Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005759.1 Hibiscus syriacus cultivar Beakdansim tig00013483_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: 72432
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1103 original size:41 final size:41
Alignment explanation
Indices: 1046--1125 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
1036 CAAAGAGATA
1046 TAAAAGTGGTAAAAAAGATCCTTATACACTTAAAACTTAAT
1 TAAAAGTGGTAAAAAAGATCCTTATACACTTAAAACTTAAT
*
1087 TAAAAGTGGTAAAAAAGATCCTTGTACACTTAAAACTTA
1 TAAAAGTGGTAAAAAAGATCCTTATACACTTAAAACTTA
1126 TTACTTTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.29
Consensus pattern (41 bp):
TAAAAGTGGTAAAAAAGATCCTTATACACTTAAAACTTAAT
Found at i:8238 original size:12 final size:12
Alignment explanation
Indices: 8223--8252 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8213 TATATAAATA
*
8223 TGATTATACATG
1 TGATAATACATG
8235 TGATAATACATG
1 TGATAATACATG
8247 TGATAA
1 TGATAA
8253 CGTTAGACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.37
Consensus pattern (12 bp):
TGATAATACATG
Found at i:12863 original size:20 final size:20
Alignment explanation
Indices: 12838--12876 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12828 TTATTAATTT
* *
12838 AATTTAATTTAATAAATAAG
1 AATTTAATTGAAAAAATAAG
12858 AATTTAATTGAAAAAATAA
1 AATTTAATTGAAAAAATAA
12877 TATAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
AATTTAATTGAAAAAATAAG
Found at i:17746 original size:16 final size:14
Alignment explanation
Indices: 17710--17741 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
17700 AATAATCTAT
17710 ATATTTATAATATA
1 ATATTTATAATATA
17724 ATATTTAT-ATATA
1 ATATTTATAATATA
17737 ATATT
1 ATATT
17742 ATTTAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATTTATAATATA
Found at i:22271 original size:8 final size:8
Alignment explanation
Indices: 22254--22293 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
22244 CGCTCCTTCC
22254 TATT-TTT
1 TATTATTT
22261 TATTATTT
1 TATTATTT
*
22269 TATTAATT
1 TATTATTT
*
22277 AATTATTT
1 TATTATTT
22285 TATTATTT
1 TATTATTT
22293 T
1 T
22294 TATTTAATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 4 0.14
8 24 0.86
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
TATTATTT
Found at i:22617 original size:16 final size:15
Alignment explanation
Indices: 22596--22667 Score: 57
Period size: 16 Copynumber: 4.9 Consensus size: 15
22586 TAAAATGATA
22596 AAAAATTATTGAATAC
1 AAAAATTATT-AATAC
22612 AAAAATTAATTAA-AC
1 AAAAATT-ATTAATAC
*
22627 -AAAA--A-TAATAA
1 AAAAATTATTAATAC
22638 AAAAATTATTGAATA-
1 AAAAATTATT-AATAC
22653 AAAAATTAATTAATA
1 AAAAATT-ATTAATA
22668 AAATAATAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 17
0.72 0.02 0.26
Matches are distributed among these distances:
10 3 0.06
11 2 0.04
12 4 0.09
14 5 0.11
15 14 0.30
16 16 0.34
17 3 0.06
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (15 bp):
AAAAATTATTAATAC
Found at i:22638 original size:41 final size:38
Alignment explanation
Indices: 22576--22681 Score: 140
Period size: 41 Copynumber: 2.7 Consensus size: 38
22566 ATAAATTTAT
* * *
22576 AATTAAATAATAAAATGATAAAAAATTATTGAATACAAA
1 AATTAATTAAAAAAATAATAAAAAATTATTGAATA-AAA
22615 AATTAATTAAACAAAAATAATAAAAAAATTATTGAATAAAA
1 AATTAATT-AA-AAAAATAAT-AAAAAATTATTGAATAAAA
*
22656 AATTAATTAATAAAATAATAAAAAAT
1 AATTAATTAAAAAAATAATAAAAAAT
22682 GAGGAAGGCG
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
38 7 0.12
39 15 0.25
40 4 0.07
41 18 0.30
42 16 0.27
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (38 bp):
AATTAATTAAAAAAATAATAAAAAATTATTGAATAAAA
Found at i:22649 original size:42 final size:39
Alignment explanation
Indices: 22576--22680 Score: 140
Period size: 39 Copynumber: 2.6 Consensus size: 39
22566 ATAAATTTAT
* * *
22576 AATTAAATAATAAAATGAT-AAAAAATTATTGAATACAAA
1 AATTAATTAAAAAAATAATAAAAAAATTATTGAATA-AAA
22615 AATTAATTAAACAAAAATAATAAAAAAATTATTGAATAAAA
1 AATTAATT-AA-AAAAATAATAAAAAAATTATTGAATAAAA
*
22656 AATTAATTAATAAAATAATAAAAAA
1 AATTAATTAAAAAAATAATAAAAAA
22681 TGAGGAAGGC
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
39 21 0.36
40 4 0.07
41 18 0.31
42 16 0.27
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.28
Consensus pattern (39 bp):
AATTAATTAAAAAAATAATAAAAAAATTATTGAATAAAA
Found at i:22667 original size:15 final size:15
Alignment explanation
Indices: 22593--22670 Score: 71
Period size: 15 Copynumber: 5.4 Consensus size: 15
22583 TAATAAAATG
22593 ATAAAAAATT-ATTGA
1 ATAAAAAATTAATT-A
22608 ATACAAAAATTAATTA
1 ATA-AAAAATTAATTA
22624 A-ACAAAAA-TAA-T-
1 ATA-AAAAATTAATTA
22636 A-AAAAAATT-ATTGA
1 ATAAAAAATTAATT-A
22650 ATAAAAAATTAATTA
1 ATAAAAAATTAATTA
22665 ATAAAA
1 ATAAAA
22671 TAATAAAAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 16
0.77 0.00 0.23
Matches are distributed among these distances:
11 6 0.11
12 4 0.07
13 1 0.02
14 4 0.07
15 25 0.45
16 12 0.22
17 3 0.05
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (15 bp):
ATAAAAAATTAATTA
Found at i:23256 original size:29 final size:29
Alignment explanation
Indices: 23214--23270 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
23204 ACGAACCAGC
23214 ATAGGTCGCCATGCACGCCCGACGTCCTT
1 ATAGGTCGCCATGCACGCCCGACGTCCTT
*
23243 ATAGGTCGCCATGCACGCCCGGCGTCCT
1 ATAGGTCGCCATGCACGCCCGACGTCCT
23271 ACCATGTCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.16, C:0.39, G:0.26, T:0.19
Consensus pattern (29 bp):
ATAGGTCGCCATGCACGCCCGACGTCCTT
Found at i:23359 original size:19 final size:20
Alignment explanation
Indices: 23309--23383 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
23299 TACACACTCC
23309 CATGCA-CGATCTCCCCATG
1 CATGCACCGATCTCCCCATG
* *
23328 CATGAACCGATCTCCCGGA-G
1 CATGCACCGATCTCCC-CATG
23348 CATGCA-CGATCTCCCCATG
1 CATGCACCGATCTCCCCATG
23367 CATGCACCGATCTCCCC
1 CATGCACCGATCTCCCC
23384 CCATGCGTGC
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
18 1 0.02
19 21 0.44
20 25 0.52
21 1 0.02
ACGTcount: A:0.21, C:0.43, G:0.17, T:0.19
Consensus pattern (20 bp):
CATGCACCGATCTCCCCATG
Found at i:23401 original size:26 final size:26
Alignment explanation
Indices: 23365--23415 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
23355 GATCTCCCCA
23365 TGCATGCACCGATCTCCCCCCATGCG
1 TGCATGCACCGATCTCCCCCCATGCG
23391 TGCATGCACCGATCTCCCCCCATGC
1 TGCATGCACCGATCTCCCCCCATGC
23416 ACACCATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.16, C:0.47, G:0.18, T:0.20
Consensus pattern (26 bp):
TGCATGCACCGATCTCCCCCCATGCG
Found at i:23423 original size:27 final size:26
Alignment explanation
Indices: 23367--23425 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
23357 TCTCCCCATG
***
23367 CATGCACCGATCTCCCCCCATGCGTG
1 CATGCACCGATCTCCCCCCATGCCAC
23393 CATGCACCGATCTCCCCCCATGCACAC
1 CATGCACCGATCTCCCCCCATGC-CAC
23420 CATGCA
1 CATGCA
23426 GCTCCCGCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 23 0.79
27 6 0.21
ACGTcount: A:0.20, C:0.47, G:0.15, T:0.17
Consensus pattern (26 bp):
CATGCACCGATCTCCCCCCATGCCAC
Found at i:23499 original size:29 final size:29
Alignment explanation
Indices: 23455--23510 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
23445 CCCGAGTGCA
*
23455 TGGGCGTGCATAGCGACCTTTTTGGTCGT
1 TGGGCGTGCATAGCGACCTCTTTGGTCGT
*
23484 TGGGCGTGCATGGCGACCTCTTTGGTC
1 TGGGCGTGCATAGCGACCTCTTTGGTC
23511 ACTGTAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.09, C:0.23, G:0.36, T:0.32
Consensus pattern (29 bp):
TGGGCGTGCATAGCGACCTCTTTGGTCGT
Found at i:27814 original size:20 final size:20
Alignment explanation
Indices: 27791--27842 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
27781 AACGCGATCC
27791 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
27811 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
27831 CCAAAATCGCAA
1 CCAGAATCGCAA
27843 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:27859 original size:21 final size:20
Alignment explanation
Indices: 27832--27930 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
27822 AATCAGTTTC
27832 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
27853 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
27874 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
27894 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
27915 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
27931 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:27959 original size:20 final size:20
Alignment explanation
Indices: 27897--28090 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
27887 CGATTTTCCA
* ** *
27897 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
27917 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
27937 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
27957 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
27977 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
27997 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
28017 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
28037 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
28057 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
28078 AAATCGCAACGCG
1 AAATCGCAACGCG
28091 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:27981 original size:60 final size:60
Alignment explanation
Indices: 27897--28090 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
27887 CGATTTTCCA
* ** * *
27897 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
27957 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
28017 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
28078 AAATCGCAACGCG
1 AAATCGCAACGCG
28091 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:28511 original size:33 final size:33
Alignment explanation
Indices: 28472--28542 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
28462 TTCACTTAGA
*
28472 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
28505 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
28538 TTTCA
1 TTTCA
28543 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:28682 original size:14 final size:14
Alignment explanation
Indices: 28663--28717 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
28653 AGAATGACTG
28663 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
28677 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
28696 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
28710 TCGCAACG
1 TCGCAACG
28718 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:28730 original size:33 final size:33
Alignment explanation
Indices: 28663--28733 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
28653 AGAATGACTG
***
28663 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
28696 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
28729 TCGCA
1 TCGCA
28734 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:28751 original size:19 final size:19
Alignment explanation
Indices: 28729--28826 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
28719 GAAACCAAAA
*
28729 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
28748 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
28762 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
28781 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
28795 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
28814 TCGCGTTGCGATT
1 TCGCGTTGCGATT
28827 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:28770 original size:14 final size:14
Alignment explanation
Indices: 28751--28840 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
28741 TTTCATTTCG
28751 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
28765 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
28784 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
28798 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
28815 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
28831 CGTTGCGATT
1 CGTTGCGATT
28841 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:28776 original size:33 final size:33
Alignment explanation
Indices: 28734--28848 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
28724 CAAAATCGCA
28734 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
28767 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
28800 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
28833 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
28849 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:30761 original size:92 final size:93
Alignment explanation
Indices: 30545--30831 Score: 567
Period size: 93 Copynumber: 3.1 Consensus size: 93
30535 TAGATTGCTT
30545 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
30610 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
30638 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
30702 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
30730 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
30795 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
30823 AGTAAATTT
1 AGTAAATTT
30832 ATCCATTCAA
Statistics
Matches: 193, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.48
93 101 0.52
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:30915 original size:19 final size:19
Alignment explanation
Indices: 30875--31003 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
30865 TAGTTTACTT
* *
30875 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
30895 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
30914 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
30933 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
30947 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
30966 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
30980 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
30999 TCGCA
1 TCGCA
31004 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:30954 original size:33 final size:32
Alignment explanation
Indices: 30911--31003 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
30901 CGCGAAACCA
**
30911 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
30943 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
30976 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
31004 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:31001 original size:52 final size:52
Alignment explanation
Indices: 30875--31003 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
30865 TAGTTTACTT
**
30875 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
30927 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
30980 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
31004 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:31021 original size:19 final size:19
Alignment explanation
Indices: 30999--31133 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
30989 GAAACCAAAA
*
30999 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
31018 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
31034 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
31051 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
31067 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
31084 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
31103 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
31123 TCGTGTTGCGA
1 TCGCGTTGCGA
31134 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:31040 original size:14 final size:14
Alignment explanation
Indices: 31021--31077 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
31011 TTTCATTTCG
31021 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
31035 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
31052 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
31068 CGTTGCGATT
1 CGTTGCGATT
31078 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:31046 original size:33 final size:33
Alignment explanation
Indices: 31004--31096 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
30994 CAAAATCGCA
*
31004 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
31037 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
31070 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
31097 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:33056 original size:14 final size:14
Alignment explanation
Indices: 33037--33072 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
33027 ATTGTTTAAT
33037 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
33051 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
33065 TGATTTGT
1 TGATTTGT
33073 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:33195 original size:19 final size:19
Alignment explanation
Indices: 33179--33280 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
33169 AAAAATGACT
33179 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
33198 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
33217 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
33231 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
33250 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
33270 ATCGCAATGCG
1 ATCGCAATGCG
33281 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:33333 original size:19 final size:19
Alignment explanation
Indices: 33309--33615 Score: 349
Period size: 19 Copynumber: 17.4 Consensus size: 19
33299 GATTATCTCG
33309 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
33328 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
33347 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
33361 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
33380 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
33399 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
33418 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
33437 TTGCGA--TT-ATGTCG-G
1 TTGCGATTTTCATTTCGCA
33452 TT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
33470 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
33489 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
33503 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
33522 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
33541 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
33555 TTGCAATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
33575 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
33589 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
33608 TTGCGATT
1 TTGCGATT
33616 GTATTTTCCG
Statistics
Matches: 247, Mismatches: 15, Indels: 52
0.79 0.05 0.17
Matches are distributed among these distances:
14 31 0.13
15 2 0.01
16 31 0.13
17 28 0.11
18 5 0.02
19 139 0.56
20 11 0.04
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:33384 original size:71 final size:71
Alignment explanation
Indices: 33309--33548 Score: 355
Period size: 71 Copynumber: 3.4 Consensus size: 71
33299 GATTATCTCG
33309 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
33374 TTCGCA
66 TTCGCA
* *
33380 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATT
* *
33443 TT-ATGTCG-G
61 TTCATTTCGCA
*
33452 TT-CGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
33516 TTCGCA
66 TTCGCA
33522 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
33549 CTCTCGTTGC
Statistics
Matches: 150, Mismatches: 9, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
66 6 0.04
68 6 0.04
69 7 0.05
70 2 0.01
71 107 0.71
72 2 0.01
73 7 0.05
74 7 0.05
76 6 0.04
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
TTCGCA
Found at i:33468 original size:142 final size:136
Alignment explanation
Indices: 33277--33615 Score: 495
Period size: 142 Copynumber: 2.4 Consensus size: 136
33267 AAAATCGCAA
33277 TGCG-TTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCAT
1 TGCGATTT-TAATTTCGCATTGCGATTAT-TCGTTGCGATTTTCATTTCGCATTGCGATTTTCAT
*
33341 TTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
64 TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA-
*
33406 TTTCATTTCGTAT
128 -TTC-TCTCG--T
33419 TGCGATTTTAATTTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCATTGCGATTTTCAT
1 TGCGATTTTAATTTCGCATTGCGATTAT-TC-GTTGCGATTTTCATTTCGCATTGCGATTTTCAT
33483 TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
64 TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
33548 TCTCTCGT
129 TCTCTCGT
* * * *
33556 TGCAATTTTCATTTCCGCATTGCGATT-TTCATGTTGGGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTAATTT-CGCATTGCGATTATTC--GTTGCGATTTTCATTTCGCATTGCGATT
33616 GTATTTTCCG
Statistics
Matches: 184, Mismatches: 8, Indels: 14
0.89 0.04 0.07
Matches are distributed among these distances:
136 2 0.01
137 17 0.09
138 34 0.18
139 4 0.02
140 3 0.02
142 118 0.64
143 6 0.03
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (136 bp):
TGCGATTTTAATTTCGCATTGCGATTATTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTT
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTC
TCTCGT
Found at i:33554 original size:52 final size:52
Alignment explanation
Indices: 33309--33587 Score: 345
Period size: 52 Copynumber: 5.2 Consensus size: 52
33299 GATTATCTCG
*
33309 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
33361 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* * *
33418 TTGCGATTTTAATTTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTC-GTTGCGATTTTCATTTCGCA
33470 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
*
33522 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCAATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCA
33575 TTGCGATTTTCAT
1 TTGCGATTTTCAT
33588 GTTGGGATTT
Statistics
Matches: 211, Mismatches: 8, Indels: 15
0.90 0.03 0.06
Matches are distributed among these distances:
51 3 0.01
52 151 0.72
53 19 0.09
54 6 0.03
55 8 0.04
57 24 0.11
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:33580 original size:34 final size:33
Alignment explanation
Indices: 33287--33615 Score: 178
Period size: 33 Copynumber: 9.5 Consensus size: 33
33277 TGCGTTTATA
*
33287 ATTTCGCATTGCGATTATC-TCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCAT-GTTGCGATTTTC
*
33320 ATTTCGCATTGCGATTTTCAT-TT-CGCATTGCGATTC
1 ATTTCGCATTGCGATTCTCATGTTGCG-ATT----TTC
*
33356 -TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCA--T-G--TTGCGATTTTC
* *
33391 ATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTA
1 ATTTCGCATTGCGATTCTCA--T-G--TTGCGATTTTC
* *
33429 ATTTCGCATTGCGATTATGTC-GGTT-CGATTTTC
1 ATTTCGCATTGCGA-T-TCTCATGTTGCGATTTTC
* *
33462 ATTTCGCATTGCGATTTTCAT-TT-CGCA-TTGC
1 ATTTCGCATTGCGATTCTCATGTTGCG-ATTTTC
* * *
33493 GATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 -ATT-TCGCATTGCGATTCTCA--T-G--TTGCGATTTTC
*
33533 ATTTCGCATTGCGATTCTC-TCGTTGCAATTTTC
1 ATTTCGCATTGCGATTCTCAT-GTTGCGATTTTC
* *
33566 ATTTCCGCATTGCGATTTTCATGTTGGGATTTTC
1 ATTT-CGCATTGCGATTCTCATGTTGCGATTTTC
*
33600 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
33616 GTATTTTCCG
Statistics
Matches: 244, Mismatches: 20, Indels: 64
0.74 0.06 0.20
Matches are distributed among these distances:
31 12 0.05
32 10 0.04
33 91 0.37
34 31 0.13
35 14 0.06
36 9 0.04
38 55 0.23
39 12 0.05
40 10 0.04
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCATGTTGCGATTTTC
Found at i:35937 original size:12 final size:12
Alignment explanation
Indices: 35920--35944 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35910 TCTTCGGGGA
35920 CTTTTTCTTCTT
1 CTTTTTCTTCTT
35932 CTTTTTCTTCTT
1 CTTTTTCTTCTT
35944 C
1 C
35945 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:36153 original size:24 final size:24
Alignment explanation
Indices: 36119--36165 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
36109 CTGAAACATC
36119 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
36143 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
36166 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:36866 original size:20 final size:20
Alignment explanation
Indices: 36838--37206 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
36828 AAATTTCAGT
* * * *
36838 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
36858 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
36878 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
36898 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
36918 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
36938 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
36958 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
36978 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
36998 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
37018 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
37038 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
37058 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
37078 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
37098 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
37118 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
37138 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
37158 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
37178 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
37198 GTTGCGATT
1 GTTGCGATT
37207 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:44320 original size:20 final size:21
Alignment explanation
Indices: 44297--44335 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44287 TTTTTATCGT
*
44297 TGACCGTTC-TGGTGCTGACG
1 TGACAGTTCATGGTGCTGACG
44317 TGACAGTTCATGGTGCTGA
1 TGACAGTTCATGGTGCTGA
44336 TATGGCAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.31
Consensus pattern (21 bp):
TGACAGTTCATGGTGCTGACG
Found at i:44344 original size:21 final size:21
Alignment explanation
Indices: 44302--44365 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
44292 ATCGTTGACC
* *
44302 GTTC-TGGTGCTGACGTGACA
1 GTTCATGGTGCTGATGTGGCA
*
44322 GTTCATGGTGCTGATATGGCA
1 GTTCATGGTGCTGATGTGGCA
* * *
44343 GTCCACGATGCTGATGTGGCA
1 GTTCATGGTGCTGATGTGGCA
44364 GT
1 GT
44366 CCATCTACCA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
20 4 0.11
21 32 0.89
ACGTcount: A:0.17, C:0.19, G:0.34, T:0.30
Consensus pattern (21 bp):
GTTCATGGTGCTGATGTGGCA
Found at i:49427 original size:4 final size:4
Alignment explanation
Indices: 49418--49488 Score: 142
Period size: 4 Copynumber: 17.8 Consensus size: 4
49408 AAAGGAGGCA
49418 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
1 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
49466 CACG CACG CACG CACG CACG CAC
1 CACG CACG CACG CACG CACG CAC
49489 ACATACGTGT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 67 1.00
ACGTcount: A:0.25, C:0.51, G:0.24, T:0.00
Consensus pattern (4 bp):
CACG
Found at i:51498 original size:60 final size:59
Alignment explanation
Indices: 51432--51578 Score: 152
Period size: 60 Copynumber: 2.4 Consensus size: 59
51422 AACATAATGA
*
51432 ATAGTCAGGTGACCATTTTGTAACTTTTAATAGTCAAGGGACTCAACAAAGCAACATCCT
1 ATAGTCAGG-GACCATTTTGTAACTTTTAACAGTCAAGGGACTCAACAAAGCAACATCCT
** * * ** * * **
51492 ATAGTCAAAAGATCATTTTGTAACTTTTGACAGTTGAGGGACTCCATAAAGCAATGTCCT
1 ATAGTC-AGGGACCATTTTGTAACTTTTAACAGTCAAGGGACTCAACAAAGCAACATCCT
51552 ATAGTCAAGGGACCATTTGTGT-ACTTT
1 ATAGTC-AGGGACCATTT-TGTAACTTT
51579 ACCCTATTTC
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
60 67 0.94
61 4 0.06
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (59 bp):
ATAGTCAGGGACCATTTTGTAACTTTTAACAGTCAAGGGACTCAACAAAGCAACATCCT
Found at i:53203 original size:17 final size:18
Alignment explanation
Indices: 53176--53209 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
53166 TGTTTTCTTG
*
53176 CTAATAAAATTCAATTAT
1 CTAATAAAATTAAATTAT
53194 CTAA-AAAATTAAATTA
1 CTAATAAAATTAAATTA
53210 CGCGTTTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (18 bp):
CTAATAAAATTAAATTAT
Found at i:54825 original size:98 final size:99
Alignment explanation
Indices: 54707--54898 Score: 305
Period size: 98 Copynumber: 1.9 Consensus size: 99
54697 AAATGATTAT
* * * * *
54707 TTTTATCCGTTTTAGTACTTCAACTTTTAGCTTTTTCAAAATTATACCTAACGTTTAATTTTTAT
1 TTTTATCCATTTTAGTACTTCAACTTTTAACTTTTTCAAAATCATACATAACATTTAATTTTTAT
*
54772 TTTATTTTAGTACTTGTCGTCAAGAATTTAACTA
66 TTTATTTTAATACTTGTCGTCAAGAATTTAACTA
*
54806 TTTT-TCCATTTTAGTACTTCAACTTTTAACTTTTTCAAAATCATACATAATATTTAATTTTTAT
1 TTTTATCCATTTTAGTACTTCAACTTTTAACTTTTTCAAAATCATACATAACATTTAATTTTTAT
*
54870 TTTATTTTAATACTTGTCGTCAATAATTT
66 TTTATTTTAATACTTGTCGTCAAGAATTT
54899 TACTCTGTGG
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
98 81 0.95
99 4 0.05
ACGTcount: A:0.29, C:0.14, G:0.06, T:0.52
Consensus pattern (99 bp):
TTTTATCCATTTTAGTACTTCAACTTTTAACTTTTTCAAAATCATACATAACATTTAATTTTTAT
TTTATTTTAATACTTGTCGTCAAGAATTTAACTA
Found at i:55511 original size:10 final size:10
Alignment explanation
Indices: 55498--55524 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
55488 CTTTTCATTT
55498 CGAGCTTTTA
1 CGAGCTTTTA
55508 CGAGCTTTTA
1 CGAGCTTTTA
55518 CGAGCTT
1 CGAGCTT
55525 CAATTAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (10 bp):
CGAGCTTTTA
Found at i:56571 original size:14 final size:14
Alignment explanation
Indices: 56552--56578 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56542 TCGTAACATC
56552 TAAATCATAAACTT
1 TAAATCATAAACTT
56566 TAAATCATAAACT
1 TAAATCATAAACT
56579 GTATCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAATCATAAACTT
Found at i:62340 original size:19 final size:19
Alignment explanation
Indices: 62316--62352 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
62306 CCAATTTTTT
* *
62316 TTTTATTTTTTAAATAATA
1 TTTTATATTTAAAATAATA
62335 TTTTATATTTAAAATAAT
1 TTTTATATTTAAAATAAT
62353 CAAAGAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTATATTTAAAATAATA
Found at i:62682 original size:16 final size:17
Alignment explanation
Indices: 62645--62685 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
62635 TTAAATTTAA
*
62645 AAAATATATTTAATATTT
1 AAAAT-TATCTAATATTT
62663 -AAATTATCTAAT-TTT
1 AAAATTATCTAATATTT
62678 AAAATTAT
1 AAAATTAT
62686 TAAGATCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 14 0.67
17 4 0.19
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
AAAATTATCTAATATTT
Found at i:64411 original size:23 final size:23
Alignment explanation
Indices: 64385--64428 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
64375 AAAATTTCCT
*
64385 ACAATGACAGAGAAA-AACGTGTC
1 ACAAAGACAGA-AAACAACGTGTC
*
64408 ACAAAGGCAGAAAACAACGTG
1 ACAAAGACAGAAAACAACGTG
64429 ACATAAAAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.50, C:0.18, G:0.23, T:0.09
Consensus pattern (23 bp):
ACAAAGACAGAAAACAACGTGTC
Found at i:64440 original size:23 final size:22
Alignment explanation
Indices: 64392--64442 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
64382 CCTACAATGA
* *
64392 CAGAGAAAAACGTGTCACAAAGG
1 CAGA-AAAAACGTGACACAAAAG
*
64415 CAGAAAACAACGTGACATAAAAG
1 CAGAAAA-AACGTGACACAAAAG
64438 CAGAA
1 CAGAA
64443 TTATTCTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.53, C:0.18, G:0.22, T:0.08
Consensus pattern (22 bp):
CAGAAAAAACGTGACACAAAAG
Found at i:64670 original size:20 final size:20
Alignment explanation
Indices: 64645--64909 Score: 241
Period size: 20 Copynumber: 13.8 Consensus size: 20
64635 TTACACATTC
* *
64645 ATTTGAATATCGCAACGCAA
1 ATTTGACTATCGCAACGCGA
64665 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * * *
64685 ATTTGATTATTGTAACTC-A
1 ATTTGACTATCGCAACGCGA
*
64704 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
64719 ATTTGACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
*
64739 ATATGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
*
64758 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
64773 ATTTGTCTATCGCAACTCGA
1 ATTTGACTATCGCAACGCGA
* *
64793 ATTTGACTATCGCAATG-GCT
1 ATTTGACTATCGCAACGCG-A
* *
64813 ATTTGACAATCGCAACGCAA
1 ATTTGACTATCGCAACGCGA
*
64833 ATTTGAGTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
64853 ATTTGAGTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
64873 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
64893 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
64910 AGAAAATTGC
Statistics
Matches: 198, Mismatches: 33, Indels: 28
0.76 0.13 0.11
Matches are distributed among these distances:
14 17 0.09
15 6 0.03
19 6 0.03
20 169 0.85
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:64722 original size:54 final size:54
Alignment explanation
Indices: 64653--64870 Score: 247
Period size: 54 Copynumber: 3.9 Consensus size: 54
64643 TCATTTGAAT
* * * * * *
64653 ATCGCAACGCAAATTTGACTATCGCAACGCGAATTTGATTATTGTAACTCAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAACGCAAAA
*
64707 ATCGCAACGCGAATTTGACTATCGCAACACGAATATGACTATCGCAACGCAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAACGCAAAA
* * * *
64761 ATCGCAACGCGAATTTGTCTATCGCAACTCGAATTTGACTATCGCAATGGCTATTTGACA
1 ATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAA-CGC-A----AAA
* * * *
64821 ATCGCAACGCAAATTTGAGTATCGCAACGCGAATTTGAGTATCGCAACGC
1 ATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAACGC
64871 GAATTTGATT
Statistics
Matches: 140, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
54 91 0.65
55 2 0.01
56 1 0.01
59 2 0.01
60 44 0.31
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (54 bp):
ATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAACGCAAAA
Found at i:65003 original size:20 final size:20
Alignment explanation
Indices: 64948--65005 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
64938 GCAACGCGAA
64948 TTGACTTTCA-CGTTGCGATT
1 TTGACTTT-AGCGTTGCGATT
* * *
64968 TTGTCTTTCGCATTGCGATT
1 TTGACTTTAGCGTTGCGATT
*
64988 TTGAGTTTAGCGTTGCGA
1 TTGACTTTAGCGTTGCGA
65006 AAGCGTACCT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.14, C:0.17, G:0.24, T:0.45
Consensus pattern (20 bp):
TTGACTTTAGCGTTGCGATT
Found at i:65164 original size:14 final size:14
Alignment explanation
Indices: 65104--65165 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
65094 CACAAATAAG
*
65104 AATTATTTACACATC
1 AATT-TTTACAAATC
**
65119 AATATTAAACAAATC
1 AAT-TTTTACAAATC
*
65134 AACTTTTACAAATC
1 AATTTTTACAAATC
*
65148 AATTTTTATAAATC
1 AATTTTTACAAATC
65162 AATT
1 AATT
65166 AAACAAGCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 12 0.32
16 1 0.03
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:66667 original size:42 final size:42
Alignment explanation
Indices: 66588--66678 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
66578 CCTCTTCAAC
* * *
66588 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* * **
66630 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGAAT
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTTGAGG
66672 GATGACA
1 GATGACA
66679 TGTGAGTCGG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 37 0.93
43 3 0.08
ACGTcount: A:0.23, C:0.16, G:0.38, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:67200 original size:19 final size:19
Alignment explanation
Indices: 67165--67250 Score: 120
Period size: 20 Copynumber: 4.5 Consensus size: 19
67155 GAAACTTAAA
*
67165 ATCGCAACACG-AATGACT
1 ATCGCAACGCGAAATGACT
*
67183 ATCGCAACTCGAAATGACT
1 ATCGCAACGCGAAATGACT
67202 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
*
67222 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAA-ATGACT
67242 ATCGCAACG
1 ATCGCAACG
67251 AGATAATAGC
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
18 10 0.16
19 19 0.31
20 33 0.53
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:67321 original size:20 final size:20
Alignment explanation
Indices: 67293--67358 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
67283 GCGATTCTTT
* **
67293 CGTTACGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
67313 CGTTGCGATAGTCATTTTTG
1 CGTTGCGATAGTCATTTTCG
67333 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
67353 CGTTGC
1 CGTTGC
67359 AAAAGTAAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:67912 original size:18 final size:18
Alignment explanation
Indices: 67889--67937 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
67879 CGGGTCGATC
*
67889 AGGTGATTGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
67907 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
67925 AGGTGATGGCTCT
1 AGGTGATGGCTCT
67938 TGAAGTGGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.12, C:0.12, G:0.45, T:0.31
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:69278 original size:20 final size:20
Alignment explanation
Indices: 69255--69361 Score: 110
Period size: 20 Copynumber: 5.5 Consensus size: 20
69245 TCTGAAACTT
*
69255 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
*
69275 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
** **
69295 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACGCGAAAATG
** *
69315 ACTATCGCATCGC-AAAATG
1 AAAATCGCAACGCGAAAATG
*
69334 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACGCGAAAATG
69353 AAAATCGCA
1 AAAATCGCA
69362 TTGCGATTCT
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
19 23 0.31
20 51 0.69
ACGTcount: A:0.46, C:0.23, G:0.16, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:69967 original size:20 final size:20
Alignment explanation
Indices: 69930--70027 Score: 135
Period size: 20 Copynumber: 5.0 Consensus size: 20
69920 GGCGCTTTGA
* *
69930 AATCGCATTGTGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* *
69950 CATCGCGTTGCGACAGTCAG
1 AATCGCGTTGCGATAGTCAG
69970 AATCGCG-TGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
69989 AATCTCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
70009 AATCACGTTGCGATAGTCA
1 AATCGCGTTGCGATAGTCA
70028 TACTCACATT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
19 17 0.25
20 52 0.75
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:69985 original size:39 final size:40
Alignment explanation
Indices: 69941--70027 Score: 131
Period size: 39 Copynumber: 2.2 Consensus size: 40
69931 ATCGCATTGT
* *
69941 GATAGTCAGCATCGCGTTGCGACAGTCAGAATCGCG-TGC
1 GATAGTCAGAATCGCGTTGCGACAGTCAGAATCACGTTGC
* *
69980 GATAGTCAGAATCTCGTTGCGATAGTCAGAATCACGTTGC
1 GATAGTCAGAATCGCGTTGCGACAGTCAGAATCACGTTGC
70020 GATAGTCA
1 GATAGTCA
70028 TACTCACATT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 32 0.74
40 11 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
GATAGTCAGAATCGCGTTGCGACAGTCAGAATCACGTTGC
Found at i:70034 original size:20 final size:20
Alignment explanation
Indices: 69941--70042 Score: 125
Period size: 20 Copynumber: 5.2 Consensus size: 20
69931 ATCGCATTGT
* *
69941 GATAGTCAGCATCGCGTTGC
1 GATAGTCAGAATCACGTTGC
* *
69961 GACAGTCAGAATCGCG-TGC
1 GATAGTCAGAATCACGTTGC
*
69980 GATAGTCAGAATCTCGTTGC
1 GATAGTCAGAATCACGTTGC
70000 GATAGTCAGAATCACGTTGC
1 GATAGTCAGAATCACGTTGC
* * *
70020 GATAGTCATACTCACATTGC
1 GATAGTCAGAATCACGTTGC
70040 GAT
1 GAT
70043 TTACATATTC
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
19 17 0.23
20 56 0.77
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (20 bp):
GATAGTCAGAATCACGTTGC
Found at i:70040 original size:40 final size:39
Alignment explanation
Indices: 69941--70042 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 39
69931 ATCGCATTGT
* * * * *
69941 GATAGTCAGCATCGCGTTGCGACAGTCAGAATCGCGTGC
1 GATAGTCAGAATCACATTGCGATAGTCAGAATCACGTGC
* *
69980 GATAGTCAGAATCTCGTTGCGATAGTCAGAATCACGTTGC
1 GATAGTCAGAATCACATTGCGATAGTCAGAATCACG-TGC
* *
70020 GATAGTCATACTCACATTGCGAT
1 GATAGTCAGAATCACATTGCGAT
70043 TTACATATTC
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
39 32 0.59
40 22 0.41
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (39 bp):
GATAGTCAGAATCACATTGCGATAGTCAGAATCACGTGC
Done.