Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003684.1 Hibiscus syriacus cultivar Beakdansim tig00007870_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: 88721
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:5479 original size:64 final size:65
Alignment explanation
Indices: 5358--5487 Score: 185
Period size: 64 Copynumber: 2.0 Consensus size: 65
5348 ACCCATTTTG
* **
5358 AATGCATTTTGTGTACCGATGCACAAGCCATGCATCGATGTACTCTTGAATATTTTG-AACATCA
1 AATGCATTTTGGGTACCGATGCACAAGCCATGCATCGATGTACTCCAGAATATTTTGAAACATCA
*
5422 AATGCATTTTGGGTACCGATGCAC-AGACCATGCATCGATGTACTCCAGACTGA-TTTGAAACAT
1 AATGCATTTTGGGTACCGATGCACAAG-CCATGCATCGATGTACTCCAGAAT-ATTTTGAAACAT
5485 CA
64 CA
5487 A
1 A
5488 TGTAATTAGT
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
63 2 0.03
64 48 0.81
65 9 0.15
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (65 bp):
AATGCATTTTGGGTACCGATGCACAAGCCATGCATCGATGTACTCCAGAATATTTTGAAACATCA
Found at i:11233 original size:23 final size:23
Alignment explanation
Indices: 11203--11282 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 23
11193 ACACTAGATA
11203 GTGCATCGATGCATCCCTTGAAT
1 GTGCATCGATGCATCCCTTGAAT
* * *
11226 GTGCATCGATACA-CCATT-AAG
1 GTGCATCGATGCATCCCTTGAAT
* *
11247 GTGCATAGATGCATTCCTTGAAT
1 GTGCATCGATGCATCCCTTGAAT
11270 GTGCATCGATGCA
1 GTGCATCGATGCA
11283 CTCTGCTGTC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 13 0.28
22 7 0.15
23 26 0.57
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (23 bp):
GTGCATCGATGCATCCCTTGAAT
Found at i:13252 original size:2 final size:2
Alignment explanation
Indices: 13245--13271 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13235 TTGAACTTAC
13245 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
13272 TTTGTTTAAT
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:20571 original size:16 final size:16
Alignment explanation
Indices: 20547--20586 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
20537 CTAACCACTT
20547 ACCGCTAA-CTTTTCTA
1 ACCGCTAACCTTTT-TA
*
20563 ACTGCTAACCTTTTTA
1 ACCGCTAACCTTTTTA
20579 ACCGCTAA
1 ACCGCTAA
20587 TTACTAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (16 bp):
ACCGCTAACCTTTTTA
Found at i:20745 original size:16 final size:16
Alignment explanation
Indices: 20716--20793 Score: 51
Period size: 16 Copynumber: 5.0 Consensus size: 16
20706 TAAAATTTGG
* *
20716 TATTGGCATCTTATTTT
1 TATT-GCATTTTAATTT
20733 TATTGCATTTT-ATTCT
1 TATTGCATTTTAATT-T
*
20749 TGTT--A-TTTAATTT
1 TATTGCATTTTAATTT
20762 TA-TGCACTTTTAATTT
1 TATTGCA-TTTTAATTT
20778 TA-TGCATTTTTAATTT
1 TATTGCA-TTTTAATTT
20794 CTTTATTTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
12 1 0.02
13 5 0.10
14 5 0.10
15 2 0.04
16 33 0.66
17 4 0.08
ACGTcount: A:0.22, C:0.09, G:0.08, T:0.62
Consensus pattern (16 bp):
TATTGCATTTTAATTT
Found at i:23402 original size:8 final size:8
Alignment explanation
Indices: 23389--23413 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
23379 TTTGCATCTG
23389 TATTTACA
1 TATTTACA
23397 TATTTACA
1 TATTTACA
23405 TATTTACA
1 TATTTACA
23413 T
1 T
23414 TCTGCACTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (8 bp):
TATTTACA
Found at i:25777 original size:24 final size:25
Alignment explanation
Indices: 25749--25810 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
25739 AAAAAGGGGG
*
25749 TAATATTTTTCAAACTT-TTTT-AT
1 TAATATTTTTCAAAATTCTTTTAAT
*
25772 TAAATATTTTTTAAAATTCTTTTAAT
1 T-AATATTTTTCAAAATTCTTTTAAT
*
25798 TGATATTTTTCAA
1 TAATATTTTTCAA
25811 TATTTTGGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 1 0.03
24 14 0.44
25 14 0.44
26 3 0.09
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (25 bp):
TAATATTTTTCAAAATTCTTTTAAT
Found at i:32490 original size:101 final size:101
Alignment explanation
Indices: 32354--32631 Score: 283
Period size: 101 Copynumber: 2.7 Consensus size: 101
32344 AACATAAATC
* * *
32354 CTTGAGATTG-TTTCTCTCAAAACAAAATTTATCTCGCTTGAGATAGTTTTCCCTTAAAATGCAA
1 CTTGAGATTGTTTTC-CTCAAAACAAATTTTATCTCGCTTGAGATAATTTTCCCTTAAAAAGCAA
* * **
32418 ATTGTGAAATTG-TTCACTTGAAACAA-AGTTTATCTCA
65 ATT-TGAAATTGTTTCACTTAAAACAATA-TTGATAACA
* * * * **
32455 CTTGAGATTGTTTTCCTCAAAGCAAATTTTGTCTCGCTTGAGACAATTTTCCCTCAAAACAAAAA
1 CTTGAGATTGTTTTCCTCAAAACAAATTTTATCTCGCTTGAGATAATTTTCCCTTAAAA-AGCAA
32520 ATTTGGAAATTGTTTCACTTAAAACAATATTGATAACA
65 ATTT-GAAATTGTTTCACTTAAAACAATATTGATAACA
* * * * * * * *
32558 TTTGAGATTGTTTTTCTTAAAAACATATTTCATCTTGCTTGAGATATTTTTCCCTTAAAACGCAA
1 CTTGAGATTG-TTTTCCTCAAAACAAATTTTATCTCGCTTGAGATAATTTTCCCTTAAAAAGC-A
32623 AATTTGAAA
64 AATTTGAAA
32632 CATTTGGAAG
Statistics
Matches: 143, Mismatches: 27, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
101 49 0.34
102 16 0.11
103 32 0.22
104 46 0.32
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (101 bp):
CTTGAGATTGTTTTCCTCAAAACAAATTTTATCTCGCTTGAGATAATTTTCCCTTAAAAAGCAAA
TTTGAAATTGTTTCACTTAAAACAATATTGATAACA
Found at i:32579 original size:167 final size:166
Alignment explanation
Indices: 32267--32579 Score: 371
Period size: 167 Copynumber: 1.9 Consensus size: 166
32257 GAAAATTTTT
*
32267 CTTGAAACAAAATTGATCTCACTTGAAAGTGTTTTCTCTAAAATAAATTTTGTCTCGCTTGAGAC
1 CTTGAAACAAAATTGATCTCACTTGAAAGTGTTTTCTCTAAAACAAATTTTGTCTCGCTTGAGAC
* ** * * * * ** *
32332 AATTTCTCTTGAAACATAAATCCTTGAGATTGTTTCTCTCAAAACAAAATTTATCTCGCTTGAGA
66 AATTTCCCTCAAAACAAAAAT-CTTGAAATTGTTTCACTCAAAACAAAATTGATAACACTTGAGA
32397 TAGTTTTCCCTTAAAATGCAAATTGTGAAATTGTTCA
130 TAGTTTTCCCTTAAAATGCAAATTGTGAAATTGTTCA
* * * * *
32434 CTTGAAACAAAGTTTATCTCACTTGAGATTGTTTTC-CTCAAAGCAAATTTTGTCTCGCTTGAGA
1 CTTGAAACAAAATTGATCTCACTTGAAAGTGTTTTCTCT-AAAACAAATTTTGTCTCGCTTGAGA
* * *
32498 CAATTTTCCCTCAAAACAAAAAAT-TTGGAAATTGTTTCACTTAAAACAATATTGATAACATTTG
65 CAA-TTTCCCTCAAAAC-AAAAATCTT-GAAATTGTTTCACTCAAAACAAAATTGATAACACTTG
* *
32562 AGATTGTTTT-TCTTAAAA
127 AGATAGTTTTCCCTTAAAA
32580 ACATATTTCA
Statistics
Matches: 121, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
166 2 0.02
167 67 0.55
168 47 0.39
169 5 0.04
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (166 bp):
CTTGAAACAAAATTGATCTCACTTGAAAGTGTTTTCTCTAAAACAAATTTTGTCTCGCTTGAGAC
AATTTCCCTCAAAACAAAAATCTTGAAATTGTTTCACTCAAAACAAAATTGATAACACTTGAGAT
AGTTTTCCCTTAAAATGCAAATTGTGAAATTGTTCA
Found at i:34467 original size:28 final size:27
Alignment explanation
Indices: 34436--34502 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
34426 ATTTTATGTT
* *
34436 ATTTATTTCAAGTTAACTATTAACTTTC
1 ATTTATTGC-AGTTAACCATTAACTTTC
* *
34464 ATTTTATTGCATTTAACCATTAACTTTG
1 A-TTTATTGCAGTTAACCATTAACTTTC
34492 ATTTTATTGCA
1 A-TTTATTGCA
34503 CTCTAACAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 27 0.79
29 7 0.21
ACGTcount: A:0.30, C:0.13, G:0.06, T:0.51
Consensus pattern (27 bp):
ATTTATTGCAGTTAACCATTAACTTTC
Found at i:34757 original size:16 final size:16
Alignment explanation
Indices: 34732--34774 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
34722 CTGCTAACAG
*
34732 CTAACCGCTAACTTTT
1 CTAACCGCTAACCTTT
*
34748 CTAACAGCTAACCTTT
1 CTAACCGCTAACCTTT
34764 CTAACCGCTAA
1 CTAACCGCTAA
34775 TTACTAACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.30, C:0.33, G:0.07, T:0.30
Consensus pattern (16 bp):
CTAACCGCTAACCTTT
Found at i:38578 original size:32 final size:31
Alignment explanation
Indices: 38503--38581 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
38493 TAACCTTCAA
* *
38503 TGACCACATCTTAACTAAATAAAAACAAAAG
1 TGACAACATCTTAATTAAATAAAAACAAAAG
38534 TGACAACATCTTAATTAAATAAAAA-AGAAAG
1 TGACAACATCTTAATTAAATAAAAACA-AAAG
**
38565 TGATCAATTTCTTAATT
1 TGA-CAACATCTTAATT
38582 GAGGAAAAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
30 1 0.02
31 30 0.71
32 11 0.26
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.28
Consensus pattern (31 bp):
TGACAACATCTTAATTAAATAAAAACAAAAG
Found at i:38669 original size:20 final size:20
Alignment explanation
Indices: 38634--38684 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
38624 TAGTTAACCC
*
38634 AATATTTA-TCAATAAAT-A
1 AATATTTATTTAATAAATAA
38652 AATATTTTATTTAATAAATAA
1 AATA-TTTATTTAATAAATAA
38673 AATATTTATTTA
1 AATATTTATTTA
38685 TTTTATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 4 0.14
19 4 0.14
20 16 0.55
21 5 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATTTATTTAATAAATAA
Found at i:39242 original size:3 final size:3
Alignment explanation
Indices: 39234--39273 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
39224 CGAGTTCTCA
39234 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 A
39274 AATTTTACAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:39829 original size:20 final size:18
Alignment explanation
Indices: 39779--39831 Score: 72
Period size: 17 Copynumber: 2.9 Consensus size: 18
39769 AGAGGAAAAG
39779 GGGAAGAGGATTT-GGGA
1 GGGAAGAGGATTTGGGGA
39796 GGGAAGAGGATTTGGGGA
1 GGGAAGAGGATTTGGGGA
*
39814 GGTAGAGAGAGATTTGGG
1 GGGA-AGAG-GATTTGGG
39832 AAAAGAGAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 13 0.41
18 7 0.22
19 4 0.12
20 8 0.25
ACGTcount: A:0.28, C:0.00, G:0.53, T:0.19
Consensus pattern (18 bp):
GGGAAGAGGATTTGGGGA
Found at i:40780 original size:18 final size:18
Alignment explanation
Indices: 40757--40801 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
40747 TTCATGTATC
40757 TAGTTCATTGAATAAAGT
1 TAGTTCATTGAATAAAGT
* *
40775 TAGTTCATTTAATAATGT
1 TAGTTCATTGAATAAAGT
40793 TAGTTCATT
1 TAGTTCATT
40802 AATCAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (18 bp):
TAGTTCATTGAATAAAGT
Found at i:43182 original size:12 final size:12
Alignment explanation
Indices: 43165--43192 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
43155 TCAAAGAAAC
43165 ACAATTGCAAGG
1 ACAATTGCAAGG
43177 ACAATTGCAAGG
1 ACAATTGCAAGG
43189 ACAA
1 ACAA
43193 CTAGAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (12 bp):
ACAATTGCAAGG
Found at i:44541 original size:18 final size:18
Alignment explanation
Indices: 44514--44558 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
44504 TTCATGTATC
44514 TAGTTCATTGAATAAAGT
1 TAGTTCATTGAATAAAGT
* *
44532 TAGTTTATTGAATAACGT
1 TAGTTCATTGAATAAAGT
*
44550 TACTTCATT
1 TAGTTCATT
44559 AATCAAACTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.44
Consensus pattern (18 bp):
TAGTTCATTGAATAAAGT
Found at i:46782 original size:10 final size:10
Alignment explanation
Indices: 46753--46802 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
46743 GCTGCTGGAA
46753 AACCGGTTTG
1 AACCGGTTTG
*
46763 -ACCAGTTTTG
1 AACC-GGTTTG
46773 AACCGGTTTG
1 AACCGGTTTG
*
46783 -ACCGGTCTG
1 AACCGGTTTG
46792 AACCGGTTTG
1 AACCGGTTTG
46802 A
1 A
46803 CCCGACCCGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 11 0.33
10 19 0.58
11 3 0.09
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:46795 original size:19 final size:20
Alignment explanation
Indices: 46753--46804 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
46743 GCTGCTGGAA
* *
46753 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACCAGGTCTG
46773 AACCGGTTTGACC-GGTCTG
1 AACCGGTTTGACCAGGTCTG
46792 AACCGGTTTGACC
1 AACCGGTTTGACC
46805 CGACCCGACT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (20 bp):
AACCGGTTTGACCAGGTCTG
Found at i:46821 original size:17 final size:17
Alignment explanation
Indices: 46799--46855 Score: 105
Period size: 17 Copynumber: 3.4 Consensus size: 17
46789 CTGAACCGGT
*
46799 TTGACCCGACCCGACTG
1 TTGACCCGACCCGACCG
46816 TTGACCCGACCCGACCG
1 TTGACCCGACCCGACCG
46833 TTGACCCGACCCGACCG
1 TTGACCCGACCCGACCG
46850 TTGACC
1 TTGACC
46856 GTGACCGTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.18, C:0.44, G:0.23, T:0.16
Consensus pattern (17 bp):
TTGACCCGACCCGACCG
Found at i:46855 original size:7 final size:7
Alignment explanation
Indices: 46845--46887 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
46835 GACCCGACCC
46845 GACCGTT
1 GACCGTT
46852 GACCG-T
1 GACCGTT
46858 GACCGTT
1 GACCGTT
46865 GACCG-T
1 GACCGTT
46871 GACCGTT
1 GACCGTT
46878 GACCGTT
1 GACCGTT
46885 GAC
1 GAC
46888 TTTCTTTGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.35
7 22 0.65
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.23
Consensus pattern (7 bp):
GACCGTT
Found at i:46863 original size:13 final size:13
Alignment explanation
Indices: 46845--46883 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
46835 GACCCGACCC
46845 GACCGTTGACCGT
1 GACCGTTGACCGT
46858 GACCGTTGACCGT
1 GACCGTTGACCGT
46871 GACCGTTGACCGT
1 GACCGTTGACCGT
46884 TGACTTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
GACCGTTGACCGT
Found at i:46870 original size:20 final size:20
Alignment explanation
Indices: 46845--46887 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
46835 GACCCGACCC
46845 GACCGTTGACCGTGACCGTT
1 GACCGTTGACCGTGACCGTT
46865 GACCG-TGACCGTTGACCGTT
1 GACCGTTGACCG-TGACCGTT
46885 GAC
1 GAC
46888 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.23
Consensus pattern (20 bp):
GACCGTTGACCGTGACCGTT
Found at i:47830 original size:31 final size:30
Alignment explanation
Indices: 47759--47833 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 30
47749 CTAATGTGAC
*
47759 TCTTAGGTAGGCTCTGCGGCCCTGAGATTAT
1 TCTTAGGTAGGC-CTGCGGCCCTAAGATTAT
** *
47790 TCTCGGGTAGGCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCTGCGGCCCTAAGAT-TAT
47821 TCTTAGGTAGGCC
1 TCTTAGGTAGGCC
47834 CCACGGCCCC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 14 0.38
31 23 0.62
ACGTcount: A:0.15, C:0.24, G:0.32, T:0.29
Consensus pattern (30 bp):
TCTTAGGTAGGCCTGCGGCCCTAAGATTAT
Found at i:47860 original size:62 final size:63
Alignment explanation
Indices: 47759--47881 Score: 153
Period size: 62 Copynumber: 2.0 Consensus size: 63
47749 CTAATGTGAC
* ** * *
47759 TCTTAGGTAGGCTCTGCGGCCCTGAGATTATTCTCGGGTAGGC-CTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCTCT-CAGGCCCTAAGATGTGT
*
47821 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAAT-TATTCTCGGGTAGGCTCTCAGGCCCTAAGATGT
47882 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
62 35 0.67
63 17 0.33
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCTCTCAGGCCCTAAGATGTGT
Found at i:54105 original size:19 final size:19
Alignment explanation
Indices: 54062--54170 Score: 130
Period size: 19 Copynumber: 5.7 Consensus size: 19
54052 GCTGCTGGAA
* *
54062 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTCTG
54082 AACCGGTTTGACCGGT-TCG
1 AACCGGTTTGACCGGTCT-G
* *
54101 AACCGATTTGATCGGTCTG
1 AACCGGTTTGACCGGTCTG
* *
54120 AACCGATTTGATCGGTCTG
1 AACCGGTTTGACCGGTCTG
54139 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
54158 AACCGGGTTGACC
1 AACCGGTTTGACC
54171 CGACCCGACT
Statistics
Matches: 81, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
18 1 0.01
19 66 0.81
20 14 0.17
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.28
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:54186 original size:17 final size:17
Alignment explanation
Indices: 54164--54221 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
54154 TCTGAACCGG
*
54164 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
54181 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
54198 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
54215 GTTGACC
1 GTTGACC
54222 GTGACCGTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.17, C:0.43, G:0.24, T:0.16
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:54228 original size:6 final size:7
Alignment explanation
Indices: 54211--54240 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
54201 GACCCGACCC
54211 GACCGTT
1 GACCGTT
54218 GACCG-T
1 GACCGTT
54224 GACCGTT
1 GACCGTT
54231 GACCGTT
1 GACCGTT
54238 GAC
1 GAC
54241 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (7 bp):
GACCGTT
Found at i:54229 original size:13 final size:13
Alignment explanation
Indices: 54211--54236 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54201 GACCCGACCC
54211 GACCGTTGACCGT
1 GACCGTTGACCGT
54224 GACCGTTGACCGT
1 GACCGTTGACCGT
54237 TGACTTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
GACCGTTGACCGT
Found at i:55176 original size:31 final size:31
Alignment explanation
Indices: 55105--55225 Score: 97
Period size: 31 Copynumber: 3.9 Consensus size: 31
55095 CTAATGTGAC
*
55105 TCTTAGGTAGGCTCTGCGGCCCTGAGATTAT
1 TCTTAGGTAGGCTCTGCGGCCCTAAGATTAT
** *
55136 TCTCGGGTAGGCT-TGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCTCTGCGGCCCTAAGAT-TAT
* ** *
55167 TCTTAGGTAGGCCCCACGGCCCCGAA-ATCTA-
1 TCTTAGGTAGGCTCTGCGG-CCCTAAGAT-TAT
*
55198 TCTTGGGTAGGCTCT-CAGGCCCTAAGAT
1 TCTTAGGTAGGCTCTGC-GGCCCTAAGAT
55226 GTTCCCTTAG
Statistics
Matches: 69, Mismatches: 16, Indels: 10
0.73 0.17 0.11
Matches are distributed among these distances:
30 19 0.28
31 39 0.57
32 6 0.09
33 5 0.07
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.27
Consensus pattern (31 bp):
TCTTAGGTAGGCTCTGCGGCCCTAAGATTAT
Found at i:55206 original size:62 final size:63
Alignment explanation
Indices: 55105--55227 Score: 153
Period size: 62 Copynumber: 2.0 Consensus size: 63
55095 CTAATGTGAC
* ** * *
55105 TCTTAGGTAGGCTCTGCGGCCCTGAGATTATTCTCGGGTAGGCT-TGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCTCT-CAGGCCCTAAGATGTGT
*
55167 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAAT-TATTCTCGGGTAGGCTCTCAGGCCCTAAGATGT
55228 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
62 36 0.69
63 16 0.31
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.28
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCTCTCAGGCCCTAAGATGTGT
Found at i:56307 original size:16 final size:15
Alignment explanation
Indices: 56286--56317 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
56276 TTATTTCACA
56286 TATTTCCATTCGTATT
1 TATTTCCATT-GTATT
56302 TATTTCCATTGTATT
1 TATTTCCATTGTATT
56317 T
1 T
56318 CTTTATCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.19, C:0.16, G:0.06, T:0.59
Consensus pattern (15 bp):
TATTTCCATTGTATT
Found at i:58719 original size:17 final size:17
Alignment explanation
Indices: 58697--58730 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
58687 GTTAACGTCA
58697 TATGCAACTATCATATT
1 TATGCAACTATCATATT
58714 TATGCAACTATCATATT
1 TATGCAACTATCATATT
58731 GGGAGCTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (17 bp):
TATGCAACTATCATATT
Found at i:60518 original size:38 final size:39
Alignment explanation
Indices: 60475--60548 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 39
60465 CGTCTCTCTC
60475 AAAACAAACTTCGTCTCT-CTTGAGACAGT-TTCCTTCGA
1 AAAACAAACTTCGTCT-TGCTTGAGACAGTCTTCCTTCGA
* *
60513 AAAACAAATTTTGTCTTGCTTGAGACAGTCTTCCTT
1 AAAACAAACTTCGTCTTGCTTGAGACAGTCTTCCTT
60549 AAGACACGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
37 1 0.03
38 25 0.78
39 6 0.19
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (39 bp):
AAAACAAACTTCGTCTTGCTTGAGACAGTCTTCCTTCGA
Found at i:60915 original size:65 final size:66
Alignment explanation
Indices: 60777--60951 Score: 248
Period size: 65 Copynumber: 2.6 Consensus size: 66
60767 ATTTTCTCTC
60777 GAAACAAAGTTTTGTCTCGT-TTGAGACAGTTTCTCTTGAAACATAAAACCTTTGAGATTATTTC
1 GAAACAAA-TTTTGTCTC-TCTTGAGACAGTTTCTCTTGAAACAT-AAACCTTTGAGATTATTTC
60841 CCTT
63 CCTT
* * *
60845 GAAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACCT-AACCTTTGAGATTGTTTCCCT
1 GAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTATTTCCCT
60909 T
66 T
* *
60910 GAAACAAGTTTTGTCTCTCTTGAGGCAGTTT-TGCTTGAAACA
1 GAAACAAATTTTGTCTCTCTTGAGACAGTTTCT-CTTGAAACA
60952 AATTTATCCC
Statistics
Matches: 98, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
64 1 0.01
65 57 0.58
66 1 0.01
67 31 0.32
68 8 0.08
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (66 bp):
GAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTATTTCCCT
T
Found at i:61200 original size:135 final size:136
Alignment explanation
Indices: 60955--61493 Score: 629
Period size: 136 Copynumber: 4.0 Consensus size: 136
60945 TGAAACAAAT
* * * ** * *
60955 TTATCCCTAAAGATGGTCAGCCGTCCTCGTCACGTAGGAAACGTGTCATTTACCGACCGGATCCC
1 TTATCCCTAAAGATGGCCAGCCATCCTCATCACGTAGG-AACGTGTCATCCACCGACCAGATCTC
* * * * * *
61020 CTCATCACGTAGGAGCCGCATCACTCTTAGATAGCAAGATTTCCTCATCGCGTAAGAACCATGTT
65 CTCATCACGTAGGAGCCGCGTCACCCTTAGATAGCCAGACTTCCTCATCACGTAGGAACCATGTT
*
61085 ATCTCTA
130 ATCTCAA
* * *
61092 -T-TCCCTAAAGATGGCCAGCCATCCTCATAACATAGGAATTGTGTCATCCACCGACCAGATCTC
1 TTATCCCTAAAGATGGCCAGCCATCCTCATCACGTAGGAA-CGTGTCATCCACCGACCAGATCTC
* * * * * *
61155 CTCATCACGTAGGAGCCGCCTCACCCTTAGATAGCCATACTTCCTCGTCACGTACGAATCGTGTT
65 CTCATCACGTAGGAGCCGCGTCACCCTTAGATAGCCAGACTTCCTCATCACGTAGGAACCATGTT
61220 ATCTCAA
130 ATCTCAA
* *
61227 TTATCCCTAAAGATGGCTAG-CATCCTCGTCACGTAGGAACCGTGTCATCCACCGACCAGATCTC
1 TTATCCCTAAAGATGGCCAGCCATCCTCATCACGTAGGAA-CGTGTCATCCACCGACCAGATCTC
* * ** * **
61291 CCCATCACGTAGGATCTACGTCACCCTTAGATAGCCAAACTTCCTCATCACGTAGGAACTGTGTT
65 CTCATCACGTAGGAGCCGCGTCACCCTTAGATAGCCAGACTTCCTCATCACGTAGGAACCATGTT
61356 ATCTCAA
130 ATCTCAA
* * ** * * *
61363 TTATCCCTAAAGATGGACAACTTTCCTCATCACGTAGAAAC-CGTCAT-CACCGACCAGATCTCT
1 TTATCCCTAAAGATGGCCAGCCATCCTCATCACGTAGGAACGTGTCATCCACCGACCAGATCTCC
* * * *
61426 TCATCACGTAGGAGCAGCGTCACCCTTACATAACCAGATTTCCTCATCACGTAGGAACCATGTTA
66 TCATCACGTAGGAGCCGCGTCACCCTTAGATAGCCAGACTTCCTCATCACGTAGGAACCATGTTA
61491 TCT
131 TCT
61494 TCAAATTTAC
Statistics
Matches: 342, Mismatches: 56, Indels: 11
0.84 0.14 0.03
Matches are distributed among these distances:
134 75 0.22
135 115 0.34
136 121 0.35
137 31 0.09
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.26
Consensus pattern (136 bp):
TTATCCCTAAAGATGGCCAGCCATCCTCATCACGTAGGAACGTGTCATCCACCGACCAGATCTCC
TCATCACGTAGGAGCCGCGTCACCCTTAGATAGCCAGACTTCCTCATCACGTAGGAACCATGTTA
TCTCAA
Found at i:61687 original size:3 final size:3
Alignment explanation
Indices: 61679--61727 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
61669 CAGGTTCTCA
61679 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT CA-T ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
61724 ATT A
1 ATT A
61728 CATTTTGTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 1 0.02
3 42 0.95
4 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:70761 original size:103 final size:103
Alignment explanation
Indices: 70578--70789 Score: 379
Period size: 103 Copynumber: 2.1 Consensus size: 103
70568 TGTCAATATT
*
70578 CCTATTATCTACAACCCATGTCGACGCATGGTTTTACCTGAAACTTACTCTTGGGTCTATGTAAC
1 CCTATTATCTACAACCCATGTCGACGCATGGTTGTACCTGAAACTTACTCTTGGGTCTATGTAAC
* *
70643 ATAGATTCATGTCACCTTAGAGTAAATTGTAGAGAACA
66 ATAGATTCATATCACCTTAGAGTAAATTATAGAGAACA
*
70681 CCTATTATCTACAACCCATGTCGACGCATGGTTGTACCTGAAACTTACTCTTTGGTCTATGTAAC
1 CCTATTATCTACAACCCATGTCGACGCATGGTTGTACCTGAAACTTACTCTTGGGTCTATGTAAC
*
70746 ATAGATTCATATCACCTTAGAGTAAATTATAGATAACA
66 ATAGATTCATATCACCTTAGAGTAAATTATAGAGAACA
70784 CCTATT
1 CCTATT
70790 TTCGTTAAAT
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (103 bp):
CCTATTATCTACAACCCATGTCGACGCATGGTTGTACCTGAAACTTACTCTTGGGTCTATGTAAC
ATAGATTCATATCACCTTAGAGTAAATTATAGAGAACA
Found at i:71678 original size:19 final size:18
Alignment explanation
Indices: 71656--71711 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
71646 GTCTGTTTCC
*
71656 TACAGTCTGTTTTCTACAA
1 TACAGTATGTTTTCTAC-A
*
71675 TACAGTATGTTTTCTTTC-
1 TACAGTATGTTTTC-TACA
71693 TACAGTATGTTTTCTACA
1 TACAGTATGTTTTCTACA
71711 T
1 T
71712 GGTATCAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.06
18 15 0.47
19 13 0.41
20 2 0.06
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.48
Consensus pattern (18 bp):
TACAGTATGTTTTCTACA
Found at i:73781 original size:36 final size:36
Alignment explanation
Indices: 73734--73805 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
73724 CCTAGCATTC
*
73734 GCCAAGAACCAGATTCGGATCCTGTTGCCTCTGAAA
1 GCCAAGAACCAGATTCGGATCCTGTTGCATCTGAAA
* *
73770 GCCAATAACCAGATTTGGATCCTGTTGCATCTGAAA
1 GCCAAGAACCAGATTCGGATCCTGTTGCATCTGAAA
73806 ACAGAAGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (36 bp):
GCCAAGAACCAGATTCGGATCCTGTTGCATCTGAAA
Found at i:75752 original size:19 final size:19
Alignment explanation
Indices: 75730--75766 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
75720 GTTTGTTTCC
75730 TACAGCCTGTTTTCTACAA
1 TACAGCCTGTTTTCTACAA
*
75749 TACAGTCTGTTTTCTACA
1 TACAGCCTGTTTTCTACA
75767 CATAGGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.41
Consensus pattern (19 bp):
TACAGCCTGTTTTCTACAA
Found at i:87052 original size:20 final size:21
Alignment explanation
Indices: 87027--87070 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
87017 ATAACAATAT
87027 AACAGGT-T-AAAATATGATAA
1 AACAGGTCTCAAAA-ATGATAA
87047 AACAGGTCTCAAAAATGATAA
1 AACAGGTCTCAAAAATGATAA
87068 AAC
1 AAC
87071 CGGTAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 11 0.50
22 4 0.18
ACGTcount: A:0.55, C:0.11, G:0.14, T:0.20
Consensus pattern (21 bp):
AACAGGTCTCAAAAATGATAA
Found at i:87102 original size:181 final size:181
Alignment explanation
Indices: 86097--87657 Score: 1961
Period size: 182 Copynumber: 8.7 Consensus size: 181
86087 GATACAAATG
* * * * *
86097 AAAAATGTATCGCTCCATAGCAATATTACAGGTAAAAATATGACAAAATC-GGTCTCGAAATGAC
1 AAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAA-CAGGTCTCAAAATGAC
* * * *
86161 AAAACCGGTAAAAAGTTACCGGATATGTTAAAAGTGTCGATAATTTAATATAAGTATCGACACTT
65 AAAACCGGTAAAAAGCTACCAGATATGTTGAAAGTGTCGATACTTT-ATATAAGTATCGACACTT
*
86226 TTTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACAC-TTTA
129 TTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTTA
*
86278 TGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACCA-GTCTCAAAATGA
1 -AAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAA-CAGGTCTCAAAATGA
** * *
86342 CAAAACATGTAAATAA-CTATCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACAC
64 CAAAACCGGTAAA-AAGCTACCAGATATGTTGAAAGTGTCGATACTTT-ATATAAGTATCGACAC
* *
86406 TTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTA
127 TTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTTA
* * *
86461 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACATGTCTCAAAAATGAC
1 AAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACAGGTCTC-AAAATGAC
* *
86526 AAAACCGGTAAAAAGATACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
65 AAAACCGGTAAAAAGCTACCAGATATGTTGAAAGTGTCGATACTTT-ATATAAGTATCGACACTT
* *
86591 TTGGAATTTAAAAGAGAATAAGTTATAACGCCTAAAAAGTGTCGACAC-TTTA
129 TTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTTA
** * * *
86643 TGAAATGTATCGCTCCATAAC-ATATAACAGCTAAAAATATTACAAATC-GGTCTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACAGGTCTCAAAATGACA
** * *
86706 AAACC-GTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAATATCGACACTTT
66 AAACCGGTAAAAAGCTACCAGATATGTTGAAAGTGTCGATACTTT-ATATAAGTATCGACACTTT
* *
86770 TGGAATTTAAAAGAGAATAAGTT-TAGTGCCTAAAAAGTGTCGACA-TTTTA
130 TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTTA
* *
86820 TGAAAATGTATCGATCCATAACAATATAACAACTAAAAATATGACAAAATCA-GTCTCAAAATGA
1 -AAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAA-CAGGTCTCAAAATGA
* * *
86884 CAAAACAGGTAAATAA-CTACCAGATATGTTGAAAGTGTCGATACTTT-TATATGTATTGACACT
64 CAAAACCGGTAAA-AAGCTACCAGATATGTTGAAAGTGTCGATACTTTATATAAGTATCGACACT
* * * *
86947 TTTGGAATTTAAAAGAGAATAAGTTATAGAGCCTATAAAGTGTCGATACTTTTA
128 TTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTTA
* * * *
87001 AAAAATGTATCGATCCATAACAATATAACAGGTTAAAATATGATAAAACAGGTCTCAAAAATGAT
1 AAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACAGGTCTC-AAAATGAC
* * *
87066 AAAACCGGTAAAAAGATATCAGATATGTTGAAAGTGTCGATAATTTA-ATAAGTATCGACACTTT
65 AAAACCGGTAAAAAGCTACCAGATATGTTGAAAGTGTCGATACTTTATATAAGTATCGACACTTT
* *
87130 TGGAA-TT--AA-AG-AGAAGTTATAGCGTCTAAAAAGTATCGACAC-TTTA
130 TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTTA
* * * *
87176 TGAAAATGTATCGCTCCATAACAATATAACAGCTAAAAATATGACAAAACCGGTCTCAAAATAAC
1 -AAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACAGGTCTCAAAATGAC
* ** * *
87241 AAAATCGGTAAAGCGCTATCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTT
65 AAAACCGGTAAAAAGCTACCAGATATGTTGAAAGTGTCGATACTTT-ATATAAGTATCGACACTT
* ** * * *
87306 TTGGAGTTTAAAAGAGAAGAAGTTATAGCTTCTATAAAGTGTCAATACTTTT-
129 TTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTTA
* * * ** *
87358 AAAAATATATCGATACATAATAATATAACATATAAAAATATGACAAAACATGTCTCAAAAAATGA
1 AAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACAGGTCTC--AAAATGA
* *
87423 CAAAACCGGGT-AAAAGATACC-GAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACA
64 CAAAACC-GGTAAAAAGCTACCAG-ATATGTTGAAAGTGTCGATACTTT-ATATAAGTATCGACA
* * * *
87486 CTTTTGGAATTT-AAA-AGAAGAAGTTATAACGCCTATAAAGTGTTGATACTTTTA
126 CTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTTA
* * *
87540 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCA-GTCTCAAAATAAC
1 AAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAA-CAGGTCTCAAAATGAC
* ** *
87604 AAAACTGGTAAAGCGCTACCAGTTATGTTGAAAGTGTCGATACTTTA-ATAAGTA
65 AAAACCGGTAAAAAGCTACCAGATATGTTGAAAGTGTCGATACTTTATATAAGTA
87658 CGCGTAATAA
Statistics
Matches: 1209, Mismatches: 134, Indels: 76
0.85 0.09 0.05
Matches are distributed among these distances:
175 50 0.04
176 76 0.06
177 47 0.04
178 105 0.09
179 81 0.07
180 138 0.11
181 214 0.18
182 308 0.25
183 187 0.15
184 3 0.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (181 bp):
AAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACAGGTCTCAAAATGACA
AAACCGGTAAAAAGCTACCAGATATGTTGAAAGTGTCGATACTTTATATAAGTATCGACACTTTT
GGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTTA
Found at i:88112 original size:19 final size:19
Alignment explanation
Indices: 88077--88143 Score: 109
Period size: 19 Copynumber: 3.6 Consensus size: 19
88067 ACTTTTATTT
88077 ATATTATAGGT-AAAAATG
1 ATATTATAGGTAAAAAATG
88095 ATATTATAGGTAAAAAATG
1 ATATTATAGGTAAAAAATG
*
88114 ATATTATAGGTAGAAAATG
1 ATATTATAGGTAAAAAATG
*
88133 ATATTTTAGGT
1 ATATTATAGGT
88144 TGTATAAAGT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
18 11 0.24
19 35 0.76
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.36
Consensus pattern (19 bp):
ATATTATAGGTAAAAAATG
Done.