Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008213.1 Hibiscus syriacus cultivar Beakdansim tig00110839_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: 2348840
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 9
Found at i:7328 original size:16 final size:16
Alignment explanation
Indices: 7304--7357 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
7294 TATATTTGCA
* *
7304 AAAAAATTAATTAAAT
1 AAAATATTAAATAAAT
*
7320 AAAATATTAAAAAAAT
1 AAAATATTAAATAAAT
*
7336 TAAATACTTAAATAAATT
1 AAAATA-TTAAATAAA-T
7354 AAAA
1 AAAA
7358 ACAAAATATT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 18 0.60
17 8 0.27
18 4 0.13
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAATATTAAATAAAT
Found at i:7339 original size:17 final size:18
Alignment explanation
Indices: 7319--7357 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
7309 ATTAATTAAA
7319 TAAAATA-TTAAAAAAAT
1 TAAAATACTTAAAAAAAT
*
7336 T-AAATACTTAAATAAAT
1 TAAAATACTTAAAAAAAT
7353 TAAAA
1 TAAAA
7358 ACAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 5 0.26
17 11 0.58
18 3 0.16
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATACTTAAAAAAAT
Found at i:7347 original size:25 final size:26
Alignment explanation
Indices: 7303--7358 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
7293 TTATATTTGC
* *
7303 AAAAAAATTAATTAAATAAA-ATATT
1 AAAAAAATTAAATAAATAAATAAATT
**
7328 AAAAAAATTAAATACTTAAATAAATT
1 AAAAAAATTAAATAAATAAATAAATT
7354 AAAAA
1 AAAAA
7359 CAAAATATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (26 bp):
AAAAAAATTAAATAAATAAATAAATT
Found at i:7973 original size:21 final size:22
Alignment explanation
Indices: 7914--7959 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
7904 TTAAAGTTAC
7914 AAAATATTAAGTATTTATTTTA
1 AAAATATTAAGTATTTATTTTA
7936 AAAATATTAAGTATTTATTTTA
1 AAAATATTAAGTATTTATTTTA
7958 AA
1 AA
7960 TTATTTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (22 bp):
AAAATATTAAGTATTTATTTTA
Found at i:10529 original size:13 final size:13
Alignment explanation
Indices: 10513--10545 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
10503 CATCTCCATC
*
10513 TTTCTTTCTTTAT
1 TTTCTTTCATTAT
10526 TTTCTTTCATTAT
1 TTTCTTTCATTAT
10539 TTTCTTT
1 TTTCTTT
10546 TCTCAATGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTCATTAT
Found at i:11175 original size:15 final size:15
Alignment explanation
Indices: 11135--11177 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
11125 TCTTATACTT
11135 TATTTATTT-TCTCAA
1 TATTTATTTAT-TCAA
*
11150 TATTATTTTTATTCAA
1 TATT-TATTTATTCAA
11166 TATTTATTTATT
1 TATTTATTTATT
11178 TATTTTATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 11 0.46
16 12 0.50
17 1 0.04
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTTATTTATTCAA
Found at i:11184 original size:13 final size:13
Alignment explanation
Indices: 11156--11196 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
11146 TCAATATTAT
*
11156 TTTTATTCA-ATA
1 TTTTATTCATTTA
*
11168 -TTTATTTATTTA
1 TTTTATTCATTTA
11180 TTTTATTCATTTA
1 TTTTATTCATTTA
11193 TTTT
1 TTTT
11197 CATTAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
11 7 0.29
12 2 0.08
13 15 0.62
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTATTCATTTA
Found at i:16533 original size:22 final size:22
Alignment explanation
Indices: 16508--16554 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
16498 ATGTATATTG
*
16508 TTATCATAAAGTATGACATAAA
1 TTATCATAAAATATGACATAAA
16530 TTATCATAAAATATGACATAAA
1 TTATCATAAAATATGACATAAA
16552 TTA
1 TTA
16555 AGTGACCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (22 bp):
TTATCATAAAATATGACATAAA
Found at i:23300 original size:2 final size:2
Alignment explanation
Indices: 23293--23327 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
23283 TCTTATAATT
23293 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23328 TAAAGTATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24888 original size:12 final size:12
Alignment explanation
Indices: 24863--24932 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
24853 ACGAAGATAT
* *
24863 CAGAAATCAAAA
1 CAGAATTCAGAA
*
24875 CAGAATTTAGAA
1 CAGAATTCAGAA
24887 CA-AATATCAGAA
1 CAGAAT-TCAGAA
* *
24899 CAGAATCCAGAT
1 CAGAATTCAGAA
*
24911 CAGAAATCAGAA
1 CAGAATTCAGAA
24923 CAGAATTCAG
1 CAGAATTCAG
24933 GTCATTTATC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 3 0.07
12 40 0.87
13 3 0.07
ACGTcount: A:0.53, C:0.17, G:0.14, T:0.16
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:24919 original size:24 final size:24
Alignment explanation
Indices: 24861--24955 Score: 102
Period size: 24 Copynumber: 4.0 Consensus size: 24
24851 AAACGAAGAT
* *
24861 ATCAGAAATCAAAACAGAATTTAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
24885 AACA-AATATCAGAACAGAATCCAG
1 ATCAGAA-ATCAGAACAGAATTCAG
24909 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* ***
24933 GTCATTTATCAGAACAGAATTCA
1 ATCAGAAATCAGAACAGAATTCA
24956 AGTCGAAAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
23 2 0.03
24 55 0.93
25 2 0.03
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.20
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:24943 original size:48 final size:48
Alignment explanation
Indices: 24861--24952 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
24851 AAACGAAGAT
*
24861 ATCAGAAATCAAAACAGAATTTAGAACAAATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAGAACAAATATCAGAACAGAATCCAG
* ** **
24909 ATCAGAAATCAGAACAGAATTCAGGTCATTTATCAGAACAGAAT
1 ATCAGAAATCAAAACAGAATTCAGAACAAATATCAGAACAGAAT
24953 TCAAGTCGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCAGAACAAATATCAGAACAGAATCCAG
Found at i:24967 original size:24 final size:24
Alignment explanation
Indices: 24862--24969 Score: 80
Period size: 24 Copynumber: 4.5 Consensus size: 24
24852 AACGAAGATA
* *
24862 TCAGAAATCAAAACAGAATT-TAG
1 TCAGAAATCAGAACAGAATTCAAG
* *
24885 AACA-AATATCAGAACAGAA-TCCAG
1 -TCAGAA-ATCAGAACAGAATTCAAG
*
24909 ATCAGAAATCAGAACAGAATTCAGG
1 -TCAGAAATCAGAACAGAATTCAAG
***
24934 TCATTTATCAGAACAGAATTCAAG
1 TCAGAAATCAGAACAGAATTCAAG
24958 TC-GAAAATCAGA
1 TCAG-AAATCAGA
24970 TAAAATATTT
Statistics
Matches: 66, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
23 3 0.05
24 58 0.88
25 5 0.08
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:27499 original size:13 final size:13
Alignment explanation
Indices: 27480--27524 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
27470 CGTCGGTCAA
27480 CGGGTCAACGGGT
1 CGGGTCAACGGGT
*
27493 TGGGTCAACGGGT
1 CGGGTCAACGGGT
*
27506 CGGGTCAACAGGT
1 CGGGTCAACGGGT
27519 CGGGTC
1 CGGGTC
27525 GGGTCGGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.16, C:0.22, G:0.44, T:0.18
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:36443 original size:19 final size:19
Alignment explanation
Indices: 36419--36477 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
36409 AGATACAAGC
36419 AAGTTTAAAGAAGAGGAAA
1 AAGTTTAAAGAAGAGGAAA
*
36438 AAGTTT----AAGA-G-TA
1 AAGTTTAAAGAAGAGGAAA
36451 AAGTTTAAAGAAGAGGAAA
1 AAGTTTAAAGAAGAGGAAA
36470 AAGTTTAA
1 AAGTTTAA
36478 GAGTAAAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
13 7 0.22
14 1 0.03
15 4 0.12
17 4 0.12
18 1 0.03
19 15 0.47
ACGTcount: A:0.54, C:0.00, G:0.24, T:0.22
Consensus pattern (19 bp):
AAGTTTAAAGAAGAGGAAA
Found at i:36460 original size:32 final size:32
Alignment explanation
Indices: 36419--36491 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
36409 AGATACAAGC
36419 AAGTTTAAAGAAGAGGAAAAAGTTTAAGAGTA
1 AAGTTTAAAGAAGAGGAAAAAGTTTAAGAGTA
36451 AAGTTTAAAGAAGAGGAAAAAGTTTAAGAGTA
1 AAGTTTAAAGAAGAGGAAAAAGTTTAAGAGTA
*
36483 AAGCTTAAA
1 AAGTTTAAA
36492 TAGATAGTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.53, C:0.01, G:0.23, T:0.22
Consensus pattern (32 bp):
AAGTTTAAAGAAGAGGAAAAAGTTTAAGAGTA
Found at i:38144 original size:18 final size:18
Alignment explanation
Indices: 38121--38159 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
38111 TTCCTCATAT
38121 AATTCTAATCAAAACCCA
1 AATTCTAATCAAAACCCA
38139 AATTCTAATCAAAACCCA
1 AATTCTAATCAAAACCCA
38157 AAT
1 AAT
38160 GGTTTTGTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (18 bp):
AATTCTAATCAAAACCCA
Found at i:42655 original size:3 final size:3
Alignment explanation
Indices: 42647--42779 Score: 223
Period size: 3 Copynumber: 44.7 Consensus size: 3
42637 TTAATATATT
* *
42647 TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
42695 TAA TGA TAA TAA TAA TAA TAA TGA TAA TAA T-A TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
42742 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
42780 TGGGTAAAAA
Statistics
Matches: 121, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
2 2 0.02
3 119 0.98
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:43344 original size:113 final size:113
Alignment explanation
Indices: 43099--43770 Score: 1103
Period size: 113 Copynumber: 6.0 Consensus size: 113
43089 AGAATTATGC
* * * *
43099 AAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * **
43164 TATGAAC-TTCTCCGGAAAAGATAATCCATCAATTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCATAT
43211 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
43276 TATGAACTTTCTCTGGAAAAGCTGATCCATTAAATGATGGATTCATAT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCATAT
43324 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
43389 TATGAACTTTCTCTGGAAAAGCTGATCCATTAAATGATGGATTCATAT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCATAT
43437 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
43502 TATGAACTTTCTCTGGAAAAGCTGATCCATTAAATGATGGATTCATAT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCATAT
43550 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
**** * * **
43615 TATGAACTCGAACTGGAAAAGATGATCCACCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCATAT
43663 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
** * *
43728 TATGAACTTTCTCTGGAAAAATTTATCCATCAAGTGATGGATT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATT
43771 TGAATCTTTG
Statistics
Matches: 529, Mismatches: 30, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
112 68 0.13
113 461 0.87
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCATAT
Found at i:44557 original size:84 final size:84
Alignment explanation
Indices: 44449--45038 Score: 1092
Period size: 84 Copynumber: 7.0 Consensus size: 84
44439 GATCATGCAG
* * *
44449 TTCATCTT-TTAATTCCAACGATTGGTTCTGTCCAACCAGATTAGATAACTCAAAGAACACTTCC
1 TTCATCTTCTAAATT-CAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCC
44513 AGAAGATGCTATTGAGCACA
65 AGAAGATGCTATTGAGCACA
44533 TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
1 TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
44598 GAAGATGCTATTGAGCACA
66 GAAGATGCTATTGAGCACA
44617 TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
1 TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
*
44682 AAAGATGCTATTGAGCACA
66 GAAGATGCTATTGAGCACA
44701 TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
1 TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
*
44766 AAAGATGCTATTGAGCACA
66 GAAGATGCTATTGAGCACA
44785 TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
1 TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
*
44850 GAAGATGCTATTGAGCATA
66 GAAGATGCTATTGAGCACA
44869 TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
1 TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
44934 GAAGATGCTATTGAGCACA
66 GAAGATGCTATTGAGCACA
*
44953 TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATTAGATAACTCAAAGAACACTTCCA
1 TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
*
45018 AAAGATGCTATTGAGCACA
66 GAAGATGCTATTGAGCACA
45037 TT
1 TT
45039 ATATTTGTTC
Statistics
Matches: 496, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
84 491 0.99
85 5 0.01
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (84 bp):
TTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCA
GAAGATGCTATTGAGCACA
Found at i:46234 original size:19 final size:20
Alignment explanation
Indices: 46177--46234 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
46167 TTGACCCCCC
*
46177 TTTCT-TTTTCTTCTTCTTTT
1 TTTCTATTTTC-TATTCTTTT
*
46197 TTTCTTTTTTCTATT-TTTT
1 TTTCTATTTTCTATTCTTTT
*
46216 TTTGTATTTTCT-TTCTTTT
1 TTTCTATTTTCTATTCTTTT
46235 CTCTTAAGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 2 0.06
19 18 0.55
20 8 0.24
21 5 0.15
ACGTcount: A:0.03, C:0.14, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTCTATTTTCTATTCTTTT
Found at i:56246 original size:16 final size:17
Alignment explanation
Indices: 56210--56247 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
56200 ACAAAAAGAA
* *
56210 AATAAATTAGTTTACAT
1 AATAAATAAATTTACAT
56227 AATAAATAAATTTA-AT
1 AATAAATAAATTTACAT
56243 AATAA
1 AATAA
56248 CATTTACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (17 bp):
AATAAATAAATTTACAT
Found at i:58779 original size:3 final size:3
Alignment explanation
Indices: 58771--58873 Score: 179
Period size: 3 Copynumber: 34.3 Consensus size: 3
58761 TTAATATATT
*
58771 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
58819 TGA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
58867 TAA TAA T
1 TAA TAA T
58874 GATATGGGTA
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 94 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:62277 original size:6 final size:6
Alignment explanation
Indices: 62266--62296 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
62256 GATCTTCCCG
62266 TTGACT TTGACT TTGACCT TTGACT TTGACT
1 TTGACT TTGACT TTGA-CT TTGACT TTGACT
62297 AAAAAGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (6 bp):
TTGACT
Found at i:62288 original size:13 final size:13
Alignment explanation
Indices: 62266--62295 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
62256 GATCTTCCCG
62266 TTGA-CTTTGACT
1 TTGACCTTTGACT
62278 TTGACCTTTGACT
1 TTGACCTTTGACT
62291 TTGAC
1 TTGAC
62296 TAAAAAGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.47
Consensus pattern (13 bp):
TTGACCTTTGACT
Found at i:64940 original size:168 final size:169
Alignment explanation
Indices: 64662--64998 Score: 667
Period size: 168 Copynumber: 2.0 Consensus size: 169
64652 TAGGGAGCAT
64662 TTTAGGAGTCGATTTCTAGTAGAACGTTACTTGGCTCAGAGATGACAGAAGTTACAGGATCTAAT
1 TTTAGGAGTCGATTTCTAGTAGAACGTTACTTGGCTCAGAGATGACAGAAGTTACAGGATCTAAT
64727 TGAGGGAGATATGATAGTGTCTGAGTACGAGATAGAGTTTCTGAAG-TGCTGAAGTATGGTTCTA
66 TGAGGGAGATATGATAGTGTCTGAGTACGAGATAGAGTTTCTGAAGTTGCTGAAGTATGGTTCTA
64791 GTTTGGTGCCTATCGAGAGGGATAGGTGTTGAAAGTTTG
131 GTTTGGTGCCTATCGAGAGGGATAGGTGTTGAAAGTTTG
64830 TTTAGGAGTCGATTTCTAGTAGAACGTTACTTGGCTCAGAGATGACAGAAGTTACAGGATCTAAT
1 TTTAGGAGTCGATTTCTAGTAGAACGTTACTTGGCTCAGAGATGACAGAAGTTACAGGATCTAAT
64895 TGAGGGAGATATGATAGTGTCTGAGTACGAGATAGAGTTTCTGAAGTTGCTGAAGTATGGTTCTA
66 TGAGGGAGATATGATAGTGTCTGAGTACGAGATAGAGTTTCTGAAGTTGCTGAAGTATGGTTCTA
64960 GTTTGGTGCCTATCGAGAGGGATAGGTGTTGAAAGTTTG
131 GTTTGGTGCCTATCGAGAGGGATAGGTGTTGAAAGTTTG
64999 CTAAGGGACT
Statistics
Matches: 168, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
168 111 0.66
169 57 0.34
ACGTcount: A:0.27, C:0.10, G:0.31, T:0.32
Consensus pattern (169 bp):
TTTAGGAGTCGATTTCTAGTAGAACGTTACTTGGCTCAGAGATGACAGAAGTTACAGGATCTAAT
TGAGGGAGATATGATAGTGTCTGAGTACGAGATAGAGTTTCTGAAGTTGCTGAAGTATGGTTCTA
GTTTGGTGCCTATCGAGAGGGATAGGTGTTGAAAGTTTG
Found at i:78495 original size:21 final size:22
Alignment explanation
Indices: 78463--78504 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
78453 AATAACATTT
78463 ATGATAAACATCATATGTATTC
1 ATGATAAACATCATATGTATTC
*
78485 ATGAT-AACATCATGTGTATT
1 ATGATAAACATCATATGTATT
78505 AAATAGTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (22 bp):
ATGATAAACATCATATGTATTC
Found at i:95160 original size:18 final size:18
Alignment explanation
Indices: 95137--95187 Score: 102
Period size: 18 Copynumber: 2.8 Consensus size: 18
95127 TCTCTAATAA
95137 TTTTTTAATATAATTTAT
1 TTTTTTAATATAATTTAT
95155 TTTTTTAATATAATTTAT
1 TTTTTTAATATAATTTAT
95173 TTTTTTAATATAATT
1 TTTTTTAATATAATT
95188 CATATATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTTAATATAATTTAT
Found at i:97640 original size:24 final size:24
Alignment explanation
Indices: 97613--97682 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
97603 ACGGAGATAT
97613 CATAAATCAAAACAGAATTCAGAA
1 CATAAATCAAAACAGAATTCAGAA
* * * * *
97637 CATATATCAGAACAGAATCCATAT
1 CATAAATCAAAACAGAATTCAGAA
* * *
97661 CAGAAATCATAACAAAATTCAG
1 CATAAATCAAAACAGAATTCAG
97683 GTCATGTATC
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.53, C:0.19, G:0.09, T:0.20
Consensus pattern (24 bp):
CATAAATCAAAACAGAATTCAGAA
Found at i:97717 original size:24 final size:25
Alignment explanation
Indices: 97642--97727 Score: 65
Period size: 24 Copynumber: 3.6 Consensus size: 25
97632 CAGAACATAT
* *
97642 ATCAGAACAGAATCCATA-TCA-GAA
1 ATCAGAACAAAATTCA-AGTCAGGAA
* * * *
97666 ATCATAACAAAATTCAGGTCATG-T
1 ATCAGAACAAAATTCAAGTCAGGAA
97690 ATCAGAACAAAATTCAAGTC-GGAA
1 ATCAGAACAAAATTCAAGTCAGGAA
97714 ATCAGATA-AAAATT
1 ATCAGA-ACAAAATT
97728 TTATATGATT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
23 1 0.02
24 46 0.94
25 2 0.04
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (25 bp):
ATCAGAACAAAATTCAAGTCAGGAA
Found at i:97717 original size:48 final size:48
Alignment explanation
Indices: 97609--97702 Score: 125
Period size: 48 Copynumber: 2.0 Consensus size: 48
97599 ATAAACGGAG
* * *
97609 ATATCATAAATCAAAACAGAATTCAGAACATATATCAGAACAGAATCC
1 ATATCAGAAATCAAAACAAAATTCAGAACATATATCAGAACAAAATCC
* ** *
97657 ATATCAGAAATCATAACAAAATTCAGGTCATGTATCAGAACAAAAT
1 ATATCAGAAATCAAAACAAAATTCAGAACATATATCAGAACAAAAT
97703 TCAAGTCGGA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.51, C:0.17, G:0.10, T:0.22
Consensus pattern (48 bp):
ATATCAGAAATCAAAACAAAATTCAGAACATATATCAGAACAAAATCC
Found at i:100172 original size:18 final size:18
Alignment explanation
Indices: 100149--100205 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 18
100139 AAGGGTAAAC
100149 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
* *
100167 GGTCAACTGGTCGAGTCG
1 GGTCAACGGGTCGGGTCG
* *
100185 GGTAAACGGGTCAGGTCG
1 GGTCAACGGGTCGGGTCG
100203 GGT
1 GGT
100206 TGGAACCGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.16, C:0.19, G:0.46, T:0.19
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:103513 original size:17 final size:17
Alignment explanation
Indices: 103491--103524 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
103481 GACCGTTAAC
*
103491 CGTTGACAATTTACCAT
1 CGTTGACAATTGACCAT
*
103508 CGTTGACCATTGACCAT
1 CGTTGACAATTGACCAT
103525 TAACCAATGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (17 bp):
CGTTGACAATTGACCAT
Found at i:103520 original size:24 final size:24
Alignment explanation
Indices: 103484--103530 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
103474 CCAAGCCGAC
* *
103484 CGTTAACCGTTGACAATTTACCAT
1 CGTTAACCATTGACAATTAACCAT
* *
103508 CGTTGACCATTGACCATTAACCA
1 CGTTAACCATTGACAATTAACCA
103531 ATGTCAGTGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (24 bp):
CGTTAACCATTGACAATTAACCAT
Found at i:104372 original size:54 final size:54
Alignment explanation
Indices: 104314--104681 Score: 528
Period size: 54 Copynumber: 6.8 Consensus size: 54
104304 ACATATGATC
* * ** * *
104314 ATTCAT-AGACATATTATGAATTTCGTGGTTTGTACACATAGTGCCGAAATAGTT
1 ATTCATCA-ACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAATAGTT
* * *
104368 ATTCATCAACATATGATGAATTCCTTGAATTGCACACTTAGTACCGAAACAGTT
1 ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAATAGTT
*
104422 ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAA-CGATT
1 ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAATAG-TT
* *
104476 ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTCGAAA-CGATT
1 ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAATAG-TT
* *
104530 ATTCATCAACATATGATGAATTCCGTGAATTGTACACTTAGTGCCGAAATGGTT
1 ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAATAGTT
*
104584 ATTCATCAACATATGATGAATTCCATGAATTGCACACTTAGTGCC-AAATAGTT
1 ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAATAGTT
* *
104637 ATTCATCAACATATGATGAATTCCATGAATTGTACACTTAGTGCC
1 ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCC
104682 TCTTTGGTAA
Statistics
Matches: 291, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
53 52 0.18
54 237 0.81
55 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (54 bp):
ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAATAGTT
Found at i:105040 original size:22 final size:21
Alignment explanation
Indices: 104993--105054 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 21
104983 GTTTCTGGAT
* *
104993 CCATAGTATCGATAC-CCATA
1 CCATGGTATCGATACTCTATA
105013 CCATGGTATCGATACTGCTATA
1 CCATGGTATCGATACT-CTATA
* *
105035 CTATGGTACCGATACTCTAT
1 CCATGGTATCGATACTCTAT
105055 TAAGTATCGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 14 0.39
21 4 0.11
22 18 0.50
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (21 bp):
CCATGGTATCGATACTCTATA
Found at i:111191 original size:54 final size:54
Alignment explanation
Indices: 111133--111501 Score: 549
Period size: 54 Copynumber: 6.8 Consensus size: 54
111123 CCATACGATC
* * * * ** * *
111133 ATTCATAAACATATTATAAATTCCTTGGTTTGCACACATAGTGCAGAAACGGTT
1 ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
* *
111187 ATTCATCAACATATGATGAATTCCATGAATTGCACACTTAGTGCTGAAACGGTT
1 ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
* *
111241 ATTCATCAACATATAATGAATTCCGTGAATTGCACACTTAGTGCCGAAACAGTT
1 ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
* *
111295 ATTCATCAACATATGATGAATTCCGTGAATTGAACACTTAGTGCCGAAACAGTT
1 ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
* * *
111349 ATTCATCAACATAAGATGAATTCTGTGAATTGTACACTTAGTGCCGAAACGGTT
1 ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
* * *
111403 ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTCGAAATGATT
1 ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
*
111457 GTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCC
1 ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCC
111502 TATTTGGTAA
Statistics
Matches: 289, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 289 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (54 bp):
ATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTT
Found at i:114461 original size:16 final size:16
Alignment explanation
Indices: 114438--114496 Score: 73
Period size: 16 Copynumber: 3.6 Consensus size: 16
114428 TTTGACTCTT
114438 TGGTCAAAGTCAACCC
1 TGGTCAAAGTCAACCC
* * *
114454 TAGTCAAAGTAAACTC
1 TGGTCAAAGTCAACCC
*
114470 TGGTAAAAGTCAACCC
1 TGGTCAAAGTCAACCC
114486 ATGGTCAAAGT
1 -TGGTCAAAGT
114497 TAACAGTCAG
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
16 25 0.74
17 9 0.26
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (16 bp):
TGGTCAAAGTCAACCC
Found at i:114710 original size:10 final size:11
Alignment explanation
Indices: 114690--114718 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
114680 CAAAAACAAT
114690 TCAAAACATCA
1 TCAAAACATCA
114701 TCAAAA-ATCA
1 TCAAAACATCA
114711 TCAAAACA
1 TCAAAACA
114719 CGAAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.17
Consensus pattern (11 bp):
TCAAAACATCA
Found at i:118435 original size:17 final size:17
Alignment explanation
Indices: 118410--118443 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
118400 GAAATAAATT
118410 TATAAAAAAATCTAAAA
1 TATAAAAAAATCTAAAA
* *
118427 TATATAAAAATTTAAAA
1 TATAAAAAAATCTAAAA
118444 AATTTTGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
TATAAAAAAATCTAAAA
Found at i:137895 original size:21 final size:24
Alignment explanation
Indices: 137855--137906 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 24
137845 TACGGCATTT
137855 ATACTACTTAGTGTAGTAGTA-TCG
1 ATACTACTTAGTGTAGTAGTACT-G
137879 ATACT-CTTAGTG-A-TAGTACTG
1 ATACTACTTAGTGTAGTAGTACTG
137900 ATACTAC
1 ATACTAC
137907 CATTTTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 11 0.42
22 3 0.12
23 7 0.27
24 5 0.19
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (24 bp):
ATACTACTTAGTGTAGTAGTACTG
Found at i:142232 original size:21 final size:19
Alignment explanation
Indices: 142206--142286 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 19
142196 CATCGCCTAA
142206 AAAAGAAAAAATGAAAAAATG
1 AAAAGAAAAAA-GAAAAAA-G
142227 AAAAGAAAAAA-AAAAAAG
1 AAAAGAAAAAAGAAAAAAG
*
142245 AAAGAGACAAAAAGAAAAGAAA
1 AAA-AGA-AAAAAGAAAA-AAG
*
142267 AAAATTAAAAAAGAGAAAAA
1 AAAA-GAAAAAAGA-AAAAA
142287 AAGAGAATAA
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
18 4 0.08
19 9 0.17
20 5 0.10
21 25 0.48
22 9 0.17
ACGTcount: A:0.80, C:0.01, G:0.14, T:0.05
Consensus pattern (19 bp):
AAAAGAAAAAAGAAAAAAG
Found at i:142238 original size:8 final size:8
Alignment explanation
Indices: 142204--142290 Score: 63
Period size: 8 Copynumber: 11.0 Consensus size: 8
142194 TACATCGCCT
142204 AAAAAAGA
1 AAAAAAGA
*
142212 AAAAATGA
1 AAAAAAGA
*
142220 AAAAATGA
1 AAAAAAGA
*
142228 AAAGAA-A
1 AAAAAAGA
142235 AAAAAA-A
1 AAAAAAGA
*
142242 AAGAAAGA
1 AAAAAAGA
* *
142250 GACAAA-A
1 AAAAAAGA
*
142257 AGAAAAGA
1 AAAAAAGA
*
142265 AAAAAATTA
1 AAAAAA-GA
142274 AAAAAGAGA
1 AAAAA-AGA
142283 AAAAAAGA
1 AAAAAAGA
142291 GAATAAATAA
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
7 16 0.26
8 33 0.53
9 12 0.19
10 1 0.02
ACGTcount: A:0.80, C:0.01, G:0.14, T:0.05
Consensus pattern (8 bp):
AAAAAAGA
Found at i:142262 original size:32 final size:31
Alignment explanation
Indices: 142204--142290 Score: 104
Period size: 32 Copynumber: 2.8 Consensus size: 31
142194 TACATCGCCT
* * *
142204 AAAAAAGAAAAAA-TGAAAAAATGAAAAGAA
1 AAAAAAAAAAAAAGAGAAAAAAAGAAAAGAA
*
142234 AAAAAAAAAAGAAAGAGACAAAAAGAAAAGAA
1 AAAAAAAAAA-AAAGAGAAAAAAAGAAAAGAA
**
142266 AAAAATTAAAAAAGAGAAAAAAAGA
1 AAAAAAAAAAAAAGAGAAAAAAAGA
142291 GAATAAATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
30 9 0.19
31 17 0.35
32 22 0.46
ACGTcount: A:0.80, C:0.01, G:0.14, T:0.05
Consensus pattern (31 bp):
AAAAAAAAAAAAAGAGAAAAAAAGAAAAGAA
Found at i:142268 original size:31 final size:32
Alignment explanation
Indices: 142218--142290 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
142208 AAGAAAAAAT
*
142218 GAAAAAATGAAAAGAAAAAAAA-AAAAGAAAGA
1 GAAAAAAAGAAAAGAAAAAAAATAAAA-AAAGA
* *
142250 GACAAAAAGAAAAG-AAAAAAATTAAAAAAGA
1 GAAAAAAAGAAAAGAAAAAAAATAAAAAAAGA
142281 GAAAAAAAGA
1 GAAAAAAAGA
142291 GAATAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 21 0.58
32 15 0.42
ACGTcount: A:0.79, C:0.01, G:0.15, T:0.04
Consensus pattern (32 bp):
GAAAAAAAGAAAAGAAAAAAAATAAAAAAAGA
Found at i:143636 original size:133 final size:133
Alignment explanation
Indices: 143385--144077 Score: 673
Period size: 133 Copynumber: 5.2 Consensus size: 133
143375 AAAGAAAAGA
* ** * * * * **
143385 GGAACAAGTATGCCTTAATTCAATATTCCCTGAAGAACAATTGAATGAATCAATGTCTCCAGATC
1 GGAACAAGTCTGCCTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAAAATCTCCAGATC
* * ** * * * * * * *
143450 TGATTTCCCCTGGAGAAACAGCAAAATAGATCATCTATTTCTAGATTTGATCTTTCCTTAGTAGT
66 TGATTTTCCCTGGAGAAACAACGGAACAAATCCTCTCTTTCCAGATTTGATCTTCCCTGAGTAGT
143515 AGT
131 AGT
* * * * * *
143518 GGAACAAGTCTGTCTCGATTCAATCTTCCCTAAGGAATAGTCGAATGAATCAAAATTTTCAGATC
1 GGAACAAGTCTGCCTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAAAATCTCCAGATC
* * * *
143583 GGATTTTCCCTGGAGAAACAACGGAACAAATCCTCTCTTTCCAGTTTTTATCTTCCCTGAGTAGC
66 TGATTTTCCCTGGAGAAACAACGGAACAAATCCTCTCTTTCCAGATTTGATCTTCCCTGAGTAGT
143648 AGT
131 AGT
* * * **
143651 GGAACAAATCTGCCTCGATTCAATCTTTCGTAAAGAACTA-TGGAATGAATCAAAGCCTCCAGAT
1 GGAACAAGTCTGCCTCGATTCAATCTTCCCTAAAGAAC-AGTGGAATGAATCAAAATCTCCAGAT
* * ** * * * *
143715 CTGATTTTCCCTAGAGAAATAGTGGAACAAATCTTCTCTTTCCATATTTGATCTTTCCTTAGTAG
65 CTGATTTTCCCTGGAGAAACAACGGAACAAATCCTCTCTTTCCAGATTTGATCTTCCCTGAGTAG
143780 TAGT
130 TAGT
* * *
143784 AGAACAAGTCTGCCTCGATTCAATCTTCCTTGAAGAACAGTGGAATGAATC--AA--T---GATC
1 GGAACAAGTCTGCCTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAAAATCTCCAGAT-
* * * * * *
143842 CTGATTTTCCATGAAGAAACAACGAAACAGACCCAATCTCTTTCCAGATTTGATCTTCCCTAAGT
65 CTGATTTTCCCTGGAGAAACAACGGAACAAATCC--TCTCTTTCCAGATTTGATCTTCCCTGAGT
*
143907 AGCAGT
128 AGTAGT
** * * * **
143913 GGAACAAGTCTTTCTCGATTCAATTTTCCCTAAATAACAGTAGAATGAATCAACGTCTCCAGATC
1 GGAACAAGTCTGCCTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAAAATCTCCAGATC
* ** * * ** *
143978 TGGTTTTCTATGGAGAAACATCAGAACAAATATTCTATTTCCAGATTTGATCTTCCCTGAGTAGT
66 TGATTTTCCCTGGAGAAACAACGGAACAAATCCTCTCTTTCCAGATTTGATCTTCCCTGAGTAGT
144043 AGT
131 AGT
*
144046 GGAACAACTCTGCCTCGATTCAATCTTCCCTA
1 GGAACAAGTCTGCCTCGATTCAATCTTCCCTA
144078 GTGAAGCAGG
Statistics
Matches: 449, Mismatches: 99, Indels: 24
0.78 0.17 0.04
Matches are distributed among these distances:
126 3 0.01
127 24 0.05
129 75 0.17
131 1 0.00
132 1 0.00
133 317 0.71
134 1 0.00
135 24 0.05
136 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (133 bp):
GGAACAAGTCTGCCTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAAAATCTCCAGATC
TGATTTTCCCTGGAGAAACAACGGAACAAATCCTCTCTTTCCAGATTTGATCTTCCCTGAGTAGT
AGT
Found at i:144007 original size:262 final size:261
Alignment explanation
Indices: 143402--144077 Score: 788
Period size: 262 Copynumber: 2.6 Consensus size: 261
143392 GTATGCCTTA
* * * * *
143402 ATTCAATATTCCCTGAAGAACAATTGAATGAATCAATGTCTCCAGATCTGATTTCCCCTGGAGAA
1 ATTCAATTTTCCCTAAAGAAC-ATAGAATGAATCAAAGTCTCCAGATCTGATTTTCCCTGGAGAA
* * * * * * *
143467 ACAGCAAAATAGATCATCTATTTCTAGATTTGATCTTTCCTTAGTAGTAGTGGAACAAGTCTGTC
65 ACATCAGAACAAATCTTCTATTTCCAGATTTGATCTTTCCTTAGTAGTAGTGGAACAAGTCTGCC
* * *
143532 TCGATTCAATCTTCCCTAAGGAATAGTCGAATGAATCAAAATTTTCAGATCGGATTTTCCCTGGA
130 TCGATTCAATCTTCCCTAAGGAACAGTCGAATGAATC-AAA--TT-AGATCGGATTTTCCATGAA
* * * * *
143597 GAAACAACGGAACAAATCCTCTCTTTCCAGTTTTTATCTTCCCTGAGTAGCAGTGGAACAAATCT
191 GAAACAACGAAACAAACCCTCTCTTTCCAGATTTGATCTTCCCTAAGTAGCAGTGGAACAAATCT
143662 GCCTCG
256 GCCTCG
* * * *
143668 ATTCAATCTTT-CGTAAAGAACTATGGAATGAATCAAAGCCTCCAGATCTGATTTTCCCTAGAGA
1 ATTCAAT-TTTCCCTAAAGAAC-ATAGAATGAATCAAAGTCTCCAGATCTGATTTTCCCTGGAGA
* * * * *
143732 AATAGT-GGAACAAATCTTCTCTTTCCATATTTGATCTTTCCTTAGTAGTAGTAGAACAAGTCTG
64 AACA-TCAGAACAAATCTTCTATTTCCAGATTTGATCTTTCCTTAGTAGTAGTGGAACAAGTCTG
* * *
143796 CCTCGATTCAATCTTCCTTGAA-GAACAGTGGAATGAATC-AA-T-GATCCTGATTTTCCATGAA
128 CCTCGATTCAATCTTCCCT-AAGGAACAGTCGAATGAATCAAATTAGAT-CGGATTTTCCATGAA
* *
143857 GAAACAACGAAACAGACCCAATCTCTTTCCAGATTTGATCTTCCCTAAGTAGCAGTGGAACAAGT
191 GAAACAACGAAACAAACCC--TCTCTTTCCAGATTTGATCTTCCCTAAGTAGCAGTGGAACAAAT
**
143922 CTTTCTCG
254 CTGCCTCG
* * * **
143930 ATTCAATTTTCCCTAAATAACAGTAGAATGAATCAACGTCTCCAGATCTGGTTTTCTATGGAGAA
1 ATTCAATTTTCCCTAAAGAACA-TAGAATGAATCAAAGTCTCCAGATCTGATTTTCCCTGGAGAA
* * * *
143995 ACATCAGAACAAATATTCTATTTCCAGATTTGATCTTCCCTGAGTAGTAGTGGAACAACTCTGCC
65 ACATCAGAACAAATCTTCTATTTCCAGATTTGATCTTTCCTTAGTAGTAGTGGAACAAGTCTGCC
144060 TCGATTCAATCTTCCCTA
130 TCGATTCAATCTTCCCTA
144078 GTGAAGCAGG
Statistics
Matches: 346, Mismatches: 55, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
259 3 0.01
260 28 0.08
261 7 0.02
262 166 0.48
264 2 0.01
266 136 0.39
267 4 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (261 bp):
ATTCAATTTTCCCTAAAGAACATAGAATGAATCAAAGTCTCCAGATCTGATTTTCCCTGGAGAAA
CATCAGAACAAATCTTCTATTTCCAGATTTGATCTTTCCTTAGTAGTAGTGGAACAAGTCTGCCT
CGATTCAATCTTCCCTAAGGAACAGTCGAATGAATCAAATTAGATCGGATTTTCCATGAAGAAAC
AACGAAACAAACCCTCTCTTTCCAGATTTGATCTTCCCTAAGTAGCAGTGGAACAAATCTGCCTC
G
Found at i:144115 original size:88 final size:88
Alignment explanation
Indices: 144001--144164 Score: 247
Period size: 88 Copynumber: 1.9 Consensus size: 88
143991 AGAAACATCA
* * * * *
144001 GAACAAATATTCTATTTCCAGATTTGATCTTCCCTGAGTAGTAGTGGAACAACTCTGCCTCGATT
1 GAACAAATAGTCTATTTCCAAATTTGATATTCCCTGAGAAGCAGTGGAACAACTCTGCCTCGATT
144066 CAATCTTCCCTAGTGAAGCAGGG
66 CAATCTTCCCTAGTGAAGCAGGG
* * * *
144089 GAACATATAGTCTCTTTCCAAATTTGATATTCCCTTAGAAGCAGTGGAACAAGTCTGCCTCGATT
1 GAACAAATAGTCTATTTCCAAATTTGATATTCCCTGAGAAGCAGTGGAACAACTCTGCCTCGATT
144154 CAATCTTCCCT
66 CAATCTTCCCT
144165 GAAGAATAGT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 67 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (88 bp):
GAACAAATAGTCTATTTCCAAATTTGATATTCCCTGAGAAGCAGTGGAACAACTCTGCCTCGATT
CAATCTTCCCTAGTGAAGCAGGG
Found at i:144163 original size:41 final size:41
Alignment explanation
Indices: 144027--144164 Score: 100
Period size: 41 Copynumber: 3.2 Consensus size: 41
144017 TCCAGATTTG
* * * *
144027 ATCTTCCCTGAGTAGTAGTGGAACAACTCTGCCTCGATTCA
1 ATCTTCCCTTAGAAGCAGTGGAACAAGTCTGCCTCGATTCA
* * * **
144068 ATCTTCCC-TAGTGAAGCAGGGGAACATATAGTCT-CTTTCCAAATTTG
1 ATCTTCCCTTA--GAAGCAGTGGAAC--A-AGTCTGC-CT-C-GATTCA
*
144115 ATATTCCCTTAGAAGCAGTGGAACAAGTCTGCCTCGATTCA
1 ATCTTCCCTTAGAAGCAGTGGAACAAGTCTGCCTCGATTCA
144156 ATCTTCCCT
1 ATCTTCCCT
144165 GAAGAATAGT
Statistics
Matches: 71, Mismatches: 16, Indels: 20
0.66 0.15 0.19
Matches are distributed among these distances:
40 1 0.01
41 19 0.27
42 11 0.15
43 6 0.08
44 4 0.06
45 5 0.07
46 13 0.18
47 10 0.14
48 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (41 bp):
ATCTTCCCTTAGAAGCAGTGGAACAAGTCTGCCTCGATTCA
Found at i:147956 original size:12 final size:12
Alignment explanation
Indices: 147939--147985 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
147929 AAGGGGTTGA
147939 GGGGAAAAAATT
1 GGGGAAAAAATT
*
147951 GGGGAAAATATT
1 GGGGAAAAAATT
147963 GGGGAAAAACATT
1 GGGGAAAAA-ATT
*
147976 ATGGGAAAAA
1 -GGGGAAAAA
147986 GCTCGGGGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
12 19 0.63
13 3 0.10
14 8 0.27
ACGTcount: A:0.49, C:0.02, G:0.32, T:0.17
Consensus pattern (12 bp):
GGGGAAAAAATT
Found at i:152883 original size:421 final size:420
Alignment explanation
Indices: 152084--152905 Score: 1263
Period size: 421 Copynumber: 2.0 Consensus size: 420
152074 GAACTTGACA
*
152084 TTATTCCTTATCAAACTTCTAATTTCTTGTACAAGCCATCATAATTTTATTCAGTTACCAAATTT
1 TTATTCCTTATCAAACTTCTAATTTCTTGTACAAGCCATCAGAATTTTATTCAGTTACCAAATTT
* *
152149 TTTTACCGCATTCGTATCGAGTGTAGGACTTACCTAACTATACAGATGAGACCAAACATTTTCTT
66 TTTTACCACATTCGTATCGAGTGTAGGACTTACCTAACTATACAGATAAGACCAAACATTTTCTT
* *
152214 ATTCATGCATTTACCAATACCAATATGTTCCATAAAGCATGAAAAGGTAGTAATGTATTACCTCA
131 ATTCATGCATTTACCAATACCAACATGTTCCACAAAGCATGAAAAGGTAGTAATGTATTACCTCA
*** * * *
152279 ATTTTTGTGTCATACTGATCGACCATTTAAACTCCATTCGAATGCCTTAATATTGAAATCAACTT
196 ATTTCCATGCCATACTGATCGACCATTTAAACTCCATTCGAACGCCTCAATATTGAAATCAACTT
* * * * *
152344 CCAATAATTCCTCAGAAACATATCAACAAAAATTTCATCAACAATGGATCTTAATTTTGAAAATC
261 CCAATAATTCCTCAGAAACATATCAACAAAAATTTCATAAAAAAT-GAGCTTAATTGTGAAAAAC
* * * * * * *
152409 GGATCGAATCGGGTGATTAATCAGTGAAAAATAGCTTATCGGGTTCGAATTTGGTGAAACGGACT
325 GGATCAAATCGGGTGATTAATCAGTGAAAAACAACTTACCGGGATCAAATTTGGTGAAAAGGACT
152474 TCGGAATCGGACTCAAGACATCGAAAAATAT
390 TCGGAATCGGACTCAAGACATCGAAAAATAT
* * *
152505 TTATTCCTTATCAAACTTCTAATTTCTTGTACAAGCCATCAGAATTTTATTCAGTTATCGACTTT
1 TTATTCCTTATCAAACTTCTAATTTCTTGTACAAGCCATCAGAATTTTATTCAGTTACCAAATTT
* *
152570 TTTTACCACATTCGTATCGAGTGTAGGACTTACCTAACTATACATATAAGATCAAACATTTTCTT
66 TTTTACCACATTCGTATCGAGTGTAGGACTTACCTAACTATACAGATAAGACCAAACATTTTCTT
152635 ATTCATGCATTTACCAATACCAACATGTTCCACAAAGCATGAAAAGGTAGTAATGTATTACCT-A
131 ATTCATGCATTTACCAATACCAACATGTTCCACAAAGCATGAAAAGGTAGTAATGTATTACCTCA
* * * *
152699 GATTTCCATGCCATACTGATCGATCATTTAAACTCCATTCGAGCGCCCTCGATCTTGAAATCAAC
196 -ATTTCCATGCCATACTGATCGACCATTTAAACTCCATTCGAACG-CCTCAATATTGAAATCAAC
* *
152764 TTCCAATAATTCCTCAGATACATATCAACAGAAATTTCATAAAAACAT-AGCTTAATTGTGAAAA
259 TTCCAATAATTCCTCAGAAACATATCAACAAAAATTTCATAAAAA-ATGAGCTTAATTGTGAAAA
*
152828 AC-GATTCAAATCGGGTGATTAATTAGTGAAAAACAACTTACCGGGATCAAATTTGGTGAAAAGG
323 ACGGA-TCAAATCGGGTGATTAATCAGTGAAAAACAACTTACCGGGATCAAATTTGGTGAAAAGG
152892 ACTTCGGAATCGGA
387 ACTTCGGAATCGGA
152906 TGCAGGACGC
Statistics
Matches: 362, Mismatches: 35, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
420 3 0.01
421 300 0.83
422 57 0.16
423 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (420 bp):
TTATTCCTTATCAAACTTCTAATTTCTTGTACAAGCCATCAGAATTTTATTCAGTTACCAAATTT
TTTTACCACATTCGTATCGAGTGTAGGACTTACCTAACTATACAGATAAGACCAAACATTTTCTT
ATTCATGCATTTACCAATACCAACATGTTCCACAAAGCATGAAAAGGTAGTAATGTATTACCTCA
ATTTCCATGCCATACTGATCGACCATTTAAACTCCATTCGAACGCCTCAATATTGAAATCAACTT
CCAATAATTCCTCAGAAACATATCAACAAAAATTTCATAAAAAATGAGCTTAATTGTGAAAAACG
GATCAAATCGGGTGATTAATCAGTGAAAAACAACTTACCGGGATCAAATTTGGTGAAAAGGACTT
CGGAATCGGACTCAAGACATCGAAAAATAT
Found at i:153901 original size:3 final size:3
Alignment explanation
Indices: 153893--153939 Score: 78
Period size: 3 Copynumber: 15.7 Consensus size: 3
153883 TTTGTCCGAC
153893 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
153938 TA
1 TA
153940 CAGTCCCAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:155507 original size:37 final size:37
Alignment explanation
Indices: 155456--155560 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
155446 TCTTTTCGTC
155456 CTACTAAGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
155493 TTACTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATAAAATT
** * *
155530 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAAGATTCAAACTCCTAAAAATAGGAT
155561 CCACAAGCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.30
Consensus pattern (37 bp):
CTACTAAGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:156084 original size:27 final size:26
Alignment explanation
Indices: 156037--156088 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
156027 TTCTTTGCGT
** *
156037 TATATTATATTATTTTTTTATTATTA
1 TATATTATATTATACTATTATTATTA
156063 TATATATATATTATACTATTATTATT
1 TATAT-TATATTATACTATTATTATT
156089 TTTATCTATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (26 bp):
TATATTATATTATACTATTATTATTA
Found at i:156294 original size:24 final size:23
Alignment explanation
Indices: 156264--156349 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 23
156254 CTATTTAGTA
156264 TTTTATTATATTATACATACATT
1 TTTTATTATATTATACATACATT
* *
156287 TTTATATT-TA-TATATATATATT
1 TTT-TATTATATTATACATACATT
* **
156309 TTTTATTATTTTATTTATACTATT
1 TTTTATTATATTATACATAC-ATT
*
156333 TATTTATTTTCATTATA
1 T-TTTATTAT-ATTATA
156350 TTTTTAGTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
21 4 0.08
22 14 0.29
23 12 0.24
24 8 0.16
25 7 0.14
26 4 0.08
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTATTATATTATACATACATT
Found at i:156463 original size:20 final size:19
Alignment explanation
Indices: 156436--156491 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
156426 TTTTATCTTC
156436 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
*
156455 ATTTCATTTT-TTTTCATCCA
1 ATTT-ATTTTATTTT-ATTCA
156475 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
156492 ATTATTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 13 0.42
20 13 0.42
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:161099 original size:16 final size:14
Alignment explanation
Indices: 161078--161131 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 14
161068 AAAGGGCAAA
161078 AACAAAAAAGAAAAG
1 AACAAAAAA-AAAAG
*
161093 AAGCAAAAAAAAAGAA
1 AA-CAAAAAAAAA-AG
161109 AACAAAAAAAAGAAAG
1 AAC-AAAAAAA-AAAG
161125 AACAAAA
1 AACAAAA
161132 CTCAAAAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 10 0.30
16 21 0.64
17 2 0.06
ACGTcount: A:0.81, C:0.07, G:0.11, T:0.00
Consensus pattern (14 bp):
AACAAAAAAAAAAG
Found at i:161131 original size:13 final size:14
Alignment explanation
Indices: 161076--161123 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
161066 AAAAAGGGCA
161076 AAAACAAAAAAGAA-
1 AAAACAAAAAA-AAG
161090 AAGAAGCAAAAAAAAAG
1 AA-AA-C-AAAAAAAAG
161107 AAAACAAAAAAAAG
1 AAAACAAAAAAAAG
161121 AAA
1 AAA
161124 GAACAAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 14 0.47
15 3 0.10
16 5 0.17
17 8 0.27
ACGTcount: A:0.83, C:0.06, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAACAAAAAAAAG
Found at i:162836 original size:106 final size:106
Alignment explanation
Indices: 162709--163984 Score: 1962
Period size: 106 Copynumber: 12.0 Consensus size: 106
162699 ATATCGTGCC
* * * * * *
162709 ACTCGAGACAACACAAGTTCAACTTCACAATGAAGGGACGGCTAGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
162774 AAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
162815 ACTCCAGACAACACAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACCACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
162880 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
162921 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGCTGCCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
162986 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
163027 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCAC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
163092 AATTTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
163133 ACTCCAGACAGCGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
163198 AATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
163239 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGCTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
163304 AATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
163345 ACTCGAGACAACGCAACTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
163410 AATTTCGGAGCCAATTTTAACTTCACAGCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
163451 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
163516 AATTTC-GAAGCCAATTTTAACTTCACAGCGAAGGATATTGG
66 AATTTCAG-AGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
163557 ACTCCAGACAACGCAAGTTCAACTTCACGGCGAAGGGACTGCTGGTTGTCAAAAAACAAATTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
163622 AATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
163663 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
163728 AATTTTAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
163769 ACTCGAGATAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * * * *
163834 AATTTCGGAGCCAATTTCATCTTCATAACAAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
163875 ACTCGAGGCAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
163940 GATTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
163981 ACTC
1 ACTC
163985 GGAACAATGC
Statistics
Matches: 1075, Mismatches: 92, Indels: 6
0.92 0.08 0.01
Matches are distributed among these distances:
105 1 0.00
106 1073 1.00
107 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:164079 original size:32 final size:33
Alignment explanation
Indices: 164007--164097 Score: 103
Period size: 32 Copynumber: 2.7 Consensus size: 33
163997 CTTACTTGGA
***
164007 TTTCAACTTCACGACGAAGGATATCCAATTTCAG
1 TTTCAACTTCACGACGAAGGA-ATCCAACCGCAG
** *
164041 GCTCAACTTCACGACGAAGG-ATCCACCCGCAG
1 TTTCAACTTCACGACGAAGGAATCCAACCGCAG
164073 TTTCAACTTCACGACGAAGGGAATC
1 TTTCAACTTCACGACGAA-GGAATC
164098 GTGCACACAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
32 24 0.51
33 2 0.04
34 21 0.45
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (33 bp):
TTTCAACTTCACGACGAAGGAATCCAACCGCAG
Found at i:164787 original size:37 final size:37
Alignment explanation
Indices: 164734--164838 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
164724 CCTTTTCGTC
164734 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
164771 TTGCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
164808 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
164839 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:0.13, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:165728 original size:20 final size:19
Alignment explanation
Indices: 165701--165757 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
165691 TTTTATCTTC
165701 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
* *
165720 ATTTCATTTTTTTTTCATCCA
1 ATTT-ATTTTATTTT-ATTCA
165741 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
165758 ATTATTGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 12 0.39
20 14 0.45
21 5 0.16
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:166368 original size:24 final size:24
Alignment explanation
Indices: 166336--166383 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
166326 ATTTCCAAGG
166336 AGACAGAAGTGAAGAGATATATAA
1 AGACAGAAGTGAAGAGATATATAA
166360 AGACAGAAGTGAAGAGATATATAA
1 AGACAGAAGTGAAGAGATATATAA
166384 TGCAGGGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.25, T:0.17
Consensus pattern (24 bp):
AGACAGAAGTGAAGAGATATATAA
Found at i:168988 original size:20 final size:20
Alignment explanation
Indices: 168956--168994 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
168946 TTTTGTACAT
168956 GTAAAATTATAAATTATTATC
1 GTAAAATTATAAATT-TTATC
168977 GTAAAA-TATAAATTTTAT
1 GTAAAATTATAAATTTTAT
168995 AATAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 8 0.44
21 6 0.33
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44
Consensus pattern (20 bp):
GTAAAATTATAAATTTTATC
Found at i:169000 original size:19 final size:21
Alignment explanation
Indices: 168957--169001 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
168947 TTTGTACATG
**
168957 TAAAATTATAAATTATTATCG
1 TAAAATTATAAATTATTATAA
168978 TAAAA-TATAAATT-TTATAA
1 TAAAATTATAAATTATTATAA
168997 TAAAA
1 TAAAA
169002 AAAACAACGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
20 8 0.36
21 5 0.23
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
TAAAATTATAAATTATTATAA
Found at i:169002 original size:20 final size:21
Alignment explanation
Indices: 168957--169002 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
168947 TTTGTACATG
* **
168957 TAAAATTATAAATTATTATCG
1 TAAAAATATAAATTATTATAA
168978 T-AAAATATAAATT-TTATAA
1 TAAAAATATAAATTATTATAA
168997 TAAAAA
1 TAAAAA
169003 AAACAACGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.24
20 15 0.71
21 1 0.05
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
TAAAAATATAAATTATTATAA
Found at i:170555 original size:11 final size:11
Alignment explanation
Indices: 170541--171041 Score: 89
Period size: 11 Copynumber: 47.4 Consensus size: 11
170531 ATTTATATAT
170541 TATATATAAAC
1 TATATATAAAC
*
170552 TATATATGAA-
1 TATATATAAAC
*
170562 T-TATAT--AT
1 TATATATAAAC
*
170570 TATGTATAAA-
1 TATATATAAAC
* *
170580 T-TATATATAT
1 TATATATAAAC
* *
170590 TATGTA-AAAG
1 TATATATAAAC
**
170600 T-TATATAATT
1 TATATATAAAC
170610 TATATATAAAC
1 TATATATAAAC
*
170621 TATATATAAAG
1 TATATATAAAC
170632 TATATAT-AA-
1 TATATATAAAC
*
170641 TATATATAGAC
1 TATATATAAAC
170652 -ACTATAT-AA-
1 TA-TATATAAAC
*
170661 T-TATATATA-
1 TATATATAAAC
*
170670 GATATATAAAC
1 TATATATAAAC
**
170681 --TATATAATG
1 TATATATAAAC
*
170690 TATATATGAAC
1 TATATATAAAC
170701 TATATAT-AA-
1 TATATATAAAC
**
170710 -AT-TATAATT
1 TATATATAAAC
170719 TATATATAAAC
1 TATATATAAAC
*
170730 TATATAGTTTAAC
1 TATATA--TAAAC
170743 TATATAGT--A-
1 TATATA-TAAAC
* *
170752 TATATGCTATA-
1 TATAT-ATAAAC
170763 TATATATAAA-
1 TATATATAAAC
*
170773 T-TATGTAATA-
1 TATATATAA-AC
*
170783 TATATATATAGC
1 TATATATA-AAC
*
170795 TATATATTAAC
1 TATATATAAAC
*
170806 TATATAGTATA-
1 TATATA-TAAAC
*
170817 TATACTATATA-
1 TATA-TATAAAC
*
170828 TATATATATA-
1 TATATATAAAC
*
170838 TATATTATATAC
1 TATA-TATAAAC
**
170850 TATATAATTTAC
1 TATAT-ATAAAC
*
170862 T-TATAT-AAT
1 TATATATAAAC
*
170871 TATATATATAC
1 TATATATAAAC
170882 TATA-A-AAAC
1 TATATATAAAC
** *
170891 TATATAGTTTAT
1 TATATA-TAAAC
**
170903 TA-AGGTAAAC
1 TATATATAAAC
170913 TA-A-AT-AAC
1 TATATATAAAC
*
170921 TAT-TATATA-
1 TATATATAAAC
*
170930 TATATATATA-
1 TATATATAAAC
*
170940 TATTATATAAAT
1 TA-TATATAAAC
*
170952 TATTAATATAAATTG
1 TA-T-ATATAAA--C
170967 TAGTATATATATAC
1 TA-TATATA-A-AC
170981 TATATATAAAC
1 TATATATAAAC
**
170992 TATATAGTTTA-
1 TATATA-TAAAC
*
171003 TCTATATAAAC
1 TATATATAAAC
171014 TATATACTAATAC
1 TATATA-TAA-AC
*
171027 AATATATAAAC
1 TATATATAAAC
171038 TATA
1 TATA
171042 GTTTATGTAA
Statistics
Matches: 369, Mismatches: 66, Indels: 110
0.68 0.12 0.20
Matches are distributed among these distances:
7 4 0.01
8 14 0.04
9 60 0.16
10 67 0.18
11 143 0.39
12 39 0.11
13 30 0.08
14 7 0.02
15 4 0.01
16 1 0.00
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (11 bp):
TATATATAAAC
Found at i:170862 original size:12 final size:13
Alignment explanation
Indices: 170789--170880 Score: 68
Period size: 13 Copynumber: 6.8 Consensus size: 13
170779 AATATATATA
170789 TATAGCTATAT-AT
1 TATA-CTATATAAT
170802 TA-ACTATATAGTAT
1 TATACTATATA--AT
170816 ATATACTATATATAT
1 -TATACTATATA-AT
*
170831 ATATA-TATATATT
1 -TATACTATATAAT
170844 ATATACTATATAAT
1 -TATACTATATAAT
170858 T-TACTTATATAAT
1 TATAC-TATATAAT
170871 TATA-TATATA
1 TATACTATATA
170881 CTATAAAAAC
Statistics
Matches: 69, Mismatches: 2, Indels: 17
0.78 0.02 0.19
Matches are distributed among these distances:
11 6 0.09
12 10 0.14
13 18 0.26
14 17 0.25
15 10 0.14
16 8 0.12
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (13 bp):
TATACTATATAAT
Found at i:170867 original size:39 final size:42
Alignment explanation
Indices: 170621--170885 Score: 129
Period size: 41 Copynumber: 6.5 Consensus size: 42
170611 ATATATAAAC
* * * *
170621 TATATATAAAGTATATATAATA-TATATAGACACTATATAAT-TA
1 TATATATATA-TATATATTATACTATATAG-TA-TATATACTATA
* * *
170664 TATATAGATATATAAACTATA-TA-AT-GTATATATGAACTATA
1 TATATATATATATATATTATACTATATAGTATATAT--ACTATA
* * *
170705 TATAAATTATAATTTATATATAAACTATATAGT-T-TA-ACTATA
1 TATATA-TAT-ATATATAT-TATACTATATAGTATATATACTATA
* * *
170747 TAGTATATATGCTATATA-TATA-TA-A-A-T-TATGTAATATA
1 TA-TATATAT-ATATATATTATACTATATAGTATATATACTATA
**
170785 TATATATAGCTATATATTA-ACTATATAGTATATATACTATA
1 TATATATATATATATATTATACTATATAGTATATATACTATA
*
170826 TATATATATATATATATTATA-TACTATA-TA-ATTTACT-TA
1 TATATATATATATATATTATACTA-TATAGTATATATACTATA
*
170865 TATA-ATTATATATATACTATA
1 TATATA-TATATATATATTATA
170886 AAAACTATAT
Statistics
Matches: 174, Mismatches: 27, Indels: 46
0.70 0.11 0.19
Matches are distributed among these distances:
36 10 0.06
37 12 0.07
38 15 0.09
39 24 0.14
40 13 0.07
41 39 0.22
42 33 0.19
43 16 0.09
44 3 0.02
45 4 0.02
46 3 0.02
47 2 0.01
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (42 bp):
TATATATATATATATATTATACTATATAGTATATATACTATA
Found at i:170867 original size:41 final size:40
Alignment explanation
Indices: 170743--170885 Score: 125
Period size: 43 Copynumber: 3.5 Consensus size: 40
170733 ATAGTTTAAC
* *
170743 TATATAGTATATATGCTATATATATATAAATTA-TGTAATATA
1 TATATA-TATATATACTATATATATATAATTTACT-T-ATATA
* *
170785 TATATATAGCTATATATTA-ACTATATAGTATATATAC-TATATA
1 TATATATA--TATATACTATA-TATATA-TA-ATTTACTTATATA
*
170828 TATATATATATATATTATATACTATATAATTTACTTATATA
1 TATATATATATATACTATATA-TATATAATTTACTTATATA
170869 -AT-TATATATATACTATA
1 TATATATATATATACTATA
170886 AAAACTATAT
Statistics
Matches: 86, Mismatches: 6, Indels: 21
0.76 0.05 0.19
Matches are distributed among these distances:
39 14 0.16
40 7 0.08
41 21 0.24
42 12 0.14
43 26 0.30
44 3 0.03
45 3 0.03
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (40 bp):
TATATATATATATACTATATATATATAATTTACTTATATA
Found at i:170893 original size:41 final size:42
Alignment explanation
Indices: 170773--170901 Score: 113
Period size: 41 Copynumber: 3.0 Consensus size: 42
170763 TATATATAAA
* *
170773 TTATGTAATATATATATATAGCTATATATTAACTATATAGTATATATAC
1 TTATATAATATATATATATA-CTATA-A-AAACTATATA--AT-T-TAC
* *
170822 -TATAT-ATATATATATATA-TATTATATACTATATAATTTAC
1 TTATATAATATATATATATACTA-TAAAAACTATATAATTTAC
*
170862 TTATATAAT-TATATATATACTATAAAAACTATATAGTTTA
1 TTATATAATATATATATATACTATAAAAACTATATAATTTA
170902 TTAAGGTAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
40 3 0.04
41 31 0.45
42 6 0.09
44 8 0.12
45 2 0.03
46 2 0.03
47 13 0.19
48 4 0.06
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (42 bp):
TTATATAATATATATATATACTATAAAAACTATATAATTTAC
Found at i:170896 original size:2 final size:2
Alignment explanation
Indices: 170395--170885 Score: 139
Period size: 2 Copynumber: 248.0 Consensus size: 2
170385 TTAAAAAAAT
* * *
170395 TA TA TA TA TA GA -A AA TA TA TA -A TA -A TC TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
170433 AA CTA TA TA GTT TA TA TT TA TA TA CTA TA TC TA AA CTA TA T- TG
1 TA -TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA
* * * * *
170476 TA TA TA GA CTA TA TA TA T- TA TA AA AA CTA TT TA -A TA TA TA AA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * *
170518 CTA TGA AA TT TA TA TT TA TA TA T- TA TA TA TA AA CTA TA TA TGA
1 -TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA T-A
* * *
170561 -A T- TA TA TA T- TA TG TA TA AA T- TA TA TA TA T- TA TG TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
170597 AA GT- TA TA TA -A TT TA TA TA TA AA CTA TA TA TA AA GTA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA
* * *
170638 TA -A TA TA TA TA GA CA CTA TA TA -A T- TA TA TA TA GA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
170678 AA CTA TA TA -A TG TA TA TA TGA -A CTA TA TA TA AA T- TA TA -A
1 TA -TA TA TA TA TA TA TA TA T-A TA -TA TA TA TA TA TA TA TA TA
* * * *
170717 TT TA TA TA TA AA CTA TA TA GTT TA -A CTA TA TA GTA TA TA TGC TA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA -TA TA TA T-A TA
* * **
170761 TA TA TA TA TA AA T- TA TG TA -A TA TA TA TA TA TA GC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
170801 T- TA -A CTA TA TA GTA TA TA TA CTA TA TA TA TA TA TA TA TA TA
1 TA TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
*
170842 T- TA TA TA CTA TA TA -A TT TA CT- TA TA TA -A T- TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
170881 CTA TA
1 -TA TA
170886 AAAACTATAT
Statistics
Matches: 355, Mismatches: 73, Indels: 122
0.65 0.13 0.22
Matches are distributed among these distances:
1 33 0.09
2 289 0.81
3 33 0.09
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (2 bp):
TA
Found at i:170997 original size:2 final size:2
Alignment explanation
Indices: 170924--170988 Score: 50
Period size: 2 Copynumber: 34.0 Consensus size: 2
170914 AAATAACTAT
*
170924 TA TA TA TA TA TA TA TA TA T- TA TA TA AA T- TA T- TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
170962 AA T- TG TA GTA TA TA TA TA CTA TA TA TA
1 TA TA TA TA -TA TA TA TA TA -TA TA TA TA
170989 AACTATATAG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
1 5 0.10
2 42 0.82
3 4 0.08
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:170997 original size:20 final size:20
Alignment explanation
Indices: 170612--171019 Score: 107
Period size: 20 Copynumber: 20.3 Consensus size: 20
170602 ATATAATTTA
* *
170612 TATATAAACTATATATAAAG
1 TATATATACTATATATAAAC
*
170632 TATATATAATATATATAGACAC
1 TATATATACTATATATA-A-AC
* *
170654 TATATA-ATTATATATAGA-
1 TATATATACTATATATAAAC
* **
170672 TATATAAAC--TATATAATG
1 TATATATACTATATATAAAC
*
170690 TATATATGAACTATATATAAAT
1 TATATAT--ACTATATATAAAC
*
170712 TATA-AT-TTATATATAAAC
1 TATATATACTATATATAAAC
*
170730 TATATAGTTTAACTATATAGTATA-
1 TATATA---T-ACTATATA-TAAAC
* *
170754 TATGCTATA-TATATATAAAT
1 TAT-ATATACTATATATAAAC
* *
170774 TATGTAATA-TATATATATAGC
1 TATAT-ATACTATATATA-AAC
* *
170795 TATATAT--TA-ACTATATAG
1 TATATATACTATA-TATAAAC
*
170813 TATATATACTATATATATA-
1 TATATATACTATATATAAAC
*
170832 TATATATA-TAT-TATATAC
1 TATATATACTATATATAAAC
170850 TATATAATTTACT-TATATAATTA-
1 TATAT-A--TACTATATATAA--AC
170873 TATATATACTATA-A-AAAC
1 TATATATACTATATATAAAC
*
170891 TATATAGT-TTAT-TAAGGTAAAC
1 TATATA-TACTATAT-A--TAAAC
* *
170913 TAAATA-ACTATTATATATA-
1 TATATATACTA-TATATAAAC
*
170932 TATATATA-TATTATATAAAT
1 TATATATACTA-TATATAAAC
* * *
170952 TAT-TAATA-TAAATTGTAGTA-
1 TATAT-ATACTATA-TATA-AAC
170972 TATATATACTATATATAAAC
1 TATATATACTATATATAAAC
*
170992 TATATAGTTTA-TCTATATAAAC
1 TATATA---TACTATATATAAAC
171014 TATATA
1 TATATA
171020 CTAATACAAT
Statistics
Matches: 297, Mismatches: 38, Indels: 104
0.68 0.09 0.24
Matches are distributed among these distances:
17 13 0.04
18 51 0.17
19 44 0.15
20 82 0.28
21 31 0.10
22 53 0.18
23 8 0.03
24 10 0.03
25 5 0.02
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (20 bp):
TATATATACTATATATAAAC
Found at i:171082 original size:46 final size:46
Alignment explanation
Indices: 171063--171202 Score: 138
Period size: 46 Copynumber: 3.2 Consensus size: 46
171053 ATTGTAAATT
*
171063 ATATGGTTTATTAA-A-ATAAACTATAG-TTATATAAAATTATAAA
1 ATATAGTTTATTAACATATAAACTATAGTTTATATAAAATTATAAA
* * * *
171106 ATATAGTTTATTAACATATAAAATATATTTTATATAAAATTATTAT
1 ATATAGTTTATTAACATATAAACTATAGTTTATATAAAATTATAAA
171152 ATATA-TTTA--AAC----AAACTATAGTTTATATAAAAATTATAAA
1 ATATAGTTTATTAACATATAAACTATAGTTTATAT-AAAATTATAAA
* *
171192 CTATAATTTAT
1 ATATAGTTTAT
171203 ATAAACTATA
Statistics
Matches: 81, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
39 14 0.17
40 13 0.16
41 4 0.05
43 16 0.20
44 1 0.01
45 13 0.16
46 20 0.25
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (46 bp):
ATATAGTTTATTAACATATAAACTATAGTTTATATAAAATTATAAA
Found at i:171154 original size:15 final size:15
Alignment explanation
Indices: 171090--171156 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
171080 AAACTATAGT
*
171090 TATATAAAATTATAA
1 TATATAAAATTATTA
* **
171105 AATAT-AGTTTATTAA
1 TATATAAAATTATT-A
* *
171120 CATATAAAATATATTT
1 TATATAAAAT-TATTA
171136 TATATAAAATTATTA
1 TATATAAAATTATTA
171151 TATATA
1 TATATA
171157 TTTAAACAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
14 5 0.13
15 19 0.49
16 11 0.28
17 4 0.10
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (15 bp):
TATATAAAATTATTA
Found at i:171236 original size:64 final size:59
Alignment explanation
Indices: 171078--171244 Score: 167
Period size: 64 Copynumber: 2.7 Consensus size: 59
171068 GTTTATTAAA
* * *
171078 ATAAACTATAGTTATATAAAATTATAAAATATAGTTTATTAACATATAAAATATATTTTAT
1 ATAAACTATA-TTATAT-ATATTATAAAATATAGTTTATTAAAATATAAAATATAATTTAT
* * *
171139 ATAAAAT-TATTATATATATTTAAACAAACTATAGTTTATATAAAAATTATAAACTATAATTTAT
1 ATAAACTATATTATATATA-TTATA-AAA-TATAGTTTAT-T-AAAA-TATAAAATATAATTTAT
171203 ATAAACTATA-TATATATAGTTATAAATTATATAGTTTATTAA
1 ATAAACTATATTATATATA-TTATAAA--ATATAGTTTATTAA
171245 TATGAACTAT
Statistics
Matches: 88, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
58 2 0.02
59 10 0.11
60 5 0.06
61 16 0.18
62 3 0.03
63 6 0.07
64 43 0.49
65 3 0.03
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (59 bp):
ATAAACTATATTATATATATTATAAAATATAGTTTATTAAAATATAAAATATAATTTAT
Found at i:171259 original size:84 final size:83
Alignment explanation
Indices: 171057--171261 Score: 222
Period size: 84 Copynumber: 2.4 Consensus size: 83
171047 TGTAAAATTG
* *
171057 TAAATTATATGGTTTATTAAAATAAACTATAG-TTATATAAAATTATAAAATATAGTTTATTAAC
1 TAAATTATATAGTTTATT-AAATAAACTATAGTTTATATAAAATTATAAAATATAATTTATTAAC
**
171121 ATATAAAATATATTTTATA
65 ATATAAAATATATAGTATA
* * *
171140 TAAAATTATTATA-TATATTTAAACAAACTATAGTTTATATAAAAATTATAAACTATAATTTATA
1 T-AAATTA-TATAGTTTA-TTAAATAAACTATAGTTTATAT-AAAATTATAAAATATAATTTAT-
*
171204 TAA-ACTAT-ATATATATAGT-TA
61 TAACA-TATAAAATATATAGTATA
*
171225 TAAATTATATAGTTTATTAATATGAACTATAGTTTAT
1 TAAATTATATAGTTTATTAA-ATAAACTATAGTTTAT
171262 TAATATAATA
Statistics
Matches: 102, Mismatches: 11, Indels: 17
0.78 0.08 0.13
Matches are distributed among these distances:
83 9 0.09
84 44 0.43
85 14 0.14
86 29 0.28
87 6 0.06
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.44
Consensus pattern (83 bp):
TAAATTATATAGTTTATTAAATAAACTATAGTTTATATAAAATTATAAAATATAATTTATTAACA
TATAAAATATATAGTATA
Found at i:171888 original size:94 final size:100
Alignment explanation
Indices: 171710--171955 Score: 344
Period size: 94 Copynumber: 2.5 Consensus size: 100
171700 TGTCTTATCT
* *
171710 ATGTTCATCCCCAAACCCCTCATTTGATCTTTACAAACA-CCAAAACCCAAAGCCTATCCTATTT
1 ATGTTCATCCCCAAACCCTTC-TTTGATCCTTACAAACACCCAAAA-CCAAAGCCTAT-CTATTT
171774 TTTCGATCAAACACCCCAAATTCAACCCTTGTTCATTC
63 TTTCGATCAAACACCCCAAATTCAACCCTTGTTCATTC
*
171812 ATGTTCATCCCCAAA-CCTTCTTTGATCCTTACAAACACCCAAAATCAAA-CCTAT-T-TTTTTT
1 ATGTTCATCCCCAAACCCTTCTTTGATCCTTACAAACACCCAAAACCAAAGCCTATCTATTTTTT
* *
171873 CGATC-AA-ACCTCAAATTTAACCCTTGTTCATTC
66 CGATCAAACACCCCAAATTCAACCCTTGTTCATTC
* * *
171906 ATGTTCATCCTCAAACCCTTATTTGATCCTTATAAACACCCAAAACCAAA
1 ATGTTCATCCCCAAACCCTTCTTTGATCCTTACAAACACCCAAAACCAAA
171956 ACACAAACTA
Statistics
Matches: 133, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
94 38 0.29
95 33 0.25
96 11 0.08
97 1 0.01
99 5 0.04
100 20 0.15
101 10 0.08
102 15 0.11
ACGTcount: A:0.33, C:0.32, G:0.04, T:0.31
Consensus pattern (100 bp):
ATGTTCATCCCCAAACCCTTCTTTGATCCTTACAAACACCCAAAACCAAAGCCTATCTATTTTTT
CGATCAAACACCCCAAATTCAACCCTTGTTCATTC
Found at i:174353 original size:71 final size:71
Alignment explanation
Indices: 174237--174374 Score: 213
Period size: 71 Copynumber: 1.9 Consensus size: 71
174227 ACCTTAGATC
174237 CGTAAGAAATTACCAGTTCGATCGGTCTAAACCAATATAAGGAATTACCAATTTGATCAAGCTGA
1 CGTAAGAAATTACCAGTTCGATCGGTCTAAACCAATATAAGGAATTACCAATTTGATCAAGCTGA
174302 ACCTAT
66 ACCTAT
* * * * * * *
174308 CGTAAGGAATTACCAGTTGGATCGGTCTGAACCTATATAAGGAATTACCAGTTTGATCGAGTTGA
1 CGTAAGAAATTACCAGTTCGATCGGTCTAAACCAATATAAGGAATTACCAATTTGATCAAGCTGA
174373 AC
66 AC
174375 ATGCAGAGAC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 60 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (71 bp):
CGTAAGAAATTACCAGTTCGATCGGTCTAAACCAATATAAGGAATTACCAATTTGATCAAGCTGA
ACCTAT
Found at i:174356 original size:35 final size:35
Alignment explanation
Indices: 174239--174374 Score: 159
Period size: 35 Copynumber: 3.9 Consensus size: 35
174229 CTTAGATCCG
* * * *
174239 TAAGAAATTACCAGTTCGATCGGTCTAAACCAATA
1 TAAGGAATTACCAGTTTGATCGGTCTGAACCTATA
* * *
174274 TAAGGAATTACCAATTTGATCAAG-CTGAACCTATCG
1 TAAGGAATTACCAGTTTGATC-GGTCTGAACCTAT-A
*
174310 TAAGGAATTACCAGTTGGATCGGTCTGAACCTATA
1 TAAGGAATTACCAGTTTGATCGGTCTGAACCTATA
174345 TAAGGAATTACCAGTTTGATCGAGT-TGAAC
1 TAAGGAATTACCAGTTTGATCG-GTCTGAAC
174375 ATGCAGAGAC
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
35 53 0.62
36 32 0.38
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (35 bp):
TAAGGAATTACCAGTTTGATCGGTCTGAACCTATA
Found at i:177941 original size:7 final size:7
Alignment explanation
Indices: 177929--177965 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
177919 GTCAAAGGAA
177929 GTCAACG
1 GTCAACG
177936 GTCAACG
1 GTCAACG
177943 GT-AACG
1 GTCAACG
177949 GTCAACG
1 GTCAACG
177956 GTCAACG
1 GTCAACG
177963 GTC
1 GTC
177966 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.27, C:0.27, G:0.30, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:177950 original size:13 final size:14
Alignment explanation
Indices: 177929--177965 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
177919 GTCAAAGGAA
177929 GTCAACGGTCAACG
1 GTCAACGGTCAACG
177943 GT-AACGGTCAACG
1 GTCAACGGTCAACG
177956 GTCAACGGTC
1 GTCAACGGTC
177966 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.27, C:0.27, G:0.30, T:0.16
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:177972 original size:5 final size:5
Alignment explanation
Indices: 177962--178008 Score: 53
Period size: 5 Copynumber: 9.8 Consensus size: 5
177952 AACGGTCAAC
* * *
177962 GGTCG GGTCG GGTC- AGTCG GGTAG GGTCG GGTC- AGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
178009 AGACCGGTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
4 6 0.18
5 28 0.82
ACGTcount: A:0.06, C:0.19, G:0.53, T:0.21
Consensus pattern (5 bp):
GGTCG
Found at i:177980 original size:14 final size:14
Alignment explanation
Indices: 177963--178010 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
177953 ACGGTCAACG
177963 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
177977 GTCGGGTAGGGTCGGGTCA
1 GTC--G---GGTCGGGTCA
177996 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
178010 G
1 G
178011 ACCGGTCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
14 14 0.48
16 1 0.03
17 1 0.03
19 13 0.45
ACGTcount: A:0.08, C:0.19, G:0.52, T:0.21
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:177988 original size:19 final size:19
Alignment explanation
Indices: 177966--178008 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
177956 GTCAACGGTC
177966 GGGTCGGGTCAGTCGGGTA
1 GGGTCGGGTCAGTCGGGTA
*
177985 GGGTCGGGTCAGTCGGGTC
1 GGGTCGGGTCAGTCGGGTA
178004 GGGTC
1 GGGTC
178009 AGACCGGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.07, C:0.19, G:0.53, T:0.21
Consensus pattern (19 bp):
GGGTCGGGTCAGTCGGGTA
Found at i:178017 original size:9 final size:9
Alignment explanation
Indices: 178005--178074 Score: 59
Period size: 9 Copynumber: 7.3 Consensus size: 9
177995 AGTCGGGTCG
*
178005 GGTCAGACC
1 GGTCAAACC
178014 GGTCAAACC
1 GGTCAAACC
**
178023 GGTTCGGACC
1 GG-TCAAACC
178033 GGTCAAACC
1 GGTCAAACC
*
178042 GGTTCGAACC
1 GG-TCAAACC
*
178052 GGTTGAAAACC
1 GG-T-CAAACC
178063 GGTCAAACC
1 GGTCAAACC
178072 GGT
1 GGT
178075 TTCCAGCCCT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
9 25 0.51
10 18 0.37
11 6 0.12
ACGTcount: A:0.26, C:0.29, G:0.30, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:178034 original size:19 final size:19
Alignment explanation
Indices: 178010--178054 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
178000 GGTCGGGTCA
178010 GACCGGTCAAACCGGTTCG
1 GACCGGTCAAACCGGTTCG
178029 GACCGGTCAAACCGGTTCG
1 GACCGGTCAAACCGGTTCG
*
178048 AACCGGT
1 GACCGGT
178055 TGAAAACCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.22, C:0.31, G:0.31, T:0.16
Consensus pattern (19 bp):
GACCGGTCAAACCGGTTCG
Found at i:178073 original size:20 final size:21
Alignment explanation
Indices: 178037--178075 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
178027 CGGACCGGTC
*
178037 AAACCGGTTCGAACCGGTTGA
1 AAACCGGTTCAAACCGGTTGA
178058 AAACCGG-TCAAACCGGTT
1 AAACCGGTTCAAACCGGTT
178076 TCCAGCCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.18
Consensus pattern (21 bp):
AAACCGGTTCAAACCGGTTGA
Found at i:179556 original size:54 final size:52
Alignment explanation
Indices: 179474--179579 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 52
179464 GCTGGTCTGC
179474 AACTGTTATTATAAGCGAATTCAGCCAAAGGCAAAAAATTCTCCCAGCTACCAT
1 AACTGTTATTATAAGCGAATTCAGCCAAA-GC-AAAAATTCTCCCAGCTACCAT
179528 AACTGTTATTATAAGCGAATTCAGCCAAAGCAAAAATTCTCCCAGCTACCAT
1 AACTGTTATTATAAGCGAATTCAGCCAAAGCAAAAATTCTCCCAGCTACCAT
179580 GAAAATCAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
52 21 0.40
53 2 0.04
54 29 0.56
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.25
Consensus pattern (52 bp):
AACTGTTATTATAAGCGAATTCAGCCAAAGCAAAAATTCTCCCAGCTACCAT
Found at i:183105 original size:84 final size:84
Alignment explanation
Indices: 182964--183131 Score: 336
Period size: 84 Copynumber: 2.0 Consensus size: 84
182954 GTCTCTGAGC
182964 TAAGTAGCGCACTCCCAGAAAACGACTCCGAAAGCGATCCTTAAAGAAATTCTAGGTCAAACGAT
1 TAAGTAGCGCACTCCCAGAAAACGACTCCGAAAGCGATCCTTAAAGAAATTCTAGGTCAAACGAT
183029 CGGTAGGAACACTACTGGT
66 CGGTAGGAACACTACTGGT
183048 TAAGTAGCGCACTCCCAGAAAACGACTCCGAAAGCGATCCTTAAAGAAATTCTAGGTCAAACGAT
1 TAAGTAGCGCACTCCCAGAAAACGACTCCGAAAGCGATCCTTAAAGAAATTCTAGGTCAAACGAT
183113 CGGTAGGAACACTACTGGT
66 CGGTAGGAACACTACTGGT
183132 CACTGACTCC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (84 bp):
TAAGTAGCGCACTCCCAGAAAACGACTCCGAAAGCGATCCTTAAAGAAATTCTAGGTCAAACGAT
CGGTAGGAACACTACTGGT
Found at i:185310 original size:5 final size:5
Alignment explanation
Indices: 185300--185351 Score: 63
Period size: 5 Copynumber: 10.8 Consensus size: 5
185290 AACGGTCAAC
* * *
185300 GGTCG GGTCG GGTC- AGTCG GGTTG GGTCG GGTC- AGTCG GGTCG GGTCG
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG
185348 GGTC
1 GGTC
185352 AGACCGGTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
4 6 0.15
5 33 0.85
ACGTcount: A:0.04, C:0.19, G:0.54, T:0.23
Consensus pattern (5 bp):
GGTCG
Found at i:185328 original size:19 final size:19
Alignment explanation
Indices: 185300--185353 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
185290 AACGGTCAAC
185300 GGTCGGGTCGGGTCAGTCG
1 GGTCGGGTCGGGTCAGTCG
*
185319 GGTTGGGTCGGGTCAGTCG
1 GGTCGGGTCGGGTCAGTCG
185338 GGTCGGGTCGGGTCAG
1 GGTCGGGTCGGGTCAG
185354 ACCGGTCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.06, C:0.19, G:0.54, T:0.22
Consensus pattern (19 bp):
GGTCGGGTCGGGTCAGTCG
Found at i:185360 original size:19 final size:19
Alignment explanation
Indices: 185299--185360 Score: 88
Period size: 19 Copynumber: 3.3 Consensus size: 19
185289 TAACGGTCAA
185299 CGGTCGGGTCGGGTCAGTC
1 CGGTCGGGTCGGGTCAGTC
* *
185318 GGGTTGGGTCGGGTCAGTC
1 CGGTCGGGTCGGGTCAGTC
* *
185337 GGGTCGGGTCGGGTCAGAC
1 CGGTCGGGTCGGGTCAGTC
185356 CGGTC
1 CGGTC
185361 AAACCGGTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.06, C:0.23, G:0.50, T:0.21
Consensus pattern (19 bp):
CGGTCGGGTCGGGTCAGTC
Found at i:185389 original size:10 final size:9
Alignment explanation
Indices: 185348--185393 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
185338 GGTCGGGTCG
*
185348 GGTCAGACC
1 GGTCAAACC
185357 GGTCAAACC
1 GGTCAAACC
*
185366 GGTTCGAACC
1 GG-TCAAACC
185376 GGTCGAAACC
1 GGTC-AAACC
185386 GGTCAAAC
1 GGTCAAAC
185394 TGGTTTCCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 16 0.50
10 16 0.50
ACGTcount: A:0.28, C:0.30, G:0.28, T:0.13
Consensus pattern (9 bp):
GGTCAAACC
Found at i:187143 original size:4 final size:4
Alignment explanation
Indices: 187129--187159 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
187119 AAAAGGACTA
187129 AAAT GAAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AA
187160 TAGCACCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:188793 original size:23 final size:24
Alignment explanation
Indices: 188767--188815 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
188757 AACAAAATAT
188767 AAACAAT-GCAAAAA-ATAAAAAAA
1 AAACAATAG-AAAAAGATAAAAAAA
* *
188790 AAACTATAGAAAAAGATTAAAAAA
1 AAACAATAGAAAAAGATAAAAAAA
188814 AA
1 AA
188816 CTCAAAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (24 bp):
AAACAATAGAAAAAGATAAAAAAA
Found at i:189438 original size:2 final size:2
Alignment explanation
Indices: 189431--189457 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
189421 CCTCCACCCG
189431 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
189458 TTCAACCAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:193453 original size:22 final size:22
Alignment explanation
Indices: 193397--193453 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
193387 ATTGAATATA
*
193397 TAAACGAATGATAAACAAACAC
1 TAAACGAATGCTAAACAAACAC
* *
193419 TAAATGAATGCTAAACGAACAC
1 TAAACGAATGCTAAACAAACAC
*
193441 TAAACGAACGCTA
1 TAAACGAATGCTA
193454 CATGAACCTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.53, C:0.19, G:0.12, T:0.16
Consensus pattern (22 bp):
TAAACGAATGCTAAACAAACAC
Found at i:193483 original size:24 final size:24
Alignment explanation
Indices: 193456--193502 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
193446 GAACGCTACA
* *
193456 TGAACCTATTAATGAACATGTTCG
1 TGAACATATAAATGAACATGTTCG
193480 TGAACATATAAATGAACATGTTC
1 TGAACATATAAATGAACATGTTC
193503 ACGAACGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (24 bp):
TGAACATATAAATGAACATGTTCG
Found at i:193508 original size:24 final size:24
Alignment explanation
Indices: 193457--193508 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
193447 AACGCTACAT
* * **
193457 GAACCTATTAATGAACATGTTCGT
1 GAACATATAAATGAACATGTTCAC
193481 GAACATATAAATGAACATGTTCAC
1 GAACATATAAATGAACATGTTCAC
193505 GAAC
1 GAAC
193509 GTTAAACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.27
Consensus pattern (24 bp):
GAACATATAAATGAACATGTTCAC
Found at i:193731 original size:13 final size:13
Alignment explanation
Indices: 193700--193724 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
193690 TCTAGAAAAT
193700 ATTTTCTATTTTC
1 ATTTTCTATTTTC
193713 ATTTTCTATTTT
1 ATTTTCTATTTT
193725 TGTTTTCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTCTATTTTC
Found at i:195753 original size:23 final size:23
Alignment explanation
Indices: 195685--195753 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
195675 GAGTCGAGGG
* * *
195685 TTCTAAGCGGTCCTTCGGGATAA
1 TTCTACGCGGTCCTTCGGGACAT
* *
195708 TTCTACGTGGTCCTTTGGGACAT
1 TTCTACGCGGTCCTTCGGGACAT
*
195731 TTCTACGCGGTCCTTCGAGACAT
1 TTCTACGCGGTCCTTCGGGACAT
195754 ATATGTTGTC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (23 bp):
TTCTACGCGGTCCTTCGGGACAT
Found at i:196054 original size:18 final size:18
Alignment explanation
Indices: 196031--196070 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
196021 TAAATGGATA
*
196031 AATGATAAGGATGTTGAT
1 AATGATAAGGATGATGAT
**
196049 AATGATATTGATGATGAT
1 AATGATAAGGATGATGAT
196067 AATG
1 AATG
196071 TAGGAATATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.25, T:0.35
Consensus pattern (18 bp):
AATGATAAGGATGATGAT
Found at i:199195 original size:12 final size:12
Alignment explanation
Indices: 199178--199225 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
199168 CATAAATCAA
199178 AACAGAATTCAG
1 AACAGAATTCAG
*
199190 AACAG-ATATCAA
1 AACAGAAT-TCAG
*
199202 AACAGAATCCAG
1 AACAGAATTCAG
*
199214 ATCAGAATTCAG
1 AACAGAATTCAG
199226 GTCATGTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
11 2 0.07
12 25 0.86
13 2 0.07
ACGTcount: A:0.50, C:0.19, G:0.15, T:0.17
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:199200 original size:24 final size:24
Alignment explanation
Indices: 199173--199219 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
199163 GATATCATAA
*
199173 ATCAAAACAGAATTCAGAACAGAT
1 ATCAAAACAGAATCCAGAACAGAT
*
199197 ATCAAAACAGAATCCAGATCAGA
1 ATCAAAACAGAATCCAGAACAGA
199220 ATTCAGGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.53, C:0.19, G:0.13, T:0.15
Consensus pattern (24 bp):
ATCAAAACAGAATCCAGAACAGAT
Found at i:203245 original size:141 final size:142
Alignment explanation
Indices: 202991--203275 Score: 545
Period size: 141 Copynumber: 2.0 Consensus size: 142
202981 AGAGAGGTAC
202991 GATTGTAGTCTAGGGGCATGTACTGATCAGACATCTTTTGAAATTCGACCGGCTAGTCTATCATG
1 GATTGTAGTCTAGGGGCATGTACTGATCAGACATCTTTTGAAATTCGACCGGCTAGTCTATCATG
203056 AAAAATTTGACTCAACTAAAGCTCTGATACCACTAAATGTAACCCCCTAGACCGAT-AGTAACCG
66 AAAAATTTGACTCAACTAAAGCTCTGATACCACTAAATGTAACCCCCTAGACCGATAAGTAACCG
203120 ATCCAATCCGGG
131 ATCCAATCCGGG
203132 GATTGTAGTCTAGGGGCATGTACTGATCAGACATCTTTTGAAATTCGACCGGCTAGTCTATCATG
1 GATTGTAGTCTAGGGGCATGTACTGATCAGACATCTTTTGAAATTCGACCGGCTAGTCTATCATG
203197 AAAAATTTGACTCAACTAAAGCTCTGATACCACTAAATGTAACCCCCTAGACCGATAAGAGTAAC
66 AAAAATTTGACTCAACTAAAGCTCTGATACCACTAAATGTAACCCCCTAGACCGAT-A-AGTAAC
203262 CGATCCAATCCGGG
129 CGATCCAATCCGGG
203276 AAGTCACATT
Statistics
Matches: 141, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
141 121 0.86
144 20 0.14
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (142 bp):
GATTGTAGTCTAGGGGCATGTACTGATCAGACATCTTTTGAAATTCGACCGGCTAGTCTATCATG
AAAAATTTGACTCAACTAAAGCTCTGATACCACTAAATGTAACCCCCTAGACCGATAAGTAACCG
ATCCAATCCGGG
Found at i:204036 original size:24 final size:24
Alignment explanation
Indices: 203978--204045 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
203968 AAACGGAGAT
*
203978 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATCCAG
* **
204002 AACAGTTATCAAAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATCCAG
* * *
204026 ATCAAAAATCAGAATAGAAT
1 ATCAGAAATCAAAACAGAAT
204046 TCAGGTCATG
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.54, C:0.16, G:0.12, T:0.18
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATCCAG
Found at i:208066 original size:30 final size:30
Alignment explanation
Indices: 208030--208108 Score: 122
Period size: 30 Copynumber: 2.6 Consensus size: 30
208020 TATGGTATTG
*
208030 TAGTGTGTAAGGACACTTAGTACAACACTA
1 TAGTGTGTAAGGACACTCAGTACAACACTA
* *
208060 TAGTGTGTAAGGACGCTCAGTACGACACTA
1 TAGTGTGTAAGGACACTCAGTACAACACTA
*
208090 TGGTGTGTAAGGACACTCA
1 TAGTGTGTAAGGACACTCA
208109 ATGCATATGG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (30 bp):
TAGTGTGTAAGGACACTCAGTACAACACTA
Found at i:210078 original size:22 final size:21
Alignment explanation
Indices: 210047--210087 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
210037 TACATGATCA
*
210047 TTTAAAACATGGAAAACATGG
1 TTTAAAACATGAAAAACATGG
*
210068 TTTAACAACATTAAAAACAT
1 TTTAA-AACATGAAAAACAT
210088 ATTGCAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (21 bp):
TTTAAAACATGAAAAACATGG
Found at i:211973 original size:30 final size:30
Alignment explanation
Indices: 211925--212198 Score: 195
Period size: 30 Copynumber: 9.2 Consensus size: 30
211915 CTAATTTTGC
*
211925 ATCTTAACATTA-AAAATATATTTTATTTTT
1 ATCTTAAC-TTATTAAATATATTTTATTTTT
* *
211955 ATATTCACTTATTAAATATATTTTATTCTTT
1 ATCTTAACTTATTAAATATATTTTATT-TTT
* * *
211986 -TCTTAACCTA-AAAATATATTTTATTCTT
1 ATCTTAACTTATTAAATATATTTTATTTTT
** * * *
212014 ATC-TAACTTATTCCATAAATTATATTCTTA
1 ATCTTAACTTATTAAATATATTTTATT-TTT
* * *
212044 ATTTTAAATTATTAAATATATTTTATTGTT
1 ATCTTAACTTATTAAATATATTTTATTTTT
* * *
212074 ACCTTAAATTATTAAATATA-ATTATTTTTT
1 ATCTTAACTTATTAAATATATTTTA-TTTTT
* * * *
212104 ATTTTAACTTA-AAACATATCTTTTATTCTT
1 ATCTTAACTTATTAA-ATATATTTTATTTTT
* **
212134 ACCTTAACTTAACAAATATATTTTATTTTT
1 ATCTTAACTTATTAAATATATTTTATTTTT
** * *
212164 ATCTTAAC-TAAAAAAT-TATTATATTTTC
1 ATCTTAACTTATTAAATATATTTTATTTTT
212192 ATCTTAA
1 ATCTTAA
212199 ATTTAAAATA
Statistics
Matches: 190, Mismatches: 44, Indels: 22
0.74 0.17 0.09
Matches are distributed among these distances:
28 25 0.13
29 41 0.22
30 98 0.52
31 26 0.14
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.52
Consensus pattern (30 bp):
ATCTTAACTTATTAAATATATTTTATTTTT
Found at i:212165 original size:60 final size:60
Alignment explanation
Indices: 211925--212188 Score: 234
Period size: 60 Copynumber: 4.4 Consensus size: 60
211915 CTAATTTTGC
* ** * *
211925 ATCTTAACATTAAAAATATATTTTATTTTTATATTCACTTATTAAATATATTTTATTCTTT
1 ATCTTAAC-TTAAAAATATATTTTATTCTTACCTTAACTTATCAAATATATTTTATTCTTT
* * * * * *
211986 -TCTTAACCTAAAAATATATTTTATTCTTATC-TAACTTATTC-CATAAATTATATTCTTA
1 ATCTTAACTTAAAAATATATTTTATTCTTACCTTAACTTA-TCAAATATATTTTATTCTTT
* * * * * * * *
212044 ATTTTAAATTATTAAATATATTTTATTGTTACCTTAAATTATTAAATATA-ATTATTTTTT
1 ATCTTAACTTA-AAAATATATTTTATTCTTACCTTAACTTATCAAATATATTTTATTCTTT
* * *
212104 ATTTTAACTTAAAACATATCTTTTATTCTTACCTTAACTTAACAAATATATTTTATT-TTT
1 ATCTTAACTTAAAA-ATATATTTTATTCTTACCTTAACTTATCAAATATATTTTATTCTTT
* *
212164 ATCTTAACTAAAAAAT-TATTATATT
1 ATCTTAACTTAAAAATATATTTTATT
212189 TTCATCTTAA
Statistics
Matches: 161, Mismatches: 35, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
58 26 0.16
59 33 0.20
60 87 0.54
61 15 0.09
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (60 bp):
ATCTTAACTTAAAAATATATTTTATTCTTACCTTAACTTATCAAATATATTTTATTCTTT
Found at i:212169 original size:25 final size:28
Alignment explanation
Indices: 212136--212198 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
212126 TTATTCTTAC
* * *
212136 CTTAACTTAACAAATATATTTTATTTTTAT
1 CTTAAC-TAAAAAAT-TATTATATTTTCAT
212166 CTTAACTAAAAAATTATTATATTTTCAT
1 CTTAACTAAAAAATTATTATATTTTCAT
212194 CTTAA
1 CTTAA
212199 ATTTAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 17 0.57
29 7 0.23
30 6 0.20
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (28 bp):
CTTAACTAAAAAATTATTATATTTTCAT
Found at i:212210 original size:27 final size:27
Alignment explanation
Indices: 212151--212212 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
212141 CTTAACAAAT
* * *
212151 ATATTTTATTTTTATCTTAACTAAAAA
1 ATATTATATTTTCATCTTAAATAAAAA
**
212178 ATTATTATATTTTCATCTTAAATTTAAA
1 A-TATTATATTTTCATCTTAAATAAAAA
212206 ATATTAT
1 ATATTAT
212213 CATAATAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 7 0.24
28 22 0.76
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.53
Consensus pattern (27 bp):
ATATTATATTTTCATCTTAAATAAAAA
Found at i:212298 original size:22 final size:22
Alignment explanation
Indices: 212273--212314 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
212263 AAAATTTAAG
*
212273 ATAAGATTAAAATATATTTTTC
1 ATAAGAATAAAATATATTTTTC
212295 ATAAGAATAAAATATATTTT
1 ATAAGAATAAAATATATTTT
212315 AGATTCTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (22 bp):
ATAAGAATAAAATATATTTTTC
Found at i:212374 original size:24 final size:24
Alignment explanation
Indices: 212347--212392 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
212337 TATTTAATAA
*
212347 GTTAAGATAAAAAATTATTTTAGC
1 GTTAAGATAAAAAATTAATTTAGC
**
212371 GTTAAGATGTAAAATTAATTTA
1 GTTAAGATAAAAAATTAATTTA
212393 ATATGTGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.02, G:0.13, T:0.39
Consensus pattern (24 bp):
GTTAAGATAAAAAATTAATTTAGC
Found at i:212398 original size:18 final size:18
Alignment explanation
Indices: 212371--212414 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
212361 TTATTTTAGC
212371 GTTAAGATGTAAAATTAA
1 GTTAAGATGTAAAATTAA
* * *
212389 TTTAATATGTGAAATTAA
1 GTTAAGATGTAAAATTAA
212407 GTTAAGAT
1 GTTAAGAT
212415 ATATAAATAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (18 bp):
GTTAAGATGTAAAATTAA
Found at i:213542 original size:2 final size:2
Alignment explanation
Indices: 213535--213564 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
213525 CAATTTTTAA
213535 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
213565 GTGCATTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:214313 original size:3 final size:3
Alignment explanation
Indices: 214305--214436 Score: 130
Period size: 3 Copynumber: 43.7 Consensus size: 3
214295 GTTGTGGCAA
* * *
214305 CTT CTT CTT CTC CTT CTT -TCT CTC CTT CCT -TT CTT CCTT CCTT CTT
1 CTT CTT CTT CTT CTT CTT CT-T CTT CTT CTT CTT CTT -CTT -CTT CTT
* *
214351 -TT -TT CTT CCCT CTT CTT CTT CTT -TC CTT CTTT CTT CCTT CTT CTT
1 CTT CTT CTT -CTT CTT CTT CTT CTT CTT CTT C-TT CTT -CTT CTT CTT
214396 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
214437 CCAAATAATG
Statistics
Matches: 110, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
2 7 0.06
3 87 0.79
4 16 0.15
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:217073 original size:22 final size:22
Alignment explanation
Indices: 217048--217103 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
217038 GGTATATGAA
217048 ATTTGTCCCGAAGAACCTATGT
1 ATTTGTCCCGAAGAACCTATGT
*
217070 ATTTGTCCCGAAGGACCTATGT
1 ATTTGTCCCGAAGAACCTATGT
*
217092 AATTGTCCCGAA
1 ATTTGTCCCGAA
217104 TGACCGCGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (22 bp):
ATTTGTCCCGAAGAACCTATGT
Done.