Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000808.1 Hibiscus syriacus cultivar Beakdansim tig00001568_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: 110789
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:7204 original size:16 final size:16
Alignment explanation
Indices: 7171--7216 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
7161 GATTATGGCT
7171 ATTTTGATCTTT-TTC
1 ATTTTGATCTTTGTTC
7186 ATTTTGATCTTTGTTC
1 ATTTTGATCTTTGTTC
*
7202 ATTTTGATCATTGTT
1 ATTTTGATCTTTGTT
7217 TGAGTATCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.15, C:0.11, G:0.11, T:0.63
Consensus pattern (16 bp):
ATTTTGATCTTTGTTC
Found at i:7371 original size:20 final size:21
Alignment explanation
Indices: 7340--7378 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
7330 TAATTGACGG
*
7340 TGATATTTTTATTTTATTTTA
1 TGATATTTTTATTCTATTTTA
7361 TGATA-TTTTATTCTATTT
1 TGATATTTTTATTCTATTT
7379 AAATTTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (21 bp):
TGATATTTTTATTCTATTTTA
Found at i:9033 original size:18 final size:19
Alignment explanation
Indices: 8995--9033 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
8985 AAAGCGATCA
8995 TTGCAATGGAAAAAAGTTT
1 TTGCAATGGAAAAAAGTTT
9014 TTGCAATGGAAAAAAGTTT
1 TTGCAATGGAAAAAAGTTT
9033 T
1 T
9034 CATAACAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (19 bp):
TTGCAATGGAAAAAAGTTT
Found at i:15440 original size:14 final size:14
Alignment explanation
Indices: 15417--15446 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15407 TATTTACATT
*
15417 TTCATTCTTTATTC
1 TTCATCCTTTATTC
15431 TTCATCCTTTATTC
1 TTCATCCTTTATTC
15445 TT
1 TT
15447 TACATTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.00, T:0.63
Consensus pattern (14 bp):
TTCATCCTTTATTC
Found at i:19033 original size:20 final size:20
Alignment explanation
Indices: 18986--19022 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
18976 AGGGGAAATG
18986 AAAAA-AAATGAAAAAATAA
1 AAAAAGAAATGAAAAAATAA
19005 AAAAAGAAATGAAAAAAT
1 AAAAAGAAATGAAAAAAT
19023 GAAGAGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (20 bp):
AAAAAGAAATGAAAAAATAA
Found at i:20355 original size:22 final size:22
Alignment explanation
Indices: 20329--20397 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 22
20319 AGTTCATAAT
20329 GAGAAGAACTCATCCAACAAGA
1 GAGAAGAACTCATCCAACAAGA
* * * *
20351 GAGAATAAGT--T-C-ATAA-T
1 GAGAAGAACTCATCCAACAAGA
20368 GAGAAGAACTCATCCAACAAGA
1 GAGAAGAACTCATCCAACAAGA
20390 GAGAAGAA
1 GAGAAGAA
20398 GTTCATAATG
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
17 8 0.24
18 3 0.09
19 2 0.06
20 2 0.06
21 3 0.09
22 16 0.47
ACGTcount: A:0.51, C:0.16, G:0.20, T:0.13
Consensus pattern (22 bp):
GAGAAGAACTCATCCAACAAGA
Found at i:20363 original size:39 final size:39
Alignment explanation
Indices: 20315--20416 Score: 179
Period size: 39 Copynumber: 2.6 Consensus size: 39
20305 CATTTTTAGT
20315 GAAG-AGTTCATAATGAGAAGAACTCATCCAACAAGAGA
1 GAAGAAGTTCATAATGAGAAGAACTCATCCAACAAGAGA
*
20353 GAATAAGTTCATAATGAGAAGAACTCATCCAACAAGAGA
1 GAAGAAGTTCATAATGAGAAGAACTCATCCAACAAGAGA
*
20392 GAAGAAGTTCATAATGAGAATAACT
1 GAAGAAGTTCATAATGAGAAGAACT
20417 TGTTCAATCC
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
38 3 0.05
39 57 0.95
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.19
Consensus pattern (39 bp):
GAAGAAGTTCATAATGAGAAGAACTCATCCAACAAGAGA
Found at i:20391 original size:20 final size:20
Alignment explanation
Indices: 20329--20391 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
20319 AGTTCATAAT
20329 GAGAAGAACTCATCCAACAA
1 GAGAAGAACTCATCCAACAA
* * *
20349 GAG-AGAA-TAAGTTCATA-AT
1 GAGAAGAACTCA-TCCA-ACAA
20368 GAGAAGAACTCATCCAACAA
1 GAGAAGAACTCATCCAACAA
20388 GAGA
1 GAGA
20392 GAAGAAGTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
18 2 0.06
19 12 0.38
20 16 0.50
21 2 0.06
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.14
Consensus pattern (20 bp):
GAGAAGAACTCATCCAACAA
Found at i:20584 original size:3 final size:3
Alignment explanation
Indices: 20576--20632 Score: 96
Period size: 3 Copynumber: 18.3 Consensus size: 3
20566 ATATTATAAA
20576 TAT TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT TATT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT
20623 TAT TAT TAT T
1 TAT TAT TAT T
20633 CATTTATTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
3 46 0.88
4 6 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:21781 original size:16 final size:16
Alignment explanation
Indices: 21760--21790 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21750 GATTGCGGCT
*
21760 ATTTTGATCTTTGTTC
1 ATTTTGATCATTGTTC
21776 ATTTTGATCATTGTT
1 ATTTTGATCATTGTT
21791 TGAGTATCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.13, T:0.61
Consensus pattern (16 bp):
ATTTTGATCATTGTTC
Found at i:23670 original size:17 final size:17
Alignment explanation
Indices: 23640--23735 Score: 72
Period size: 17 Copynumber: 5.5 Consensus size: 17
23630 TGAAAAATGA
*
23640 AAAAAGAAAAGAAAAAAT
1 AAAAA-AAAAGAAAAAAG
*
23658 AAAAAAAAGGAAAAAAG
1 AAAAAAAAAGAAAAAAG
* *
23675 -AAAAGAAA-ATAAAAG
1 AAAAAAAAAGAAAAAAG
*
23690 -AAAATAAAGAAATAAAG
1 AAAAAAAAAGAAA-AAAG
*
23707 AAAAATGAAATGAAAAAATG
1 AAAAA--AAAAGAAAAAA-G
23727 AAAAAAAAA
1 AAAAAAAAA
23736 AGAGAGAATA
Statistics
Matches: 62, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
15 13 0.21
16 8 0.13
17 14 0.23
18 12 0.19
19 3 0.05
20 12 0.19
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAAG
Found at i:25195 original size:134 final size:134
Alignment explanation
Indices: 24995--25724 Score: 856
Period size: 134 Copynumber: 5.4 Consensus size: 134
24985 CAAATCGAAT
** * * * * *
24995 TCGATTCGGTCTTCCCTGAGTAATAATGGAATGAATCAAAGTCCCCAGATCTAACTTTACCTCAA
1 TCGATTCAATCTTCCCTGAGGAATAGTGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCAA
* * * * *
25060 GAAGAAGCGGAACATATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTTGAATAAGTA
66 GAAGAAGCGGAACAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAATGGAACAAGTC
25125 TGCC
131 TGCC
* * * * * * * *
25129 ACGATTCAATTTTCCTTGAGTAACAGTGGAATGAATCAAAGTTCCCATATATGATTTTCCCTCAA
1 TCGATTCAATCTTCCCTGAGGAATAGTGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCAA
* * * * *
25194 GAAGAAGCGGAACAGATCGATCCCTTTCAAGATTTGATATTCCCTAAGTAACAACGAAACAAGTC
66 GAAGAAGCGGAACAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAATGGAACAAGTC
25259 TGCC
131 TGCC
25263 TCGATTCAATCTTCCCTGAGGAATAGTGGAATGAATCAAAGTCCCCAGATCTGATTTTTCCCTCA
1 TCGATTCAATCTTCCCTGAGGAATAGTGGAATGAATCAAAGTCCCCAGATCTGA-TTTTCCCTCA
* * ** * *
25328 AAAATAAGCATAACAGATCCATCTCTTTCAAGATTTGATATTCCATGAGTAACAGTGGAACAAGT
65 AGAAGAAGCGGAACAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAATGGAACAAGT
25393 CTGCC
130 CTGCC
* * * *
25398 TCGATTCAATCTTCCCTGAGGAACAGTGGAATAAATCAAATTCCTCAGATCTGATTTTCCCTCAA
1 TCGATTCAATCTTCCCTGAGGAATAGTGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCAA
* * * * *
25463 TAAGAAGCGGAACATATTCATCTCTTTTAAGATTTGATATTCCATGAGTAACAATGGAACAAGTC
66 GAAGAAGCGGAACAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAATGGAACAAGTC
25528 TGCC
131 TGCC
* *** *
25532 TTGATTCAATCTTCCCTGAGGAATAACAGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCAA
1 TCGATTCAATCTTCCCTGAGGAATAGTGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCAA
**** * * **
25597 GAA-AAAATAAAGCA-AGTCCATCTTTTTTAAGATTTGATATTCCCTTG-GTAACAATGGAATTA
66 GAAGAAGCGGAA-CAGA-TCCATCTCTTTCAAGATTTGATATTCCC-TGAGTAACAATGGAACAA
25659 GTCTGCC
128 GTCTGCC
* * * * * *
25666 TCAATTCAATTTTCCTTGAGGTATAATGGAATGAATCAACA-TCCCCAGATCTAATTTTC
1 TCGATTCAATCTTCCCTGAGGAATAGTGGAATGAATCAA-AGTCCCCAGATCTGATTTTC
25725 ACCATGAAGA
Statistics
Matches: 509, Mismatches: 82, Indels: 10
0.85 0.14 0.02
Matches are distributed among these distances:
133 5 0.01
134 383 0.75
135 121 0.24
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (134 bp):
TCGATTCAATCTTCCCTGAGGAATAGTGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCAA
GAAGAAGCGGAACAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAATGGAACAAGTC
TGCC
Found at i:25473 original size:269 final size:266
Alignment explanation
Indices: 24995--25724 Score: 912
Period size: 269 Copynumber: 2.7 Consensus size: 266
24985 CAAATCGAAT
** * * * *
24995 TCGATTCGGTCTTCCCTGAGTAATAATGGAATGAATCAAAGTCCCCAGATCTAACTTTACCTCAA
1 TCGATTCAATCTTCCCTGAGGAATAATGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCAA
* ** * * * *
25060 GAAGAAGCGGAACATATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTTGAATAAGTA
66 -AAAAAGCATAACAGATCCATCTCTTTCAAGATTTGATATTCCATGAGTAACAGTGGAATAAGTC
* * * *
25125 TGCCACGATTCAATTTTCCTTGAGTAACAGTGGAATGAATCAAAGTTCCCATATATGATTTTCCC
130 TGCCTCGATTCAATTTTCCTTGAGGAACAGTGGAATGAATCAAA-TTCCCAGATCTGATTTTCCC
*
25190 TCAAGAAGAAGCGGAACAGA-TCGATCCCTTTCAAGATTTGATATTCCCTAAGTAACAACGAAAC
194 TCAAGAAGAAGCGGAACAGATTC-ATCCCTTTCAAGATTTGATATTCCATAAGTAACAACGAAAC
25254 AAGTCTGCC
258 AAGTCTGCC
*
25263 TCGATTCAATCTTCCCTGAGGAATAGTGGAATGAATCAAAGTCCCCAGATCTGATTTTTCCCTCA
1 TCGATTCAATCTTCCCTGAGGAATAATGGAATGAATCAAAGTCCCCAGATCTGA-TTTTCCCTCA
*
25328 AAAATAAGCATAACAGATCCATCTCTTTCAAGATTTGATATTCCATGAGTAACAGTGGAACAAGT
65 AAAA-AAGCATAACAGATCCATCTCTTTCAAGATTTGATATTCCATGAGTAACAGTGGAATAAGT
* * *
25393 CTGCCTCGATTCAATCTTCCCTGAGGAACAGTGGAATAAATCAAATTCCTCAGATCTGATTTTCC
129 CTGCCTCGATTCAATTTTCCTTGAGGAACAGTGGAATGAATCAAATTCC-CAGATCTGATTTTCC
* * * * * * *
25458 CTCAATAAGAAGCGGAACATATTCATCTCTTTTAAGATTTGATATTCCATGAGTAACAATGGAAC
193 CTCAAGAAGAAGCGGAACAGATTCATCCCTTTCAAGATTTGATATTCCATAAGTAACAACGAAAC
25523 AAGTCTGCC
258 AAGTCTGCC
* ** *
25532 TTGATTCAATCTTCCCTGAGGAATAACAGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCAA
1 TCGATTCAATCTTCCCTGAGGAATAATGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCAA
* * * * *
25597 GAAAAA--ATAA-AGCAAGTCCATCTTTTTTAAGATTTGATATTCCCTTG-GTAACAATGGAATT
66 -AAAAAGCATAACAG--A-TCCATCTCTTTCAAGATTTGATATT-CCATGAGTAACAGTGGAATA
* * * * * *
25658 AGTCTGCCTCAATTCAATTTTCCTTGAGGTATAATGGAATGAATCAACATCCCCAGATCTAATTT
126 AGTCTGCCTCGATTCAATTTTCCTTGAGGAACAGTGGAATGAATCAA-ATTCCCAGATCTGATTT
25723 TC
190 TC
25725 ACCATGAAGA
Statistics
Matches: 402, Mismatches: 50, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
265 2 0.00
266 4 0.01
267 1 0.00
268 155 0.39
269 238 0.59
270 2 0.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (266 bp):
TCGATTCAATCTTCCCTGAGGAATAATGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCAA
AAAAAGCATAACAGATCCATCTCTTTCAAGATTTGATATTCCATGAGTAACAGTGGAATAAGTCT
GCCTCGATTCAATTTTCCTTGAGGAACAGTGGAATGAATCAAATTCCCAGATCTGATTTTCCCTC
AAGAAGAAGCGGAACAGATTCATCCCTTTCAAGATTTGATATTCCATAAGTAACAACGAAACAAG
TCTGCC
Found at i:25890 original size:3 final size:3
Alignment explanation
Indices: 25882--25939 Score: 57
Period size: 3 Copynumber: 18.7 Consensus size: 3
25872 CCGAGTTTTA
25882 ATT ATT ATT ATT -TT CA-T ATTT ATT ATT ATT ATTT ATT ATT ATT ACTT
1 ATT ATT ATT ATT ATT -ATT A-TT ATT ATT ATT A-TT ATT ATT ATT A-TT
*
25929 TTT ATT ATT AT
1 ATT ATT ATT AT
25940 AAATAAAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
2 3 0.06
3 37 0.79
4 7 0.15
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:25916 original size:13 final size:13
Alignment explanation
Indices: 25882--25939 Score: 70
Period size: 13 Copynumber: 4.6 Consensus size: 13
25872 CCGAGTTTTA
25882 ATTATTA-TTATT
1 ATTATTATTTATT
25894 -TTCA-TATTTATT
1 ATT-ATTATTTATT
25906 ATTATTATTTATT
1 ATTATTATTTATT
25919 ATTATTACTTT-TT
1 ATTATTA-TTTATT
25932 ATTATTAT
1 ATTATTAT
25940 AAATAAAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
11 4 0.10
12 8 0.20
13 26 0.63
14 3 0.07
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTATTATTTATT
Found at i:27572 original size:14 final size:14
Alignment explanation
Indices: 27553--27579 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27543 TTTTTATCTT
27553 TTAAAATTATTTTC
1 TTAAAATTATTTTC
27567 TTAAAATTATTTT
1 TTAAAATTATTTT
27580 AAAATGTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (14 bp):
TTAAAATTATTTTC
Found at i:27591 original size:12 final size:11
Alignment explanation
Indices: 27551--27593 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 11
27541 ATTTTTTATC
27551 TTTTAAAATTA
1 TTTTAAAATTA
27562 TTTTCTTAAAATTA
1 --TT-TTAAAATTA
27576 TTTTAAAATGTA
1 TTTTAAAAT-TA
27588 TTTTAA
1 TTTTAA
27594 GTATTCGACC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 7 0.25
12 10 0.36
13 2 0.07
14 9 0.32
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (11 bp):
TTTTAAAATTA
Found at i:28533 original size:165 final size:165
Alignment explanation
Indices: 28254--28578 Score: 535
Period size: 165 Copynumber: 1.9 Consensus size: 165
28244 TAAAACAAAT
*
28254 AAAAGAAATAATTTAAAAATGTTTTTAATTAAACCTTTTTAAAATAATATTCCTTTCTTTCTTTC
1 AAAAGAAATAATTTAAAAATGTTTTTAATTAAACCTTTTTAAAATAATA------T-TTTCTTTA
* *
28319 TTTCTTTCTTATTTTATGGTCGACAGTTCTATTTTCATCTTGAAAATGAAAACAACTTTAAAATT
59 TTTATTTCTTATTTTATGGTCGACAGTTCTATTTTCATATTGAAAATGAAAACAACTTTAAAATT
28384 TATGATCAGGTTTAACCCCTTGAGGCTACTGTATTAATTAAA
124 TATGATCAGGTTTAACCCCTTGAGGCTACTGTATTAATTAAA
*
28426 AAAAGAAATAATTTATAAATGTTTTTAATTAAACCTTTTTAAAAATAATA-TTTCTTTATTTATT
1 AAAAGAAATAATTTAAAAATGTTTTTAATTAAACCTTTTT-AAAATAATATTTTCTTTATTTATT
28490 TCTTATTTTATGGTCGACAGTTCTATTTTCATATTGAAAATGAAAACAACTTTAAAATTTATGAT
65 TCTTATTTTATGGTCGACAGTTCTATTTTCATATTGAAAATGAAAACAACTTTAAAATTTATGAT
28555 CAGGTTTAACCCCTTGAGGCTACT
130 CAGGTTTAACCCCTTGAGGCTACT
28579 ATACATGGAA
Statistics
Matches: 148, Mismatches: 4, Indels: 9
0.92 0.02 0.06
Matches are distributed among these distances:
165 100 0.68
172 39 0.26
173 9 0.06
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.43
Consensus pattern (165 bp):
AAAAGAAATAATTTAAAAATGTTTTTAATTAAACCTTTTTAAAATAATATTTTCTTTATTTATTT
CTTATTTTATGGTCGACAGTTCTATTTTCATATTGAAAATGAAAACAACTTTAAAATTTATGATC
AGGTTTAACCCCTTGAGGCTACTGTATTAATTAAA
Found at i:30533 original size:42 final size:42
Alignment explanation
Indices: 30487--30646 Score: 229
Period size: 42 Copynumber: 3.8 Consensus size: 42
30477 TATTATTATT
* *
30487 ATATATATATATATAATATTAATAAATTTAATTTAAATTAAA
1 ATATATATATATATAATATTTATATATTTAATTTAAATTAAA
30529 ATATATATATATATAATATTTATATATTTAATTTAAATTAAA
1 ATATATATATATATAATATTTATATATTTAATTTAAATTAAA
*
30571 ATATAAATATAATATTTATATATTTATATATTTAATTTAAATT--A
1 ATAT--ATAT-ATATATA-ATATTTATATATTTAATTTAAATTAAA
30615 A-A-ATATATATATAATATTTATATATTTAATTT
1 ATATATATATATATAATATTTATATATTTAATTT
30647 TAATATATAT
Statistics
Matches: 110, Mismatches: 4, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
38 19 0.17
39 6 0.05
40 4 0.04
42 44 0.40
43 1 0.01
44 6 0.05
45 6 0.05
46 24 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (42 bp):
ATATATATATATATAATATTTATATATTTAATTTAAATTAAA
Found at i:30581 original size:46 final size:45
Alignment explanation
Indices: 30487--30650 Score: 221
Period size: 46 Copynumber: 3.7 Consensus size: 45
30477 TATTATTATT
* *
30487 ATATATATATATATAATATTAATAAATTTAATTTAAATTAAAATAT-
1 ATATA-ATATATAT-ATATTTATATATTTAATTTAAATTAAAATATA
30533 ATAT-ATATATA-ATATTTATATATTTAATTTAAATTAAAATATAA
1 ATATAATATATATATATTTATATATTTAATTTAAATTAAAATAT-A
*
30577 ATATAATATTTATATATTTATATATTTAATTTAAATTAAAATATA
1 ATATAATATATATATATTTATATATTTAATTTAAATTAAAATATA
*
30622 TATATAATATTTATATATTTA-AT-TTTAAT
1 -ATATAATATATATATATTTATATATTTAAT
30651 ATATATATAC
Statistics
Matches: 110, Mismatches: 3, Indels: 12
0.88 0.02 0.10
Matches are distributed among these distances:
42 29 0.26
44 17 0.15
45 9 0.08
46 55 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (45 bp):
ATATAATATATATATATTTATATATTTAATTTAAATTAAAATATA
Found at i:30587 original size:25 final size:25
Alignment explanation
Indices: 30517--30634 Score: 82
Period size: 23 Copynumber: 5.2 Consensus size: 25
30507 AATAAATTTA
30517 ATTTAAATTAAAATATATATAT-AT
1 ATTTAAATTAAAATATATATATAAT
*
30541 A--TAATATT----TATATAT-TTA-
1 ATTTAA-ATTAAAATATATATATAAT
*
30559 ATTTAAATTAAAATATAAATATAAT
1 ATTTAAATTAAAATATATATATAAT
* ** *
30584 ATTTATA-T-ATTTATATAT-TTA-
1 ATTTAAATTAAAATATATATATAAT
30605 ATTTAAATTAAAATATATATATAAT
1 ATTTAAATTAAAATATATATATAAT
30630 ATTTA
1 ATTTA
30635 TATATTTAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 27
0.64 0.10 0.25
Matches are distributed among these distances:
18 2 0.03
19 11 0.16
20 3 0.04
21 6 0.09
22 6 0.09
23 24 0.35
24 6 0.09
25 11 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTTAAATTAAAATATATATATAAT
Found at i:31496 original size:18 final size:18
Alignment explanation
Indices: 31461--31494 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31451 ATTGATATTA
*
31461 AATAAACAAATTTTAAAT
1 AATAAACAAATTTAAAAT
31479 AATAAA-AAATTTAAAA
1 AATAAACAAATTTAAAA
31495 ATTAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
AATAAACAAATTTAAAAT
Found at i:31738 original size:2 final size:2
Alignment explanation
Indices: 31731--31757 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
31721 ATTATAAAAT
31731 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
31758 TAAATAAAAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32796 original size:3 final size:3
Alignment explanation
Indices: 32788--32833 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
32778 TACAATTACA
32788 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
32834 GAGAAAATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:33031 original size:21 final size:21
Alignment explanation
Indices: 32979--33023 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
32969 GTTTCCAGAT
32979 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
*
33000 TCGCAACGCGAACTTGGACTA
1 TCGCAACGCGAACTTCGACTA
33021 TCG
1 TCG
33024 TAATGCGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:33070 original size:21 final size:21
Alignment explanation
Indices: 33040--33231 Score: 189
Period size: 21 Copynumber: 9.4 Consensus size: 21
33030 GATTTACATA
* *
33040 TTCGCATTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
33061 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
33082 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
33101 TTCGCGTTGCGATAGTCTAAG
1 TTCGCGTTGCGATAGTCCAAG
33122 TTCGCGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
33143 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
33164 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* ** *
33183 TTTGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
33204 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
33223 TTTGCGTTG
1 TTCGCGTTG
33232 TGATTTATTC
Statistics
Matches: 139, Mismatches: 26, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
19 45 0.32
21 94 0.68
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:33093 original size:40 final size:40
Alignment explanation
Indices: 33046--33260 Score: 313
Period size: 40 Copynumber: 5.3 Consensus size: 40
33036 CATATTCGCA
33046 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
** * *
33086 TTGCGATAGTCGAAGTTCGCGTTGCGATAGTCTAAGTTCGCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT--CG
*
33128 TTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
*
33168 TTGCGATAGTCGAAGTTTGCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
* *
33208 TTGCGATAGTCGAAGTTTGCGTTGTGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCG
*
33250 TTGTGATAGTC
1 TTGCGATAGTC
33261 CAAAATCGCA
Statistics
Matches: 158, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
40 100 0.63
41 2 0.01
42 56 0.35
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (40 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
Found at i:33177 original size:82 final size:82
Alignment explanation
Indices: 33039--33260 Score: 322
Period size: 82 Copynumber: 2.7 Consensus size: 82
33029 CGATTTACAT
*
33039 ATTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTC
1 ATTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTC
*
33104 GCGTTGCGATAGTCTAA
66 GCGTTGCGATAGTCCAA
* * *
33121 GTTCGCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTT
1 ATTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTC
**
33186 GCGTTGCGATTTTCCAA
66 GCGTTGCGATAGTCCAA
* * *
33203 ATT--CGTTGCGATAGTCGAAGTTTGCGTTGTGATTTATTCCAAATTCGTTGTGATAGTC
1 ATTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCGTTGCGATAGTC
33261 CAAAATCGCA
Statistics
Matches: 126, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
80 26 0.21
81 2 0.02
82 98 0.78
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (82 bp):
ATTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTC
GCGTTGCGATAGTCCAA
Found at i:36081 original size:30 final size:30
Alignment explanation
Indices: 36056--36120 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
36046 CACAAATCTG
36056 TCACTAACGTTATCATTTGTTACAAAATGA
1 TCACTAACGTTATCATTTGTTACAAAATGA
* ** *
36086 TTACTAACGTTATTGTTTGTTACAAAATAA
1 TCACTAACGTTATCATTTGTTACAAAATGA
36116 TCACT
1 TCACT
36121 CGACGTTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.40
Consensus pattern (30 bp):
TCACTAACGTTATCATTTGTTACAAAATGA
Found at i:36137 original size:31 final size:30
Alignment explanation
Indices: 36056--36138 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
36046 CACAAATCTG
*
36056 TCACTAACGTTATCA-TTTGTTACAAAATGA
1 TCACTAACGTTAT-AGTTTGTTACAAAATAA
* *
36086 TTACTAACGTTATTGTTTGTTACAAAATAA
1 TCACTAACGTTATAGTTTGTTACAAAATAA
*
36116 TCACTCGACGTTAATAG-TTGTTA
1 TCACT-AACGTT-ATAGTTTGTTA
36139 ATAAACCGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
30 30 0.68
31 11 0.25
32 3 0.07
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (30 bp):
TCACTAACGTTATAGTTTGTTACAAAATAA
Found at i:37287 original size:24 final size:24
Alignment explanation
Indices: 37215--37280 Score: 125
Period size: 24 Copynumber: 2.8 Consensus size: 24
37205 GATGGAACAT
37215 AAAT-GGATGTTCATTGTTCATGC
1 AAATAGGATGTTCATTGTTCATGC
37238 AAATAGGATGTTCATTGTTCATGC
1 AAATAGGATGTTCATTGTTCATGC
37262 AAATAGGATGTTCATTGTT
1 AAATAGGATGTTCATTGTT
37281 GTAGCAAGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 4 0.10
24 38 0.90
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (24 bp):
AAATAGGATGTTCATTGTTCATGC
Found at i:43901 original size:42 final size:41
Alignment explanation
Indices: 43841--43955 Score: 158
Period size: 42 Copynumber: 2.8 Consensus size: 41
43831 CCGAATTCTT
* *
43841 GTGTCTGTTTCACGTAATTCGTTTTCTGTAAAATATTTTCCC
1 GTGTTTGTTTCACGTAATTCGTTTTCAG-AAAATATTTTCCC
*
43883 GTGTTTGTTTCACGTAATTCGTTTTCCAGAAAATGTTTTCCC
1 GTGTTTGTTTCACGTAATTCGTTTT-CAGAAAATATTTTCCC
* * *
43925 GTGTTTGTTTAACGTAATTGGTTTTCCGAAA
1 GTGTTTGTTTCACGTAATTCGTTTTCAGAAA
43956 TGTAATTCAT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 5 0.08
42 59 0.89
43 2 0.03
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (41 bp):
GTGTTTGTTTCACGTAATTCGTTTTCAGAAAATATTTTCCC
Found at i:44315 original size:23 final size:23
Alignment explanation
Indices: 44289--44333 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
44279 AATAATATTT
44289 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
44312 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
44334 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:44691 original size:15 final size:15
Alignment explanation
Indices: 44649--44694 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
44639 TTTCAGAAAT
44649 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
**
44664 G-AATTCAAATTCCA
1 GTAATTCATTTTCCA
44678 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
44693 GT
1 GT
44695 TTCAGTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:44977 original size:43 final size:43
Alignment explanation
Indices: 44924--45217 Score: 400
Period size: 43 Copynumber: 6.9 Consensus size: 43
44914 ATGCCGCCAT
* * * *
44924 AGGTCAAGATCGATAGCGGCGTTTTTGGAACAAACGCCACAGA
1 AGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
*
44967 AGGTCGAGATCTATAGTGGCGTTTTTGGAACAAACGCCGCAAA
1 AGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
*
45010 AGGTC-ATATCTATAGCGGCGTTTTT-GAACAAACGCCGCAAA
1 AGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
*
45051 AGGTCGAGATCTATAGCGGCGTTTTTGGCAA-AAACGCCGTAAA
1 AGGTCGAGATCTATAGCGGCGTTTTTGG-AACAAACGCCGCAAA
45094 AGGTC-AGATCTATAGCGGCGTTTATTGGAACAAACGCCGCAAA
1 AGGTCGAGATCTATAGCGGCGTTT-TTGGAACAAACGCCGCAAA
* * * *
45137 AGGT-TAGATATATAGCGGCGTTTTTTGAACAAACGCTGCAAA
1 AGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
* * *
45179 AGGTTGAGATCTATAGCGGAGTTTTTTGATACAAACGCC
1 AGGTCGAGATCTATAGCGGCGTTTTTGGA-ACAAACGCC
45218 ACTAATTACA
Statistics
Matches: 226, Mismatches: 17, Indels: 15
0.88 0.07 0.06
Matches are distributed among these distances:
41 21 0.09
42 78 0.35
43 117 0.52
44 10 0.04
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (43 bp):
AGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA
Found at i:45054 original size:84 final size:85
Alignment explanation
Indices: 44924--45217 Score: 405
Period size: 84 Copynumber: 3.4 Consensus size: 85
44914 ATGCCGCCAT
* * * *
44924 AGGTCAAGATCGATAGCGGCGTTTTTGGAACAAACGCCACAGAAGGTCGAGATCTATAGTGGCGT
1 AGGTC-AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCGAGATCTATAGCGGCGT
44989 TTTTGGAACAAACGCCGCAAA
65 TTTTGGAACAAACGCCGCAAA
*
45010 AGGTCATATCTATAGCGGCGTTTTT-GAACAAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTT
1 AGGTCAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTT
*
45074 TTTGGCAA-AAACGCCGTAAA
66 TTTGG-AACAAACGCCGCAAA
* *
45094 AGGTCAGATCTATAGCGGCGTTTATTGGAACAAACGCCGCAAAAGGT-TAGATATATAGCGGCGT
1 AGGTCAGATCTATAGCGGCGTTT-TTGGAACAAACGCCGCAAAAGGTCGAGATCTATAGCGGCGT
* *
45158 TTTTTGAACAAACGCTGCAAA
65 TTTTGGAACAAACGCCGCAAA
* * *
45179 AGGTTGAGATCTATAGCGGAGTTTTTTGATACAAACGCC
1 AGG-TCAGATCTATAGCGGCGTTTTTGGA-ACAAACGCC
45218 ACTAATTACA
Statistics
Matches: 187, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
84 76 0.41
85 59 0.32
86 52 0.28
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (85 bp):
AGGTCAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTT
TTTGGAACAAACGCCGCAAA
Found at i:45151 original size:127 final size:128
Alignment explanation
Indices: 44924--45219 Score: 427
Period size: 127 Copynumber: 2.3 Consensus size: 128
44914 ATGCCGCCAT
* * * *
44924 AGGTCAAGATCGATAGCGGCGTTTTTGGAACAAACGCCACAGAAGGTCGAGATCTATAGTGGCGT
1 AGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCACAAAAGGTCGAGATCTATAGCGGCGT
* *
44989 TTTTGGAACAAACGCCGCAAAAGGTCATATCTATAGCGGCG-TTTTTGAACAAACGCCGCAAA
66 TTTTGGAACAAACGCCGCAAAAGGTCAGATATATAGCGGCGTTTTTTGAACAAACGCCGCAAA
**
45051 AGGTCGAGATCTATAGCGGCGTTTTTGGCAA-AAACGCCGTAAAAGGTC-AGATCTATAGCGGCG
1 AGGTCGAGATCTATAGCGGCGTTTTTGG-AACAAACGCCACAAAAGGTCGAGATCTATAGCGGCG
* *
45114 TTTATTGGAACAAACGCCGCAAAAGGTTAGATATATAGCGGCGTTTTTTGAACAAACGCTGCAAA
65 TTT-TTGGAACAAACGCCGCAAAAGGTCAGATATATAGCGGCGTTTTTTGAACAAACGCCGCAAA
* * *
45179 AGGTTGAGATCTATAGCGGAGTTTTTTGATACAAACGCCAC
1 AGGTCGAGATCTATAGCGGCGTTTTTGGA-ACAAACGCCAC
45220 TAATTACATT
Statistics
Matches: 149, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
126 17 0.11
127 77 0.52
128 48 0.32
129 7 0.05
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (128 bp):
AGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCACAAAAGGTCGAGATCTATAGCGGCGT
TTTTGGAACAAACGCCGCAAAAGGTCAGATATATAGCGGCGTTTTTTGAACAAACGCCGCAAA
Found at i:48369 original size:40 final size:42
Alignment explanation
Indices: 48211--48383 Score: 203
Period size: 42 Copynumber: 4.2 Consensus size: 42
48201 TTTGCATTCA
* * *
48211 AAACGCCACTATATGTGTAATCTATTGCGGCGTTT-TAAGAAT
1 AAACGCCACTATATGTGTAATCTATTACGGCGTTTGT-GGTAT
* *
48253 AAATGTCACTATATGTGTAATCTATTACGGCGTTTGTGGTAT
1 AAACGCCACTATATGTGTAATCTATTACGGCGTTTGTGGTAT
* * * *
48295 AAACGCCGCTA-ATTTACTGATCTATTACGGCGTTT-TGGCTA-
1 AAACGCCACTATATGT-GTAATCTATTACGGCGTTTGTGG-TAT
48336 AAACGCCACTATATGT-TAATCTATTACGGCGTTTGTGGTAT
1 AAACGCCACTATATGTGTAATCTATTACGGCGTTTGTGGTAT
48377 AAACGCC
1 AAACGCC
48384 GCTAATTTAC
Statistics
Matches: 111, Mismatches: 14, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
40 19 0.17
41 26 0.23
42 65 0.59
43 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (42 bp):
AAACGCCACTATATGTGTAATCTATTACGGCGTTTGTGGTAT
Found at i:48413 original size:42 final size:42
Alignment explanation
Indices: 48273--48469 Score: 178
Period size: 41 Copynumber: 4.8 Consensus size: 42
48263 ATATGTGTAA
* *
48273 TCTATTACGGCGTTTGTGGTATAAACGCCGCTAATTTACTGA-
1 TCTATTACGGCGTTTGTGGTAAAAACGCCGCTAATTTAC-CAC
*
48315 TCTATTACGGCGTTT-TGGCT-AAAACGCCACTATATGTTA--A-
1 TCTATTACGGCGTTTGTGG-TAAAAACGCCGCTA-AT-TTACCAC
*
48355 TCTATTACGGCGTTTGTGGTATAAACGCCGCTAATTTACCAC
1 TCTATTACGGCGTTTGTGGTAAAAACGCCGCTAATTTACCAC
* * * **
48397 TCTATTGCGGCATTTGT--TAAAAAACACCGC-AATAAACCAC
1 TCTATTACGGCGTTTGTGGT-AAAAACGCCGCTAATTTACCAC
* * *
48437 CCTATTGCGGCGTTTGTTGTAAAAACGCCGCTA
1 TCTATTACGGCGTTTGTGGTAAAAACGCCGCTA
48470 TATGTCAACT
Statistics
Matches: 130, Mismatches: 13, Indels: 24
0.78 0.08 0.14
Matches are distributed among these distances:
39 3 0.02
40 43 0.33
41 46 0.35
42 35 0.27
43 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (42 bp):
TCTATTACGGCGTTTGTGGTAAAAACGCCGCTAATTTACCAC
Found at i:48421 original size:82 final size:83
Alignment explanation
Indices: 48259--48412 Score: 251
Period size: 82 Copynumber: 1.9 Consensus size: 83
48249 GAATAAATGT
*
48259 CACTATATGTGTAATCTATTACGGCGTTTGTGGTATAAACGCCGCTAATTTACTGATCTATTACG
1 CACTATATGTGTAATCTATTACGGCGTTTGTGGTATAAACGCCGCTAATTTACTCATCTATTACG
*
48324 GCGTTTTGGCTAAAACGC
66 GCGATTTGGCTAAAACGC
*
48342 CACTATATGT-TAATCTATTACGGCGTTTGTGGTATAAACGCCGCTAATTTAC-CACTCTATTGC
1 CACTATATGTGTAATCTATTACGGCGTTTGTGGTATAAACGCCGCTAATTTACTCA-TCTATTAC
48405 GGC-ATTTG
65 GGCGATTTG
48413 TTAAAAAACA
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
81 5 0.07
82 52 0.78
83 10 0.15
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (83 bp):
CACTATATGTGTAATCTATTACGGCGTTTGTGGTATAAACGCCGCTAATTTACTCATCTATTACG
GCGATTTGGCTAAAACGC
Found at i:55408 original size:2 final size:2
Alignment explanation
Indices: 55401--55455 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
55391 AACAATACTT
55401 TA TA TA TA TA TA TA TA TA TA TA T- 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
55442 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
55456 GTAACCACAT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:58192 original size:17 final size:17
Alignment explanation
Indices: 58167--58200 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
58157 TTATTTTAGC
58167 CCCCAACCCGACTCCGA
1 CCCCAACCCGACTCCGA
*
58184 CCCCGACCCGACTCCGA
1 CCCCAACCCGACTCCGA
58201 AAATTTCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.59, G:0.15, T:0.06
Consensus pattern (17 bp):
CCCCAACCCGACTCCGA
Found at i:61244 original size:3 final size:3
Alignment explanation
Indices: 61236--61267 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
61226 GTTATAATTG
61236 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
61268 GAGATAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:61279 original size:11 final size:11
Alignment explanation
Indices: 61242--61291 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 11
61232 ATTGATAATA
61242 ATAATAAT-A-
1 ATAATAATGAG
61251 ATAATAAT-A-
1 ATAATAATGAG
61260 ATAATAATGAG
1 ATAATAATGAG
* *
61271 ATAAAAATGTG
1 ATAATAATGAG
61282 ATAATAATGA
1 ATAATAATGA
61292 TATGAAATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
9 17 0.49
10 1 0.03
11 17 0.49
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (11 bp):
ATAATAATGAG
Found at i:61363 original size:32 final size:32
Alignment explanation
Indices: 61327--61390 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
61317 GAGCTTGTTA
*
61327 ATGAATACTTTGTAAGAACTTTATAAATGATT
1 ATGAAGACTTTGTAAGAACTTTATAAATGATT
61359 ATGAAGACTTTGTAAGAACTTTATAAATGATT
1 ATGAAGACTTTGTAAGAACTTTATAAATGATT
61391 GATATTGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.39
Consensus pattern (32 bp):
ATGAAGACTTTGTAAGAACTTTATAAATGATT
Found at i:62521 original size:14 final size:14
Alignment explanation
Indices: 62485--62532 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
62475 TATATGTTTG
62485 TTTATGTTCATTCA
1 TTTATGTTCATTCA
*
62499 TTTA----AATTCA
1 TTTATGTTCATTCA
62509 TTTATGTTCATTCA
1 TTTATGTTCATTCA
62523 TTTATGTTCA
1 TTTATGTTCA
62533 ATCAGAGGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
10 9 0.32
14 19 0.68
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTATGTTCATTCA
Found at i:62825 original size:27 final size:26
Alignment explanation
Indices: 62791--62841 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
62781 TGTGTGTTTG
62791 TGTTGTTCGTTTATGTTCATTTATTA
1 TGTTGTTCGTTTATGTTCATTTATTA
* *
62817 TGTTCGTTCGTTTGTGTTCGTTTAT
1 TGTT-GTTCGTTTATGTTCATTTAT
62842 GTTCGTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.10, C:0.10, G:0.20, T:0.61
Consensus pattern (26 bp):
TGTTGTTCGTTTATGTTCATTTATTA
Found at i:62837 original size:10 final size:10
Alignment explanation
Indices: 62822--62851 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
62812 TATTATGTTC
*
62822 GTTCGTTTGT
1 GTTCGTTTAT
62832 GTTCGTTTAT
1 GTTCGTTTAT
62842 GTTCGTTTAT
1 GTTCGTTTAT
62852 CATTTAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.07, C:0.10, G:0.23, T:0.60
Consensus pattern (10 bp):
GTTCGTTTAT
Found at i:62950 original size:89 final size:88
Alignment explanation
Indices: 62841--63007 Score: 325
Period size: 89 Copynumber: 1.9 Consensus size: 88
62831 TGTTCGTTTA
62841 TGTTCGTTTATCATTTAAATGAATGAACATGAACAAACTATATTCCTTAATGAACGAACATAAAC
1 TGTTCGTTTATCATTTAAATGAATGAACATGAACAAACTATATTCCTTAATGAACGAACATAAAC
62906 AAAAAAAAAATTTGGTCATGTTCG
66 -AAAAAAAAATTTGGTCATGTTCG
62930 TGTTCGTTTATCATTTAAATGAATGAACATGAACAAACTATATTCCTTAATGAACGAACATAAAC
1 TGTTCGTTTATCATTTAAATGAATGAACATGAACAAACTATATTCCTTAATGAACGAACATAAAC
62995 AAAAAAAAATTTG
66 AAAAAAAAATTTG
63008 TTCGTTTATG
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 13 0.17
89 65 0.83
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.31
Consensus pattern (88 bp):
TGTTCGTTTATCATTTAAATGAATGAACATGAACAAACTATATTCCTTAATGAACGAACATAAAC
AAAAAAAAATTTGGTCATGTTCG
Found at i:63027 original size:16 final size:16
Alignment explanation
Indices: 63006--63038 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
62996 AAAAAAAATT
63006 TGTTCGTTTATGCTCG
1 TGTTCGTTTATGCTCG
*
63022 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGCTCG
63038 T
1 T
63039 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.15, G:0.24, T:0.55
Consensus pattern (16 bp):
TGTTCGTTTATGCTCG
Found at i:63388 original size:16 final size:16
Alignment explanation
Indices: 63367--63409 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
63357 ATATATAGAT
*
63367 TTTCGGTTTAGATTGC
1 TTTCGGTTTAGATTGA
**
63383 TTTCGGTTCGGATTGA
1 TTTCGGTTTAGATTGA
*
63399 TTTTGGTTTAG
1 TTTCGGTTTAG
63410 GCTACTTTTA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.12, C:0.09, G:0.28, T:0.51
Consensus pattern (16 bp):
TTTCGGTTTAGATTGA
Found at i:64190 original size:2 final size:2
Alignment explanation
Indices: 64183--64226 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
64173 TTTACCATAA
64183 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
64225 AT
1 AT
64227 TTATTTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70907 original size:13 final size:13
Alignment explanation
Indices: 70877--70909 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
70867 TATATATTAT
*
70877 TAAAATAATAAAA
1 TAAATTAATAAAA
70890 TAAATTAATAAAA
1 TAAATTAATAAAA
70903 TAAATTA
1 TAAATTA
70910 GAATTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAATTAATAAAA
Found at i:76983 original size:24 final size:24
Alignment explanation
Indices: 76943--77003 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
76933 CCTTTGATAA
*
76943 CAGCCCCGC-AGGATTCTGTTTTTC
1 CAGCCCCACAAGG-TTCTGTTTTTC
*
76967 CAGCCCTACAAGGTTCTGTTTTTC
1 CAGCCCCACAAGGTTCTGTTTTTC
76991 CAGCCCCACAAGG
1 CAGCCCCACAAGG
77004 CCATGTTGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.18, C:0.34, G:0.20, T:0.28
Consensus pattern (24 bp):
CAGCCCCACAAGGTTCTGTTTTTC
Found at i:78938 original size:33 final size:33
Alignment explanation
Indices: 78912--79030 Score: 177
Period size: 33 Copynumber: 3.6 Consensus size: 33
78902 ATCACTACCA
*
78912 CCATCTCCATCTCCATCATCTACATCAC-TACCG
1 CCATCTCCATCTCCATCACCTACATCACTTA-CG
* *
78945 TCATCTCCATCTCCATCACCTACATCACTTATG
1 CCATCTCCATCTCCATCACCTACATCACTTACG
*
78978 CCATCTCCATCTCCATCACCTACATCACTTATG
1 CCATCTCCATCTCCATCACCTACATCACTTACG
*
79011 CCATCTCCATCACCATCACC
1 CCATCTCCATCTCCATCACC
79031 ATCACCATCA
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
33 78 0.98
34 2 0.03
ACGTcount: A:0.24, C:0.45, G:0.03, T:0.29
Consensus pattern (33 bp):
CCATCTCCATCTCCATCACCTACATCACTTACG
Found at i:79026 original size:6 final size:6
Alignment explanation
Indices: 79011--79043 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
79001 ATCACTTATG
*
79011 CCATCT CCATCA CCATCA CCATCA CCATCA CCA
1 CCATCA CCATCA CCATCA CCATCA CCATCA CCA
79044 CCACTGCCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.30, C:0.52, G:0.00, T:0.18
Consensus pattern (6 bp):
CCATCA
Found at i:82587 original size:13 final size:13
Alignment explanation
Indices: 82569--82593 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82559 ATGATTGAAC
82569 AGTCTTCATATGT
1 AGTCTTCATATGT
82582 AGTCTTCATATG
1 AGTCTTCATATG
82594 CACATCTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (13 bp):
AGTCTTCATATGT
Found at i:87297 original size:16 final size:18
Alignment explanation
Indices: 87263--87298 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
87253 AAAAATAGAT
87263 AAAATTCAAGAATATTTA
1 AAAATTCAAGAATATTTA
87281 AAAATT-AAGAA-ATTTA
1 AAAATTCAAGAATATTTA
87297 AA
1 AA
87299 GCTAGTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 5 0.28
18 6 0.33
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (18 bp):
AAAATTCAAGAATATTTA
Found at i:88386 original size:43 final size:43
Alignment explanation
Indices: 88332--88418 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
88322 TACTTTATCG
*
88332 AATGAATGTAAAGATCATGAAGGGTATGATATCAAATTATCCT
1 AATGAATGTAAAGATCATGAAGGGTATGACATCAAATTATCCT
*
88375 AATGAATGTAAAGATCATGAAGGGTATGACATCACATTATCCT
1 AATGAATGTAAAGATCATGAAGGGTATGACATCAAATTATCCT
88418 A
1 A
88419 CAAGCTCATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.29
Consensus pattern (43 bp):
AATGAATGTAAAGATCATGAAGGGTATGACATCAAATTATCCT
Found at i:90781 original size:16 final size:17
Alignment explanation
Indices: 90754--90787 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
90744 AAATATTATT
90754 TTATTATTTATATTAAA
1 TTATTATTTATATTAAA
90771 TTATT-TTTATATTAAA
1 TTATTATTTATATTAAA
90787 T
1 T
90788 AATAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATTATTTATATTAAA
Found at i:92149 original size:21 final size:23
Alignment explanation
Indices: 92095--92151 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 23
92085 TTCATATGGG
*
92095 AGTATCGATACTGCCAGGGTGAGT
1 AGTATCGATACT-CCAGGGTGAGC
*
92119 AGTATTGATACT-CAGGGT-AGC
1 AGTATCGATACTCCAGGGTGAGC
92140 AGTATCGATACT
1 AGTATCGATACT
92152 GATGCCCCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.43
22 6 0.20
24 11 0.37
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (23 bp):
AGTATCGATACTCCAGGGTGAGC
Found at i:92784 original size:2 final size:2
Alignment explanation
Indices: 92777--92807 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
92767 CCAAACATAA
92777 AT AT 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 AT AT A
92808 CCATTTCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93114 original size:23 final size:23
Alignment explanation
Indices: 93086--93148 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
93076 CAGCTCGTAT
*
93086 AATGCACTGAAGTGCTACGTAGA
1 AATGCACTGAAGTGCCACGTAGA
* *
93109 ATTGCACCT-AAGTGCCGCGTAGA
1 AATGCA-CTGAAGTGCCACGTAGA
*
93132 AATGCACCGAAGTGCCA
1 AATGCACTGAAGTGCCA
93149 TATAAGATGT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
22 1 0.03
23 29 0.91
24 2 0.06
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.19
Consensus pattern (23 bp):
AATGCACTGAAGTGCCACGTAGA
Found at i:93431 original size:30 final size:29
Alignment explanation
Indices: 93378--93436 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
93368 TGTAAACATA
* *
93378 TCACATATTCATATAAACTCGTAGCTTCAT
1 TCACATATACATATAAACACGTAG-TTCAT
* *
93408 TCACATATACATTTAATCACGTAGTTCAT
1 TCACATATACATATAAACACGTAGTTCAT
93437 GTAAATTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (29 bp):
TCACATATACATATAAACACGTAGTTCAT
Found at i:97886 original size:2 final size:2
Alignment explanation
Indices: 97879--97917 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
97869 GCATCCAAAC
97879 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
97918 ATTTCCTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:103449 original size:32 final size:32
Alignment explanation
Indices: 103336--103457 Score: 99
Period size: 32 Copynumber: 3.8 Consensus size: 32
103326 GAGTCACAAC
* *
103336 AGAGTCAGTATTGTATTCAGATAATGCATA-G
1 AGAGTCAGTATTGCATTTAGATAATGCATATG
* * *
103367 TAGA-TCCATTATTACATTTAGATAATGCACAAT-
1 -AGAGT-CAGTATTGCATTTAGATAATGCA-TATG
* *
103400 AGAGAT-ATTATTTCATTTAGATAATGCATATG
1 AGAG-TCAGTATTGCATTTAGATAATGCATATG
* *
103432 AGAGTCAGTATCGCATTTAGACAATG
1 AGAGTCAGTATTGCATTTAGATAATG
103458 TGCCTCAGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
31 4 0.06
32 66 0.92
33 1 0.01
34 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.34
Consensus pattern (32 bp):
AGAGTCAGTATTGCATTTAGATAATGCATATG
Found at i:105332 original size:12 final size:12
Alignment explanation
Indices: 105315--105347 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
105305 ATATATCATA
105315 ATTAAAGACCAG
1 ATTAAAGACCAG
105327 ATTAAAGACCAG
1 ATTAAAGACCAG
105339 ATTAAAGAC
1 ATTAAAGAC
105348 TAAATATCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.18
Consensus pattern (12 bp):
ATTAAAGACCAG
Found at i:105695 original size:2 final size:2
Alignment explanation
Indices: 105690--105791 Score: 102
Period size: 2 Copynumber: 51.5 Consensus size: 2
105680 ATAACATAAG
* *
105690 TA TA TA TA TA AA TA TA TA TA T- TA GTG T- TA GTA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA
* * * * *
105731 TA AA TG TG TG TG 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
105773 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
105792 CATTAAACAT
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
1 3 0.03
2 82 0.93
3 3 0.03
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (2 bp):
TA
Found at i:106790 original size:16 final size:16
Alignment explanation
Indices: 106771--106801 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
106761 AGTCAATTAC
106771 AGGTCAGGTTCATAAT
1 AGGTCAGGTTCATAAT
*
106787 AGGTCAGGTTGATAA
1 AGGTCAGGTTCATAA
106802 CATGTCGAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (16 bp):
AGGTCAGGTTCATAAT
Found at i:110047 original size:18 final size:19
Alignment explanation
Indices: 109988--110053 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 19
109978 AAAAAAACCT
*
109988 AAATA-AAAAATAAACAAAA
1 AAATAGAAAAA-AAACAAAC
** *
110007 AAACCGAAAAAAACCAAAC
1 AAATAGAAAAAAAACAAAC
*
110026 AAATAGAAAAAAAATAAA-
1 AAATAGAAAAAAAACAAAC
110044 AAATA-AAAAA
1 AAATAGAAAAA
110054 TAGTATTTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
17 5 0.13
18 5 0.13
19 23 0.61
20 5 0.13
ACGTcount: A:0.80, C:0.09, G:0.03, T:0.08
Consensus pattern (19 bp):
AAATAGAAAAAAAACAAAC
Found at i:110131 original size:2 final size:2
Alignment explanation
Indices: 110124--110148 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
110114 AAATAAATTA
110124 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 A
110149 ATTTTAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.