Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006666.1 Hibiscus syriacus cultivar Beakdansim tig00016509_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: 47693
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Found at i:985 original size:5 final size:5
Alignment explanation
Indices: 975--1038 Score: 71
Period size: 5 Copynumber: 13.0 Consensus size: 5
965 ATAGAACGAG
*
975 ATAAA ATAAA ATAAA ATAAA ATAAA AT--A ATAAG ATAAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT-AAA ATAAA ATAAA
*
1024 A-AAGA AGAAA ATAAA
1 ATAA-A ATAAA ATAAA
1039 GTAACCTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
3 3 0.06
4 2 0.04
5 40 0.78
6 6 0.12
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (5 bp):
ATAAA
Found at i:1019 original size:34 final size:33
Alignment explanation
Indices: 973--1037 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 33
963 AAATAGAACG
*
973 AGATAAAATAAAATAAAATAA-AATAAAATAATA
1 AGATAAAATAAAATAAAA-AAGAAGAAAATAATA
1006 AGATAAAAATAAAATAAAAAAGAAGAAAATAA
1 AGAT-AAAATAAAATAAAAAAGAAGAAAATAA
1038 AGTAACCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 6 0.21
34 23 0.79
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (33 bp):
AGATAAAATAAAATAAAAAAGAAGAAAATAATA
Found at i:5557 original size:38 final size:37
Alignment explanation
Indices: 5425--5709 Score: 225
Period size: 40 Copynumber: 7.8 Consensus size: 37
5415 TTTTCAAAAA
*
5425 AAAATGTTTTTAAAACTATATATTATATA-ATTTTTC
1 AAAATGTTTTAAAAACTATATATTATATATATTTTTC
*
5461 AGAAATGTTTTTTTAAAAACTACATATTATATATATTTTTTC
1 A-AAATG---TTTTAAAAACTATATATTATATATA-TTTTTC
*
5503 AAAATGTTTTTCAAAAACTATATATTATATATTTATTTTC
1 AAAATG-TTTT-AAAAACTATATATTATATATAT-TTTTC
* * *
5543 AAAATGTTTTAAAAACTATATAATATGTATATATTTC
1 AAAATGTTTTAAAAACTATATATTATATATATTTTTC
* * *
5580 AAAATGTTTTAAAAA-T-TATATAATATATATATAT-
1 AAAATGTTTTAAAAACTATATATTATATATATTTTTC
* * * * * *
5614 -ATAT-ATATATATA-TATATA-TATATATA-TATTC
1 AAAATGTTTTAAAAACTATATATTATATATATTTTTC
* * * *
5646 AAAACGCTTTAAAAAC--CATATTATATA-AGTTTTC
1 AAAATGTTTTAAAAACTATATATTATATATATTTTTC
* *
5680 AAAATATTCTAAAAACTATATATTATATAT
1 AAAATGTTTTAAAAACTATATATTATATAT
5710 GTGTTCAAAA
Statistics
Matches: 197, Mismatches: 34, Indels: 35
0.74 0.13 0.13
Matches are distributed among these distances:
31 1 0.01
32 13 0.07
33 13 0.07
34 27 0.14
35 14 0.07
36 12 0.06
37 24 0.12
38 19 0.10
39 10 0.05
40 51 0.26
41 6 0.03
42 7 0.04
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (37 bp):
AAAATGTTTTAAAAACTATATATTATATATATTTTTC
Found at i:5607 original size:2 final size:2
Alignment explanation
Indices: 5596--5643 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
5586 TTTTAAAAAT
5596 TA TA TA -A 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 TA TA TA
5637 TA TA TA T
1 TA TA TA T
5644 TCAAAACGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5743 original size:2 final size:2
Alignment explanation
Indices: 5732--5782 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
5722 ATTTGCAAAT
5732 TA TA -A 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 TA TA TA
*
5773 TA TA TG TA TA
1 TA TA TA TA TA
5783 AAATAAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:5796 original size:136 final size:137
Alignment explanation
Indices: 5538--5796 Score: 328
Period size: 134 Copynumber: 1.9 Consensus size: 137
5528 TATATATTTA
* * * **
5538 TTTTCAAAATGTTTTAAAAACTATATAATATGTATATATTTCAAAATGTTTTAAAAATTATATAA
1 TTTTCAAAATATTCTAAAAACTATATAATATATATATATTTCAAAATCATTTAAAAATTATATAA
*****
5603 TATATATATATATATATATATATATATATATATATATATATTCAAAACGCTTTAAAAACCATATT
66 TATATATATATATATATATATATATATATATATATATATATTCAAAACAAAAAAAAAACCATATT
5668 ATATAAG
131 ATATAAG
* **
5675 TTTTCAAAATATTCTAAAAACTATAT-AT-TATATATGTGTTCAAAATCATTTGCAAA-T-TATA
1 TTTTCAAAATATTCTAAAAACTATATAATATATATATAT-TTCAAAATCATTTAAAAATTATATA
* *
5736 ATATATATATATATATATATATATATATATATATATATATATGTATAAAATAAAAAAAAAA
65 ATATATATATATATATATATATATATATATATATATATATAT-T-CAAAACAAAAAAAAAA
5797 ATATGGATGC
Statistics
Matches: 104, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
134 46 0.44
135 9 0.09
136 25 0.24
137 24 0.23
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (137 bp):
TTTTCAAAATATTCTAAAAACTATATAATATATATATATTTCAAAATCATTTAAAAATTATATAA
TATATATATATATATATATATATATATATATATATATATATTCAAAACAAAAAAAAAACCATATT
ATATAAG
Found at i:6433 original size:80 final size:80
Alignment explanation
Indices: 6273--7802 Score: 1706
Period size: 80 Copynumber: 18.8 Consensus size: 80
6263 ATTTTGTTGA
* * * * * *
6273 CAGATAGCCCTTCTTGCCTTGAGCTATTCTGTAAATTTGATTTGCCTCTGAGTTGAATGTAATCG
1 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAA--TGATGTGCCTTTGAGCTGAGTGTAATCG
*
6338 AACTCTAAGGTCTTTGG
64 AACTCGAAGGTCTTTGG
6355 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
1 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
*
6420 CTTGAAGGTCTTTGG
66 CTCGAAGGTCTTTGG
** * *
6435 TTGATAGCCCTTCTTACCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGTTGAGTGTAATCGAA
1 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
*
6500 CTCGAAGATCTTTGG
66 CTCGAAGGTCTTTGG
*
6515 CAGATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
1 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
*
6580 CTCGAAGGTCTTTTG
66 CTCGAAGGTCTTTGG
* * * *
6595 TAGATAGCCCTTCTTGTCTTGAGCTATGCTGTAAATGATGTACCTTTGAGCTGAGTGTAATCGAA
1 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
6660 CTCGAAGGTCTTTGG
66 CTCGAAGGTCTTTGG
* * * * * * * *
6675 TAGATAGCCCTTCTTGACTTAAGTTATGTTACAAATGATGTACCTTTGAGCTAAGTGTAATCGAA
1 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
6740 CTCGAAGGTCTTTGG
66 CTCGAAGGTCTTTGG
* **
6755 CAGATAACCCTTCTTGCCTCAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
1 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
*
6820 CTCAAAGGTCTTTTGTTGG
66 CTCGAAGGTC---T-TTGG
* * * * *
6839 CAGATAACCCTTCTAGCCCTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATTGAA
1 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
*
6904 CTCGAAGGTCTTAACTGA
66 CTCGAAGGTCTT---TGG
* * * * * *
6922 CAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATGATGTACCTTTGAGCTGAGTGTAATCAAA
1 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
6987 CTCGAAGGTCTTTGG
66 CTCGAAGGTCTTTGG
* * * * * *
7002 CAGATAGCCCTTCTTGCTTTGAGTTATGCTGCAAATGATGTTCCTTTGAGATGAGTATAATCAAA
1 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
7067 CTCGAAGGTCTTTTGTTGG
66 CTCGAAGGTC---T-TTGG
* * * ** ** * * * *
7086 CATATAACCCTTCTAGCCTTGATTTATGCTGCAAACCATATGCTTTTGAGCTGAATGTAATCAAA
1 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
*
7151 CTCAAAGGTCTTTGTTGG
66 CTCGAAGGTC--T-TTGG
* * * * *
7169 CATATAGCCCTTCTTACCTT--G---TGCTGTAAATGATATGCCTTTGAGCTGATTGTAATCGAA
1 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
* *
7229 CTCGTAGGTCTTGATTGA
66 CTCGAAGGTC-T--TTGG
* * * **
7247 CAGATAACCCTTCTTTCCTTGAGTTATGCTATAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
1 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
*
7312 CTCAAAGGTCTTTGG
66 CTCGAAGGTCTTTGG
* * *
7327 AAGATAGCCCTTCTTGCCTTGAGCTAAGATGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
1 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
7392 CTCGAAGGTCTTTGG
66 CTCGAAGGTCTTTGG
* * ** *
7407 CAG-TAGCCTTTCTTTCCTTGAGCTATATTGCAAATGATGTGCCTTCGAGCTGAGTGTAATCGAA
1 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
*
7471 CTCGAAGGTCTTTGC
66 CTCGAAGGTCTTTGG
* * * * * **
7486 CATATAGCTCTTCTTGCATTGAGCTATGTTGAAAATGATGTATCTTTGAGCTGAGTGTAATCGAA
1 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
*
7551 CTCGAAGGTCTTGGTTGA
66 CTCGAAGGTC-T--TTGG
* ** ** * * * * *
7569 TAGATAATCCTTCTCACCTTGAGTTATACTGTAAATGATGTTCCTTTAAGCTGAGTGTAATCGAA
1 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
*
7634 CTCGAAGGTCTAGTGTTCG
66 CTCGAAGGTC---T-TTGG
* * * * *
7653 TAGATTA-CCCTTCTCGCCTTGAGTTATGCTGCAAATAATGTGCCTTTGAGCTTAGTGTAATCGA
1 CAGA-TAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGA
* *
7717 ACTTGAAGGTCTTGATTGA
65 ACTCGAAGGTC-T--TTGG
* ** * * *
7736 CAGATAACCCTTCTCACCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCAAA
1 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
7801 CT
66 CT
7803 TAAAGGTCGT
Statistics
Matches: 1254, Mismatches: 168, Indels: 51
0.85 0.11 0.03
Matches are distributed among these distances:
77 2 0.00
78 61 0.05
79 71 0.06
80 608 0.48
81 2 0.00
82 37 0.03
83 267 0.21
84 203 0.16
85 3 0.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (80 bp):
CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
CTCGAAGGTCTTTGG
Found at i:7444 original size:567 final size:562
Alignment explanation
Indices: 6266--7802 Score: 1868
Period size: 567 Copynumber: 2.7 Consensus size: 562
6256 CTCGACAATT
* * * * * *
6266 TTGTTGACAGATAGCCCTTCTTGCCTTGAGCTATTCTGTAAATTTGATTTGCCTCTGAGTTGAAT
1 TTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATT-TGCAAA--TGATGTGCCTTTGAGCTGAGT
* * *
6331 GTAATCGAACTCTAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGT
63 GTAATCGAACTCGAAGGTCTTTGACAGATAGCCCTTCTTGCCTTGAGCTATGCTGAAAATGATGT
* * * *
6396 GCCTTTGAGCTGAGTGTAATCGAACTTGAAGGTCTTTGGTTGATAGCCCTTCTTACCTTGAGCTA
128 ACCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTAGATAGCCCTTCTTACCTTGAGTTA
* * * *
6461 TGCTGCAAATGATGTGCCTTTGAGTTGAGTGTAATCGAACTCGAAGATC-T-TTGGCAGATAGCC
193 TGCTGCAAATGATGTTCCTTTGAGATGAGTGTAATCGAACTCGAAGGTCTTGTTGGCAGATAACC
* * * *
6524 CTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGT
258 CTTCTAGCCTTGAGTTATGCTGCAAATAATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGT
* ** *
6589 CTT-TT-GTAGATAGCCCTTCTTGTCTTGAGCTATGCTGTAAATGATGTACCTTTGAGCTGAGTG
323 CTTGTTGGCAGATAGCCCTTCTTACCTT-AG-T-TGCTGTAAATGATGTGCCTTTGAGCTGAGTG
** * *
6652 TAATCGAACTCGAAGGTCTTTGGTAGATAGCCCTTCTTGACTTAAGTTATGTTACAAATGATGTA
385 TAATCGAACTCGAAGGTCTTTGACAGATAACCCTTCTTGACTTAAGTTATGCTACAAATGATGTA
* * *
6717 CCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTTGCCTCAAGCTAT
450 CCTTTGAGCTAAGTGTAATCGAACTCAAAGGTCTTTGGAAGATAACCCTTCTTGCCTCAAGCTAA
*
6782 GCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTC
515 GATGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTC
* * * * *
6830 TTTTGTTGGCAGATAACCCTTCTAGCCCTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGT
1 --TTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTAT-TTGCAAATGATGTGCCTTTGAGCTGAGT
* * * * *
6895 GTAATTGAACTCGAAGGTCTTAACTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATGA
63 GTAATCGAACTCGAAGGTCTT---TGACAGATAGCCCTTCTTGCCTTGAGCTATGCTGAAAATGA
* * * *
6960 TGTACCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCTTTGAG
125 TGTACCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTAGATAGCCCTTCTTACCTTGAG
* * *
7025 TTATGCTGCAAATGATGTTCCTTTGAGATGAGTATAATCAAACTCGAAGGTCTTTTGTTGGCATA
190 TTATGCTGCAAATGATGTTCCTTTGAGATGAGTGTAATCGAACTCGAAGGTC--TTGTTGGCAGA
* ** * * * * *
7090 TAACCCTTCTAGCCTTGATTTATGCTGCAAACCATATGCTTTTGAGCTGAATGTAATCAAACTCA
253 TAACCCTTCTAGCCTTGAGTTATGCTGCAAATAATGTGCCTTTGAGCTGAGTGTAATCGAACTCG
* *
7155 AAGGTCTTTGTTGGCATATAGCCCTTCTTACCTT-G-TGCTGTAAATGATATGCCTTTGAGCTGA
318 AAGGTC-TTGTTGGCAGATAGCCCTTCTTACCTTAGTTGCTGTAAATGATGTGCCTTTGAGCTGA
* * ** * *
7218 TTGTAATCGAACTCGTAGGTCTTGATTGACAGATAACCCTTCTTTCCTTGAGTTATGCTATAAAT
382 GTGTAATCGAACTCGAAGGTC-T--TTGACAGATAACCCTTCTTGACTTAAGTTATGCTACAAAT
* * * **
7283 GATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGGAAGATAGCCCTTCTTGCCTTG
444 GATGTACCTTTGAGCTAAGTGTAATCGAACTCAAAGGTCTTTGGAAGATAACCCTTCTTGCCTCA
*
7348 AGCTAAGATGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
509 AGCTAAGATGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTC
* * *
7402 -T-TTGGCAG-TAGCCTTTCTTTCCTTGAGCTATATTGCAAATGATGTGCCTTCGAGCTGAGTGT
1 TTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTAT-TTGCAAATGATGTGCCTTTGAGCTGAGTGT
* * * * * *
7464 AATCGAACTCGAAGGTCTTTGCCATATAGCTCTTCTTGCATTGAGCTATGTTGAAAATGATGTAT
65 AATCGAACTCGAAGGTCTTTGACAGATAGCCCTTCTTGCCTTGAGCTATGCTGAAAATGATGTAC
* ** *
7529 CTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGATAGATAATCCTTCTCACCTTGAGTT
130 CTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-T--TTGGTAGATAGCCCTTCTTACCTTGAGTT
* * * * * * *
7594 ATACTGTAAATGATGTTCCTTTAAGCTGAGTGTAATCGAACTCGAAGGTCTAGTGTTCGTAGATT
192 ATGCTGCAAATGATGTTCCTTTGAGATGAGTGTAATCGAACTCGAAGGTCT--TGTTGGCAGATA
* * *
7659 ACCCTTCTCGCCTTGAGTTATGCTGCAAATAATGTGCCTTTGAGCTTAGTGTAATCGAACTTGAA
255 ACCCTTCTAGCCTTGAGTTATGCTGCAAATAATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAA
* * *
7724 GGTCTTGATTGACAGATAACCCTTCTCACCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTG
320 GGTCTTG-TTGGCAGATAGCCCTTCTTACCTT-AG-T-TGCTGTAAATGATGTGCCTTTGAGCTG
*
7789 AGTGTAATCAAACT
381 AGTGTAATCGAACT
7803 TAAAGGTCGT
Statistics
Matches: 820, Mismatches: 126, Indels: 44
0.83 0.13 0.04
Matches are distributed among these distances:
564 103 0.13
565 2 0.00
566 37 0.05
567 355 0.43
568 7 0.01
569 47 0.06
570 2 0.00
571 66 0.08
572 182 0.22
573 2 0.00
574 17 0.02
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (562 bp):
TTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATTTGCAAATGATGTGCCTTTGAGCTGAGTGTA
ATCGAACTCGAAGGTCTTTGACAGATAGCCCTTCTTGCCTTGAGCTATGCTGAAAATGATGTACC
TTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTAGATAGCCCTTCTTACCTTGAGTTATGC
TGCAAATGATGTTCCTTTGAGATGAGTGTAATCGAACTCGAAGGTCTTGTTGGCAGATAACCCTT
CTAGCCTTGAGTTATGCTGCAAATAATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTT
GTTGGCAGATAGCCCTTCTTACCTTAGTTGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCG
AACTCGAAGGTCTTTGACAGATAACCCTTCTTGACTTAAGTTATGCTACAAATGATGTACCTTTG
AGCTAAGTGTAATCGAACTCAAAGGTCTTTGGAAGATAACCCTTCTTGCCTCAAGCTAAGATGCA
AATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTC
Found at i:8688 original size:94 final size:94
Alignment explanation
Indices: 8494--8755 Score: 346
Period size: 94 Copynumber: 2.7 Consensus size: 94
8484 GGCTAACTGA
* *
8494 ATCCATAAAGCCAGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTCAATGTCATTATATAG-AT
1 ATCCATAAAGCC-GGGGGTTTAACCAATTGCTCTAGAGGGACAGCTCAA-G-C-TT-TATTGTAT
*
8558 ATTATAATCACCTTTATCAGGCTAGCTGAATATT
61 ATTATAATCACCTTTATCAGGCTAACTGAATATT
* *
8592 ATCCATAAAGCCGGGGGTTTAACAAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTAT
1 ATCCATAAAGCCGGGGGTTTAACCAATTGCTCTAGAGGGACAGCTCAAGCTTTATTGTATATTAT
* *
8657 AATCACCTTTATCAGTCTAACTGAATCTT
66 AATCACCTTTATCAGGCTAACTGAATATT
* * * * *
8686 ATCCATAAAGTCGGGGCGTTTAACCAATTTCTATAAAGGGACAGTTCAAGCTTTATTGTATATAT
1 ATCCATAAAGCCGGGG-GTTTAACCAATTGCTCTAGAGGGACAGCTCAAGCTTTATTGTATAT-T
8751 ATAAT
64 ATAAT
8756 ATTATAATTT
Statistics
Matches: 147, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
93 4 0.03
94 50 0.34
95 41 0.28
96 7 0.05
97 33 0.22
98 12 0.08
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (94 bp):
ATCCATAAAGCCGGGGGTTTAACCAATTGCTCTAGAGGGACAGCTCAAGCTTTATTGTATATTAT
AATCACCTTTATCAGGCTAACTGAATATT
Found at i:11215 original size:20 final size:20
Alignment explanation
Indices: 11168--11459 Score: 230
Period size: 20 Copynumber: 14.2 Consensus size: 20
11158 AATGACCAAC
* *
11168 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
*
11187 AAAACCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
* * **
11207 AAAAGCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTTAG
* * **
11227 AAGATCGCAACACGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
* * *
11248 AAGAATCGCAATGCGATTCAT
1 AA-AATCGCAACGCGATTTAG
**
11269 AAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
*
11290 AAGAATCGCAACGCGATTCAG
1 AA-AATCGCAACGCGATTTAG
*
11311 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTTAG
**
11331 AAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
*
11352 AAGAATCGCAACGCGATTAAG
1 AA-AATCGCAACGCGATTTAG
*
11373 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-TAG
* *
11393 AGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTTAG
**
11413 AAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TTAG
*
11434 AAGAATCGCAACGCGATTAAG
1 AA-AATCGCAACGCGATTTAG
11455 AAAAT
1 AAAAT
11460 GAGTAAATTC
Statistics
Matches: 216, Mismatches: 44, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
19 19 0.09
20 118 0.55
21 26 0.12
22 53 0.25
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:11276 original size:42 final size:42
Alignment explanation
Indices: 11225--11450 Score: 184
Period size: 42 Copynumber: 5.4 Consensus size: 42
11215 AACGTTGAAA
* * *
11225 AGAAGATCGCAACACGATCTTCCAAGAATCGCAATGCGATTC
1 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTC
*
11267 ATAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTC
1 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTC
*
11309 AGAAAATCGCAACGCGA--TT-CAGAAAATCGCAACGCGATCTTCC
1 AGAAAATCGCAACGCGATCTTCCA-AGAATCGCAACGCGA--TT-C
* ***
11352 A-AGAATCGCAACGCGAT-TAAGAA-AATCGCAACGCGATTCC
1 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATT-C
* ***
11392 A-AGAATCGCAACGCGAT-TAAGAA-AATCGCAACGCGATCTTCC
1 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGA--TT-C
*
11434 A-AGAATCGCAACGCGAT
1 AGAAAATCGCAACGCGAT
11451 TAAGAAAATG
Statistics
Matches: 167, Mismatches: 9, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
39 2 0.01
40 56 0.34
42 104 0.62
43 4 0.02
44 1 0.01
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (42 bp):
AGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTC
Found at i:11317 original size:62 final size:61
Alignment explanation
Indices: 11251--11451 Score: 262
Period size: 62 Copynumber: 3.2 Consensus size: 61
11241 ATCTTCCAAG
* *
11251 AATCGCAATGCGATTCATAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCAGAA
1 AATCGCAACGCGATTCA-AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAAGAA
11313 AATCGCAACGCGATTCAGAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAAGAA
1 AATCGCAACGCGATTCA-AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAAGAA
* *** ***
11375 AATCGCAACGCGATTCCAAGAATCGCAACGCGAT-TAAGAA-AATCGCAACGCGATCTTCCAA
1 AATCGCAACGCGATT-CAAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGAT-TAAGAA
11436 GAATCGCAACGCGATT
1 -AATCGCAACGCGATT
11452 AAGAAAATGA
Statistics
Matches: 126, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
60 14 0.11
61 6 0.05
62 104 0.83
63 2 0.02
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.17
Consensus pattern (61 bp):
AATCGCAACGCGATTCAAAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTAAGAA
Found at i:11451 original size:82 final size:82
Alignment explanation
Indices: 11293--11459 Score: 300
Period size: 82 Copynumber: 2.0 Consensus size: 82
11283 ATCTTCCAAG
*
11293 AATCGCAACGCGATTCAGAAAATCGCAACGCGATTCAGAAAATCGCAACGCGATCTTCCAAGAAT
1 AATCGCAACGCGATTCAGAAAATCGCAACGCGATTAAGAAAATCGCAACGCGATCTTCCAAGAAT
11358 CGCAACGCGATTAAGAA
66 CGCAACGCGATTAAGAA
*
11375 AATCGCAACGCGATTCCA-AGAATCGCAACGCGATTAAGAAAATCGCAACGCGATCTTCCAAGAA
1 AATCGCAACGCGATT-CAGAAAATCGCAACGCGATTAAGAAAATCGCAACGCGATCTTCCAAGAA
11439 TCGCAACGCGATTAAGAA
65 TCGCAACGCGATTAAGAA
11457 AAT
1 AAT
11460 GAGTAAATTC
Statistics
Matches: 82, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
82 80 0.98
83 2 0.02
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.16
Consensus pattern (82 bp):
AATCGCAACGCGATTCAGAAAATCGCAACGCGATTAAGAAAATCGCAACGCGATCTTCCAAGAAT
CGCAACGCGATTAAGAA
Found at i:11566 original size:6 final size:6
Alignment explanation
Indices: 11555--11598 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
11545 GACACGTATT
11555 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
11599 CGAGACGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.32, C:0.52, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:12116 original size:6 final size:6
Alignment explanation
Indices: 12095--12161 Score: 120
Period size: 6 Copynumber: 11.5 Consensus size: 6
12085 TCTCGTCTCG
12095 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
12141 GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGT
12162 AATACGTGTC
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 10 0.16
6 51 0.84
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:12316 original size:42 final size:40
Alignment explanation
Indices: 12257--12714 Score: 433
Period size: 42 Copynumber: 11.1 Consensus size: 40
12247 GAATTTACTC
12257 ATTTTCTGAATCGCGTTGCGATTCTTGGACGATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGA--ATCGCGTTGCG
12299 ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCG
*
12341 ATTTACTGAATCGCGTTGCGATTTTCTT--AATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGA--TTCTTGGAATCGCGTTGCG
*
12381 ATTCTT-GGAAGATCGCGTTGCGATTTTCTT--AATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCGA--TTCTTGGAATCGCGTTGCG
*
12423 ATTCTT-GGAAGATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCGATTCTTGGAATCGCGTTGCG
12465 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
*
12505 ATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCG
*
12547 ATTTTCTGAATCGCGTTGCGATT-TTCTGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTT-GGAATCGCGTTGCG
* * *
12587 ATTCTT-GGAAGATCGCGTTGCGATT-TTATGAATCGCATTGCG
1 ATT-TTCTG-A-ATCGCGTTGCGATTCTT-GGAATCGCGTTGCG
* * *
12629 ATTCTT-GGAAGATCGCGTTGCGATCTTCTT--TA-CAACGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCGA--TTCTTGGAATC-GCGTTGCG
* * *
12671 CTTTTCTAAATCGCGTTGCGGTT-TT-GATATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGA-ATCGCGTTGCG
12710 ATTTT
1 ATTTT
12715 GTTGGTCATT
Statistics
Matches: 373, Mismatches: 20, Indels: 49
0.84 0.05 0.11
Matches are distributed among these distances:
37 2 0.01
38 2 0.01
39 12 0.03
40 105 0.28
41 17 0.05
42 225 0.60
43 1 0.00
44 7 0.02
45 2 0.01
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (40 bp):
ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
Found at i:12365 original size:62 final size:59
Alignment explanation
Indices: 12264--12713 Score: 427
Period size: 62 Copynumber: 7.3 Consensus size: 59
12254 CTCATTTTCT
12264 GAATCGCGTTGCGA-TTCTTGGACGATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTTC-T-GA--ATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTG
*
12326 GAAGATCGCGTTGCGATTTACTGAATCGCGTTGCGATTTTCTTAATCGCGTTGCGATTCTTG
1 G-A-ATCGCGTTGCGATTT-CTGAATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTG
* *
12388 GAAGATCGCGTTGCGATTTTCTTAATCGCGTTGCGATTCTT-GGAAGATCGCGTTGCGATTCTTG
1 G-A-ATCGCGTTGCGA-TTTCTGAATCGCGTTGCGATT-TTCTG-A-ATCGCGTTGCGATTCTTG
*
12452 GAATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTT-GGAATCGCGTTGCGATTTTCTT-
1 GAATCGCGTTGCGA-TTTCTGAATCGCGTTGCGATT-TTCTGAATCGCGTTGCGA--TTCTTG
*
12513 -AATCGCGTTGCGA-TTCTTGGAAGATCGCGTTGCGATTTTCTGAATCGCGTTGCGATT-TTCT
1 GAATCGCGTTGCGATTTC-T-G-A-ATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTT-G
* *
12574 GAATCGCGTTGCGA-TTCTTGGAAGATCGCGTTGCGATTTTATGAATCGCATTGCGATTCTTG
1 GAATCGCGTTGCGATTTC-T-G-A-ATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTG
** * * * *
12636 GAAGATCGCGTTGCGATCTTCTTTA-CAACGTTGCGCTTTTCTAAATCGCGTTGCGGTT-TT-
1 G-A-ATCGCGTTGCGAT-TTCTGAATC-GCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTG
12696 GATATCGCGTTGCGATTT
1 GA-ATCGCGTTGCGATTT
12714 TGTTGGTCAT
Statistics
Matches: 346, Mismatches: 18, Indels: 52
0.83 0.04 0.12
Matches are distributed among these distances:
58 5 0.01
59 17 0.05
60 29 0.08
61 7 0.02
62 224 0.65
63 11 0.03
64 45 0.13
65 4 0.01
66 4 0.01
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.37
Consensus pattern (59 bp):
GAATCGCGTTGCGATTTCTGAATCGCGTTGCGATTTTCTGAATCGCGTTGCGATTCTTG
Found at i:12437 original size:104 final size:103
Alignment explanation
Indices: 12257--12714 Score: 696
Period size: 104 Copynumber: 4.5 Consensus size: 103
12247 GAATTTACTC
*
12257 ATTTTCTGAATCGCGTTGCGATTCTTGGACGATCGCGTTGCGATTTTCTGAATCGCGTTGCGATT
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTGAATCGCGTTGCGATT
12322 CTTGGAAGATCGCGTTGCGATTTACTGAATCGCGTTGCG
66 CTTGGAAGATCGCGTTGCGATTT-CTGAATCGCGTTGCG
* *
12361 ATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTTAATCGCGTTGCGATT
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTGAATCGCGTTGCGATT
12426 CTTGGAAGATCGCGTTGCGA-TTCTTGGAATCGCGTTGCG
66 CTTGGAAGATCGCGTTGCGATTTC-T-GAATCGCGTTGCG
*
12465 ATTTTCTGAATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCGATTTTCTTAATCGCGTTGCGATT
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTGAATCGCGTTGCGATT
12528 CTTGGAAGATCGCGTTGCGATTTTCTGAATCGCGTTGCG
66 CTTGGAAGATCGCGTTGCGA-TTTCTGAATCGCGTTGCG
* *
12567 ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTATGAATCGCATTGCGATT
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTGAATCGCGTTGCGATT
** *
12632 CTTGGAAGATCGCGTTGCGATCTTCTTTA-CAACGTTGCG
66 CTTGGAAGATCGCGTTGCGAT-TTCTGAATC-GCGTTGCG
* * * *
12671 CTTTTCTAAATCGCGTTGCGGTT-TT-G-ATATCGCGTTGCGATTTT
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTT
12715 GTTGGTCATT
Statistics
Matches: 332, Mismatches: 14, Indels: 19
0.91 0.04 0.05
Matches are distributed among these distances:
101 17 0.05
102 97 0.29
103 10 0.03
104 208 0.63
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (103 bp):
ATTTTCTGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCGATTTTCTGAATCGCGTTGCGATT
CTTGGAAGATCGCGTTGCGATTTCTGAATCGCGTTGCG
Found at i:14628 original size:33 final size:32
Alignment explanation
Indices: 14579--14640 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
14569 AACTATATAT
*
14579 TATATAGTTTT-TAAAAATGATTTTAAAAATAC
1 TATATAGTTTTCAAAAAATG-TTTTAAAAATAC
14611 TATATGAGTTTTCAAAAAATGTTTTAAAAA
1 TATAT-AGTTTTCAAAAAATGTTTTAAAAA
14641 CTATACATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 5 0.19
33 15 0.56
34 7 0.26
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (32 bp):
TATATAGTTTTCAAAAAATGTTTTAAAAATAC
Found at i:14770 original size:2 final size:2
Alignment explanation
Indices: 14759--14793 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
14749 TTTTAAAAAC
14759 TA TA TA -A 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
14794 GTTCAAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:14828 original size:40 final size:40
Alignment explanation
Indices: 14772--14949 Score: 126
Period size: 40 Copynumber: 4.5 Consensus size: 40
14762 ATAATATATA
*
14772 TATATATATATATATATATATAGTTCAAAATGTTTTAAAAC
1 TATATA-ATATATATATATATAGTTCAAAATATTTTAAAAC
* ***
14813 TATATAATATATATATATATATATTCAAAACGCTTTAAAACC
1 TATATAATATATATATATATA-GTTCAAAATATTTTAAAA-C
* *
14855 CATAT-AT-TATATA-AGT-T--TTCAAAATATTCTAAAAAC
1 TATATAATATATATATA-TATAGTTCAAAATATT-TTAAAAC
**
14891 TATAT-ATAT-TATATATAT-GTTTCAAAAATAATTTGCAAA-
1 TATATAATATATATATATATAG-TTC-AAAAT-ATTTTAAAAC
14930 T-TATAATATATATATATATA
1 TATATAATATATATATATATA
14950 TATATATATA
Statistics
Matches: 112, Mismatches: 11, Indels: 28
0.74 0.07 0.19
Matches are distributed among these distances:
36 20 0.18
37 8 0.07
38 3 0.03
39 10 0.09
40 40 0.36
41 26 0.23
42 5 0.04
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (40 bp):
TATATAATATATATATATATAGTTCAAAATATTTTAAAAC
Found at i:14830 original size:42 final size:42
Alignment explanation
Indices: 14770--14867 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 42
14760 ATATAATATA
* *
14770 TATATATATATATATATATATATAGTTCAAAATGTTTTAAAA-C
1 TATATA-ATATATATATATATATA-TTCAAAACGCTTTAAAACC
14813 TATATAATATATATATATATATATTCAAAACGCTTTAAAACC
1 TATATAATATATATATATATATATTCAAAACGCTTTAAAACC
* *
14855 CATATATTATATA
1 TATATAATATATA
14868 AGTTTTCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
41 15 0.30
42 29 0.58
43 6 0.12
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (42 bp):
TATATAATATATATATATATATATTCAAAACGCTTTAAAACC
Found at i:14942 original size:2 final size:2
Alignment explanation
Indices: 14931--14977 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
14921 ATTTGCAAAT
* * *
14931 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA AA TA AA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14972 -A TA TA T
1 TA TA TA T
14978 GGACGAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:20213 original size:60 final size:59
Alignment explanation
Indices: 20149--20283 Score: 137
Period size: 59 Copynumber: 2.3 Consensus size: 59
20139 TAAATATTAT
**
20149 AATTTCATCACCAAACAATGAATCTCATTCTAAATTAGTCCTTAAACTTTTG-AGCATTCC
1 AATTTCATC-CCAAACAATGAATCTCATTCTAAATTAGTCCCCAAACTTTTGAAGC-TTCC
* * * * * * * * *
20209 AATTTCAGCCCCAACTATGACTCTCGTTTTTAATTGGTCCCCAAACTTTTGAATCTTCC
1 AATTTCATCCCAAACAATGAATCTCATTCTAAATTAGTCCCCAAACTTTTGAAGCTTCC
20268 AATTTCATCCACAAAC
1 AATTTCATCC-CAAAC
20284 TATCCAAACA
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
59 46 0.77
60 14 0.23
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (59 bp):
AATTTCATCCCAAACAATGAATCTCATTCTAAATTAGTCCCCAAACTTTTGAAGCTTCC
Found at i:20508 original size:60 final size:60
Alignment explanation
Indices: 20430--20585 Score: 172
Period size: 60 Copynumber: 2.6 Consensus size: 60
20420 AAAATGTTAA
* * * **
20430 AAAAGTTTGGGGACTAATTTAGAATGAAGATCATAGTTCAGGGATGGAATTAAAATGCTT
1 AAAAGTTTGAGGACTAATTTAGAATGAAGATCATAATTCAAGGATAAAATTAAAATGCTT
* * * *
20490 AAAAGTTTGAGGATTAATTTAGAATGAA-ACTCATAATTTAAGGATAAAATTGAAATGTTT
1 AAAAGTTTGAGGACTAATTTAGAATGAAGA-TCATAATTCAAGGATAAAATTAAAATGCTT
* * *
20550 AAAACTTTAAGGACTAATTT-GAAATAAAGATCATAA
1 AAAAGTTTGAGGACTAATTTAG-AATGAAGATCATAA
20586 AACTTTAAGG
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
59 2 0.03
60 77 0.96
61 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (60 bp):
AAAAGTTTGAGGACTAATTTAGAATGAAGATCATAATTCAAGGATAAAATTAAAATGCTT
Found at i:24496 original size:17 final size:16
Alignment explanation
Indices: 24471--24535 Score: 53
Period size: 20 Copynumber: 3.8 Consensus size: 16
24461 AATGGTCTAC
24471 TAATAATGATTTAATAA
1 TAAT-ATGATTTAATAA
24488 TAATGATGATGATTTAATAA
1 T-A--AT-ATGATTTAATAA
*
24508 CAATA--ATTTAATAA
1 TAATATGATTTAATAA
24522 TAATCATGATTTAA
1 TAAT-ATGATTTAA
24536 CAATGTTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
14 12 0.31
15 1 0.03
16 1 0.03
17 9 0.23
18 1 0.03
19 1 0.03
20 14 0.36
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (16 bp):
TAATATGATTTAATAA
Found at i:27494 original size:21 final size:21
Alignment explanation
Indices: 27474--27519 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
27464 TAGTATTGTG
27474 GAAC-ACCACGTCAACACTGT
1 GAACTACCACGTCAACACTGT
* *
27494 GAACTACCATGTCAGCACTGT
1 GAACTACCACGTCAACACTGT
27515 -AACTA
1 GAACTA
27520 TTAAATGACG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (21 bp):
GAACTACCACGTCAACACTGT
Found at i:29364 original size:2 final size:2
Alignment explanation
Indices: 29357--29383 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
29347 GAAAACAAAG
29357 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
29384 ATTTAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:29553 original size:2 final size:2
Alignment explanation
Indices: 29546--29600 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
29536 AATTTAACAA
29546 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29588 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
29601 ATTGAATTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:29648 original size:21 final size:25
Alignment explanation
Indices: 29608--29674 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 25
29598 ATAATTGAAT
*
29608 TATTTTTAACTT-ATTAATTTTA-A
1 TATTTTTAACTTAATTCATTTTATA
*
29631 -ATTTTTTA-TTAATT-ATTTTATA
1 TATTTTTAACTTAATTCATTTTATA
29653 TATTTTTAACTTAATTCATTTT
1 TATTTTTAACTTAATTCATTTT
29675 TATTAAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
21 8 0.22
22 11 0.30
23 7 0.19
24 6 0.16
25 5 0.14
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (25 bp):
TATTTTTAACTTAATTCATTTTATA
Found at i:34109 original size:45 final size:47
Alignment explanation
Indices: 34057--34145 Score: 137
Period size: 45 Copynumber: 1.9 Consensus size: 47
34047 TCGAATAAAT
*
34057 GCATGCGAACTAGATATCATGCGGTTAGG-TTTATTTTT-TGAACAA
1 GCATGCGAACTAGATATCATGCAGTTAGGATTTATTTTTGTGAACAA
* *
34102 GCATGCGAATTAGATATCATGTAGTTAGGATTTATTTTTGTGAA
1 GCATGCGAACTAGATATCATGCAGTTAGGATTTATTTTTGTGAA
34146 TAACAAAGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
45 26 0.67
46 9 0.23
47 4 0.10
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.38
Consensus pattern (47 bp):
GCATGCGAACTAGATATCATGCAGTTAGGATTTATTTTTGTGAACAA
Found at i:43747 original size:11 final size:11
Alignment explanation
Indices: 43731--43787 Score: 64
Period size: 11 Copynumber: 5.4 Consensus size: 11
43721 AAGAAATTAA
43731 AAAAAAGAAAG
1 AAAAAAGAAAG
43742 AAAAAAGAAA-
1 AAAAAAGAAAG
*
43752 AAAAAA-AAAA
1 AAAAAAGAAAG
* *
43762 AAAAAAGGAGG
1 AAAAAAGAAAG
*
43773 AAAAATGAAAG
1 AAAAAAGAAAG
43784 AAAA
1 AAAA
43788 TGAAAATGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
9 3 0.08
10 12 0.32
11 23 0.61
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:43754 original size:20 final size:21
Alignment explanation
Indices: 43729--43787 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
43719 AGAAGAAATT
43729 AAAAAAAAGAAAGAAAAAA-G
1 AAAAAAAAGAAAGAAAAAAGG
* *
43749 AAAAAAAAAAAAAAAAAAAGG
1 AAAAAAAAGAAAGAAAAAAGG
* *
43770 AGGAAAAATGAAAGAAAA
1 A-AAAAAAAGAAAGAAAA
43788 TGAAAATGAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 17 0.55
21 2 0.06
22 12 0.39
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (21 bp):
AAAAAAAAGAAAGAAAAAAGG
Found at i:43767 original size:31 final size:31
Alignment explanation
Indices: 43729--43787 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
43719 AGAAGAAATT
43729 AAAAAAAAGAAAGAAAAAAGAAAAAAAAAAA
1 AAAAAAAAGAAAGAAAAAAGAAAAAAAAAAA
* * * *
43760 AAAAAAAAGGAGGAAAAATGAAAGAAAA
1 AAAAAAAAGAAAGAAAAAAGAAAAAAAA
43788 TGAAAATGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (31 bp):
AAAAAAAAGAAAGAAAAAAGAAAAAAAAAAA
Found at i:43777 original size:1 final size:1
Alignment explanation
Indices: 43729--43767 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
43719 AGAAGAAATT
* * *
43729 AAAAAAAAGAAAGAAAAAAGAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
43768 GGAGGAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:43792 original size:17 final size:18
Alignment explanation
Indices: 43772--43834 Score: 64
Period size: 16 Copynumber: 3.8 Consensus size: 18
43762 AAAAAAGGAG
*
43772 GAAAAATGA-AAGAAAAT
1 GAAAAATGAGAAAAAAAT
43789 G-AAAATGAGAAAAAAAT
1 GAAAAATGAGAAAAAAAT
**
43806 GAAAAATG-GTGAAAAAT
1 GAAAAATGAGAAAAAAAT
43823 -AAAAATGA-AAAA
1 GAAAAATGAGAAAA
43835 TATAAAACGT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
16 16 0.42
17 16 0.42
18 6 0.16
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (18 bp):
GAAAAATGAGAAAAAAAT
Found at i:43870 original size:20 final size:19
Alignment explanation
Indices: 43845--43882 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 19
43835 TATAAAACGT
43845 ATGAAAAACAAAAGAGAAAA
1 ATGAAAAA-AAAAGAGAAAA
43865 ATGAAAAAAAAAGAGAAA
1 ATGAAAAAAAAAGAGAAA
43883 TAAAAGGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.76, C:0.03, G:0.16, T:0.05
Consensus pattern (19 bp):
ATGAAAAAAAAAGAGAAAA
Found at i:45420 original size:55 final size:54
Alignment explanation
Indices: 45240--45803 Score: 560
Period size: 55 Copynumber: 10.6 Consensus size: 54
45230 GTTGAAGATT
** * **
45240 GAGTC-ATACTCTCTGAA-GAATAGGGAGTAGACAAGTTCGTTGAAGA----T-
1 GAGTCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATTGTTC
* **
45287 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-
1 GAGT-CTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATTGTTC
* ** *
45338 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGTTT
1 GAGT-CTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATTGTTC
45393 GAGTCATATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGA----TC
1 GAGTC-TATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATTGTTC
* *
45444 GAGTCTTATACTCCCTGAACGG-ATAGGGAGCGGACCCGTTT-TATGAAGATTGTTC
1 GAGTC-TATACTCTCTGAA-GGAATAGGGAGCGGACACGTTTAT-TGAAGATTGTTC
* * *
45499 GGGTTCTATACTCCCTGAACGG-ATAGGGAGCGGACCCGTTTATTGAAGATTGTTC
1 GAG-TCTATACTCTCTGAA-GGAATAGGGAGCGGACACGTTTATTGAAGATTGTTC
* *
45554 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGAC-TGTTT-TATGAAGATTGTTC
1 GAG-TCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTAT-TGAAGATTGTTC
* * *
45608 GAGTTCTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTT-TATGAAGATTGTTC
1 GAG-TCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTAT-TGAAGATTGTTC
* * *
45663 GAGTTCTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTATTGAAGATTGTTC
1 GAG-TCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATTGTTC
* * * *
45718 GAGTCTTATACTCCCTGAATGAATAGGGAGCAGATACGTTTATTGAAGATTGTTC
1 GAGTC-TATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATTGTTC
*
45773 GAGTCTTATACTC-CATGAAAGAATAGGGAGC
1 GAGTC-TATACTCTC-TGAAGGAATAGGGAGC
45804 AGACTGTCAT
Statistics
Matches: 472, Mismatches: 22, Indels: 38
0.89 0.04 0.07
Matches are distributed among these distances:
47 4 0.01
48 1 0.00
49 12 0.03
50 28 0.06
51 92 0.19
52 2 0.00
53 1 0.00
54 58 0.12
55 270 0.57
56 4 0.01
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (54 bp):
GAGTCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGATTGTTC
Found at i:45424 original size:106 final size:104
Alignment explanation
Indices: 45226--45769 Score: 518
Period size: 106 Copynumber: 5.1 Consensus size: 104
45216 AAGCAAACTA
* **
45226 GTTTGTTGAAGATTGAGT-C-ATACTCTCTGAA-GAATAGGGAGTAGACAAGTTCGTTGAAGA--
1 GTTTATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTT-GTTGAAGATT
*
45286 --T-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAA
65 GTTCGAGT-CTATACTCTCTGAAGGAATAGGGAGCGGACAC
**
45324 GTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATT
1 GTTTATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTT-GTTGAAGATT
*
45389 GTTTGAGTCATATACTCTCTGAAGGAATAGGGAGCGGACAC
65 GTTCGAGTC-TATACTCTCTGAAGGAATAGGGAGCGGACAC
* * * ** *
45430 GTTTATTGAAGATCGAGTCTTATACTCCCTGAACGG-ATAGGGAGCGGACCCGTTTTATGAAGAT
1 GTTTATTGAAGATTGAGTCCTATACTCTCTGAA-GGAATAGGGAGCGGACAAGTTGT-TGAAGAT
* * *
45494 TGTTCGGGTTCTATACTCCCTGAACGG-ATAGGGAGCGGACCC
64 TGTTCGAG-TCTATACTCTCTGAA-GGAATAGGGAGCGGACAC
* * * *
45536 GTTTATTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGAC-TGTTTTATGAA
1 GTTTATTGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTGT-TGAA
* * *
45600 GATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCAGACCC
61 GATTGTTCGAG-TCTATACTCTCTGAAGGAATAGGGAGCGGACAC
* * * ** *
45645 GTTT-TATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTATTGA
1 GTTTAT-TGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAG-TTGTTGA
* * * *
45709 AGATTGTTCGAGTCTTATACTCCCTGAATGAATAGGGAGCAGATAC
60 AGATTGTTCGAGTC-TATACTCTCTGAAGGAATAGGGAGCGGACAC
45755 GTTTATTGAAGATTG
1 GTTTATTGAAGATTG
45770 TTCGAGTCTT
Statistics
Matches: 388, Mismatches: 34, Indels: 40
0.84 0.07 0.09
Matches are distributed among these distances:
98 17 0.04
99 1 0.00
100 12 0.03
101 27 0.07
105 3 0.01
106 130 0.34
107 8 0.02
108 3 0.01
109 103 0.27
110 80 0.21
111 4 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (104 bp):
GTTTATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTGTTGAAGATTG
TTCGAGTCTATACTCTCTGAAGGAATAGGGAGCGGACAC
Found at i:45701 original size:164 final size:164
Alignment explanation
Indices: 45287--45807 Score: 615
Period size: 164 Copynumber: 3.2 Consensus size: 164
45277 CGTTGAAGAT
* * ** * *
45287 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGT-TGAAGA---TT-GAGTCCTAT
1 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACCCGTT-TTATGAAGATTGTTCGAGTTCTAT
** ** *
45347 ACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGTTTGAGTCATATACTCTCTGAA
65 ACTCTCTGAAGGAATAGGGAGCGGACCCGTTTATTGAAGATTGTTCGAGTCATATACTCTCTGAA
*
45412 GGAATAGGGAGCGGACACGTTTATTGAAGA----TC
130 GGAATAGGGAGCGGAC-TGTTTATTGAAGATTGTTC
* * *
45444 GAGTCTTATACTCCCTGAACGG-ATAGGGAGCGGACCCGTTTTATGAAGATTGTTCGGGTTCTAT
1 GAGTCTTATACTCTCTGAA-GGAATAGGGAGCAGACCCGTTTTATGAAGATTGTTCGAGTTCTAT
*
45508 ACTCCCTGAACGG-ATAGGGAGCGGACCCGTTTATTGAAGATTGTTCGAGTTC-TATACTCTCTG
65 ACTCTCTGAA-GGAATAGGGAGCGGACCCGTTTATTGAAGATTGTTCGAG-TCATATACTCTCTG
*
45571 AAGGAATAGAGAGCGGACTGTTT-TATGAAGATTGTTC
128 AAGGAATAGGGAGCGGACTGTTTAT-TGAAGATTGTTC
*
45608 GAGT-TCTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTTATGAAGATTGTTCGAGTTCTAT
1 GAGTCT-TATACTCTCTGAAGGAATAGGGAGCAGACCCGTTTTATGAAGATTGTTCGAGTTCTAT
* * * *
45672 ACTCTCTGAAGGAATAGAGAGCAGACCCGTTTATTGAAGATTGTTCGAGTCTTATACTCCCTGAA
65 ACTCTCTGAAGGAATAGGGAGCGGACCCGTTTATTGAAGATTGTTCGAGTCATATACTCTCTGAA
* *
45737 TGAATAGGGAGCAGA-TACGTTTATTGAAGATTGTTC
130 GGAATAGGGAGCGGACT--GTTTATTGAAGATTGTTC
*
45773 GAGTCTTATACTC-CATGAAAGAATAGGGAGCAGAC
1 GAGTCTTATACTCTC-TGAAGGAATAGGGAGCAGAC
45808 TGTCATTCGA
Statistics
Matches: 314, Mismatches: 28, Indels: 36
0.83 0.07 0.10
Matches are distributed among these distances:
156 1 0.00
157 39 0.12
158 2 0.01
159 1 0.00
160 12 0.04
161 75 0.24
162 4 0.01
163 8 0.03
164 125 0.40
165 45 0.14
166 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (164 bp):
GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACCCGTTTTATGAAGATTGTTCGAGTTCTATA
CTCTCTGAAGGAATAGGGAGCGGACCCGTTTATTGAAGATTGTTCGAGTCATATACTCTCTGAAG
GAATAGGGAGCGGACTGTTTATTGAAGATTGTTC
Found at i:45749 original size:110 final size:110
Alignment explanation
Indices: 45287--45803 Score: 568
Period size: 106 Copynumber: 4.8 Consensus size: 110
45277 CGTTGAAGAT
* * * * ** *
45287 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-GAGTCCTATA
1 GAGTTCTATACTCCCTGAAGGAATAGGGAGCAGACACGTTTATTGAAGATTGTTCGAGTTCTATA
** * *
45348 CTCTCTGAAGGAATAGGGAGCGGACAAGTTCGT-TGAAGATTGTTT
66 CTCTCTGAAGGAATAGGGAGCGGACCCGTT-TTATGAAGATTGTTC
* *
45393 GAG-TCATATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATTGAAGA----TCGAG-TCTTA
1 GAGTTC-TATACTCCCTGAAGGAATAGGGAGCAGACACGTTTATTGAAGATTGTTCGAGTTC-TA
*
45452 TACTCCCTGAACGG-ATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
64 TACTCTCTGAA-GGAATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
* * *
45499 GGGTTCTATACTCCCTGAACGG-ATAGGGAGCGGACCCGTTTATTGAAGATTGTTCGAGTTCTAT
1 GAGTTCTATACTCCCTGAA-GGAATAGGGAGCAGACACGTTTATTGAAGATTGTTCGAGTTCTAT
* *
45563 ACTCTCTGAAGGAATAGAGAGCGGA-CTGTTTTATGAAGATTGTTC
65 ACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
* * *
45608 GAGTTCTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTT-TATGAAGATTGTTCGAGTTCTAT
1 GAGTTCTATACTCCCTGAAGGAATAGGGAGCAGACACGTTTAT-TGAAGATTGTTCGAGTTCTAT
* *
45672 ACTCTCTGAAGGAATAGAGAGCAGACCCG-TTTATTGAAGATTGTTC
65 ACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTA-TGAAGATTGTTC
* *
45718 GAG-TCTTATACTCCCTGAATGAATAGGGAGCAGATACGTTTATTGAAGATTGTTCGAG-TCTTA
1 GAGTTC-TATACTCCCTGAAGGAATAGGGAGCAGACACGTTTATTGAAGATTGTTCGAGTTC-TA
*
45781 TACTC-CATGAAAGAATAGGGAGC
64 TACTCTC-TGAAGGAATAGGGAGC
45804 AGACTGTCAT
Statistics
Matches: 361, Mismatches: 29, Indels: 38
0.84 0.07 0.09
Matches are distributed among these distances:
105 4 0.01
106 125 0.35
107 6 0.02
108 3 0.01
109 109 0.30
110 111 0.31
111 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (110 bp):
GAGTTCTATACTCCCTGAAGGAATAGGGAGCAGACACGTTTATTGAAGATTGTTCGAGTTCTATA
CTCTCTGAAGGAATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
Done.