Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000790.1 Hibiscus syriacus cultivar Beakdansim tig00001529_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: 88521
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:5610 original size:8 final size:8
Alignment explanation
Indices: 5597--5629 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
5587 TACACCTCAT
5597 TTTGAGAG
1 TTTGAGAG
5605 TTTGAGAG
1 TTTGAGAG
5613 TTTGAGAG
1 TTTGAGAG
*
5621 ATTGAGAG
1 TTTGAGAG
5629 T
1 T
5630 CTTATATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.36, T:0.36
Consensus pattern (8 bp):
TTTGAGAG
Found at i:13872 original size:24 final size:21
Alignment explanation
Indices: 13837--13889 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 21
13827 ACCACCGAAC
* *
13837 AAAAATAAATAAAAGATTTACAA
1 AAAAAAAAAT-AAAGAATTA-AA
13860 AAAAAAAAGATAAAGAATTAAA
1 AAAAAAAA-ATAAAGAATTAAA
*
13882 AATAAAAA
1 AAAAAAAA
13890 TTATATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 9 0.35
23 15 0.58
24 2 0.08
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (21 bp):
AAAAAAAAATAAAGAATTAAA
Found at i:14974 original size:23 final size:23
Alignment explanation
Indices: 14946--15011 Score: 114
Period size: 23 Copynumber: 2.9 Consensus size: 23
14936 CAACAAAAGT
*
14946 AGAGATAAACGTGCCACAAAAAC
1 AGAGATAAACGTGCTACAAAAAC
*
14969 ATAGATAAACGTGCTACAAAAAC
1 AGAGATAAACGTGCTACAAAAAC
14992 AGAGATAAACGTGCTACAAA
1 AGAGATAAACGTGCTACAAA
15012 GGTAGAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.52, C:0.18, G:0.17, T:0.14
Consensus pattern (23 bp):
AGAGATAAACGTGCTACAAAAAC
Found at i:21999 original size:37 final size:37
Alignment explanation
Indices: 21946--22050 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
21936 TCTGTTCGTC
21946 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
* * * *
21983 TTGCTAGGATTCAAACTCCTAAAAATAAGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
** *
22020 CTACTATTATTTAAACTCCTAAAAATATGAT
1 CTACTAGGATTCAAACTCCTAAAAATATGAT
22051 CCACAAGCAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
Found at i:22509 original size:22 final size:23
Alignment explanation
Indices: 22461--22509 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
22451 GTATATATAT
*
22461 ATTTAATTATATTTTATTTATTT
1 ATTTAATTATATTTTATTTATTC
*
22484 ATTT-ATTATAATTTT-TTTCTTC
1 ATTTAATTAT-ATTTTATTTATTC
22506 ATTT
1 ATTT
22510 TTCTTTGCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (23 bp):
ATTTAATTATATTTTATTTATTC
Found at i:22552 original size:2 final size:2
Alignment explanation
Indices: 22545--22590 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
22535 TCCTATTATC
22545 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22587 AT AT
1 AT AT
22591 TTTTTATCTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22775 original size:62 final size:62
Alignment explanation
Indices: 22698--22818 Score: 142
Period size: 62 Copynumber: 2.0 Consensus size: 62
22688 ATTACTATTT
** *
22698 TTTTAGTTAATATTATATGTACA-TTTAT-TTTTCATTTATTTATTATTATTGTTACTATTTAGT
1 TTTTAGTTAATATTATACATACATTTTATATTTTCATATATTT-TT-TTATT-TTA-TATTTAGT
22761 A
62 A
*
22762 TTTTA-TT-ATATTATACATACATTTTATATTTTTATATATTTTTTTATTTTATATTTA
1 TTTTAGTTAATATTATACATACATTTTATATTTTCATATATTTTTTTATTTTATATTTA
22819 TTTTACTATT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
60 6 0.12
61 3 0.06
62 17 0.33
63 9 0.18
64 16 0.31
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (62 bp):
TTTTAGTTAATATTATACATACATTTTATATTTTCATATATTTTTTTATTTTATATTTAGTA
Found at i:22818 original size:11 final size:12
Alignment explanation
Indices: 22804--22833 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
22794 TATATATTTT
22804 TTTATTTTA-TA
1 TTTATTTTACTA
22815 TTTATTTTACTA
1 TTTATTTTACTA
22827 TTTATTT
1 TTTATTT
22834 ATTTTCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTATTTTACTA
Found at i:22820 original size:19 final size:18
Alignment explanation
Indices: 22783--22822 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22773 TATACATACA
22783 TTTTATATTTTTATATAT
1 TTTTATATTTTTATATAT
* *
22801 TTTTTTATTTTATATTTAT
1 TTTTATATTTT-TATATAT
22820 TTT
1 TTT
22823 ACTATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTATATTTTTATATAT
Found at i:22828 original size:19 final size:17
Alignment explanation
Indices: 22782--22829 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
22772 TTATACATAC
22782 ATTTTATATTTTTATAT
1 ATTTTATATTTTTATAT
* *
22799 ATTTTTTTATTTTATATTT
1 A-TTTTATATTTT-TATAT
22818 ATTTTACTATTT
1 ATTTTA-TATTT
22830 ATTTATTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 14 0.56
19 10 0.40
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTATATTTTTATAT
Found at i:22836 original size:27 final size:25
Alignment explanation
Indices: 22782--22838 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 25
22772 TTATACATAC
*
22782 ATTTTATATTTTTATATATTTTTTT
1 ATTTTATATTTTTATATATTTATTT
*
22807 ATTTTATATTTATTTTACTATTTATTT
1 ATTTTATATTT-TTATA-TATTTATTT
22834 ATTTT
1 ATTTT
22839 CATTTCTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 11 0.39
26 4 0.14
27 13 0.46
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (25 bp):
ATTTTATATTTTTATATATTTATTT
Found at i:22855 original size:27 final size:27
Alignment explanation
Indices: 22791--22856 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
22781 CATTTTATAT
* *
22791 TTTTATATATTTTTTTATTTTATATTTA
1 TTTTAT-TATTTATTTATTTTACATTTA
* *
22819 TTTTACTATTTATTTATTTT-CATTTC
1 TTTTATTATTTATTTATTTTACATTTA
22845 TTATTATTATTT
1 TT-TTATTATTT
22857 TTCTTTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.19
27 21 0.66
28 5 0.16
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (27 bp):
TTTTATTATTTATTTATTTTACATTTA
Found at i:27141 original size:26 final size:30
Alignment explanation
Indices: 27112--27171 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
27102 ATACATACAT
27112 TTTTA-TATTTT-TATATA-TATTT-TTTA
1 TTTTATTATTTTATATATACTATTTATTTA
*
27138 TTTTATTATTTTATTTATACTATTTATTTA
1 TTTTATTATTTTATATATACTATTTATTTA
27168 TTTT
1 TTTT
27172 CATTTCTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 5 0.17
27 6 0.21
28 5 0.17
29 5 0.17
30 8 0.28
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (30 bp):
TTTTATTATTTTATATATACTATTTATTTA
Found at i:27163 original size:13 final size:14
Alignment explanation
Indices: 27120--27168 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 14
27110 ATTTTTATAT
* *
27120 TTTTATATATA-TT
1 TTTTATTTATACTA
*
27133 TTTTATTT-TATTA
1 TTTTATTTATACTA
27146 TTTTATTTATACTA
1 TTTTATTTATACTA
27160 -TTTATTTAT
1 TTTTATTTAT
27169 TTTCATTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 2 0.06
13 25 0.81
14 4 0.13
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTATTTATACTA
Found at i:31908 original size:16 final size:15
Alignment explanation
Indices: 31885--31931 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
31875 AAAAAGGGCA
31885 AAAACAAAAAAGAA-
1 AAAACAAAAAAGAAG
31899 AAGAAGCAAAAAAGAAG
1 AA-AA-CAAAAAAGAAG
31916 AAAACAAAAAA-AAG
1 AAAACAAAAAAGAAG
31930 AA
1 AA
31932 CAAAAATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.23
15 9 0.30
16 12 0.40
17 2 0.07
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAACAAAAAAGAAG
Found at i:31937 original size:18 final size:18
Alignment explanation
Indices: 31906--31944 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
31896 GAAAAGAAGC
*
31906 AAAAAAGAAGAAAA-CAA
1 AAAAAAGAAAAAAATCAA
31923 AAAAAAGAACAAAAATCAA
1 AAAAAAGAA-AAAAATCAA
31942 AAA
1 AAA
31945 GAAAAAGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 4 0.21
19 6 0.32
ACGTcount: A:0.82, C:0.08, G:0.08, T:0.03
Consensus pattern (18 bp):
AAAAAAGAAAAAAATCAA
Found at i:33681 original size:106 final size:106
Alignment explanation
Indices: 33561--34823 Score: 2008
Period size: 106 Copynumber: 11.9 Consensus size: 106
33551 TGAGATATCA
* * * * *
33561 CAAGTTCAACTTCACAACGAAGCGACGGCTGGTTGTCAACAAATAACTTCCCAAATTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
33626 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACA
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
33667 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
33732 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * *
33773 CAAGTTCAACTTCACGACGAATGGATCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
33838 ATTTCAACTTCTCAGCGAAGGATATTGGACTCAAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
33879 CAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
33944 ATTTCAACTTCACAGCGAAGGATATTAGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * *
33985 CAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAATAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
34050 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
34091 CAAGTTCAACTTCACGACGAAGGGACCGCTGATTGTCAACAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
34156 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * *
34197 CAAGTTCAACTTCACGATGAAGGGACTGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
34262 ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
34303 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
34368 ATTTCAACTTCACAGCGAAGGATATTGGATTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
34409 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
34474 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
34515 CAAGTTCAACTTCACGACAAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
34580 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * *
34621 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTTTCAATAAATAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * * * *
34686 ATTTCAACTTCACAACAAAGGATATTGGATTCGAGACAACA
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * * * * *
34727 CAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCGATTCCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
34792 ATTTCAACTTCCCGAAG-G-AGGATATTGGACTC
66 ATTTCAACTTCAC--AGCGAAGGATATTGGACTC
34824 GGAACAATGC
Statistics
Matches: 1075, Mismatches: 80, Indels: 4
0.93 0.07 0.00
Matches are distributed among these distances:
106 1074 1.00
108 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
Found at i:35626 original size:37 final size:37
Alignment explanation
Indices: 35573--35677 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
35563 CCTTTTCGTC
35573 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
* * * *
35610 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
** * *
35647 CTACTATTATTTAAACTCCTAAAGATATGAT
1 CTACTAGGATTCAAACTCCTAAAAATATGAT
35678 CCACAAGCAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
Found at i:36106 original size:4 final size:4
Alignment explanation
Indices: 36089--36124 Score: 54
Period size: 4 Copynumber: 8.5 Consensus size: 4
36079 ATATATATAT
36089 TTTA TTATA TTTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TT-TA -TTTA TTTA TTTA TTTA TTTA TTTA TT
36125 ATAATTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 24 0.80
5 4 0.13
6 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:38575 original size:21 final size:19
Alignment explanation
Indices: 38536--38576 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
38526 CAAGGTTAAC
*
38536 TCCTAATTTTATTCCACCT
1 TCCTAATTTTATCCCACCT
38555 TCCTAATTTCTATCCCCACCT
1 TCCTAATTT-TAT-CCCACCT
38576 T
1 T
38577 TTTTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 3 0.16
21 7 0.37
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.44
Consensus pattern (19 bp):
TCCTAATTTTATCCCACCT
Found at i:41644 original size:23 final size:23
Alignment explanation
Indices: 41618--41665 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
41608 ATAAAGTACA
*
41618 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
41641 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
41664 AT
1 AT
41666 TGACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:42175 original size:23 final size:23
Alignment explanation
Indices: 42140--42212 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
42130 ATACTTTACA
*
42140 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
42163 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
42186 ATATAAGCGCTACTTATTACATC
1 ATATAAGCGCTACCTATTACATT
42209 ATAT
1 ATAT
42213 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:42658 original size:23 final size:23
Alignment explanation
Indices: 42623--42695 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
42613 ATACTTTACA
*
42623 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
42646 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
42669 ATATAAGCGCTACTTATTACATC
1 ATATAAGCGCTACCTATTACATT
42692 ATAT
1 ATAT
42696 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:43147 original size:23 final size:23
Alignment explanation
Indices: 43112--43184 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
43102 ATACTTTACA
*
43112 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
43135 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
43158 ATATAAGCGCTACTTATTACATC
1 ATATAAGCGCTACCTATTACATT
43181 ATAT
1 ATAT
43185 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:43197 original size:489 final size:489
Alignment explanation
Indices: 41739--46329 Score: 8665
Period size: 489 Copynumber: 9.4 Consensus size: 489
41729 TTATAATATG
*
41739 TTGAAAGTGTCTATACTTTTTTATAAAAA-GATCGATACTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCTATAC-TTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGT
*
41803 TTCAA-TTTTTTAATAGTGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTGCA
65 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
41867 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATAT
* *
41932 TAGCCAAAGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
* *
41997 ACCGTAAAGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ACCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
42062 CAAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
325 CAAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
42127 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
390 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
42192 GCGCTACTTATTACATCATATTTTTACCTATTATA
455 GCGCTACTTATTACATCATATTTTTACCTATTATA
42227 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
42292 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
42357 -AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAA-TTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
42420 AACCAAAGATAATAAT--ATATGTAATATATATGTTTATTGTTTTTAATTTAATAAT-A-ATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
42481 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
42546 AAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
*
42611 ATATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
42676 CGCTACTTATTACATCATATTTTTACCTATTATA
456 CGCTACTTATTACATCATATTTTTACCTATTATA
42710 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
42775 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
42840 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
42905 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
42970 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
43035 AAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
43100 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
43165 CGCTACTTATTACATCATATTTTTACCTATTATA
456 CGCTACTTATTACATCATATTTTTACCTATTATA
43199 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
43264 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
43329 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
43394 AACCAAAGATAATAATAAATATGT-ATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
43458 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
*
43523 AAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATATAAAGGAT
326 AAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
*
43588 AGATACTTTACAATATAAGCACTACCTATTTCATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
*
43653 CGCTACCTATTACATCATATTTTTACCTATTATA
456 CGCTACTTATTACATCATATTTTTACCTATTATA
* *
43687 TTGAAA--GCCTATACTTTTTAT-AAAAGGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
43749 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAA-TTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
*
43813 AAAATATTATTTGATTGTTTTGATATTTTAT-AAA-A-TATTTAGTATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
43875 AACCAAAGATAATAATAAATATGT-A-ATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
43938 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
44003 AAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
*
44068 ATATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
44133 CGCTACTTATTACATCATATTTTTACCTATTATA
456 CGCTACTTATTACATCATATTTTTACCTATTATA
44167 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
*
44232 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
*
44297 AAAATATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
44362 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
*
44427 CTGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
*
44492 AAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
44557 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
44622 CGCTACTTATTACATCATATTTTTACCTATTATA
456 CGCTACTTATTACATCATATTTTTACCTATTATA
44656 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
*
44721 TCAATTTTTTTAATAGTATTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
44786 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
44851 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
*
44916 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
* *
44981 AAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATATAAAGGAT
326 AAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
*
45046 AGATACTTTACAATATAAGCACTACCTATTTCATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
*
45111 CGCTACCTATTACATCATATTTTTACCTATTATA
456 CGCTACTTATTACATCATATTTTTACCTATTATA
* *
45145 TTGAAAGTGCCTATACTTTTTATAAAAAGGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
45210 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
*
45275 AAAATATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
45340 AACCAAAGATAATAATAAATATGT-A-ATATATGTTTATTG-TTTTAA-TT--TAATAATA-ATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
45398 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
45463 AAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
*
45528 ATATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
*
45593 CGCTACCTATTACATCATATTTTTACCTATTATA
456 CGCTACTTATTACATCATATTTTTACCTATTATA
45627 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
*
45692 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
*
45757 AAAATATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
45822 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
45887 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
* *
45952 AAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAATGAT
326 AAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
*
46017 AGATACTTTACAATATAAGCATTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
*
46082 CGCTACCTATTACATCATATTTTTACCTATTATA
456 CGCTACTTATTACATCATATTTTTACCTATTATA
*
46116 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
46181 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
46246 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
46311 AACCAAAGATAATAATAAA
196 AACCAAAGATAATAATAAA
46330 ACTCACTCAA
Statistics
Matches: 4027, Mismatches: 52, Indels: 47
0.98 0.01 0.01
Matches are distributed among these distances:
480 269 0.07
481 52 0.01
482 458 0.11
483 457 0.11
484 165 0.04
485 161 0.04
486 23 0.01
487 142 0.04
488 390 0.10
489 1910 0.47
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (489 bp):
TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
CGCTACTTATTACATCATATTTTTACCTATTATA
Found at i:43626 original size:23 final size:23
Alignment explanation
Indices: 43600--43672 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
43590 ATACTTTACA
* *
43600 ATATAAGCACTACCTATTTCATT
1 ATATAAGCGCTACCTATTACATT
*
43623 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
43646 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
43669 ATAT
1 ATAT
43673 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:44115 original size:23 final size:23
Alignment explanation
Indices: 44080--44152 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
44070 ATACTTTACA
*
44080 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
44103 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
44126 ATATAAGCGCTACTTATTACATC
1 ATATAAGCGCTACCTATTACATT
44149 ATAT
1 ATAT
44153 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:44604 original size:23 final size:23
Alignment explanation
Indices: 44569--44641 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
44559 ATACTTTACA
*
44569 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
44592 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
44615 ATATAAGCGCTACTTATTACATC
1 ATATAAGCGCTACCTATTACATT
44638 ATAT
1 ATAT
44642 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:45084 original size:23 final size:23
Alignment explanation
Indices: 45058--45130 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
45048 ATACTTTACA
* *
45058 ATATAAGCACTACCTATTTCATT
1 ATATAAGCGCTACCTATTACATT
*
45081 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
45104 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
45127 ATAT
1 ATAT
45131 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:45575 original size:23 final size:23
Alignment explanation
Indices: 45540--45612 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
45530 ATACTTTACA
*
45540 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
45563 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
45586 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
45609 ATAT
1 ATAT
45613 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:45897 original size:971 final size:977
Alignment explanation
Indices: 41739--46329 Score: 8654
Period size: 971 Copynumber: 4.7 Consensus size: 977
41729 TTATAATATG
*
41739 TTGAAAGTGTCTATACTTTTTTATAAAAA-GATCGATACTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCTATAC-TTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGT
*
41803 TTCAA-TTTTTTAATAGTGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTGCA
65 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
41867 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATAT
* *
41932 TAGCCAAAGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
* *
41997 ACCGTAAAGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ACCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
42062 CAAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
325 CAAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
42127 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
390 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
42192 GCGCTACTTATTACATCATATTTTTACCTATTATATTGAAAGTGTCTATACTTTTTATAAAAATG
455 GCGCTACTTATTACATCATATTTTTACCTATTATATTGAAAGTGTCTATACTTTTTATAAAAATG
42257 ATCGATACTTTTTATAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTC
520 ATCGATACTTTTTATAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTC
42322 CACCTACAATATTAATTTAATAATTTCATTTGCAC-AAAAATTATTTGATTGTTTTGATATTTTA
585 CACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTA
42386 TAAAATATTATTTAGTATTTAAA-TTAACAATATTAACCAAAGATAATAAT--ATATGTAATATA
650 TAAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATA
42448 TATGTTTATTGTTTTTAA-TT-TAATAATAATATACCGTAACGTAAAAAATAAATCATTAAACGC
715 TATGTTTATTGTTTTTAATTTATAATAAT-ATATACCGTAACGTAAAAAATAAATCATTAAACGC
42511 CTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATGAATATTTTCCAC
779 CTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATGAATATTTTCCAC
*
42576 AGTGAAAAAAGTATGGACACTTTTATAAAAAGGATATATACTTTACAATATAAGCACTACCTATT
844 AGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATT
*
42641 ACATTATATAAACGCTACCTATTACATTATATAAGCGCTACTTATTACATCATATTTTTACCTAT
909 ACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTAT
42706 TATA
974 TATA
42710 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
42775 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
42840 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
42905 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
42970 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
*
43035 AAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
43100 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
43165 CGCTACTTATTACATCATATTTTTACCTATTATATTGAAAGTGTCTATACTTTTTATAAAAATGA
456 CGCTACTTATTACATCATATTTTTACCTATTATATTGAAAGTGTCTATACTTTTTATAAAAATGA
43230 TCGATACTTTTTATAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCC
521 TCGATACTTTTTATAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCC
43295 ACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT
586 ACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT
43360 AAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT-ATATAT
651 AAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATAT
43424 ATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAAACGCC
716 ATGTTTATTGTTTTTAATTT-ATAATAATATATACCGTAACGTAAAAAATAAATCATTAAACGCC
43489 TATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATGAATATTTTCCACA
780 TATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATGAATATTTTCCACA
* *
43554 GTGAAAAAAGTATGGACACTTTTATATAAAGGATAGATACTTTACAATATAAGCACTACCTATTT
845 GTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTA
43619 CATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATT
910 CATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATT
43684 ATA
975 ATA
* *
43687 TTGAAA--GCCTATACTTTTTAT-AAAAGGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
43749 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAA-TTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
*
43813 AAAATATTATTTGATTGTTTTGATATTTTAT-AAA-A-TATTTAGTATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
43875 AACCAAAGATAATAATAAATATGT-A-ATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
43938 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
*
44003 AAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
*
44068 ATATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
44133 CGCTACTTATTACATCATATTTTTACCTATTATATTGAAAGTGTCTATACTTTTTATAAAAATGA
456 CGCTACTTATTACATCATATTTTTACCTATTATATTGAAAGTGTCTATACTTTTTATAAAAATGA
44198 TCGATACTTTTTATAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCC
521 TCGATACTTTTTATAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCC
* *
44263 ACCTACAATATTAATTTAATAATTTTATTTGCACAAAATATTATTTGATTGTTTTGATATTTTAT
586 ACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT
44328 AAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATAT
651 AAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATAT
*
44393 ATGTTTATTGTTTTTAATTTAATAATAATATATACTGTAACGTAAAAAATAAATCATTAAACGCC
716 ATGTTTATTGTTTTTAATTT-ATAATAATATATACCGTAACGTAAAAAATAAATCATTAAACGCC
*
44458 TATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATGAATGTTTTCCACA
780 TATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATGAATATTTTCCACA
44523 GTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTA
845 GTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTA
*
44588 CATTATATAAACGCTACCTATTACATTATATAAGCGCTACTTATTACATCATATTTTTACCTATT
910 CATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATT
44653 ATA
975 ATA
44656 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
*
44721 TCAATTTTTTTAATAGTATTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
44786 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
44851 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
*
44916 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
*
44981 AAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATATAAAGGAT
326 AAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
*
45046 AGATACTTTACAATATAAGCACTACCTATTTCATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
* * *
45111 CGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGCCTATACTTTTTATAAAAAGGA
456 CGCTACTTATTACATCATATTTTTACCTATTATATTGAAAGTGTCTATACTTTTTATAAAAATGA
45176 TCGATACTTTTTATAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCC
521 TCGATACTTTTTATAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCC
*
45241 ACCTACAATATTAATTTAATAATTTCATTTGCACAAAATATTATTTGATTGTTTTGATATTTTAT
586 ACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT
45306 AAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT-A-ATAT
651 AAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATAT
45369 ATGTTTATTG-TTTTAA-TT-TAATAATA-ATACCGTAACGTAAAAAATAAATCATTAAACGCCT
716 ATGTTTATTGTTTTTAATTTATAATAATATATACCGTAACGTAAAAAATAAATCATTAAACGCCT
45430 ATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATGAATATTTTCCACAG
781 ATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATGAATATTTTCCACAG
*
45495 TGAAAAAAGTATGGACACTTTTATAAAAAGGATATATACTTTACAATATAAGCACTACCTATTAC
846 TGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTAC
45560 ATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTA
911 ATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTA
45625 TA
976 TA
45627 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
*
45692 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
*
45757 AAAATATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
45822 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
45887 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
*
45952 AAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAATGAT
326 AAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
*
46017 AGATACTTTACAATATAAGCATTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
*
46082 CGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCTATACTTTTTATAAAAATGA
456 CGCTACTTATTACATCATATTTTTACCTATTATATTGAAAGTGTCTATACTTTTTATAAAAATGA
*
46147 TCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCC
521 TCGATACTTTTTATAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCC
46212 ACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT
586 ACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT
46277 AAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATAATAAA
651 AAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATAATAAA
46330 ACTCACTCAA
Statistics
Matches: 3550, Mismatches: 51, Indels: 38
0.98 0.01 0.01
Matches are distributed among these distances:
968 483 0.14
969 271 0.08
970 63 0.02
971 989 0.28
972 638 0.18
973 150 0.04
974 117 0.03
975 44 0.01
976 73 0.02
977 238 0.07
978 484 0.14
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (977 bp):
TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
CGCTACTTATTACATCATATTTTTACCTATTATATTGAAAGTGTCTATACTTTTTATAAAAATGA
TCGATACTTTTTATAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCC
ACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT
AAAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATAT
ATGTTTATTGTTTTTAATTTATAATAATATATACCGTAACGTAAAAAATAAATCATTAAACGCCT
ATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATGAATATTTTCCACAG
TGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTAC
ATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTA
TA
Found at i:46065 original size:23 final size:23
Alignment explanation
Indices: 46039--46101 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
46029 ATATAAGCAT
46039 TACCTATTACATTATATAAACGC
1 TACCTATTACATTATATAAACGC
*
46062 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGC
*
46085 TACCTATTACATCATAT
1 TACCTATTACATTATAT
46102 TTTTACCTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGC
Found at i:49150 original size:183 final size:183
Alignment explanation
Indices: 48839--50327 Score: 2515
Period size: 183 Copynumber: 8.1 Consensus size: 183
48829 TACTTAAAAT
48839 TACCGACACAATATTA-AAACGTGTCGATATAGGTTGTAAGACCTATTCGCTCATAAAACCGGTA
1 TACCGACACAATATTAGAAA-GTGTCGATATAGGTTGT-AGACCTATTCGCTCATAAAACCGGTA
*
48903 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATTTGTAAAT
64 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAAT
*
48968 GTCGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAG
129 GTCGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
49023 TACCGACATAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
49088 TTTATACCGGTTATATTACAAAAGTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
*
49153 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATATGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* * * *
49206 TACCGACATAATATTAGAAAGTGTCGATATAAGTTGTAGACATATTCGCTCATAAAACTGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* *
49271 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATTTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
* *
49336 CGACACTTTTTGACCAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
49389 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
49454 TTTATACCGGTTATATTACAAAAGTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
* *
49519 CGACATTTTTTTAAATGGTATCGACACATTTTTCTTCTAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
49572 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACATATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* * *
49637 TTTATACCGGTTATATTACAAAATTATCTATTACACTATAATTCTGGGTTCCGATTTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
*
49702 CGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
49755 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
49820 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
49885 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
49938 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACATATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
50003 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATAT-GGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
*
50067 CGACACTGTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* * * *
50120 TTCCGACACAAAATTAAAAAGTATCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* * * *
50185 TTTATACCGATTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTTTTTTCAA
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATG---TGTAAA
* * *
50250 --TCGACACTTTTTTAAATGGTATCGACACATTTTTATTCTATTCTGGACATAAAG
128 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
** *
50304 TACATACACAATATTAAAAAGTGT
1 TACCGACACAATATTAGAAAGTGT
50328 GAAAATTTTG
Statistics
Matches: 1235, Mismatches: 60, Indels: 20
0.94 0.05 0.02
Matches are distributed among these distances:
182 181 0.15
183 941 0.76
184 106 0.09
185 3 0.00
186 4 0.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
Found at i:51538 original size:3 final size:3
Alignment explanation
Indices: 51530--51607 Score: 75
Period size: 3 Copynumber: 26.0 Consensus size: 3
51520 ACTTGTTTGG
* * * * *
51530 ATC ATC ATC ATC ATC ATC ATC ATC ATC GTC ATT ATC TTC ATC GTC AGC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * *
51578 TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
51608 GTCAGCTTCA
Statistics
Matches: 57, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.24, C:0.32, G:0.06, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:51583 original size:36 final size:36
Alignment explanation
Indices: 51543--51624 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 36
51533 ATCATCATCA
* *
51543 TCATCATCATCATCGTCATTATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
* *
51579 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
*
51615 TCATCTTCAT
1 TCATCATCAT
51625 TGACCGCTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.21, C:0.32, G:0.09, T:0.39
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGTCAGCT
Found at i:51608 original size:12 final size:12
Alignment explanation
Indices: 51534--51624 Score: 92
Period size: 12 Copynumber: 7.3 Consensus size: 12
51524 GTTTGGATCA
* *
51534 TCATCATCATCA
1 TCATCTTCATCG
*
51546 TCATCATCATCG
1 TCATCTTCATCG
51558 TCATTATCTTCATCG
1 TC---ATCTTCATCG
*
51573 TCAGCTTCATCG
1 TCATCTTCATCG
*
51585 TCATCATCATCG
1 TCATCTTCATCG
51597 TCATCTTCATCG
1 TCATCTTCATCG
* *
51609 TCAGCTTCATCT
1 TCATCTTCATCG
51621 TCAT
1 TCAT
51625 TGACCGCTTG
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
12 56 0.84
15 11 0.16
ACGTcount: A:0.22, C:0.32, G:0.08, T:0.38
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:51622 original size:6 final size:6
Alignment explanation
Indices: 51531--51624 Score: 64
Period size: 6 Copynumber: 15.7 Consensus size: 6
51521 CTTGTTTGGA
* * * * * * *
51531 TCATCA TCATCA TCATCA TCATCA TCGTCAT T-ATCT TCATCG TCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATC-T TCATCT TCATCT TCATCT
* * * * *
51579 TCATCG TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TCAT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCAT
51625 TGACCGCTTG
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
5 2 0.03
6 68 0.96
7 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.07, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:53935 original size:199 final size:200
Alignment explanation
Indices: 53214--54040 Score: 1523
Period size: 200 Copynumber: 4.1 Consensus size: 200
53204 GATGTTTTTG
*
53214 GGATCGACACTTTATGGTTGCACCATGTTTTCCATTCATTCTGGACC-AAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
* *
53278 TAAAAAAGTGTCGAAAAATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
53343 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
53408 TATAT
196 TATAT
53413 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
* * *
53478 TAAAAACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCAGTATACTTTTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
*
53543 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACATTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
53608 TATAT
196 TATAT
*
53613 GGATCGACACTTTATGGTTGTACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
53678 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
53743 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
53808 TATAT
196 TATAT
53813 GGATCGACACTTTATGGTTGCA-CCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
* *
53877 TAAAAAAATATCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
* *
53942 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTTGAAGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
54007 TATAT
196 TATAT
*
54012 GGTTCGACACTTTATGGTTGCACCCTGTT
1 GGATCGACACTTTATGGTTGCACCCTGTT
54041 GGCCATATTG
Statistics
Matches: 608, Mismatches: 18, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
199 240 0.39
200 368 0.61
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (200 bp):
GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
TATAT
Found at i:53952 original size:399 final size:399
Alignment explanation
Indices: 53214--54040 Score: 1521
Period size: 399 Copynumber: 2.1 Consensus size: 399
53204 GATGTTTTTG
*
53214 GGATCGACACTTTATGGTTGCACCATGTTTTCCATTCATTCTGGACCAAAATATCGACACAAACT
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAATATCGACACAAACT
53279 AAAAAAGTGTCGAAAAATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAG
66 AAAAAAGTGTCGAAAAATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAG
53344 ATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTAT
131 ATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTAT
53409 ATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACAC
196 ATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACAC
** * *
53474 AAACTAAAAACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCAGTATACTTTTACCG
261 AAACTAAAAAAATATCGACACATTATTTAGACATATTCTCTCATAAAACCAGTATACTTGTACCG
*
53539 GTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACAT
326 GTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGAAGTTTTTGGGATCGACACAT
53604 TTTATATAT
391 TTTATATAT
*
53613 GGATCGACACTTTATGGTTGTACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC-AAAATATCGACACAAAC
* *
53678 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
65 TAAAAAAGTGTCGAAAAATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
53743 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
130 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
53808 TATATGGATCGACACTTTATGGTTGCA-CCTGTTTTCCATTCATTCTGGACCAAAAATATCGACA
195 TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACA
*
53872 CAAACTAAAAAAATATCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACC
260 CAAACTAAAAAAATATCGACACATTATTTAGACATATTCTCTCATAAAACCAGTATACTTGTACC
* *
53937 GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTTGAAGTTTTTGGGATCGACACT
325 GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGAAGTTTTTGGGATCGACACA
54002 TTTTATATAT
390 TTTTATATAT
*
54012 GGTTCGACACTTTATGGTTGCACCCTGTT
1 GGATCGACACTTTATGGTTGCACCCTGTT
54041 GGCCATATTG
Statistics
Matches: 413, Mismatches: 14, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
399 241 0.58
400 172 0.42
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (399 bp):
GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAATATCGACACAAACT
AAAAAAGTGTCGAAAAATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAG
ATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTAT
ATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACAC
AAACTAAAAAAATATCGACACATTATTTAGACATATTCTCTCATAAAACCAGTATACTTGTACCG
GTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGAAGTTTTTGGGATCGACACAT
TTTATATAT
Found at i:54170 original size:18 final size:18
Alignment explanation
Indices: 54147--54207 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
54137 TCTCATTCAT
*
54147 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
54165 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
54184 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
54203 AATTA
1 AATTA
54208 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:54183 original size:19 final size:19
Alignment explanation
Indices: 54159--54207 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
54149 TTATATTCAC
54159 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
54178 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
54197 ATACAAAATTA
1 ATACAAAATTA
54208 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:56014 original size:33 final size:33
Alignment explanation
Indices: 55977--56042 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
55967 CATCTTAATA
*
55977 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
56010 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
56043 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:56101 original size:21 final size:21
Alignment explanation
Indices: 56076--56140 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
56066 CCCCTTATGC
* *
56076 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
56097 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
56118 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
56139 CT
1 CT
56141 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:58202 original size:24 final size:24
Alignment explanation
Indices: 58165--58217 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
58155 CTGTTCTATC
58165 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
58189 TATTTTCATTGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
58213 TATTT
1 TATTT
58218 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:58412 original size:20 final size:19
Alignment explanation
Indices: 58362--58417 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
58352 TCCGGTATCA
*
58362 TTTTACCGGTTTTATCATT
1 TTTTACCTGTTTTATCATT
* *
58381 TTGATACATGTTTTATCATAT
1 TT-TTACCTGTTTTATCAT-T
*
58402 TTTTACCTGTTATATC
1 TTTTACCTGTTTTATC
58418 GTTGTGGATC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.83
21 3 0.10
ACGTcount: A:0.21, C:0.14, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCTGTTTTATCATT
Found at i:58570 original size:20 final size:20
Alignment explanation
Indices: 58543--58589 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
58533 TCCGGTAACG
58543 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
58562 TTCTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
58583 TTTTACC
1 TTTTACC
58590 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.19, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:58633 original size:181 final size:182
Alignment explanation
Indices: 58329--58801 Score: 700
Period size: 181 Copynumber: 2.6 Consensus size: 182
58319 CGTACTTACG
* * * *
58329 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACATGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACAGGTTT
* * *
58394 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
58459 AGG-CGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAC-CTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* *
58510 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACAGGTTT
* * *
58575 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAATTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
58640 AGGACTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGACCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * *
58692 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCA-TTTCAATACTGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTC-ATACAGGTT
* * *
58756 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
58802 AATTTGGATC
Statistics
Matches: 264, Mismatches: 25, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
181 168 0.64
182 96 0.36
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACAGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGACCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:59758 original size:31 final size:31
Alignment explanation
Indices: 59723--59793 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
59713 ACAAGTAATG
* * *
59723 AGTCGAGCAACATATTTTTTTAACGAGCACA
1 AGTCGAGCAACACAATTTTTTAACAAGCACA
*
59754 AGTCGAGCAACACAATTTTTTAACAAGCACG
1 AGTCGAGCAACACAATTTTTTAACAAGCACA
59785 AGTCGAGCA
1 AGTCGAGCA
59794 CTGCCCAACT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (31 bp):
AGTCGAGCAACACAATTTTTTAACAAGCACA
Found at i:60784 original size:19 final size:20
Alignment explanation
Indices: 60750--60788 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
60740 TGCTATTGCC
*
60750 TATACATACATGCTTATATT
1 TATACATACATACTTATATT
60770 TATAC-TACATACTTATATT
1 TATACATACATACTTATATT
60789 ATGAATTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.36, C:0.15, G:0.03, T:0.46
Consensus pattern (20 bp):
TATACATACATACTTATATT
Found at i:65819 original size:6 final size:6
Alignment explanation
Indices: 65808--65840 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
65798 AGAATGCCCA
*
65808 TGTTGC TGTTGC TGTTGC TGTTGC TGCTGC TGT
1 TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGT
65841 AAAATTCTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.18, G:0.33, T:0.48
Consensus pattern (6 bp):
TGTTGC
Found at i:75381 original size:16 final size:16
Alignment explanation
Indices: 75357--75404 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
75347 TACTTTTTAT
*
75357 TATTATTTATGTTTGA
1 TATTTTTTATGTTTGA
* *
75373 TATTTTTTATATTTGG
1 TATTTTTTATGTTTGA
75389 TATTGTTTTA-GTTTGA
1 TATT-TTTTATGTTTGA
75405 AATACTCTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.65
Consensus pattern (16 bp):
TATTTTTTATGTTTGA
Found at i:76076 original size:19 final size:19
Alignment explanation
Indices: 76044--76080 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
76034 AACTGTTAAG
* *
76044 ATGCTTGGTCTCGATACCC
1 ATGCTCGGTATCGATACCC
76063 ATGCTCGGTATCGATACC
1 ATGCTCGGTATCGATACC
76081 AAAGTTGCAA
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:0.19, C:0.30, G:0.22, T:0.30
Consensus pattern (19 bp):
ATGCTCGGTATCGATACCC
Found at i:78673 original size:114 final size:112
Alignment explanation
Indices: 78465--78816 Score: 365
Period size: 114 Copynumber: 3.1 Consensus size: 112
78455 TTAAAAATGT
* *
78465 AGAAAATTTTAACTATTCATGTCATTTTGTATTTAGTGAAATATCACGT-AAAGTT-AAACTTCT
1 AGAAAATCTTAACTATTCATGTCATTTTATATTTAGTGAAATAT-AC-TCAAA-TTAAAACTTCT
** *
78528 TTCATATTGCGTGAAAAATCTTATCAT-GTACAATAATAATTTCAAATGAT
63 TTCATATTGAATGAAAAATCTTATC-TGGTACAATAATAATTTCAAATGAC
* * * *
78578 AGAAAATCTTAACTATTCACGTCCTTTTATATTCAGTGAAATATTATCTCGAATTAAAACTTCTT
1 AGAAAATCTTAACTATTCATGTCATTTTATATTTAGTGAAATA-TA-CTCAAATTAAAACTTCTT
* *
78643 TCATATTGAATGAAATATCTTATCTGGTACAATAATAATTTTAAATGAC
64 TCATATTGAATGAAAAATCTTATCTGGTACAATAATAATTTCAAATGAC
* * * * * ** *
78692 A-AAGAATTTTAACTATTCGTGTTATTTTCTTTTTAGTGAAATACCCTCAAATTAAAACTTTTTT
1 AGAA-AATCTTAACTATTCATGTCATTTTATATTTAGTGAAATATACTCAAATTAAAACTTCTTT
* * * *
78756 CATATTGAATAAAAAATTTTATCTGGT-TAATAAT-ACTTCTAAATGAC
65 CATATTGAATGAAAAATCTTATCTGGTACAATAATAATTTC-AAATGAC
* *
78803 ATAGAATCTTAACT
1 AGAAAATCTTAACT
78817 GTAACACCCT
Statistics
Matches: 200, Mismatches: 31, Indels: 18
0.80 0.12 0.07
Matches are distributed among these distances:
110 3 0.01
111 23 0.12
112 42 0.21
113 45 0.22
114 87 0.44
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (112 bp):
AGAAAATCTTAACTATTCATGTCATTTTATATTTAGTGAAATATACTCAAATTAAAACTTCTTTC
ATATTGAATGAAAAATCTTATCTGGTACAATAATAATTTCAAATGAC
Found at i:79136 original size:18 final size:18
Alignment explanation
Indices: 79101--79143 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
79091 AAATATATTA
*
79101 AAAT-AATAAAAGCGATT
1 AAATAAATAAAAGCAATT
*
79118 AAATAAATAAAAGTAATT
1 AAATAAATAAAAGCAATT
79136 AAAGTAAA
1 AAA-TAAA
79144 AATAAGAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 14 0.64
19 4 0.18
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.23
Consensus pattern (18 bp):
AAATAAATAAAAGCAATT
Done.