Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007578.1 Hibiscus syriacus cultivar Beakdansim tig00021614_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: 72788
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Found at i:1035 original size:30 final size:30
Alignment explanation
Indices: 1000--1088 Score: 88
Period size: 33 Copynumber: 2.8 Consensus size: 30
990 GTACAAGTTA
*
1000 GCCACCAAATATGAAATTCCCAATAAATTG
1 GCCACCAAAGATGAAATTCCCAATAAATTG
* *
1030 GCCACCAACCAAGATGAAATTTCCAATAAGTTG
1 GCCACC-A--AAGATGAAATTCCCAATAAATTG
*
1063 GCCACCAACCAAGATGAAATTTCCAA
1 GCCACC-A--AAGATGAAATTCCCAA
1089 CTTGCCAACT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
30 6 0.11
31 1 0.02
33 46 0.87
ACGTcount: A:0.42, C:0.26, G:0.12, T:0.20
Consensus pattern (30 bp):
GCCACCAAAGATGAAATTCCCAATAAATTG
Found at i:1050 original size:33 final size:33
Alignment explanation
Indices: 1010--1088 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 33
1000 GCCACCAAAT
*
1010 ATGAAATTCCCAATAAATTGGCCACCAACCAAG
1 ATGAAATTTCCAATAAATTGGCCACCAACCAAG
*
1043 ATGAAATTTCCAATAAGTTGGCCACCAACCAAG
1 ATGAAATTTCCAATAAATTGGCCACCAACCAAG
1076 ATGAAATTTCCAA
1 ATGAAATTTCCAA
1089 CTTGCCAACT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.42, C:0.24, G:0.13, T:0.22
Consensus pattern (33 bp):
ATGAAATTTCCAATAAATTGGCCACCAACCAAG
Found at i:5839 original size:29 final size:31
Alignment explanation
Indices: 5771--5836 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 31
5761 TATTCAAAGT
*
5771 TTGGCCACCAACCAAGATGAAATTTCCAATAAG
1 TTGGCCACCAACCAAGATGAAATTTCC-A-AAC
5804 TTGGCCACCAACCAAGATGAAATTTCC-AAC
1 TTGGCCACCAACCAAGATGAAATTTCCAAAC
5834 TTG
1 TTG
5837 CCAACTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 5 0.16
33 27 0.84
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (31 bp):
TTGGCCACCAACCAAGATGAAATTTCCAAAC
Found at i:7017 original size:30 final size:31
Alignment explanation
Indices: 6981--7048 Score: 111
Period size: 30 Copynumber: 2.2 Consensus size: 31
6971 TGACCGGTCA
*
6981 TGACCCGACCCGACCCGTTTACCCGACCC-T
1 TGACCCGACCCGACCCGTTGACCCGACCCGT
*
7011 TGACCCGACCCGACCTGTTGACCCGACCCGT
1 TGACCCGACCCGACCCGTTGACCCGACCCGT
7042 TGACCCG
1 TGACCCG
7049 TTGACCGCGT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 27 0.77
31 8 0.23
ACGTcount: A:0.16, C:0.47, G:0.21, T:0.16
Consensus pattern (31 bp):
TGACCCGACCCGACCCGTTGACCCGACCCGT
Found at i:7033 original size:18 final size:17
Alignment explanation
Indices: 7001--7040 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
6991 CGACCCGTTT
7001 ACCCGACCCTTGACCCG
1 ACCCGACCCTTGACCCG
*
7018 ACCCGACCTGTTGACCCG
1 ACCCGACC-CTTGACCCG
7036 ACCCG
1 ACCCG
7041 TTGACCCGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.17, C:0.50, G:0.20, T:0.12
Consensus pattern (17 bp):
ACCCGACCCTTGACCCG
Found at i:7035 original size:13 final size:13
Alignment explanation
Indices: 6987--7048 Score: 63
Period size: 13 Copynumber: 4.5 Consensus size: 13
6977 GTCATGACCC
6987 GACCCGACCCGTT
1 GACCCGACCCGTT
*
7000 TACCCGACCC-TT
1 GACCCGACCCGTT
7012 GACCCGACCCGACCTGTT
1 GACCCGA--C--CC-GTT
7030 GACCCGACCCGTT
1 GACCCGACCCGTT
7043 GACCCG
1 GACCCG
7049 TTGACCGCGT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
12 8 0.20
13 18 0.44
14 3 0.07
16 3 0.07
18 9 0.22
ACGTcount: A:0.16, C:0.47, G:0.21, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:9639 original size:24 final size:24
Alignment explanation
Indices: 9508--9622 Score: 178
Period size: 24 Copynumber: 4.8 Consensus size: 24
9498 TCGATTTGAT
9508 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
9532 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
9556 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
*
9580 TTCTGATCTGATACTTGACCTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
9604 TTTTGATATGATACTTGAC
1 TTCTGATCTGATACTTGAC
9623 GTGAATTATG
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
23 1 0.01
24 83 0.98
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:11719 original size:13 final size:13
Alignment explanation
Indices: 11700--11775 Score: 71
Period size: 13 Copynumber: 5.5 Consensus size: 13
11690 GTCATGACCC
11700 GACCCGACCCGTT
1 GACCCGACCCGTT
*
11713 TACCCGACCCGTT
1 GACCCGACCCGTT
11726 GACCCGACCCGACCTGTT
1 GACCCGA--C--CC-GTT
* *
11744 TACCCGACCCATT
1 GACCCGACCCGTT
*
11757 GACCCGACCAGTT
1 GACCCGACCCGTT
11770 GACCCG
1 GACCCG
11776 TTAACCCGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
13 36 0.71
14 2 0.04
15 1 0.02
16 1 0.02
17 2 0.04
18 9 0.18
ACGTcount: A:0.18, C:0.45, G:0.20, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:11719 original size:18 final size:18
Alignment explanation
Indices: 11696--11753 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
11686 ACCGGTCATG
11696 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTT
*
11714 -----ACCCGACCCGTTG
1 ACCCGACCCGACCCGTTT
*
11727 ACCCGACCCGACCTGTTT
1 ACCCGACCCGACCCGTTT
11745 ACCCGACCC
1 ACCCGACCC
11754 ATTGACCCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
13 12 0.38
18 20 0.62
ACGTcount: A:0.17, C:0.50, G:0.17, T:0.16
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTT
Found at i:11732 original size:31 final size:31
Alignment explanation
Indices: 11694--11765 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
11684 TGACCGGTCA
*
11694 TGACCCGACCCGACCCGTTTACCCGACCCGT
1 TGACCCGACCCGACCCGTTTACCCGACCCAT
*
11725 TGACCCGACCCGACCTGTTTACCCGACCCAT
1 TGACCCGACCCGACCCGTTTACCCGACCCAT
11756 TGACCCGACC
1 TGACCCGACC
11766 AGTTGACCCG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.18, C:0.47, G:0.18, T:0.17
Consensus pattern (31 bp):
TGACCCGACCCGACCCGTTTACCCGACCCAT
Found at i:11733 original size:26 final size:26
Alignment explanation
Indices: 11700--11775 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 26
11690 GTCATGACCC
*
11700 GACCCGACCCGTTTACCCGACCCGTT
1 GACCCGACCCGTTTACCCGACCCATT
11726 GACCCGACCCGACCTGTTTACCCGACCCATT
1 GACCCGA--C--CC-GTTTACCCGACCCATT
* *
11757 GACCCGACCAGTTGACCCG
1 GACCCGACCCGTTTACCCG
11776 TTAACCCGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
26 15 0.36
27 1 0.02
28 1 0.02
29 1 0.02
30 2 0.05
31 22 0.52
ACGTcount: A:0.18, C:0.45, G:0.20, T:0.17
Consensus pattern (26 bp):
GACCCGACCCGTTTACCCGACCCATT
Found at i:14349 original size:24 final size:24
Alignment explanation
Indices: 14319--14433 Score: 169
Period size: 24 Copynumber: 4.8 Consensus size: 24
14309 TAGATTTGAT
14319 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
*
14343 TTCTGATCTGATA-TCTGATATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
14367 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
*
14391 TTCTGATCTGATACTTGACCTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
14415 TTTTGATATGATACTTGAC
1 TTCTGATCTGATACTTGAC
14434 GTGAATTATG
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
23 1 0.01
24 81 0.98
25 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:14445 original size:24 final size:24
Alignment explanation
Indices: 14322--14450 Score: 134
Period size: 24 Copynumber: 5.4 Consensus size: 24
14312 ATTTGATTTC
* *
14322 TGATCTGATACTTGACATGGATTC
1 TGATCTGATACTTGACCTGGATTA
** *
14346 TGATCTGATA-TCTGATATGGATTC
1 TGATCTGATACT-TGACCTGGATTA
* *
14370 TGATCTGATACTTGACTTGGATTC
1 TGATCTGATACTTGACCTGGATTA
*
14394 TGATCTGATACTTGACCTGGATTT
1 TGATCTGATACTTGACCTGGATTA
* * *
14418 TGATATGATACTTGACGTGAATTA
1 TGATCTGATACTTGACCTGGATTA
*
14442 TGATTTGAT
1 TGATCTGAT
14451 TTTTGATATA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.01
24 91 0.98
25 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (24 bp):
TGATCTGATACTTGACCTGGATTA
Found at i:16852 original size:12 final size:12
Alignment explanation
Indices: 16835--16868 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
16825 GACTGATCAC
*
16835 TATTGTTGTGCT
1 TATTGTTGTGAT
16847 TATTGTTGTGAT
1 TATTGTTGTGAT
16859 TGATTGTTGT
1 T-ATTGTTGT
16869 ATCGTAGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.12, C:0.03, G:0.26, T:0.59
Consensus pattern (12 bp):
TATTGTTGTGAT
Found at i:30199 original size:3 final size:3
Alignment explanation
Indices: 30180--30225 Score: 60
Period size: 3 Copynumber: 15.3 Consensus size: 3
30170 GTAAAATGTA
30180 AAT AA- AAT AATT AAT AAT AAT AAT AAT AAT AAT AAT -AT AATT AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
30225 A
1 A
30226 TTTTTTCGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 4 0.10
3 29 0.74
4 6 0.15
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:31295 original size:23 final size:23
Alignment explanation
Indices: 31259--31320 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
31249 CAGCTCATAT
31259 AAATGCACCAAAGTGCCACGTAG
1 AAATGCACCAAAGTGCCACGTAG
* * *
31282 AATTGCACCGAAGTGCCGCGTAG
1 AAATGCACCAAAGTGCCACGTAG
31305 AAATGCACCAAAGTGC
1 AAATGCACCAAAGTGC
31321 TATATAATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (23 bp):
AAATGCACCAAAGTGCCACGTAG
Found at i:36643 original size:76 final size:78
Alignment explanation
Indices: 36557--36757 Score: 275
Period size: 76 Copynumber: 2.6 Consensus size: 78
36547 CCGTTGTACA
* * * *
36557 AGGGGGGAATCGGTACCCCCT-TGGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGA
* **
36621 G-TAAAACTGTTT
66 GCCAAAACCATTT
* * *
36633 AGGGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCAAGCATTCTGGAAATCTCGGG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGA
36697 GCCAAAACCATTT
66 GCCAAAACCATTT
*
36710 A-GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCA
36758 ATCTGTAATT
Statistics
Matches: 110, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
76 77 0.70
77 33 0.30
ACGTcount: A:0.20, C:0.23, G:0.33, T:0.23
Consensus pattern (78 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGA
GCCAAAACCATTT
Found at i:37383 original size:17 final size:16
Alignment explanation
Indices: 37357--37398 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
37347 TCATAAATCC
*
37357 AAATCCAACAATCCACA
1 AAATCAAACAATCCA-A
37374 AAATCAAACAATCCAA
1 AAATCAAACAATCCAA
37390 AATATCAAA
1 AA-ATCAAA
37399 ATGTTGAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.60, C:0.26, G:0.00, T:0.14
Consensus pattern (16 bp):
AAATCAAACAATCCAA
Found at i:39396 original size:19 final size:20
Alignment explanation
Indices: 39353--39409 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
39343 CCCTGTGGGA
39353 GGAATCGGTTCCCCTTCAAAGGG
1 GGAATCGGTT-CCC-TC-AAGGG
39376 GGAATCGGTTCCCTC-AGGG
1 GGAATCGGTTCCCTCAAGGG
* *
39395 GGGATCGATTCCCTC
1 GGAATCGGTTCCCTC
39410 TGCACCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 17 0.53
21 2 0.06
22 3 0.09
23 10 0.31
ACGTcount: A:0.18, C:0.28, G:0.32, T:0.23
Consensus pattern (20 bp):
GGAATCGGTTCCCTCAAGGG
Found at i:45282 original size:54 final size:55
Alignment explanation
Indices: 45197--45319 Score: 178
Period size: 54 Copynumber: 2.3 Consensus size: 55
45187 GTACCCCCTT
* * **
45197 GGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG-CAAAACTGTTTA
1 GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCCAAAACCATTTA
* *
45251 GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGGCCAAAACCATTTA
1 GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCCAAAACCATTTA
45306 -GGGGGAATCGGTTC
1 GGGGGGAATCGGTTC
45320 ATCCTATGGG
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
54 52 0.84
55 10 0.16
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.23
Consensus pattern (55 bp):
GGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCCAAAACCATTTA
Found at i:46347 original size:23 final size:23
Alignment explanation
Indices: 46314--46375 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
46304 CAGCTCATAT
46314 AAATGCACCGAAGTGCCACGTAG
1 AAATGCACCGAAGTGCCACGTAG
* *
46337 AATTGCACCGAAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCACGTAG
46360 AAATGCACCGAAGTGC
1 AAATGCACCGAAGTGC
46376 TATATAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.32, C:0.26, G:0.27, T:0.15
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGTAG
Found at i:47070 original size:3 final size:3
Alignment explanation
Indices: 46969--47061 Score: 143
Period size: 3 Copynumber: 31.3 Consensus size: 3
46959 TAGTTTACTT
*
46969 TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
47017 TTA TTA TTA TTA TTA TTA TCA TCA TTA TTA CTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
47062 AAATTATTAC
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
2 2 0.02
3 81 0.98
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:48349 original size:23 final size:25
Alignment explanation
Indices: 48300--48357 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 25
48290 TTTATTTGCA
**
48300 ATATTATTATATTATTACTTTTGTT
1 ATATTATTATATTATTACTTTAATT
48325 ATATT-TTA-ATTATTACTTTAATT
1 ATATTATTATATTATTACTTTAATT
*
48348 ATTTTATTAT
1 ATATTATTAT
48358 CTTAATCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 17 0.61
24 6 0.21
25 5 0.18
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (25 bp):
ATATTATTATATTATTACTTTAATT
Found at i:48372 original size:2 final size:2
Alignment explanation
Indices: 48365--48412 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
48355 TATCTTAATC
48365 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
48407 AT AT AT
1 AT AT AT
48413 TTGTTTAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48635 original size:136 final size:135
Alignment explanation
Indices: 48427--48782 Score: 531
Period size: 136 Copynumber: 2.6 Consensus size: 135
48417 TTAAATAAAA
* *
48427 TATTTATTTATTT-TTCGATGTT-AAGAAATTGACTGTCTTAAAGCAACTAGAAGT-CTTTTTCT
1 TATTTATTTATTTATT-AATATTGAAGAAATTGACTGTCTTAAAGCAACTAGAAGTCCTTTTT-T
48489 GGTATTTTTAAATAAATAAATATTTTACTTTTATAAATTATATATTAATTTTATTATTAGGAAAA
64 GGTATTTTTAAATAAATAAATATTTTACTTTTATAAATTATATATTAATTTTATTATTAGGAAAA
48554 TGTTTATT
129 TGTTT-TT
*
48562 TATTTATTTATTTATTAATATTGAAGAAATTGACTGTCTTAAAACAACTAGAAGTCCTTTTTTGG
1 TATTTATTTATTTATTAATATTGAAGAAATTGACTGTCTTAAAGCAACTAGAAGTCCTTTTTTGG
48627 TATTTTTAAATAAATAAATATTTTACTTTTATAAATTATATATTAATTTTATTATTAGGAAAATG
66 TATTTTTAAATAAATAAATATTTTACTTTTATAAATTATATATTAATTTTATTATTAGGAAAATG
48692 TTTTT
131 TTTTT
* ** * * * *
48697 TATTTATTTATTTATTAAAATTGAAGAAAGGGGCTATCTTAAAGCAACTATAAG-CCATTTTCTA
1 TATTTATTTATTTATTAATATTGAAGAAATTGACTGTCTTAAAGCAACTAGAAGTCC-TTTT-TT
**
48761 AATATTTTTAAATAAATAAATA
64 GGTATTTTTAAATAAATAAATA
48783 AATACTTTAT
Statistics
Matches: 203, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
134 2 0.01
135 70 0.34
136 125 0.62
137 6 0.03
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (135 bp):
TATTTATTTATTTATTAATATTGAAGAAATTGACTGTCTTAAAGCAACTAGAAGTCCTTTTTTGG
TATTTTTAAATAAATAAATATTTTACTTTTATAAATTATATATTAATTTTATTATTAGGAAAATG
TTTTT
Found at i:49878 original size:46 final size:46
Alignment explanation
Indices: 49813--49910 Score: 153
Period size: 46 Copynumber: 2.1 Consensus size: 46
49803 ATTTGATTTC
* * *
49813 ATTTTTTTTCTAAACAAAGCATGGAACTAGAAATCATGCGGTTA-G
1 ATTTTTTTTCCAAACAAAGCATGGAACTAGAAAGCATGAGGTTAGG
49858 ATTTATTTTTCCAAACAAAGCATGGAACTAGAAAGCATGAGGTTAGG
1 ATTT-TTTTTCCAAACAAAGCATGGAACTAGAAAGCATGAGGTTAGG
49905 ATTTTT
1 ATTTTT
49911 ATATCATGAT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
45 4 0.08
46 39 0.81
47 5 0.10
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (46 bp):
ATTTTTTTTCCAAACAAAGCATGGAACTAGAAAGCATGAGGTTAGG
Found at i:51429 original size:7 final size:7
Alignment explanation
Indices: 51413--51454 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
51403 TTTTCATACA
51413 TGCA-TT
1 TGCATTT
51419 TGCATTT
1 TGCATTT
51426 TGCATCTT
1 TGCAT-TT
*
51434 TTCATTT
1 TGCATTT
*
51441 TTCATTT
1 TGCATTT
51448 TGCATTT
1 TGCATTT
51455 ATACTTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
6 4 0.12
7 22 0.69
8 6 0.19
ACGTcount: A:0.14, C:0.17, G:0.10, T:0.60
Consensus pattern (7 bp):
TGCATTT
Found at i:51441 original size:15 final size:14
Alignment explanation
Indices: 51413--51454 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
51403 TTTTCATACA
51413 TGCA-TTTGCATTT
1 TGCATTTTGCATTT
*
51426 TGCATCTTTTCATTT
1 TGCAT-TTTGCATTT
*
51441 TTCATTTTGCATTT
1 TGCATTTTGCATTT
51455 ATACTTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 4 0.17
14 8 0.33
15 12 0.50
ACGTcount: A:0.14, C:0.17, G:0.10, T:0.60
Consensus pattern (14 bp):
TGCATTTTGCATTT
Found at i:53524 original size:2 final size:2
Alignment explanation
Indices: 53517--53548 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
53507 ATCCTTTTAA
53517 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
53549 CCCTTGTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53853 original size:17 final size:17
Alignment explanation
Indices: 53831--53864 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
53821 CTCATTCATC
53831 AAAAAAAAGAGAAAAAA
1 AAAAAAAAGAGAAAAAA
53848 AAAAAAAAGAGAAAAAA
1 AAAAAAAAGAGAAAAAA
53865 TAGATGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAGAAAAAA
Found at i:53913 original size:7 final size:7
Alignment explanation
Indices: 53833--53913 Score: 51
Period size: 7 Copynumber: 11.9 Consensus size: 7
53823 CATTCATCAA
53833 AAAAAAG
1 AAAAAAG
*
53840 AGAAAA-
1 AAAAAAG
53846 AAAAAA-
1 AAAAAAG
*
53852 AAAAGAG
1 AAAAAAG
*
53859 AAAAAAT
1 AAAAAAG
**
53866 AGATGAA-
1 A-AAAAAG
*
53873 AAATAAG
1 AAAAAAG
*
53880 AAAAAGG
1 AAAAAAG
*
53887 AAAAAGG
1 AAAAAAG
*
53894 AAAGAAG
1 AAAAAAG
53901 AAAAAAG
1 AAAAAAG
53908 AAAAAA
1 AAAAAA
53914 TTGAATCAAG
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
6 13 0.23
7 41 0.72
8 3 0.05
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:58365 original size:55 final size:54
Alignment explanation
Indices: 58294--58482 Score: 199
Period size: 53 Copynumber: 3.6 Consensus size: 54
58284 CACATGAAAT
* * *
58294 GATGAATGT-TTGTCAAATGTTTTACGAACATATGGGCAGAAATCCACAGAAAAG
1 GATGAATGTGTTGTCAAATGTTTTACGAACATCTGTGCAG-AAGCCACAGAAAAG
* * * * *
58348 GATTAATGTGTTGTCAAA--TTTTACAAACATCTATGCATAAGCCACAGGAAAG
1 GATGAATGTGTTGTCAAATGTTTTACGAACATCTGTGCAGAAGCCACAGAAAAG
* * * **
58400 GATGAATATGTTTTCAAATGTTTTACGAAACATCTGTACAGAAGCCAC--AACTG
1 GATGAATGTGTTGTCAAATGTTTTACG-AACATCTGTGCAGAAGCCACAGAAAAG
*
58453 GATGAATGTATTGTCAAATGTTTTACGAAC
1 GATGAATGTGTTGTCAAATGTTTTACGAAC
58483 CAGAGATTAT
Statistics
Matches: 110, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
52 30 0.27
53 41 0.37
54 14 0.13
55 25 0.23
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (54 bp):
GATGAATGTGTTGTCAAATGTTTTACGAACATCTGTGCAGAAGCCACAGAAAAG
Found at i:59614 original size:45 final size:45
Alignment explanation
Indices: 59547--60067 Score: 884
Period size: 45 Copynumber: 11.6 Consensus size: 45
59537 CTATTTCCCA
*
59547 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
59592 CATCTGTAAGCCCTTCAATGCATGATGTTTTCAAAACCCTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
59637 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGC
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
59682 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
59727 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
59772 CATCTGTAAGCCCATCAGTGCATGATGTTTTCAAAACCTT-GGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
59816 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
59861 TATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
59906 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
59951 CTTCTGTAATCCCTTTAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
59996 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTAAAGCC-TCAGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC-GGGT
* * *
60041 CATCTGTAAGACCTACAGTGCAAGATG
1 CATCTGTAAGCCCTTCAGTGCATGATG
60068 ATAAGACCTC
Statistics
Matches: 450, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
44 45 0.10
45 405 0.90
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:59855 original size:25 final size:25
Alignment explanation
Indices: 59827--59946 Score: 73
Period size: 25 Copynumber: 5.2 Consensus size: 25
59817 ATCTGTAAGC
59827 CCTTCAGTGCATGATGTTTTCAAAA
1 CCTTCAGTGCATGATGTTTTCAAAA
* * * * **
59852 CCTTC-G-G-GTTAT-CTGT-AAGC
1 CCTTCAGTGCATGATGTTTTCAAAA
59872 CCTTCAGTGCATGATGTTTTCAAAA
1 CCTTCAGTGCATGATGTTTTCAAAA
* **
59897 CCTTCGAGT-CAT-CTG---T-AAGC
1 CCTTC-AGTGCATGATGTTTTCAAAA
59917 CCTTCAGTGCATGATGTTTTCAAAA
1 CCTTCAGTGCATGATGTTTTCAAAA
59942 CCTTC
1 CCTTC
59947 GGGTCTTCTG
Statistics
Matches: 65, Mismatches: 18, Indels: 24
0.61 0.17 0.22
Matches are distributed among these distances:
19 3 0.05
20 17 0.26
21 6 0.09
22 4 0.06
23 4 0.06
24 6 0.09
25 22 0.34
26 3 0.05
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (25 bp):
CCTTCAGTGCATGATGTTTTCAAAA
Found at i:60326 original size:3 final size:3
Alignment explanation
Indices: 60241--60317 Score: 95
Period size: 3 Copynumber: 26.3 Consensus size: 3
60231 CAGTTTTCTT
* * * *
60241 TTA TTA TTT TTA TT- TTA TTA TTA TTA TTC TTA TTA TCA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
60288 TAA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
60318 AAATTATTAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
2 4 0.06
3 58 0.94
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:61571 original size:23 final size:25
Alignment explanation
Indices: 61522--61579 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 25
61512 TTTATTTTCA
**
61522 ATATTATTATATTATTACTTTTGTT
1 ATATTATTATATTATTACTTTAATT
61547 ATATT-TTA-ATTATTACTTTAATT
1 ATATTATTATATTATTACTTTAATT
*
61570 ATTTTATTAT
1 ATATTATTAT
61580 CTTAATCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 17 0.61
24 6 0.21
25 5 0.18
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (25 bp):
ATATTATTATATTATTACTTTAATT
Found at i:61594 original size:2 final size:2
Alignment explanation
Indices: 61587--61612 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
61577 TATCTTAATC
61587 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
61613 TTGTTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61852 original size:10 final size:10
Alignment explanation
Indices: 61837--61861 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
61827 TTTTAAATAA
61837 ATTATATTTT
1 ATTATATTTT
61847 ATTATATTTT
1 ATTATATTTT
61857 ATTAT
1 ATTAT
61862 TAGGAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTATATTTT
Found at i:61857 original size:115 final size:115
Alignment explanation
Indices: 61732--61954 Score: 349
Period size: 115 Copynumber: 1.9 Consensus size: 115
61722 ATAAATTATA
**
61732 TATTAATTTTATTATTAGGAAAATGTTTATTTATTTATTTATTAATATTGAAGAAATTGATCGTC
1 TATTAATTTTATTATTAGGAAAATGTTTATTTATTTATTTATTAATATTGAAGAAAGGGATCGTC
**
61797 TTAAAACAACTAAAAGTCCTTTTCT-GGTATTTTTAAATAAATTATATTT
66 TTAAAACAACTAAAAGTCCTTTTCTAAATATTTTTAAATAAATTATATTT
* *
61846 TATTATATTTTATTATTAGGAAAATGTTTATTTATTTATTTATTAATATTGAAGAAAGGGGTTGT
1 TATTA-ATTTTATTATTAGGAAAATGTTTATTTATTTATTTATTAATATTGAAGAAAGGGATCGT
* * *
61911 CTTAAAGCAACTAGAAGTCTTTTTCTAAATATTTTTAAATAAAT
65 CTTAAAACAACTAAAAGTCCTTTTCTAAATATTTTTAAATAAAT
61955 AAATACATTA
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
114 5 0.05
115 78 0.80
116 15 0.15
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (115 bp):
TATTAATTTTATTATTAGGAAAATGTTTATTTATTTATTTATTAATATTGAAGAAAGGGATCGTC
TTAAAACAACTAAAAGTCCTTTTCTAAATATTTTTAAATAAATTATATTT
Found at i:64326 original size:43 final size:42
Alignment explanation
Indices: 64271--64412 Score: 148
Period size: 43 Copynumber: 3.4 Consensus size: 42
64261 ATAACATGGT
* *
64271 TCCTACGCGATGAGGATGACTGATTATCTAGGGGTGACATGGC
1 TCCTACGTGATGAGGATGACT-ATTATCTAGGGGTGACACGGC
** *
64314 TCCTACGTGATGAGGATG--TATGGTC--GGTGGATGACACGGT
1 TCCTACGTGATGAGGATGACTATTATCTAGG-GG-TGACACGGC
*
64354 TCCTACGTGATGTGGATGACTAGTTATCTAGGGGTGACACGGC
1 TCCTACGTGATGAGGATGACTA-TTATCTAGGGGTGACACGGC
* *
64397 TCTTACATGATGAGGA
1 TCCTACGTGATGAGGA
64413 GGTCTGGTCG
Statistics
Matches: 80, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
38 2 0.03
39 2 0.03
40 28 0.35
41 1 0.01
42 2 0.03
43 41 0.51
44 2 0.03
45 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.27
Consensus pattern (42 bp):
TCCTACGTGATGAGGATGACTATTATCTAGGGGTGACACGGC
Found at i:64360 original size:40 final size:40
Alignment explanation
Indices: 64305--64454 Score: 124
Period size: 40 Copynumber: 3.7 Consensus size: 40
64295 TATCTAGGGG
* *
64305 TGACATGGCTCCTACGTGATGAGGATGTATGGTCGGTGGA
1 TGACACGGCTCCTACATGATGAGGATGTATGGTCGGTGGA
* * * **
64345 TGACACGGTTCCTACGTGATGTGGATGACTAGTTATCTAGG-GG-
1 TGACACGGCTCCTACATGATGAGGATG--TA-TGGTC--GGTGGA
* * *
64388 TGACACGGCTCTTACATGATGAGGAGGTCTGGTCGGTGGA
1 TGACACGGCTCCTACATGATGAGGATGTATGGTCGGTGGA
* * *
64428 TGACACAGTTTCTACATGATGAGGATG
1 TGACACGGCTCCTACATGATGAGGATG
64455 GCAGACCATC
Statistics
Matches: 85, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
38 2 0.02
39 2 0.02
40 49 0.58
41 1 0.01
42 2 0.02
43 25 0.29
44 2 0.02
45 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.34, T:0.28
Consensus pattern (40 bp):
TGACACGGCTCCTACATGATGAGGATGTATGGTCGGTGGA
Found at i:64408 original size:83 final size:83
Alignment explanation
Indices: 64268--64454 Score: 268
Period size: 83 Copynumber: 2.3 Consensus size: 83
64258 GTGATAACAT
* * * *
64268 GGTTCCTACGCGATGAGGATGACTGATTATCTAGGGGTGACATGGCTCCTACGTGATGAGGATGT
1 GGTTCCTACGTGATGAGGATGACTGATTATCTAGGGGTGACACGGCTCCTACATGATGAGGAGGT
64333 ATGGTCGGTGGATGACAC
66 ATGGTCGGTGGATGACAC
* *
64351 GGTTCCTACGTGATGTGGATGACT-AGTTATCTAGGGGTGACACGGCTCTTACATGATGAGGAGG
1 GGTTCCTACGTGATGAGGATGACTGA-TTATCTAGGGGTGACACGGCTCCTACATGATGAGGAGG
*
64415 TCTGGTCGGTGGATGACAC
65 TATGGTCGGTGGATGACAC
* * *
64434 AGTTTCTACATGATGAGGATG
1 GGTTCCTACGTGATGAGGATG
64455 GCAGACCATC
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
82 1 0.01
83 91 0.99
ACGTcount: A:0.22, C:0.16, G:0.34, T:0.28
Consensus pattern (83 bp):
GGTTCCTACGTGATGAGGATGACTGATTATCTAGGGGTGACACGGCTCCTACATGATGAGGAGGT
ATGGTCGGTGGATGACAC
Found at i:64682 original size:73 final size:73
Alignment explanation
Indices: 64543--64682 Score: 185
Period size: 73 Copynumber: 1.9 Consensus size: 73
64533 CAAAGGTTGG
* * * **
64543 TGTTTCAAAGGAAATTGTCTCAAGAGAGATAAAACTTGTTTAAAGAGAAATAGACTCAAATTTTT
1 TGTTTCAAAGGAAACTATCTCAAGAGAGATAAAACTTGTTTAAAGAGAAACAGACTCAAAGGTTT
64608 TTTTGTTT
66 TTTTGTTT
* *
64616 TGTTTC-AAGTGAAACTATCTCAAGAGAGACT-AAATTTGTTTCAAGAGAAACAGACTCAAAGGT
1 TGTTTCAAAG-GAAACTATCTCAAGAGAGA-TAAAACTTGTTTAAAGAGAAACAGACTCAAAGGT
64679 TTTT
64 TTTT
64683 CTTAAAGAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
72 3 0.05
73 54 0.93
74 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (73 bp):
TGTTTCAAAGGAAACTATCTCAAGAGAGATAAAACTTGTTTAAAGAGAAACAGACTCAAAGGTTT
TTTTGTTT
Found at i:64828 original size:36 final size:37
Alignment explanation
Indices: 64784--64904 Score: 113
Period size: 37 Copynumber: 3.3 Consensus size: 37
64774 ATCGTAAAGG
**
64784 AAAATGTCTCAAGCGAGATGAAATTTG-TTTT-GATA
1 AAAATGTCTCAAGCGAGACAAAATTTGTTTTTAGATA
*
64819 AAAATTGTCTTAAGCGAGACAAAATTTGTTTTTAGATA
1 AAAA-TGTCTCAAGCGAGACAAAATTTGTTTTTAGATA
* * * * * *
64857 AAACTATCTTAAGTGATACAATATTTGTTTTTAAGA-A
1 AAAATGTCTCAAGCGAGACAAAATTTGTTTTT-AGATA
64894 AAAATTGTCTC
1 AAAA-TGTCTC
64905 TAGTGAGATA
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
35 4 0.06
36 20 0.29
37 32 0.46
38 14 0.20
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (37 bp):
AAAATGTCTCAAGCGAGACAAAATTTGTTTTTAGATA
Found at i:65287 original size:16 final size:16
Alignment explanation
Indices: 65266--65305 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
65256 TTTATGTATA
65266 ATGTATGTATGTGTTG
1 ATGTATGTATGTGTTG
* *
65282 ATGTATATATGTGTTT
1 ATGTATGTATGTGTTG
65298 ATGTATGT
1 ATGTATGT
65306 TTTCTTGGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.53
Consensus pattern (16 bp):
ATGTATGTATGTGTTG
Found at i:69751 original size:28 final size:29
Alignment explanation
Indices: 69701--69760 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
69691 AAAAACTTGA
* *
69701 TAAAACCTTGACAAAGATG-AAAATAAAT
1 TAAAACCTTGACAAAAATGAAAAAAAAAT
* * *
69729 TAAAACGTTTACAAAAATTAAAAAAAAAT
1 TAAAACCTTGACAAAAATGAAAAAAAAAT
69758 TAA
1 TAA
69761 TAAATAGATC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.62, C:0.08, G:0.07, T:0.23
Consensus pattern (29 bp):
TAAAACCTTGACAAAAATGAAAAAAAAAT
Done.