Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005269.1 Hibiscus syriacus cultivar Beakdansim tig00011914_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: 55851
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Found at i:1965 original size:9 final size:9
Alignment explanation
Indices: 1948--1977 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1938 TTAGATAACT
1948 ATTAAAAAA
1 ATTAAAAAA
*
1957 ATTATAAAA
1 ATTAAAAAA
1966 ATTAAAAAA
1 ATTAAAAAA
1975 ATT
1 ATT
1978 GTATTTGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
ATTAAAAAA
Found at i:7637 original size:12 final size:12
Alignment explanation
Indices: 7620--7654 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
7610 ACCAATGTGA
7620 GAAAGATTGTTT
1 GAAAGATTGTTT
*
7632 GAAAGATTGCTT
1 GAAAGATTGTTT
*
7644 GAGAGATTGTT
1 GAAAGATTGTT
7655 CAATCGACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.03, G:0.29, T:0.37
Consensus pattern (12 bp):
GAAAGATTGTTT
Found at i:8547 original size:14 final size:14
Alignment explanation
Indices: 8528--8561 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
8518 TTAAATGATA
8528 AACGAATACAAATG
1 AACGAATACAAATG
8542 AACGAATACAAATG
1 AACGAATACAAATG
8556 AACGAA
1 AACGAA
8562 CGTAAATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.12
Consensus pattern (14 bp):
AACGAATACAAATG
Found at i:8568 original size:14 final size:14
Alignment explanation
Indices: 8528--8572 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
8518 TTAAATGATA
*
8528 AACGAATACAAATG
1 AACGAACACAAATG
*
8542 AACGAATACAAATG
1 AACGAACACAAATG
**
8556 AACGAACGTAAATG
1 AACGAACACAAATG
8570 AAC
1 AAC
8573 ATAAACGAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.13
Consensus pattern (14 bp):
AACGAACACAAATG
Found at i:9564 original size:17 final size:17
Alignment explanation
Indices: 9542--9577 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
9532 AAGCACCTCC
9542 AACTAAATTCATATTCA
1 AACTAAATTCATATTCA
*
9559 AACTAAATTTATATTCA
1 AACTAAATTCATATTCA
9576 AA
1 AA
9578 AAGAGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (17 bp):
AACTAAATTCATATTCA
Found at i:15808 original size:13 final size:13
Alignment explanation
Indices: 15808--15868 Score: 68
Period size: 13 Copynumber: 4.3 Consensus size: 13
15798 CCGTTGACCC
15808 GACCCGACCCGTT
1 GACCCGACCCGTT
*
15821 TACCCGACCCGTT
1 GACCCGACCCGTT
15834 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
15852 GACCCGACCCGTT
1 GACCCGACCCGTT
15865 GACC
1 GACC
15869 GTTGACCGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
13 29 0.71
18 12 0.29
ACGTcount: A:0.16, C:0.48, G:0.21, T:0.15
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:15809 original size:18 final size:18
Alignment explanation
Indices: 15786--15862 Score: 110
Period size: 18 Copynumber: 4.6 Consensus size: 18
15776 ACCGGTCACA
15786 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
15804 ACCCGACCCGACCCGTT-
1 ACCCGACCCGACCCGTTG
*
15821 ----TACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
15835 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
15853 ACCCGACCCG
1 ACCCGACCCG
15863 TTGACCGTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
13 12 0.23
18 40 0.77
ACGTcount: A:0.17, C:0.51, G:0.21, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:15829 original size:31 final size:31
Alignment explanation
Indices: 15790--15868 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
15780 GTCACAACCC
15790 GACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
*
15821 TACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
15852 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
15869 GTTGACCGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.16, C:0.48, G:0.22, T:0.14
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:15872 original size:7 final size:7
Alignment explanation
Indices: 15860--15898 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
15850 TTGACCCGAC
15860 CCGTTGA
1 CCGTTGA
15867 CCGTTGA
1 CCGTTGA
15874 CCGTTGA
1 CCGTTGA
15881 CCCGTTGA
1 -CCGTTGA
15889 CCGTTGA
1 CCGTTGA
15896 CCG
1 CCG
15899 GAGTTGACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.13, C:0.33, G:0.28, T:0.26
Consensus pattern (7 bp):
CCGTTGA
Found at i:15885 original size:15 final size:15
Alignment explanation
Indices: 15860--15897 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
15850 TTGACCCGAC
15860 CCGTTGA-CCGTTGA
1 CCGTTGACCCGTTGA
15874 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
15889 CCGTTGACC
1 CCGTTGACC
15898 GGAGTTGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.13, C:0.34, G:0.26, T:0.26
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:15885 original size:22 final size:22
Alignment explanation
Indices: 15857--15898 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
15847 CCGTTGACCC
15857 GACCCGTTGACCGTTGACCGTT
1 GACCCGTTGACCGTTGACCGTT
15879 GACCCGTTGACCGTTGACCG
1 GACCCGTTGACCGTTGACCG
15899 GAGTTGACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.33, G:0.29, T:0.24
Consensus pattern (22 bp):
GACCCGTTGACCGTTGACCGTT
Found at i:18479 original size:24 final size:23
Alignment explanation
Indices: 18385--18483 Score: 83
Period size: 24 Copynumber: 4.2 Consensus size: 23
18375 ATATTTTATC
* *
18385 TGATTTCTGATTTGAATTCTGTTT
1 TGATATCTGATCTGAATTCTG-TT
* *
18409 TGACATCTGATCTGAAATCTGTT
1 TGATATCTGATCTGAATTCTGTT
* * *
18432 CTGAT-TCCTAAACTGGATTCTGTT
1 -TGATAT-CTGATCTGAATTCTGTT
*
18456 ATGATATCTGATCTGAATTATGTT
1 -TGATATCTGATCTGAATTCTGTT
18480 TGAT
1 TGAT
18484 TTTTGATATC
Statistics
Matches: 58, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
23 7 0.12
24 50 0.86
25 1 0.02
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.46
Consensus pattern (23 bp):
TGATATCTGATCTGAATTCTGTT
Found at i:20640 original size:18 final size:18
Alignment explanation
Indices: 20617--20686 Score: 87
Period size: 18 Copynumber: 4.2 Consensus size: 18
20607 ACCGGTCATA
20617 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
20635 ACCCGACCCGACCCGTT-
1 ACCCGACCCGACCCGTTG
*
20652 ----TACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
20666 ACTCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
20684 ACC
1 ACC
20687 GTTGACCCGT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
13 12 0.27
18 32 0.73
ACGTcount: A:0.17, C:0.49, G:0.20, T:0.14
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:20660 original size:31 final size:31
Alignment explanation
Indices: 20621--20701 Score: 117
Period size: 31 Copynumber: 2.5 Consensus size: 31
20611 GTCATAACCC
20621 GACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
* *
20652 TACCCGACCCGTTGACTCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
*
20683 GACCGTTGACCCGTTGACC
1 GACC--CGACCCGTTGACC
20702 GTTGACCGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 32 0.74
33 11 0.26
ACGTcount: A:0.16, C:0.44, G:0.22, T:0.17
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:20686 original size:13 final size:13
Alignment explanation
Indices: 20639--20675 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
20629 CCGTTGACCC
20639 GACCCGACCCGTT
1 GACCCGACCCGTT
*
20652 TACCCGACCCGTT
1 GACCCGACCCGTT
*
20665 GACTCGACCCG
1 GACCCGACCCG
20676 ACCCGTTGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.16, C:0.46, G:0.22, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:20690 original size:7 final size:7
Alignment explanation
Indices: 20678--20709 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
20668 TCGACCCGAC
20678 CCGTTGA
1 CCGTTGA
20685 CCGTTGA
1 CCGTTGA
20692 CCCGTTGA
1 -CCGTTGA
20700 CCGTTGA
1 CCGTTGA
20707 CCG
1 CCG
20710 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:20695 original size:15 final size:15
Alignment explanation
Indices: 20675--20708 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
20665 GACTCGACCC
20675 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
20690 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
20705 GACC
1 GACC
20709 GGAGTTGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.15, C:0.35, G:0.26, T:0.24
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:23291 original size:24 final size:24
Alignment explanation
Indices: 23197--23296 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
23187 ATATTTTATC
* *
23197 TGATTTCTGATTTGAATTCTGTTT
1 TGATATCTGATCTGAATTCTGTTT
* * *
23221 TGACATCTGATCTGAAATCTGTTC
1 TGATATCTGATCTGAATTCTGTTT
* * * *
23245 TGAT-TCCTAAACTGGATTCTGTTA
1 TGATAT-CTGATCTGAATTCTGTTT
*
23269 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTCTGTTT
23293 TGAT
1 TGAT
23297 TTTTGATATC
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
23 1 0.02
24 56 0.97
25 1 0.02
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (24 bp):
TGATATCTGATCTGAATTCTGTTT
Found at i:25448 original size:13 final size:13
Alignment explanation
Indices: 25448--25523 Score: 71
Period size: 13 Copynumber: 5.3 Consensus size: 13
25438 CCGTTGACCC
25448 GACCCGACCCGTT
1 GACCCGACCCGTT
*
25461 TACCCGACCCGTT
1 GACCCGACCCGTT
25474 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
25492 GACCCGACCCGTT
1 GACCCGACCCGTT
*
25505 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
25520 GACC
1 GACC
25524 GGAGTTGACC
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
13 29 0.55
15 12 0.23
18 12 0.23
ACGTcount: A:0.16, C:0.45, G:0.22, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:25449 original size:18 final size:18
Alignment explanation
Indices: 25426--25502 Score: 110
Period size: 18 Copynumber: 4.6 Consensus size: 18
25416 ACCGGTCACA
25426 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
25444 ACCCGACCCGACCCGTT-
1 ACCCGACCCGACCCGTTG
*
25461 ----TACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
25475 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
25493 ACCCGACCCG
1 ACCCGACCCG
25503 TTGACCGTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
13 12 0.23
18 40 0.77
ACGTcount: A:0.17, C:0.51, G:0.21, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:25469 original size:31 final size:31
Alignment explanation
Indices: 25430--25508 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
25420 GTCACAACCC
25430 GACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
*
25461 TACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
25492 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
25509 GTTGACCCGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.16, C:0.48, G:0.22, T:0.14
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:25495 original size:8 final size:8
Alignment explanation
Indices: 25484--25523 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
25474 GACCCGACCC
25484 GACCCGTT
1 GACCCGTT
25492 GACCC---
1 GACCCGTT
25497 GACCCGTT
1 GACCCGTT
25505 GA-CCGTT
1 GACCCGTT
25512 GACCCGTT
1 GACCCGTT
25520 GACC
1 GACC
25524 GGAGTTGACC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
5 5 0.18
7 7 0.25
8 16 0.57
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (8 bp):
GACCCGTT
Found at i:25517 original size:15 final size:14
Alignment explanation
Indices: 25430--25524 Score: 70
Period size: 13 Copynumber: 6.4 Consensus size: 14
25420 GTCACAACCC
25430 GACC-CGACCCGTT
1 GACCGCGACCCGTT
25443 GACCCGACCCGACCCGTT
1 GA-CCG---CGACCCGTT
*
25461 TACC-CGACCCGTT
1 GACCGCGACCCGTT
25474 GACCCGACCCGACCCGTT
1 GA-CCG---CGACCCGTT
25492 GACC-CGACCCGTT
1 GACCGCGACCCGTT
*
25505 GACCGTTGACCCGTT
1 GACCG-CGACCCGTT
25520 GACCG
1 GACCG
25525 GAGTTGACCA
Statistics
Matches: 67, Mismatches: 3, Indels: 22
0.73 0.03 0.24
Matches are distributed among these distances:
13 25 0.37
14 4 0.06
15 13 0.19
17 4 0.06
18 21 0.31
ACGTcount: A:0.16, C:0.45, G:0.23, T:0.16
Consensus pattern (14 bp):
GACCGCGACCCGTT
Found at i:28103 original size:24 final size:24
Alignment explanation
Indices: 28009--28108 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
27999 ATATTTTATC
* *
28009 TGATTTCTGATTTGAATTCTGTTT
1 TGATATCTGATCTGAATTCTGTTT
* * *
28033 TGACATCTGATCTGAAATCTGTTC
1 TGATATCTGATCTGAATTCTGTTT
* * * *
28057 TGAT-TCCTAAACTGGATTCTGTTA
1 TGATAT-CTGATCTGAATTCTGTTT
*
28081 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTCTGTTT
28105 TGAT
1 TGAT
28109 TTTGATATCT
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
23 1 0.02
24 56 0.97
25 1 0.02
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (24 bp):
TGATATCTGATCTGAATTCTGTTT
Found at i:47374 original size:20 final size:20
Alignment explanation
Indices: 47345--47387 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
47335 TTCCACCCAC
47345 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGCTCCTAA
* * *
47365 ATGCATCTATATGGTTCTAA
1 ATGCAACTATATGCTCCTAA
47385 ATG
1 ATG
47388 AGCTCCTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (20 bp):
ATGCAACTATATGCTCCTAA
Found at i:49856 original size:21 final size:21
Alignment explanation
Indices: 49807--49856 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
49797 TTGAGGGTTT
* * *
49807 TATGTTGTCCTTCGGGATAAT
1 TATGTGGTCCTTCGGGACAAA
*
49828 TATATGGTCCTTCGGGACAAA
1 TATGTGGTCCTTCGGGACAAA
49849 TATGTGGT
1 TATGTGGT
49857 ACTTTAGTGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.38
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGACAAA
Found at i:51495 original size:24 final size:25
Alignment explanation
Indices: 51463--51512 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
51453 AATTTAATTT
* *
51463 AATTCTTAGACAGAATATTATTTTG
1 AATTCTTAGACAAAATATCATTTTG
*
51488 AATT-TTAGATAAAATATCATTTTG
1 AATTCTTAGACAAAATATCATTTTG
51512 A
1 A
51513 CCCTTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (25 bp):
AATTCTTAGACAAAATATCATTTTG
Found at i:51542 original size:30 final size:31
Alignment explanation
Indices: 51491--51549 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
51481 TATTTTGAAT
* *
51491 TTTAGATAAAATATCATTTTGACCCTTAAAA
1 TTTAGATAAAATATCAATTTGACCATTAAAA
*
51522 TTTAGAT-AAATATTAATTTGACCATTAA
1 TTTAGATAAAATATCAATTTGACCATTAA
51550 TTCAACCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
TTTAGATAAAATATCAATTTGACCATTAAAA
Found at i:53510 original size:21 final size:20
Alignment explanation
Indices: 53480--53518 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
53470 GTCCAATATC
53480 GATACCCATCACTAGAGTACT
1 GATACCCATC-CTAGAGTACT
* *
53501 GATACTCATCTTAGAGTA
1 GATACCCATCCTAGAGTA
53519 TCAATACTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (20 bp):
GATACCCATCCTAGAGTACT
Found at i:53631 original size:20 final size:19
Alignment explanation
Indices: 53606--53644 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
53596 TTCAATTAAG
53606 GGGTATCGATACCAACGGGT
1 GGGTATCGATACCAA-GGGT
53626 GGGTATCGATACCAAGGGT
1 GGGTATCGATACCAAGGGT
53645 ACTTATATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.26, C:0.18, G:0.36, T:0.21
Consensus pattern (19 bp):
GGGTATCGATACCAAGGGT
Done.