Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009701.1 Kokia drynarioides strain JFW-HI SEQ_124420, 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: 182335
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 2 characters in sequence are not A, C, G, or T
Found at i:2002 original size:24 final size:24
Alignment explanation
Indices: 1969--2019 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1959 AGAAATAATC
* * *
1969 TTTCAGTTAAACTTTGTTTAATTG
1 TTTCAATTAAACTCTATTTAATTG
*
1993 TTTCAATTAAACTCTATTTATTTG
1 TTTCAATTAAACTCTATTTAATTG
2017 TTT
1 TTT
2020 GAGTCAAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.10, G:0.08, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACTCTATTTAATTG
Found at i:4013 original size:24 final size:24
Alignment explanation
Indices: 3962--4014 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
3952 TCTTTCAGTT
*
3962 AAACTCTATTTAATTATTTCAATT
1 AAACTCTATTTAATTATTTCAATC
* *
3986 AAACTCTATTTATTTGTTT-AAGTC
1 AAACTCTATTTAATTATTTCAA-TC
4010 AAACT
1 AAACT
4015 GTTATTAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (24 bp):
AAACTCTATTTAATTATTTCAATC
Found at i:14572 original size:12 final size:14
Alignment explanation
Indices: 14545--14590 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 14
14535 ATTGAGGTAG
*
14545 AAGAAGATGAAAGAA
1 AAGAAGA-GAAGGAA
14560 AAGAA-A-AAGGAA
1 AAGAAGAGAAGGAA
14572 AAGAAGAGAAGGAA
1 AAGAAGAGAAGGAA
14586 GAAGA
1 -AAGA
14591 TGTTGTCCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 10 0.37
13 1 0.04
14 7 0.26
15 9 0.33
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.02
Consensus pattern (14 bp):
AAGAAGAGAAGGAA
Found at i:27196 original size:21 final size:21
Alignment explanation
Indices: 27172--27231 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
27162 TAGAAGTAGG
* *
27172 ACTTGTTTTAGTAGAAGTGTC
1 ACTTGTATCAGTAGAAGTGTC
* *
27193 ACTTATATCAGTAGAATTGTC
1 ACTTGTATCAGTAGAAGTGTC
*
27214 ACTTGTATCGGTAGAAGT
1 ACTTGTATCAGTAGAAGT
27232 CTACACCATT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (21 bp):
ACTTGTATCAGTAGAAGTGTC
Found at i:27760 original size:82 final size:76
Alignment explanation
Indices: 27548--27775 Score: 242
Period size: 77 Copynumber: 2.9 Consensus size: 76
27538 TTAAAATTTT
* * * * * * *
27548 GAAACAAAATCAATATCAATTCTGTTGAACGACAAGAATAAATCCTGAAACAAAATTA-TGAATA
1 GAAACAAAATCAAAAACAATTCTATTGAACGGCAGGAATAAATCC-GAAACAAAATTATTCAATT
*
27612 AATTTTTTGTTTG
65 AA-TTATTGTTTG
27625 GAAACAAAATCAAAAACAATTCTATTGAACGGCAGGAATAAATCTCGAAACAAAATTATTCAATT
1 GAAACAAAATCAAAAACAATTCTATTGAACGGCAGGAATAAATC-CGAAACAAAATTATTCAATT
27690 AATTATTGTTTG
65 AATTATTGTTTG
* * * * *
27702 GAAACAAAATTAGAATACAATAAAATTTTTTGAACGGCGGGAATAAATACCGAAACAAAATTATT
1 GAAACAAAATCA-AAAACAAT----TCTATTGAACGGCAGGAATAAAT-CCGAAACAAAATTATT
*
27767 CTATTAATT
60 CAATTAATT
27776 TGCTTAATTT
Statistics
Matches: 129, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
77 71 0.55
78 14 0.11
82 43 0.33
83 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (76 bp):
GAAACAAAATCAAAAACAATTCTATTGAACGGCAGGAATAAATCCGAAACAAAATTATTCAATTA
ATTATTGTTTG
Found at i:29822 original size:3 final size:3
Alignment explanation
Indices: 29814--29842 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
29804 TCCAATAGAT
29814 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
29843 TGTGAACAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:34372 original size:11 final size:12
Alignment explanation
Indices: 34345--34369 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34335 ACAGAGTCAT
34345 AATCTCTAAAAA
1 AATCTCTAAAAA
34357 AATCTCTAAAAA
1 AATCTCTAAAAA
34369 A
1 A
34370 TCTAAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (12 bp):
AATCTCTAAAAA
Found at i:34700 original size:49 final size:49
Alignment explanation
Indices: 34585--34702 Score: 182
Period size: 49 Copynumber: 2.4 Consensus size: 49
34575 TTTCTAATCT
* *
34585 TCATCTAATCTCTCACCCTCTCACACTCCATATATATTAATCATAGTCC
1 TCATCTAATCTCTCACTCTCTCACACTCCATATATATTAATCATAGTAC
* * *
34634 TCATCTAATCTCACACTCTCTCACTCTCCATATATATTAATCATAGTAT
1 TCATCTAATCTCTCACTCTCTCACACTCCATATATATTAATCATAGTAC
*
34683 TCTTCTAATCTCTCACTCTC
1 TCATCTAATCTCTCACTCTC
34703 CATATATATT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 62 1.00
ACGTcount: A:0.27, C:0.33, G:0.02, T:0.38
Consensus pattern (49 bp):
TCATCTAATCTCTCACTCTCTCACACTCCATATATATTAATCATAGTAC
Found at i:35947 original size:41 final size:41
Alignment explanation
Indices: 35884--35979 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
35874 CTGATATTTC
* ** * **
35884 ACTCTCTAACTCTCCATTTATATTAGTTGTAGTCTTCATCT
1 ACTCTCTCACTCTCCAGATATATTAATCATAGTCTTCATCT
*
35925 ACTCTCTCACTCTCCAGATATATTAATCATAGTCTTTATCT
1 ACTCTCTCACTCTCCAGATATATTAATCATAGTCTTCATCT
* *
35966 AATCTCTCGCTCTC
1 ACTCTCTCACTCTC
35980 TCACTATCTC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.23, C:0.28, G:0.06, T:0.43
Consensus pattern (41 bp):
ACTCTCTCACTCTCCAGATATATTAATCATAGTCTTCATCT
Found at i:37432 original size:30 final size:30
Alignment explanation
Indices: 37398--37464 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
37388 ATCGCGGATC
*
37398 TTCTTGTTCAAAT-GAAGAACATAAGTGGTA
1 TTCTTGGT-AAATAGAAGAACATAAGTGGTA
* *
37428 TTCTTGGTGAATAGAAGAACATAATTGGTA
1 TTCTTGGTAAATAGAAGAACATAAGTGGTA
*
37458 TCCTTGG
1 TTCTTGG
37465 ACTAGGAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 3 0.09
30 29 0.91
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.34
Consensus pattern (30 bp):
TTCTTGGTAAATAGAAGAACATAAGTGGTA
Found at i:38863 original size:180 final size:181
Alignment explanation
Indices: 38423--38873 Score: 461
Period size: 180 Copynumber: 2.5 Consensus size: 181
38413 AATAACGATA
* * * *
38423 AACTAAAATTATAAATCCTTACAATGAAAATAGAA-AAAA-AATAGGTCAAGAATATAAAATAGA
1 AACTGAAATTATAAAT-CTTATAATGAAAATAGAAGAAAATATTAGTTCAAGAATATAAAATAGA
* * ** *
38486 GCAAGTGTAAGTTGATAAACTCATTCCAAAGTATGTGATAACTAATATGTACATCAATAAATGCA
65 GCACGTGTAAGTTGATAAACTCATTCCAAAATATACGATAAATAATATG-ACA-CAATAAATGCA
* *
38551 AAACAATTAAATTCAAAACGATATAATAGAACATGTGTAAGTCGATAAACCGCTAC
128 AAAAAATTAAA-T-AAAACGATATAACAGAACATGTGTAAGTCGATAAACCGCTAC
* ** * *
38607 AATTGAAATTATAAATCTT-TGAATTTAAATAGAAGGAAAATTTTAATTCAAGAATATAAAATAG
1 AACTGAAATTATAAATCTTAT-AATGAAAATAGAA-GAAAATATTAGTTCAAGAATATAAAATAG
* * * * *
38671 AGTACGTGTAAGTTGACAAACTCATTGCAAAATATACGGTAAATAATATG-CA-AATCAATGCAT
64 AGCACGTGTAAGTTGATAAACTCATTCCAAAATATACGATAAATAATATGACACAATAAATGCA-
* * * ** *
38734 AAAAAATT-AA-AAAACATATATAACAGAACATTTGTATGTCGATAAATTGGTTAC
128 AAAAAATTAAATAAAAC-GATATAACAGAACATGTGTAAGTCGATAAA-CCGCTAC
* *
38788 TACTGAAATTATAAATCGTTATAACGAAAATA-AAGAAAATATTAGTTCAA-AAGTATAAAATAG
1 AACTGAAATTATAAATC-TTATAATGAAAATAGAAGAAAATATTAGTTCAAGAA-TATAAAATAG
*
38851 AGCACTTGTAAGTTGATAAACTC
64 AGCACGTGTAAGTTGATAAACTC
38874 CTAGTGAAGT
Statistics
Matches: 220, Mismatches: 37, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
179 7 0.03
180 70 0.32
181 21 0.10
182 20 0.09
183 22 0.10
184 16 0.07
185 4 0.02
186 60 0.27
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (181 bp):
AACTGAAATTATAAATCTTATAATGAAAATAGAAGAAAATATTAGTTCAAGAATATAAAATAGAG
CACGTGTAAGTTGATAAACTCATTCCAAAATATACGATAAATAATATGACACAATAAATGCAAAA
AAATTAAATAAAACGATATAACAGAACATGTGTAAGTCGATAAACCGCTAC
Found at i:39099 original size:45 final size:45
Alignment explanation
Indices: 38931--39104 Score: 235
Period size: 45 Copynumber: 3.9 Consensus size: 45
38921 GAATCCAAAC
* * * *
38931 GAGGGGTGGGTGGA-GGGAAAATACTTCCTTTTTTAGTCTCTAAAC
1 GAGGGGTGGGTGGACGGG-AAATGCTTCCTTTTTCAATCTCTAAAT
* * *
38976 GAGGGGTGGGTGGACGAGAAATGCTTCCTTCGTT-AGTCTCTAAAT
1 GAGGGGTGGGTGGACGGGAAATGCTTCCTT-TTTCAATCTCTAAAT
39021 GAGGGGTGGGTGGACGGGAAATGCTTCCTTTTTCAATCTCTAAAT
1 GAGGGGTGGGTGGACGGGAAATGCTTCCTTTTTCAATCTCTAAAT
* *
39066 GAGTGGTGGGTGGAGGGGAAATGCTTCCTTTTTCAATCT
1 GAGGGGTGGGTGGACGGGAAATGCTTCCTTTTTCAATCT
39105 TATGTTGTGT
Statistics
Matches: 117, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
44 2 0.02
45 111 0.95
46 4 0.03
ACGTcount: A:0.22, C:0.14, G:0.33, T:0.31
Consensus pattern (45 bp):
GAGGGGTGGGTGGACGGGAAATGCTTCCTTTTTCAATCTCTAAAT
Found at i:39305 original size:24 final size:24
Alignment explanation
Indices: 39272--39327 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
39262 ATTTGAAAAA
*
39272 TAATT-TTTCAGTTAAACTCTATT
1 TAATTGTTTCAATTAAACTCTATT
*
39295 TAATTGTTTCAATTAAACTCTGTT
1 TAATTGTTTCAATTAAACTCTATT
*
39319 TATTTGTTT
1 TAATTGTTT
39328 AAGTGAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 5 0.17
24 24 0.83
ACGTcount: A:0.27, C:0.11, G:0.07, T:0.55
Consensus pattern (24 bp):
TAATTGTTTCAATTAAACTCTATT
Found at i:39364 original size:11 final size:11
Alignment explanation
Indices: 39336--39370 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
39326 TTAAGTGAAA
*
39336 TTATTATTAGT
1 TTATTATTATT
39347 TTA-TATTATT
1 TTATTATTATT
39357 TTATTATTATT
1 TTATTATTATT
39368 TTA
1 TTA
39371 CCTAGAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (11 bp):
TTATTATTATT
Found at i:44130 original size:49 final size:48
Alignment explanation
Indices: 44092--44215 Score: 196
Period size: 49 Copynumber: 2.5 Consensus size: 48
44082 ATGTTTTTTC
44092 TAGTCTTCATCTAATCTCTCA-TACTCTCACTCTTTATATATATTAATCA
1 TAGTCTTCATCTAATCTCTCACT-CTCTCACT-TTTATATATATTAATCA
*
44141 TAGTCTTCATCTAATCTCTCACTCTCTCACTTTCCATATATATTAATCA
1 TAGTCTTCATCTAATCTCTCACTCTCTCACTTT-TATATATATTAATCA
*
44190 TAGTCTTCTTCTAATCTCTCACTCTC
1 TAGTCTTCATCTAATCTCTCACTCTC
44216 CATATATATT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
48 2 0.03
49 68 0.96
50 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.02, T:0.44
Consensus pattern (48 bp):
TAGTCTTCATCTAATCTCTCACTCTCTCACTTTTATATATATTAATCA
Found at i:56727 original size:18 final size:18
Alignment explanation
Indices: 56689--56730 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
56679 GTGACAAAAA
56689 CTTCCTCTTTTTCTTCTT
1 CTTCCTCTTTTTCTTCTT
56707 CTTCCATCTCTTTT-TTC-T
1 CTTCC-TCT-TTTTCTTCTT
56725 CTTCCT
1 CTTCCT
56731 TCGTACCCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.05
18 11 0.50
19 6 0.27
20 4 0.18
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (18 bp):
CTTCCTCTTTTTCTTCTT
Found at i:58716 original size:9 final size:9
Alignment explanation
Indices: 58702--58728 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
58692 GTTTAGAGTA
58702 CTGTTGTTG
1 CTGTTGTTG
58711 CTGTTGTTG
1 CTGTTGTTG
58720 CTGTTGTTG
1 CTGTTGTTG
58729 ATGCTATCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.00, C:0.11, G:0.33, T:0.56
Consensus pattern (9 bp):
CTGTTGTTG
Found at i:58790 original size:18 final size:18
Alignment explanation
Indices: 58769--58811 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
58759 TGCAGTTTGC
*
58769 TGTGGCTACATAC-GAGCA
1 TGTGACTACAT-CTGAGCA
*
58787 TGTGACTGCATCTGAGCA
1 TGTGACTACATCTGAGCA
58805 TGTGACT
1 TGTGACT
58812 GCATTTGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (18 bp):
TGTGACTACATCTGAGCA
Found at i:61534 original size:9 final size:9
Alignment explanation
Indices: 61520--61544 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
61510 ATTTCTGTTG
61520 AAATTTTGT
1 AAATTTTGT
61529 AAATTTTGT
1 AAATTTTGT
61538 AAATTTT
1 AAATTTT
61545 CATTAACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (9 bp):
AAATTTTGT
Found at i:74498 original size:41 final size:41
Alignment explanation
Indices: 74466--74546 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
74456 ATGGTTTATC
*
74466 TAATATTCATCTAATCACTCCCTCTCCATATATATTAACCA
1 TAATATTCATCTAATCACTCACTCTCCATATATATTAACCA
* * *
74507 TAATCTTCATGTAATCTCTCACTCTCCATATATATTAACC
1 TAATATTCATCTAATCACTCACTCTCCATATATATTAACC
74547 TTTTGCCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.32, C:0.28, G:0.01, T:0.38
Consensus pattern (41 bp):
TAATATTCATCTAATCACTCACTCTCCATATATATTAACCA
Found at i:79604 original size:194 final size:194
Alignment explanation
Indices: 79265--79707 Score: 568
Period size: 194 Copynumber: 2.3 Consensus size: 194
79255 ACCAATGTGG
*
79265 TGGCTTGGGTACTGCATATGTTGTGAGTCCTCGACAGCTCGTGTGAGCAGCATCATGAGTCAAGA
1 TGGCTTGGGTACTGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCATGAGTCAAGA
* ** *
79330 AAGATATATGAATCCTAAAATGGATTACAGGCCTTGTGATGGCTGAGATTTATGCATAAGTACAT
66 AAGAGATACAAATCCTAAAATGGATTACAGGCCTGGTGATGGCTGAGATTTATGCATAAGTACAT
* * * * * * *
79395 ATTCTCGATAGCTCGTGTGAGTAGCT-TTATTAGGGGACAGTTATACAGACAGACATCGTACCGA
131 ATTCTCAACAGCTCGTGTGAGCAG-TATCATTAGGGGAAAGTTATACAGACAGACACCATACCGA
* * * * ***
79459 TGGCTAGGGTACTGCATATGTTGCGAGTCCTTGATAGCTCGTGTGAGCAGCATCGTGAGTTGGGA
1 TGGCTTGGGTACTGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCATGAGTCAAGA
* * *
79524 AAGAGATACAAATCCTAAAATGGGTTACAGGCCTGGTGATGGCTGAGATTTGTGCATAAGTGTC-
66 AAGAGATACAAATCCTAAAATGGATTACAGGCCTGGTGATGGCTGAGATTTATGCATAAGT-ACA
* *
79588 TATTCTCAACAGCTCGTGTGAGCAGTATCGTTAGGGGAAAGTTATACAGACAGACACCATACTGA
130 TATTCTCAACAGCTCGTGTGAGCAGTATCATTAGGGGAAAGTTATACAGACAGACACCATACCGA
* * * * * *
79653 TGG-TTGGAGAACCGCATATTTTGCGAGTCCTCAACAGCTCATGTGAGCAGTATCA
1 TGGCTTGG-GTACTGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCA
79708 GGTATTGGTA
Statistics
Matches: 212, Mismatches: 34, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
193 4 0.02
194 207 0.98
195 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (194 bp):
TGGCTTGGGTACTGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCATGAGTCAAGA
AAGAGATACAAATCCTAAAATGGATTACAGGCCTGGTGATGGCTGAGATTTATGCATAAGTACAT
ATTCTCAACAGCTCGTGTGAGCAGTATCATTAGGGGAAAGTTATACAGACAGACACCATACCGA
Found at i:80009 original size:23 final size:22
Alignment explanation
Indices: 79975--80017 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
79965 ATTAATATAA
*
79975 TAAAATATGATTGAATGAAATAG
1 TAAAATATGATT-AATAAAATAG
79998 TAAAATGA-GATTAATAAAAT
1 TAAAAT-ATGATTAATAAAAT
80018 GAAATGTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 7 0.39
23 10 0.56
24 1 0.06
ACGTcount: A:0.56, C:0.00, G:0.14, T:0.30
Consensus pattern (22 bp):
TAAAATATGATTAATAAAATAG
Found at i:95667 original size:33 final size:28
Alignment explanation
Indices: 95590--95664 Score: 132
Period size: 28 Copynumber: 2.7 Consensus size: 28
95580 AAACACCTTG
*
95590 TTCTAATAAAAATAAAATAGATGACTTA
1 TTCTAATCAAAATAAAATAGATGACTTA
95618 TTCTAATCAAAATAAAATAGATGACTTA
1 TTCTAATCAAAATAAAATAGATGACTTA
*
95646 TTTTAATCAAAATAAAATA
1 TTCTAATCAAAATAAAATA
95665 AAAGAAGTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.33
Consensus pattern (28 bp):
TTCTAATCAAAATAAAATAGATGACTTA
Found at i:104801 original size:49 final size:47
Alignment explanation
Indices: 104748--104864 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 47
104738 ATTGTCTGTG
104748 TAGTCTTCATCTAATCTTTCACTCTCTAACTCTCCATATATATT-AGTCA
1 TAGTCTTCATCTAATC-TTCACTCTCT-ACTCTCCATATATATTGA-TCA
104797 TAGTCTTCATCT-A-C-T--CTCTC-ACTCTCCATATATATTGATCA
1 TAGTCTTCATCTAATCTTCACTCTCTACTCTCCATATATATTGATCA
* *
104838 TAGTCATCATTTAATCTCTCACTCTCT
1 TAGTCTTCATCTAATCT-TCACTCTCT
104865 CATTGTCTCA
Statistics
Matches: 58, Mismatches: 2, Indels: 17
0.75 0.03 0.22
Matches are distributed among these distances:
41 29 0.50
42 2 0.03
43 6 0.10
45 2 0.03
47 6 0.10
48 1 0.02
49 12 0.21
ACGTcount: A:0.25, C:0.28, G:0.04, T:0.43
Consensus pattern (47 bp):
TAGTCTTCATCTAATCTTCACTCTCTACTCTCCATATATATTGATCA
Found at i:104813 original size:41 final size:41
Alignment explanation
Indices: 104768--104863 Score: 140
Period size: 41 Copynumber: 2.3 Consensus size: 41
104758 CTAATCTTTC
* *
104768 ACTCTCTAACTCTCCATATATATT-AGTCATAGTCTTCATCT
1 ACTCTCTCACTCTCCATATATATTGA-TCATAGTCATCATCT
*
104809 ACTCTCTCACTCTCCATATATATTGATCATAGTCATCATTT
1 ACTCTCTCACTCTCCATATATATTGATCATAGTCATCATCT
*
104850 AATCTCTCACTCTC
1 ACTCTCTCACTCTC
104864 TCATTGTCTC
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 49 0.98
42 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.04, T:0.41
Consensus pattern (41 bp):
ACTCTCTCACTCTCCATATATATTGATCATAGTCATCATCT
Found at i:106896 original size:34 final size:34
Alignment explanation
Indices: 106858--106925 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
106848 TCTATACATA
106858 TATATATATATATTTTCTTTTTATCAATTTTTTT
1 TATATATATATATTTTCTTTTTATCAATTTTTTT
106892 TATATATATATATTTTCTTTTTATCAATTTTTTT
1 TATATATATATATTTTCTTTTTATCAATTTTTTT
106926 CTTTCTTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (34 bp):
TATATATATATATTTTCTTTTTATCAATTTTTTT
Found at i:106921 original size:15 final size:15
Alignment explanation
Indices: 106869--106922 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
106859 ATATATATAT
106869 ATTTTCTTTTTATCA
1 ATTTTCTTTTTATCA
* *
106884 ATTTTTTTTATATATATA
1 ATTTTCTTT-T-TAT-CA
106902 TATTTTCTTTTTATCA
1 -ATTTTCTTTTTATCA
106918 ATTTT
1 ATTTT
106923 TTTCTTTCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 13 0.42
16 2 0.06
17 6 0.19
18 2 0.06
19 8 0.26
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTCTTTTTATCA
Found at i:107964 original size:3 final size:3
Alignment explanation
Indices: 107956--108002 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
107946 AAGCTACAAA
* *
107956 TTC TTC TTC TTC TTC TTT TTC -TC TTGC TTC TTC TTT TTC -TC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC
108000 TTC
1 TTC
108003 CTCCTCTTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 4 0.11
3 30 0.81
4 3 0.08
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:107985 original size:18 final size:17
Alignment explanation
Indices: 107960--108002 Score: 77
Period size: 18 Copynumber: 2.5 Consensus size: 17
107950 TACAAATTCT
107960 TCTTCTTCTTCTTTTTC
1 TCTTCTTCTTCTTTTTC
107977 TCTTGCTTCTTCTTTTTC
1 TCTT-CTTCTTCTTTTTC
107995 TCTTCTTC
1 TCTTCTTC
108003 CTCCTCTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.67
Consensus pattern (17 bp):
TCTTCTTCTTCTTTTTC
Found at i:132866 original size:37 final size:36
Alignment explanation
Indices: 132817--132886 Score: 113
Period size: 37 Copynumber: 1.9 Consensus size: 36
132807 ACTGACTCGT
*
132817 TCCATGTCGCTGCATTGTTGCCAACATTTAACATCC
1 TCCATGTCGCTGCATTGTTGCCAACATTCAACATCC
*
132853 TCCATTGTTGCTGCATTGTTGCCAACATTCAACA
1 TCCA-TGTCGCTGCATTGTTGCCAACATTCAACA
132887 GCAATAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 4 0.13
37 27 0.87
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (36 bp):
TCCATGTCGCTGCATTGTTGCCAACATTCAACATCC
Found at i:137793 original size:18 final size:19
Alignment explanation
Indices: 137772--137808 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
137762 ATCAAAAAGT
*
137772 CGAGAAAAA-AGAAAAATA
1 CGAGAAAAATAAAAAAATA
137790 CGAGAAAAATAAAAAAATA
1 CGAGAAAAATAAAAAAATA
137809 ATCTGTGCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.73, C:0.05, G:0.14, T:0.08
Consensus pattern (19 bp):
CGAGAAAAATAAAAAAATA
Found at i:143977 original size:18 final size:18
Alignment explanation
Indices: 143927--143969 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
143917 AATTAGGAGA
*
143927 TTCAATCTTTCTTGTTGT
1 TTCAATCTTTCTTGCTGT
143945 TTCAATCTTTCTTGCTGT
1 TTCAATCTTTCTTGCTGT
143963 TTCAATC
1 TTCAATC
143970 ATTTTTGCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.14, C:0.21, G:0.09, T:0.56
Consensus pattern (18 bp):
TTCAATCTTTCTTGCTGT
Found at i:148683 original size:21 final size:19
Alignment explanation
Indices: 148659--148700 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
148649 TATTTTTTAA
*
148659 TGTAACTATGTTAATTTAGTT
1 TGTAACT-TGTTAACTT-GTT
148680 TGTAACTTGTTAACTTGTT
1 TGTAACTTGTTAACTTGTT
148699 TG
1 TG
148701 GTTATGATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 8 0.40
21 7 0.35
ACGTcount: A:0.24, C:0.07, G:0.17, T:0.52
Consensus pattern (19 bp):
TGTAACTTGTTAACTTGTT
Found at i:153443 original size:15 final size:15
Alignment explanation
Indices: 153423--153456 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
153413 GAAAAATGTC
*
153423 ATTTTTCTTCCTTTA
1 ATTTTTCATCCTTTA
153438 ATTTTTCATCCTTTA
1 ATTTTTCATCCTTTA
153453 ATTT
1 ATTT
153457 CATATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTTTTCATCCTTTA
Found at i:155068 original size:49 final size:50
Alignment explanation
Indices: 154999--155117 Score: 136
Period size: 49 Copynumber: 2.4 Consensus size: 50
154989 ATACAATATA
* * **
154999 TGAAC-AAATAATATAAATAAATATTTATATATATATAATTC-C-AAATC
1 TGAACAAAACAATTTAAATAAATATTTATATATATATAAAACACTAAATC
* * *
155046 TGAACAAAAACAATTTAAATAAATATTTATTTTTATATAAAACACTAGATC
1 TGAAC-AAAACAATTTAAATAAATATTTATATATATATAAAACACTAAATC
*
155097 TGAACAAAACAATTTAGATAA
1 TGAACAAAACAATTTAAATAA
155118 CAAGTTCTGA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
47 5 0.08
49 30 0.50
50 16 0.27
51 9 0.15
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (50 bp):
TGAACAAAACAATTTAAATAAATATTTATATATATATAAAACACTAAATC
Found at i:157900 original size:82 final size:82
Alignment explanation
Indices: 157696--158311 Score: 615
Period size: 82 Copynumber: 7.6 Consensus size: 82
157686 CAAAAATCAA
* * * * * * * * *
157696 AATAAATTCTGTTAAACGACAGAAATAAATCTTGAAACAGACTTATTTAATTAATTATTGTTTGC
1 AATAAAATCTGTTGAACGACGGGAATAAATCTCGAAACAGAATTATTCAATTAATCATTGTTTGG
*
157761 AAACAAAGTCAAAAT--
66 AAACAAAATCAAAATAG
* * * *
157776 -AT--ATTCTATTGAAC-AGCAGGAATAAATCTCGAAACA-ACATTATTCAATTAATTATTGTTT
1 AATAAAATCTGTTGAACGA-CGGGAATAAATCTCGAAACAGA-ATTATTCAATTAATCATTGTTT
* *
157836 GGAAACAAAATTAGAATAG
64 GGAAACAAAATCAAAATAG
* * * * *
157855 AATAAAATCTGTTGAACGGCGTGAATAAATCCCGAAACAAAATTATTCTATTAATTC-TTGTTTG
1 AATAAAATCTGTTGAACGACGGGAATAAATCTCGAAACAGAATTATTCAATTAA-TCATTGTTTG
* *
157919 GAAACAAAATCAGAGTAG
65 GAAACAAAATCAAAATAG
* * * * *
157937 AATAAAATCTATTGTACCACAGGAATAAATCTCGAAACAGAATTATTCAATTAATCCTTGTTTGG
1 AATAAAATCTGTTGAACGACGGGAATAAATCTCGAAACAGAATTATTCAATTAATCATTGTTTGG
* *
158002 AAACGAAATTAAAATAG
66 AAACAAAATCAAAATAG
* * * * *
158019 AATAAAATCAGTTTAAC-AGTGGGAATAAATCTCGAAATAGAATTATTCAATTAATCATTGTTTC
1 AATAAAATCTGTTGAACGA-CGGGAATAAATCTCGAAACAGAATTATTCAATTAATCATTGTTTG
158083 GAAACAAAATCAAAATAG
65 GAAACAAAATCAAAATAG
* * * ** * * * *
158101 AATAAAATCTATTAAATGACATGAATAAATCTCGAAATAGAATTATTCAATTAATCCTTATTTGA
1 AATAAAATCTGTTGAACGACGGGAATAAATCTCGAAACAGAATTATTCAATTAATCATTGTTTGG
158166 AAACAAAATCAAAATAG
66 AAACAAAATCAAAATAG
* *
158183 AATAAAATCTGTTGAACGATGGGAATAAATCTCGAAACAGATTTATT-AATTTAATCATT-TTTG
1 AATAAAATCTGTTGAACGACGGGAATAAATCTCGAAACAGAATTATTCAA-TTAATCATTGTTTG
* *
158246 GAAACAAAATAAAAATAA
65 GAAACAAAATCAAAATAG
* ** * * * *
158264 AATAAAATTTGTTGAACGGTGAGAATAAATTTCGAAATAGATTTATTC
1 AATAAAATCTGTTGAACGACGGGAATAAATCTCGAAACAGAATTATTC
158312 GATTTTAATT
Statistics
Matches: 449, Mismatches: 72, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
76 2 0.00
77 61 0.14
79 2 0.00
80 2 0.00
81 66 0.15
82 313 0.70
83 3 0.01
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (82 bp):
AATAAAATCTGTTGAACGACGGGAATAAATCTCGAAACAGAATTATTCAATTAATCATTGTTTGG
AAACAAAATCAAAATAG
Found at i:158857 original size:50 final size:50
Alignment explanation
Indices: 158803--158966 Score: 229
Period size: 50 Copynumber: 3.2 Consensus size: 50
158793 TTGAATAAAC
*
158803 AATTTAAATAAATATTTATAATTATTTAAAACACTAGATCTGAACAAAAA
1 AATTTAAATAAATATTTATAATTATATAAAACACTAGATCTGAACAAAAA
* * *
158853 AATTTAAATAGATATTTATACTTATATAAAACTCTAGATCTGAACAAAAAA
1 AATTTAAATAAATATTTATAATTATATAAAACACTAGATCTGAAC-AAAAA
** * *
158904 TAATTTAAATAAATATTTATTTTTATATAAAACACCAGATCTGAACAAAAC
1 -AATTTAAATAAATATTTATAATTATATAAAACACTAGATCTGAACAAAAA
*
158955 AATTTAGATAAA
1 AATTTAAATAAA
158967 CAAGTTTTGA
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
50 52 0.51
51 9 0.09
52 40 0.40
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (50 bp):
AATTTAAATAAATATTTATAATTATATAAAACACTAGATCTGAACAAAAA
Found at i:162731 original size:2 final size:2
Alignment explanation
Indices: 162724--162755 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
162714 GTTATCACTT
162724 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
162756 TATCACCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:162963 original size:21 final size:20
Alignment explanation
Indices: 162914--162987 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 20
162904 TGTGCTAACT
162914 CTACCGATACAAGT-ATAAA
1 CTACCGATACAAGTCATAAA
* *
162933 TTCTATCGATACAAGTCATGCAA
1 --CTACCGATACAAGTCAT-AAA
*
162956 CTACCGATATAAG-CATATAAA
1 CTACCGATACAAGTC--ATAAA
162977 CTACCGATACA
1 CTACCGATACA
162988 TCAATACTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
20 1 0.02
21 36 0.84
22 4 0.09
23 2 0.05
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.24
Consensus pattern (20 bp):
CTACCGATACAAGTCATAAA
Found at i:163671 original size:24 final size:24
Alignment explanation
Indices: 163644--163747 Score: 131
Period size: 24 Copynumber: 4.3 Consensus size: 24
163634 ACAAGCCTAG
163644 AATGGTTAGCTCTTACGAGCCAAA
1 AATGGTTAGCTCTTACGAGCCAAA
*
163668 AATGGTTAGCTCTTACGAGCCCAA
1 AATGGTTAGCTCTTACGAGCCAAA
* * *
163692 ATTGGTTAGCTTTTACGAGCTC-GA
1 AATGGTTAGCTCTTACGAGC-CAAA
*
163716 AATGGTTAGCTCTTACAAGCCCAAA
1 AATGGTTAGCTCTTACGAG-CCAAA
163741 AA-GGTTA
1 AATGGTTA
163748 ACCAGTATAC
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
24 64 0.93
25 5 0.07
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (24 bp):
AATGGTTAGCTCTTACGAGCCAAA
Found at i:163708 original size:48 final size:48
Alignment explanation
Indices: 163646--163740 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
163636 AAGCCTAGAA
*
163646 TGGTTAGCTCTTACGAGC-CAAAAATGGTTAGCTCTTACGAGCCCAAAT
1 TGGTTAGCTCTTACGAGCTC-AAAATGGTTAGCTCTTACAAGCCCAAAT
* *
163694 TGGTTAGCTTTTACGAGCTCGAAATGGTTAGCTCTTACAAGCCCAAA
1 TGGTTAGCTCTTACGAGCTCAAAATGGTTAGCTCTTACAAGCCCAAA
163741 AAGGTTAACC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 42 0.98
49 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (48 bp):
TGGTTAGCTCTTACGAGCTCAAAATGGTTAGCTCTTACAAGCCCAAAT
Found at i:170493 original size:3 final size:3
Alignment explanation
Indices: 170485--170516 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
170475 TTAGTCCCAT
170485 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
170517 TGAACAACTA
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:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:172199 original size:49 final size:49
Alignment explanation
Indices: 172078--172201 Score: 187
Period size: 49 Copynumber: 2.5 Consensus size: 49
172068 ATGTTTTTTC
* * *
172078 TAGTCTTCATCTAATCCCTCACCCTCTCACTCTCCATATATATTTATCA
1 TAGTCTTCTTCTAATCTCTCACTCTCTCACTCTCCATATATATTTATCA
* *
172127 TAGTCTTCATT-TAATCTCACACTCTCTCACTCTCCATATTTATTTATCA
1 TAGTCTTC-TTCTAATCTCTCACTCTCTCACTCTCCATATATATTTATCA
172176 TAGTCTTCTTCTAATCTCTCACTCTC
1 TAGTCTTCTTCTAATCTCTCACTCTC
172202 CATATATACT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
48 2 0.03
49 64 0.96
50 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.02, T:0.43
Consensus pattern (49 bp):
TAGTCTTCTTCTAATCTCTCACTCTCTCACTCTCCATATATATTTATCA
Found at i:175969 original size:41 final size:41
Alignment explanation
Indices: 175923--176002 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
175913 ATGTTTATCT
*
175923 AATCTTCATCTAATCTCTCCCTCTCCATATATATTAACCAG
1 AATCTTCATCTAATCTCTCACTCTCCATATATATTAACCAG
*
175964 AATCTTCATCTAATCTCTCACTTTCCATATATATTAACC
1 AATCTTCATCTAATCTCTCACTCTCCATATATATTAACC
176003 TTTTGCCTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.30, C:0.30, G:0.01, T:0.39
Consensus pattern (41 bp):
AATCTTCATCTAATCTCTCACTCTCCATATATATTAACCAG
Found at i:177658 original size:18 final size:18
Alignment explanation
Indices: 177636--177685 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
177626 ATTTATTTTA
177636 AAAAATATAAAAATGAAAT
1 AAAAATATAAAAAT-AAAT
**
177655 AAAAATATTTAAATAAAT
1 AAAAATATAAAAATAAAT
*
177673 AAAACTATAAAAA
1 AAAAATATAAAAA
177686 ATATATAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAAATATAAAAATAAAT
Found at i:178699 original size:22 final size:22
Alignment explanation
Indices: 178671--178715 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
178661 CGTTACGTTA
178671 TAGATTCCGGCTATGGTTGTTT
1 TAGATTCCGGCTATGGTTGTTT
178693 TAGATTCCGGCTATGGTTGTTT
1 TAGATTCCGGCTATGGTTGTTT
178715 T
1 T
178716 TACTTCTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.13, G:0.27, T:0.47
Consensus pattern (22 bp):
TAGATTCCGGCTATGGTTGTTT
Done.