Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01006640.1 Kokia drynarioides strain JFW-HI SEQ_121230, 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: 368772
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Warning! 30 characters in sequence are not A, C, G, or T
Found at i:5144 original size:23 final size:23
Alignment explanation
Indices: 5114--5161 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
5104 AGCCAGTTAT
5114 GATACTAGAATGGAAATGGGAAC
1 GATACTAGAATGGAAATGGGAAC
5137 GATACTAGAATGGAAATGGGAAC
1 GATACTAGAATGGAAATGGGAAC
5160 GA
1 GA
5162 GTCACTATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.31, T:0.17
Consensus pattern (23 bp):
GATACTAGAATGGAAATGGGAAC
Found at i:7394 original size:20 final size:20
Alignment explanation
Indices: 7369--7486 Score: 101
Period size: 20 Copynumber: 5.9 Consensus size: 20
7359 GGTTGTTGTA
**
7369 TGCACTTCGGTGCCCCTATT
1 TGCACTTCAATGCCCCTATT
* *
7389 TGCACTTCGATGCCCCTGTT
1 TGCACTTCAATGCCCCTATT
* * *
7409 TGCACTTCATTGTCCCTGTT
1 TGCACTTCAATGCCCCTATT
* * *
7429 TGCACTTCAATGCCCTTGTA
1 TGCACTTCAATGCCCCTATT
* * *
7449 TGAACTTCGATGCCCCTATA
1 TGCACTTCAATGCCCCTATT
* *
7469 TGGACTTCATTGCCCCTA
1 TGCACTTCAATGCCCCTA
7487 CTAGTATAAT
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 82 1.00
ACGTcount: A:0.15, C:0.32, G:0.17, T:0.36
Consensus pattern (20 bp):
TGCACTTCAATGCCCCTATT
Found at i:7456 original size:40 final size:40
Alignment explanation
Indices: 7364--7483 Score: 125
Period size: 40 Copynumber: 3.0 Consensus size: 40
7354 TATTTGGTTG
* *
7364 TTGTATGCACTTCGGTGCCCCTATTTGCACTTCGATGCCC
1 TTGTATGCACTTCAGTGCCCCTATTTGCACTTCAATGCCC
* * * * *
7404 CTGTTTGCACTTCATTGTCCCTGTTTGCACTTCAATGCCC
1 TTGTATGCACTTCAGTGCCCCTATTTGCACTTCAATGCCC
* * * *
7444 TTGTATGAACTTC-GATGCCCCTATATGGACTTCATTGCCC
1 TTGTATGCACTTCAG-TGCCCCTATTTGCACTTCAATGCCC
7484 CTACTAGTAT
Statistics
Matches: 63, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.15, C:0.31, G:0.17, T:0.37
Consensus pattern (40 bp):
TTGTATGCACTTCAGTGCCCCTATTTGCACTTCAATGCCC
Found at i:24607 original size:26 final size:26
Alignment explanation
Indices: 24574--24625 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
24564 ATTGAAAATC
24574 CCTGTATACAATAATTAAAAAACCAT
1 CCTGTATACAATAATTAAAAAACCAT
*
24600 CCTGTATACAATAATTAAACAACCAT
1 CCTGTATACAATAATTAAAAAACCAT
24626 ACTTCTACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.48, C:0.21, G:0.04, T:0.27
Consensus pattern (26 bp):
CCTGTATACAATAATTAAAAAACCAT
Found at i:26117 original size:26 final size:27
Alignment explanation
Indices: 26083--26133 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
26073 TTCATATTTT
26083 TTCTCACTCACGAATTT-TTTCTTTTGA
1 TTCTCACTCA-GAATTTCTTTCTTTTGA
*
26110 TTCT-ACTCATAATTTCTTTCTTTT
1 TTCTCACTCAGAATTTCTTTCTTTT
26134 TTCATTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 13 0.59
27 4 0.18
ACGTcount: A:0.18, C:0.22, G:0.04, T:0.57
Consensus pattern (27 bp):
TTCTCACTCAGAATTTCTTTCTTTTGA
Found at i:34493 original size:24 final size:24
Alignment explanation
Indices: 34448--34494 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
34438 TACAAAAACT
34448 AAAGAAACAAATTAAAGTAAAATA
1 AAAGAAACAAATTAAAGTAAAATA
34472 AAAGACAA-AAATTAACAG-AAAAT
1 AAAGA-AACAAATTAA-AGTAAAAT
34495 TTTGCAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.70, C:0.06, G:0.09, T:0.15
Consensus pattern (24 bp):
AAAGAAACAAATTAAAGTAAAATA
Found at i:40177 original size:18 final size:17
Alignment explanation
Indices: 40154--40187 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
40144 TTTAAAAGAA
40154 AATCAACAAAAGATTAGT
1 AATCAACAAAAG-TTAGT
*
40172 AATCAATAAAAGTTAG
1 AATCAACAAAAGTTAG
40188 AAAAGGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
AATCAACAAAAGTTAGT
Found at i:43305 original size:37 final size:37
Alignment explanation
Indices: 43255--43335 Score: 162
Period size: 37 Copynumber: 2.2 Consensus size: 37
43245 GAAAGATTTG
43255 AGATCTACAAATTCTTATAAATGGCTTTGGGGATATT
1 AGATCTACAAATTCTTATAAATGGCTTTGGGGATATT
43292 AGATCTACAAATTCTTATAAATGGCTTTGGGGATATT
1 AGATCTACAAATTCTTATAAATGGCTTTGGGGATATT
43329 AGATCTA
1 AGATCTA
43336 GTCATTACCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (37 bp):
AGATCTACAAATTCTTATAAATGGCTTTGGGGATATT
Found at i:51131 original size:32 final size:32
Alignment explanation
Indices: 51095--51160 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
51085 TGTGAGTAAG
51095 GAGCATAAATAATAGTCTGATTCTATTTTCTT
1 GAGCATAAATAATAGTCTGATTCTATTTTCTT
51127 GAGCATAAATAATAGTCTGATTCTATTTTCTT
1 GAGCATAAATAATAGTCTGATTCTATTTTCTT
51159 GA
1 GA
51161 TAAATTTAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (32 bp):
GAGCATAAATAATAGTCTGATTCTATTTTCTT
Found at i:51814 original size:49 final size:49
Alignment explanation
Indices: 51760--51860 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
51750 AAGTCACCGA
51760 TAGAAAAAGAGAAAGCTTACTTAAAAAAGCAATTCACATACTCATAGGC
1 TAGAAAAAGAGAAAGCTTACTTAAAAAAGCAATTCACATACTCATAGGC
51809 TAGAAAAAGAGAAAGCTTACTTAAAAAAGCAATTCACATACTCATAGGC
1 TAGAAAAAGAGAAAGCTTACTTAAAAAAGCAATTCACATACTCATAGGC
51858 TAG
1 TAG
51861 CTAGAAGGAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.49, C:0.16, G:0.15, T:0.21
Consensus pattern (49 bp):
TAGAAAAAGAGAAAGCTTACTTAAAAAAGCAATTCACATACTCATAGGC
Found at i:63672 original size:18 final size:18
Alignment explanation
Indices: 63649--63690 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
63639 TGTGGGAATT
63649 GATTCATCATCGGATTGG
1 GATTCATCATCGGATTGG
63667 GATTCATCATCGGATTGG
1 GATTCATCATCGGATTGG
*
63685 GGTTCA
1 GATTCA
63691 ATCTCAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (18 bp):
GATTCATCATCGGATTGG
Found at i:63994 original size:12 final size:12
Alignment explanation
Indices: 63977--64001 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63967 CTTTGTAGAT
63977 ATCATCATCATA
1 ATCATCATCATA
63989 ATCATCATCATA
1 ATCATCATCATA
64001 A
1 A
64002 ATGTCATCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (12 bp):
ATCATCATCATA
Found at i:68251 original size:12 final size:12
Alignment explanation
Indices: 68234--68258 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
68224 CTTTGTAGAT
68234 ATCATCATCATA
1 ATCATCATCATA
68246 ATCATCATCATA
1 ATCATCATCATA
68258 A
1 A
68259 ATGTCATCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (12 bp):
ATCATCATCATA
Found at i:78783 original size:52 final size:52
Alignment explanation
Indices: 78702--78939 Score: 282
Period size: 52 Copynumber: 4.6 Consensus size: 52
78692 ATTACACTTA
* * * * ** * *
78702 ATACTCATGATGACACAGAGTCATTGGACCTCTTGTTTCGTAAAGGAATCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * * *
78754 ACACTCATGATGACATATAGTCATCGGACCTCATAATCCGTAAAGGATT-TT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
78805 CATACTCACGATGACACGTAGTCATCGGACCTCATAACCCGTAAAGGATTCAT
1 -ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * **
78858 GTAGTCACGATGACACATAGTCATCAAACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
78910 ATACT-ACGATGACATATAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
78940 TTCTCATTTA
Statistics
Matches: 157, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
51 23 0.15
52 133 0.85
53 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:93343 original size:22 final size:22
Alignment explanation
Indices: 93318--93361 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
93308 TTTTGTCGAT
93318 GCATGCAAATCTCCTTATTGAC
1 GCATGCAAATCTCCTTATTGAC
* *
93340 GCATGCAGATCTCCTTGTTGAC
1 GCATGCAAATCTCCTTATTGAC
93362 ACATCTCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (22 bp):
GCATGCAAATCTCCTTATTGAC
Found at i:105829 original size:24 final size:27
Alignment explanation
Indices: 105801--105856 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
105791 AAAAATCAAA
105801 AAGAAAA-ATGAGT-AG-AAACAAATG
1 AAGAAAACATGAGTAAGAAAACAAATG
*
105825 AAGAAAATCATGAGTAAGAAAACATATG
1 AAGAAAA-CATGAGTAAGAAAACAAATG
105853 AAGA
1 AAGA
105857 GTGACAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 7 0.26
26 6 0.22
27 2 0.07
28 12 0.44
ACGTcount: A:0.61, C:0.05, G:0.20, T:0.14
Consensus pattern (27 bp):
AAGAAAACATGAGTAAGAAAACAAATG
Found at i:110730 original size:51 final size:51
Alignment explanation
Indices: 110671--111342 Score: 1039
Period size: 51 Copynumber: 13.3 Consensus size: 51
110661 TGATATATTT
** * * * * * *
110671 TCATCGGACCTTTAATTTGTCATGGATTGATTCACTCACGGTGATACTTAG
1 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
**
110722 TCGCCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
1 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
*
110773 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTAACGATGACACTTAG
1 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
110824 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
1 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
110875 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
1 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
* * *
110926 TCATTGGA-CTTCAATCCATAAAGGATTCATTTACTCACGATGACACTTAG
1 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
110976 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
1 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
* * * *
111027 TCATTGGA-CTTCAATCCATAAAGGATTCATTTACTCATGATGACACTTAG
1 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
*
111077 TCA-CTGGACCTTTAATTCGTAAAGGATTCATTTACTCACGATGACACTTAG
1 TCATC-GGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
* *
111128 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTGACGATAACACTTAG
1 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
* *
111179 TCATCAGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACAGTTAG
1 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
* * * *
111230 TCA-CGGA-CTTCAATCCATAATGGATTCATTTACTCATGATGACACTTAG
1 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
* *
111279 TCATCGAACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAA
1 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
111330 TCATCGGACCTTT
1 TCATCGGACCTTT
111343 TCGTTTATAG
Statistics
Matches: 566, Mismatches: 49, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
49 40 0.07
50 98 0.17
51 427 0.75
52 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (51 bp):
TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
Found at i:117563 original size:21 final size:21
Alignment explanation
Indices: 117539--117592 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
117529 CCCTTACTAG
* *
117539 TTCTACCGATACAAGTGAAAT
1 TTCTACCGATACAAGTCAAAC
117560 TTCTACCGATACAAGTCAAAC
1 TTCTACCGATACAAGTCAAAC
*
117581 ATCTACCGATAC
1 TTCTACCGATAC
117593 TAAAAACTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (21 bp):
TTCTACCGATACAAGTCAAAC
Found at i:118198 original size:21 final size:21
Alignment explanation
Indices: 118173--118215 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
118163 CTTCAAGAGT
118173 AGTAAAAATCTAATTAACCGA
1 AGTAAAAATCTAATTAACCGA
118194 AGTAAAAATCTAATTAACCGA
1 AGTAAAAATCTAATTAACCGA
118215 A
1 A
118216 TGGAACACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.23
Consensus pattern (21 bp):
AGTAAAAATCTAATTAACCGA
Found at i:118400 original size:51 final size:51
Alignment explanation
Indices: 118338--118656 Score: 449
Period size: 51 Copynumber: 6.3 Consensus size: 51
118328 TGATATATTT
* ** * * *
118338 TCATCGAACCTTTAATTTGTCATGGATTCATTCACTCACGATGACACTTAG
1 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
* * * *
118389 TCACCGGACCTTTAATTCGTAAAGGATTCATCTACTCACAATGACACTTAG
1 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
118440 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
1 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
*
118491 TCATCGTACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
1 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
* * * * *
118542 TCATTGAACCTTCAATCCGTAAAGGATTCATTTACTCATGATGACAGTTAG
1 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
* ** * *
118593 TCATTGGACCTTTAATCCGTAAATAATTCATTTACTCACAATGACACTTAC
1 TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
118644 TCATCGGACCTTT
1 TCATCGGACCTTT
118657 TCGTTTATAG
Statistics
Matches: 241, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 241 1.00
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (51 bp):
TCATCGGACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAG
Found at i:120513 original size:19 final size:19
Alignment explanation
Indices: 120489--120549 Score: 86
Period size: 19 Copynumber: 3.2 Consensus size: 19
120479 CATGGTTAAA
120489 TGTTAAAGTTAACGATCAC
1 TGTTAAAGTTAACGATCAC
* *
120508 TGTTAAAGTTAACGGTCAAA
1 TGTTAAAGTTAACGATC-AC
*
120528 TGTTAAAGTTAATGATCAC
1 TGTTAAAGTTAACGATCAC
120547 TGT
1 TGT
120550 GGCTTTTTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
19 20 0.56
20 16 0.44
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (19 bp):
TGTTAAAGTTAACGATCAC
Found at i:120747 original size:86 final size:87
Alignment explanation
Indices: 120552--120775 Score: 285
Period size: 86 Copynumber: 2.6 Consensus size: 87
120542 ATCACTGTGG
* * * *
120552 CTTTTTGATGCA-TTTGACAGTTCAAGTACTCAATTGACTGT-AAAAAAATTCAAGGGCTTAATT
1 CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGT-TCAAAAAAATACAAGGGCTTAATT
*
120615 GCTTTTTTTGAAAAAAATTGAAGGC
65 GCTTCTTTT--AAAAAATTGAAGGC
* *
120640 CTTTTTGATGCATTTTAAAAGTTCAAGTACCCAGTTGAGTTCAAAAAAA-ACAAGGGCTTAATTG
1 CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTTCAAAAAAATACAAGGGCTTAATTG
* *
120704 CTTCTTTT-AAAATTTTAAGGGC
66 CTTCTTTTAAAAAATTGAA-GGC
* *
120726 CTTTTTTATGCATTTTGAAAGTTCAAGTACCTAATTGAGTTCAAAAAAAT
1 CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTTCAAAAAAAT
120776 GGGCTTGATC
Statistics
Matches: 119, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
85 8 0.07
86 48 0.40
88 34 0.29
89 29 0.24
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (87 bp):
CTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTTCAAAAAAATACAAGGGCTTAATTG
CTTCTTTTAAAAAATTGAAGGC
Found at i:124791 original size:43 final size:42
Alignment explanation
Indices: 124730--125013 Score: 329
Period size: 43 Copynumber: 6.6 Consensus size: 42
124720 AAATCAATTG
*
124730 ATGTATAAATGGAAGACTCATGTCTCAGAATAAGCGTGAGATT
1 ATGTATAAATGGAAGACTCATGTCTC-GAATGAGCGTGAGATT
* * *
124773 ATGTATAAATAGAAGACTCGTGTCTCGAAATGAGTGTGAGATT
1 ATGTATAAATGGAAGACTCATGTCTCG-AATGAGCGTGAGATT
* *
124816 AGGTATAAATGGAAGACTCATATCTCGGAATGAGCGTGAGATT
1 ATGTATAAATGGAAGACTCATGTCTC-GAATGAGCGTGAGATT
* **
124859 ATGTATAAATGGAATACTCACATCTCAGAATG-GACGTGAGATT
1 ATGTATAAATGGAAGACTCATGTCTC-GAATGAG-CGTGAGATT
* * * *
124902 ATGTATAAATAGAAGACTCGTGACTCGAGATGAGCATGAGATT
1 ATGTATAAATGGAAGACTCATGTCTCGA-ATGAGCGTGAGATT
* *
124945 ATGTATAAATGGAAGACTCATGTCTCGGGATGAGCATGAGATT
1 ATGTATAAATGGAAGACTCATGTCTC-GAATGAGCGTGAGATT
* * *
124988 ATGTTTAAA-GGAAGACTTATGGCTCG
1 ATGTATAAATGGAAGACTCATGTCTCG
125014 GATAGAGCAT
Statistics
Matches: 208, Mismatches: 27, Indels: 14
0.84 0.11 0.06
Matches are distributed among these distances:
41 1 0.00
42 18 0.09
43 186 0.89
44 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (42 bp):
ATGTATAAATGGAAGACTCATGTCTCGAATGAGCGTGAGATT
Found at i:124960 original size:129 final size:129
Alignment explanation
Indices: 124730--125004 Score: 410
Period size: 129 Copynumber: 2.1 Consensus size: 129
124720 AAATCAATTG
**
124730 ATGTATAAATGGAAGACTCATGTCTCAGAATAAGCGTGAGATTATGTATAAATAGAAGACTCGTG
1 ATGTATAAATGGAAGACTCACATCTCAGAATAAGCGTGAGATTATGTATAAATAGAAGACTCGTG
* ** *
124795 TCTCGAAATGAGTGTGAGATTAGGTATAAATGGAAGACTCATATCTCGGAATGAGCGTGAGATT
66 ACTCGAAATGAGCATGAGATTAGGTATAAATGGAAGACTCATATCTCGGAATGAGCATGAGATT
* *
124859 ATGTATAAATGGAATACTCACATCTCAGAAT-GGACGTGAGATTATGTATAAATAGAAGACTCGT
1 ATGTATAAATGGAAGACTCACATCTCAGAATAAG-CGTGAGATTATGTATAAATAGAAGACTCGT
* * * *
124923 GACTCGAGATGAGCATGAGATTATGTATAAATGGAAGACTCATGTCTCGGGATGAGCATGAGATT
65 GACTCGAAATGAGCATGAGATTAGGTATAAATGGAAGACTCATATCTCGGAATGAGCATGAGATT
*
124988 ATGTTTAAA-GGAAGACT
1 ATGTATAAATGGAAGACT
125005 TATGGCTCGG
Statistics
Matches: 131, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
128 8 0.06
129 123 0.94
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (129 bp):
ATGTATAAATGGAAGACTCACATCTCAGAATAAGCGTGAGATTATGTATAAATAGAAGACTCGTG
ACTCGAAATGAGCATGAGATTAGGTATAAATGGAAGACTCATATCTCGGAATGAGCATGAGATT
Found at i:125040 original size:42 final size:42
Alignment explanation
Indices: 124913--125068 Score: 136
Period size: 42 Copynumber: 3.7 Consensus size: 42
124903 TGTATAAATA
** * * * *
124913 GAAGACTCGTGACTCGAGATGAGCATGAGATTATGTATAAATG
1 GAAGACTTATGACTCG-GATGAGCATAAGAGTATGTTTAAAAG
* * * *
124956 GAAGACTCATGTCTCGGGATGAGCATGAGATTATGTTT-AAAG
1 GAAGACTTATGACTC-GGATGAGCATAAGAGTATGTTTAAAAG
*
124998 GAAGACTTATGGCTCGGATAGAGCATAAGAGTAT-TTTAAAAG
1 GAAGACTTATGACTCGGAT-GAGCATAAGAGTATGTTTAAAAG
* * *
125040 GAAGATTTGTGACTCGGTTTGAGCATAAG
1 GAAGACTTATGACTCGG-ATGAGCATAAG
125069 GTTAATTCAG
Statistics
Matches: 97, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
41 7 0.07
42 55 0.57
43 34 0.35
44 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (42 bp):
GAAGACTTATGACTCGGATGAGCATAAGAGTATGTTTAAAAG
Found at i:143369 original size:15 final size:15
Alignment explanation
Indices: 143349--143385 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
143339 AATCACATAA
143349 AAAAAAGGGAAAAAG
1 AAAAAAGGGAAAAAG
*
143364 AAAAAAGGGGAAAAG
1 AAAAAAGGGAAAAAG
143379 AAGAAAA
1 AA-AAAA
143386 AATATATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
AAAAAAGGGAAAAAG
Found at i:144327 original size:77 final size:77
Alignment explanation
Indices: 144200--144356 Score: 314
Period size: 77 Copynumber: 2.0 Consensus size: 77
144190 TAATTTCTTA
144200 AAGTGCGACCTGACGCAGAAGGAAAGGCAGTTTTACTCCTGACGAGGAGCATCCTAAGTGCGACC
1 AAGTGCGACCTGACGCAGAAGGAAAGGCAGTTTTACTCCTGACGAGGAGCATCCTAAGTGCGACC
144265 CAAGAGGAGAGT
66 CAAGAGGAGAGT
144277 AAGTGCGACCTGACGCAGAAGGAAAGGCAGTTTTACTCCTGACGAGGAGCATCCTAAGTGCGACC
1 AAGTGCGACCTGACGCAGAAGGAAAGGCAGTTTTACTCCTGACGAGGAGCATCCTAAGTGCGACC
144342 CAAGAGGAGAGT
66 CAAGAGGAGAGT
144354 AAG
1 AAG
144357 GGAATAATTT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 80 1.00
ACGTcount: A:0.32, C:0.22, G:0.31, T:0.15
Consensus pattern (77 bp):
AAGTGCGACCTGACGCAGAAGGAAAGGCAGTTTTACTCCTGACGAGGAGCATCCTAAGTGCGACC
CAAGAGGAGAGT
Found at i:145998 original size:32 final size:32
Alignment explanation
Indices: 145951--146032 Score: 139
Period size: 32 Copynumber: 2.5 Consensus size: 32
145941 TACTCCAATG
145951 CCACCTTTGCACCACCATTAACCA-CAGTGGCCA
1 CCACC-TTGCACCACCATTAACCATC-GTGGCCA
145984 CCACCTTGCACCACCATTAACCATCGTGGCCA
1 CCACCTTGCACCACCATTAACCATCGTGGCCA
146016 CCACCTTGCACCACCAT
1 CCACCTTGCACCACCAT
146033 AGATAAAACA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
32 42 0.88
33 6 0.12
ACGTcount: A:0.26, C:0.45, G:0.11, T:0.18
Consensus pattern (32 bp):
CCACCTTGCACCACCATTAACCATCGTGGCCA
Found at i:147550 original size:12 final size:12
Alignment explanation
Indices: 147533--147557 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
147523 ATTTGAGTCA
147533 ACTCAAATAAAT
1 ACTCAAATAAAT
147545 ACTCAAATAAAT
1 ACTCAAATAAAT
147557 A
1 A
147558 ATTCTAGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (12 bp):
ACTCAAATAAAT
Found at i:147730 original size:19 final size:20
Alignment explanation
Indices: 147692--147734 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
147682 AACAAAAGTA
147692 CAAAATAATTTTCAAAAATT
1 CAAAATAATTTTCAAAAATT
*
147712 CAAAATAATTTT-TAAAATT
1 CAAAATAATTTTCAAAAATT
147731 CAAA
1 CAAA
147735 TCTCAACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (20 bp):
CAAAATAATTTTCAAAAATT
Found at i:147784 original size:20 final size:20
Alignment explanation
Indices: 147755--147816 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
147745 AATACAAAAT
147755 AATTTAAAATAATTTTCAAA
1 AATTTAAAATAATTTTCAAA
* *
147775 AATTTTAAATAATTTT-TAA
1 AATTTAAAATAATTTTCAAA
*
147794 AATTCAAAAT-ATTTAT-AAA
1 AATTTAAAATAATTT-TCAAA
147813 AATT
1 AATT
147817 CCAAAATGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.11
19 17 0.47
20 15 0.42
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTAAAATAATTTTCAAA
Found at i:147794 original size:11 final size:10
Alignment explanation
Indices: 147751--147790 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
147741 CAAAAATACA
*
147751 AAATAATTTA
1 AAATAATTTT
147761 AAATAATTTT
1 AAATAATTTT
147771 CAAA-AATTTT
1 -AAATAATTTT
147781 AAATAATTTT
1 AAATAATTTT
147791 TAAAATTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 21 0.78
11 3 0.11
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (10 bp):
AAATAATTTT
Found at i:147812 original size:18 final size:21
Alignment explanation
Indices: 147760--147823 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 21
147750 AAAATAATTT
*
147760 AAAATAATTT-TCAAAAATT-T
1 AAAATAATTTAT-AAAAATTCC
* *
147780 TAAATAATTT-TTAAAATT-C
1 AAAATAATTTATAAAAATTCC
147799 AAAAT-ATTTATAAAAATTCC
1 AAAATAATTTATAAAAATTCC
147819 AAAAT
1 AAAAT
147824 GTATATCTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 4 0.11
19 17 0.46
20 16 0.43
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAATAATTTATAAAAATTCC
Found at i:155461 original size:15 final size:15
Alignment explanation
Indices: 155441--155474 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
155431 AGAAGTCTGT
155441 TTTTATCTTCATTTA
1 TTTTATCTTCATTTA
*
155456 TTTTATTTTCATTTA
1 TTTTATCTTCATTTA
155471 TTTT
1 TTTT
155475 CTTAGCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTATCTTCATTTA
Found at i:161668 original size:26 final size:26
Alignment explanation
Indices: 161609--161669 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
161599 CGTTTAGAAT
* * *
161609 TATCGCTGCAAGAACTTGTTCAGAAT
1 TATCGTTGCAAGAACTTGTTCAAAAC
* * *
161635 TTTTGTTGCAGGAACTTGTTCAAAAC
1 TATCGTTGCAAGAACTTGTTCAAAAC
161661 TATCGTTGC
1 TATCGTTGC
161670 TTGAATATGT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (26 bp):
TATCGTTGCAAGAACTTGTTCAAAAC
Found at i:172893 original size:26 final size:26
Alignment explanation
Indices: 172856--172917 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
172846 TTGCGCCCAG
172856 AATTGTCGCTACAAGAACTTGTTCAA
1 AATTGTCGCTACAAGAACTTGTTCAA
*
172882 AATTGTTC-CTACAGGAACTTGTTCAA
1 AATTG-TCGCTACAAGAACTTGTTCAA
*
172908 AATTATCGCT
1 AATTGTCGCT
172918 GTGTGAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 2 0.06
26 28 0.88
27 2 0.06
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (26 bp):
AATTGTCGCTACAAGAACTTGTTCAA
Found at i:175976 original size:50 final size:50
Alignment explanation
Indices: 175901--176008 Score: 189
Period size: 50 Copynumber: 2.1 Consensus size: 50
175891 AACATGATAA
*
175901 AATTAAAGAAAATTAGGCCAAGCTTCACTAAGTTAGAAGATGCAATAACT
1 AATTAAAGAAAATTAGGCCAAGCTTCACTAAGTTAGAAAATGCAATAACT
*
175951 AATTAAAGAAAATTAGGCCGAGCTTCACTAAGTTAGAAAATGCAATAACT
1 AATTAAAGAAAATTAGGCCAAGCTTCACTAAGTTAGAAAATGCAATAACT
176001 AAGTTAAA
1 AA-TTAAA
176009 AAGACTAAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
50 50 0.91
51 5 0.09
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (50 bp):
AATTAAAGAAAATTAGGCCAAGCTTCACTAAGTTAGAAAATGCAATAACT
Found at i:179153 original size:22 final size:22
Alignment explanation
Indices: 179128--179169 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
179118 TCAACAGATA
179128 AGTTTTTCATGCATCGACAAGG
1 AGTTTTTCATGCATCGACAAGG
**
179150 AGTTTTTCATGTGTCGACAA
1 AGTTTTTCATGCATCGACAA
179170 AAGAAAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (22 bp):
AGTTTTTCATGCATCGACAAGG
Found at i:190544 original size:58 final size:58
Alignment explanation
Indices: 190440--190588 Score: 165
Period size: 58 Copynumber: 2.6 Consensus size: 58
190430 GCATTTGAGT
* ** * * * * *
190440 CTATCTTTGTTAAAGGAGCGCCTTTGTGGAAAAACTTTGGATAGGAAATCCT-TTATGA
1 CTATCTCTGTTAAAGGAATGTCTTTGTGGCAAAACTCTAGACAGGAAA-CCTATTATGA
* * *
190498 CTATCTCTGTTAAAGGAATGTCTTTGTGGCAAAACTCTAGACAGGAAAGCTATTGTGG
1 CTATCTCTGTTAAAGGAATGTCTTTGTGGCAAAACTCTAGACAGGAAACCTATTATGA
* *
190556 TTATCTCTGTTAAAGGAATGTCTTTGTGACAAA
1 CTATCTCTGTTAAAGGAATGTCTTTGTGGCAAA
190589 TATCTGGACA
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
57 2 0.03
58 75 0.97
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (58 bp):
CTATCTCTGTTAAAGGAATGTCTTTGTGGCAAAACTCTAGACAGGAAACCTATTATGA
Found at i:190582 original size:29 final size:30
Alignment explanation
Indices: 190499--190583 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 30
190489 CCTTTATGAC
190499 TATCTCTGTTAAAGGAATGTCTTTGTGGCA
1 TATCTCTGTTAAAGGAATGTCTTTGTGGCA
* * * * *
190529 AAACTCTAG--ACAGGAAAG-CTATTGTGG-T
1 TATCTCT-GTTAAAGGAATGTCT-TTGTGGCA
190557 TATCTCTGTTAAAGGAATGTCTTTGTG
1 TATCTCTGTTAAAGGAATGTCTTTGTG
190584 ACAAATATCT
Statistics
Matches: 41, Mismatches: 9, Indels: 11
0.67 0.15 0.18
Matches are distributed among these distances:
27 1 0.02
28 7 0.17
29 25 0.61
30 7 0.17
31 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (30 bp):
TATCTCTGTTAAAGGAATGTCTTTGTGGCA
Found at i:190604 original size:58 final size:58
Alignment explanation
Indices: 190499--190614 Score: 173
Period size: 58 Copynumber: 2.0 Consensus size: 58
190489 CCTTTATGAC
* *
190499 TATCTCTGTTAAAGGAATGTCTTTGTGGCAAAACTCTAGACAGGAAAG-CTATTGTGGT
1 TATCTCTGTTAAAGGAATGTCTTTGTGACAAAACTCTAGACAAGAAAGCCT-TTGTGGT
*
190557 TATCTCTGTTAAAGGAATGTCTTTGTGACAAATA-TCTGGACAAGAAAGCCTTTGTGGT
1 TATCTCTGTTAAAGGAATGTCTTTGTGACAAA-ACTCTAGACAAGAAAGCCTTTGTGGT
190615 GATCACCATT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
58 50 0.94
59 3 0.06
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (58 bp):
TATCTCTGTTAAAGGAATGTCTTTGTGACAAAACTCTAGACAAGAAAGCCTTTGTGGT
Found at i:190627 original size:58 final size:58
Alignment explanation
Indices: 190507--190630 Score: 153
Period size: 58 Copynumber: 2.1 Consensus size: 58
190497 ACTATCTCTG
* * * * **
190507 TTAAAGGAATGTCTTTGTGGCAAAACTCTAGACAGGAAAGCTATTGTGGTTATCTCTG
1 TTAAAGGAATGTCTTTGTGACAAAACTCTAGACAAGAAAGCTATTGTGGTGATCACCA
*
190565 TTAAAGGAATGTCTTTGTGACAAATA-TCTGGACAAGAAAGCCT-TTGTGGTGATCACCA
1 TTAAAGGAATGTCTTTGTGACAAA-ACTCTAGACAAGAAAG-CTATTGTGGTGATCACCA
190623 TTAAAGGA
1 TTAAAGGA
190631 TAACCTTTGT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
58 54 0.95
59 3 0.05
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (58 bp):
TTAAAGGAATGTCTTTGTGACAAAACTCTAGACAAGAAAGCTATTGTGGTGATCACCA
Found at i:190773 original size:28 final size:28
Alignment explanation
Indices: 190741--190801 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
190731 CTAAAGGAAG
190741 CCTTTGTAGCTATCTAAGTGAAGGGATA
1 CCTTTGTAGCTATCTAAGTGAAGGGATA
*
190769 CCTTTGTAGCTATCTAAGTGAAGGGATG
1 CCTTTGTAGCTATCTAAGTGAAGGGATA
190797 CCTTT
1 CCTTT
190802 ATGGCGTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (28 bp):
CCTTTGTAGCTATCTAAGTGAAGGGATA
Found at i:193417 original size:11 final size:11
Alignment explanation
Indices: 193401--193425 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
193391 GTCCCTTATG
193401 TTGTTTTAAAT
1 TTGTTTTAAAT
193412 TTGTTTTAAAT
1 TTGTTTTAAAT
193423 TTG
1 TTG
193426 CCATGAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (11 bp):
TTGTTTTAAAT
Found at i:216392 original size:52 final size:52
Alignment explanation
Indices: 216314--216503 Score: 299
Period size: 52 Copynumber: 3.7 Consensus size: 52
216304 CCGTAAATGA
*
216314 ATGAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATT
1 ATGAGGTCCGATGACTACGTGTCATCGTGAGTATATGAATCCTTTACGGATT
*
216366 ATGAGGTCTGATGACTACGTGTCATCGTGAGTATATGAATCCTTTACGGATT
1 ATGAGGTCCGATGACTACGTGTCATCGTGAGTATATGAATCCTTTACGGATT
* * * * *
216418 GTGAGGTCCGATGACTACGCGTCATCATGAGTATATGAATTCTTCACGGATT
1 ATGAGGTCCGATGACTACGTGTCATCGTGAGTATATGAATCCTTTACGGATT
* *
216470 ATGAGGTTCGATGACTATGTGTCATCGTGAGTAT
1 ATGAGGTCCGATGACTACGTGTCATCGTGAGTAT
216504 CAAATATGCA
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 125 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (52 bp):
ATGAGGTCCGATGACTACGTGTCATCGTGAGTATATGAATCCTTTACGGATT
Found at i:216421 original size:26 final size:26
Alignment explanation
Indices: 216340--216422 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
216330 ATGTGTCATC
216340 GTGAGTATATGAATCCTTTACGGATT
1 GTGAGTATATGAATCCTTTACGGATT
* * * * * *
216366 ATGAGGTCTGATGACTACGTGT-C--ATC
1 GTGA-GTAT-ATGAAT-CCTTTACGGATT
216392 GTGAGTATATGAATCCTTTACGGATT
1 GTGAGTATATGAATCCTTTACGGATT
216418 GTGAG
1 GTGAG
216423 GTCCGATGAC
Statistics
Matches: 39, Mismatches: 12, Indels: 12
0.62 0.19 0.19
Matches are distributed among these distances:
23 3 0.08
24 6 0.15
25 3 0.08
26 15 0.38
27 3 0.08
28 6 0.15
29 3 0.08
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (26 bp):
GTGAGTATATGAATCCTTTACGGATT
Found at i:220845 original size:25 final size:24
Alignment explanation
Indices: 220817--220870 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
220807 GAGAAAATCG
*
220817 AAAATCCGTTGCACAAAGAGACCTT
1 AAAAT-CGTTGCACAAAGAGACCCT
* * *
220842 AAAATGGTTGTACAAGGAGACCCT
1 AAAATCGTTGCACAAAGAGACCCT
220866 AAAAT
1 AAAAT
220871 GGGCTAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.20
Consensus pattern (24 bp):
AAAATCGTTGCACAAAGAGACCCT
Found at i:220856 original size:24 final size:24
Alignment explanation
Indices: 220824--220872 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
220814 TCGAAAATCC
*
220824 GTTGCACAAAGAGACCTTAAAATG
1 GTTGCACAAAGAGACCCTAAAATG
* *
220848 GTTGTACAAGGAGACCCTAAAATG
1 GTTGCACAAAGAGACCCTAAAATG
220872 G
1 G
220873 GCTAATTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.20
Consensus pattern (24 bp):
GTTGCACAAAGAGACCCTAAAATG
Found at i:221518 original size:25 final size:25
Alignment explanation
Indices: 221483--221530 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
221473 AACCAAAAAT
*
221483 AAAAAATATATAAATTTTTATTATA
1 AAAAAACATATAAATTTTTATTATA
*
221508 AAAAAACATATAATTTTTTATTA
1 AAAAAACATATAAATTTTTATTA
221531 ATTCAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
AAAAAACATATAAATTTTTATTATA
Found at i:230931 original size:19 final size:19
Alignment explanation
Indices: 230909--230978 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
230899 TAACTCTCTT
*
230909 ACGAGCCAATATTGCTCAA
1 ACGAGCCAGTATTGCTCAA
*
230928 ACGAGCTAGTATTGCTCAA
1 ACGAGCCAGTATTGCTCAA
*
230947 ACGAGCTAGTA-TGCTCAA
1 ACGAGCCAGTATTGCTCAA
*
230965 ACAAGCCAGTATTG
1 ACGAGCCAGTATTG
230979 TTATTCCTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.35
19 30 0.65
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (19 bp):
ACGAGCCAGTATTGCTCAA
Found at i:234047 original size:21 final size:21
Alignment explanation
Indices: 234021--234094 Score: 80
Period size: 21 Copynumber: 3.4 Consensus size: 21
234011 CTATACACAT
234021 AACTACCGATACTCACAATTC
1 AACTACCGATACTCACAATTC
234042 AACTACCGATACATCTGTACACA-T-
1 AACTACCGATAC-TC---ACA-ATTC
234066 AACTACCGATACTCACAATTC
1 AACTACCGATACTCACAATTC
*
234087 AATTACCG
1 AACTACCG
234095 TTACAACTCA
Statistics
Matches: 45, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
19 1 0.02
20 4 0.09
21 19 0.42
22 2 0.04
23 2 0.04
24 12 0.27
25 4 0.09
26 1 0.02
ACGTcount: A:0.38, C:0.31, G:0.07, T:0.24
Consensus pattern (21 bp):
AACTACCGATACTCACAATTC
Found at i:234048 original size:45 final size:45
Alignment explanation
Indices: 233997--234099 Score: 170
Period size: 45 Copynumber: 2.3 Consensus size: 45
233987 TAAGTATGCA
*
233997 AACTACCGATATATCTATACACATAACTACCGATACTCACAATTC
1 AACTACCGATACATCTATACACATAACTACCGATACTCACAATTC
*
234042 AACTACCGATACATCTGTACACATAACTACCGATACTCACAATTC
1 AACTACCGATACATCTATACACATAACTACCGATACTCACAATTC
* *
234087 AATTACCGTTACA
1 AACTACCGATACA
234100 ACTCAAGTCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.39, C:0.29, G:0.06, T:0.26
Consensus pattern (45 bp):
AACTACCGATACATCTATACACATAACTACCGATACTCACAATTC
Found at i:234077 original size:24 final size:23
Alignment explanation
Indices: 233997--234077 Score: 89
Period size: 24 Copynumber: 3.5 Consensus size: 23
233987 TAAGTATGCA
*
233997 AACTACCGATATATCTATACACAT
1 AACTACCGATACATCT-TACACAT
234021 AACTACCGATAC-TC--ACA-ATT
1 AACTACCGATACATCTTACACA-T
234041 CAACTACCGATACATCTGTACACAT
1 -AACTACCGATACATCT-TACACAT
234066 AACTACCGATAC
1 AACTACCGATAC
234078 TCACAATTCA
Statistics
Matches: 49, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
19 1 0.02
20 4 0.08
21 12 0.24
22 2 0.04
23 2 0.04
24 23 0.47
25 4 0.08
26 1 0.02
ACGTcount: A:0.40, C:0.30, G:0.06, T:0.25
Consensus pattern (23 bp):
AACTACCGATACATCTTACACAT
Found at i:234746 original size:52 final size:52
Alignment explanation
Indices: 234668--234852 Score: 219
Period size: 52 Copynumber: 3.6 Consensus size: 52
234658 TTCATTTAAT
* ** **
234668 ACTCACGATGACACATAGTTATCGGACCTTTTGTTCCGTAAAGGAATCATAC
1 ACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGAATCATAC
* * * *
234720 ACTCACGATGATACATAATCATCGGACCTCATAATCCGTAAAGGATTCATAT
1 ACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGAATCATAC
* * * *
234772 ACTCACGATGACACATAGTCATTGGACCTCATAATCCATAAAGGATTCATAT
1 ACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGAATCATAC
* *
234824 ACTCACGAAGACACTTAGTCAAT-GGACCT
1 ACTCACGATGACACATAGTC-ATCGGACCT
234853 TTTCGTTTAC
Statistics
Matches: 117, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
52 115 0.98
53 2 0.02
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (52 bp):
ACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGAATCATAC
Found at i:235452 original size:18 final size:18
Alignment explanation
Indices: 235421--235459 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
235411 CAAACATATT
*
235421 CAACAGTTGTAAGATCCA
1 CAACAGTTGAAAGATCCA
* *
235439 CAACATTTGAAAGATGCA
1 CAACAGTTGAAAGATCCA
235457 CAA
1 CAA
235460 TTTAGTCCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (18 bp):
CAACAGTTGAAAGATCCA
Found at i:246765 original size:37 final size:37
Alignment explanation
Indices: 246724--246800 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
246714 AAAATATTCC
* ** *
246724 TGCGACGGCAGTTTTGGGTGTAATCTAGAAGTGCTCA
1 TGCGACGACAGTTTTGGACGCAATCTAGAAGTGCTCA
* *
246761 TGCGACTATAGTTTTGGACGCAATCTAGAAGTGCTCA
1 TGCGACGACAGTTTTGGACGCAATCTAGAAGTGCTCA
246798 TGC
1 TGC
246801 AGTGACATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (37 bp):
TGCGACGACAGTTTTGGACGCAATCTAGAAGTGCTCA
Found at i:247684 original size:16 final size:16
Alignment explanation
Indices: 247663--247709 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
247653 TGAAAGAAAG
247663 AAAGAAA-AATAGATAA
1 AAAGAAATAATA-ATAA
247679 AAAGAAATAATAATAA
1 AAAGAAATAATAATAA
* *
247695 TAA-TAATAATAATAA
1 AAAGAAATAATAATAA
247710 TAATTAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 11 0.39
16 13 0.46
17 4 0.14
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAGAAATAATAATAA
Found at i:247692 original size:3 final size:3
Alignment explanation
Indices: 247684--247722 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
247674 GATAAAAAGA
247684 AAT AAT AAT AAT AAT AAT AAT AAT AAT AATT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AA
247723 ATGATTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:269168 original size:3 final size:3
Alignment explanation
Indices: 269149--269198 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
269139 CACTACAATG
* *
269149 TCT TCC TCT TTT TCT TCT TCTT TCT TC- TCT TCT TCT TCCT TC- TCT
1 TCT TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT T-CT TCT TCT
269194 TCT TC
1 TCT TC
269199 AACACCCACA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 4 0.10
3 29 0.74
4 6 0.15
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TCT
Found at i:269181 original size:18 final size:15
Alignment explanation
Indices: 269161--269198 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
269151 TTCCTCTTTT
*
269161 TCTTCTTCTTTCTTC
1 TCTTCTTCTTCCTTC
269176 TCTTCTTCTTCCTTC
1 TCTTCTTCTTCCTTC
269191 TCTTCTTC
1 TCTTCTTC
269199 AACACCCACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (15 bp):
TCTTCTTCTTCCTTC
Found at i:272935 original size:26 final size:26
Alignment explanation
Indices: 272900--272956 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
272890 AGAACACATA
* *
272900 ACCATAGAAGTAAAGACAGATTCATT
1 ACCACAGAAGTAAAGACAAATTCATT
*
272926 ACCACAGAAGTAGAGACAAATTCATT
1 ACCACAGAAGTAAAGACAAATTCATT
272952 ACCAC
1 ACCAC
272957 CTCATCCTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.46, C:0.21, G:0.14, T:0.19
Consensus pattern (26 bp):
ACCACAGAAGTAAAGACAAATTCATT
Found at i:277208 original size:18 final size:18
Alignment explanation
Indices: 277187--277221 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
277177 TTTGCTTTGG
*
277187 CTTCTTCCTCTTCTTTTT
1 CTTCCTCCTCTTCTTTTT
*
277205 CTTCCTCCTTTTCTTTT
1 CTTCCTCCTCTTCTTTT
277222 CTCATTTCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
CTTCCTCCTCTTCTTTTT
Found at i:297493 original size:21 final size:22
Alignment explanation
Indices: 297463--297504 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
297453 ATTCAAATAT
297463 TTTCTTACTCATGATTCTTTTG
1 TTTCTTACTCATGATTCTTTTG
**
297485 TTTC-TACTCATTTTTCTTTT
1 TTTCTTACTCATGATTCTTTT
297505 CTTTTTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.12, C:0.19, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTCTTACTCATGATTCTTTTG
Found at i:317604 original size:25 final size:24
Alignment explanation
Indices: 317554--317605 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
317544 GCATAAAAGA
* * * *
317554 AAAAAGAAAGAAAGAAAATCTGAT
1 AAAAAGAAAAAAAAAAAATATAAT
317578 AAAAAGAAAAAAAAAATAATATAAT
1 AAAAAGAAAAAAAAAA-AATATAAT
317603 AAA
1 AAA
317606 TGTTGTATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.13
Consensus pattern (24 bp):
AAAAAGAAAAAAAAAAAATATAAT
Found at i:323235 original size:13 final size:13
Alignment explanation
Indices: 323217--323256 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
323207 TTGAGAGCAT
323217 AAAATAAAAGATA
1 AAAATAAAAGATA
323230 AAAAT--AAGATA
1 AAAATAAAAGATA
323241 GAAAATAAAAG-TA
1 -AAAATAAAAGATA
323254 AAA
1 AAA
323257 GTTATGATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 6 0.25
12 8 0.33
13 7 0.29
14 3 0.12
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (13 bp):
AAAATAAAAGATA
Found at i:340957 original size:23 final size:23
Alignment explanation
Indices: 340930--340975 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
340920 TTAGAGGGGA
*
340930 AGAGAGAAAGAAAGAAGAAGAAAGG
1 AGAGAG-AA-AAAGAAAAAGAAAGG
*
340955 AGATAGAAAAAGAAAAAGAAA
1 AGAGAGAAAAAGAAAAAGAAA
340976 AAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 2 0.11
25 5 0.26
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (23 bp):
AGAGAGAAAAAGAAAAAGAAAGG
Found at i:347726 original size:21 final size:21
Alignment explanation
Indices: 347675--347726 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
347665 GTGTACTAAT
*
347675 GTATCGTTAGTTTGTTTATTA
1 GTATCGGTAGTTTGTTTATTA
**
347696 GTATTAGTAGTTTGTTTATTA
1 GTATCGGTAGTTTGTTTATTA
347717 GTATCGGTAG
1 GTATCGGTAG
347727 AAGTTATAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.04, G:0.23, T:0.52
Consensus pattern (21 bp):
GTATCGGTAGTTTGTTTATTA
Found at i:347811 original size:21 final size:21
Alignment explanation
Indices: 347782--347863 Score: 112
Period size: 21 Copynumber: 3.9 Consensus size: 21
347772 GTGATGCATG
*
347782 ACTTGTATCGGTAGAAATCAC
1 ACTTATATCGGTAGAAATCAC
347803 ACTTATATCGGTAGAAATCAC
1 ACTTATATCGGTAGAAATCAC
* *
347824 ACTTATATCGGTAGAACTAAC
1 ACTTATATCGGTAGAAATCAC
*
347845 AC-AAGTATCGGTAGAAATC
1 ACTTA-TATCGGTAGAAATC
347864 TTTGCAGTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 1 0.02
21 53 0.98
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (21 bp):
ACTTATATCGGTAGAAATCAC
Found at i:362075 original size:108 final size:107
Alignment explanation
Indices: 361731--362075 Score: 467
Period size: 108 Copynumber: 3.2 Consensus size: 107
361721 AATTTTTCAG
* *
361731 TTATCCGACTAGCGCTAGGCGCAACATTGTTGGTTTATCCAACTAGAGTTGGGCTCATTAATAAT
1 TTATCCGACTAGCGCTAGGCGCAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCATTAATAAT
* * *
361796 ATCATTAGTTTATCTAACTAGTGCTGGACACACTTTCATCGGT
66 ATCGTCAGTTTATCTTACTAGTGCTGG-CACACTTTCATCGGT
* * *
361839 TTATCCGACTAGTG-TTGTGCACAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCATTAATAA
1 TTATCCGACTAGCGCTAG-GCGCAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCATTAATAA
* * **
361903 TATCGTCAGTTTATCTTACAAGTACTGGGCACACTTTTTTCGGT
65 TATCGTCAGTTTATCTTACTAGTGCT-GGCACACTTTCATCGGT
* * * *
361947 TTATCTGACTAGCGCTAGGCGCAATATTGTTGGTTTATCCAACAAGAGCTGTGCTAATTAATAAT
1 TTATCCGACTAGCGCTAGGCGCAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCATTAATAAT
* *
362012 ATCGTCAGTTTATCTTACTAGTGTTAGGCACACTTTCATCGAT
66 ATCGTCAGTTTATCTTACTAGTGCT-GGCACACTTTCATCGGT
* *
362055 ATATCTGACTAGCGCTAGGCG
1 TTATCCGACTAGCGCTAGGCG
362076 TAATTTTTTT
Statistics
Matches: 207, Mismatches: 27, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
107 2 0.01
108 201 0.97
109 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (107 bp):
TTATCCGACTAGCGCTAGGCGCAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCATTAATAAT
ATCGTCAGTTTATCTTACTAGTGCTGGCACACTTTCATCGGT
Found at i:365366 original size:31 final size:30
Alignment explanation
Indices: 365325--365420 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 30
365315 TTAATATAAT
365325 ATTTGG-ATTTAAATTTGATACTTTTTTTTA
1 ATTTGGTATTTAAATTTGATA-TTTTTTTTA
***
365355 ATTTGGTATTTAAATTT--T-TTTGACTTA
1 ATTTGGTATTTAAATTTGATATTTTTTTTA
* *
365382 ATTTGGTATTTGAACTTGATATTTTTTTCTA
1 ATTTGGTATTTAAATTTGATATTTTTTT-TA
365413 ATTTGGTA
1 ATTTGGTA
365421 CCTAAACTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
27 21 0.40
29 2 0.04
30 10 0.19
31 20 0.38
ACGTcount: A:0.25, C:0.04, G:0.12, T:0.58
Consensus pattern (30 bp):
ATTTGGTATTTAAATTTGATATTTTTTTTA
Found at i:365492 original size:59 final size:57
Alignment explanation
Indices: 365346--365492 Score: 186
Period size: 59 Copynumber: 2.5 Consensus size: 57
365336 AATTTGATAC
** * * ** *
365346 TTTTTTTTAATTTGGTATTTAAATTTTTTTGACTTAATTTGGTATTTGAACTTGATA
1 TTTTTTTTAATTTGGTACCTAAATTTTTTTGACTCAATTTGATACATGAACTTGACA
*
365403 TTTTTTTCTAATTTGGTACCTAAACTTTTTTGGACTCAATTTGATACATGAACTTGACA
1 TTTTTTT-TAATTTGGTACCTAAA-TTTTTTTGACTCAATTTGATACATGAACTTGACA
*
365462 TTTTTTCTTAATTTGGTACCTAAGTTTTTTT
1 TTTTTT-TTAATTTGGTACCTAAATTTTTTT
365493 TAAATTTAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
57 7 0.09
58 20 0.26
59 49 0.64
60 1 0.01
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.55
Consensus pattern (57 bp):
TTTTTTTTAATTTGGTACCTAAATTTTTTTGACTCAATTTGATACATGAACTTGACA
Found at i:368101 original size:20 final size:20
Alignment explanation
Indices: 368053--368110 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
368043 GGCGCCCCTG
** *
368053 TTTGCACTACGGTGCCCTCG
1 TTTGCACTTTGGTGCCCTCA
*
368073 TTTGTACTTTGGTGCCCTCA
1 TTTGCACTTTGGTGCCCTCA
*
368093 TTTGCACTTTGATGCCCT
1 TTTGCACTTTGGTGCCCT
368111 AGTTTAACAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.10, C:0.29, G:0.21, T:0.40
Consensus pattern (20 bp):
TTTGCACTTTGGTGCCCTCA
Done.