Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000082.1 Hibiscus syriacus cultivar Beakdansim tig00000146_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: 58735
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:43 original size:25 final size:25
Alignment explanation
Indices: 7--77 Score: 126
Period size: 25 Copynumber: 2.8 Consensus size: 25
1 AAATCT
7 GATTAGGGTTTCAAACCCTAAAACA
1 GATTAGGGTTTCAAACCCTAAAACA
32 -ATTTAGGGTTTCAAACCCTAAAACA
1 GA-TTAGGGTTTCAAACCCTAAAACA
57 GATTAGGGTTTCAAACCCTAA
1 GATTAGGGTTTCAAACCCTAA
78 TCCCCTATCA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
24 1 0.02
25 42 0.95
26 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (25 bp):
GATTAGGGTTTCAAACCCTAAAACA
Found at i:1700 original size:14 final size:15
Alignment explanation
Indices: 1675--1703 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1665 GCTTATAGAA
1675 ATTTTATTGTTATTT
1 ATTTTATTGTTATTT
1690 ATTTT-TTGTTATTT
1 ATTTTATTGTTATTT
1704 TTTGATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (15 bp):
ATTTTATTGTTATTT
Found at i:2533 original size:24 final size:23
Alignment explanation
Indices: 2487--2534 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
2477 TTAATTCAAA
* *
2487 TCAATTCAAATCATCATTTTTTT
1 TCAATTCAAATCATAATTGTTTT
*
2510 TCAATTTAAAGTCATAATTGTTTT
1 TCAATTCAAA-TCATAATTGTTTT
2534 T
1 T
2535 AAAATAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.31, C:0.12, G:0.04, T:0.52
Consensus pattern (23 bp):
TCAATTCAAATCATAATTGTTTT
Found at i:14436 original size:92 final size:92
Alignment explanation
Indices: 14286--14583 Score: 431
Period size: 92 Copynumber: 3.2 Consensus size: 92
14276 CCAGACTTCC
* * * *
14286 TCATCACGTAGGAGTCGTGTCAACATTAGGATAACCAGCCGTCCTTATCACGTAGGAACCGAGTT
1 TCATCACGTAAGAGCCGTGTCAAC-CT--GATAACCAGCCGTCCTCATCACGTAGGAACCGAGTT
14351 ATCACCCTTCCTTTAGATGGCCAGATCTCT
63 ATCACCCTTCCTTTAGATGGCCAGATCTCT
14381 TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATC
1 TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATC
14446 ACCCTTCCTTTAGATGGCCAGATCTCT
66 ACCCTTCCTTTAGATGGCCAGATCTCT
* *
14473 TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGTCGTCCTCATTACGTAGGAACCGAGTTATC
1 TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATC
* ** * *
14538 A---TCCCTAAAGATGACCAGATCTCC
66 ACCCTTCCTTTAGATGGCCAGATCTCT
* *
14562 TCATCACGTAGGAGCCATGTCA
1 TCATCACGTAAGAGCCGTGTCA
14584 CCCTTAGACG
Statistics
Matches: 190, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
89 38 0.20
92 129 0.68
94 1 0.01
95 22 0.12
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (92 bp):
TCATCACGTAAGAGCCGTGTCAACCTGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATC
ACCCTTCCTTTAGATGGCCAGATCTCT
Found at i:14795 original size:3 final size:3
Alignment explanation
Indices: 14789--14844 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
14779 TTTTTTTCCG
** *
14789 TTA TTA TTA TTA TTA TTA TTA TCG TTA -TC TTA TTA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14835 TTTA TTA TTA
1 -TTA TTA TTA
14845 CAATTTTTGC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 3 0.07
3 38 0.86
4 3 0.07
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:14992 original size:25 final size:25
Alignment explanation
Indices: 14963--15084 Score: 192
Period size: 25 Copynumber: 4.9 Consensus size: 25
14953 GCAACCCGTT
*
14963 AGATTAGGGTTTCAAACCCTAAATC
1 AGATTAGGGTTTCAAACCCTAAAAC
* *
14988 AGATTAGGGTTTTAAACCCTAAATC
1 AGATTAGGGTTTCAAACCCTAAAAC
*
15013 TGATTAGGGTTTCAAACCCTAAAAC
1 AGATTAGGGTTTCAAACCCTAAAAC
15038 A-ATTTAGGGTTTCAAACCCTAAAAC
1 AGA-TTAGGGTTTCAAACCCTAAAAC
15063 AGATTAGGGTTTCAAACCCTAA
1 AGATTAGGGTTTCAAACCCTAA
15085 TCCCCTACTC
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
24 1 0.01
25 88 0.98
26 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (25 bp):
AGATTAGGGTTTCAAACCCTAAAAC
Found at i:16743 original size:15 final size:16
Alignment explanation
Indices: 16715--16747 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
16705 CTTATAGAAA
16715 TTATTTTATTGTTATT
1 TTATTTTATTGTTATT
16731 TTATTTT-TTGTTATT
1 TTATTTTATTGTTATT
16746 TT
1 TT
16748 TTGATTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (16 bp):
TTATTTTATTGTTATT
Found at i:16768 original size:26 final size:26
Alignment explanation
Indices: 16715--16768 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
16705 CTTATAGAAA
* **
16715 TTATTTTATTGTTATTTTATTTTTTG
1 TTATTTTATTGTTAATTTATTTGATG
16741 TTATTTT-TTGATTAATTTATTTGATG
1 TTATTTTATTG-TTAATTTATTTGATG
16767 TT
1 TT
16769 CATATTGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.12
26 21 0.88
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (26 bp):
TTATTTTATTGTTAATTTATTTGATG
Found at i:18220 original size:2 final size:2
Alignment explanation
Indices: 18213--18252 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
18203 TTAATCTTGC
18213 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
18253 CAAGTAATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18543 original size:30 final size:27
Alignment explanation
Indices: 18509--18576 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 27
18499 CTTAAATTGG
18509 TATAATTTTACATTTAGTCCTTAATATTTA
1 TATAATTTTA-ATTTAGT-CTTAAT-TTTA
18539 TATAATTTATTAATTTAGTCTTAATTTTA
1 TATAA-TT-TTAATTTAGTCTTAATTTTA
*
18568 AATTAATTT
1 TA-TAATTT
18577 CATAAATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
28 1 0.03
29 7 0.21
30 14 0.41
31 9 0.26
32 3 0.09
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (27 bp):
TATAATTTTAATTTAGTCTTAATTTTA
Found at i:18558 original size:31 final size:31
Alignment explanation
Indices: 18520--18586 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
18510 ATAATTTTAC
* *
18520 ATTTAGTCCTTAATATTTATA-TAATTT-ATTA
1 ATTTAGT-CTTAAT-TTTAAATTAATTTCATAA
18551 ATTTAGTCTTAATTTTAAATTAATTTCATAA
1 ATTTAGTCTTAATTTTAAATTAATTTCATAA
18582 ATTTA
1 ATTTA
18587 ATCTCTCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 5 0.16
30 12 0.38
31 15 0.47
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (31 bp):
ATTTAGTCTTAATTTTAAATTAATTTCATAA
Found at i:19461 original size:62 final size:62
Alignment explanation
Indices: 19390--19516 Score: 254
Period size: 62 Copynumber: 2.0 Consensus size: 62
19380 TTAGAATTAA
19390 ATAAATTTTACTGTGATATCATTCCAAAACTTATCTATTTATTTAAGCGCATATATATATAT
1 ATAAATTTTACTGTGATATCATTCCAAAACTTATCTATTTATTTAAGCGCATATATATATAT
19452 ATAAATTTTACTGTGATATCATTCCAAAACTTATCTATTTATTTAAGCGCATATATATATAT
1 ATAAATTTTACTGTGATATCATTCCAAAACTTATCTATTTATTTAAGCGCATATATATATAT
19514 ATA
1 ATA
19517 TATAATTTAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (62 bp):
ATAAATTTTACTGTGATATCATTCCAAAACTTATCTATTTATTTAAGCGCATATATATATAT
Found at i:23956 original size:13 final size:13
Alignment explanation
Indices: 23938--23965 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
23928 TCTGGAATAC
23938 CCTCAAGAAAGTT
1 CCTCAAGAAAGTT
23951 CCTCAAGAAAGTT
1 CCTCAAGAAAGTT
23964 CC
1 CC
23966 AAAGCTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (13 bp):
CCTCAAGAAAGTT
Found at i:28335 original size:21 final size:21
Alignment explanation
Indices: 28309--28350 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
28299 GTCGAGGGGT
* *
28309 TATCAGTGGTCCTTCGGGACA
1 TATCAGTAGTCCTTCGAGACA
28330 TATCAGTAGTCCTTCGAGACA
1 TATCAGTAGTCCTTCGAGACA
28351 AATATTCAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (21 bp):
TATCAGTAGTCCTTCGAGACA
Found at i:29993 original size:26 final size:26
Alignment explanation
Indices: 29964--30015 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
29954 TAGTTGGAGG
29964 GAACCACTTGAACTAAGTTAACAGCT
1 GAACCACTTGAACTAAGTTAACAGCT
29990 GAACCACTTGAACTAAGTTAACAGCT
1 GAACCACTTGAACTAAGTTAACAGCT
30016 ATTTGGGCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (26 bp):
GAACCACTTGAACTAAGTTAACAGCT
Found at i:31284 original size:302 final size:302
Alignment explanation
Indices: 30731--31320 Score: 1144
Period size: 302 Copynumber: 2.0 Consensus size: 302
30721 GTTTCCCGTC
30731 GTTGACCAACGGCTCCGTTACTTTGTGCTGACGTGACATGTTAAACAGGCCAACATCCTAATTTT
1 GTTGACCAACGGCTCCGTTACTTTGTGCTGACGTGACATGTTAAACAGGCCAACATCCTAATTTT
*
30796 TTCTCTCAATCTGGCCTTCCAATTCAAGAAAATAACTCAATTTGGCCCTCCTATTTTTCTCTCTT
66 TTCTCTCAATCTGGCATTCCAATTCAAGAAAATAACTCAATTTGGCCCTCCTATTTTTCTCTCTT
30861 CTATTTTGGTCATTAAACTTAAAAAATTAATTTAATCACTCAACTTTTAAATTACACATGTTTTA
131 CTATTTTGGTCATTAAACTTAAAAAATTAATTTAATCACTCAACTTTTAAATTACACATGTTTTA
30926 ATCATCATGATTTATTTTATTAATATTTATGTATGATGTGGTATTTTTTCTTTTAAACCAAAGAT
196 ATCATCATGATTTATTTTATTAATATTTATGTATGATGTGGTATTTTTTCTTTTAAACCAAAGAT
30991 TCTTTTGTTTTTCTTTCATTACCAGATAACGTTTTTTTCGTT
261 TCTTTTGTTTTTCTTTCATTACCAGATAACGTTTTTTTCGTT
* *
31033 GTTGACTAACGGCTCCGTTACTTTGTGCTGACGTGACATGTTAAGCAGGCCAACATCCTAATTTT
1 GTTGACCAACGGCTCCGTTACTTTGTGCTGACGTGACATGTTAAACAGGCCAACATCCTAATTTT
*
31098 TTCTCTCAATCTGGCATTCCAATTCAAGAAAATAACTCAATTTGGCCCTCCTATTTTTTTCTCTT
66 TTCTCTCAATCTGGCATTCCAATTCAAGAAAATAACTCAATTTGGCCCTCCTATTTTTCTCTCTT
31163 CTATTTTGGTCATTAAACTTAAAAAATTAATTTAATCACTCAACTTTTAAATTACACATGTTTTA
131 CTATTTTGGTCATTAAACTTAAAAAATTAATTTAATCACTCAACTTTTAAATTACACATGTTTTA
31228 ATCATCATGATTTATTTTATTAATATTTATGTATGATGTGGTATTTTTTCTTTTAAACCAAAGAT
196 ATCATCATGATTTATTTTATTAATATTTATGTATGATGTGGTATTTTTTCTTTTAAACCAAAGAT
31293 TCTTTTGTTTTTCTTTCATTACCAGATA
261 TCTTTTGTTTTTCTTTCATTACCAGATA
31321 TCTGGTAATG
Statistics
Matches: 284, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
302 284 1.00
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.44
Consensus pattern (302 bp):
GTTGACCAACGGCTCCGTTACTTTGTGCTGACGTGACATGTTAAACAGGCCAACATCCTAATTTT
TTCTCTCAATCTGGCATTCCAATTCAAGAAAATAACTCAATTTGGCCCTCCTATTTTTCTCTCTT
CTATTTTGGTCATTAAACTTAAAAAATTAATTTAATCACTCAACTTTTAAATTACACATGTTTTA
ATCATCATGATTTATTTTATTAATATTTATGTATGATGTGGTATTTTTTCTTTTAAACCAAAGAT
TCTTTTGTTTTTCTTTCATTACCAGATAACGTTTTTTTCGTT
Found at i:33422 original size:14 final size:14
Alignment explanation
Indices: 33405--33457 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 14
33395 AGATTGGGTT
*
33405 AAACATAAATGAAC
1 AAACATAAACGAAC
33419 AAACATAAACG---
1 AAACATAAACGAAC
*
33430 -AACATAACCGAAC
1 AAACATAAACGAAC
*
33443 GAACATAAACGAAC
1 AAACATAAACGAAC
33457 A
1 A
33458 TAACTGAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
10 9 0.29
14 22 0.71
ACGTcount: A:0.60, C:0.21, G:0.09, T:0.09
Consensus pattern (14 bp):
AAACATAAACGAAC
Found at i:33442 original size:24 final size:24
Alignment explanation
Indices: 33406--33461 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
33396 GATTGGGTTA
**
33406 AACATAAATGAACAAACATAAACG
1 AACATAACCGAACAAACATAAACG
*
33430 AACATAACCGAACGAACATAAACG
1 AACATAACCGAACAAACATAAACG
33454 AACATAAC
1 AACATAAC
33462 TGAAAGTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.59, C:0.21, G:0.09, T:0.11
Consensus pattern (24 bp):
AACATAACCGAACAAACATAAACG
Found at i:37745 original size:22 final size:22
Alignment explanation
Indices: 37720--37794 Score: 123
Period size: 22 Copynumber: 3.4 Consensus size: 22
37710 CACCACAGCT
*
37720 CGTATAAATGCACCGAAGTGCC
1 CGTATAATTGCACCGAAGTGCC
*
37742 CGTAGAATTGCACCGAAGTGCC
1 CGTATAATTGCACCGAAGTGCC
37764 CGTATAATTGCACCGAAGTGCC
1 CGTATAATTGCACCGAAGTGCC
*
37786 CGTAGAATT
1 CGTATAATT
37795 ATGTCCATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.21
Consensus pattern (22 bp):
CGTATAATTGCACCGAAGTGCC
Found at i:38098 original size:29 final size:28
Alignment explanation
Indices: 38056--38126 Score: 106
Period size: 29 Copynumber: 2.5 Consensus size: 28
38046 TTTTCTGCAT
* *
38056 ATTCATATCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATA-CA
*
38085 ATTCATGTCATGTAATACATTTAATACA
1 ATTCATGTCATGTAATACATATAATACA
38113 ATTCATGTCATGTA
1 ATTCATGTCATGTA
38127 TCATAATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 15 0.38
29 24 0.62
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.39
Consensus pattern (28 bp):
ATTCATGTCATGTAATACATATAATACA
Found at i:38547 original size:68 final size:67
Alignment explanation
Indices: 38429--38580 Score: 205
Period size: 68 Copynumber: 2.3 Consensus size: 67
38419 TTTTTCTCAT
* * * *
38429 GGGGGAATCGGTTCCTCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTTATATACGA
1 GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCAT-TACGA
38494 TGA
65 TGA
** * * *
38497 GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCTTGCATTCTGGAAATTCATTTCGTT
1 GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATTACGAT
38562 GA
66 GA
*
38564 AGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
38581 TTGAATGGGT
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
67 22 0.30
68 52 0.70
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.30
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATTACGAT
GA
Found at i:38590 original size:21 final size:21
Alignment explanation
Indices: 38560--38602 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
38550 ATTCATTTCG
* *
38560 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
38581 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
38602 T
1 T
38603 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:44664 original size:22 final size:22
Alignment explanation
Indices: 44647--44713 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
44637 CTCGTATAAA
44647 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
44669 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
44691 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
44713 T
1 T
44714 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:45017 original size:29 final size:28
Alignment explanation
Indices: 44975--45045 Score: 106
Period size: 29 Copynumber: 2.5 Consensus size: 28
44965 TTTTCTGCAT
* *
44975 ATTCATATCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATA-CA
*
45004 ATTCATGTCATGTAATACATTTAATACA
1 ATTCATGTCATGTAATACATATAATACA
45032 ATTCATGTCATGTA
1 ATTCATGTCATGTA
45046 TCATAATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 15 0.38
29 24 0.62
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.39
Consensus pattern (28 bp):
ATTCATGTCATGTAATACATATAATACA
Found at i:45465 original size:68 final size:67
Alignment explanation
Indices: 45347--45498 Score: 205
Period size: 68 Copynumber: 2.3 Consensus size: 67
45337 CTTTTCTCAT
* * * *
45347 GGGGGAATCGGTTCCTCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTTATATACGA
1 GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCAT-TACGA
45412 TGA
65 TGA
** * * *
45415 GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCTTGCATTCTGGAAATTCATTTCGTT
1 GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATTACGAT
45480 GA
66 GA
*
45482 AGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
45499 TTGAATGGGT
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
67 22 0.30
68 52 0.70
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.30
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATTACGAT
GA
Found at i:45508 original size:21 final size:21
Alignment explanation
Indices: 45478--45520 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
45468 ATTCATTTCG
* *
45478 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
45499 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
45520 T
1 T
45521 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:49345 original size:31 final size:30
Alignment explanation
Indices: 49310--49512 Score: 178
Period size: 31 Copynumber: 7.1 Consensus size: 30
49300 TATGTTAAAA
* *
49310 ATATTTTAAAATTAAGATAAAAAT--AATTT
1 ATATTTT-AAGTTAAGATAAAAATAAAATAT
*
49339 ATATATTAAGTTAAG-----AATAAAATAT
1 ATATTTTAAGTTAAGATAAAAATAAAATAT
* *
49364 ATATTTTTAAGTTAAAATAAAAATAAAAAAT
1 ATA-TTTTAAGTTAAGATAAAAATAAAATAT
*
49395 ATATTTTTAAGTTAAAATAAAAATAAAATAT
1 ATA-TTTTAAGTTAAGATAAAAATAAAATAT
* * *
49426 ATGTTTTAAGTTAAGATAAGAATAAAGTAT
1 ATATTTTAAGTTAAGATAAAAATAAAATAT
* * *
49456 -T-TTTTAAGTTAACAT-AAGATTAAA-AT
1 ATATTTTAAGTTAAGATAAAAATAAAATAT
*
49482 AT-TTTTAAGTTAAGATAAGAATAAAATAT
1 ATATTTTAAGTTAAGATAAAAATAAAATAT
49511 AT
1 AT
49513 TTAATAATTT
Statistics
Matches: 143, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
23 3 0.02
25 7 0.05
26 12 0.08
27 19 0.13
28 26 0.18
29 11 0.08
30 24 0.17
31 41 0.29
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.38
Consensus pattern (30 bp):
ATATTTTAAGTTAAGATAAAAATAAAATAT
Found at i:49346 original size:23 final size:23
Alignment explanation
Indices: 49305--49368 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
49295 AAATATATGT
* *
49305 TAAAAATATTTTA-AAATTAAGA
1 TAAAAATAATTTATATATTAAGA
*
49327 TAAAAATAATTTATATATTAAGT
1 TAAAAATAATTTATATATTAAGA
* **
49350 TAAGAATAAAATATATATT
1 TAAAAATAATTTATATATT
49369 TTTAAGTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
22 12 0.34
23 23 0.66
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (23 bp):
TAAAAATAATTTATATATTAAGA
Found at i:49415 original size:85 final size:83
Alignment explanation
Indices: 49305--49516 Score: 225
Period size: 85 Copynumber: 2.5 Consensus size: 83
49295 AAATATATGT
* * * *
49305 TAAAAATATTTTAAAATTAAGATAAAAATAATTTATATATTAAGTTAAGAATAA-AATATA-TA-
1 TAAAAATATTTTTAAGTTAAGATAAAAATAATATATATATTAAGTTAAG-ATAAGAATAAAGTAT
49367 TTTTTAAGTTAAAATAAAAA
65 TTTTTAAGTTAAAAT-AAAA
* * *
49387 TAAAAAATATATTTTTAAGTTAAAATAAAAATAAAATATATGTTTTAAGTTAAGATAAGAATAAA
1 T--AAAA-ATATTTTTAAGTTAAGATAAAAAT--AATATATATATTAAGTTAAGATAAGAATAAA
* *
49452 GTATTTTTTAAGTTAACATAAGA
61 GTATTTTTTAAGTTAAAATAAAA
* * *
49475 TTAAAATATTTTTAAGTTAAGATAAGAATAAAATATAT-TTAA
1 TAAAAATATTTTTAAGTTAAGATAAAAATAATATATATATTAA
49517 TAATTTAAAG
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
82 5 0.05
83 7 0.06
84 4 0.04
85 43 0.40
86 7 0.06
87 22 0.20
88 6 0.06
89 14 0.13
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.38
Consensus pattern (83 bp):
TAAAAATATTTTTAAGTTAAGATAAAAATAATATATATATTAAGTTAAGATAAGAATAAAGTATT
TTTTAAGTTAAAATAAAA
Found at i:49472 original size:28 final size:29
Alignment explanation
Indices: 49350--49661 Score: 237
Period size: 30 Copynumber: 10.7 Consensus size: 29
49340 TATATTAAGT
49350 TAAGAATAAAATATATATTTTTAAGTTAAAA
1 TAAGAAT-AAA-ATATATTTTTAAGTTAAAA
*
49381 TAAAAATAAAAAATATATTTTTAAGTTAAAA
1 TAAGAAT--AAAATATATTTTTAAGTTAAAA
* *
49412 TAAAAATAAAATATATGTTTTAAGTTAAGA
1 TAAGAATAAAATATAT-TTTTAAGTTAAAA
* *
49442 TAAGAATAAAGTAT-TTTTTAAGTTAACA
1 TAAGAATAAAATATATTTTTAAGTTAAAA
* *
49470 TAAG-ATTAAA-ATATTTTTAAGTTAAGA
1 TAAGAATAAAATATATTTTTAAGTTAAAA
* * *
49497 TAAGAATAAAATATATTTAATAATTTAAAG
1 TAAGAATAAAATATATTT-TTAAGTTAAAA
* * * * *
49527 TAATACTATACTATA--TTTAA--TAAAT
1 TAAGAATAAAATATATTTTTAAGTTAAAA
*
49552 TAAG-ATAAAACATATATTTTTAAAACTTAAAA
1 TAAGAAT-AAA-ATATATTTTT--AAGTTAAAA
* * **
49584 TAATAATAAAACATATTTTTAA-TTAATT
1 TAAGAATAAAATATATTTTTAAGTTAAAA
* * *
49612 TAAGAATAAACTATATTTAATAAGTTAACA
1 TAAGAATAAAATATATTT-TTAAGTTAAAA
* *
49642 TAAAAATAAAATATCTTTTT
1 TAAGAATAAAATATATTTTT
49662 GAAATTAATA
Statistics
Matches: 226, Mismatches: 38, Indels: 36
0.75 0.13 0.12
Matches are distributed among these distances:
24 1 0.00
25 9 0.04
26 6 0.03
27 24 0.11
28 44 0.19
29 22 0.10
30 63 0.28
31 41 0.18
32 14 0.06
33 2 0.01
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (29 bp):
TAAGAATAAAATATATTTTTAAGTTAAAA
Found at i:49494 original size:27 final size:27
Alignment explanation
Indices: 49307--49516 Score: 181
Period size: 27 Copynumber: 7.5 Consensus size: 27
49297 ATATATGTTA
* * *
49307 AAAATATTTTAAAATTAAGATAAAAAT
1 AAAATATTTTTAAGTTAAGATAAGAAT
** *
49334 AATTTATATATTAAGTTAAGAATAA-AAT
1 AAAATAT-TTTTAAGTTAAG-ATAAGAAT
* * *
49362 -ATATATTTTTAAGTTAAAATAAAAAT
1 AAAATATTTTTAAGTTAAGATAAGAAT
* *
49388 AAAAAATATATTTTTAAGTTAAAATAAAAAT
1 ---AAA-ATATTTTTAAGTTAAGATAAGAAT
49419 AAAATATATGTTTTAAGTTAAGATAAGAAT
1 -AAA-ATAT-TTTTAAGTTAAGATAAGAAT
* * *
49449 AAAGTATTTTTTAAGTTAACATAAGATT
1 AAAATA-TTTTTAAGTTAAGATAAGAAT
49477 AAAATATTTTTAAGTTAAGATAAGAAT
1 AAAATATTTTTAAGTTAAGATAAGAAT
*
49504 AAAATATATTTAA
1 AAAATATTTTTAA
49517 TAATTTAAAG
Statistics
Matches: 155, Mismatches: 18, Indels: 20
0.80 0.09 0.10
Matches are distributed among these distances:
25 4 0.03
26 13 0.08
27 41 0.26
28 37 0.24
29 17 0.11
30 19 0.12
31 24 0.15
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.38
Consensus pattern (27 bp):
AAAATATTTTTAAGTTAAGATAAGAAT
Found at i:49525 original size:115 final size:116
Alignment explanation
Indices: 49364--49655 Score: 299
Period size: 115 Copynumber: 2.5 Consensus size: 116
49354 AATAAAATAT
* *
49364 ATATTTTTAAGTTAAAATAAAAATAAAAAATATATTT-TTAAGTTAAAATAAAAATAAAATATAT
1 ATATTTTTAAGTTAAAATAAGAAT--AAAATATATTTAATAAGTTAAAATAAAAATAAAATATAT
* * * * * * * *
49428 GTT-TTAAGTTAAGATAAGAATAAAGTATTTTT-TAAGTTAACATAA-GATTAAA-
64 -TTAATAAATTAAGATAA-AACAAA-TATTTTTAAAACTTAAAATAATAATAAAAC
* * * * * * *
49480 ATATTTTTAAGTTAAGATAAGAATAAAATATATTTAATAATTTAAAGTAATACTATACTATATTT
1 ATATTTTTAAGTTAAAATAAGAATAAAATATATTTAATAAGTTAAAATAAAAATAAAATATATTT
*
49545 AATAAATTAAGATAAAACATATATTTTTAAAACTTAAAATAATAATAAAAC
66 AATAAATTAAGATAAAACAAATATTTTTAAAACTTAAAATAATAATAAAAC
** * *
49596 ATATTTTTAA-TTAATTTAAGAATAAACTATATTTAATAAGTTAACATAAAAATAAAATAT
1 ATATTTTTAAGTTAAAATAAGAATAAAATATATTTAATAAGTTAAAATAAAAATAAAATAT
49656 CTTTTTGAAA
Statistics
Matches: 143, Mismatches: 28, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
113 7 0.05
114 27 0.19
115 77 0.54
116 32 0.22
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.38
Consensus pattern (116 bp):
ATATTTTTAAGTTAAAATAAGAATAAAATATATTTAATAAGTTAAAATAAAAATAAAATATATTT
AATAAATTAAGATAAAACAAATATTTTTAAAACTTAAAATAATAATAAAAC
Found at i:49569 original size:85 final size:84
Alignment explanation
Indices: 49386--49646 Score: 214
Period size: 85 Copynumber: 3.1 Consensus size: 84
49376 TAAAATAAAA
* * * * * **
49386 ATAAAAAATATATTTTT-AAGTTAAAATAAAAATAAAATATATGTTTTAAGTTAAGATAAGAATA
1 ATAAAACATATATTTTTAAACTTAAAATAAGAATAAAACATAT-ATTTAA-TTAATTTAAGAATA
* * *
49450 AAGTAT-TTT-TTAAGTTAAC
64 AACTATATTTAATAAATTAAC
* * *
49469 ATAAGATTA-AAATATTTTT-AAGTTAAGATAAGAAT-AAA-ATATATTTAA-TAATTTAAAGTA
1 ATAA-A--ACATATATTTTTAAACTTAAAATAAGAATAAAACATATATTTAATTAATTT-AAG-A
*
49529 ATACTATACTATATTTAATAAATTAAG
61 ATA--A-ACTATATTTAATAAATTAAC
* *
49556 ATAAAACATATATTTTTAAAACTTAAAATAATAATAAAACATATTTTTAATTAATTTAAGAATAA
1 ATAAAACATATATTTTT-AAACTTAAAATAAGAATAAAACATATATTTAATTAATTTAAGAATAA
*
49621 ACTATATTTAATAAGTTAAC
65 ACTATATTTAATAAATTAAC
49641 ATAAAA
1 ATAAAA
49647 ATAAAATATC
Statistics
Matches: 145, Mismatches: 17, Indels: 30
0.76 0.09 0.16
Matches are distributed among these distances:
80 4 0.03
81 3 0.02
82 9 0.06
83 8 0.06
84 6 0.04
85 60 0.41
86 6 0.04
87 24 0.17
88 7 0.05
89 12 0.08
90 6 0.04
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (84 bp):
ATAAAACATATATTTTTAAACTTAAAATAAGAATAAAACATATATTTAATTAATTTAAGAATAAA
CTATATTTAATAAATTAAC
Found at i:49650 original size:30 final size:29
Alignment explanation
Indices: 49305--49681 Score: 226
Period size: 30 Copynumber: 13.1 Consensus size: 29
49295 AAATATATGT
* * *
49305 TAAAA-ATATTTTAAAATTAAGATAAAAA
1 TAAAATATATTTTTAAGTTAAAATAAAAA
** *
49333 TAATTTATA-TATTAAGTTAAGAAT-AAAA
1 TAAAATATATTTTTAAGTTAA-AATAAAAA
49361 T---ATATATTTTTAAGTTAAAATAAAAA
1 TAAAATATATTTTTAAGTTAAAATAAAAA
49387 TAAAAAATATATTTTTAAGTTAAAATAAAAA
1 T--AAAATATATTTTTAAGTTAAAATAAAAA
* *
49418 TAAAATATATGTTTTAAGTTAAGATAAGAA
1 TAAAATATAT-TTTTAAGTTAAAATAAAAA
* * *
49448 TAAAGTAT-TTTTTAAGTTAACAT-AAGA
1 TAAAATATATTTTTAAGTTAAAATAAAAA
* * *
49475 TTAAA-ATATTTTTAAGTTAAGATAAGAA
1 TAAAATATATTTTTAAGTTAAAATAAAAA
* * * * *
49503 TAAAATATATTTAATAATTTAAAGTAATAC
1 TAAAATATATTT-TTAAGTTAAAATAAAAA
* * *
49533 TATACTATA--TTTAA--TAAATTAAGATAA
1 TAAAATATATTTTTAAGTTAAAATAA-A-AA
* * *
49560 -AACATATATTTTTAAAACTTAAAATAATAA
1 TAAAATATATTTTT--AAGTTAAAATAAAAA
* ** *
49590 TAAAACATATTTTTAA-TTAATTTAAGAA
1 TAAAATATATTTTTAAGTTAAAATAAAAA
* * *
49618 TAAACTATATTTAATAAGTTAACATAAAAA
1 TAAAATATATTT-TTAAGTTAAAATAAAAA
* *
49648 TAAAATATCTTTTTGAAATTAATATATAAAAA
1 TAAAATATATTTTT-AAGTTAA-A-ATAAAAA
49680 TA
1 TA
49682 TTATGAGTAT
Statistics
Matches: 268, Mismatches: 53, Indels: 52
0.72 0.14 0.14
Matches are distributed among these distances:
25 14 0.05
26 22 0.08
27 23 0.09
28 58 0.22
29 27 0.10
30 71 0.26
31 37 0.14
32 16 0.06
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.38
Consensus pattern (29 bp):
TAAAATATATTTTTAAGTTAAAATAAAAA
Found at i:49667 original size:115 final size:113
Alignment explanation
Indices: 49305--49669 Score: 296
Period size: 115 Copynumber: 3.2 Consensus size: 113
49295 AAATATATGT
* * * ** * * *
49305 TAAAA-ATATTTTAAAATTAAGATAAAAATAATTTATATATT-AAGTTAAGAATAAAAT--ATAT
1 TAAAATATATTTTTAAATTAAGATAAGAACAAAGTAT-TTTTAAACTTAA-AATAAAATAAAAAT
* * *
49366 ATTTTTAAGTTAAAATAAAAATAAAAAATATATTT-TTAAGTTAAAATAAAAA
64 ATTTTTAAGTTAAGATAAGAAT--AAAATATATTTAATAAGTT-AAATAAAAA
* * * * * * *
49418 TAAAATATATGTTTTAAGTTAAGATAAGAATAAAGTATTTTTTAAGTTAACATAAGATTAAAATA
1 TAAAATATAT-TTTTAAATTAAGATAAGAACAAAGTATTTTTAAACTTAAAATAAAATAAAAATA
* * *
49483 TTTTTAAGTTAAGATAAGAATAAAATATATTTAATAATTTAAAGTAATAC
65 TTTTTAAGTTAAGATAAGAATAAAATATATTTAATAAGTTAAA-TAAAAA
* * * *
49533 TATACTATATTTAATAAATTAAGATAA-AACATA-TATTTTTAAAACTTAAAATAATAATAAAAC
1 TAAAATATATTT-TTAAATTAAGATAAGAACAAAGTATTTTT-AAACTTAAAATAA-AATAAAA-
** *
49596 ATATTTTTAA-TTAATTTAAGAATAAACTATATTTAATAAGTTAACATAAAAA
62 ATATTTTTAAGTTAAGATAAGAATAAAATATATTTAATAAGTTAA-ATAAAAA
*
49648 TAAAATATCTTTTTGAAATTAA
1 TAAAATATATTTTT-AAATTAA
49670 TATATAAAAA
Statistics
Matches: 203, Mismatches: 36, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
113 12 0.06
114 44 0.22
115 113 0.56
116 34 0.17
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.39
Consensus pattern (113 bp):
TAAAATATATTTTTAAATTAAGATAAGAACAAAGTATTTTTAAACTTAAAATAAAATAAAAATAT
TTTTAAGTTAAGATAAGAATAAAATATATTTAATAAGTTAAATAAAAA
Found at i:53858 original size:30 final size:29
Alignment explanation
Indices: 53822--53907 Score: 77
Period size: 30 Copynumber: 2.9 Consensus size: 29
53812 AAAAATATGA
53822 AAAATTTATAAATAATCATTAAATTTATTT
1 AAAATTTATAAATAATCATTAAATTT-TTT
* * * *
53852 AAAATTTTTAATTTATTATTAAA-TTTTT
1 AAAATTTATAAATAATCATTAAATTTTTT
* *
53880 AGAAGTTATAAAATAGA-CATTAAATTTT
1 AAAATTTAT-AAATA-ATCATTAAATTTT
53908 AAATTTTATT
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
28 9 0.21
29 11 0.26
30 23 0.53
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (29 bp):
AAAATTTATAAATAATCATTAAATTTTTT
Found at i:53866 original size:18 final size:19
Alignment explanation
Indices: 53843--53880 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
53833 ATAATCATTA
53843 AATTTATT-TAAAATTTTT
1 AATTTATTATAAAATTTTT
*
53861 AATTTATTATTAAATTTTT
1 AATTTATTATAAAATTTTT
53880 A
1 A
53881 GAAGTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
AATTTATTATAAAATTTTT
Found at i:54390 original size:33 final size:33
Alignment explanation
Indices: 54353--54415 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
54343 TCAATTAATA
*
54353 AGAAAAATACATCCATACTTAAATAATTGAAAC
1 AGAAAAATACATCCAGACTTAAATAATTGAAAC
*
54386 AGAAAAATACATTCAGACTTAAATAATTGA
1 AGAAAAATACATCCAGACTTAAATAATTGA
54416 TACAATCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.54, C:0.13, G:0.08, T:0.25
Consensus pattern (33 bp):
AGAAAAATACATCCAGACTTAAATAATTGAAAC
Found at i:58682 original size:41 final size:39
Alignment explanation
Indices: 58637--58716 Score: 108
Period size: 39 Copynumber: 2.0 Consensus size: 39
58627 GCAACAAATT
58637 TGGAAAATCGCAACGACAACTGT-AGACTATCGCAACGCGAA
1 TGGAAAATCGCAACG-CAA-TGTCA-ACTATCGCAACGCGAA
* *
58678 TGGAAAATCGCAACGCGATTTCAACTATCGCAACGCGAA
1 TGGAAAATCGCAACGCAATGTCAACTATCGCAACGCGAA
58717 ATGCAACGCG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
39 18 0.50
40 3 0.08
41 15 0.42
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (39 bp):
TGGAAAATCGCAACGCAATGTCAACTATCGCAACGCGAA
Found at i:58709 original size:20 final size:20
Alignment explanation
Indices: 58662--58723 Score: 72
Period size: 19 Copynumber: 3.1 Consensus size: 20
58652 ACAACTGTAG
*
58662 ACTATCGCAACGCGAATGGA
1 ACTATCGCAACGCGAATGCA
* * *
58682 A-AATCGCAACGCGATTTCA
1 ACTATCGCAACGCGAATGCA
58701 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCG-AATGCA
58722 AC
1 AC
58724 GCGAATTTAC
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 15 0.45
20 12 0.36
21 6 0.18
ACGTcount: A:0.37, C:0.27, G:0.19, T:0.16
Consensus pattern (20 bp):
ACTATCGCAACGCGAATGCA
Done.