Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold255
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: 220819
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
File 1 of 2
Found at i:98 original size:17 final size:18
Alignment explanation
Indices: 66--100 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
56 TCTAATCATA
66 TTCATTTTAATTATTATT
1 TTCATTTTAATTATTATT
*
84 TTCATTTT-TTTATTATT
1 TTCATTTTAATTATTATT
101 ATTTAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (18 bp):
TTCATTTTAATTATTATT
Found at i:114 original size:20 final size:22
Alignment explanation
Indices: 65--114 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
55 CTCTAATCAT
*
65 ATTCATTTTAATTATTATTTTC
1 ATTCATTTTAATTATTATTTTA
*
87 ATT--TTTTTATTATTA-TTTA
1 ATTCATTTTAATTATTATTTTA
106 ATTCATTTT
1 ATTCATTTT
115 CACAAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 6 0.25
20 11 0.46
21 4 0.17
22 3 0.12
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (22 bp):
ATTCATTTTAATTATTATTTTA
Found at i:2889 original size:16 final size:17
Alignment explanation
Indices: 2868--2901 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2858 ATAAATACAG
2868 ATCATTT-AGTGAAACC
1 ATCATTTAAGTGAAACC
*
2884 ATCATTTAATTGAAACC
1 ATCATTTAAGTGAAACC
2901 A
1 A
2902 ATTTTAAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (17 bp):
ATCATTTAAGTGAAACC
Found at i:5472 original size:35 final size:37
Alignment explanation
Indices: 5417--5511 Score: 97
Period size: 35 Copynumber: 2.6 Consensus size: 37
5407 CATTAGATCA
* * * *
5417 AAAAATATATATATAATAAATAATTA-AAAAT-TATT
1 AAAATTATATTTATATTAAATAATTAGAAAATATATC
* *
5452 AAACTTATATTTATATTAAATAA-TAGAATATATATC
1 AAAATTATATTTATATTAAATAATTAGAAAATATATC
* *
5488 AAAATTAGATTTATGTTAAATAAT
1 AAAATTATATTTATATTAAATAAT
5512 AATTAAATAT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
34 2 0.04
35 23 0.48
36 23 0.48
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (37 bp):
AAAATTATATTTATATTAAATAATTAGAAAATATATC
Found at i:5538 original size:23 final size:25
Alignment explanation
Indices: 5512--5566 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
5502 GTTAAATAAT
5512 AATTAAATATTA-TT-AAATTTAAA
1 AATTAAATATTATTTAAAATTTAAA
**
5535 AATTATTTATTATTTAAAATTTAAA
1 AATTAAATATTATTTAAAATTTAAA
*
5560 ATTTAAA
1 AATTAAA
5567 ATTTAAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 10 0.40
24 2 0.08
25 13 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AATTAAATATTATTTAAAATTTAAA
Found at i:5556 original size:7 final size:7
Alignment explanation
Indices: 5546--5574 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
5536 ATTATTTATT
5546 ATTTAAA
1 ATTTAAA
5553 ATTTAAA
1 ATTTAAA
5560 ATTTAAA
1 ATTTAAA
5567 ATTTAAA
1 ATTTAAA
5574 A
1 A
5575 ATATATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATTTAAA
Found at i:8086 original size:30 final size:30
Alignment explanation
Indices: 8050--8109 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
8040 ATTTAGATTA
8050 GTTAAATTCGTTGGGTACCCATTAACATTT
1 GTTAAATTCGTTGGGTACCCATTAACATTT
* * *
8080 GTTAAATTGGTTGGGTACCTATTAATATTT
1 GTTAAATTCGTTGGGTACCCATTAACATTT
8110 TAAAAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (30 bp):
GTTAAATTCGTTGGGTACCCATTAACATTT
Found at i:11178 original size:12 final size:12
Alignment explanation
Indices: 11158--11199 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
11148 TAATAATAAT
*
11158 AATTCAAATAGAA
1 AATT-AAATAAAA
11171 AATTAAATAAAA
1 AATTAAATAAAA
11183 AATTAAATAAAA
1 AATTAAATAAAA
11195 TAATT
1 -AATT
11200 TTAACAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 19 0.70
13 8 0.30
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (12 bp):
AATTAAATAAAA
Found at i:11867 original size:23 final size:23
Alignment explanation
Indices: 11823--11867 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11813 TATAATATAA
* *
11823 GAAAAATAATTATAACATAACAT
1 GAAAAATAATAATAACACAACAT
*
11846 GAAAAATAATAATAGCACAACA
1 GAAAAATAATAATAACACAACA
11868 CAAATACATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.62, C:0.11, G:0.07, T:0.20
Consensus pattern (23 bp):
GAAAAATAATAATAACACAACAT
Found at i:14256 original size:13 final size:13
Alignment explanation
Indices: 14238--14263 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14228 CAATTTTTTG
14238 TGTATCGATACAT
1 TGTATCGATACAT
14251 TGTATCGATACAT
1 TGTATCGATACAT
14264 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:15031 original size:36 final size:36
Alignment explanation
Indices: 14981--15052 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
14971 TTTTTTAATA
*
14981 AATCTCCCCCTTAATCAAGTAATTCATATCAAAATT
1 AATCTCCCCATTAATCAAGTAATTCATATCAAAATT
15017 AATCTCCCCATTAATCAAGTAATTCATATCAAAATT
1 AATCTCCCCATTAATCAAGTAATTCATATCAAAATT
15053 TATTTGCACT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.40, C:0.24, G:0.03, T:0.33
Consensus pattern (36 bp):
AATCTCCCCATTAATCAAGTAATTCATATCAAAATT
Found at i:16853 original size:13 final size:13
Alignment explanation
Indices: 16835--16872 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
16825 ATAAACACCC
16835 TGTATCGATACAG
1 TGTATCGATACAG
*
16848 TGTATCGATACAT
1 TGTATCGATACAG
16861 TGTATCGATACA
1 TGTATCGATACA
16873 AATAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:18972 original size:15 final size:15
Alignment explanation
Indices: 18952--18982 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18942 ATTTCGTTTA
*
18952 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
18967 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
18982 G
1 G
18983 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:23063 original size:13 final size:13
Alignment explanation
Indices: 23045--23070 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23035 CAATTTTTTG
23045 TGTATCGATACAT
1 TGTATCGATACAT
23058 TGTATCGATACAT
1 TGTATCGATACAT
23071 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:24773 original size:30 final size:30
Alignment explanation
Indices: 24739--24799 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
24729 TGGAAGTCAT
24739 ATAAATGAATGAAACTAAACCTATTATGGA
1 ATAAATGAATGAAACTAAACCTATTATGGA
24769 ATAAATGAATGAAACTAAACCTATTATGGA
1 ATAAATGAATGAAACTAAACCTATTATGGA
24799 A
1 A
24800 AGATTTGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.51, C:0.10, G:0.13, T:0.26
Consensus pattern (30 bp):
ATAAATGAATGAAACTAAACCTATTATGGA
Found at i:29757 original size:30 final size:30
Alignment explanation
Indices: 29721--29777 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
29711 CATTTAACAC
*
29721 CAATGTGCCTAGCATCAAAATGTCTTGAAG
1 CAATGTGCCTAGCAACAAAATGTCTTGAAG
*
29751 CAATGTGCCTAGCAACAATATGTCTTG
1 CAATGTGCCTAGCAACAAAATGTCTTG
29778 GAGTAATGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (30 bp):
CAATGTGCCTAGCAACAAAATGTCTTGAAG
Found at i:32184 original size:2 final size:2
Alignment explanation
Indices: 32148--32174 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32138 AATCTATAAC
32148 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
32175 AAGAATATAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32379 original size:14 final size:15
Alignment explanation
Indices: 32360--32394 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
32350 ATGAAATAAT
*
32360 AAAAAGAAAGA-ACG
1 AAAAAGAAAGAGACA
32374 AAAAAGAAAGAGACA
1 AAAAAGAAAGAGACA
32389 AAAAAG
1 AAAAAG
32395 GAAAATGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.74, C:0.06, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAGAGACA
Found at i:32471 original size:22 final size:25
Alignment explanation
Indices: 32426--32483 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 25
32416 AACCGAGAGG
32426 AAAGAGAAAATGAAATGATAGAAAAA
1 AAAGAGAAAATGAAATGA-AGAAAAA
32452 AAAGAGAAAA-G-AATG-AGAAAAA
1 AAAGAGAAAATGAAATGAAGAAAAA
32474 AACA-AGAAAA
1 AA-AGAGAAAA
32484 ATGTGTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
22 15 0.48
23 1 0.03
24 4 0.13
25 1 0.03
26 10 0.32
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.07
Consensus pattern (25 bp):
AAAGAGAAAATGAAATGAAGAAAAA
Found at i:32474 original size:24 final size:26
Alignment explanation
Indices: 32426--32486 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 26
32416 AACCGAGAGG
* *
32426 AAAGAGAAAATGAAATGATAGAAAAA
1 AAAGAGAAAATGAAATGAGAAAAAAA
32452 AAAGAGAAAA-G-AATGAGAAAAAAA
1 AAAGAGAAAATGAAATGAGAAAAAAA
*
32476 CAAGA-AAAATG
1 AAAGAGAAAATG
32487 TGTAATTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 4 0.13
24 16 0.52
25 1 0.03
26 10 0.32
ACGTcount: A:0.70, C:0.02, G:0.20, T:0.08
Consensus pattern (26 bp):
AAAGAGAAAATGAAATGAGAAAAAAA
Found at i:33737 original size:23 final size:24
Alignment explanation
Indices: 33711--33756 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
33701 TTATCATAAA
* *
33711 ATAAT-TTTCATAATTAATAAAAT
1 ATAATATTACATAATTAAAAAAAT
*
33734 ATAATATTACTTAATTAAAAAAA
1 ATAATATTACATAATTAAAAAAA
33757 AAACATTAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
ATAATATTACATAATTAAAAAAAT
Found at i:34517 original size:51 final size:51
Alignment explanation
Indices: 34436--34538 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
34426 GGTGTTACTG
* * *
34436 GGTTGAATTGGTTCAGGTCAGGATTTAATAAAAATTTAGATTTTTTGTTTA
1 GGTTGAATTGGTTCAGGGCAGGATTCAATAAAAATTTAAATTTTTTGTTTA
34487 GGTTGAATTGGTTCAGGGCAGGATTCAATAAAAATTTAAATTTTTTGTTTA
1 GGTTGAATTGGTTCAGGGCAGGATTCAATAAAAATTTAAATTTTTTGTTTA
34538 G
1 G
34539 CTCGTCTTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (51 bp):
GGTTGAATTGGTTCAGGGCAGGATTCAATAAAAATTTAAATTTTTTGTTTA
Found at i:35212 original size:2 final size:2
Alignment explanation
Indices: 35205--35255 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
35195 AGAGGCCAAA
35205 CT CT CT CT CT CT CT CT CT CT C- CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
35246 CT CT CT CT CT
1 CT CT CT CT CT
35256 TGTTATCAGG
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:36282 original size:18 final size:18
Alignment explanation
Indices: 36256--36297 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
36246 TTATAATAAA
* *
36256 TTATTTAACAAATTGATT
1 TTATATAACAAATTAATT
36274 TTATATAACAAATTAATT
1 TTATATAACAAATTAATT
36292 TTATAT
1 TTATAT
36298 TACTTTGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (18 bp):
TTATATAACAAATTAATT
Found at i:37065 original size:20 final size:20
Alignment explanation
Indices: 37037--37075 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
37027 ATTTATAAAC
* *
37037 TAGATAAATCTTATCAATAA
1 TAGAAAAATCTTAGCAATAA
*
37057 TAGAAAAATTTTAGCAATA
1 TAGAAAAATCTTAGCAATA
37076 GCAACTTATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (20 bp):
TAGAAAAATCTTAGCAATAA
Found at i:39238 original size:20 final size:21
Alignment explanation
Indices: 39194--39247 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
39184 TTTTCTAATT
* *
39194 TGTATCGATATAAATAGTAAA
1 TGTATCGATACATATAGTAAA
*
39215 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATATAGTAAA
*
39235 TGTATCGGTACAT
1 TGTATCGATACAT
39248 GCCAAAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATATAGTAAA
Found at i:40404 original size:8 final size:8
Alignment explanation
Indices: 40392--40452 Score: 63
Period size: 8 Copynumber: 7.6 Consensus size: 8
40382 TTTTCGACAC
40392 AAAAAAAT
1 AAAAAAAT
*
40400 -TAAAAAT
1 AAAAAAAT
*
40407 CAAAAAAT
1 AAAAAAAT
40415 AAAAAAAT
1 AAAAAAAT
40423 AAAAAAAT
1 AAAAAAAT
40431 AATAAAAA-
1 AA-AAAAAT
*
40439 AAAATAAAG
1 AAAA-AAAT
40448 AAAAA
1 AAAAA
40453 TGATGAAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
7 8 0.17
8 29 0.63
9 9 0.20
ACGTcount: A:0.84, C:0.02, G:0.02, T:0.13
Consensus pattern (8 bp):
AAAAAAAT
Found at i:40434 original size:11 final size:10
Alignment explanation
Indices: 40392--40453 Score: 63
Period size: 10 Copynumber: 5.9 Consensus size: 10
40382 TTTTCGACAC
*
40392 AAAAAAATTA
1 AAAAAAAATA
40402 AAAATCAAAA-A
1 AAAA--AAAATA
40413 ATAAAAAAATA
1 A-AAAAAAATA
40424 AAAAAATAATA
1 AAAAAA-AATA
40435 AAAAAAAATA
1 AAAAAAAATA
*
40445 AAGAAAAAT
1 AAAAAAAAT
40454 GATGAAATTG
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
10 25 0.56
11 14 0.31
12 6 0.13
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.15
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:40531 original size:15 final size:15
Alignment explanation
Indices: 40511--40560 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
40501 CAACAATAAA
40511 TAAAAGAAAGAAAAG
1 TAAAAGAAAGAAAAG
* * *
40526 TAAAAGCATGAATCA-
1 TAAAAGAAAGAA-AAG
40541 TAAAAGAAAGAAAAG
1 TAAAAGAAAGAAAAG
40556 TAAAA
1 TAAAA
40561 CAAAAATGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 1 0.04
15 25 0.93
16 1 0.04
ACGTcount: A:0.68, C:0.04, G:0.16, T:0.12
Consensus pattern (15 bp):
TAAAAGAAAGAAAAG
Found at i:42145 original size:79 final size:79
Alignment explanation
Indices: 42008--42180 Score: 215
Period size: 79 Copynumber: 2.2 Consensus size: 79
41998 TTTCACAATT
* *
42008 GGGGATACTCTAACCCCGATTTTATTTCCAAAATACTGATTTTCCACCATCAGAGATACTCCAAC
1 GGGGATACTCTAACCCCGATTTTATTTCCAAAATACTAATTTTCCACAATCAGAGATACTCCAAC
42073 CCCATTATTT-TCGA
66 CCCATTATTTCT-GA
* * * * ** *
42087 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATA-TCAATTTTTCACAATTGGGGATACTCCAA
1 GGGGATACTCTAACCCCGATTTTATTTCCAAAATACT-AATTTTCCACAATCAGAGATACTCCAA
*
42151 CCCCGTTATTTCTGA
65 CCCCATTATTTCTGA
*
42166 GAGGATACTCTAACC
1 GGGGATACTCTAACC
42181 TTAGTTTGTT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
78 1 0.01
79 78 0.98
80 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
GGGGATACTCTAACCCCGATTTTATTTCCAAAATACTAATTTTCCACAATCAGAGATACTCCAAC
CCCATTATTTCTGA
Found at i:50600 original size:29 final size:28
Alignment explanation
Indices: 50455--51605 Score: 735
Period size: 28 Copynumber: 40.5 Consensus size: 28
50445 CACCGACTTA
* *
50455 TGTGAGCTTTGAAAGGATGCCACTGCCT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
50483 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
50511 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
50539 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
50567 TGTGGGCTTTGAAAAGATGCCACTG-CTT
1 TGTGGGCTTTGAAAGGATGCCACTGAC-T
50595 GTGTGGGCTTTGAGAAGGATGCCACTGACT
1 -TGTGGGCTTTGA-AAGGATGCCACTGACT
* * * *
50625 TATGGGCTTTGAGGAGAATGCCACTAACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
*
50654 TGTGGGCTTTGAGAAGGATGCCACTGATT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
*
50683 TGTGGGCTTTGAAGGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
50711 TGTGGGCTTTGAAAGGATGCCATTGATTT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
50740 GTGTGGGCTTTGAGAAGGATGCCACTGACT
1 -TGTGGGCTTTGA-AAGGATGCCACTGACT
* *
50770 TGTGGGCTTTGAGAAGGATGCCATTGATT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
50799 TGTGTGAGCTTTGAGAAGGATGCCACTGACT
1 TGTG-G-GCTTTGA-AAGGATGCCACTGACT
*
50830 TGTGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
50859 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
50887 TGTGGGCTTTGAAATAGGTTACCACCGACTT
1 TGTGGGCTTTG-AA-AGGATGCCACTGAC-T
* *
50918 GTGTGGGCTTTGAAATCGGTTGCCA-TCGAAT
1 -TGTGGGCTTTGAAA--GGATGCCACT-GACT
* * *
50949 TGTGTGAGCTTTCAAATGAGTTGCCACCGACT
1 TGTG-G-GCTTTGAAA-G-GATGCCACTGACT
* ** * *
50981 TGTGTAGGTTTTGAAATAATACCATTGACT
1 TGTG--GGCTTTGAAAGGATGCCACTGACT
** *
51011 TGTGGGCTTAAAAAAGGGTGCCACTGACT
1 TGTGGGCTT-TGAAAGGATGCCACTGACT
* * *
51040 TGTGGGCTGTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** *
51068 TGTGGGCTTAAAAAGGATGCCA-TGAAGT
1 TGTGGGCTTTGAAAGGATGCCACTG-ACT
* * *
51096 TGTGGACTTTGGAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** *
51124 TGTGGGCTTAAAAAGGATGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGATGCCACTG-ACT
* * *
51152 TGTGGAC-TTAAAAGGATGCCA-TGGAGT
1 TGTGGGCTTTGAAAGGATGCCACT-GACT
* * *
51179 TGTGGAC-TT-AAAAGAGTGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGA-TGCCACTG-ACT
* * * * *
51206 TGTGGAC-TTAAAAGGGTACCAC-GAAGT
1 TGTGGGCTTTGAAAGGATGCCACTG-ACT
* * * * *
51233 TGTGGACTTTAAAAGAATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
51261 TGTGGACTTTAAAAGAATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
51289 TGTGGAC-TTGAAACGGATGCCACGGAGT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * * * *
51317 TATGGAC-TTAAAAGGGTGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGATGCCACTG-ACT
* * * *
51344 TGTGGAC-TTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** * * * *
51371 TGTGAAC-TTAAAAGGGTACCAC-GAAGT
1 TGTGGGCTTTGAAAGGATGCCACTG-ACT
* * * * *
51398 GGTGGACTTTAAAAGGGTGCCA-TGGAGT
1 TGTGGGCTTTGAAAGGATGCCACT-GACT
* * * *
51426 TGTGGACTTT-AAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
51453 TGTGGAC-TTAAAAGGATGGCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
51480 TGTGGACTTTAAAAGGGTGCCA-TGGATT
1 TGTGGGCTTTGAAAGGATGCCACT-GACT
** * * * *
51508 TGTGAACTTTAAAAGGATGCTACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
51536 TGTGGAC-TTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
51563 TATGGACTTTGAAAAGAAATGCCACTGAAT
1 TGTGGGCTTTG-AAAG-GATGCCACTGACT
* *
51593 CGTGGACTTTGAA
1 TGTGGGCTTTGAA
51606 GAGGTCACAA
Statistics
Matches: 953, Mismatches: 122, Indels: 95
0.81 0.10 0.08
Matches are distributed among these distances:
26 10 0.01
27 196 0.21
28 404 0.42
29 172 0.18
30 75 0.08
31 46 0.05
32 49 0.05
33 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:50980 original size:64 final size:61
Alignment explanation
Indices: 50444--51076 Score: 269
Period size: 58 Copynumber: 10.8 Consensus size: 61
50434 GGCTTTGAAG
* * ** * * *
50444 CCACCGACTTATGTGAGCTTTGAAA-GGATGCCACTGCCTTGTGGGCTTTGAAA-A-GATG
1 CCACCGACTTGTGTGGGCTTTGAAATGGATGCCACTGAATTGTGGGCTTTCAAATAGGTTA
* * * * * *
50502 CCACTGAC-T-TGTGGGCTTTGAAA-AGATGCCACTGACTTGTGGGCTTT-GAA-AGGATG
1 CCACCGACTTGTGTGGGCTTTGAAATGGATGCCACTGAATTGTGGGCTTTCAAATAGGTTA
* * ** * * * *
50558 CCACTGAC-T-TGTGGGCTTTGAAA-AGATGCCACTGCTTGTGTGGGCTTTGAGA-AGGATG
1 CCACCGACTTGTGTGGGCTTTGAAATGGATGCCACTGAAT-TGTGGGCTTTCAAATAGGTTA
* * * * * * * *
50616 CCACTGAC-T-TATGGGCTTTGAGGA-GAATGCCACT-AACTTGTGGGCTTTGAGA-AGGATG
1 CCACCGACTTGTGTGGGCTTTGA-AATGGATGCCACTGAA-TTGTGGGCTTTCAAATAGGTTA
* * * * * *
50674 CCACTGA-TT-TGTGGGCTTTG-AAGGGATGCCACTGACTTGTGGGCTTT-GAA-AGGATG
1 CCACCGACTTGTGTGGGCTTTGAAATGGATGCCACTGAATTGTGGGCTTTCAAATAGGTTA
** * * * * * *
50730 CCATTGATTTGTGTGGGCTTTGAGAA-GGATGCCACTGACTTGTGGGCTTTGAGA-AGGATG
1 CCACCGACTTGTGTGGGCTTTGA-AATGGATGCCACTGAATTGTGGGCTTTCAAATAGGTTA
** * * * * * * *
50790 CCATTGATTTGTGTGAGCTTTGAGAA-GGATGCCACTGACTTGTGGGCTTTGAGA-AGGATG
1 CCACCGACTTGTGTGGGCTTTGA-AATGGATGCCACTGAATTGTGGGCTTTCAAATAGGTTA
** * *
50850 CCACTAAC-T-TGTGGGCTTTGAAA-GGATGCCACTGACTTGTGGGCTTTGAAATAGGTTA
1 CCACCGACTTGTGTGGGCTTTGAAATGGATGCCACTGAATTGTGGGCTTTCAAATAGGTTA
*
50908 CCACCGACTTGTGTGGGCTTTGAAATCGGTTGCCA-TCGAATTGTGTGAGCTTTCAAAT-GAGTT
1 CCACCGACTTGTGTGGGCTTTGAAAT-GGATGCCACT-GAATTGTG-G-GCTTTCAAATAG-GTT
*
50971 G
61 A
* * * * * * * * * *
50972 CCACCGACTTGTGTAGGTTTTGAAAT-AATACCATTGACTTGTGGGC-TTAAAAAAGGGTG
1 CCACCGACTTGTGTGGGCTTTGAAATGGATGCCACTGAATTGTGGGCTTTCAAATAGGTTA
* * *
51031 CCACTGAC-T-TGTGGGCTGTGAAA-GGGTGCCACT-AACTTGTGGGCTT
1 CCACCGACTTGTGTGGGCTTTGAAATGGATGCCACTGAA-TTGTGGGCTT
51077 AAAAAGGATG
Statistics
Matches: 492, Mismatches: 56, Indels: 54
0.82 0.09 0.09
Matches are distributed among these distances:
55 3 0.01
56 89 0.18
57 86 0.17
58 107 0.22
59 51 0.10
60 90 0.18
61 2 0.00
62 25 0.05
63 3 0.01
64 36 0.07
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (61 bp):
CCACCGACTTGTGTGGGCTTTGAAATGGATGCCACTGAATTGTGGGCTTTCAAATAGGTTA
Found at i:51172 original size:27 final size:27
Alignment explanation
Indices: 51051--51571 Score: 519
Period size: 27 Copynumber: 19.0 Consensus size: 27
51041 GTGGGCTGTG
* * * *
51051 AAAGGGTGCCACTAACTTGTGGGCTTAA
1 AAAGGATGCCACGAAGTTGTGGACTT-A
* *
51079 AAAGGATGCCATGAAGTTGTGGACTTTG
1 AAAGGATGCCACGAAGTTGTGGAC-TTA
* * * *
51107 GAAGGGTGCCACTG-ACTTGTGGGCTTAA
1 AAAGGATGCCAC-GAAGTTGTGGACTT-A
51135 AAAGGATGCCACGAAGTTGTGGACTTA
1 AAAGGATGCCACGAAGTTGTGGACTTA
* *
51162 AAAGGATGCCATGGAGTTGTGGACTTA
1 AAAGGATGCCACGAAGTTGTGGACTTA
51189 AAA-GAGTGCCACGAAGTTGTGGACTTA
1 AAAGGA-TGCCACGAAGTTGTGGACTTA
* *
51216 AAAGGGTACCACGAAGTTGTGGACTTTA
1 AAAGGATGCCACGAAGTTGTGGAC-TTA
* *
51244 AAAGAATGCCACGGAGTTGTGGACTTTA
1 AAAGGATGCCACGAAGTTGTGGAC-TTA
* *
51272 AAAGAATGCCACGGAGTTGTGGACTTGA
1 AAAGGATGCCACGAAGTTGTGGACTT-A
* * *
51300 AACGGATGCCACGGAGTTATGGACTTA
1 AAAGGATGCCACGAAGTTGTGGACTTA
*
51327 AAAGGGTGCCACGAAGTTGTGGACTTA
1 AAAGGATGCCACGAAGTTGTGGACTTA
*
51354 AAAGGATGCCAC-AGAGTTGTGAACTTA
1 AAAGGATGCCACGA-AGTTGTGGACTTA
* * *
51381 AAAGGGTACCACGAAGTGGTGGACTTTA
1 AAAGGATGCCACGAAGTTGTGGAC-TTA
* * * *
51409 AAAGGGTGCCATGGAGTTGTGGACTTT
1 AAAGGATGCCACGAAGTTGTGGACTTA
* *
51436 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGATGCCACGAAGTTGTGGACTTA
*
51463 AAAGGATGGCAC-AGAGTTGTGGACTTTA
1 AAAGGATGCCACGA-AGTTGTGGAC-TTA
* * * * *
51491 AAAGGGTGCCATGGATTTGTGAACTTTA
1 AAAGGATGCCACGAAGTTGTGGAC-TTA
* *
51519 AAAGGATGCTACGGAGTTGTGGACTTA
1 AAAGGATGCCACGAAGTTGTGGACTTA
* *
51546 AAAGGATGCCACGGAGTTATGGACTT
1 AAAGGATGCCACGAAGTTGTGGACTT
51572 TGAAAAGAAA
Statistics
Matches: 417, Mismatches: 62, Indels: 29
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.01
27 212 0.51
28 199 0.48
29 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.25
Consensus pattern (27 bp):
AAAGGATGCCACGAAGTTGTGGACTTA
Found at i:51325 original size:165 final size:163
Alignment explanation
Indices: 51051--51602 Score: 658
Period size: 165 Copynumber: 3.3 Consensus size: 163
51041 GTGGGCTGTG
* * * * * * * * *
51051 AAAGGGTGCCACTAACTTGTGGGCTTAAAAAGGATGCCATGAAGTTGTGGACTTTGGAAGGGTGC
1 AAAGGGTACCACGAAGTTGTGGACTTTAAAAGAATGCCACGGAGTTGTGGACTTT-AAAGGGTGC
* * * * *
51116 CACTGACTTGTGGGCTTAAAAAGGATGCCACGAAGTTGTGGACTTAAAAGGATGCCATGGAGTTG
65 CACGGAGTTGTGGACTT-AAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTG
51181 TGGACTTAAAA-GAGTGCCACGAAGTTGTGGACTTA
129 TGGACTTAAAAGGA-TGCCACGAAGTTGTGGACTTA
**
51216 AAAGGGTACCACGAAGTTGTGGACTTTAAAAGAATGCCACGGAGTTGTGGACTTTAAAAGAATGC
1 AAAGGGTACCACGAAGTTGTGGACTTTAAAAGAATGCCACGGAGTTGTGGACTTT-AAAGGGTGC
* * * *
51281 CACGGAGTTGTGGACTTGAAACGGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGAAGTTG
65 CACGGAGTTGTGGACTT-AAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTG
*
51346 TGGACTTAAAAGGATGCCAC-AGAGTTGTGAACTTA
129 TGGACTTAAAAGGATGCCACGA-AGTTGTGGACTTA
* ** *
51381 AAAGGGTACCACGAAGTGGTGGACTTTAAAAGGGTGCCATGGAGTTGTGGACTTTAAAGGGTGCC
1 AAAGGGTACCACGAAGTTGTGGACTTTAAAAGAATGCCACGGAGTTGTGGACTTTAAAGGGTGCC
* * *
51446 ACGGAGTTGTGGACTTAAAAGGATGGCACAGAGTTGTGGACTTTAAAAGGGTGCCATGGATTTGT
66 ACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCATGGAGTTGT
* * *
51511 GAACTTTAAAAGGATGCTACGGAGTTGTGGACTTA
130 GGAC-TTAAAAGGATGCCACGAAGTTGTGGACTTA
* * * * * * *
51546 AAAGGATGCCACGGAGTTATGGACTTTGAAAAGAAATGCCACTGAATCGTGGACTTT
1 AAAGGGTACCACGAAGTTGTGGACTTT-AAAAG-AATGCCACGGAGTTGTGGACTTT
51603 GAAGAGGTCA
Statistics
Matches: 329, Mismatches: 51, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
163 21 0.06
164 48 0.15
165 236 0.72
166 7 0.02
167 17 0.05
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.25
Consensus pattern (163 bp):
AAAGGGTACCACGAAGTTGTGGACTTTAAAAGAATGCCACGGAGTTGTGGACTTTAAAGGGTGCC
ACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTG
GACTTAAAAGGATGCCACGAAGTTGTGGACTTA
Found at i:52962 original size:16 final size:17
Alignment explanation
Indices: 52924--52965 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
52914 CTTTTTATTT
* *
52924 TGCTTTTGCGTTTTTTT
1 TGCTTTTGCATTTTTTG
*
52941 TTCTTTT-CATTTTTTG
1 TGCTTTTGCATTTTTTG
52957 TGCTTTTGC
1 TGCTTTTGC
52966 TTTCGACTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.02, C:0.14, G:0.14, T:0.69
Consensus pattern (17 bp):
TGCTTTTGCATTTTTTG
Found at i:56122 original size:13 final size:13
Alignment explanation
Indices: 56104--56130 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
56094 ACATTATGCT
56104 TTGTATCGATACA
1 TTGTATCGATACA
56117 TTGTATCGATACA
1 TTGTATCGATACA
56130 T
1 T
56131 GGACAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:56222 original size:20 final size:20
Alignment explanation
Indices: 56180--56233 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
56170 CTACCACAGT
* *
56180 TTGTATTGATACATGGTACA
1 TTGTATCGATACATGATACA
56200 TTGTATCGATACATGATGA-A
1 TTGTATCGATACATGAT-ACA
*
56220 TTGTATCAATACAT
1 TTGTATCGATACAT
56234 TGCTTCTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGATACA
Found at i:57736 original size:13 final size:13
Alignment explanation
Indices: 57718--57744 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57708 ACATGCTGCT
57718 TTGTATCGATACA
1 TTGTATCGATACA
57731 TTGTATCGATACA
1 TTGTATCGATACA
57744 T
1 T
57745 GAAACTGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:57816 original size:33 final size:33
Alignment explanation
Indices: 57774--57840 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
57764 CTATCACTAT
*
57774 TTGTATCGATACATGATA-CAATGTATCGATACA
1 TTGTATCGATACATGA-AGAAATGTATCGATACA
57807 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATGAAGAAATGTATCGATACA
57840 T
1 T
57841 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 1 0.03
33 31 0.97
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACATGAAGAAATGTATCGATACA
Found at i:57820 original size:13 final size:13
Alignment explanation
Indices: 57788--57820 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
57778 ATCGATACAT
*
57788 GATACAATGTATC
1 GATACATTGTATC
57801 GATACATTGTATC
1 GATACATTGTATC
57814 GATACAT
1 GATACAT
57821 GAAGAAATGT
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:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
GATACATTGTATC
Found at i:59646 original size:21 final size:21
Alignment explanation
Indices: 59620--59670 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
59610 CAAACTTAAA
*
59620 GAAGAAGAATGTGAGCCAACC
1 GAAGAAGAATGTGAGCAAACC
59641 GAAGAAGAATGTGAGCAAACC
1 GAAGAAGAATGTGAGCAAACC
*
59662 AAAGAAGAA
1 GAAGAAGAA
59671 AGCCATGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.51, C:0.14, G:0.27, T:0.08
Consensus pattern (21 bp):
GAAGAAGAATGTGAGCAAACC
Found at i:64021 original size:13 final size:13
Alignment explanation
Indices: 64003--64027 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63993 CAACATTCCT
64003 TGTATCGATACAA
1 TGTATCGATACAA
64016 TGTATCGATACA
1 TGTATCGATACA
64028 TTAGGTACTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:66536 original size:14 final size:14
Alignment explanation
Indices: 66503--66542 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
66493 ACATGTTGCT
66503 TTGTATCGATACAA
1 TTGTATCGATACAA
66517 -TGTATCGATACAA
1 TTGTATCGATACAA
*
66530 TTGTATCAATACA
1 TTGTATCGATACA
66543 TGAAACTGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (14 bp):
TTGTATCGATACAA
Found at i:66658 original size:20 final size:20
Alignment explanation
Indices: 66574--66647 Score: 148
Period size: 20 Copynumber: 3.7 Consensus size: 20
66564 TATCACTATT
66574 TGTATCGATACATGGTACAA
1 TGTATCGATACATGGTACAA
66594 TGTATCGATACATGGTACAA
1 TGTATCGATACATGGTACAA
66614 TGTATCGATACATGGTACAA
1 TGTATCGATACATGGTACAA
66634 TGTATCGATACATG
1 TGTATCGATACATG
66648 AAGAAATGTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATGGTACAA
Found at i:68960 original size:28 final size:28
Alignment explanation
Indices: 68907--69437 Score: 569
Period size: 28 Copynumber: 18.5 Consensus size: 28
68897 CACCGACCTA
* *
68907 TGTGGGCTTTGAAAAGAGTGCTACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
68936 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
68964 TGTGGGATTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
68992 TGTGGGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* ****
69020 TATGGGCTTTGAAAAAAACGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
69049 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
** *
69077 TGTGGGCTTTGAAAGAATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
69105 TATGGGCTTTGAAAATAGTTGCCACCGACT
1 TGTGGGCTTTG-AAA-GGGTGCCACTGACT
* *
69135 CGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
69163 TGTGGGTTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* *
69193 CGTGTGGGCTTTGAAAAGAGTGCCACTAACT
1 --TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
69224 TATGGGCTTTGAAAGGGTGCCA-TGGACT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
** *
69252 TGTGGGCTTTGAAAGAATACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
69280 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* *
69310 CGTGTGGGCTTTGAAAAGAGTGCCACTAACT
1 --TGTGGGCTTTG-AAAGGGTGCCACTGACT
* * *
69341 TATGGGCTTTGAACGGGTGCTACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
69369 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
69397 TGTAGGATTTGAAAGGGTTCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
69425 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
69438 GAGATGAACG
Statistics
Matches: 420, Mismatches: 69, Indels: 27
0.81 0.13 0.05
Matches are distributed among these distances:
27 1 0.00
28 263 0.63
29 69 0.16
30 38 0.09
31 18 0.04
32 31 0.07
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:69281 original size:117 final size:112
Alignment explanation
Indices: 68907--69437 Score: 627
Period size: 117 Copynumber: 4.6 Consensus size: 112
68897 CACCGACCTA
* * * *
68907 TGTGGGCTTTGAAAAGAGTGCTACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGAT
1 TGTGGGCTTTG-AAAGAATGCCACTGACTTGTGGGCTTTGAAAGGTTGCCACTGACTTGTGGGCT
* * * *
68972 TTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCATTGACT
65 TTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGGGTGCCA-TGACT
* * * *
69020 TATGGGCTTTGAAAAAAACGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTG-AAAGAATGCCACTGACTTGTGGGCTTTGAAAGGTTGCCACTGACTTGTGGGCT
* * * *
69085 TTG-AAAGAATGCCACTAACTTATGGGCTTTGAAAATAGTTGCCACCGACT
65 TTGAAAAGAGTGCCACTAACTTATGGGCTTTG-AAA-GGGTGCCA-TGACT
* * * *
69135 CGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGTTTTGAAAAGAGTTGCCACCGACTCGTGTGG
1 TGTGGGCTTTGAAAGAATGCCACTGACTTGTGGGCTTTG-AAAG-GTTGCCACTGACT--TGTGG
69200 GCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGGGTGCCATGGACT
62 GCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGGGTGCCAT-GACT
* *
69252 TGTGGGCTTTGAAAGAATACCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGG
1 TGTGGGCTTTGAAAGAATGCCACTGACTTGTGGGCTTTG-AAAG-GTTGCCACTGACT--TGTGG
* *
69317 GCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAACGGGTGCTACTGACT
62 GCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGGGTGCCA-TGACT
** * * *
69369 TGTGGGCTTTGAAAGGGTGCCACTAACTTGTAGGATTTGAAAGGGTT-CCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGAATGCCACTGACTTGTGGGCTTTGAAA-GGTTGCCACTGACTTGTGGGCT
69433 TTGAA
65 TTGAA
69438 GAGATGAACG
Statistics
Matches: 369, Mismatches: 39, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
113 99 0.27
114 27 0.07
115 31 0.08
116 17 0.05
117 153 0.41
118 15 0.04
119 27 0.07
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (112 bp):
TGTGGGCTTTGAAAGAATGCCACTGACTTGTGGGCTTTGAAAGGTTGCCACTGACTTGTGGGCTT
TGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGGGTGCCATGACT
Found at i:70686 original size:1 final size:1
Alignment explanation
Indices: 70682--70760 Score: 77
Period size: 1 Copynumber: 79.0 Consensus size: 1
70672 TTTTCCTTGG
* * * * * ** *
70682 TTTTTTTTGTTTTTTTATTTTTTTTATTTTTTTTATTTTTTTGTTTTTTGCTTTTTTTTTATTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
70747 TTTTGTTTTTTTTT
1 TTTTTTTTTTTTTT
70761 GGTATGAAGG
Statistics
Matches: 61, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.05, C:0.01, G:0.05, T:0.89
Consensus pattern (1 bp):
T
Found at i:70730 original size:35 final size:34
Alignment explanation
Indices: 70683--70758 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 34
70673 TTTCCTTGGT
*
70683 TTTTTTTGTTTTT-TTATTTTTTTTATTTTTTTTA
1 TTTTTTTGTTTTTGCT-TTTTTTTTATTTTTTTTA
*
70717 TTTTTTTGTTTTTTGCTTTTTTTTTATTTTTTTTG
1 TTTTTTTG-TTTTTGCTTTTTTTTTATTTTTTTTA
70752 TTTTTTT
1 TTTTTTT
70759 TTGGTATGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 8 0.21
35 29 0.76
36 1 0.03
ACGTcount: A:0.05, C:0.01, G:0.05, T:0.88
Consensus pattern (34 bp):
TTTTTTTGTTTTTGCTTTTTTTTTATTTTTTTTA
Found at i:86800 original size:79 final size:77
Alignment explanation
Indices: 86673--87009 Score: 315
Period size: 78 Copynumber: 4.3 Consensus size: 77
86663 AAATTTTTCT
* * * * * * *
86673 TTTCAAAAATA-TCAATTTTTCATCTTGGTGATATTCCGACCCCGTTATTTCTGAAAGGATACTC
1 TTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCC-AACCCATTATTTCTG-AAGGATACTC
*
86737 CAACCCCGTTTTTA
64 CAACCCCATTTTTA
* * *
86751 TTTTCATAATATTAAATTTTTTAT-TGCGGGGATACTCCAACCTCATTATTT-TCGAAGGATACT
1 TTTCCAAAATATTAAATTTTTCATCT-CGGGGATACTCCAACC-CATTATTTCT-GAAGGATACT
*
86814 CCAACCCCATTTATA
63 CCAACCCCATTTTTA
* ** ** * *
86829 CTTCCAAAATA-TCGATTTTTCATCTCGATGATACTCCAACCCTGTTATTTCCGAAGAGATACTC
1 TTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCCAACCC-ATTATTTCTGAAG-GATACTC
* *
86893 CAACTCCGTTTTTA
64 CAACCCCATTTTTA
* * * * * *
86907 TTTCAAAAATATTAAAATTTTCATCTCAGGGATACTCCAACCCCATCAATTCTGAAGGGATTC-C
1 TTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCCAA-CCCATTATTTCTGAA-GGATACTC
86971 CAACCCCATTTTTA
64 CAACCCCATTTTTA
86985 TTTCCAAAATATTAAATTTTTCATC
1 TTTCCAAAATATTAAATTTTTCATC
87010 ACGGTTTTTA
Statistics
Matches: 206, Mismatches: 42, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
76 1 0.00
77 33 0.16
78 107 0.52
79 61 0.30
80 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.37
Consensus pattern (77 bp):
TTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCCAACCCATTATTTCTGAAGGATACTCCA
ACCCCATTTTTA
Found at i:86964 original size:156 final size:156
Alignment explanation
Indices: 86678--87009 Score: 404
Period size: 156 Copynumber: 2.1 Consensus size: 156
86668 TTTCTTTTCA
* * * * *
86678 AAAATATCAATTTTTCATCTTGGTGATATTCCGACCCCGTTATTTCTGAAAGGATACTCCAACCC
1 AAAATATCAATTTTTCATCTCGATGATACTCCAACCCCGTTATTTCCGAAAGGATACTCCAACCC
* * * * * * *
86743 CGTTTTTATTTTCATAATATTAAATTTTTTATTGCGGGGATACTCCAACCTCATTATTTTCGAA-
66 CGTTTTTATTTTCAAAATATTAAAATTTTCATTGCAGGGATACTCCAACCCCATAATTCTCGAAG
86807 GGATACTCCAACCCCATTTATACTTCC
131 GGATAC-CCAACCCCATTTATACTTCC
* * *
86834 AAAATATCGATTTTTCATCTCGATGATACTCCAACCCTGTTATTTCCG-AAGAGATACTCCAACT
1 AAAATATCAATTTTTCATCTCGATGATACTCCAACCCCGTTATTTCCGAAAG-GATACTCCAACC
86898 CCGTTTTTA-TTTCAAAAATATTAAAATTTTCATCT-CAGGGATACTCCAACCCCATCAATTCT-
65 CCGTTTTTATTTTC-AAAATATTAAAATTTTCAT-TGCAGGGATACTCCAACCCCAT-AATTCTC
* * *
86960 GAAGGGATTCCCAACCCCATTTTTATTTCC
127 GAAGGGATACCCAACCCCATTTATACTTCC
*
86990 AAAATATTAAATTTTTCATC
1 AAAATA-TCAATTTTTCATC
87010 ACGGTTTTTA
Statistics
Matches: 150, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
155 7 0.05
156 122 0.81
157 21 0.14
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (156 bp):
AAAATATCAATTTTTCATCTCGATGATACTCCAACCCCGTTATTTCCGAAAGGATACTCCAACCC
CGTTTTTATTTTCAAAATATTAAAATTTTCATTGCAGGGATACTCCAACCCCATAATTCTCGAAG
GGATACCCAACCCCATTTATACTTCC
Found at i:87061 original size:112 final size:113
Alignment explanation
Indices: 86900--87121 Score: 317
Period size: 112 Copynumber: 2.0 Consensus size: 113
86890 CTCCAACTCC
*
86900 GTTTTTATTTCAAAAATATTAAAATTTTCATCTCAGGGATACTCCAACCCCATCAATTCTGAAGG
1 GTTTTTATTTCAAAAATATTAAAATTTTCATCGCAGGGATACTCCAACCCCATCAATTCTG-AGG
86965 GAT-TCCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCACG
65 GATATCCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCACG
* * * *
87013 GTTTTTATTTTC-AAAATATT-AAATTTTTATCGC-GAGGATACTCCAACCCCATTATTTTTGAG
1 GTTTTTA-TTTCAAAAATATTAAAATTTTCATCGCAG-GGATACTCCAACCCCATCAATTCTGAG
* * *
87075 GGATATTCCAACCCCGTTTTTATTTTCAAAATATTAAATTTTTCATC
64 GGATATCCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATC
87122 TCGGGGGATA
Statistics
Matches: 98, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
111 7 0.07
112 72 0.73
113 15 0.15
114 4 0.04
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.41
Consensus pattern (113 bp):
GTTTTTATTTCAAAAATATTAAAATTTTCATCGCAGGGATACTCCAACCCCATCAATTCTGAGGG
ATATCCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCACG
Found at i:87158 original size:191 final size:193
Alignment explanation
Indices: 86843--87199 Score: 454
Period size: 191 Copynumber: 1.9 Consensus size: 193
86833 CAAAATATCG
* * ** *
86843 ATTTTTCATCTCGATGATACTCCAACCCTGTTATTTCCGAAGAGATACTCCAACTCCGTTTTTAT
1 ATTTTTCATCGCGAGGATACTCCAACCCCATTATTTCCGAAGAGATACTCCAACCCCGTTTTTAT
** *
86908 TTCAAAAATATTAAAATTTTCATCTCAGGGATACTCCAACCCCATCAATTCTGAAGGGATTC-CC
66 TTCAAAAATATTAAAATTTTCATCTCAGGGATACTCCAACCCCATCAATTCCAAAGGGATACTCC
86972 AA-CCCCATTTTTATTTCCAAAATATTAAATTTTTCATCACGGTTTTTATTTTCAAAATATTAA
131 AACCCCCATTTTTATTTCCAAAATATT-AATTTTTCATCACGGTTTTTATTTTCAAAATATTAA
** * *
87035 ATTTTT-ATCGCGAGGATACTCCAACCCCATTATTTTTG-AGGGATATTCCAACCCCGTTTTTAT
1 ATTTTTCATCGCGAGGATACTCCAACCCCATTATTTCCGAAGAGATACTCCAACCCCGTTTTTA-
* * ** * *
87098 TTTC-AAAATATTAAATTTTTCATCTCGGGGGATACTCCAACCCTGTTATTTCCAAAGGGATACT
65 TTTCAAAAATATTAAAATTTTCATCTC-AGGGATACTCCAACCCCATCAATTCCAAAGGGATACT
** **
87162 TTAACCCCCATTTTTATTTTTAAAATATTAATTTTTCA
129 CCAACCCCCATTTTTATTTCCAAAATATTAATTTTTCA
87200 CCATCAGGGA
Statistics
Matches: 139, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
190 42 0.30
191 58 0.42
192 17 0.12
193 22 0.16
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.39
Consensus pattern (193 bp):
ATTTTTCATCGCGAGGATACTCCAACCCCATTATTTCCGAAGAGATACTCCAACCCCGTTTTTAT
TTCAAAAATATTAAAATTTTCATCTCAGGGATACTCCAACCCCATCAATTCCAAAGGGATACTCC
AACCCCCATTTTTATTTCCAAAATATTAATTTTTCATCACGGTTTTTATTTTCAAAATATTAA
Found at i:87197 original size:80 final size:78
Alignment explanation
Indices: 87014--87248 Score: 251
Period size: 80 Copynumber: 3.0 Consensus size: 78
87004 TTCATCACGG
* * ***
87014 TTTTTATTTTCAAAATATTAAATTTTT-ATCGCGAGGATACTCCAACCCCATTATTTTTGAGGGA
1 TTTTTATTTTCAAAATATTAAATTTTTCATCTCGGGGATACTCCAACCCCATTATTTCAAAGGGA
*
87078 TATTCCAACCCCG
66 TATTCCAACCCCA
**
87091 TTTTTATTTTCAAAATATTAAATTTTTCATCTCGGGGGATACTCCAACCCTGTTATTTCCAAAGG
1 TTTTTATTTTCAAAATATTAAATTTTTCATCTC-GGGGATACTCCAACCCCATTATTT-CAAAGG
*
87156 GATACTT-TAACCCCCA
64 GATA-TTCCAA-CCCCA
* * * * * *
87172 TTTTTATTTTTAAAATATT-AATTTTTCACCATCAGGGATACTCCAACCCCATCACTTCCAATGG
1 TTTTTATTTTCAAAATATTAAATTTTTCATC-TCGGGGATACTCCAACCCCATTA-TTTCAAAGG
*
87236 GATACTCCAACCC
64 GATATTCCAACCC
87249 TGCCTCTTTT
Statistics
Matches: 131, Mismatches: 19, Indels: 14
0.80 0.12 0.09
Matches are distributed among these distances:
77 27 0.21
78 4 0.03
79 25 0.19
80 47 0.36
81 28 0.21
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.37
Consensus pattern (78 bp):
TTTTTATTTTCAAAATATTAAATTTTTCATCTCGGGGATACTCCAACCCCATTATTTCAAAGGGA
TATTCCAACCCCA
Found at i:88409 original size:59 final size:59
Alignment explanation
Indices: 88346--88546 Score: 185
Period size: 59 Copynumber: 3.4 Consensus size: 59
88336 ATTTTCGTGA
* * * *
88346 ATTTTAATGTCATTTAGGTTATTTTCTATAATCTAAAGACCATTTAGCAATTTCCATTC
1 ATTTTAAGGTCATTTAGGTTATTTTCTATAATTTAAAGACCATTTAGTAATTTTCATTC
** *** * * *
88405 ATTTTAAAATTGCTTATGTTATTTT-TCATAATTTAAAGACTATTTCA-TAATTTTTATGT-
1 ATTTTAAGGTCATTTAGGTTATTTTCT-ATAATTTAAAGACCATTT-AGTAATTTTCAT-TC
* * * *
88464 ATTTTAAGGTCATTTAGGTTATTGTCCT-TAATTTAAGGATCATTTAGTAATTTTCATGC
1 ATTTTAAGGTCATTTAGGTTATT-TTCTATAATTTAAAGACCATTTAGTAATTTTCATTC
*
88523 ATTTTAAGGTCATTTAGATTATTT
1 ATTTTAAGGTCATTTAGGTTATTT
88547 CCATAGTCTA
Statistics
Matches: 111, Mismatches: 24, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
58 3 0.03
59 104 0.94
60 3 0.03
61 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (59 bp):
ATTTTAAGGTCATTTAGGTTATTTTCTATAATTTAAAGACCATTTAGTAATTTTCATTC
Found at i:88529 original size:30 final size:29
Alignment explanation
Indices: 88452--88539 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
88442 GACTATTTCA
*
88452 TAATTTTTATGTATTTTAAGGTCATTTAGG
1 TAATTTTCATGTATTTTAAGGTCATTTA-G
* * * *
88482 TTATTGTCCT-TAATTTAAGGATCATTTAG
1 TAATTTTCATGTATTTTAAGG-TCATTTAG
*
88511 TAATTTTCATGCATTTTAAGGTCATTTAG
1 TAATTTTCATGTATTTTAAGGTCATTTAG
88540 ATTATTTCCA
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
29 25 0.54
30 21 0.46
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (29 bp):
TAATTTTCATGTATTTTAAGGTCATTTAG
Found at i:88585 original size:59 final size:59
Alignment explanation
Indices: 88464--88585 Score: 140
Period size: 59 Copynumber: 2.1 Consensus size: 59
88454 ATTTTTATGT
* * * * ** *
88464 ATTTTAAGGTCATTTAGGTTATTGTCCTTAATTTAAGGATCATTTAGTAATTTTCATGC
1 ATTTTAAGGTCATTTAGATTATTGTCCATAATCTAAGGAACATTTAACAATTTTCAAGC
*
88523 ATTTTAAGGTCATTTAGATTATT-TCCATAGTCT-AGGAACTATTTAACAATTTTCAAGTC
1 ATTTTAAGGTCATTTAGATTATTGTCCATAATCTAAGGAAC-ATTTAACAATTTTCAAG-C
88582 ATTT
1 ATTT
88586 AGGCTACTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
57 5 0.09
58 21 0.40
59 27 0.51
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (59 bp):
ATTTTAAGGTCATTTAGATTATTGTCCATAATCTAAGGAACATTTAACAATTTTCAAGC
Found at i:88890 original size:41 final size:41
Alignment explanation
Indices: 88840--88934 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 41
88830 CAACCAAGAT
*
88840 AATTCATATAGCGGCATTTTA-ATGTAAAACGCCTCTAAATAA
1 AATT-ATATAGCGGCATTTTACAT-TAAAACGCCACTAAATAA
* *
88882 AATTATATAGTGGCATTTTACATTAAAACGTCACTAAATAA
1 AATTATATAGCGGCATTTTACATTAAAACGCCACTAAATAA
*
88923 AATCATATAGCG
1 AATTATATAGCG
88935 ACGTTTCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
41 41 0.87
42 6 0.13
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.32
Consensus pattern (41 bp):
AATTATATAGCGGCATTTTACATTAAAACGCCACTAAATAA
Found at i:89131 original size:2 final size:2
Alignment explanation
Indices: 89072--89120 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
89062 TCTCTTTTCA
89072 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
89114 TC TC TC T
1 TC TC TC T
89121 TATTTTCTCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:90844 original size:18 final size:18
Alignment explanation
Indices: 90823--90875 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
90813 AGCAAGAGAA
90823 GAAGAAAGAAGAAGATAT
1 GAAGAAAGAAGAAGATAT
90841 GAAG-AAGCAAG-AGA-A-
1 GAAGAAAG-AAGAAGATAT
* *
90856 AAAGAAAAAAGAAGATAT
1 GAAGAAAGAAGAAGATAT
90874 GA
1 GA
90876 GCAACTTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 10
0.68 0.08 0.25
Matches are distributed among these distances:
15 6 0.22
16 6 0.22
17 7 0.26
18 8 0.30
ACGTcount: A:0.64, C:0.02, G:0.26, T:0.08
Consensus pattern (18 bp):
GAAGAAAGAAGAAGATAT
Found at i:90848 original size:33 final size:33
Alignment explanation
Indices: 90811--90875 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
90801 TAGGTTAGAG
* *
90811 GAAGCAAGAGAAGAAGAAAGAAGAAGATATGAA
1 GAAGCAAGAGAAAAAGAAAAAAGAAGATATGAA
90844 GAAGCAAGAGAAAAAGAAAAAAGAAGATATGA
1 GAAGCAAGAGAAAAAGAAAAAAGAAGATATGA
90876 GCAACTTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.63, C:0.03, G:0.28, T:0.06
Consensus pattern (33 bp):
GAAGCAAGAGAAAAAGAAAAAAGAAGATATGAA
Found at i:90860 original size:15 final size:15
Alignment explanation
Indices: 90811--90861 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
90801 TAGGTTAGAG
90811 GAAGCAAGAGAAGAA
1 GAAGCAAGAGAAGAA
90826 GAAAG-AAGAAGATATGAA
1 G-AAGCAAG-AGA-A-GAA
*
90844 GAAGCAAGAGAAAAA
1 GAAGCAAGAGAAGAA
90859 GAA
1 GAA
90862 AAAAGAAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
15 9 0.30
16 7 0.23
17 7 0.23
18 7 0.23
ACGTcount: A:0.63, C:0.04, G:0.29, T:0.04
Consensus pattern (15 bp):
GAAGCAAGAGAAGAA
Found at i:91797 original size:51 final size:51
Alignment explanation
Indices: 91741--92137 Score: 290
Period size: 51 Copynumber: 7.6 Consensus size: 51
91731 GTTAAGTTTC
* *
91741 CCAATTGTTCATAATCGGGGATACTCCAACCCCGATTATATTTTCAAAACA
1 CCAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACA
* * * * * *
91792 CCAATTTTCCTTTAATCGGGGATACTCCGACTCCGATTTTATTTCCAAAAATA
1 CCAATTTTTC-ATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACA
* * ** * ***** * *
91845 CCAATTTTTCACAATCGAGGATACTCCAACCTTGTTATTTCATCGGGGATACT
1 CCAATTTTTCATAATCGGGGATACTCCAACCCCG--ATTTTATTTTCAAAACA
** * * **** ** * *
91898 CCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCTCAAAATA
1 CCAA---TTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACA
*** * * *
91952 TTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTTTAAAACA
1 CCAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACA
* *
92003 CTAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACA
1 CCAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACA
* * *
92054 CCAATTTTTCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACA
1 CCAATTTTTC-ATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACA
* ** *
92107 CCAATTTTTCACAATCGAAGATACTCTAACC
1 CCAATTTTTCATAATCGGGGATACTCCAACC
92138 TCGTTATTTC
Statistics
Matches: 256, Mismatches: 81, Indels: 17
0.72 0.23 0.05
Matches are distributed among these distances:
51 96 0.38
52 93 0.36
53 36 0.14
54 13 0.05
56 18 0.07
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
CCAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACA
Found at i:91909 original size:28 final size:28
Alignment explanation
Indices: 91858--91934 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
91848 ATTTTTCACA
* ** **
91858 ATCGAGGATACTCCAACCTTGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
91886 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
***
91914 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
91935 GCTTTATTCT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACCTC
Found at i:92123 original size:52 final size:51
Alignment explanation
Indices: 91741--92137 Score: 269
Period size: 52 Copynumber: 7.6 Consensus size: 51
91731 GTTAAGTTTC
* * * *
91741 CCAATTGTTCATAATCGGGGATACTCCAACCCCGATTATATTTTCAAAACA
1 CCAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACA
* ** * * *
91792 CCAATTTTCCTTTAATCGGGGATACTCCGACTCCGATTTTATTTCCAAAAATA
1 CCAATTTTTC-ACAATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACA
* ** * ***** * *
91845 CCAATTTTTCACAATCGAGGATACTCCAACCTTGTTATTTCATCGGGGATACT
1 CCAATTTTTCACAATCGGGGATACTCCAACCCCG--ATTTTATTTCCAAAACA
*** * ** *
91898 CCAACCCCGTT-AC-CTCCGAGGGGATACTCCAACCCCGGCTTTA-TTCTCAAAATA
1 CCAA--TTTTTCACAAT-C--GGGGATACTCCAACCCCGATTTTATTTC-CAAAACA
*** * * * **
91952 TTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTTTAAAACA
1 CCAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACA
* *
92003 CTAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACA
1 CCAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACA
** *
92054 CCAATTTTTCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACA
1 CCAATTTTTC-ACAATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACA
** *
92107 CCAATTTTTCACAATCGAAGATACTCTAACC
1 CCAATTTTTCACAATCGGGGATACTCCAACC
92138 TCGTTATTTC
Statistics
Matches: 258, Mismatches: 73, Indels: 29
0.72 0.20 0.08
Matches are distributed among these distances:
51 90 0.35
52 96 0.37
53 39 0.15
54 16 0.06
55 2 0.01
56 15 0.06
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
CCAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACA
Found at i:92218 original size:262 final size:262
Alignment explanation
Indices: 91743--92247 Score: 902
Period size: 262 Copynumber: 1.9 Consensus size: 262
91733 TAAGTTTCCC
*
91743 AATTGTTCATAATCGGGGATACTCCAACCCCGATTATATTTTCAAAACACCAATTTTCCTTTAAT
1 AATTGTTCACAATCGGGGATACTCCAACCCCGATTATATTTTCAAAACACCAATTTTCCTTTAAT
* * *
91808 CGGGGATACTCCGACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCA
66 CGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAAGATACTCCA
*
91873 ACCTTGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCT
131 ACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCT
*
91938 TTATTCTCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTTTAAAACA
196 TTATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTTTAAAACA
92003 CT
261 CT
* * *
92005 AATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCTTTAAT
1 AATTGTTCACAATCGGGGATACTCCAACCCCGATTATATTTTCAAAACACCAATTTTCCTTTAAT
*
92070 CGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAAGATACTCTA
66 CGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAAGATACTCCA
*
92135 ACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCTGAGGGGATACTCCAACCCCGGCT
131 ACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCT
*
92200 TTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
196 TTATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
92248 TTATTTCTGA
Statistics
Matches: 231, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
262 231 1.00
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (262 bp):
AATTGTTCACAATCGGGGATACTCCAACCCCGATTATATTTTCAAAACACCAATTTTCCTTTAAT
CGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAAGATACTCCA
ACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCT
TTATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTTTAAAACA
CT
Found at i:92282 original size:79 final size:78
Alignment explanation
Indices: 92150--92384 Score: 251
Period size: 79 Copynumber: 3.0 Consensus size: 78
92140 GTTATTTCAT
** *
92150 CGGGGATACTCCAACCCCGTTACCTCTGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCC-GTTTTATTCCCAAAATAT
*
92215 TGATTTCTCATAAT
65 TGATTTCTCATAAC
* * * *
92229 TGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAATCCCGATTTTATTTCC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCG-TTTTATTCCCAAAAT-A
* * *
92293 TCGATTTTTCACAAC
64 TTGATTTCTCATAAC
* * *
92308 CGGGGATACTCTAACCCCGTTATTT-TCAAGGGGATACTCTAACCCCGTTATTA-TCTCCAAAAT
1 CGGGGATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAACCCCGTT-TTATTC-CCAAAAT
*
92371 ATTAAATTTCTCAT
63 ATT-GATTTCTCAT
92385 CGGGACATAT
Statistics
Matches: 127, Mismatches: 22, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
78 8 0.06
79 109 0.86
80 10 0.08
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGTTTTATTCCCAAAATATT
GATTTCTCATAAC
Found at i:93418 original size:42 final size:42
Alignment explanation
Indices: 93372--93468 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 42
93362 AATTTTATAG
*
93372 TTTAGCGGCGTTGATGCTAA-AAAACGCCATTAAAC-ATTAAAA
1 TTTAGCGGCGTTGATAC-AAGAAAACGCCATTAAACTA-TAAAA
* *
93414 TTTAGCGGCGTTTATACAATGAAAATGCCATTAAACTATAAAA
1 TTTAGCGGCGTTGATACAA-GAAAACGCCATTAAACTATAAAA
*
93457 TTTAGTGGCGTT
1 TTTAGCGGCGTT
93469 TCAGAGTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
41 2 0.04
42 15 0.31
43 30 0.62
44 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (42 bp):
TTTAGCGGCGTTGATACAAGAAAACGCCATTAAACTATAAAA
Found at i:96437 original size:22 final size:23
Alignment explanation
Indices: 96397--96442 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
96387 CACATCATTT
96397 TATGTTAATTAATTTAAATAAAA
1 TATGTTAATTAATTTAAATAAAA
96420 TATG-TAATT-ATTTAAAATAAAA
1 TATGTTAATTAATTT-AAATAAAA
96442 T
1 T
96443 TTTTTAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.18
22 14 0.64
23 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (23 bp):
TATGTTAATTAATTTAAATAAAA
Found at i:97357 original size:22 final size:23
Alignment explanation
Indices: 97332--97375 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
97322 ACTTAATTGT
*
97332 TATATAATTT-TATCGATACTCG
1 TATAGAATTTATATCGATACTCG
* *
97354 TATAGCATTTATGTCGATACTC
1 TATAGAATTTATATCGATACTC
97376 TTTTTGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (23 bp):
TATAGAATTTATATCGATACTCG
Found at i:98792 original size:13 final size:13
Alignment explanation
Indices: 98774--98799 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98764 TATTTTTTTG
98774 TGTATCGATACAT
1 TGTATCGATACAT
98787 TGTATCGATACAT
1 TGTATCGATACAT
98800 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:98810 original size:32 final size:33
Alignment explanation
Indices: 98752--98817 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
98742 TACAAGCCAA
98752 TGTATCGATACATATTTTTTTGTGTATCGATACAT
1 TGTATCGATACATA--TTTTTGTGTATCGATACAT
98787 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
98818 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 17 0.55
35 14 0.45
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:101368 original size:13 final size:13
Alignment explanation
Indices: 101346--101383 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
101336 ATAATCCCCC
*
101346 TGTATTGATACAG
1 TGTATCGATACAG
*
101359 TGTATCGATACAT
1 TGTATCGATACAG
101372 TGTATCGATACA
1 TGTATCGATACA
101384 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:103484 original size:15 final size:15
Alignment explanation
Indices: 103464--103494 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
103454 ATTTCGTTTG
*
103464 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
103479 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
103494 G
1 G
103495 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:107585 original size:19 final size:21
Alignment explanation
Indices: 107541--107593 Score: 83
Period size: 22 Copynumber: 2.6 Consensus size: 21
107531 TACAAGCCAA
107541 TGTATCGATACATATTTTTTTG
1 TGTATCGATACATA-TTTTTTG
107563 TGTATCGATACATA-TTTTT-
1 TGTATCGATACATATTTTTTG
107582 TGTATCGATACA
1 TGTATCGATACA
107594 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.39
20 5 0.16
22 14 0.45
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.49
Consensus pattern (21 bp):
TGTATCGATACATATTTTTTG
Found at i:108158 original size:27 final size:29
Alignment explanation
Indices: 108095--108160 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 29
108085 TCTTCTTATG
*
108095 ATTTTTAATTGAAATTTTTTCATGATTAA
1 ATTTTTAATTGAAATTTATTCATGATTAA
*
108124 ATTATTAATTG-AATTTATT-AT-ATGTAA
1 ATTTTTAATTGAAATTTATTCATGAT-TAA
108151 ATTTTTAATT
1 ATTTTTAATT
108161 CATCTTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 2 0.06
27 14 0.42
28 7 0.21
29 10 0.30
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (29 bp):
ATTTTTAATTGAAATTTATTCATGATTAA
Found at i:108241 original size:14 final size:14
Alignment explanation
Indices: 108199--108243 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
108189 AATTTTTATC
*
108199 TTTTACAATTTAAT
1 TTTTTCAATTTAAT
** *
108213 CCTTTCTATTTAAT
1 TTTTTCAATTTAAT
108227 TTTTTCAATTTAAT
1 TTTTTCAATTTAAT
108241 TTT
1 TTT
108244 AGCTTGCCAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTTCAATTTAAT
Found at i:111238 original size:12 final size:11
Alignment explanation
Indices: 111199--111237 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
111189 CTTGTTTCTT
*
111199 CTTTTTCCTAG
1 CTTTTTCCTTG
*
111210 CTTTTTCTTTG
1 CTTTTTCCTTG
*
111221 ATTTTTCCTTG
1 CTTTTTCCTTG
111232 CTTTTT
1 CTTTTT
111238 TGCTTAATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.05, C:0.21, G:0.08, T:0.67
Consensus pattern (11 bp):
CTTTTTCCTTG
Found at i:111834 original size:16 final size:16
Alignment explanation
Indices: 111809--111851 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
111799 TTATTTTCAT
*
111809 ATTTAGATTTTCTT-A
1 ATTTAAATTTTCTTGA
*
111824 AGTTTAAATTTTTTTGA
1 A-TTTAAATTTTCTTGA
111841 ATTTAAATTTT
1 ATTTAAATTTT
111852 TTCATATTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 1 0.04
16 21 0.88
17 2 0.08
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.60
Consensus pattern (16 bp):
ATTTAAATTTTCTTGA
Found at i:113841 original size:16 final size:16
Alignment explanation
Indices: 113822--113875 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
113812 CCCGAATTCG
113822 AAATGAC-CTGAACCCA
1 AAATGACTC-GAACCCA
* * *
113838 AAATGATTCGAATCCG
1 AAATGACTCGAACCCA
113854 AAATGACTCGAACCCA
1 AAATGACTCGAACCCA
113870 AAATGA
1 AAATGA
113876 TCTTAATCCA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
16 30 0.97
17 1 0.03
ACGTcount: A:0.44, C:0.24, G:0.15, T:0.17
Consensus pattern (16 bp):
AAATGACTCGAACCCA
Found at i:113884 original size:32 final size:32
Alignment explanation
Indices: 113814--113876 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
113804 CCGATTGACC
*
113814 CGAATTCGAAATGACCTGAACCCAAAATGATT
1 CGAATCCGAAATGACCTGAACCCAAAATGATT
113846 CGAATCCGAAATGA-CTCGAACCCAAAATGAT
1 CGAATCCGAAATGACCT-GAACCCAAAATGAT
113877 CTTAATCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 2 0.07
32 27 0.93
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.19
Consensus pattern (32 bp):
CGAATCCGAAATGACCTGAACCCAAAATGATT
Found at i:114375 original size:21 final size:21
Alignment explanation
Indices: 114349--114423 Score: 105
Period size: 21 Copynumber: 3.5 Consensus size: 21
114339 GGAGACAAGG
114349 TATCAATACCTTAAAATAAGA
1 TATCAATACCTTAAAATAAGA
* * *
114370 TATCAATACCCTTAGAGACAAGG
1 TATCAATA-CCTTA-AAATAAGA
114393 TATCAATACCTTAAAATAAGA
1 TATCAATACCTTAAAATAAGA
114414 TATCAATACC
1 TATCAATACC
114424 CTTAGTAGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
21 23 0.50
22 10 0.22
23 13 0.28
ACGTcount: A:0.47, C:0.19, G:0.08, T:0.27
Consensus pattern (21 bp):
TATCAATACCTTAAAATAAGA
Found at i:114403 original size:44 final size:44
Alignment explanation
Indices: 114340--114428 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
114330 TTGACCATTG
114340 GAGACAAGGTATCAATACCTTAAAATAAGATATCAATACCCTTA
1 GAGACAAGGTATCAATACCTTAAAATAAGATATCAATACCCTTA
114384 GAGACAAGGTATCAATACCTTAAAATAAGATATCAATACCCTTA
1 GAGACAAGGTATCAATACCTTAAAATAAGATATCAATACCCTTA
114428 G
1 G
114429 TAGATTTTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (44 bp):
GAGACAAGGTATCAATACCTTAAAATAAGATATCAATACCCTTA
Found at i:114558 original size:13 final size:11
Alignment explanation
Indices: 114526--114564 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
114516 CAATATTATC
114526 ATTTAATAAAT
1 ATTTAATAAAT
114537 ATTTAATAAAT
1 ATTTAATAAAT
114548 ATTACTAATAAA-
1 ATT--TAATAAAT
114560 ATTTA
1 ATTTA
114565 TATTATCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 2 0.08
11 14 0.54
12 3 0.12
13 7 0.27
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTTAATAAAT
Found at i:114857 original size:17 final size:17
Alignment explanation
Indices: 114810--114857 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
114800 ATGCCCCTTC
*
114810 AAATTCAAAT-AATTTT
1 AAATTCAAATCATTTTT
* *
114826 AAATTCAACTTATTTTT
1 AAATTCAAATCATTTTT
*
114843 AAATTTAAATCATTT
1 AAATTCAAATCATTT
114858 CACAGTTAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (17 bp):
AAATTCAAATCATTTTT
Found at i:118966 original size:62 final size:62
Alignment explanation
Indices: 118869--118992 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
118859 ATTAAGAACA
*
118869 ATTGATAACACGATCAAAGAAGCCAATGCTGATATATTGATAATAAGATGCTGACAGGTAAT
1 ATTGATAACACCATCAAAGAAGCCAATGCTGATATATTGATAATAAGATGCTGACAGGTAAT
118931 ATTGATAACACCATCAAAGAAGCCAATGCTGATATATTGATAATAAGATGCTGACAGGTAAT
1 ATTGATAACACCATCAAAGAAGCCAATGCTGATATATTGATAATAAGATGCTGACAGGTAAT
118993 CTTTTACTAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.26
Consensus pattern (62 bp):
ATTGATAACACCATCAAAGAAGCCAATGCTGATATATTGATAATAAGATGCTGACAGGTAAT
Found at i:120200 original size:383 final size:383
Alignment explanation
Indices: 119493--120265 Score: 1537
Period size: 383 Copynumber: 2.0 Consensus size: 383
119483 TCCGATCGCT
119493 AGAGATTGATGAATCAATGCAAAGATTGAAGATATTATGGTGTTGTTTGGCTCCTAAAATATTGA
1 AGAGATTGATGAATCAATGCAAAGATTGAAGATATTATGGTGTTGTTTGGCTCCTAAAATATTGA
119558 ATTCTTCTTTAATTTAAAAATTGAGTGAAAAGATCAAAAGCATGAGTAAAGAAAGCCACATGTCA
66 ATTCTTCTTTAATTTAAAAATTGAGTGAAAAGATCAAAAGCATGAGTAAAGAAAGCCACATGTCA
119623 GTATTTAAAAAAGAAAAAGCCATATGCCAAATTTGATGATTAATTCAATTTTTGGTCAAATAAGG
131 GTATTTAAAAAAGAAAAAGCCATATGCCAAATTTGATGATTAATTCAATTTTTGGTCAAATAAGG
119688 GTACCAACTGACAGGTTTGTTGGCAAGAAATATTCCACATCAGCAGCAAATATTATATAAATTCC
196 GTACCAACTGACAGGTTTGTTGGCAAGAAATATTCCACATCAGCAGCAAATATTATATAAATTCC
*
119753 ATGTTTTCGGTTTGTCAGCAATAAATTAAACGTTAGTGCCTTGTCATTGCTACGTCATCATGATT
261 ATGTTTTCAGTTTGTCAGCAATAAATTAAACGTTAGTGCCTTGTCATTGCTACGTCATCATGATT
119818 AACAGTCTTCTTTGACAGTGTTACCAATTGTCCTCTTTGTTTTCAATTCTAAAAGTAA
326 AACAGTCTTCTTTGACAGTGTTACCAATTGTCCTCTTTGTTTTCAATTCTAAAAGTAA
119876 AGAGATTGATGAATCAATGCAAAGATTGAAGATATTATGGTGTTGTTTGGCTCCTAAAATATTGA
1 AGAGATTGATGAATCAATGCAAAGATTGAAGATATTATGGTGTTGTTTGGCTCCTAAAATATTGA
119941 ATTCTTCTTTAATTTAAAAATTGAGTGAAAAGATCAAAAGCATGAGTAAAGAAAGCCACATGTCA
66 ATTCTTCTTTAATTTAAAAATTGAGTGAAAAGATCAAAAGCATGAGTAAAGAAAGCCACATGTCA
120006 GTATTTAAAAAAGAAAAAGCCATATGCCAAATTTGATGATTAATTCAATTTTTGGTCAAATAAGG
131 GTATTTAAAAAAGAAAAAGCCATATGCCAAATTTGATGATTAATTCAATTTTTGGTCAAATAAGG
120071 GTACCAACTGACAGGTTTGTTGGCAAGAAATATTCCACATCAGCAGCAAATATTATATAAATTCC
196 GTACCAACTGACAGGTTTGTTGGCAAGAAATATTCCACATCAGCAGCAAATATTATATAAATTCC
120136 ATGTTTTCAGTTTGTCAGCAATAAATTAAACGTTAGTGCCTTGTCATTGCTACGTCATCATGATT
261 ATGTTTTCAGTTTGTCAGCAATAAATTAAACGTTAGTGCCTTGTCATTGCTACGTCATCATGATT
120201 AACAGTCTTCTTTGACAGTGTTACCAATTGTCCTCTTTGTTTTCAATTCTAAAAGTAA
326 AACAGTCTTCTTTGACAGTGTTACCAATTGTCCTCTTTGTTTTCAATTCTAAAAGTAA
120259 AGAGATT
1 AGAGATT
120266 ATCCAGTTAC
Statistics
Matches: 389, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
383 389 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.34
Consensus pattern (383 bp):
AGAGATTGATGAATCAATGCAAAGATTGAAGATATTATGGTGTTGTTTGGCTCCTAAAATATTGA
ATTCTTCTTTAATTTAAAAATTGAGTGAAAAGATCAAAAGCATGAGTAAAGAAAGCCACATGTCA
GTATTTAAAAAAGAAAAAGCCATATGCCAAATTTGATGATTAATTCAATTTTTGGTCAAATAAGG
GTACCAACTGACAGGTTTGTTGGCAAGAAATATTCCACATCAGCAGCAAATATTATATAAATTCC
ATGTTTTCAGTTTGTCAGCAATAAATTAAACGTTAGTGCCTTGTCATTGCTACGTCATCATGATT
AACAGTCTTCTTTGACAGTGTTACCAATTGTCCTCTTTGTTTTCAATTCTAAAAGTAA
Found at i:124722 original size:17 final size:17
Alignment explanation
Indices: 124700--124741 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
124690 AAATAACATA
124700 TATTAAATATTTAATTT
1 TATTAAATATTTAATTT
*
124717 TGTTAAATATTTAATTT
1 TATTAAATATTTAATTT
124734 TATTAAAT
1 TATTAAAT
124742 TAATTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TATTAAATATTTAATTT
Found at i:124793 original size:12 final size:12
Alignment explanation
Indices: 124750--124812 Score: 56
Period size: 12 Copynumber: 5.1 Consensus size: 12
124740 ATTAATTTTT
124750 TAAAAATAAAATAA
1 TAAAAAT-AAAT-A
* *
124764 TAAAATTAAACA
1 TAAAAATAAATA
124776 -AAAAATAAATA
1 TAAAAATAAATA
* *
124787 TATAAATAGATA
1 TAAAAATAAATA
124799 TAAAAATCAAATA
1 TAAAAAT-AAATA
124812 T
1 T
124813 CTTAATTTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
11 9 0.23
12 16 0.41
13 8 0.21
14 6 0.15
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (12 bp):
TAAAAATAAATA
Found at i:129928 original size:13 final size:13
Alignment explanation
Indices: 129910--129935 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
129900 AGAAAGATCC
129910 ATGTATCGATACA
1 ATGTATCGATACA
129923 ATGTATCGATACA
1 ATGTATCGATACA
129936 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:129999 original size:19 final size:19
Alignment explanation
Indices: 129975--130029 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
129965 CAGTAGCTAA
*
129975 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
129994 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
130013 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
130030 TTGTTGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:130109 original size:21 final size:21
Alignment explanation
Indices: 130085--130141 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
130075 CATTTGTAGG
130085 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
130106 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
130127 ATGTATCGATACATT
1 ATGTATCGATACATT
130142 TGGATTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:130185 original size:19 final size:18
Alignment explanation
Indices: 130145--130191 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
130135 ATACATTTGG
*
130145 ATTTTTTTTTATTTATTT
1 ATTTTTTTTTATTTATTA
130163 ATTTTTTATTT-TTTAATTA
1 ATTTTTT-TTTATTT-ATTA
130182 ATTTTTTTTT
1 ATTTTTTTTT
130192 CAAACACTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (18 bp):
ATTTTTTTTTATTTATTA
Found at i:130185 original size:23 final size:22
Alignment explanation
Indices: 130148--130191 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
130138 CATTTGGATT
* *
130148 TTTTTTTATTTATTTATTTTTTA
1 TTTTTTAATTAATTT-TTTTTTA
130171 TTTTTTAATTAATTTTTTTTT
1 TTTTTTAATTAATTTTTTTTT
130192 CAAACACTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTTAATTAATTTTTTTTTA
Found at i:131951 original size:55 final size:55
Alignment explanation
Indices: 131856--132494 Score: 877
Period size: 55 Copynumber: 11.4 Consensus size: 55
131846 ATAAAGTGTA
* * * * *
131856 TCCTTCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
131911 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
131966 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* ** **
132021 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
* * *
132082 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGAGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
132137 TCCTGCTCTTTGAGGACTG-GAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
** * **
132191 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
* * *
132252 TCCTGCTCTTTAAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
132307 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
132362 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
132417 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
132472 TCCTGCTCTTTGGGGACTGAAAA
1 TCCTGCTCTTTGAGGACTGAAAA
132495 GCGGAAGGAG
Statistics
Matches: 520, Mismatches: 50, Indels: 28
0.87 0.08 0.05
Matches are distributed among these distances:
54 50 0.10
55 363 0.70
56 13 0.03
60 8 0.02
61 86 0.17
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:132071 original size:29 final size:29
Alignment explanation
Indices: 131990--132071 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 29
131980 GACTGGAAAA
131990 TGCCACCAACTTGTGTGGGCTTTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGG
** *
132019 TGTCCTGC-TCTT-TG-GGGAC--TGAAAGG
1 TG-CCACCAACTTGTGTGGG-CTTTGAAAGG
132045 TGCCACCAACTTGTGTGGGCTTTGAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAA
132072 AGAAAAAGCA
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
25 3 0.08
26 12 0.30
27 6 0.15
28 6 0.15
29 10 0.25
30 3 0.08
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (29 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGG
Found at i:132238 original size:170 final size:171
Alignment explanation
Indices: 131856--132494 Score: 993
Period size: 170 Copynumber: 3.8 Consensus size: 171
131846 ATAAAGTGTA
* * * * * * *
131856 TCCTTCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTG-AAAG-----GCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
131915 GCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAG
66 GCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAG
131980 GACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
131 GACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
132021 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
*
132086 GCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGAGCTTTAAAAGGTGTCCTGCTCTTTGAG
66 GCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAG
132151 GACTGG-AAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
131 GACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
132191 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAAGAAAAAGCATCCT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
*
132256 GCTCTTTAAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAG
66 GCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAG
*
132321 GATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
131 GACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* **
132362 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCC
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCC
* * * *
132420 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGG
65 TGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGA
132485 GGACT-GAAAA
130 GGACTGGAAAA
132495 GCGGAAGGAG
Statistics
Matches: 442, Mismatches: 24, Indels: 17
0.92 0.05 0.04
Matches are distributed among these distances:
164 5 0.01
165 109 0.25
166 4 0.01
170 169 0.38
171 151 0.34
172 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (171 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
GCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAG
GACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:132384 original size:27 final size:27
Alignment explanation
Indices: 132354--132439 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
132344 TGTGGGCTTT
132354 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
132381 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
132409 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
132436 GAAA
1 GAAA
132440 ATGCCACCAA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:133505 original size:29 final size:29
Alignment explanation
Indices: 133473--133535 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
133463 CTTTTCTCTC
133473 TTTTTCTTTG-TTTTGTTTTTTTG-TTTTGT
1 TTTTTCTTTGCTTTT-TTTTTTTGCTTTT-T
*
133502 TTTTTTTTTGCTTTTTTTTTTTGCTTTTT
1 TTTTTCTTTGCTTTTTTTTTTTGCTTTTT
133531 TTTTT
1 TTTTT
133536 GAAGAGAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 23 0.74
30 8 0.26
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.86
Consensus pattern (29 bp):
TTTTTCTTTGCTTTTTTTTTTTGCTTTTT
Found at i:133506 original size:12 final size:12
Alignment explanation
Indices: 133483--133536 Score: 74
Period size: 12 Copynumber: 4.4 Consensus size: 12
133473 TTTTTCTTTG
*
133483 TTTTGTTTTTTT
1 TTTTGCTTTTTT
133495 GTTTTG-TTTTTT
1 -TTTTGCTTTTTT
133507 TTTTGCTTTTTTT
1 TTTTGC-TTTTTT
133520 TTTTGCTTTTTT
1 TTTTGCTTTTTT
133532 TTTTG
1 TTTTG
133537 AAGAGAAGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
11 5 0.13
12 17 0.44
13 17 0.44
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (12 bp):
TTTTGCTTTTTT
Found at i:133510 original size:24 final size:25
Alignment explanation
Indices: 133483--133536 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
133473 TTTTTCTTTG
133483 TTTTG-TTTTTTTGTTTTG-TTTTTT
1 TTTTGCTTTTTTT-TTTTGCTTTTTT
133507 TTTTGCTTTTTTTTTTTGCTTTTTT
1 TTTTGCTTTTTTTTTTTGCTTTTTT
133532 TTTTG
1 TTTTG
133537 AAGAGAAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (25 bp):
TTTTGCTTTTTTTTTTTGCTTTTTT
Found at i:133517 original size:18 final size:17
Alignment explanation
Indices: 133473--133536 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
133463 CTTTTCTCTC
*
133473 TTTTTCTTTGTTTTGTT
1 TTTTTTTTTGTTTTGTT
*
133490 TTTTTGTTTTGTTTTTTT
1 TTTTT-TTTTGTTTTGTT
* *
133508 TTTGCTTTTTTTTTTTGCT
1 TTT--TTTTTTGTTTTGTT
133527 TTTTTTTTTG
1 TTTTTTTTTG
133537 AAGAGAAGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 11 0.29
18 13 0.34
19 12 0.32
20 2 0.05
ACGTcount: A:0.00, C:0.05, G:0.11, T:0.84
Consensus pattern (17 bp):
TTTTTTTTTGTTTTGTT
Found at i:145650 original size:13 final size:13
Alignment explanation
Indices: 145632--145657 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
145622 AGAAAGATCC
145632 ATGTATCGATACA
1 ATGTATCGATACA
145645 ATGTATCGATACA
1 ATGTATCGATACA
145658 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:145721 original size:19 final size:19
Alignment explanation
Indices: 145697--145751 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
145687 CAGTAGCTAA
*
145697 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
145716 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
145735 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
145752 TTGTTGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:145831 original size:21 final size:21
Alignment explanation
Indices: 145807--145863 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
145797 CATTTGTAGG
145807 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
145828 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
145849 ATGTATCGATACATT
1 ATGTATCGATACATT
145864 TGGATTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:145907 original size:19 final size:18
Alignment explanation
Indices: 145867--145913 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
145857 ATACATTTGG
*
145867 ATTTTTTTTTATTTATTT
1 ATTTTTTTTTATTTATTA
145885 ATTTTTTATTT-TTTAATTA
1 ATTTTTT-TTTATTT-ATTA
145904 ATTTTTTTTT
1 ATTTTTTTTT
145914 CAAACACTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (18 bp):
ATTTTTTTTTATTTATTA
Found at i:145907 original size:23 final size:22
Alignment explanation
Indices: 145870--145913 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
145860 CATTTGGATT
* *
145870 TTTTTTTATTTATTTATTTTTTA
1 TTTTTTAATTAATTT-TTTTTTA
145893 TTTTTTAATTAATTTTTTTTT
1 TTTTTTAATTAATTTTTTTTT
145914 CAAACACTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTTAATTAATTTTTTTTTA
Found at i:151231 original size:21 final size:21
Alignment explanation
Indices: 151207--151250 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
151197 ACCAACTTGC
151207 AATTCAATTATCTTT-TTTTCT
1 AATTCAATTAT-TTTCTTTTCT
*
151228 AATTCACTTATTTTCTTTTCT
1 AATTCAATTATTTTCTTTTCT
151249 AA
1 AA
151251 CTCTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (21 bp):
AATTCAATTATTTTCTTTTCT
Found at i:153446 original size:13 final size:13
Alignment explanation
Indices: 153428--153452 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
153418 ACCAAGATCA
153428 TGTATCGATACAG
1 TGTATCGATACAG
153441 TGTATCGATACA
1 TGTATCGATACA
153453 AAGCAATATA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:153819 original size:16 final size:16
Alignment explanation
Indices: 153793--153825 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
153783 AAGGTTTTTA
153793 ATTAGAATTCTTACATT
1 ATTAGAATTCTTA-ATT
153810 ATTA-AATTCTTAATT
1 ATTAGAATTCTTAATT
153825 A
1 A
153826 AATTTACTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.48
Consensus pattern (16 bp):
ATTAGAATTCTTAATT
Found at i:168558 original size:19 final size:20
Alignment explanation
Indices: 168534--168584 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
168524 CATTTTATGT
*
168534 TGTATCAATACAAAG-AACA
1 TGTATCGATACAAAGCAACA
* *
168553 TGTATCGATACCAAGCAATA
1 TGTATCGATACAAAGCAACA
168573 TGTATCGATACA
1 TGTATCGATACA
168585 TTTGGGTGCG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (20 bp):
TGTATCGATACAAAGCAACA
Found at i:168611 original size:20 final size:20
Alignment explanation
Indices: 168582--168627 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
168572 ATGTATCGAT
*
168582 ACATTTGGGTGCGTACCGAA
1 ACATTCGGGTGCGTACCGAA
*
168602 ACATTCGGGTGCGTACCGAT
1 ACATTCGGGTGCGTACCGAA
168622 ACATTC
1 ACATTC
168628 AAGGGTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (20 bp):
ACATTCGGGTGCGTACCGAA
Found at i:168715 original size:21 final size:23
Alignment explanation
Indices: 168685--168732 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
168675 TTTGAATGAA
*
168685 TTTTACTTG-AAAACA-TTAATT
1 TTTTACTTGAAAAACATTTAAAT
*
168706 TTTTATTTGAAAAACATTTAAAT
1 TTTTACTTGAAAAACATTTAAAT
168729 TTTT
1 TTTT
168733 CTCTAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
22 6 0.26
23 9 0.39
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (23 bp):
TTTTACTTGAAAAACATTTAAAT
Found at i:168722 original size:22 final size:22
Alignment explanation
Indices: 168685--168745 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
168675 TTTGAATGAA
*
168685 TTTTACTTGAAAACA-TTAATT
1 TTTTACTTGAAAACATTTAAAT
*
168706 TTTTATTTGAAAAACATTTAAAT
1 TTTTACTTG-AAAACATTTAAAT
168729 TTTT-CTCT-AAAACATTT
1 TTTTACT-TGAAAACATTT
168746 TTAATATTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 17 0.50
22 7 0.21
23 10 0.29
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (22 bp):
TTTTACTTGAAAACATTTAAAT
Found at i:177384 original size:93 final size:93
Alignment explanation
Indices: 177225--177425 Score: 393
Period size: 93 Copynumber: 2.2 Consensus size: 93
177215 ATAATTTACT
*
177225 ATGTATCGATACAATTCAATTATGAACAGTGGCATGATAGCTAGTGCCAATTACATCTATTGATA
1 ATGTATCGATACAATTCAATTATGAACAGTGGCATGATAGCTAGTGCCAATTACATCTATCGATA
177290 TATTTTATGGTGTATTAATACAAAGAAC
66 TATTTTATGGTGTATTAATACAAAGAAC
177318 ATGTATCGATACAATTCAATTATGAACAGTGGCATGATAGCTAGTGCCAATTACATCTATCGATA
1 ATGTATCGATACAATTCAATTATGAACAGTGGCATGATAGCTAGTGCCAATTACATCTATCGATA
177383 TATTTTATGGTGTATTAATACAAAGAAC
66 TATTTTATGGTGTATTAATACAAAGAAC
177411 ATGTATCGATACAAT
1 ATGTATCGATACAAT
177426 GTATCGATAC
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 107 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (93 bp):
ATGTATCGATACAATTCAATTATGAACAGTGGCATGATAGCTAGTGCCAATTACATCTATCGATA
TATTTTATGGTGTATTAATACAAAGAAC
Found at i:177429 original size:13 final size:13
Alignment explanation
Indices: 177411--177435 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
177401 TACAAAGAAC
177411 ATGTATCGATACA
1 ATGTATCGATACA
177424 ATGTATCGATAC
1 ATGTATCGATAC
177436 CAAGCAATCT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:188405 original size:24 final size:21
Alignment explanation
Indices: 188350--188392 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
188340 AGCATCAAAC
188350 ATTTTATTAAGGGGGAGAAAA
1 ATTTTATTAAGGGGGAGAAAA
*
188371 ATTTAATTAAGGGGGAGAAAA
1 ATTTTATTAAGGGGGAGAAAA
188392 A
1 A
188393 AAATTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.26
Consensus pattern (21 bp):
ATTTTATTAAGGGGGAGAAAA
Found at i:192672 original size:13 final size:13
Alignment explanation
Indices: 192654--192705 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
192644 AGCTTCATAG
192654 CGATACATTGTAT
1 CGATACATTGTAT
192667 CGATACAACACTTATGTAT
1 CGAT---ACA-TT--GTAT
192686 CGATACATTGTAT
1 CGATACATTGTAT
192699 CGATACA
1 CGATACA
192706 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 15 0.45
15 2 0.06
16 6 0.18
17 2 0.06
19 8 0.24
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:192686 original size:19 final size:19
Alignment explanation
Indices: 192662--192725 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
192652 AGCGATACAT
192662 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
192681 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
192694 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
192713 TGTATCGATACAA
1 TGTATCGATACAA
192726 TTTCTGTTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.23
14 1 0.03
16 6 0.15
18 1 0.03
19 22 0.56
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:192695 original size:32 final size:32
Alignment explanation
Indices: 192654--192724 Score: 142
Period size: 32 Copynumber: 2.2 Consensus size: 32
192644 AGCTTCATAG
192654 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
192686 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
192718 CGATACA
1 CGATACA
192725 ATTTCTGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:193106 original size:19 final size:19
Alignment explanation
Indices: 193063--193135 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
193053 CACACCCAGA
*
193063 TGTATCGATACAT-TATGCCT
1 TGTATCGATACATGT-T-CAT
193083 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
* **
193102 TGTATAGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
*
193122 TGCATCGATACATG
1 TGTATCGATACATG
193136 AAACTAGCAG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.36
20 28 0.62
21 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Done.