Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002292.1 Hibiscus syriacus cultivar Beakdansim tig00004661_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: 104116
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:4863 original size:6 final size:6
Alignment explanation
Indices: 4856--4913 Score: 107
Period size: 6 Copynumber: 9.7 Consensus size: 6
4846 CCTGAATCCG
*
4856 TCTCCG TCTCCA TCTCCA TCTCCA TCTCCA TCTCCA TCTCCA TCTCCA
1 TCTCCA TCTCCA TCTCCA TCTCCA TCTCCA TCTCCA TCTCCA TCTCCA
4904 TCTCCA TCTC
1 TCTCCA TCTC
4914 GATTGATAGA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.14, C:0.50, G:0.02, T:0.34
Consensus pattern (6 bp):
TCTCCA
Found at i:7981 original size:6 final size:6
Alignment explanation
Indices: 7972--8027 Score: 112
Period size: 6 Copynumber: 9.3 Consensus size: 6
7962 CGCCGCCGCC
7972 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG
1 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG
8020 GTCGTG GT
1 GTCGTG GT
8028 AATACGTGTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.00, C:0.16, G:0.50, T:0.34
Consensus pattern (6 bp):
GTCGTG
Found at i:14700 original size:24 final size:24
Alignment explanation
Indices: 14673--14754 Score: 155
Period size: 24 Copynumber: 3.4 Consensus size: 24
14663 GTTTATTGAT
14673 CTAGTTTTTTAAACAAACACTTAA
1 CTAGTTTTTTAAACAAACACTTAA
14697 CTAGTTTTTTAAACAAACACTTAA
1 CTAGTTTTTTAAACAAACACTTAA
*
14721 CTAGTTTTTTAAACAAACACTTGA
1 CTAGTTTTTTAAACAAACACTTAA
14745 CTAGTTTTTT
1 CTAGTTTTTT
14755 TAAAGGGGTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (24 bp):
CTAGTTTTTTAAACAAACACTTAA
Found at i:15097 original size:34 final size:34
Alignment explanation
Indices: 15059--15127 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
15049 CCACCGAAAA
15059 TATTAAAATAAAATTAACATTTTCAATTATACAT
1 TATTAAAATAAAATTAACATTTTCAATTATACAT
15093 TATTAAAATAAAATTAACATTTTCAATTATACAT
1 TATTAAAATAAAATTAACATTTTCAATTATACAT
15127 T
1 T
15128 TCTTTAGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (34 bp):
TATTAAAATAAAATTAACATTTTCAATTATACAT
Found at i:24744 original size:7 final size:7
Alignment explanation
Indices: 24732--24776 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
24722 CTTCAATCCC
24732 AAACCCT
1 AAACCCT
24739 AAACCCT
1 AAACCCT
24746 AAACCCT
1 AAACCCT
*
24753 AAACTCT
1 AAACCCT
*
24760 AAATTCC-
1 AAA-CCCT
24767 AAACCCT
1 AAACCCT
24774 AAA
1 AAA
24777 GCTTAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 2 0.06
7 29 0.91
8 1 0.03
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:24791 original size:21 final size:21
Alignment explanation
Indices: 24744--24797 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
24734 ACCCTAAACC
24744 CTAAACCCTAAACTCTAAATT
1 CTAAACCCTAAACTCTAAATT
*
24765 CCAAACCCTAAAGCT-TAAATT
1 CTAAACCCTAAA-CTCTAAATT
* *
24786 TTAAACCATAAA
1 CTAAACCCTAAA
24798 TCATATATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.46, C:0.26, G:0.02, T:0.26
Consensus pattern (21 bp):
CTAAACCCTAAACTCTAAATT
Found at i:30793 original size:2 final size:2
Alignment explanation
Indices: 30786--30821 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
30776 ATCTGTGGCT
30786 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30822 GGTCACAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34549 original size:72 final size:71
Alignment explanation
Indices: 34465--34609 Score: 231
Period size: 71 Copynumber: 2.0 Consensus size: 71
34455 GAAGGTGAAT
34465 AAGAAGAACGAAAGGAAGCATTAG-CACTTTCGATTCAAAGTGAACGGAAGGAAGCA-TCGACAC
1 AAGAAGAACGAAAGGAAGCA-TAGACACTTTCGATTC-AAGTGAACGGAAGGAAGCATTCG-CAC
34528 TTTCGATTC
63 TTTCGATTC
* *
34537 AAGAAGAACGAAAGGAAGTATCGACACTTTCGATTCAAGTGAACGGAAGGAAGCATTCGCACTTT
1 AAGAAGAACGAAAGGAAGCATAGACACTTTCGATTCAAGTGAACGGAAGGAAGCATTCGCACTTT
34602 CGATTC
66 CGATTC
34608 AA
1 AA
34610 TTGTTCATCT
Statistics
Matches: 69, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
71 35 0.51
72 34 0.49
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (71 bp):
AAGAAGAACGAAAGGAAGCATAGACACTTTCGATTCAAGTGAACGGAAGGAAGCATTCGCACTTT
CGATTC
Found at i:34588 original size:35 final size:35
Alignment explanation
Indices: 34470--34609 Score: 185
Period size: 36 Copynumber: 3.9 Consensus size: 35
34460 TGAATAAGAA
* *
34470 GAACGAAAGGAAGCAT-TAGCACTTTCGATTCAAAGT
1 GAACGGAAGGAAGCATCGA-CACTTTCGATTC-AAGT
*
34506 GAACGGAAGGAAGCATCGACACTTTCGATTCAAGAA
1 GAACGGAAGGAAGCATCGACACTTTCGATTCAAG-T
* *
34542 GAACGAAAGGAAGTATCGACACTTTCGATTCAAGT
1 GAACGGAAGGAAGCATCGACACTTTCGATTCAAGT
34577 GAACGGAAGGAAGCATTCG-CACTTTCGATTCAA
1 GAACGGAAGGAAGCA-TCGACACTTTCGATTCAA
34610 TTGTTCATCT
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
35 30 0.32
36 62 0.67
37 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (35 bp):
GAACGGAAGGAAGCATCGACACTTTCGATTCAAGT
Found at i:34607 original size:71 final size:72
Alignment explanation
Indices: 34465--34609 Score: 233
Period size: 72 Copynumber: 2.0 Consensus size: 72
34455 GAAGGTGAAT
*
34465 AAGAAGAACGAAAGGAAGCATTAGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCGACACTT
1 AAGAAGAACGAAAGGAAGCATGAGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCGACACTT
34530 TCGATTC
66 TCGATTC
*
34537 AAGAAGAACGAAAGGAAGTATCGA-CACTTTCGATTC-AAGTGAACGGAAGGAAGCATTCG-CAC
1 AAGAAGAACGAAAGGAAGCAT-GAGCACTTTCGATTCAAAGTGAACGGAAGGAAGCA-TCGACAC
34599 TTTCGATTC
64 TTTCGATTC
34608 AA
1 AA
34610 TTGTTCATCT
Statistics
Matches: 69, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
71 33 0.48
72 35 0.51
73 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (72 bp):
AAGAAGAACGAAAGGAAGCATGAGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCGACACTT
TCGATTC
Found at i:35524 original size:33 final size:33
Alignment explanation
Indices: 35487--35557 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
35477 CGAGCTGAAA
*
35487 TTAACTCGAACCGAAAATAACCCAAATCGAATT
1 TTAACCCGAACCGAAAATAACCCAAATCGAATT
* * *
35520 TTAACCCGATCCGAAAGTAACCCAAATTGAA-T
1 TTAACCCGAACCGAAAATAACCCAAATCGAATT
35552 TTAACC
1 TTAACC
35558 GACCCAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (33 bp):
TTAACCCGAACCGAAAATAACCCAAATCGAATT
Found at i:35653 original size:18 final size:18
Alignment explanation
Indices: 35630--35682 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 18
35620 TCAAAAATAA
35630 ATTAATTTAAATAAAAAT
1 ATTAATTTAAATAAAAAT
*
35648 GA-TAATTT-ATTAAAAAT
1 -ATTAATTTAAATAAAAAT
35665 ATTATATTTATAATAAAA
1 ATTA-ATTTA-AATAAAA
35683 TAATAGAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.04
17 10 0.36
18 10 0.36
19 1 0.04
20 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
ATTAATTTAAATAAAAAT
Found at i:35684 original size:19 final size:19
Alignment explanation
Indices: 35630--35684 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 19
35620 TCAAAAATAA
35630 ATTA-ATTTA-AATAAAA-
1 ATTATATTTATAATAAAAT
* *
35646 ATGATAATTTATTA-AAAAT
1 ATTAT-ATTTATAATAAAAT
35665 ATTATATTTATAATAAAAT
1 ATTATATTTATAATAAAAT
35684 A
1 A
35685 ATAGAAACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
16 3 0.10
18 16 0.53
19 11 0.37
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATTATATTTATAATAAAAT
Found at i:36313 original size:32 final size:32
Alignment explanation
Indices: 36225--36322 Score: 92
Period size: 32 Copynumber: 3.1 Consensus size: 32
36215 TTAACATAAA
* * * *
36225 CCAAAAATCAACTGATCTGATATTGATCCGGC
1 CCAAAAATCAACTGATCCGATATTAACCCGAC
* *
36257 CC-GAAATCTAA-TCGATTCGATATTAACCCGAC
1 CCAAAAATC-AACT-GATCCGATATTAACCCGAC
* *
36289 CCAAAAATCAACTGATCCGGTATTAACCTGAC
1 CCAAAAATCAACTGATCCGATATTAACCCGAC
36321 CC
1 CC
36323 GATCCAAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
31 6 0.12
32 40 0.77
33 6 0.12
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.23
Consensus pattern (32 bp):
CCAAAAATCAACTGATCCGATATTAACCCGAC
Found at i:38484 original size:18 final size:18
Alignment explanation
Indices: 38447--38484 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
38437 ACTAAAATGG
*
38447 TATCGATACTATATACAA
1 TATCGATACTATATAAAA
38465 TATCGATACTACT-TAAAA
1 TATCGATACTA-TATAAAA
38483 TA
1 TA
38485 GTAGTACCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (18 bp):
TATCGATACTATATAAAA
Found at i:40302 original size:23 final size:22
Alignment explanation
Indices: 40270--40322 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
40260 AAAAAATTAA
* *
40270 GAGCTTGATTGAAGCTCGATTC
1 GAGCTCGATTGAAGCCCGATTC
*
40292 TGAGCTCGATTTAAGCCCGATTC
1 -GAGCTCGATTGAAGCCCGATTC
*
40315 AAGCTCGA
1 GAGCTCGA
40323 CATTGCCCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (22 bp):
GAGCTCGATTGAAGCCCGATTC
Found at i:40861 original size:24 final size:24
Alignment explanation
Indices: 40834--40894 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
40824 TAAATGAATG
*
40834 AACATAAGCGAACATAACCGAACA
1 AACATAAACGAACATAACCGAACA
*
40858 AACATAAACGAACATAACCGAACG
1 AACATAAACGAACATAACCGAACA
*
40882 AACATAACCGAAC
1 AACATAAACGAAC
40895 GTTCACAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.54, C:0.26, G:0.11, T:0.08
Consensus pattern (24 bp):
AACATAAACGAACATAACCGAACA
Found at i:40863 original size:14 final size:14
Alignment explanation
Indices: 40842--40895 Score: 71
Period size: 14 Copynumber: 4.1 Consensus size: 14
40832 TGAACATAAG
40842 CGAACATAACCGAA
1 CGAACATAACCGAA
*
40856 CAAACAT-A---AA
1 CGAACATAACCGAA
40866 CGAACATAACCGAA
1 CGAACATAACCGAA
40880 CGAACATAACCGAA
1 CGAACATAACCGAA
40894 CG
1 CG
40896 TTCACAAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
10 8 0.24
11 1 0.03
13 1 0.03
14 24 0.71
ACGTcount: A:0.52, C:0.28, G:0.13, T:0.07
Consensus pattern (14 bp):
CGAACATAACCGAA
Found at i:56022 original size:18 final size:20
Alignment explanation
Indices: 55984--56045 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
55974 TAACCGGGTT
*
55984 TTATATATTTATTTTTATTA
1 TTATATATTTATTTATATTA
56004 TTATA-ATTTATTTAT-TTA
1 TTATATATTTATTTATATTA
* *
56022 TTAATATATATATATATATATA
1 TT-ATATATTTATTTATAT-TA
56044 TT
1 TT
56046 GTTTATAGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 5 0.14
19 12 0.34
20 13 0.37
21 1 0.03
22 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATATATTTATTTATATTA
Found at i:61365 original size:106 final size:106
Alignment explanation
Indices: 61208--62386 Score: 1553
Period size: 106 Copynumber: 11.3 Consensus size: 106
61198 CTCGAGAGTA
* * * * * * * *
61208 AATTTCAACTTCTCAATGAAGGATCTT-GAATCCAAGACAACACAGGCTCAACTTCATGACGAAG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACGACGAAG
* * *
61272 GGGCGGCTGATTGTCAATAAACAACTTCTCAATTTCAGAGCC
65 GGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
61314 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
61379 GACCGCTGGTTGTCAATAAACAATTTC-CGAATTTGAGAGTC
66 GACCGCTGGTTGTCAATAAACAACTTCTC-AATTTCAGAGCC
61420 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
61485 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAAGAGCC
66 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTC-AGAGCC
61527 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * **
61592 GACCGCTGGTTGTCAATAAACAA-TTTTCGAATTTGAGAGTT
66 GACCGCTGGTTGTCAATAAACAACTTCTC-AATTTCAGAGCC
* * *
61633 AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
61698 GACCGCTGGTTATCAACAAACAACTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
61739 AATTTC-A----A-AACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
61798 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGTC
66 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
*
61839 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
61904 GACCGCTGGTTGTC--T--ACAA----ACAATTTC----CC
66 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
* * ** *
61933 AACTTCAAGTTCACAACGAAACATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAGGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
61998 GACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGTC
66 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
* *
62039 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
62104 GACCGCTGGTTGTTAA-CAACAA-TTTTCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAACTTCT-CAATTTCAGAGCC
*
62144 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTAAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
62209 GACCGCTGGTGGTCAA-CAACAACTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
* * * * * *
62249 AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGATAACACAAGCTCAACTTCACAACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* ** * * * * *
62314 G-GCGACTGACTGTCAACAAACAATTTCCCCAGTTCCAGAGCC
66 GACCG-CTGGTTGTCAATAAACAACTT-CTCAATTTCAGAGCC
** *
62356 AATTTCAACTTCACGGCGGAGGATATTGGAC
1 AATTTCAACTTCACAACGAAGGATATTGGAC
62387 ACGGAGCAAT
Statistics
Matches: 958, Mismatches: 86, Indels: 57
0.87 0.08 0.05
Matches are distributed among these distances:
94 74 0.08
98 11 0.01
100 90 0.09
101 2 0.00
102 11 0.01
104 5 0.01
105 182 0.19
106 434 0.45
107 149 0.16
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
Found at i:61586 original size:213 final size:212
Alignment explanation
Indices: 61202--62386 Score: 1640
Period size: 213 Copynumber: 5.7 Consensus size: 212
61192 AATTTGCTCG
* * ** * * * * * *
61202 AGAGTAAATTTCAACTTCTCAATGAAGGATCTT-GAATCCAAGACAACACAGGCTCAACTTCATG
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACG
* * * * *
61266 ACGAAGGGGCGGCTGATTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAAC
65 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAAC
61331 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAT
130 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAT
* *
61396 AAACAATTTCCGAATTTG
195 AAACAATTTCCCAATTTC
*
61414 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
61479 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAAGAGCCAATTTCAACTTCACAAC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC-AGAGCCAATTTCAACTTCACAAC
61544 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAT
130 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAT
* * *
61609 AAACAATTTTCGAATTTG
195 AAACAATTTCCCAATTTC
* * *
61627 AGAGTTAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * * *
61692 CGAAGGGACCGCTGGTTATCAACAAACAACTTCTCAATTTCAGAGCCAATTTC-A----A-AACG
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACG
61751 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
61816 AACAATTTCCCAATTTC
196 AACAATTTCCCAATTTC
61833 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
61898 CGAAGGGACCGCTGGTTGTC--T--ACAA----ACAATTTC----CCAACTTCAAGTTCACAACG
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACG
** * *
61951 AAACATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAGGGGACCGCTGGTTGTCAACA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
*
62016 AACAACTTCCCAATTTC
196 AACAATTTCCCAATTTC
*
62033 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAA
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
62098 CGAAGGGACCGCTGGTTGTTAA-CAACAATTTTCCAATTTCAGAGCCAATTTCAACTTCACAACG
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACG
* * *
62162 AAGGATATTGGACTCCAGACAACGCAAGTTAAACTTCACGACGAAGGGACCGCTGGTGGTCAA-C
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
* *
62226 AACAACTTCTCAATTTC
196 AACAATTTCCCAATTTC
* * * * * *
62243 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGATAACACAAGCTCAACTTCACAA
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* ** * * * **
62308 CGAAGGG-GCGACTGACTGTCAACAAACAATTTCCCCAGTTCCAGAGCCAATTTCAACTTCACGG
66 CGAAGGGACCG-CTGGTTGTCAATAAACAATTT-CCCAATTTCAGAGCCAATTTCAACTTCACAA
*
62372 CGGAGGATATTGGAC
129 CGAAGGATATTGGAC
62387 ACGGAGCAAT
Statistics
Matches: 884, Mismatches: 66, Indels: 46
0.89 0.07 0.05
Matches are distributed among these distances:
194 7 0.01
195 1 0.00
198 7 0.01
199 1 0.00
200 164 0.19
202 4 0.00
203 4 0.00
206 164 0.19
207 8 0.01
209 2 0.00
210 91 0.10
211 85 0.10
212 138 0.16
213 208 0.24
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (212 bp):
AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACG
AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
AACAATTTCCCAATTTC
Found at i:61903 original size:43 final size:43
Alignment explanation
Indices: 61842--61994 Score: 112
Period size: 43 Copynumber: 3.4 Consensus size: 43
61832 CAGAGTCAAT
61842 TTCAACTTCAC-AGCGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGA-CGAAGGATATTGGACTCCAGACAACGCAAG
* * * * * *
61885 TTCAACTTCACGACGAAGGGACCGCTGGTT-GTCTACAAACAATTTCCCAAC
1 TTCAACTTCACGACGAA-GGA----T-ATTGGACTCCAGACAA---CGCAAG
* * **
61936 TTCAAGTTCACAACGAAACATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
61979 TTCAACTTCACGACGA
1 TTCAACTTCACGACGA
61995 GGGGACCGCT
Statistics
Matches: 81, Mismatches: 18, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
43 33 0.41
44 4 0.05
45 2 0.02
46 10 0.12
48 10 0.12
49 2 0.02
50 1 0.01
51 19 0.23
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (43 bp):
TTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:62003 original size:94 final size:94
Alignment explanation
Indices: 61838--62342 Score: 499
Period size: 105 Copynumber: 5.0 Consensus size: 94
61828 ATTTCAGAGT
*
61838 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*
61903 GGACCGCTGGTTGTCTACAAACAATTTCC
66 GGACCGCTGGTTGTCAACAAACAATTTCC
* * ** *
61932 CAACTTCAAGTTCACAACGAAACATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAGG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*
61997 GGACCGCTGGTTGTCAACAAACAACTTCC
66 GGACCGCTGGTTGTCAACAAACAATTTCC
62026 CAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
1 CAATTTCA-A--C---TTC-A---CA-A-CGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
* *
62091 TTCACAACGAAGGGACCGCTGGTTGTTAACAACAATTTTCCAATTTCAGAGC
54 TTCACGACGAAGGGACCGCTGGTTG-T--CAACAA----ACAATTTC----C
*
62143 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTAAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
*
62208 GGACCGCTGGTGGTCAACAACAACTTCTCAATTTCAGAGC
66 GGACCGCTGGTTGTCAAC-A-AA-----CAATTTC----C
* * * * * *
62248 CAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGATAACACAAGCTCAACTTCACAACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* **
62313 GG-GCGACTGACTGTCAACAAACAATTTCC
66 GGACCG-CTGGTTGTCAACAAACAATTTCC
62342 C
1 C
62343 CAGTTCCAGA
Statistics
Matches: 349, Mismatches: 31, Indels: 62
0.79 0.07 0.14
Matches are distributed among these distances:
94 95 0.27
95 1 0.00
98 7 0.02
100 3 0.01
101 1 0.00
102 4 0.01
103 3 0.01
104 7 0.02
105 140 0.40
106 58 0.17
107 3 0.01
109 6 0.02
110 1 0.00
111 3 0.01
113 6 0.02
114 1 0.00
116 1 0.00
117 9 0.03
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (94 bp):
CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
GGACCGCTGGTTGTCAACAAACAATTTCC
Found at i:62883 original size:23 final size:20
Alignment explanation
Indices: 62837--62881 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
62827 AACCGGGTTT
62837 TATAT-ATTTATTTTTATTA
1 TATATAATTTATTTTTATTA
*
62856 T-TATAATTTATTTATTAATA
1 TATATAATTTATTT-TTATTA
62876 TATATA
1 TATATA
62882 TATATATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 3 0.14
19 9 0.41
20 6 0.27
21 4 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATAATTTATTTTTATTA
Found at i:68095 original size:20 final size:21
Alignment explanation
Indices: 68049--68095 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
68039 TGTATTATGA
* *
68049 TGAAATTTAATGTTAGAATGT
1 TGAAATTTAATATTAGAATGG
*
68070 TG-AATTTGATATTAG-ATGG
1 TGAAATTTAATATTAGAATGG
68089 TGAAATT
1 TGAAATT
68096 GGACAGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 5 0.23
20 15 0.68
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (21 bp):
TGAAATTTAATATTAGAATGG
Found at i:73696 original size:63 final size:65
Alignment explanation
Indices: 73562--73696 Score: 184
Period size: 63 Copynumber: 2.0 Consensus size: 65
73552 CCTACTGAAC
* **
73562 CTGCAGTCAAGGAAAATCCTCCTTCAATCTTTCCAGTTCAAGAAGAGGCTCTCACTGCTCTTAAT
1 CTGCAGTCAAGGAAAATCCTCCTTCAA--TTT-C-GTTCAAGAAGAGGATCTCACTGCTCCAAAT
73627 AAAT
62 AAAT
*
73631 CTGCAGTCAAGGATAATCCTCCTTCAA-TT-GTTCAAGAAGAGGATCTCACTGCTCCAAATAAAT
1 CTGCAGTCAAGGAAAATCCTCCTTCAATTTCGTTCAAGAAGAGGATCTCACTGCTCCAAATAAAT
73694 CTG
1 CTG
73697 TCTCTTGTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
63 34 0.55
66 2 0.03
69 26 0.42
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (65 bp):
CTGCAGTCAAGGAAAATCCTCCTTCAATTTCGTTCAAGAAGAGGATCTCACTGCTCCAAATAAAT
Found at i:74862 original size:13 final size:13
Alignment explanation
Indices: 74843--74879 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
74833 GTCATAACCC
74843 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
74856 TACCCGACCAGTT
1 GACCCGACCCGTT
74869 GACCCGACCCG
1 GACCCGACCCG
74880 GCCCGTTGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.19, C:0.46, G:0.22, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:74877 original size:31 final size:31
Alignment explanation
Indices: 74839--74905 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
74829 ACCGGTCATA
*
74839 ACCCGACCCGACCCGTTTACCCG-ACCAGTTG
1 ACCCGACCCGACCCGTTGACCCGAACC-GTTG
*
74870 ACCCGACCCGGCCCGTTGACCCGAACCGTTG
1 ACCCGACCCGACCCGTTGACCCGAACCGTTG
74901 ACCCG
1 ACCCG
74906 TTGACCGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 30 0.91
32 3 0.09
ACGTcount: A:0.18, C:0.46, G:0.22, T:0.13
Consensus pattern (31 bp):
ACCCGACCCGACCCGTTGACCCGAACCGTTG
Found at i:74878 original size:18 final size:18
Alignment explanation
Indices: 74857--74893 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
74847 CGACCCGTTT
74857 ACCCGACCAGTTGACCCG
1 ACCCGACCAGTTGACCCG
* *
74875 ACCCGGCCCGTTGACCCG
1 ACCCGACCAGTTGACCCG
74893 A
1 A
74894 ACCGTTGACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.46, G:0.24, T:0.11
Consensus pattern (18 bp):
ACCCGACCAGTTGACCCG
Found at i:74890 original size:13 final size:13
Alignment explanation
Indices: 74874--74933 Score: 66
Period size: 15 Copynumber: 4.3 Consensus size: 13
74864 CAGTTGACCC
*
74874 GACCCGGCCCGTT
1 GACCCGGACCGTT
*
74887 GACCCGAACCGTT
1 GACCCGGACCGTT
74900 GACCCGTTGACCGTT
1 GACCCG--GACCGTT
74915 GACCCGTTGACCGTT
1 GACCCG--GACCGTT
74930 GACC
1 GACC
74934 GGAGTTGACC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
13 17 0.40
15 25 0.60
ACGTcount: A:0.15, C:0.38, G:0.27, T:0.20
Consensus pattern (13 bp):
GACCCGGACCGTT
Found at i:74906 original size:8 final size:8
Alignment explanation
Indices: 74895--74933 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
74885 TTGACCCGAA
74895 CCGTTGAC
1 CCGTTGAC
74903 CCGTTGA-
1 CCGTTGAC
74910 CCGTTGAC
1 CCGTTGAC
74918 CCGTTGA-
1 CCGTTGAC
74925 CCGTTGAC
1 CCGTTGAC
74933 C
1 C
74934 GGAGTTGACC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 14 0.48
8 15 0.52
ACGTcount: A:0.13, C:0.36, G:0.26, T:0.26
Consensus pattern (8 bp):
CCGTTGAC
Found at i:74914 original size:15 final size:15
Alignment explanation
Indices: 74882--74933 Score: 81
Period size: 15 Copynumber: 3.6 Consensus size: 15
74872 CCGACCCGGC
*
74882 CCGTTGACCCG--AA
1 CCGTTGACCCGTTGA
74895 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
74910 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
74925 CCGTTGACC
1 CCGTTGACC
74934 GGAGTTGACC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
13 11 0.31
15 25 0.69
ACGTcount: A:0.15, C:0.37, G:0.25, T:0.23
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:74915 original size:7 final size:7
Alignment explanation
Indices: 74894--74934 Score: 64
Period size: 7 Copynumber: 5.6 Consensus size: 7
74884 GTTGACCCGA
74894 ACCGTTG
1 ACCGTTG
74901 ACCCGTTG
1 A-CCGTTG
74909 ACCGTTG
1 ACCGTTG
74916 ACCCGTTG
1 A-CCGTTG
74924 ACCGTTG
1 ACCGTTG
74931 ACCG
1 ACCG
74935 GAGTTGACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 18 0.56
8 14 0.44
ACGTcount: A:0.15, C:0.34, G:0.27, T:0.24
Consensus pattern (7 bp):
ACCGTTG
Found at i:76255 original size:18 final size:18
Alignment explanation
Indices: 76229--76264 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
76219 TCGAAAGGAC
*
76229 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
76247 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
76265 CGGATGAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:77443 original size:23 final size:23
Alignment explanation
Indices: 77417--77490 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
77407 AATTCTATTA
*
77417 TGATCCTGACCTGGATTCTGATC
1 TGATCATGACCTGGATTCTGATC
*
77440 TGAT-ATTGACATGGATTCTGATC
1 TGATCA-TGACCTGGATTCTGATC
*
77463 TGATACATGACCTGGATTCTGATA
1 TGAT-CATGACCTGGATTCTGATC
77487 TGAT
1 TGAT
77491 ACTTGACTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
23 24 0.55
24 19 0.43
25 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (23 bp):
TGATCATGACCTGGATTCTGATC
Found at i:77478 original size:24 final size:24
Alignment explanation
Indices: 77423--77497 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
77413 ATTATGATCC
77423 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
77446 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
77470 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
77494 TGAC
1 TGAC
77498 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:79696 original size:13 final size:13
Alignment explanation
Indices: 79677--79713 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
79667 GTCATAACCC
79677 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
79690 TACCCGACCAGTT
1 GACCCGACCCGTT
79703 GACCCGACCCG
1 GACCCGACCCG
79714 GCCCGTTGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.19, C:0.46, G:0.22, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:79708 original size:31 final size:31
Alignment explanation
Indices: 79673--79739 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
79663 ACCGGTCATA
*
79673 ACCCGACCCGACCCGTTTACCCG-ACCAGTTG
1 ACCCGACCCGACCCGTTGACCCGAACC-GTTG
*
79704 ACCCGACCCGGCCCGTTGACCCGAACCGTTG
1 ACCCGACCCGACCCGTTGACCCGAACCGTTG
79735 ACCCG
1 ACCCG
79740 TTGACCGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 30 0.91
32 3 0.09
ACGTcount: A:0.18, C:0.46, G:0.22, T:0.13
Consensus pattern (31 bp):
ACCCGACCCGACCCGTTGACCCGAACCGTTG
Found at i:79712 original size:18 final size:18
Alignment explanation
Indices: 79691--79727 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
79681 CGACCCGTTT
79691 ACCCGACCAGTTGACCCG
1 ACCCGACCAGTTGACCCG
* *
79709 ACCCGGCCCGTTGACCCG
1 ACCCGACCAGTTGACCCG
79727 A
1 A
79728 ACCGTTGACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.46, G:0.24, T:0.11
Consensus pattern (18 bp):
ACCCGACCAGTTGACCCG
Found at i:79724 original size:13 final size:13
Alignment explanation
Indices: 79708--79767 Score: 66
Period size: 15 Copynumber: 4.3 Consensus size: 13
79698 CAGTTGACCC
*
79708 GACCCGGCCCGTT
1 GACCCGGACCGTT
*
79721 GACCCGAACCGTT
1 GACCCGGACCGTT
79734 GACCCGTTGACCGTT
1 GACCCG--GACCGTT
79749 GACCCGTTGACCGTT
1 GACCCG--GACCGTT
79764 GACC
1 GACC
79768 GGAGTTGACC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
13 17 0.40
15 25 0.60
ACGTcount: A:0.15, C:0.38, G:0.27, T:0.20
Consensus pattern (13 bp):
GACCCGGACCGTT
Found at i:79740 original size:8 final size:8
Alignment explanation
Indices: 79729--79767 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
79719 TTGACCCGAA
79729 CCGTTGAC
1 CCGTTGAC
79737 CCGTTGA-
1 CCGTTGAC
79744 CCGTTGAC
1 CCGTTGAC
79752 CCGTTGA-
1 CCGTTGAC
79759 CCGTTGAC
1 CCGTTGAC
79767 C
1 C
79768 GGAGTTGACC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 14 0.48
8 15 0.52
ACGTcount: A:0.13, C:0.36, G:0.26, T:0.26
Consensus pattern (8 bp):
CCGTTGAC
Found at i:79748 original size:15 final size:15
Alignment explanation
Indices: 79716--79767 Score: 81
Period size: 15 Copynumber: 3.6 Consensus size: 15
79706 CCGACCCGGC
*
79716 CCGTTGACCCG--AA
1 CCGTTGACCCGTTGA
79729 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
79744 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
79759 CCGTTGACC
1 CCGTTGACC
79768 GGAGTTGACC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
13 11 0.31
15 25 0.69
ACGTcount: A:0.15, C:0.37, G:0.25, T:0.23
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:79749 original size:7 final size:7
Alignment explanation
Indices: 79728--79768 Score: 64
Period size: 7 Copynumber: 5.6 Consensus size: 7
79718 GTTGACCCGA
79728 ACCGTTG
1 ACCGTTG
79735 ACCCGTTG
1 A-CCGTTG
79743 ACCGTTG
1 ACCGTTG
79750 ACCCGTTG
1 A-CCGTTG
79758 ACCGTTG
1 ACCGTTG
79765 ACCG
1 ACCG
79769 GAGTTGACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 18 0.56
8 14 0.44
ACGTcount: A:0.15, C:0.34, G:0.27, T:0.24
Consensus pattern (7 bp):
ACCGTTG
Found at i:81087 original size:18 final size:18
Alignment explanation
Indices: 81061--81096 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
81051 TCGAAAGGAC
*
81061 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
81079 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
81097 CGGATGAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:82276 original size:23 final size:23
Alignment explanation
Indices: 82250--82323 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
82240 AATTCTATTA
*
82250 TGATCCTGACCTGGATTCTGATC
1 TGATCATGACCTGGATTCTGATC
*
82273 TGAT-ATTGACATGGATTCTGATC
1 TGATCA-TGACCTGGATTCTGATC
*
82296 TGATACATGACCTGGATTCTGATA
1 TGAT-CATGACCTGGATTCTGATC
82320 TGAT
1 TGAT
82324 ACTTGACTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
23 24 0.55
24 19 0.43
25 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (23 bp):
TGATCATGACCTGGATTCTGATC
Found at i:82311 original size:24 final size:24
Alignment explanation
Indices: 82256--82330 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
82246 ATTATGATCC
82256 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
82279 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
82303 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
82327 TGAC
1 TGAC
82331 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:90077 original size:15 final size:16
Alignment explanation
Indices: 90042--90081 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
90032 TTCGATCCAA
* *
90042 AAAAATCGGATATCTG
1 AAAATTCGGATATCCG
90058 AAAATTCGGATATCCG
1 AAAATTCGGATATCCG
*
90074 AAATTTCG
1 AAAATTCG
90082 AATTAGATAT
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:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (16 bp):
AAAATTCGGATATCCG
Done.