Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001300.1 Hibiscus syriacus cultivar Beakdansim tig00002539_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: 78578
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:1829 original size:43 final size:42
Alignment explanation
Indices: 1778--1901 Score: 104
Period size: 43 Copynumber: 3.0 Consensus size: 42
1768 ATATATAAAC
1778 TATA-TTATACTACTATATTTATTAATATAAACTATAAAGTATA
1 TATATTTATA-TA-TATATTTATTAATATAAACTATAAAGTATA
* * * *
1821 TA-ATTTATATAATTATATTTATAAACTAT-AAGTAT--AGTTTC
1 TATATTTATAT-A-TATATTTATTAA-TATAAACTATAAAGTATA
1862 TATATTTATATA-AT-TTTATT--TATAAACTATAAAGTATA
1 TATATTTATATATATATTTATTAATATAAACTATAAAGTATA
1900 TA
1 TA
1902 GTTTTTTATT
Statistics
Matches: 65, Mismatches: 9, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
35 3 0.05
36 5 0.08
38 11 0.17
39 2 0.03
41 7 0.11
42 10 0.15
43 24 0.37
44 3 0.05
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (42 bp):
TATATTTATATATATATTTATTAATATAAACTATAAAGTATA
Found at i:1960 original size:25 final size:25
Alignment explanation
Indices: 1932--2014 Score: 85
Period size: 25 Copynumber: 3.1 Consensus size: 25
1922 TATAATAAAC
1932 TAGTTCATTAGTATATATAACTATA
1 TAGTTCATTAGTATATATAACTATA
* *
1957 TAGTTCACTATTATATATAAACTATAGTA
1 TAGTTCATTAGTATATAT-AAC--TA-TA
*
1986 TATTGTTCATTAGTATATATAATTATA
1 TA--GTTCATTAGTATATATAACTATA
2013 TA
1 TA
2015 TTATATATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
25 16 0.34
26 3 0.06
27 4 0.09
28 4 0.09
29 4 0.09
30 2 0.04
31 14 0.30
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (25 bp):
TAGTTCATTAGTATATATAACTATA
Found at i:2060 original size:70 final size:73
Alignment explanation
Indices: 1968--2130 Score: 248
Period size: 70 Copynumber: 2.3 Consensus size: 73
1958 AGTTCACTAT
1968 TATATATAAAC--TATAGTATATTGTTCATTAGTATATATAATTATATATTATATA-T-TTAGTG
1 TATATATAAACTATATAGTATATTGTTCATTAGTATATATAATTATATATTATATAGTATTAGTG
2029 TATAT-AA
66 TATATGAA
2036 -ACTATATAAACTATATAGTATATTGTTCATTAGTATATATAATTATATATTATATAGTTCATTA
1 TA-TATATAAACTATATAGTATATTGTTCATTAGTATATATAATTATATATTATATAG-T-ATTA
2100 GTGTATATGAA
63 GTGTATATGAA
2111 TTATATATAAACTATATAGT
1 -TATATATAAACTATATAGT
2131 TCATTAGTAT
Statistics
Matches: 85, Mismatches: 0, Indels: 12
0.88 0.00 0.12
Matches are distributed among these distances:
67 1 0.01
68 9 0.11
70 43 0.51
72 1 0.01
74 11 0.13
75 2 0.02
76 17 0.20
77 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (73 bp):
TATATATAAACTATATAGTATATTGTTCATTAGTATATATAATTATATATTATATAGTATTAGTG
TATATGAA
Found at i:2106 original size:17 final size:17
Alignment explanation
Indices: 2053--2107 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
2043 AAACTATATA
*
2053 GTATATTGTTCATTAGT
1 GTATATAGTTCATTAGT
* *
2070 ATATATAATT-ATATA-T
1 GTATATAGTTCAT-TAGT
2086 -TATATAGTTCATTAGT
1 GTATATAGTTCATTAGT
2102 GTATAT
1 GTATAT
2108 GAATTATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
15 10 0.33
16 6 0.20
17 14 0.47
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.51
Consensus pattern (17 bp):
GTATATAGTTCATTAGT
Found at i:2198 original size:23 final size:23
Alignment explanation
Indices: 2125--2198 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
2115 ATATAAACTA
2125 TATAG-TTCATTAGTATATATAC
1 TATAGTTTCATTAGTATATATAC
*
2147 TATATAGTTT-ATATA-AACTATAGTA-
1 --TATAGTTTCAT-TAGTA-TATA-TAC
2172 TATAGTTTCATTAGTATATATAC
1 TATAGTTTCATTAGTATATATAC
2195 TATA
1 TATA
2199 TATTAATTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 15
0.71 0.03 0.26
Matches are distributed among these distances:
22 2 0.05
23 18 0.44
24 11 0.27
25 8 0.20
26 2 0.05
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (23 bp):
TATAGTTTCATTAGTATATATAC
Found at i:2223 original size:48 final size:46
Alignment explanation
Indices: 2110--2223 Score: 122
Period size: 48 Copynumber: 2.3 Consensus size: 46
2100 GTGTATATGA
2110 ATTATATATAAACTATATAGTTCATTAGTATATATACTATATAGTTTAT
1 ATTA-ATAT-AAC-ATATAGTTCATTAGTATATATACTATATAGTTTAT
* ** *
2159 ATAAACTATAGTATATAGTTTCATTAGTATATATACTATATA-TTAATTT
1 ATTAA-TATAACATATAG-TTCATTAGTATATATACTATATAGTT--TAT
2208 ATTAATATAACATATA
1 ATTAATATAACATATA
2224 TATTAATTGA
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
47 8 0.15
48 34 0.63
49 12 0.22
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (46 bp):
ATTAATATAACATATAGTTCATTAGTATATATACTATATAGTTTAT
Found at i:3062 original size:52 final size:52
Alignment explanation
Indices: 2929--3063 Score: 120
Period size: 52 Copynumber: 2.6 Consensus size: 52
2919 AACCCACAAC
* * *
2929 TATTCATCTTCTC-AACCCAAACCCTAA--TAAGGTCTCTTCACTTTCTGTCTA
1 TATTCATCTTTTCTAACCCAAACACTAACCTAA--CCTCTTCACTTTCTGTCTA
* *
2980 TATTCATCTTTTCTAATCCAAACACTAACCTAACCTCTTCACCTTT-TGTTTA
1 TATTCATCTTTTCTAACCCAAACACTAACCTAACCTCTTCA-CTTTCTGTCTA
* *
3032 TATTTATCTTCTT-TAACCCCAA-ACTAAACCTA
1 TATTCATCTT-TTCTAACCCAAACACT-AACCTA
3064 TTAATCTTCT
Statistics
Matches: 70, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
51 15 0.21
52 46 0.66
53 6 0.09
54 3 0.04
ACGTcount: A:0.28, C:0.30, G:0.03, T:0.39
Consensus pattern (52 bp):
TATTCATCTTTTCTAACCCAAACACTAACCTAACCTCTTCACTTTCTGTCTA
Found at i:4574 original size:22 final size:22
Alignment explanation
Indices: 4548--4624 Score: 120
Period size: 22 Copynumber: 3.5 Consensus size: 22
4538 TTCAGTATTT
4548 GTCCCGAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
*
4570 GTCCCAAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
* *
4592 GTACCG-ATGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
4613 GTCCCGAAGGAC
1 GTCCCGAAGGAC
4625 TAATATACCC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
21 19 0.40
22 29 0.60
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (22 bp):
GTCCCGAAGGACCACTGGATAC
Found at i:5319 original size:66 final size:64
Alignment explanation
Indices: 5214--5336 Score: 149
Period size: 66 Copynumber: 1.9 Consensus size: 64
5204 CATAAATCCT
* *
5214 ATTCGATGTTTGTATTTTAAGGAGATGCATCGATGCACTCCTTATGCATCAATGCACTAATGAC
1 ATTCGATGTTTGTATTTTAAGGAGATGCATCGATACACTCCATATGCATCAATGCACTAATGAC
* * * * *
5278 ATTCGATGTTCATTTATTTTAAATGAG-TGCATTGATACACTCCATGTGCATCGATGCAC
1 ATTCGATGTT--TGTATTTT-AAGGAGATGCATCGATACACTCCATATGCATCAATGCAC
5337 CTTCAACAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
64 10 0.20
66 34 0.69
67 5 0.10
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (64 bp):
ATTCGATGTTTGTATTTTAAGGAGATGCATCGATACACTCCATATGCATCAATGCACTAATGAC
Found at i:11558 original size:22 final size:22
Alignment explanation
Indices: 11530--11572 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
11520 TCTCCTGAAG
*
11530 AACCACTGGATACGTCCCGAAA
1 AACCACTGGATACATCCCGAAA
11552 AACCACTGGATACATCCCGAA
1 AACCACTGGATACATCCCGAA
11573 GGACTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.33, G:0.16, T:0.14
Consensus pattern (22 bp):
AACCACTGGATACATCCCGAAA
Found at i:15723 original size:14 final size:14
Alignment explanation
Indices: 15691--15723 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
15681 TTGAAGATTT
*
15691 ATAACATAAGAATC
1 ATAATATAAGAATC
15705 ATAATATAAGAATC
1 ATAATATAAGAATC
15719 ATAAT
1 ATAAT
15724 TAATATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.27
Consensus pattern (14 bp):
ATAATATAAGAATC
Found at i:15729 original size:18 final size:18
Alignment explanation
Indices: 15706--15768 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
15696 ATAAGAATCA
*
15706 TAATATAAGAATCATAAT
1 TAATATAATAATCATAAT
*
15724 TAATATAATAAGTCTATTTAT
1 TAATATAATAA-TC-A-TAAT
* *
15745 TAATTTAATTATCATAAT
1 TAATATAATAATCATAAT
15763 TAATAT
1 TAATAT
15769 TTTATTATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 18 0.50
19 3 0.08
20 3 0.08
21 12 0.33
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (18 bp):
TAATATAATAATCATAAT
Found at i:15849 original size:19 final size:19
Alignment explanation
Indices: 15825--15864 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15815 TTATAAACTC
*
15825 AAAATCTCAAAATTTTATT
1 AAAATCTCAAAATTTCATT
* *
15844 AAAATCTTATAATTTCATT
1 AAAATCTCAAAATTTCATT
15863 AA
1 AA
15865 TGATAATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATCTCAAAATTTCATT
Found at i:17807 original size:17 final size:18
Alignment explanation
Indices: 17764--17804 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
17754 GAATTATATT
17764 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
17781 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
17799 ATTAAA
1 AGTAAA
17805 TACATAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:18130 original size:50 final size:50
Alignment explanation
Indices: 18026--18132 Score: 135
Period size: 50 Copynumber: 2.1 Consensus size: 50
18016 GGATCAGGGG
* * *
18026 GCGCGCTATACCCACGTGGCGCTAAATCACCGTATATCACGGGGCAGGGG
1 GCGCGCTATACCCACGTGGCGCTAAATCACCGTATAACACGGGGCAAGGA
* * **
18076 GCGCGCTATACCCACGTGGCG-TCAAATCAGCGTATAACGCGGTTCAAGGA
1 GCGCGCTATACCCACGTGGCGCT-AAATCACCGTATAACACGGGGCAAGGA
18126 GCGCGCT
1 GCGCGCT
18133 TTACTGCTAC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
49 1 0.02
50 48 0.98
ACGTcount: A:0.22, C:0.30, G:0.31, T:0.17
Consensus pattern (50 bp):
GCGCGCTATACCCACGTGGCGCTAAATCACCGTATAACACGGGGCAAGGA
Found at i:21103 original size:12 final size:11
Alignment explanation
Indices: 21086--21142 Score: 55
Period size: 12 Copynumber: 5.2 Consensus size: 11
21076 CTATGTAGTG
21086 TATATATGACTA
1 TATATAT-ACTA
*
21098 TATATAAACTA
1 TATATATACTA
21109 TATTATATACTA
1 TA-TATATACTA
*
21121 TATAT-TATTA
1 TATATATACTA
*
21131 -ATATAAACTA
1 TATATATACTA
21141 TA
1 TA
21143 AAGTATATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
9 4 0.11
10 7 0.19
11 10 0.27
12 16 0.43
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (11 bp):
TATATATACTA
Found at i:21223 original size:46 final size:46
Alignment explanation
Indices: 21148--21268 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
21138 CTATAAAGTA
*
21148 TATAATTTATATAATTATA-TTATAAACTATAAAGTATATAGTTTC
1 TATACTTTATATAATTATATTTATAAACTATAAAGTATATAGTTTC
* *
21193 TATACTTTATATAATTTTATTTATAAACTATAAAGTATATAGTTTT
1 TATACTTTATATAATTATATTTATAAACTATAAAGTATATAGTTTC
* *
21239 TATTCTTTATATAATTATATTAATAAACTA
1 TATACTTTATATAATTATATTTATAAACTA
21269 GTTCATTAGT
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
45 17 0.25
46 52 0.75
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (46 bp):
TATACTTTATATAATTATATTTATAAACTATAAAGTATATAGTTTC
Found at i:21306 original size:33 final size:33
Alignment explanation
Indices: 21267--21593 Score: 249
Period size: 33 Copynumber: 9.1 Consensus size: 33
21257 ATTAATAAAC
21267 TAGTTCATTAGTATATATAAACTATATATTATA
1 TAGTTCATTAGTATATATAAACTATATATTATA
* *
21300 TAGTTCATTAGTATATGTAAACTATATAGTATA
1 TAGTTCATTAGTATATATAAACTATATATTATA
* * *** *
21333 TATTTCATATACTTCATATCGTTCATTAGTTTATATAAACTATA
1 TAGTTCAT-TA-GT-ATA----T-A-TAAACTATAT--ATTATA
* *
21377 TAGTTCATTATTATATATAAACTATATAGTATA
1 TAGTTCATTAGTATATATAAACTATATATTATA
* *
21410 TTGTTCATTAGTATATATAAATTATATATTATA
1 TAGTTCATTAGTATATATAAACTATATATTATA
*
21443 TAGTTCATTAGTGTATATAAACTATATATAAACTATATAGTA
1 TAGTTCATTAGTATATATAAAC----TAT--A-TAT-TA-TA
*
21485 TATTGTTCATTAGTATATATAAATTATATATTATA
1 TA--GTTCATTAGTATATATAAACTATATATTATA
* * *
21520 TAGTTCATTAGTGTATATGAATTATATATAAACTATA
1 TAGTTCATTAGTATATATAAACTATATAT----TATA
21557 TAGTTCATTAGTATATATAAACTATATAGTTTATA
1 TAGTTCATTAGTATATATAAACTATATA--TTATA
21592 TA
1 TA
21594 AACTATATAG
Statistics
Matches: 238, Mismatches: 28, Indels: 54
0.74 0.09 0.17
Matches are distributed among these distances:
33 116 0.49
34 2 0.01
35 18 0.08
36 6 0.03
37 36 0.15
38 1 0.00
39 2 0.01
40 7 0.03
41 5 0.02
42 13 0.05
43 2 0.01
44 30 0.13
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (33 bp):
TAGTTCATTAGTATATATAAACTATATATTATA
Found at i:21325 original size:26 final size:26
Alignment explanation
Indices: 21296--21406 Score: 113
Period size: 26 Copynumber: 4.3 Consensus size: 26
21286 AACTATATAT
*
21296 TATATAGTTCATTAGTATATGTAAAC
1 TATATAGTTCATTAGTATATATAAAC
* *
21322 TATATAG-T-A-TA-TATTTCATATAC
1 TATATAGTTCATTAGTATAT-ATAAAC
* *
21345 TTCATATCGTTCATTAGTTTATATAAAC
1 -T-ATATAGTTCATTAGTATATATAAAC
*
21373 TATATAGTTCATTATTATATATAAAC
1 TATATAGTTCATTAGTATATATAAAC
21399 TATATAGT
1 TATATAGT
21407 ATATTGTTCA
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
22 4 0.06
23 6 0.09
24 2 0.03
25 6 0.09
26 38 0.56
27 2 0.03
28 7 0.10
29 3 0.04
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (26 bp):
TATATAGTTCATTAGTATATATAAAC
Found at i:21331 original size:18 final size:18
Alignment explanation
Indices: 21275--21333 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
21265 ACTAGTTCAT
*
21275 TAGTATATATAAACTATA
1 TAGTATATGTAAACTATA
* *
21293 TATTATATAGT--TC-AT-
1 TAGTATAT-GTAAACTATA
21308 TAGTATATGTAAACTATA
1 TAGTATATGTAAACTATA
21326 TAGTATAT
1 TAGTATAT
21334 ATTTCATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
14 2 0.06
15 7 0.23
16 3 0.10
17 3 0.10
18 15 0.48
19 1 0.03
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (18 bp):
TAGTATATGTAAACTATA
Found at i:21385 original size:110 final size:110
Alignment explanation
Indices: 21267--21638 Score: 358
Period size: 110 Copynumber: 3.3 Consensus size: 110
21257 ATTAATAAAC
*
21267 TAGTTCATTAGTATATATAAACTATATATTATATAGTTCATTAGTATATGTAAACTATATAGTAT
1 TAGTTCATTAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTAT
* *** **
21332 ATATTTCATATACT-TCATAT-CGTTCAT-TAGTTTA-TATAAACTATA
66 ATAGTTCAT-TACTGT-ATATAAACT-ATATA-TAAACTATAAACTATA
* * * * *
21377 TAGTTCATTATTATATATAAACTATATAGTATATTGTTCATTAGTATATATAAATTATATATTAT
1 TAGTTCATTAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTAT
* * *
21442 ATAGTTCATTAGTGTATATAAACTATATATAAACTATATAGTATA
66 ATAGTTCATTACTGTATATAAACTATATATAAACTATAAACTATA
* * *
21487 TTGTTCATTAGTATATATAAATTATATATTATATAGTTCATTAGTGTATATGAATTA-TATATAA
1 TAGTTCATTAGTATATATAAACTATATATTATATAGTTCATTAGTATATAT-AA--ACTATAT--
* * * * *
21551 ACTATATAGTTCATTAGTATATATAAACTATATAGTTTATATAAACTATATAGTATA
61 AGTATATAGTTCATTACTGTATATAAAC----TA---TATATAAACTATAAACTATA
21608 TAGTTCATTAGTATATATAAACTATATATTA
1 TAGTTCATTAGTATATATAAACTATATATTA
21639 ATTTATCAAT
Statistics
Matches: 221, Mismatches: 25, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
109 11 0.05
110 125 0.57
111 2 0.01
112 5 0.02
113 1 0.00
114 26 0.12
118 2 0.01
121 49 0.22
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (110 bp):
TAGTTCATTAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTAT
ATAGTTCATTACTGTATATAAACTATATATAAACTATAAACTATA
Found at i:21469 original size:44 final size:44
Alignment explanation
Indices: 21421--21636 Score: 183
Period size: 44 Copynumber: 5.2 Consensus size: 44
21411 TGTTCATTAG
*
21421 TATATATAAATTATATATTATATAGTTCATTAGTGTATATAAAC
1 TATATATAAACTATATATTATATAGTTCATTAGTGTATATAAAC
* *
21465 TATATATAAACTATATAGTATATTGTTCATTA--GTATAT--A-
1 TATATATAAACTATATATTATATAGTTCATTAGTGTATATAAAC
* *
21504 TA-A-AT----TATATATTATATAGTTCATTAGTGTATATGAAT
1 TATATATAAACTATATATTATATAGTTCATTAGTGTATATAAAC
** * *
21542 TATATATAAACTATATAGTTCAT-TAG-T-ATATA-TAAACTATATAG
1 TATATATAAACTATATA-TT-ATATAGTTCAT-TAGTGTA-TATAAAC
* * *
21586 TTTATATAAACTATATAGTATATAGTTCATTAGTATATATAAAC
1 TATATATAAACTATATATTATATAGTTCATTAGTGTATATAAAC
21630 TATATAT
1 TATATAT
21637 TAATTTATCA
Statistics
Matches: 137, Mismatches: 16, Indels: 38
0.72 0.08 0.20
Matches are distributed among these distances:
33 19 0.14
35 6 0.04
37 3 0.02
38 3 0.02
39 3 0.02
40 3 0.02
42 8 0.06
43 8 0.06
44 72 0.53
45 10 0.07
46 2 0.01
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (44 bp):
TATATATAAACTATATATTATATAGTTCATTAGTGTATATAAAC
Found at i:21469 original size:77 final size:77
Alignment explanation
Indices: 21388--21560 Score: 328
Period size: 77 Copynumber: 2.2 Consensus size: 77
21378 AGTTCATTAT
21388 TATATATAAACTATATAGTATATTGTTCATTAGTATATATAAATTATATATTATATAGTTCATTA
1 TATATATAAACTATATAGTATATTGTTCATTAGTATATATAAATTATATATTATATAGTTCATTA
21453 GTGTATATAAAC
66 GTGTATATAAAC
21465 TATATATAAACTATATAGTATATTGTTCATTAGTATATATAAATTATATATTATATAGTTCATTA
1 TATATATAAACTATATAGTATATTGTTCATTAGTATATATAAATTATATATTATATAGTTCATTA
* *
21530 GTGTATATGAAT
66 GTGTATATAAAC
21542 TATATATAAACTATATAGT
1 TATATATAAACTATATAGT
21561 TCATTAGTAT
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
77 94 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.46
Consensus pattern (77 bp):
TATATATAAACTATATAGTATATTGTTCATTAGTATATATAAATTATATATTATATAGTTCATTA
GTGTATATAAAC
Found at i:21472 original size:11 final size:11
Alignment explanation
Indices: 21456--21481 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21446 TTCATTAGTG
21456 TATATAAACTA
1 TATATAAACTA
21467 TATATAAACTA
1 TATATAAACTA
21478 TATA
1 TATA
21482 GTATATTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (11 bp):
TATATAAACTA
Found at i:21571 original size:26 final size:26
Alignment explanation
Indices: 21542--21635 Score: 129
Period size: 26 Copynumber: 3.7 Consensus size: 26
21532 GTATATGAAT
21542 TATATATAAACTATATAGTTCATTAG
1 TATATATAAACTATATAGTTCATTAG
*
21568 TATATATAAACTATATAGTTTA-TA-
1 TATATATAAACTATATAGTTCATTAG
* * *
21592 TAAACTATATAGTATATAGTTCATTAG
1 TATA-TATAAACTATATAGTTCATTAG
21619 TATATATAAACTATATA
1 TATATATAAACTATATA
21636 TTAATTTATC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
24 3 0.05
25 17 0.30
26 34 0.60
27 3 0.05
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (26 bp):
TATATATAAACTATATAGTTCATTAG
Found at i:21591 original size:18 final size:18
Alignment explanation
Indices: 21565--21635 Score: 87
Period size: 18 Copynumber: 4.1 Consensus size: 18
21555 TATAGTTCAT
21565 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
*
21583 TAGTTTATATAAACTATA
1 TAGTATATATAAACTATA
*
21601 TAGTATATAGT--TC-AT-
1 TAGTATATA-TAAACTATA
21616 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
21634 TA
1 TA
21636 TTAATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
14 1 0.02
15 9 0.20
16 3 0.07
17 3 0.07
18 27 0.61
19 1 0.02
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:21660 original size:88 final size:88
Alignment explanation
Indices: 21495--21662 Score: 196
Period size: 88 Copynumber: 1.9 Consensus size: 88
21485 TATTGTTCAT
* * * * * *
21495 TAGTATATATAAATTATATATTATATAGTTCATTAGTGTATATGAATTATATATAAACTATATAG
1 TAGTATATATAAACTATATAGTATATAGTTCATTAGTATATATAAACTATATATAAACTATATAA
* **
21560 TTCATTAGTATATATAAACTATA
66 TTAAACAGTATATATAAACTATA
* * *
21583 TAGTTTATATAAACTATATAGTATATAGTTCATTAGTATATATAAACTATATATTAA-TTTATCA
1 TAGTATATATAAACTATATAGTATATAGTTCATTAGTATATATAAACTATATATAAACTATAT-A
21647 ATATAAACA-TATATAT
65 AT-TAAACAGTATATAT
21663 TAATTGAAAG
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
87 4 0.06
88 59 0.89
89 3 0.05
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (88 bp):
TAGTATATATAAACTATATAGTATATAGTTCATTAGTATATATAAACTATATATAAACTATATAA
TTAAACAGTATATATAAACTATA
Found at i:22610 original size:61 final size:61
Alignment explanation
Indices: 22545--22659 Score: 151
Period size: 61 Copynumber: 1.9 Consensus size: 61
22535 TTGAGCCTCT
* * * *
22545 TCATCTTCTATCTCTTTTCATCTTCTCTAACCTTAACCT-TTACTGTTCATCATCATCATCA
1 TCATCATCTATCTCTGTACATCTTCTCTAACCTTAA-CTGATACTGTTCATCATCATCATCA
* * *
22606 TCATCATCTTTTTCTGTACATCTTCTCTAACCTTAACTGATATTGTTCATCATC
1 TCATCATCTATCTCTGTACATCTTCTCTAACCTTAACTGATACTGTTCATCATC
22660 TTCTTCCTCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
60 2 0.04
61 44 0.96
ACGTcount: A:0.22, C:0.29, G:0.03, T:0.46
Consensus pattern (61 bp):
TCATCATCTATCTCTGTACATCTTCTCTAACCTTAACTGATACTGTTCATCATCATCATCA
Found at i:26033 original size:14 final size:14
Alignment explanation
Indices: 26001--26033 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
25991 TTGAAGATTT
*
26001 ATAACATAAGAATC
1 ATAATATAAGAATC
26015 ATAATATAAGAATC
1 ATAATATAAGAATC
26029 ATAAT
1 ATAAT
26034 TAATATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.27
Consensus pattern (14 bp):
ATAATATAAGAATC
Found at i:31892 original size:35 final size:33
Alignment explanation
Indices: 31807--31893 Score: 86
Period size: 35 Copynumber: 2.5 Consensus size: 33
31797 ATTTGGTATT
*
31807 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATAC-ACAAAATTACAATAAGAATTAAATGG
* *
31841 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-A-CACAAAATTACAATAA--GA-ATTAAATGG
31879 T-AATACACAAAATTA
1 TAAATACACAAAATTA
31894 ACTGAAATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
34 5 0.12
35 22 0.51
36 1 0.02
37 5 0.12
38 10 0.23
ACGTcount: A:0.54, C:0.11, G:0.08, T:0.26
Consensus pattern (33 bp):
TAAATACACAAAATTACAATAAGAATTAAATGG
Found at i:32489 original size:18 final size:18
Alignment explanation
Indices: 32466--32500 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32456 AAGGCGATGA
* *
32466 CGACATTATATATGGCTG
1 CGACATCATAAATGGCTG
32484 CGACATCATAAATGGCT
1 CGACATCATAAATGGCT
32501 ACGATGGCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (18 bp):
CGACATCATAAATGGCTG
Found at i:34839 original size:111 final size:111
Alignment explanation
Indices: 34656--34988 Score: 594
Period size: 111 Copynumber: 3.0 Consensus size: 111
34646 ATTACAAAAA
* *
34656 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAATTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
* *
34721 AATTAAAACGTTAAAATGTTACCGTATTAGCAAAATGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
*
34767 TTAATTCTTAATCTAATAATCATGCATTAAATAAAGCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
* *
34832 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTCGATATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
34878 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
*
34943 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
34989 ATGATTTCCA
Statistics
Matches: 211, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 211 1.00
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:35093 original size:17 final size:18
Alignment explanation
Indices: 35050--35090 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
35040 GAATTATATT
35050 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
35067 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
35085 ATTAAA
1 AGTAAA
35091 TACATAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:35414 original size:50 final size:50
Alignment explanation
Indices: 35295--35419 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 50
35285 GATACCCAGG
* * *
35295 TATAGCGCGGATCAGGGGGTGCGCTATACCCACGTGGCGCCAAATCACCA
1 TATAGCGCGGATCAGGGGGCGCGCTATACCCACGTGACACCAAATCACCA
* ** ** * *
35345 TATATCGCGGGGCTTGGGGCGCGCTATACCCACGTGACATCAAATCAGCA
1 TATAGCGCGGATCAGGGGGCGCGCTATACCCACGTGACACCAAATCACCA
*
35395 TATAGCGCGGTTCAGGGGGCGCGCT
1 TATAGCGCGGATCAGGGGGCGCGCT
35420 TTACTGCTAC
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.22, C:0.28, G:0.32, T:0.18
Consensus pattern (50 bp):
TATAGCGCGGATCAGGGGGCGCGCTATACCCACGTGACACCAAATCACCA
Found at i:38011 original size:46 final size:46
Alignment explanation
Indices: 37914--38073 Score: 200
Period size: 46 Copynumber: 3.5 Consensus size: 46
37904 ATAAACTATA
* * * * *
37914 TTATATACTATATATTTATTAA-TATAAACTATAAAG--TATATAAT
1 TTATATAAT-TATATTTATAAACTATAAAGTATATAGTTTATATACT
*
37958 TTATATAATTATATTTATAAACTATAAAGTATATAGTTTCTATACT
1 TTATATAATTATATTTATAAACTATAAAGTATATAGTTTATATACT
* * *
38004 TTATATAATTTTATTTATAAACTATAAAGTATATAGTTTTTATTCT
1 TTATATAATTATATTTATAAACTATAAAGTATATAGTTTATATACT
*
38050 TTATATAATTATATTAATAAACTA
1 TTATATAATTATATTTATAAACTA
38074 GTTCATTAGT
Statistics
Matches: 102, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
43 11 0.11
44 20 0.20
46 71 0.70
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (46 bp):
TTATATAATTATATTTATAAACTATAAAGTATATAGTTTATATACT
Found at i:38111 original size:19 final size:19
Alignment explanation
Indices: 38087--38126 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
38077 CATTAGTATA
38087 TATAAATTATATAGTTCAT
1 TATAAATTATATAGTTCAT
38106 TATAAATTATATAGTTCAT
1 TATAAATTATATAGTTCAT
38125 TA
1 TA
38127 GTAGCGGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (19 bp):
TATAAATTATATAGTTCAT
Found at i:38218 original size:50 final size:50
Alignment explanation
Indices: 38139--38233 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 50
38129 AGCGGATCAG
*
38139 GGGGCGCGCTATACCCACGTGGCGCCAAATCACCGTATATCGCGGGACTT
1 GGGGCGCGCTATACCCACGTGGCGCCAAATCACCGTATAGCGCGGGACTT
* *
38189 GGGGCGCGCTATACCCACGTGGCGTCAAATCAGCGTATAGCGCGG
1 GGGGCGCGCTATACCCACGTGGCGCCAAATCACCGTATAGCGCGG
38234 TTCAGGGGCG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.20, C:0.31, G:0.33, T:0.17
Consensus pattern (50 bp):
GGGGCGCGCTATACCCACGTGGCGCCAAATCACCGTATAGCGCGGGACTT
Found at i:45410 original size:94 final size:94
Alignment explanation
Indices: 45306--45483 Score: 266
Period size: 94 Copynumber: 1.9 Consensus size: 94
45296 CATTTTTAGG
* * *
45306 TTGATTTGACACCAGGTTCAGTTCAAGTTCCTTTCAGTTCAGATCGATGTCAGTTCAGGTCCGGA
1 TTGATTTGACACCAGGTTCAGTTCAAGTTCATTTCAGTTCAGATCGATGACAGTTCAGGTCCAGA
* *
45371 GTAGTTAAAGACCAAGTTAATTTTTCTGT
66 GCACTTAAAGACCAAGTTAATTTTTCTGT
* * * *
45400 TTGATTTGACACTAGGTTCAGTTCAAGTTTATTTCAGTTCGGATCGGTGACAGTTCAGGTCCAGA
1 TTGATTTGACACCAGGTTCAGTTCAAGTTCATTTCAGTTCAGATCGATGACAGTTCAGGTCCAGA
*
45465 GCACTTAAAGACCAGGTTA
66 GCACTTAAAGACCAAGTTA
45484 CTTCAGGTTC
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 74 1.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.34
Consensus pattern (94 bp):
TTGATTTGACACCAGGTTCAGTTCAAGTTCATTTCAGTTCAGATCGATGACAGTTCAGGTCCAGA
GCACTTAAAGACCAAGTTAATTTTTCTGT
Found at i:46219 original size:22 final size:22
Alignment explanation
Indices: 46194--46271 Score: 131
Period size: 22 Copynumber: 3.6 Consensus size: 22
46184 TATGAACAAT
46194 ATATAAACTATATTGTTTATTA
1 ATATAAACTATATTGTTTATTA
* *
46216 ATATAAAATATATGGTTTATTA
1 ATATAAACTATATTGTTTATTA
46238 ATATAAACTATA-TGTTTATTA
1 ATATAAACTATATTGTTTATTA
46259 ATATAAACTATAT
1 ATATAAACTATAT
46272 ATTATATAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 20 0.39
22 31 0.61
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (22 bp):
ATATAAACTATATTGTTTATTA
Found at i:46297 original size:33 final size:33
Alignment explanation
Indices: 46259--46612 Score: 351
Period size: 33 Copynumber: 10.5 Consensus size: 33
46249 ATGTTTATTA
*
46259 ATATAAACTATATATTATATAGTTCATTTGTAT
1 ATATAAACTATATATTATATAGTTCATTAGTAT
*
46292 ATATAAATTATATATTATATAGTTCATTAGTAT
1 ATATAAACTATATATTATATAGTTCATTAGTAT
*
46325 ATATAAACTATATAGTATATAGTTCATTAGTAT
1 ATATAAACTATATATTATATAGTTCATTAGTAT
* * *
46358 ATATAAACTATACAATATATTGTTCATTAGTAT
1 ATATAAACTATATATTATATAGTTCATTAGTAT
* *
46391 ATATAAATTATATATATTATATAGTTCATTAGTGT
1 ATATAAA--CTATATATTATATAGTTCATTAGTAT
*
46426 ATATAAACTATATAATATATAGTTCATATAGT-T
1 ATATAAACTATATATTATATAGTTCAT-TAGTAT
** * *
46459 CATTAGTTTA-TATAAACTATATAGTTCATTAGTAT
1 -A-TA-TAAACTATATATTATATAGTTCATTAGTAT
* **
46494 CTATAAACTATATAGTTTATATA-AACTATATAGTAT
1 ATATAAACTATATA--TTATATAGTTC-AT-TAGTAT
** * * **
46530 ATAGTTCATTGGTATA-TATA-AACT-ATATAGTAT
1 ATA-TAAACT-ATATATTATATAGTTCAT-TAGTAT
46563 ATATAAACTATATATTATATAGTTCATTAGTAT
1 ATATAAACTATATATTATATAGTTCATTAGTAT
46596 ATATAAACTATATATTA
1 ATATAAACTATATATTA
46613 ATTTATTAAA
Statistics
Matches: 265, Mismatches: 38, Indels: 36
0.78 0.11 0.11
Matches are distributed among these distances:
31 4 0.02
32 9 0.03
33 162 0.61
34 13 0.05
35 60 0.23
36 10 0.04
37 3 0.01
38 4 0.02
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (33 bp):
ATATAAACTATATATTATATAGTTCATTAGTAT
Found at i:46327 original size:15 final size:15
Alignment explanation
Indices: 46307--46360 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
46297 AATTATATAT
46307 TATATAGTTCATTAG
1 TATATAGTTCATTAG
*
46322 TATATA-TAAACTATATAG
1 TATATAGT--TC-AT-TAG
46340 TATATAGTTCATTAG
1 TATATAGTTCATTAG
46355 TATATA
1 TATATA
46361 TAAACTATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 1 0.03
15 15 0.47
16 3 0.09
17 3 0.09
18 9 0.28
19 1 0.03
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (15 bp):
TATATAGTTCATTAG
Found at i:46412 original size:68 final size:68
Alignment explanation
Indices: 46267--46610 Score: 339
Period size: 68 Copynumber: 5.1 Consensus size: 68
46257 TAATATAAAC
* * *
46267 TATATATTATATAGTTCATTTGTATATATAAATTATATATTATATAGTTCATTAGTATATATAAA
1 TATATATTATATAGTTCATTAGTATATATAAACTATATAATATATAGTTCATTAGTATATATAAA
*
46332 --C
66 TTA
* * *
46333 TATATAGTATATAGTTCATTAGTATATATAAACTATACAATATATTGTTCATTAGTATATATAAA
1 TATATATTATATAGTTCATTAGTATATATAAACTATATAATATATAGTTCATTAGTATATATAAA
46398 TTA
66 TTA
*
46401 TATATATTATATAGTTCATTAGTGTATATAAACTATATAATATATAGTTCATATAGT-TCAT-TA
1 TATATATTATATAGTTCATTAGTATATATAAACTATATAATATATAGTTCAT-TAGTAT-ATATA
**
46464 GTTTA
64 AATTA
* * * * **
46469 TATAAACTATATAGTTCATTAGTATCTATAAACTATATAGTTTATATA-AACTATATAGTATATA
1 TATATATTATATAGTTCATTAGTATATATAAACTATATA--ATATATAGTTC-AT-TAGTATATA
** *
46533 GTTCATTGG
62 -TAAATT-A
* *
46542 TATATA-TA-A-A-CT-ATATAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAA
1 TATATATTATATAGTTCAT-TAGTATATATAAACTATATAATATATAGTTCATTAGTATATATAA
*
46602 ACTA
65 ATTA
46606 TATAT
1 TATAT
46611 TAATTTATTA
Statistics
Matches: 232, Mismatches: 33, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
64 5 0.02
65 3 0.01
66 68 0.29
67 9 0.04
68 92 0.40
69 27 0.12
70 16 0.07
71 2 0.01
72 5 0.02
73 5 0.02
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (68 bp):
TATATATTATATAGTTCATTAGTATATATAAACTATATAATATATAGTTCATTAGTATATATAAA
TTA
Found at i:46531 original size:51 final size:51
Alignment explanation
Indices: 46476--46609 Score: 232
Period size: 51 Copynumber: 2.6 Consensus size: 51
46466 TTATATAAAC
* *
46476 TATATAGTTCATTAGTATCTATAAACTATATAGTTTATATAAACTATATAG
1 TATATAGTTCATTAGTATATATAAACTATATAGTATATATAAACTATATAG
* *
46527 TATATAGTTCATTGGTATATATAAACTATATAGTATATATAAACTATATAT
1 TATATAGTTCATTAGTATATATAAACTATATAGTATATATAAACTATATAG
46578 TATATAGTTCATTAGTATATATAAACTATATA
1 TATATAGTTCATTAGTATATATAAACTATATA
46610 TTAATTTATT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 78 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (51 bp):
TATATAGTTCATTAGTATATATAAACTATATAGTATATATAAACTATATAG
Found at i:47405 original size:53 final size:53
Alignment explanation
Indices: 47304--47430 Score: 193
Period size: 53 Copynumber: 2.4 Consensus size: 53
47294 TCACCTTTTG
47304 TCTCTATTTATCTTCTCTAA-CCCAAACCCAAACCGAACCTCTTCATCTTCTA
1 TCTCTATTTATCTTCTCTAACCCCAAACCCAAACCGAACCTCTTCATCTTCTA
* * * * *
47356 TCTCTATTTATATTCTCTAACCCCAAACCTAAACCGAGCCTCTTTATCTTCTG
1 TCTCTATTTATCTTCTCTAACCCCAAACCCAAACCGAACCTCTTCATCTTCTA
*
47409 TCTCTTTTTATCTTCTCTAACC
1 TCTCTATTTATCTTCTCTAACC
47431 TTAACCCTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
52 19 0.28
53 48 0.72
ACGTcount: A:0.24, C:0.34, G:0.03, T:0.39
Consensus pattern (53 bp):
TCTCTATTTATCTTCTCTAACCCCAAACCCAAACCGAACCTCTTCATCTTCTA
Found at i:48408 original size:14 final size:14
Alignment explanation
Indices: 48391--48436 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
48381 CGTTCGTGAA
48391 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
*
48405 CGTTCGTTTATGTT
1 CGTTCGGTTATGTT
48419 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
48433 CGTT
1 CGTT
48437 TATGTTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.07, C:0.15, G:0.26, T:0.52
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:48419 original size:24 final size:23
Alignment explanation
Indices: 48377--48443 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 23
48367 ACATAGGTCT
** *
48377 TGTTCGTTCGTGAACGTTCGGTTA
1 TGTTCGTTCGTTTATGTTC-GTTA
*
48401 TGTTCGTTCGTTTATGTTCGTTC
1 TGTTCGTTCGTTTATGTTCGTTA
* *
48424 GGTTATGTTCGTTTATGTTC
1 TGTT-CGTTCGTTTATGTTC
48444 ATTCATTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
23 6 0.17
24 30 0.83
ACGTcount: A:0.09, C:0.15, G:0.25, T:0.51
Consensus pattern (23 bp):
TGTTCGTTCGTTTATGTTCGTTA
Found at i:48419 original size:38 final size:38
Alignment explanation
Indices: 48377--48456 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
48367 ACATAGGTCT
* *
48377 TGTTCGTTC-GTGAACGTTCGGTTATGTTCGTTCGTTTA
1 TGTTCGTTCGGT-AACGTTCGGTTATGTTCATTCATTTA
* * *
48415 TGTTCGTTCGGTTATGTTCGTTTATGTTCATTCATTTA
1 TGTTCGTTCGGTAACGTTCGGTTATGTTCATTCATTTA
48453 TGTT
1 TGTT
48457 TAACCCAATC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
38 34 0.94
39 2 0.06
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.53
Consensus pattern (38 bp):
TGTTCGTTCGGTAACGTTCGGTTATGTTCATTCATTTA
Found at i:48453 original size:24 final size:24
Alignment explanation
Indices: 48406--48456 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
48396 GGTTATGTTC
* *
48406 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCATTCAGTTAT
*
48430 GTTCGTTTATGTTCATTCATTTAT
1 GTTCGTTTATGTTCATTCAGTTAT
48454 GTT
1 GTT
48457 TAACCCAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.57
Consensus pattern (24 bp):
GTTCGTTTATGTTCATTCAGTTAT
Found at i:48833 original size:16 final size:16
Alignment explanation
Indices: 48812--48878 Score: 75
Period size: 16 Copynumber: 4.3 Consensus size: 16
48802 GTCTCCAACG
48812 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
* **
48828 TTTATGTTCATGTTTG
1 TTTATGTTCGTGTTCA
* *
48844 TTTATGTTCGTATTCG
1 TTTATGTTCGTGTTCA
48860 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
48874 TTTAT
1 TTTAT
48879 TAAATGAACG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 5 0.11
15 2 0.05
16 37 0.84
ACGTcount: A:0.13, C:0.09, G:0.16, T:0.61
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:50657 original size:13 final size:13
Alignment explanation
Indices: 50639--50664 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50629 AAGGTATGCC
50639 AAATTGTTTTATT
1 AAATTGTTTTATT
50652 AAATTGTTTTATT
1 AAATTGTTTTATT
50665 TTTTATGTTA
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:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
AAATTGTTTTATT
Found at i:51648 original size:14 final size:14
Alignment explanation
Indices: 51631--51663 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
51621 TTGAAGATTT
51631 ATAATATAAGAATC
1 ATAATATAAGAATC
*
51645 ATAATATAATAATC
1 ATAATATAAGAATC
51659 ATAAT
1 ATAAT
51664 TAATATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (14 bp):
ATAATATAAGAATC
Found at i:51686 original size:21 final size:18
Alignment explanation
Indices: 51646--51708 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
51636 ATAAGAATCA
51646 TAATATAATAATCATAAT
1 TAATATAATAATCATAAT
*
51664 TAATATAATAAGTCTATTTAT
1 TAATATAATAA-TC-A-TAAT
* *
51685 TAATTTAATTATCATAAT
1 TAATATAATAATCATAAT
*
51703 CAATAT
1 TAATAT
51709 TTTATTATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 18 0.50
19 3 0.08
20 3 0.08
21 12 0.33
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (18 bp):
TAATATAATAATCATAAT
Found at i:61467 original size:218 final size:213
Alignment explanation
Indices: 61084--61521 Score: 714
Period size: 218 Copynumber: 2.0 Consensus size: 213
61074 TGCTTTGGTT
* *
61084 ATGTCTTTATCTTTACCACGTGTTTCATAAATTTCGACATCCAACCGCTTGTGTCAAAGAATGCA
1 ATGTTTTTATCTTTACCACGTGTTTCATAAATTTCAACATCCAACCGCTTGTGTCAAAGAATGCA
* *
61149 GCATAAAATTCAATCTGGACCAAGAAATGTAAATGAGGTGATACTCCGTACTCTGGTGATGAAAT
66 GCACAAAATTCAATCTGGACCAAGAAATGCAAATGAGGTGATACTCCGTACTCTGGTGATGAAAT
** *
61214 AAGTACTGTCCTCTTGATAACCTCTGCACAAATAATGTTTTGTTATCTGCCATAAATGTGGTGTA
131 AAGTACTGTCCTCTCAAGAACCTCTGCACAAATAA-----TGTTATCTGCCATAAATGTGGTGTA
61279 GCTTTGGAGATGAGAAGGTACAC
191 GCTTTGGAGATGAGAAGGTACAC
** * *
61302 ATGTTTTTATCTTTACCGTGTGTTTCTTAAATTTCAACATCCAACCGCTTGTGTCAAGGAATGCA
1 ATGTTTTTATCTTTACCACGTGTTTCATAAATTTCAACATCCAACCGCTTGTGTCAAAGAATGCA
*
61367 TCACAAAATTCAATCTGGACCAAGAAATGCAAATGAGGTGATACTCCGTACTCTGGTGATGAAAT
66 GCACAAAATTCAATCTGGACCAAGAAATGCAAATGAGGTGATACTCCGTACTCTGGTGATGAAAT
*
61432 AAGTACTGTCCTCTCAAGAACCTCTGCACAAATAATGTTATCTGTCATAAATGTGGTGTAGCTTT
131 AAGTACTGTCCTCTCAAGAACCTCTGCACAAATAATGTTATCTGCCATAAATGTGGTGTAGCTTT
61497 GGAGATGAGAAGGTACAC
196 GGAGATGAGAAGGTACAC
61515 ATGTTTT
1 ATGTTTT
61522 ACTTGAGGAA
Statistics
Matches: 207, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
213 54 0.26
218 153 0.74
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (213 bp):
ATGTTTTTATCTTTACCACGTGTTTCATAAATTTCAACATCCAACCGCTTGTGTCAAAGAATGCA
GCACAAAATTCAATCTGGACCAAGAAATGCAAATGAGGTGATACTCCGTACTCTGGTGATGAAAT
AAGTACTGTCCTCTCAAGAACCTCTGCACAAATAATGTTATCTGCCATAAATGTGGTGTAGCTTT
GGAGATGAGAAGGTACAC
Found at i:70684 original size:4 final size:4
Alignment explanation
Indices: 70675--70701 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
70665 TAAACAGGAA
70675 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
70702 GCTATAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:71843 original size:6 final size:6
Alignment explanation
Indices: 71832--71860 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
71822 ACTTTATAAT
71832 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
71861 ATGTATATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:72285 original size:15 final size:15
Alignment explanation
Indices: 72267--72308 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
72257 CATTAAATTA
72267 AAATATAAAAATAAT
1 AAATATAAAAATAAT
*
72282 AAATATTATAAA-AAT
1 AAATA-TAAAAATAAT
*
72297 AAATATTAAAAT
1 AAATATAAAAAT
72309 TAAAATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 4 0.18
15 13 0.59
16 5 0.23
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATAAAAATAAT
Found at i:72756 original size:19 final size:19
Alignment explanation
Indices: 72734--72782 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
72724 TAAAATATAA
*
72734 AAAATAAAAAATAATATTC
1 AAAATAAAAAATAAAATTC
* **
72753 AAAATAATATTTAAAATTC
1 AAAATAAAAAATAAAATTC
72772 AAAATAAAAAA
1 AAAATAAAAAA
72783 ATCACACGCT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATAAAAAATAAAATTC
Found at i:74533 original size:12 final size:12
Alignment explanation
Indices: 74516--74546 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
74506 AATGATGAGA
74516 AAATAAACAAAT
1 AAATAAACAAAT
*
74528 AAATAATCAAAT
1 AAATAAACAAAT
74540 AAATAAA
1 AAATAAA
74547 GTAGAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (12 bp):
AAATAAACAAAT
Found at i:76103 original size:81 final size:81
Alignment explanation
Indices: 75997--77570 Score: 2006
Period size: 81 Copynumber: 19.5 Consensus size: 81
75987 GGGGGTTTGG
* * * *
75997 TCTCTTCAC-ATGATATCAAAATCATGAGGAGACGAAGGATGATGATTGTGATGAAGGGGATTCG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
76061 GCCCTCCCGGCGTATC
66 GCCCTCCCGGCGTATC
*
76077 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGGAAAGGGATTT
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGAT-GAAGGGGATTT
76142 GGCCCTCCCGGCGTATC
65 GGCCCTCCCGGCGTATC
* * *
76159 TCTCTTCACAATGATATC-AAATCATGAGGCGACGAAAGAGGATGATTGTGATAAATGGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
* *
76223 GCCCTCCTGGCGTATA
66 GCCCTCCCGGCGTATC
* *
76239 TCTCTTCACAATGATATC-AAATCATGAGGCGACAAAGGAGGATGATTGTGATGAAGGGGTTTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
**
76303 GCCCTCCCGATGTATC
66 GCCCTCCCGGCGTATC
* * * *
76319 TTTCTTCACAATGATACCGAAATCATGAGGTGACGAAGGAGGATGATTATGATGAAGGGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
*
76384 GCCCTCCCGACGTA--
66 GCCCTCCCGGCGTATC
* * *
76398 TCGCTTCACAATGATATCGAAATCATGAGGAGACGAAAGAGGATGATTGTGATGAAGGGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
76463 GCCCTCCCGGCGTATC
66 GCCCTCCCGGCGTATC
* * * * * *
76479 TCTCTTCATAATGATATCGAAATCAAGAGGAGACGAA--TGGATGATTATGATGAAGTGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
*
76542 GCCCTCCAGGCGTA--
66 GCCCTCCCGGCGTATC
* * *
76556 TCTCTTCACAATGATATCAAAATCATGAGGCGACGAATGAGGATGATTGTGATGAAGGGGATTTT
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
*
76621 GCCCTCCCGGCATATC
66 GCCCTCCCGGCGTATC
*
76637 TCTCTTCACAATGATATCG-AATCATGAGGTGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
**
76701 GCCCTCCCAACGTATC
66 GCCCTCCCGGCGTATC
* * * * *
76717 TCTCTTCACAATGTTATCAAAATCACGAGGCGACGAAGGAGGATGATTGTAATGAAGTGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
*
76782 GCCCTCCCAGCGTATC
66 GCCCTCCCGGCGTATC
* *
76798 TCTCTTCACAATGTTATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGAGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
*
76863 GCCTTCCCGGCGTA--
66 GCCCTCCCGGCGTATC
* * *
76877 TCTCTTCGCAATGATATC-AAATCATGAGACGACGAAGGAGGATGA-T-TGATAAAGGGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
* **
76939 ACCCTCCAAGCGTATC
66 GCCCTCCCGGCGTATC
*
76955 TCTCCCCACGTATCTCTTTACAATGATATCGAAATCATGA-GCGACGAAAGAGGATGATTGTGAT
1 TCT-----C---T-TC---ACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGAT
*
77019 GAAGGGGATTTGGCCCTCCCGGTGTATC
54 GAAGGGGATTTGGCCCTCCCGGCGTATC
* ** *
77047 TCTCTTCACAATGATATCGAAATCATAAGGTAACAAAGGAGGATGATTGTGATGAAGGGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
* * *
77112 GTCCTCTCGGCATATC
66 GCCCTCCCGGCGTATC
* * * * **
77128 TCTTTTCAAAATGATACCGAAATCATGAGGCAAAAAAGGAGGATGATTGTGATGAAGGGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
*
77193 GCCCTCCTGGCGTATC
66 GCCCTCCCGGCGTATC
* * * * *
77209 TCTTTTCAC-ATGGTATCGAAATCAAGAGGCGAAGAAGGAGGATGATTATGATGAAGGGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
*
77273 GTCCTCCCGGCG--TC
66 GCCCTCCCGGCGTATC
77287 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGA-T-TGATGAAGGGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
* *
77350 GACCTCCCGACGTATC
66 GCCCTCCCGGCGTATC
* * *
77366 TCTCTTTACAATGATATCGAAATCATGAGGC-AGCGAAGAAGGATGATTGTGCTGAAGGGGATTT
1 TCTCTTCACAATGATATCGAAATCATGAGGCGA-CGAAGGAGGATGATTGTGATGAAGGGGATTT
** * * *
77430 GGCGTTTCCAGCTTATC
65 GGCCCTCCCGGCGTATC
* * * * *
77447 TCTATTCATAATGATATCGAAATTATGAGGTGATGAAGGAGGATGATTGTGATGAAGGGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
* * *
77512 GTCCTCCTGGAGTATC
66 GCCCTCCCGGCGTATC
* * *
77528 TCTCTTCACAATGTTATTC-AAATCACGAGGCGACGAATGAGGA
1 TCTCTTCACAATGATA-TCGAAATCATGAGGCGACGAAGGAGGA
77571 GGAGGATTGT
Statistics
Matches: 1303, Mismatches: 155, Indels: 71
0.85 0.10 0.05
Matches are distributed among these distances:
76 24 0.02
77 60 0.05
78 41 0.03
79 235 0.18
80 272 0.21
81 551 0.42
82 47 0.04
83 3 0.00
84 1 0.00
86 1 0.00
87 3 0.00
90 25 0.02
91 10 0.01
92 30 0.02
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (81 bp):
TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
GCCCTCCCGGCGTATC
Found at i:76363 original size:161 final size:162
Alignment explanation
Indices: 75997--77587 Score: 1963
Period size: 161 Copynumber: 9.9 Consensus size: 162
75987 GGGGGTTTGG
* * * *
75997 TCTCTTCAC-ATGATATCAAAATCATGAGGAGACGAAGGATGATGATTGTGATGAAGGGGATTCG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
*
76061 GCCCTCCCGGCGTATCTCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTG
66 GCCCTCCCGGCGTATCTCTCTTCACAATGATATCGAAATCATGAGGCGACAAAGGAGGATGATTG
*
76126 TGATGGAAAGGGATTTGGCCCTCCCGGCGTATC
131 TGAT-GAAGGGGATTTGGCCCTCCCGGCGTATC
* * *
76159 TCTCTTCACAATGATATC-AAATCATGAGGCGACGAAAGAGGATGATTGTGATAAATGGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
* *
76223 GCCCTCCTGGCGTATATCTCTTCACAATGATATC-AAATCATGAGGCGACAAAGGAGGATGATTG
66 GCCCTCCCGGCGTATCTCTCTTCACAATGATATCGAAATCATGAGGCGACAAAGGAGGATGATTG
* **
76287 TGATGAAGGGGTTTTGGCCCTCCCGATGTATC
131 TGATGAAGGGGATTTGGCCCTCCCGGCGTATC
* * * *
76319 TTTCTTCACAATGATACCGAAATCATGAGGTGACGAAGGAGGATGATTATGATGAAGGGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
* * *
76384 GCCCTCCCGACGTA--TCGCTTCACAATGATATCGAAATCATGAGGAGACGAAA-GAGGATGATT
66 GCCCTCCCGGCGTATCTCTCTTCACAATGATATCGAAATCATGAGGCGAC-AAAGGAGGATGATT
76446 GTGATGAAGGGGATTTGGCCCTCCCGGCGTATC
130 GTGATGAAGGGGATTTGGCCCTCCCGGCGTATC
* * * * * *
76479 TCTCTTCATAATGATATCGAAATCAAGAGGAGACGAA--TGGATGATTATGATGAAGTGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
* * * *
76542 GCCCTCCAGGCGTA--TCTCTTCACAATGATATCAAAATCATGAGGCGACGAATGAGGATGATTG
66 GCCCTCCCGGCGTATCTCTCTTCACAATGATATCGAAATCATGAGGCGACAAAGGAGGATGATTG
* *
76605 TGATGAAGGGGATTTTGCCCTCCCGGCATATC
131 TGATGAAGGGGATTTGGCCCTCCCGGCGTATC
*
76637 TCTCTTCACAATGATATCG-AATCATGAGGTGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
** * * * *
76701 GCCCTCCCAACGTATCTCTCTTCACAATGTTATCAAAATCACGAGGCGACGAAGGAGGATGATTG
66 GCCCTCCCGGCGTATCTCTCTTCACAATGATATCGAAATCATGAGGCGACAAAGGAGGATGATTG
* * *
76766 TAATGAAGTGGATTTGGCCCTCCCAGCGTATC
131 TGATGAAGGGGATTTGGCCCTCCCGGCGTATC
* *
76798 TCTCTTCACAATGTTATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGAGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
* * * *
76863 GCCTTCCCGGCGTA--TCTCTTCGCAATGATATC-AAATCATGAGACGACGAAGGAGGATGA-T-
66 GCCCTCCCGGCGTATCTCTCTTCACAATGATATCGAAATCATGAGGCGACAAAGGAGGATGATTG
* * **
76923 TGATAAAGGGGATTTGACCCTCCAAGCGTATC
131 TGATGAAGGGGATTTGGCCCTCCCGGCGTATC
*
76955 TCTCCCCACGTATCTCTTTACAATGATATCGAAATCATGA-GCGACGAAAGAGGATGATTGTGAT
1 TCT-----C---T-TC---ACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGAT
* * **
77019 GAAGGGGATTTGGCCCTCCCGGTGTATCTCTCTTCACAATGATATCGAAATCATAAGGTAACAAA
54 GAAGGGGATTTGGCCCTCCCGGCGTATCTCTCTTCACAATGATATCGAAATCATGAGGCGACAAA
* * *
77084 GGAGGATGATTGTGATGAAGGGGATTTGGTCCTCTCGGCATATC
119 GGAGGATGATTGTGATGAAGGGGATTTGGCCCTCCCGGCGTATC
* * * * **
77128 TCTTTTCAAAATGATACCGAAATCATGAGGCAAAAAAGGAGGATGATTGTGATGAAGGGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
* * * *
77193 GCCCTCCTGGCGTATCTCTTTTCAC-ATGGTATCGAAATCAAGAGGCGA-AGAAGGAGGATGATT
66 GCCCTCCCGGCGTATCTCTCTTCACAATGATATCGAAATCATGAGGCGACA-AAGGAGGATGATT
* *
77256 ATGATGAAGGGGATTTGGTCCTCCCGGCG--TC
130 GTGATGAAGGGGATTTGGCCCTCCCGGCGTATC
77287 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGA-T-TGATGAAGGGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
* * * * *
77350 GACCTCCCGACGTATCTCTCTTTACAATGATATCGAAATCATGAGGC-AGCGAAGAAGGATGATT
66 GCCCTCCCGGCGTATCTCTCTTCACAATGATATCGAAATCATGAGGCGA-CAAAGGAGGATGATT
* ** * * *
77414 GTGCTGAAGGGGATTTGGCGTTTCCAGCTTATC
130 GTGATGAAGGGGATTTGGCCCTCCCGGCGTATC
* * * * *
77447 TCTATTCATAATGATATCGAAATTATGAGGTGATGAAGGAGGATGATTGTGATGAAGGGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
* * * * * *
77512 GTCCTCCTGGAGTATCTCTCTTCACAATGTTATTC-AAATCACGAGGCGACGAATGAGGAGGAGG
66 GCCCTCCCGGCGTATCTCTCTTCACAATGATA-TCGAAATCATGAGGCGAC-AA--AGGAGGATG
*
77576 ATTGTGGTGAAG
127 ATTGTGATGAAG
77588 AGAATTGATC
Statistics
Matches: 1239, Mismatches: 149, Indels: 79
0.84 0.10 0.05
Matches are distributed among these distances:
157 84 0.07
158 180 0.15
159 118 0.10
160 186 0.15
161 257 0.21
162 244 0.20
163 12 0.01
164 2 0.00
165 20 0.02
166 2 0.00
168 46 0.04
169 20 0.02
170 17 0.01
171 22 0.02
172 1 0.00
173 28 0.02
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (162 bp):
TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
GCCCTCCCGGCGTATCTCTCTTCACAATGATATCGAAATCATGAGGCGACAAAGGAGGATGATTG
TGATGAAGGGGATTTGGCCCTCCCGGCGTATC
Found at i:76818 original size:319 final size:320
Alignment explanation
Indices: 75997--77570 Score: 1987
Period size: 319 Copynumber: 4.9 Consensus size: 320
75987 GGGGGTTTGG
* * * *
75997 TCTCTTCAC-ATGATATCAAAATCATGAGGAGACGAAGGATGATGATTGTGATGAAGGGGATTCG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
*
76061 GCCCTCCCGGCGTATCTCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTG
66 GCCCTCCCGACGTATCTCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTG
* *
76126 TGATGGAAAGGGATTTGGCCCTCCCGGCGTATCTCTCTTCACAATGATATC-AAATCATGAGGCG
131 TGAT-GAAGGGGATTTGGCCCTCCCGGCGTATCTCTCTTCACAATGATATCGAAATCATGAGGAG
* *
76190 ACGAAAGAGGATGATTGTGATAAATGGGATTTGGCCCTCCTGGCGTATATCTCTTCACAATGATA
195 ACG-AAGAGGATGATTGTGATGAAGGGGATTTGGCCCTCCTGGCG--TATCTCTTCACAATGATA
* **
76255 TCAAATCATGAGGCGACAAAGGAGGATGATTGTGATGAAGGGG-TTTTGGCCCTCCCGATGTATC
257 TCAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTT-GCCCTCCCGGCGTATC
* * * *
76319 TTTCTTCACAATGATACCGAAATCATGAGGTGACGAAGGAGGATGATTATGATGAAGGGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
* * *
76384 GCCCTCCCGACGTA--TCGCTTCACAATGATATCGAAATCATGAGGAGACGAAAGAGGATGATTG
66 GCCCTCCCGACGTATCTCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTG
* *
76447 TGATGAAGGGGATTTGGCCCTCCCGGCGTATCTCTCTTCATAATGATATCGAAATCAAGAGGAGA
131 TGATGAAGGGGATTTGGCCCTCCCGGCGTATCTCTCTTCACAATGATATCGAAATCATGAGGAGA
* * * *
76512 CGAA-TGGATGATTATGATGAAGTGGATTTGGCCCTCCAGGCGTATCTCTTCACAATGATATCAA
196 CGAAGAGGATGATTGTGATGAAGGGGATTTGGCCCTCCTGGCGTATCTCTTCACAATGATATC-A
* *
76576 AATCATGAGGCGACGAATGAGGATGATTGTGATGAAGGGGATTTTGCCCTCCCGGCATATC
260 AATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTTGCCCTCCCGGCGTATC
*
76637 TCTCTTCACAATGATATCG-AATCATGAGGTGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
* * * *
76701 GCCCTCCCAACGTATCTCTCTTCACAATGTTATCAAAATCACGAGGCGACGAAGGAGGATGATTG
66 GCCCTCCCGACGTATCTCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTG
* * * * *
76766 TAATGAAGTGGATTTGGCCCTCCCAGCGTATCTCTCTTCACAATGTTATCGAAATCATGAGGCGA
131 TGATGAAGGGGATTTGGCCCTCCCGGCGTATCTCTCTTCACAATGATATCGAAATCATGAGGAGA
* * * *
76831 CGAAGGAGGATGATTGTGATGAAGAGGATTTGGCCTTCCCGGCGTATCTCTTCGCAATGATATCA
196 CGAA-GAGGATGATTGTGATGAAGGGGATTTGGCCCTCCTGGCGTATCTCTTCACAATGATATCA
* * **
76896 AATCATGAGACGACGAAGGAGGATGA-T-TGATAAAGGGGA-TTTGACCCTCCAAGCGTATC
260 AATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTTG-CCCTCCCGGCGTATC
*
76955 TCTCCCCACGTATCTCTTTACAATGATATCGAAATCATGA-GCGACGAAAGAGGATGATTGTGAT
1 TCT-----C---T-TC---ACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGAT
** * ** *
77019 GAAGGGGATTTGGCCCTCCCGGTGTATCTCTCTTCACAATGATATCGAAATCATAAGGTAACAAA
54 GAAGGGGATTTGGCCCTCCCGACGTATCTCTCTTCACAATGATATCGAAATCATGAGGCGACGAA
* * * * * *
77084 GGAGGATGATTGTGATGAAGGGGATTTGGTCCTCTCGGCATATCTCTTTTCAAAATGATACCGAA
119 GGAGGATGATTGTGATGAAGGGGATTTGGCCCTCCCGGCGTATCTCTCTTCACAATGATATCGAA
**
77149 ATCATGAGGCA-AAAAAGGAGGATGATTGTGATGAAGGGGATTTGGCCCTCCTGGCGTATCTCTT
184 ATCATGAGG-AGACGAA-GAGGATGATTGTGATGAAGGGGATTTGGCCCTCCTGGCGTATCTC--
* * * * * *
77213 TTCAC-ATGGTATCGAAATCAAGAGGCGAAGAAGGAGGATGATTATGATGAAGGGGATTTGGTCC
245 TTCACAATGATATC-AAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTTGCCC
77277 TCCCGGCG--TC
309 TCCCGGCGTATC
77287 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGA-T-TGATGAAGGGGATTTG
1 TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
* * *
77350 GACCTCCCGACGTATCTCTCTTTACAATGATATCGAAATCATGAGGC-AGCGAAGAAGGATGATT
66 GCCCTCCCGACGTATCTCTCTTCACAATGATATCGAAATCATGAGGCGA-CGAAGGAGGATGATT
* ** * * * * * * *
77414 GTGCTGAAGGGGATTTGGCGTTTCCAGCTTATCTCTATTCATAATGATATCGAAATTATGAGGTG
130 GTGATGAAGGGGATTTGGCCCTCCCGGCGTATCTCTCTTCACAATGATATCGAAATCATGAGGAG
* * * *
77479 ATGAAGGAGGATGATTGTGATGAAGGGGATTTGGTCCTCCTGGAGTATCTCTCTTCACAATGTTA
195 ACGAA-GAGGATGATTGTGATGAAGGGGATTTGGCCCTCCTGGCGTA--TCTCTTCACAATGATA
* *
77544 TTCAAATCACGAGGCGACGAATGAGGA
257 -TCAAATCATGAGGCGACGAAGGAGGA
77571 GGAGGATTGT
Statistics
Matches: 1093, Mismatches: 123, Indels: 74
0.85 0.10 0.06
Matches are distributed among these distances:
317 81 0.07
318 96 0.09
319 311 0.28
320 119 0.11
321 138 0.13
322 8 0.01
323 65 0.06
324 1 0.00
326 1 0.00
327 3 0.00
330 199 0.18
331 15 0.01
332 33 0.03
333 1 0.00
334 19 0.02
335 3 0.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (320 bp):
TCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTG
GCCCTCCCGACGTATCTCTCTTCACAATGATATCGAAATCATGAGGCGACGAAGGAGGATGATTG
TGATGAAGGGGATTTGGCCCTCCCGGCGTATCTCTCTTCACAATGATATCGAAATCATGAGGAGA
CGAAGAGGATGATTGTGATGAAGGGGATTTGGCCCTCCTGGCGTATCTCTTCACAATGATATCAA
ATCATGAGGCGACGAAGGAGGATGATTGTGATGAAGGGGATTTTGCCCTCCCGGCGTATC
Done.