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
64313 GAAAAAACAA
64323 AAAAAAAAAAAAAATTTT
1 AAAAAAAAAAAAAATTTT
* *
64341 AAAAAAACAAAACATTT
1 AAAAAAAAAAAAAATTT
64358 GCTATTTATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAAAAAAAAAAATTTT
Found at i:68098 original size:75 final size:75
Alignment explanation
Indices: 68002--68264 Score: 281
Period size: 76 Copynumber: 3.5 Consensus size: 75
67992 CTTGATATTA
* * *
68002 TTTTTCTTAAAA-CAGACTTTGTCTCACTTGAGACAGTTTTACTCGAAAGAAGACATTTCATTTG
1 TTTTTCTTAAAAGAAGATTTTGTCTCACTTGAGACAGTTTTACTCGAAA-AAGACATTTCATTTC
68066 ACTCAAGATTG
65 ACTCAAGATTG
* * * * * * * *
68077 TTTTTCTTAAAAGAAGA-TTTGTCTCGCTTGGGATAATTTTTACTTGAAACAATAAGATTT-GTT
1 TTTTTCTTAAAAGAAGATTTTGTCTCACTTGAGA-CAGTTTTACTCGAAA-AA-GACATTTCATT
68140 TCACTCAAGATTG
63 TCACTCAAGATTG
* *
68153 TTTTTCTTAAAACAAGA-TTTGTCTCACTTGAGACGGTTGTTACTCGAAAAAGACATTTCATTTC
1 TTTTTCTTAAAAGAAGATTTTGTCTCACTTGAGACAGTT-TTACTCGAAAAAGACATTTCATTTC
68217 ACTCAAGATTG
65 ACTCAAGATTG
* *
68228 --TTT-TT-AAAGAAGATTTTTATCTCACTTGAGATAGTTT
1 TTTTTCTTAAAAGAAGA-TTTTGTCTCACTTGAGACAGTTT
68265 CCCTTGAAAC
Statistics
Matches: 156, Mismatches: 25, Indels: 17
0.79 0.13 0.09
Matches are distributed among these distances:
71 7 0.04
72 3 0.02
73 21 0.13
74 5 0.03
75 45 0.29
76 70 0.45
77 5 0.03
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.40
Consensus pattern (75 bp):
TTTTTCTTAAAAGAAGATTTTGTCTCACTTGAGACAGTTTTACTCGAAAAAGACATTTCATTTCA
CTCAAGATTG
Found at i:68180 original size:36 final size:36
Alignment explanation
Indices: 68066--68180 Score: 113
Period size: 36 Copynumber: 3.1 Consensus size: 36
68056 ATTTCATTTG
*
68066 ACTCAAGATTGTTTTTCTTAAAAGAAGATTTGTCTC
1 ACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTC
* *** ** * *
68102 GCTTGGGATAATTTTTACTTGAAACAATAAGATTTGTTTC
1 ACTCAAGATTGTTTTT-CTT--AA-AACAAGATTTGTCTC
68142 ACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTC
1 ACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTC
68178 ACT
1 ACT
68181 TGAGACGGTT
Statistics
Matches: 59, Mismatches: 16, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
36 26 0.44
37 5 0.08
39 5 0.08
40 23 0.39
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (36 bp):
ACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTC
Found at i:68196 original size:76 final size:74
Alignment explanation
Indices: 68002--68232 Score: 295
Period size: 76 Copynumber: 3.1 Consensus size: 74
67992 CTTGATATTA
*
68002 TTTTTCTTAAAAC-AGACTTTGTCTCACTTGAGACAGTTTTACTCGAAAGAAGACATTTCATTTG
1 TTTTTCTTAAAACAAGA-TTTGTCTCACTTGAGACAGTTTTACTCGAAA-AAGACATTTCATTTC
68066 ACTCAAGATTG
64 ACTCAAGATTG
* * * * * * * * *
68077 TTTTTCTTAAAAGAAGATTTGTCTCGCTTGGGATAATTTTTACTTGAAACAATAAGATTT-GTTT
1 TTTTTCTTAAAACAAGATTTGTCTCACTTGAGA-CAGTTTTACTCGAAA-AA-GACATTTCATTT
68141 CACTCAAGATTG
63 CACTCAAGATTG
*
68153 TTTTTCTTAAAACAAGATTTGTCTCACTTGAGACGGTTGTTACTCGAAAAAGACATTTCATTTCA
1 TTTTTCTTAAAACAAGATTTGTCTCACTTGAGACAGTT-TTACTCGAAAAAGACATTTCATTTCA
68218 CTCAAGATTG
65 CTCAAGATTG
68228 TTTTT
1 TTTTT
68233 AAAGAAGATT
Statistics
Matches: 130, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
74 5 0.04
75 50 0.38
76 70 0.54
77 5 0.04
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (74 bp):
TTTTTCTTAAAACAAGATTTGTCTCACTTGAGACAGTTTTACTCGAAAAAGACATTTCATTTCAC
TCAAGATTG
Found at i:68293 original size:39 final size:39
Alignment explanation
Indices: 68237--68576 Score: 486
Period size: 39 Copynumber: 8.7 Consensus size: 39
68227 GTTTTTAAAG
*
68237 AAGATTTTTATCTCACTTGAGATAGTTTCCCTTGAAACAA
1 AAGA-TTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAA
* *
68277 AAGATTTTGTCTCACTTGAGATAGTTTCCCTTGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAA
* * *
68316 AAGATTGTATCTCGTTTGATATAGTTTCCCTTGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAA
*
68355 AAGATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAA
*
68394 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAA-AA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAA
*
68432 AATGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
1 AA-GATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAA
* * *
68472 AAGATTTTATCTCGTTTGAGATAGTTTTCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAA
* * *
68511 AAGATTTTGTCTCGCTTGAGATAGTTTCCATTGAAATAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAA
* *
68550 GAA-ATTTTATCTCACTTGAGATGGTTT
1 -AAGATTTTATCTCGCTTGAGATAGTTT
68577 TTCTTAAAAC
Statistics
Matches: 274, Mismatches: 23, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
38 4 0.01
39 260 0.95
40 10 0.04
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (39 bp):
AAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAA
Found at i:68601 original size:36 final size:35
Alignment explanation
Indices: 68555--68735 Score: 119
Period size: 36 Copynumber: 4.9 Consensus size: 35
68545 AATAAGAAAT
* *
68555 TTTATCTCACTTGAGATGGTTTTTCTTAAAACCAT
1 TTTATCTCACTTGAGATAGTTTTTCTTAAAACCAA
* * ** **
68590 TTTCATCTCACTGGAGAAAGTTTCCCTTGAAACAAGAAAA
1 TTT-ATCTCACTTGAGATAGTTTTTCTT--AA-AA-CCAA
** *
68630 TGAATCTCACTTGAGATGGTTTTTCTTAAAACCAA
1 TTTATCTCACTTGAGATAGTTTTTCTTAAAACCAA
** * * * *
68665 CTTCGTCTCACTTGAGACAGTTTTCCCTTGAAACAAAA
1 -TTTATCTCACTTGAGATAGTTTT-TCTTAAAAC-CAA
* *
68703 TTTATCTCATTTGAGATCGTTTTTCTTAAAACC
1 TTTATCTCACTTGAGATAGTTTTTCTTAAAACC
68736 CTTGAGACAA
Statistics
Matches: 105, Mismatches: 33, Indels: 16
0.68 0.21 0.10
Matches are distributed among these distances:
35 5 0.05
36 46 0.44
37 27 0.26
38 4 0.04
39 21 0.20
40 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.38
Consensus pattern (35 bp):
TTTATCTCACTTGAGATAGTTTTTCTTAAAACCAA
Found at i:68637 original size:75 final size:75
Alignment explanation
Indices: 68528--68735 Score: 269
Period size: 75 Copynumber: 2.8 Consensus size: 75
68518 TGTCTCGCTT
* * * * **
68528 GAGATAGTTTCCATTGAAATAAGAAATTTTATCTCACTTGAGATGGTTTTTCTTAAAACCATTTT
1 GAGAAAGTTTCCCTTGAAACAAGAAAATTTATCTCACTTGAGATGGTTTTTCTTAAAACCAACTT
68593 CATCTCACTG
66 CATCTCACTG
**
68603 GAGAAAGTTTCCCTTGAAACAAGAAAATGAATCTCACTTGAGATGGTTTTTCTTAAAACCAACTT
1 GAGAAAGTTTCCCTTGAAACAAGAAAATTTATCTCACTTGAGATGGTTTTTCTTAAAACCAACTT
* *
68668 CGTCTCACTT
66 CATCTCACTG
* * *
68678 GAGACAGTTTTCCCTTGAAAC---AAAATTTATCTCATTTGAGATCGTTTTTCTTAAAACC
1 GAGAAAG-TTTCCCTTGAAACAAGAAAATTTATCTCACTTGAGATGGTTTTTCTTAAAACC
68736 CTTGAGACAA
Statistics
Matches: 117, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
73 33 0.28
75 71 0.61
76 13 0.11
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (75 bp):
GAGAAAGTTTCCCTTGAAACAAGAAAATTTATCTCACTTGAGATGGTTTTTCTTAAAACCAACTT
CATCTCACTG
Found at i:68795 original size:61 final size:61
Alignment explanation
Indices: 68675--68795 Score: 154
Period size: 61 Copynumber: 2.0 Consensus size: 61
68665 CTTCGTCTCA
* * * ** * * *
68675 CTTGAGACAGTTTTCCCTTGAAACAAAATTTATCTCATTTGAGATCGTTTTTCTTAAAACC
1 CTTGAGACAATTTTCCCTTGAAACAAAATTTATCTCACTCGAGAGAGCTTCTCTCAAAACC
68736 CTTGAGACAATTTT-CCTTCGAAACAAAATTTATCTCACTCGAGAGAGCTTCTCTCAAAAC
1 CTTGAGACAATTTTCCCTT-GAAACAAAATTTATCTCACTCGAGAGAGCTTCTCTCAAAAC
68796 AAGTTTCTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 4 0.08
61 47 0.92
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (61 bp):
CTTGAGACAATTTTCCCTTGAAACAAAATTTATCTCACTCGAGAGAGCTTCTCTCAAAACC
Found at i:69734 original size:17 final size:18
Alignment explanation
Indices: 69700--69735 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
69690 TCTGGCTATT
69700 TTGAAACATCGAATGCAC
1 TTGAAACATCGAATGCAC
*
69718 TTGATACATCG-ATGCAC
1 TTGAAACATCGAATGCAC
69735 T
1 T
69736 CTTAGTGCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (18 bp):
TTGAAACATCGAATGCAC
Found at i:77775 original size:2 final size:2
Alignment explanation
Indices: 77768--77792 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
77758 GCAGCTTAAG
77768 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
77793 ATAACAATTG
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:78383 original size:57 final size:56
Alignment explanation
Indices: 78332--78442 Score: 143
Period size: 56 Copynumber: 2.0 Consensus size: 56
78322 GATGCACTTA
* * *
78332 CCATGCACCGATGCATTGAGGAT-TTTATGAAAACATCGAATGCATTTGATGCATCAG
1 CCATGCACCGATGCACTCAGGATATTT-TG-AAACATCGAATGCACTTGATGCATCAG
* * *
78389 CCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTGATGCATC
1 CCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCACTTGATGCATC
78443 GATGCACTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 24 0.51
57 20 0.43
58 3 0.06
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (56 bp):
CCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCACTTGATGCATCAG
Found at i:80816 original size:21 final size:21
Alignment explanation
Indices: 80792--80833 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
80782 TTCTATGTTG
80792 TTTTTT-GTACTGTTTTTATT
1 TTTTTTAGTACTGTTTTTATT
* *
80812 TTTTTTAGTATTTTTTTTATT
1 TTTTTTAGTACTGTTTTTATT
80833 T
1 T
80834 AAGTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.79
Consensus pattern (21 bp):
TTTTTTAGTACTGTTTTTATT
Found at i:82747 original size:27 final size:27
Alignment explanation
Indices: 82716--82803 Score: 149
Period size: 27 Copynumber: 3.3 Consensus size: 27
82706 CATAAACTCG
82716 AACCCGACCCGAACATCACAATTAAAA
1 AACCCGACCCGAACATCACAATTAAAA
* *
82743 CACCCGGCCCGAACATCACAATTAAAA
1 AACCCGACCCGAACATCACAATTAAAA
*
82770 AACCCGACCCAAACATCACAATTAAAA
1 AACCCGACCCGAACATCACAATTAAAA
82797 AACCCGA
1 AACCCGA
82804 TCCAACCCGA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.47, C:0.35, G:0.08, T:0.10
Consensus pattern (27 bp):
AACCCGACCCGAACATCACAATTAAAA
Found at i:83332 original size:27 final size:30
Alignment explanation
Indices: 83277--83336 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 30
83267 CTACTGGAGA
*
83277 ATCTTTAATTAAAGTTATATCATATTTTTAT
1 ATCTTTAATTAAAGTTATA-CATACTTTTAT
83308 ATCTTTAATTAAA-TT-TA-ATACTTTTAT
1 ATCTTTAATTAAAGTTATACATACTTTTAT
83335 AT
1 AT
83337 AAAAGATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 11 0.39
29 2 0.07
30 2 0.07
31 13 0.46
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.55
Consensus pattern (30 bp):
ATCTTTAATTAAAGTTATACATACTTTTAT
Found at i:86595 original size:13 final size:13
Alignment explanation
Indices: 86577--86605 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
86567 GATCTTAATT
86577 TCTAGTCCTTTGG
1 TCTAGTCCTTTGG
86590 TCTAGTCCTTTGG
1 TCTAGTCCTTTGG
86603 TCT
1 TCT
86606 TTCACCTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.24, G:0.21, T:0.48
Consensus pattern (13 bp):
TCTAGTCCTTTGG
Found at i:89825 original size:22 final size:21
Alignment explanation
Indices: 89786--89826 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
89776 GGTGAAAAAA
**
89786 CCGGATCGATTTTTATCCGAT
1 CCGGATCGATTTAAATCCGAT
89807 CCGGATCGGATTTAAATCCG
1 CCGGATC-GATTTAAATCCG
89827 GCTATGTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (21 bp):
CCGGATCGATTTAAATCCGAT
Found at i:95235 original size:3 final size:3
Alignment explanation
Indices: 95227--95295 Score: 124
Period size: 3 Copynumber: 23.7 Consensus size: 3
95217 GTTATGTGGA
95227 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
95274 TA- TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
95296 GTAACATGAG
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.06
3 60 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:99435 original size:37 final size:38
Alignment explanation
Indices: 99337--99448 Score: 165
Period size: 38 Copynumber: 3.0 Consensus size: 38
99327 AAATTTCAGG
* *
99337 GACTCCTACAAGTACTATAAATTTAAAATGATTTGTTC
1 GACTCCTACAAGTACCATAAATTTAACATGATTTGTTC
* *
99375 GTCTCCTACGAGTACCATAAATTTAACATGATTTGTTC
1 GACTCCTACAAGTACCATAAATTTAACATGATTTGTTC
*
99413 GACTCCGA-AAGTACCATAAATTTAACAT-ATTTGTTC
1 GACTCCTACAAGTACCATAAATTTAACATGATTTGTTC
99449 ACATCGCATA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 8 0.12
37 19 0.28
38 40 0.60
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.36
Consensus pattern (38 bp):
GACTCCTACAAGTACCATAAATTTAACATGATTTGTTC
Found at i:102251 original size:22 final size:23
Alignment explanation
Indices: 102223--102288 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
102213 CCTCTGAATG
* *
102223 AAGACTGTGTTGAATGATT-TGC
1 AAGACTGTGTTGAATGATTCAGA
102245 AAGACTGTGTTGAATGATTCAGA
1 AAGACTGTGTTGAATGATTCAGA
* *
102268 AAAACAGTGTTGAATGATTCA
1 AAGACTGTGTTGAATGATTCA
102289 ACATCAAAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 19 0.49
23 20 0.51
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (23 bp):
AAGACTGTGTTGAATGATTCAGA
Found at i:102648 original size:13 final size:14
Alignment explanation
Indices: 102630--102673 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
102620 TACCTCTTAC
102630 TTAAAATTT-AAAT
1 TTAAAATTTAAAAT
102643 TTAAAATTTAAAAT
1 TTAAAATTTAAAAT
* *
102657 TT-ATATCTAAAAT
1 TTAAAATTTAAAAT
102670 TTAA
1 TTAA
102674 GATTATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 20 0.74
14 7 0.26
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
TTAAAATTTAAAAT
Found at i:102649 original size:7 final size:7
Alignment explanation
Indices: 102630--102673 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
102620 TACCTCTTAC
102630 TTAAAAT
1 TTAAAAT
102637 TT-AAAT
1 TTAAAAT
102643 TTAAAAT
1 TTAAAAT
102650 TTAAAAT
1 TTAAAAT
*
102657 TT-ATAT
1 TTAAAAT
*
102663 CTAAAAT
1 TTAAAAT
102670 TTAA
1 TTAA
102674 GATTATAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
6 10 0.32
7 21 0.68
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (7 bp):
TTAAAAT
Found at i:102655 original size:20 final size:20
Alignment explanation
Indices: 102630--102673 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
102620 TACCTCTTAC
*
102630 TTAAAATTTAAATTTAAAAT
1 TTAAAATTTAAATCTAAAAT
*
102650 TTAAAATTTATATCTAAAAT
1 TTAAAATTTAAATCTAAAAT
102670 TTAA
1 TTAA
102674 GATTATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAAAATTTAAATCTAAAAT
Found at i:103179 original size:26 final size:26
Alignment explanation
Indices: 103149--103198 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
103139 AAATAATAAA
*
103149 TTAATATTTATAAAATTATTTAAAAT
1 TTAATATTTAGAAAATTATTTAAAAT
* *
103175 TTAATATTTGGAAATTTATTTAAA
1 TTAATATTTAGAAAATTATTTAAA
103199 GAAGTAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (26 bp):
TTAATATTTAGAAAATTATTTAAAAT
Found at i:103224 original size:18 final size:18
Alignment explanation
Indices: 103191--103230 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
103181 TTTGGAAATT
103191 TATT-TAAAGAAGTAAAA
1 TATTATAAAGAAGTAAAA
103208 TATTATAAA-AAGATAAAA
1 TATTATAAAGAAG-TAAAA
103226 TATTA
1 TATTA
103231 ATTTTTCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (18 bp):
TATTATAAAGAAGTAAAA
Done.