Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005885.1 Hibiscus syriacus cultivar Beakdansim tig00013821_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: 70794
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:3252 original size:13 final size:12
Alignment explanation
Indices: 3233--3257 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3223 ATTGACTCAA
3233 GAAAAAAAGGGT
1 GAAAAAAAGGGT
3245 GAAAAAAAGGGT
1 GAAAAAAAGGGT
3257 G
1 G
3258 TAATGAACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.08
Consensus pattern (12 bp):
GAAAAAAAGGGT
Found at i:25138 original size:20 final size:20
Alignment explanation
Indices: 25100--25139 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25090 AGATATTATA
*
25100 CTATATTGTTCATTGCATTG
1 CTATATTGATCATTGCATTG
25120 CTATATTGATC-TTGCCATTG
1 CTATATTGATCATTG-CATTG
25140 TTGTGGTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (20 bp):
CTATATTGATCATTGCATTG
Found at i:28538 original size:2 final size:2
Alignment explanation
Indices: 28531--28555 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
28521 AACACGTTTG
28531 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
28556 GCCTTTGCTT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:37243 original size:20 final size:20
Alignment explanation
Indices: 37149--37517 Score: 449
Period size: 20 Copynumber: 18.4 Consensus size: 20
37139 GATTTTCCAT
* ** *
37149 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
37169 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
37189 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
37209 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
37229 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
37249 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
37269 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
37289 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
37309 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
37329 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
37349 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
37369 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
37389 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
37409 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
37429 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
37449 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
* *
37469 AATCGCAACG-ATAATCCGAA
1 AATCGCAACGCGT-ATCCGTA
* * *
37489 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
37509 AATCACAAC
1 AATCGCAAC
37518 ACTGAAATTT
Statistics
Matches: 303, Mismatches: 38, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
19 3 0.01
20 297 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:38230 original size:24 final size:24
Alignment explanation
Indices: 38191--38237 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
38181 AAATTTGGTC
38191 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
38215 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
38238 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:38429 original size:12 final size:12
Alignment explanation
Indices: 38412--38436 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38402 ATATAATCCT
38412 GAAGAAGAAAAA
1 GAAGAAGAAAAA
38424 GAAGAAGAAAAA
1 GAAGAAGAAAAA
38436 G
1 G
38437 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:40760 original size:19 final size:19
Alignment explanation
Indices: 40738--41330 Score: 684
Period size: 19 Copynumber: 33.4 Consensus size: 19
40728 CGGAAAATAC
*
40738 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
40757 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
40771 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
40791 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
40805 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
40824 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
40843 AATCGCAACGCG--A-G--
1 AATCGCAATGCGAAATGAA
40857 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
** *
40876 AATCGCAACACGGAAAAT-AC
1 AATCGCAATGC-G-AAATGAA
*
40896 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
40915 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
40929 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
40949 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
40963 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
40982 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
41001 AATCGCAACGCG--A-G--
1 AATCGCAATGCGAAATGAA
41015 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
41034 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
41053 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
41072 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
41091 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
41110 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
41124 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
41143 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
41162 AATCGCAA--CGCAA-G--
1 AATCGCAATGCGAAATGAA
41176 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
41195 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
41214 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
41233 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
41252 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
41271 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
41285 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
41304 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
41323 AATCGCAA
1 AATCGCAA
41331 CGAGATAATC
Statistics
Matches: 497, Mismatches: 27, Indels: 100
0.80 0.04 0.16
Matches are distributed among these distances:
14 92 0.19
15 3 0.01
16 23 0.05
17 21 0.04
18 9 0.02
19 307 0.62
20 38 0.08
21 4 0.01
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:41199 original size:161 final size:161
Alignment explanation
Indices: 40766--41352 Score: 983
Period size: 161 Copynumber: 3.7 Consensus size: 161
40756 AAATCCCAAC
40766 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
* ** *
40831 ATGCGAAATGAAAATCGCAACGCGAGAATCGCAATGCGAAATGAAAATCGCAACACGGAAAATAC
66 ATGCGAAATGAAAATCGCAACGCAAGAATCGCAATGCGAAATGAAAATCGCAATGC-G-AAATAA
** *
40896 AATCGCAACGCGAAATGAAAATCCCAA--C---
129 AATCGCAATACGAAATGAAAATCGCAATGCGAA
40924 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
*
40989 ATGCGAAATGAAAATCGCAACGCGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
66 ATGCGAAATGAAAATCGCAACGCAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAAT-AAA
41054 ATCGCAATACGAAATGAAAATCGCAATGCGAA
130 ATCGCAATACGAAATGAAAATCGCAATGCGAA
41086 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
41150 ATGCGAAATGAAAATCGCAACGCAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATTAAA
66 ATGCGAAATGAAAATCGCAACGCAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA-TAAA
41215 ATCGCAATACGAAATGAAAATCGCAATGCGAA
130 ATCGCAATACGAAATGAAAATCGCAATGCGAA
*
41247 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
*
41311 ATGCGAAATGAAAATCGCAACG-AGATAATCGCAATGCGAAAT
66 ATGCGAAATGAAAATCGCAACGCA-AGAATCGCAATGCGAAAT
41353 TATAAACGCA
Statistics
Matches: 412, Mismatches: 9, Indels: 13
0.95 0.02 0.03
Matches are distributed among these distances:
156 4 0.01
157 26 0.06
158 119 0.29
159 1 0.00
160 1 0.00
161 244 0.59
162 17 0.04
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (161 bp):
ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
ATGCGAAATGAAAATCGCAACGCAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATAAAA
TCGCAATACGAAATGAAAATCGCAATGCGAA
Found at i:41368 original size:52 final size:52
Alignment explanation
Indices: 40766--41352 Score: 867
Period size: 52 Copynumber: 11.0 Consensus size: 52
40756 AAATCCCAAC
40766 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
40819 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGCGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
** * * * * *
40871 ATGAAAATCGCAACACGGAAAAT-ACAATCGCAACGCGA-AAT-GAAAATCCCAA
1 ATGAAAATCGCAATGC-G-AAATGAAAATCGCAACGAGAGAATCG-CAATGCGAA
40923 CATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 -ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
40977 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGCGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
41029 ATGAAAATCGCAATGCGAAATGAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAGAATCGCAATGCGAA
41086 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
41138 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGCA-AGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACG-AGAGAATCGCAATGCGAA
* *
41190 ATGAAAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAGAATCGCAATGCGAA
*
41247 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
41299 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
41351 AT
1 AT
41353 TATAAACGCA
Statistics
Matches: 490, Mismatches: 26, Indels: 37
0.89 0.05 0.07
Matches are distributed among these distances:
51 1 0.00
52 289 0.59
53 81 0.17
54 19 0.04
55 8 0.02
56 2 0.00
57 90 0.18
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:41468 original size:19 final size:19
Alignment explanation
Indices: 41359--41460 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
41349 AAATTATAAA
41359 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
41378 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
41398 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
41414 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
41431 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
41450 CGCATTGCGAT
1 CGCATTGCGAT
41461 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:41586 original size:14 final size:14
Alignment explanation
Indices: 41567--41603 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
41557 CATCAATTAC
41567 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
41581 ACAAATCATCTTTT
1 ACAAATCAACTTTT
41595 ACAAATCAA
1 ACAAATCAA
41604 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:41631 original size:37 final size:37
Alignment explanation
Indices: 41584--41654 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
41574 AACTTTTACA
*
41584 AATCATCTTTTACAAATCAATTAAACAATCAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAATTG
41621 AATCAACTTTTACAAATCAATTAAACAATCAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAA
41655 AACATCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.30
Consensus pattern (37 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAATTG
Found at i:43501 original size:19 final size:19
Alignment explanation
Indices: 43461--43595 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
43451 TAGTTTACTT
* *
43461 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
43481 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
43500 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
43519 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
43533 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
43552 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
43566 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
43585 TCGCAATGCGA
1 TCGCAACGCGA
43596 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:43536 original size:14 final size:14
Alignment explanation
Indices: 43517--43573 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
43507 GCGAAATGAA
*
43517 AATCGCAACGACAG
1 AATCGCAACGAAAG
43531 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
43548 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
43564 AATCGCAACG
1 AATCGCAACG
43574 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:43540 original size:33 final size:33
Alignment explanation
Indices: 43498--43590 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
43488 GCGAAACCAA
*
43498 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
43531 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
43564 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
43591 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:43587 original size:52 final size:54
Alignment explanation
Indices: 43461--43595 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 54
43451 TAGTTTACTT
*
43461 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAA
1 TCGCAAC-CGAAA-TGAAAATCGCAACGCGAAACCAAAATCGCAAC-CGAAATG-AAA
* **
43519 TCGCAA-CGACA-G--AATCGCAACGCGAAATGAAAATCGCAA-CGAAA-G-AA
1 TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
*
43566 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAAC-CGAAATGAAAATCGCAACGCGA
43596 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
47 8 0.12
49 5 0.08
50 6 0.09
52 37 0.56
56 4 0.06
58 6 0.09
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (54 bp):
TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
Found at i:43613 original size:19 final size:19
Alignment explanation
Indices: 43591--43719 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
43581 AAAATCGCAA
43591 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
43610 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
43624 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
43643 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
43657 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
43676 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
43695 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
43715 TGCGA
1 TGCGA
43720 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:43633 original size:33 final size:33
Alignment explanation
Indices: 43591--43682 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
43581 AAAATCGCAA
43591 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
43624 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
43657 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
43683 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:43922 original size:93 final size:93
Alignment explanation
Indices: 43763--44142 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
43753 TTGAATGGAT
43763 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
43828 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
43856 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
43921 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
43949 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
44013 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
44041 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
44106 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
44134 AAATTTACT
1 AAATTTACT
44143 AAGCAATCTA
Statistics
Matches: 285, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 193 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:44076 original size:185 final size:186
Alignment explanation
Indices: 43763--44142 Score: 744
Period size: 185 Copynumber: 2.0 Consensus size: 186
43753 TTGAATGGAT
43763 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
43828 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
43893 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
43949 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
44013 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
44078 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
44134 AAATTTACT
1 AAATTTACT
44143 AAGCAATCTA
Statistics
Matches: 193, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
185 154 0.80
186 39 0.20
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:45879 original size:19 final size:18
Alignment explanation
Indices: 45855--45952 Score: 86
Period size: 19 Copynumber: 5.7 Consensus size: 18
45845 TCGCAACGAG
45855 AATCGCAACGCGAGATGA
1 AATCGCAACGCGAGATGA
45873 CAATCGCAA--CGAGA-G-
1 -AATCGCAACGCGAGATGA
*
45888 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAGATG-A
45907 AATCGCAA--CGAGA-G-
1 AATCGCAACGCGAGATGA
*
45921 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAGATG-A
*
45940 AATCGCAATGCGA
1 AATCGCAACGCGA
45953 TTTTGGTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
14 16 0.25
16 10 0.15
17 11 0.17
19 28 0.43
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.10
Consensus pattern (18 bp):
AATCGCAACGCGAGATGA
Found at i:45893 original size:14 final size:14
Alignment explanation
Indices: 45843--45930 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
45833 TTGAAATGAA
45843 AATCGCAAC--GAG
1 AATCGCAACGAGAG
45855 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
45872 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
45888 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
45907 AATCGCAACGAGAG
1 AATCGCAACGAGAG
45921 AATCGCAACG
1 AATCGCAACG
45931 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 22
0.72 0.02 0.26
Matches are distributed among these distances:
12 8 0.13
14 21 0.34
15 1 0.02
16 5 0.08
17 8 0.13
18 1 0.02
19 18 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:45894 original size:33 final size:33
Alignment explanation
Indices: 45835--45947 Score: 194
Period size: 33 Copynumber: 3.5 Consensus size: 33
45825 TCTTTTGGTT
45835 GAAATGAAAATCGCAAC--GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
45866 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
45899 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
45932 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
45948 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 15 0.20
33 61 0.80
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:45983 original size:14 final size:14
Alignment explanation
Indices: 45964--46018 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
45954 TTTGGTTTCG
45964 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
45978 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
45997 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
46011 CGTTGCGA
1 CGTTGCGA
46019 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:45996 original size:33 final size:33
Alignment explanation
Indices: 45948--46018 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
45938 AAAATCGCAA
**
45948 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
45981 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
46014 TGCGA
1 TGCGA
46019 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:46026 original size:33 final size:33
Alignment explanation
Indices: 45959--46040 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
45949 GCGATTTTGG
***
45959 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
45992 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
46025 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
46041 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:46045 original size:20 final size:20
Alignment explanation
Indices: 45971--46059 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
45961 TCGCGTTGCG
45971 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
45991 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
46004 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
46024 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
46044 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
46060 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:46181 original size:33 final size:33
Alignment explanation
Indices: 46139--46209 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
46129 AATACTAACT
*
46139 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
46172 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
46205 TGAAA
1 TGAAA
46210 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:46609 original size:20 final size:20
Alignment explanation
Indices: 46584--46777 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
46574 CTTTAAATAT
46584 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
46604 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
46626 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
46645 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
46665 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
46685 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
46705 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
46725 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
46745 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
46765 CGCGTTGCGATTT
1 CGCGTTGCGATTT
46778 TTGGAAAATC
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:46771 original size:60 final size:60
Alignment explanation
Indices: 46584--46777 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
46574 CTTTAAATAT
**
46584 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
46645 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
46705 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
46765 CGCGTTGCGATTT
1 CGCGTTGCGATTT
46778 TTGGAAAATC
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:46858 original size:20 final size:20
Alignment explanation
Indices: 46833--46884 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
46823 AAGAATCGCG
*
46833 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
46853 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
46873 TTGCGATTCTGG
1 TTGCGATTCTGG
46885 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:48771 original size:14 final size:14
Alignment explanation
Indices: 48743--48812 Score: 52
Period size: 14 Copynumber: 5.1 Consensus size: 14
48733 TGATTGTATC
*
48743 ATCTTAAACCTTAA
1 ATCTTAAACCCTAA
*
48757 ATCTTAAACTCTAA
1 ATCTTAAACCCTAA
* *
48771 AT-TAAAACCCTAT
1 ATCTTAAACCCTAA
* ****
48784 ACCTTAAGGTATAA
1 ATCTTAAACCCTAA
48798 ATCTTAAACCCTAA
1 ATCTTAAACCCTAA
48812 A
1 A
48813 ATCATAAATA
Statistics
Matches: 38, Mismatches: 17, Indels: 2
0.67 0.30 0.04
Matches are distributed among these distances:
13 9 0.24
14 29 0.76
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.31
Consensus pattern (14 bp):
ATCTTAAACCCTAA
Found at i:51079 original size:19 final size:19
Alignment explanation
Indices: 51028--51080 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
51018 AGGAGCACAC
**
51028 GACGACCTATGGAATACTT
1 GACGACCTATGGAGCACTT
*
51047 GGCGACCTATGGAGCACTT
1 GACGACCTATGGAGCACTT
51066 GACGACCTATGGAGC
1 GACGACCTATGGAGC
51081 TGCAATAGCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.21
Consensus pattern (19 bp):
GACGACCTATGGAGCACTT
Found at i:64637 original size:21 final size:21
Alignment explanation
Indices: 64602--64661 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 21
64592 TTTTAATCTC
*
64602 AAATATTAAACCCTAAATCCTA
1 AAATCTTAAA-CCTAAATCCTA
* *
64624 AAATCTTAAACCTAAA-CTTT
1 AAATCTTAAACCTAAATCCTA
*
64644 AAATCTTAGACCTTAAAT
1 AAATCTTAAACC-TAAAT
64662 TTTAAACCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 13 0.41
21 10 0.31
22 9 0.28
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.32
Consensus pattern (21 bp):
AAATCTTAAACCTAAATCCTA
Found at i:64649 original size:20 final size:21
Alignment explanation
Indices: 64624--64667 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
64614 CTAAATCCTA
64624 AAATCTTAAACC-TAAACTTT
1 AAATCTTAAACCTTAAACTTT
* *
64644 AAATCTTAGACCTTAAATTTT
1 AAATCTTAAACCTTAAACTTT
64665 AAA
1 AAA
64668 CCCTAACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.36
Consensus pattern (21 bp):
AAATCTTAAACCTTAAACTTT
Found at i:64811 original size:2 final size:2
Alignment explanation
Indices: 64804--64859 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
64794 GATCATAACC
64804 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
64846 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
64860 TTTTTATTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64938 original size:2 final size:2
Alignment explanation
Indices: 64931--64967 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
64921 TGTGTATTTC
64931 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
64968 AAAGGTTAAA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:65891 original size:21 final size:23
Alignment explanation
Indices: 65850--65892 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
65840 AAGAGTGCCG
65850 GCGTGGAGGGAGTTATGGTGGAC
1 GCGTGGAGGGAGTTATGGTGGAC
*
65873 GCGTGGTGGG-GTT-TGGTGGA
1 GCGTGGAGGGAGTTATGGTGGA
65893 GAAAGATGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.12, C:0.07, G:0.56, T:0.26
Consensus pattern (23 bp):
GCGTGGAGGGAGTTATGGTGGAC
Found at i:70295 original size:28 final size:27
Alignment explanation
Indices: 70247--70300 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
70237 TTAAATGAAT
70247 ATAATAAATATAATAAATAATTTAAAAA
1 ATAATAAATATAATAAATAA-TTAAAAA
* *
70275 ATAATATATA-AATATAGTAATTAAAA
1 ATAATAAATATAATA-AATAATTAAAA
70301 TAGATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (27 bp):
ATAATAAATATAATAAATAATTAAAAA
Done.