Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 274 of 320
Found at i:88353491 original size:23 final size:23
Alignment explanation
Indices: 88353447--88353491 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
88353437 ACCAATTCAA
*
88353447 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
88353470 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
88353492 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:88363032 original size:28 final size:26
Alignment explanation
Indices: 88362975--88363040 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 26
88362965 CTTATTTGAT
*
88362975 TATTTATTATTTATTTATTATTATTA
1 TATTTATTATTTATTTATTATTAGTA
*
88363001 TATTATATTATGTTATTTATTTATT-GTC
1 TATT-TATTAT-TTATTTA-TTATTAGTA
88363029 TATTTTATTATT
1 TA-TTTATTATT
88363041 CTTCGTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
26 4 0.12
27 7 0.21
28 16 0.47
29 7 0.21
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (26 bp):
TATTTATTATTTATTTATTATTAGTA
Found at i:88364712 original size:12 final size:11
Alignment explanation
Indices: 88364691--88364739 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
88364681 ATTGAGTCTA
88364691 TTTATTTTATT
1 TTTATTTTATT
88364702 TTTAGTTTTATT
1 TTTA-TTTTATT
* *
88364714 TCTATTTTTATG
1 TTTA-TTTTATT
88364726 TTTATTGTTATT
1 TTTATT-TTATT
88364738 TT
1 TT
88364740 CTTAGACTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
11 6 0.19
12 25 0.81
ACGTcount: A:0.16, C:0.02, G:0.06, T:0.76
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:88364721 original size:18 final size:18
Alignment explanation
Indices: 88364691--88364739 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
88364681 ATTGAGTCTA
88364691 TTTATTTTATTTTTA-GT
1 TTTATTTTATTTTTATGT
88364708 TTTATTTCTATTTTTATG-
1 TTTATTT-TATTTTTATGT
88364726 TTTATTGTTATTTT
1 TTTATT-TTATTTT
88364740 CTTAGACTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.24
18 20 0.69
19 2 0.07
ACGTcount: A:0.16, C:0.02, G:0.06, T:0.76
Consensus pattern (18 bp):
TTTATTTTATTTTTATGT
Found at i:88371367 original size:11 final size:11
Alignment explanation
Indices: 88371351--88371378 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
88371341 ATTGTTATTC
88371351 AATTATAAAAT
1 AATTATAAAAT
88371362 AATTATAAAAT
1 AATTATAAAAT
88371373 AATTAT
1 AATTAT
88371379 CTAACTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AATTATAAAAT
Found at i:88376892 original size:23 final size:22
Alignment explanation
Indices: 88376847--88376929 Score: 66
Period size: 23 Copynumber: 3.8 Consensus size: 22
88376837 TGGTGATATT
* *
88376847 TTATAATTATTTAAT-TATATAA
1 TTATATTTATTTAATAT-TTTAA
88376869 TTATTATTTATTTAATATTTTAA
1 TTA-TATTTATTTAATATTTTAA
* *
88376892 TAAGATATTTA-TTATTATTTT-A
1 T--TATATTTATTTAATATTTTAA
88376914 TTAT-TTTATTTAATAT
1 TTATATTTATTTAATAT
88376930 ATATATGTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
19 4 0.08
20 8 0.16
22 5 0.10
23 25 0.50
24 7 0.14
25 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (22 bp):
TTATATTTATTTAATATTTTAA
Found at i:88382209 original size:20 final size:20
Alignment explanation
Indices: 88382184--88382224 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
88382174 TTGAATACAT
*
88382184 GAAATTTGATTGGATACTGG
1 GAAATTGGATTGGATACTGG
88382204 GAAATTGGATTGGATACTGG
1 GAAATTGGATTGGATACTGG
88382224 G
1 G
88382225 CTACTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.05, G:0.34, T:0.32
Consensus pattern (20 bp):
GAAATTGGATTGGATACTGG
Found at i:88385916 original size:16 final size:17
Alignment explanation
Indices: 88385880--88385916 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
88385870 TTTTAAAAGG
88385880 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
*
88385897 AAAACAATTGAATCTTA
1 AAAACAAATGAATCTTA
88385914 AAA
1 AAA
88385917 TTTTAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.24
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:88396962 original size:44 final size:41
Alignment explanation
Indices: 88396883--88396964 Score: 101
Period size: 44 Copynumber: 1.9 Consensus size: 41
88396873 GATCAGAATA
* * *
88396883 CGACACATAAGTGCCTGAAACGACACACGAGGTGTCTGCTG
1 CGACACACAAGTGCCTGAAACGACACACAAAGTGTCTGCTG
*
88396924 CGACACACAAGGTGCCTGAAATACGACACATAAAGTGTCTG
1 CGACACACAA-GTGCCTG-AA-ACGACACACAAAGTGTCTG
88396965 ATCAGTAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 9 0.26
42 7 0.21
43 2 0.06
44 16 0.47
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (41 bp):
CGACACACAAGTGCCTGAAACGACACACAAAGTGTCTGCTG
Found at i:88396965 original size:23 final size:22
Alignment explanation
Indices: 88396878--88396965 Score: 65
Period size: 21 Copynumber: 4.1 Consensus size: 22
88396868 TACCTGATCA
*
88396878 GAATACGACACA-TAAGTGCCT
1 GAATACGACACACAAAGTGCCT
* * *
88396899 GAA-ACGACACACGAGGTGTCT
1 GAATACGACACACAAAGTGCCT
* * *
88396920 G-CTGCGACACACAAGGTGCCT
1 GAATACGACACACAAAGTGCCT
* *
88396941 GAAATACGACACATAAAGTGTCT
1 G-AATACGACACACAAAGTGCCT
88396964 GA
1 GA
88396966 TCAGTAAAGC
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
20 8 0.16
21 26 0.51
22 1 0.02
23 16 0.31
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (22 bp):
GAATACGACACACAAAGTGCCT
Found at i:88397252 original size:29 final size:28
Alignment explanation
Indices: 88397170--88397253 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
88397160 AACACACTAG
* *
88397170 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
* *
88397198 TATAATCCTCCCAAACACATCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
88397226 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
88397254 GCACAAAGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.46, C:0.30, G:0.04, T:0.20
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:88408251 original size:38 final size:38
Alignment explanation
Indices: 88408209--88408304 Score: 111
Period size: 40 Copynumber: 2.5 Consensus size: 38
88408199 CCATTTCCGA
* * *
88408209 CCAACCCAACACACCATGTGGGGATAGAATCGACCCAC
1 CCAACCCTACACACCATATGGGGATAGAATCAACCCAC
** * *
88408247 CCAACCCTGTACACCAAGTATGGGGATATAATCAACCCAT
1 CCAACCCTACACACC-A-TATGGGGATAGAATCAACCCAC
88408287 CCAACCCTACACACCATA
1 CCAACCCTACACACCATA
88408305 AGGTACCGTA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
38 14 0.30
39 2 0.04
40 31 0.66
ACGTcount: A:0.35, C:0.36, G:0.14, T:0.15
Consensus pattern (38 bp):
CCAACCCTACACACCATATGGGGATAGAATCAACCCAC
Found at i:88408657 original size:27 final size:27
Alignment explanation
Indices: 88408619--88408674 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
88408609 CCTGTGCAAC
88408619 CTTACAGAACATTTCAAACAAATTAGG
1 CTTACAGAACATTTCAAACAAATTAGG
*
88408646 CTTACAGAACATTTCAAACAAATTGGG
1 CTTACAGAACATTTCAAACAAATTAGG
88408673 CT
1 CT
88408675 CACACGCCCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (27 bp):
CTTACAGAACATTTCAAACAAATTAGG
Found at i:88413196 original size:43 final size:44
Alignment explanation
Indices: 88413115--88413203 Score: 171
Period size: 43 Copynumber: 2.0 Consensus size: 44
88413105 TCAGATTGAA
88413115 TTCCATCTTTCTGGTAATATTTACTTTAAAATGGACCATGTTGG
1 TTCCATCTTTCTGGTAATATTTACTTTAAAATGGACCATGTTGG
88413159 TTCCATCTTTCTGGTAATA-TTACTTTAAAATGGACCATGTTGG
1 TTCCATCTTTCTGGTAATATTTACTTTAAAATGGACCATGTTGG
88413202 TT
1 TT
88413204 GTCTGCAGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 26 0.58
44 19 0.42
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.44
Consensus pattern (44 bp):
TTCCATCTTTCTGGTAATATTTACTTTAAAATGGACCATGTTGG
Found at i:88416971 original size:3 final size:3
Alignment explanation
Indices: 88416963--88416992 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
88416953 AATCTCCAAT
88416963 TAA TAA TAA TAA TAA TAA TAA TAA CTAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TA
88416993 TCTTATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:88418508 original size:17 final size:17
Alignment explanation
Indices: 88418486--88418519 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
88418476 ATCCACTAAT
*
88418486 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
88418503 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
88418520 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:88423145 original size:17 final size:17
Alignment explanation
Indices: 88423123--88423156 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
88423113 ATCCACTAAT
*
88423123 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
88423140 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
88423157 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:88423470 original size:20 final size:19
Alignment explanation
Indices: 88423404--88423477 Score: 62
Period size: 20 Copynumber: 3.9 Consensus size: 19
88423394 CACATGTATT
*
88423404 TCAT-AAATTTTCAAAAAA
1 TCATAAAATTTTTAAAAAA
** * *
88423422 AAACTAAAATTATTAAAAAT
1 TCA-TAAAATTTTTAAAAAA
*
88423442 TCA-ATAATTTTTGAAAAAA
1 TCATAAAATTTTT-AAAAAA
88423461 TCATAAAATTTTTAAAA
1 TCATAAAATTTTTAAAA
88423478 GATTATCTAT
Statistics
Matches: 41, Mismatches: 11, Indels: 7
0.69 0.19 0.12
Matches are distributed among these distances:
18 8 0.20
19 13 0.32
20 20 0.49
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.35
Consensus pattern (19 bp):
TCATAAAATTTTTAAAAAA
Found at i:88425768 original size:13 final size:13
Alignment explanation
Indices: 88425752--88425804 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
88425742 TTTAAATTAA
88425752 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
88425765 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
*
88425778 ACTTTTCAACAGC
1 ACTTTTCAAAAGC
88425791 ACTTGTT-AAAAGC
1 ACTT-TTCAAAAGC
88425804 A
1 A
88425805 TTGCTAAACT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
13 31 0.94
14 2 0.06
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:88427185 original size:3 final size:3
Alignment explanation
Indices: 88427177--88427202 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
88427167 GTGATTGTTC
88427177 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
88427203 AAGAATTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:88441531 original size:71 final size:69
Alignment explanation
Indices: 88441433--88441607 Score: 226
Period size: 71 Copynumber: 2.5 Consensus size: 69
88441423 TTTTCAAGGG
* *
88441433 AAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
88441497 GTTTT
65 GTTTT
** * *
88441502 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 --AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTA
88441567 TGTTTT
64 TGTTTT
** * *
88441573 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
88441608 TTTAATTTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
69 31 0.33
71 60 0.65
72 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.34
Consensus pattern (69 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
TTTT
Found at i:88441728 original size:72 final size:72
Alignment explanation
Indices: 88441607--88441772 Score: 230
Period size: 72 Copynumber: 2.3 Consensus size: 72
88441597 GAGTTAAGCC
** * *
88441607 TTTT-AATTTTTG-GTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTCAATTTTTGTGTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
*
88441670 TTGAGGTA
65 CTGAGGTA
*
88441678 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
88441743 TGAGGTA
66 TGAGGTA
* *
88441750 TTTTCAATTTCTGT-TTTCAATTT
1 TTTTCAATTTTTGTGTTTTAATTT
88441773 ACGTTGTTCA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
71 12 0.14
72 68 0.80
73 5 0.06
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (72 bp):
TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
TGAGGTA
Found at i:88441957 original size:140 final size:140
Alignment explanation
Indices: 88441705--88442332 Score: 1123
Period size: 140 Copynumber: 4.5 Consensus size: 140
88441695 TTAATTTCAA
88441705 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
88441770 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
88441835 TCAAAATCAG
131 TCAAAATCAG
88441845 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
88441910 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
88441975 TCAAAATCAG
131 TCAAAATCAG
* *
88441985 CTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCACGCTAAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* *
88442050 TTTAAGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAATCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
88442115 TCAAAATCAG
131 TCAAAATCAG
*
88442125 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* * * *
88442190 TTTATGTTGTTCAAGAATCAACTCAAATTGCGAGAGGTGGGTTGAACCTTTTAATTTTTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
88442255 TCAAAATCAG
131 TCAAAATCAG
88442265 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
88442329 TCAA
62 TCAA
88442333 AAAAAAATTT
Statistics
Matches: 470, Mismatches: 14, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
139 1 0.00
140 440 0.94
142 23 0.05
143 6 0.01
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:88442188 original size:13 final size:13
Alignment explanation
Indices: 88442170--88442203 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
88442160 CGCTGAGGTA
*
88442170 TTTTCAATTTCTG
1 TTTTCAATTTATG
88442183 TTTTCAATTTATG
1 TTTTCAATTTATG
88442196 TTGTTCAA
1 TT-TTCAA
88442204 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:88442435 original size:72 final size:72
Alignment explanation
Indices: 88442252--88442477 Score: 285
Period size: 72 Copynumber: 3.0 Consensus size: 72
88442242 AATTTTTACT
* ** * * * *
88442252 TTTTCAAAA-TCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTT
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAGGTAATT
88442315 TCAATTTCTG
63 TCAATTTCTG
88442325 TCTTTCAAAAAAAAATTTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
1 T-TTTC-----AAAA-TTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
88442390 AATTTCAATTTCTG
59 AATTTCAATTTCTG
88442404 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
88442469 ATTTCTG
66 ATTTCTG
88442476 TT
1 TT
88442478 CAAAATGAGT
Statistics
Matches: 137, Mismatches: 7, Indels: 19
0.84 0.04 0.12
Matches are distributed among these distances:
72 65 0.47
73 5 0.04
74 4 0.03
78 4 0.03
79 28 0.20
81 30 0.22
82 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTG
Found at i:88442488 original size:49 final size:49
Alignment explanation
Indices: 88442431--88442526 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
88442421 ATATTGCGAG
*
88442431 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
88442480 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
88442527 TTCAAAATTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:88442576 original size:121 final size:122
Alignment explanation
Indices: 88442359--88442600 Score: 380
Period size: 121 Copynumber: 2.0 Consensus size: 122
88442349 ATATTGCGAG
*
88442359 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* *
88442424 TTGCGAGAAATGAGTTGAGCCTCAAGACACGT-TGAGGTAATTTCAATTTCTGTTCA
66 TTGCGAGAAATGAGTTCAGCCTCAAGACACGTCTGAGCTAATTTCAATTTCTGTTCA
88442480 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* ** * *
88442545 TTGCGAGAAGTGAGTTCAGCC-CTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTT
66 TTGCGAGAAATGAGTTCAGCCTCAAG-ACACGT-CTGAGCTAATTTCAATTTCTGTT
88442601 TTTTTTCAAA
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
120 2 0.02
121 88 0.80
123 20 0.18
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (122 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTCAGCCTCAAGACACGTCTGAGCTAATTTCAATTTCTGTTCA
Found at i:88442663 original size:30 final size:30
Alignment explanation
Indices: 88442627--88442688 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
88442617 CAACTCATAT
88442627 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
88442657 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
88442687 TG
1 TG
88442689 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:88448003 original size:15 final size:16
Alignment explanation
Indices: 88447983--88448012 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
88447973 TCTAAATTGG
88447983 ATAATATA-TATAAAA
1 ATAATATATTATAAAA
88447998 ATAATATATTATAAA
1 ATAATATATTATAAA
88448013 GTATTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAATATATTATAAAA
Found at i:88449255 original size:13 final size:12
Alignment explanation
Indices: 88449227--88449261 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
88449217 CAATATTAGC
88449227 AAATAAA-AATA
1 AAATAAATAATA
88449238 AAATAAATAATAA
1 AAATAAATAAT-A
88449251 AAATAAATAAT
1 AAATAAATAAT
88449262 GACAATGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.32
12 3 0.14
13 12 0.55
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:88449282 original size:21 final size:20
Alignment explanation
Indices: 88449250--88449297 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 20
88449240 ATAAATAATA
88449250 AAAATAAATAATGAC-AATGAT
1 AAAAT-AATAAT-ACTAATGAT
88449271 AACAATAATAATACTAATGAT
1 AA-AATAATAATACTAATGAT
88449292 AAAATA
1 AAAATA
88449298 TGCACATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.24
21 16 0.64
22 3 0.12
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAATAATAATACTAATGAT
Found at i:88449569 original size:4 final size:4
Alignment explanation
Indices: 88449544--88449583 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
88449534 AGGCATGAAT
*
88449544 AATA AAT- AAT- AAT- AATA GATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT
88449584 GAAAGAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 9 0.27
4 24 0.73
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (4 bp):
AATA
Found at i:88451219 original size:44 final size:44
Alignment explanation
Indices: 88451171--88452072 Score: 194
Period size: 45 Copynumber: 19.9 Consensus size: 44
88451161 CTCGCATCTA
* *
88451171 CAACCTGCTCCACTACAACTTCAGGAAGATGAGATTTGTAACTT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAACTT
* * * ***
88451215 CAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGTGGTTT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAACTT
* * * *
88451259 TAATCTACTCCACTGCAACTTCAGGAAGATAAGACTCGCAACCTT-TAGCTT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGA-T-------TTGTAACTT
* * * * * *
88451310 CAATCTAC-CCTACTACAACTTTAAGGAA-ATGAGATTTGCTATCTT
1 CAACCTGCTCC-ACTGCAAC-TTCAGGAAGATAAGATTTG-TAACTT
* * * *
88451355 CAGCCTGCTCCATTGCAACTTCAGGGAGATAAGACTT-TAACTT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAACTT
* * * *
88451398 TAACCTGCTCCATTGCTACTTCA-GAGAGATAAGATCTGTAATTTATAGCTT
1 CAACCTGCTCCACTGCAACTTCAGGA-AGATAAGA--T-T--TGTA-A-CTT
* * * *
88451449 CAATCTGTTCCACTGCAACTTCAGGGAA-ATAAGATTCGCTATCTT
1 CAACCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTG-TAACTT
*** * * * *
88451494 CAGTTTACTCCACTGTAACTTCAGGGAGATAAGACTT-TAACTT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAACTT
* * * *
88451537 CAACCTGGT-CACTGCTACTTAAGGGAGATAAGGA-TTG---CTAT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAA-GATTTGTAACT-T
* * * * *
88451578 -GATCTGCTCGACTGTAACTTCAGAGAA-ATAAGATCTGTAACTTAT
1 CAACCTGCTCCACTGCAACTTCAG-GAAGATAAGATTTGTAAC-T-T
* * * * *
88451623 AGCTTTAATCTGTTCCACTGCAACTTTAGAGAA-ATAAGATTCGCTATCTT
1 --C---AACCTGCTCCACTGCAACTTCAG-GAAGATAAGATTTG-TAACTT
* * * * * *
88451673 CAGCCTACTCCACTACAACTTTAGGGAGATAAGACTT-TAACTT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAACTT
* * * * *
88451716 TAACCTGCT-CACTACTACTTCAGGGAGATAAGGTTTG---CTAT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAACT-T
* ** * * *
88451757 -GATTTGCTCTACTGCAACTTCA-GAGAGATAAAATCTGTTTATTTATAGCTT
1 CAACCTGCTCCACTGCAACTTCAGGA-AGAT--AA---G---ATTTGTAACTT
* * * *
88451808 CAATCTGTTCCACTGCTACTTCAGGGAGATAA-AGTTTG---CTAT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGA-TTTGTAACT-T
* * * *
88451850 -GATCTGCTCTACTGCAACTTCA-AAGAGATAAGATTTGTTTATTTATAGCTT
1 CAACCTGCTCCACTGCAACTTCAGGA-AGATAAGATTTG------TA-A-CTT
* ** * * *
88451901 CAATCTATTCCACTACAACTTCAGGGAA-ATGAGATTTGCTATCTT
1 CAACCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTG-TAACTT
** * * *
88451946 CAGTCTGCTCCACTGTAACTTCAGAGAA-ATGAGATTTGCTATCTT
1 CAACCTGCTCCACTGCAACTTCAG-GAAGATAAGATTTG-TAACTT
** * *
88451991 CAGTCTGCTCCACTGCAACTTCAATG-AGATAAGACTT-TAACTT
1 CAACCTGCTCCACTGCAACTTC-AGGAAGATAAGATTTGTAACTT
* * * *
88452034 CAATCTGCACCATTGCTACTTCAGGAAGATAAGATTTGT
1 CAACCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGT
88452073 GGATTCACTG
Statistics
Matches: 632, Mismatches: 141, Indels: 170
0.67 0.15 0.18
Matches are distributed among these distances:
40 17 0.03
41 62 0.10
42 51 0.08
43 93 0.15
44 82 0.13
45 150 0.24
46 5 0.01
47 4 0.01
48 3 0.00
49 6 0.01
50 7 0.01
51 83 0.13
52 64 0.10
53 4 0.01
54 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (44 bp):
CAACCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAACTT
Found at i:88451447 original size:139 final size:138
Alignment explanation
Indices: 88451180--88451568 Score: 394
Period size: 139 Copynumber: 2.8 Consensus size: 138
88451170 ACAACCTGCT
* * * *
88451180 CCACTACAAC-TTCAGGAAGATGAGATTTG-TAACTTCAACCTGCTCCACTGCAACTTTAGGGAG
1 CCACTACAACTTTAAGGAA-ATGAGATTTGCTATCTTCAGCCTGCTCCACTGCAACTTCAGGGAG
** *** * * *
88451243 ATAAGGTTTGTGGTTTTAATCTACTCCACTGCAACTTCAGGAAGATAAGACTCGCAACCTTTAGC
65 ATAAGACTT-TAACTTTAACCTGCTCCACTGCTACTTCAGG-AGATAAGACTCGCAACCTTTAGC
88451308 TTCAATCT-AC
128 TTCAATCTGAC
*
88451318 CCTACTACAACTTTAAGGAAATGAGATTTGCTATCTTCAGCCTGCTCCATTGCAACTTCAGGGAG
1 CC-ACTACAACTTTAAGGAAATGAGATTTGCTATCTTCAGCCTGCTCCACTGCAACTTCAGGGAG
* * *
88451383 ATAAGACTTTAACTTTAACCTGCTCCATTGCTACTTCAGAGAGATAAGA-TCTGTAA-TTTATAG
65 ATAAGACTTTAACTTTAACCTGCTCCACTGCTACTTCAG-GAGATAAGACTC-GCAACCTT-TAG
**
88451446 CTTCAATCTGTT
127 CTTCAATCTGAC
* * * * * ** * *
88451458 CCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTTTACTCCACTGTAACTTCAGGGAGA
1 CCACTACAACTTTAAGGAAATGAGATTTGCTATCTTCAGCCTGCTCCACTGCAACTTCAGGGAGA
* * *
88451523 TAAGACTTTAACTTCAACCTGGT-CACTGCTACTTAAGGGAGATAAG
66 TAAGACTTTAACTTTAACCTGCTCCACTGCTACTTCA-GGAGATAAG
88451569 GATTGCTATG
Statistics
Matches: 211, Mismatches: 32, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
138 25 0.12
139 139 0.66
140 47 0.22
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (138 bp):
CCACTACAACTTTAAGGAAATGAGATTTGCTATCTTCAGCCTGCTCCACTGCAACTTCAGGGAGA
TAAGACTTTAACTTTAACCTGCTCCACTGCTACTTCAGGAGATAAGACTCGCAACCTTTAGCTTC
AATCTGAC
Found at i:88451715 original size:179 final size:179
Alignment explanation
Indices: 88451415--88451831 Score: 636
Period size: 179 Copynumber: 2.3 Consensus size: 179
88451405 CTCCATTGCT
*
88451415 ACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATA
1 ACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGAGAAATA
** ** *
88451480 AGATTCGCTATCTTCAGTTTACTCCACTGTAACTTCAGGGAGATAAGACTTTAACTTCAACCTGG
66 AGATTCGCTATCTTCAGCCTACTCCACTACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGC
* *
88451545 TCACTGCTACTTAAGGGAGATAAGGATTGCTATGATCTGCTCGACTGTA
131 TCACTACTACTTAAGGGAGATAAGGATTGCTATGATCTGCTCGACTGCA
* * * *
88451594 ACTTCAGAGAAATAAGATCTGTAACTTATAGCTTTAATCTGTTCCACTGCAACTTTAGAGAAATA
1 ACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGAGAAATA
* *
88451659 AGATTCGCTATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAAGACTTTAACTTTAACCTGC
66 AGATTCGCTATCTTCAGCCTACTCCACTACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGC
* * * *
88451724 TCACTACTACTTCAGGGAGATAAGGTTTGCTATGATTTGCTCTACTGCA
131 TCACTACTACTTAAGGGAGATAAGGATTGCTATGATCTGCTCGACTGCA
* * *
88451773 ACTTCAGAGAGATAAAATCTGTTTATTTATAGCTTCAATCTGTTCCACTGCTACTTCAG
1 ACTTCAGAGAGATAAGATCTG-TAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAG
88451832 GGAGATAAAG
Statistics
Matches: 212, Mismatches: 25, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
179 180 0.85
180 32 0.15
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (179 bp):
ACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGAGAAATA
AGATTCGCTATCTTCAGCCTACTCCACTACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGC
TCACTACTACTTAAGGGAGATAAGGATTGCTATGATCTGCTCGACTGCA
Found at i:88451889 original size:93 final size:93
Alignment explanation
Indices: 88451725--88451927 Score: 334
Period size: 93 Copynumber: 2.2 Consensus size: 93
88451715 TTAACCTGCT
* * *
88451725 CACTACTACTTCAGGGAGATAAGGTTTGCTATGATTTGCTCTACTGCAACTTCAGAGAGATAAAA
1 CACTACTACTTCAGGGAGATAAAGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAGATAAAA
*
88451790 TCTGTTTATTTATAGCTTCAATCTGTTC
66 TCTGTTTATTTATAGCTTCAATCTATTC
* *
88451818 CACTGCTACTTCAGGGAGATAAAGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAGATAAGA
1 CACTACTACTTCAGGGAGATAAAGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAGATAAAA
*
88451883 TTTGTTTATTTATAGCTTCAATCTATTC
66 TCTGTTTATTTATAGCTTCAATCTATTC
*
88451911 CACTACAACTTCAGGGA
1 CACTACTACTTCAGGGA
88451928 AATGAGATTT
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 101 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (93 bp):
CACTACTACTTCAGGGAGATAAAGTTTGCTATGATCTGCTCTACTGCAACTTCAAAGAGATAAAA
TCTGTTTATTTATAGCTTCAATCTATTC
Found at i:88452916 original size:8 final size:8
Alignment explanation
Indices: 88452903--88452958 Score: 60
Period size: 8 Copynumber: 6.8 Consensus size: 8
88452893 CTGGCCTCTC
88452903 TTTTTTCT
1 TTTTTTCT
88452911 TTTTTT-T
1 TTTTTTCT
88452918 TGTTTTTCT
1 T-TTTTTCT
*
88452927 TTTTTGCT
1 TTTTTTCT
88452935 TTTCTTTCT
1 TTT-TTTCT
*
88452944 TTCTTTCT
1 TTTTTTCT
88452952 TTCTTTT
1 TT-TTTT
88452959 TTAGTGAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
7 2 0.05
8 27 0.68
9 11 0.28
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (8 bp):
TTTTTTCT
Found at i:88452931 original size:13 final size:13
Alignment explanation
Indices: 88452913--88452960 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
88452903 TTTTTTCTTT
88452913 TTTTTTGTTTTTC
1 TTTTTTGTTTTTC
*
88452926 TTTTTTGCTTTTC
1 TTTTTTGTTTTTC
*
88452939 TTTCTTTCTTTCTTTC
1 TTT-TTT-GTT-TTTC
88452955 TTTTTT
1 TTTTTT
88452961 AGTGAAGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 15 0.52
14 3 0.10
15 4 0.14
16 7 0.24
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (13 bp):
TTTTTTGTTTTTC
Found at i:88452937 original size:29 final size:29
Alignment explanation
Indices: 88452905--88452960 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
88452895 GGCCTCTCTT
* *
88452905 TTTTCTTT-TTTTTTGTTTTTCTTTTTTGC
1 TTTTCTTTCTTTCTT-TCTTTCTTTTTTGC
88452934 TTTTCTTTCTTTCTTTCTTTCTTTTTT
1 TTTTCTTTCTTTCTTTCTTTCTTTTTT
88452961 AGTGAAGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (29 bp):
TTTTCTTTCTTTCTTTCTTTCTTTTTTGC
Found at i:88456187 original size:35 final size:35
Alignment explanation
Indices: 88456164--88456356 Score: 268
Period size: 35 Copynumber: 5.5 Consensus size: 35
88456154 GGCAAAGTGC
*
88456164 GAAATGTAGGTATGGTATTATCCATACCGAGTTGT
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
*
88456199 GAAATGTAGGTATGGTATCATCCATACCGAGTTGA
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
* *
88456234 GAAATATAGGTATGGTATTATCCATACTGAGTTGA
1 GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
*
88456269 GAAATGTAGGTAT-GTCATT-TCCTATACCGAGTTGT
1 GAAATGTAGGTATGGT-ATTATCC-ATACCGAGTTGA
* *
88456304 GAAACGTAGGTATGGTATTTTCCATACCGAGTAT-A
1 GAAATGTAGGTATGGTATTATCCATACCGAGT-TGA
88456339 -AAATGTAGGTATGGTATT
1 GAAATGTAGGTATGGTATT
88456357 TCAATGAGGA
Statistics
Matches: 142, Mismatches: 11, Indels: 11
0.87 0.07 0.07
Matches are distributed among these distances:
34 22 0.15
35 114 0.80
36 6 0.04
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTATCCATACCGAGTTGA
Found at i:88457458 original size:19 final size:17
Alignment explanation
Indices: 88457434--88457478 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
88457424 TTTTCTTTGA
*
88457434 AATGTAATGCATATGATGC
1 AATGTAATG-ACA-GATGC
88457453 AATGTAAT-ACAGATGC
1 AATGTAATGACAGATGC
88457469 AATGTAATGA
1 AATGTAATGA
88457479 ATGCAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 13 0.54
17 3 0.12
19 8 0.33
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (17 bp):
AATGTAATGACAGATGC
Found at i:88459321 original size:18 final size:17
Alignment explanation
Indices: 88459289--88459322 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
88459279 TTGTAATTTG
88459289 ATTTTTTTTAATAAAAT
1 ATTTTTTTTAATAAAAT
*
88459306 ATTTTGTTTTACTAAAA
1 ATTTT-TTTTAATAAAA
88459323 CAATGAGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTTTTTTAATAAAAT
Found at i:88459933 original size:13 final size:12
Alignment explanation
Indices: 88459905--88459939 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
88459895 CAATATTAGC
88459905 AAATAAA-AATA
1 AAATAAATAATA
88459916 AAATAAATAATAA
1 AAATAAATAAT-A
88459929 AAATAAATAAT
1 AAATAAATAAT
88459940 GACAATGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.32
12 3 0.14
13 12 0.55
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:88459960 original size:21 final size:20
Alignment explanation
Indices: 88459928--88459975 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 20
88459918 ATAAATAATA
88459928 AAAATAAATAATGAC-AATGAT
1 AAAAT-AATAAT-ACTAATGAT
88459949 AACAATAATAATACTAATGAT
1 AA-AATAATAATACTAATGAT
88459970 AAAATA
1 AAAATA
88459976 TGCACATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.24
21 16 0.64
22 3 0.12
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAATAATAATACTAATGAT
Found at i:88460306 original size:3 final size:3
Alignment explanation
Indices: 88460214--88460287 Score: 69
Period size: 3 Copynumber: 23.7 Consensus size: 3
88460204 CAAATAAATG
* * * *
88460214 AAT AGAT AAT AAT AA- AAT AGT AAT AAT AAT GAAGG CAT GGAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT -AA-T AAT -AAT AAT AAT
88460262 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
88460288 AACAAATGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
2 2 0.03
3 49 0.83
4 8 0.14
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:88466333 original size:7 final size:7
Alignment explanation
Indices: 88466321--88466354 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
88466311 CTTCGGGTTG
88466321 ATTTTAT
1 ATTTTAT
88466328 ATTTTAT
1 ATTTTAT
88466335 ATTTTAT
1 ATTTTAT
88466342 A-TTTA-
1 ATTTTAT
88466347 ATTTTAT
1 ATTTTAT
88466354 A
1 A
88466355 AAAGTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 1 0.04
6 8 0.32
7 16 0.64
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
ATTTTAT
Found at i:88466352 original size:12 final size:14
Alignment explanation
Indices: 88466321--88466354 Score: 54
Period size: 12 Copynumber: 2.6 Consensus size: 14
88466311 CTTCGGGTTG
88466321 ATTTTATATTTTAT
1 ATTTTATATTTTAT
88466335 ATTTTATA-TTTA-
1 ATTTTATATTTTAT
88466347 ATTTTATA
1 ATTTTATA
88466355 AAAGTATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 4 0.20
14 8 0.40
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTATATTTTAT
Found at i:88469581 original size:6 final size:6
Alignment explanation
Indices: 88469566--88469614 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
88469556 ATATATTTTC
* *
88469566 TTTTAGT TTTTATT TTATTAT TTTTAG TTTTAG TTTTAT TTTTAT TTTT
1 TTTTA-T TTTTA-T TT-TTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
88469615 TTCCCTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
6 24 0.63
7 11 0.29
8 3 0.08
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:88469602 original size:21 final size:21
Alignment explanation
Indices: 88469566--88469605 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
88469556 ATATATTTTC
88469566 TTTTAGTTTTTATTTTATTAT
1 TTTTAGTTTTTATTTTATTAT
88469587 TTTTAG-TTTTAGTTTTATT
1 TTTTAGTTTTTA-TTTTATT
88469606 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.75
Consensus pattern (21 bp):
TTTTAGTTTTTATTTTATTAT
Found at i:88469608 original size:27 final size:26
Alignment explanation
Indices: 88469566--88469616 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
88469556 ATATATTTTC
88469566 TTTTAGTTTTTATTTTATTATTTTTAG
1 TTTTAGTTTTTATTTTATT-TTTTTAG
88469593 TTTTAG-TTTTATTTTTATTTTTTT
1 TTTTAGTTTTTA-TTTTATTTTTTT
88469617 CCCTTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (26 bp):
TTTTAGTTTTTATTTTATTTTTTTAG
Found at i:88469623 original size:27 final size:27
Alignment explanation
Indices: 88469561--88469616 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
88469551 TGATTATATA
88469561 TTTT-CTTTTAGTTTTTATTTTATTAT
1 TTTTACTTTTAGTTTTTATTTTATTAT
*
88469587 TTTTAGTTTTAG-TTTTATTTTTATT-T
1 TTTTACTTTTAGTTTTTA-TTTTATTAT
88469613 TTTT
1 TTTT
88469617 CCCTTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (27 bp):
TTTTACTTTTAGTTTTTATTTTATTAT
Found at i:88476903 original size:6 final size:6
Alignment explanation
Indices: 88476892--88476919 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
88476882 ATAGAAGAAA
88476892 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
88476920 GACCAACAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:88481703 original size:16 final size:17
Alignment explanation
Indices: 88481672--88481714 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
88481662 AACCAAATCT
*
88481672 ATATAATTTTACTATAA
1 ATATATTTTTACTATAA
*
88481689 ATATATTTTTA-TATAT
1 ATATATTTTTACTATAA
88481705 ATATATTTTT
1 ATATATTTTT
88481715 TCAATATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATATTTTTACTATAA
Found at i:88484430 original size:13 final size:13
Alignment explanation
Indices: 88484412--88484436 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88484402 AGTTTTTTTA
88484412 TTTTTAATTAATG
1 TTTTTAATTAATG
88484425 TTTTTAATTAAT
1 TTTTTAATTAAT
88484437 AAATATATTG
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:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:88485237 original size:22 final size:22
Alignment explanation
Indices: 88485212--88485255 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
88485202 ATCTTACAAT
88485212 AATATAATAA-AATATTTTAAAA
1 AATA-AATAATAATATTTTAAAA
* *
88485234 AATACATAATAATTTTTTAAAA
1 AATAAATAATAATATTTTAAAA
88485256 TTAGTTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AATAAATAATAATATTTTAAAA
Found at i:88486435 original size:22 final size:23
Alignment explanation
Indices: 88486402--88486467 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 23
88486392 TTTGTGGGTA
*
88486402 ATTTA-AATTATTTAATTTTTAT
1 ATTTATAATTATTTAATTTATAT
*
88486424 -TTTATAATTATTTAA-ATATAT
1 ATTTATAATTATTTAATTTATAT
*
88486445 ACTTATAATTATGTTAATTTATA
1 ATTTATAATTAT-TTAATTTATA
88486468 ATATATATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 8 0.22
22 20 0.56
23 4 0.11
24 4 0.11
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
ATTTATAATTATTTAATTTATAT
Found at i:88490158 original size:22 final size:22
Alignment explanation
Indices: 88490108--88490150 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
88490098 TTTTAATATT
*
88490108 TCATCTAATTTTATCTTTTTTAA
1 TCAT-TAAATTTATCTTTTTTAA
88490131 TCATTAAATTTAT-TTTTTTA
1 TCATTAAATTTATCTTTTTTA
88490151 TCAAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 8 0.42
23 4 0.21
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (22 bp):
TCATTAAATTTATCTTTTTTAA
Found at i:88494482 original size:5 final size:5
Alignment explanation
Indices: 88494472--88494501 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
88494462 AAATTGGTTT
88494472 CAATC CAATC CAATC CAATC CAATC CAATC
1 CAATC CAATC CAATC CAATC CAATC CAATC
88494502 AGAGTAAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (5 bp):
CAATC
Found at i:88501246 original size:42 final size:42
Alignment explanation
Indices: 88501187--88501270 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
88501177 TTTAAAGCGT
* *
88501187 AAGCAACTAGATCAGCCTTGGCATACTTCTTTGAAGGTTTAA
1 AAGCAACTAGATCAGCCTCGACATACTTCTTTGAAGGTTTAA
*
88501229 AAGCAACTAGATCAGCCTCGACATACTTCTTTGGAGGTTTAA
1 AAGCAACTAGATCAGCCTCGACATACTTCTTTGAAGGTTTAA
88501271 TTTCTCTTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (42 bp):
AAGCAACTAGATCAGCCTCGACATACTTCTTTGAAGGTTTAA
Found at i:88503638 original size:5 final size:5
Alignment explanation
Indices: 88503628--88503664 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
88503618 CAATTTGTAA
88503628 AAAAT AAAAT AAAAT AAAA- ATAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT AAA
88503665 GAACACACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 5 0.17
5 24 0.83
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:88505197 original size:49 final size:48
Alignment explanation
Indices: 88505141--88505237 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 48
88505131 CATTGCCTAG
* * * * *
88505141 TGTTAAAAGGTGGCAACAAACAACATATGTACGTTATCCGGATGAAATA
1 TGTTAAAAAGTAGCAACAAACAACACATGTAAGTTA-CCAGATGAAATA
*
88505190 TGTTAAAAAGTAGCAACAAACAGCACATGTAAGTTACCAGATGAAATA
1 TGTTAAAAAGTAGCAACAAACAACACATGTAAGTTACCAGATGAAATA
88505238 CAGCAACATG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 11 0.26
49 31 0.74
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (48 bp):
TGTTAAAAAGTAGCAACAAACAACACATGTAAGTTACCAGATGAAATA
Found at i:88506370 original size:6 final size:6
Alignment explanation
Indices: 88506359--88506385 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
88506349 GGAATAGAGA
88506359 AAGCTC AAGCTC AAGCTC AAGCTC AAG
1 AAGCTC AAGCTC AAGCTC AAGCTC AAG
88506386 TTACAAAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.30, G:0.19, T:0.15
Consensus pattern (6 bp):
AAGCTC
Found at i:88507580 original size:13 final size:13
Alignment explanation
Indices: 88507562--88507587 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88507552 CACCACAGTA
88507562 AAATGGTGTCTGT
1 AAATGGTGTCTGT
88507575 AAATGGTGTCTGT
1 AAATGGTGTCTGT
88507588 GAGAGGAAAA
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:0.23, C:0.08, G:0.31, T:0.38
Consensus pattern (13 bp):
AAATGGTGTCTGT
Found at i:88509737 original size:49 final size:49
Alignment explanation
Indices: 88509665--88509762 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
88509655 CAATGAGGAG
* * * *
88509665 TGTTAAAAGGTGGCAACAAACAGCATATGTACGTTATCCGGATGAAATA
1 TGTTAAAAAGTGGCAACAAACAGCACATGTAAGTTACCCGGATGAAATA
88509714 TGTTAAAAAGTGGCAACAAACAGCACATGTAAGTTACCCGGATGAAATA
1 TGTTAAAAAGTGGCAACAAACAGCACATGTAAGTTACCCGGATGAAATA
88509763 CAACAACATG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.22
Consensus pattern (49 bp):
TGTTAAAAAGTGGCAACAAACAGCACATGTAAGTTACCCGGATGAAATA
Found at i:88518823 original size:21 final size:21
Alignment explanation
Indices: 88518783--88518863 Score: 103
Period size: 21 Copynumber: 4.0 Consensus size: 21
88518773 CAAATAAGCC
88518783 AACAGAAGCTC--AAAAGCTT
1 AACAGAAGCTCATAAAAGCTT
* *
88518802 AACAGAAGCTCGTAAGAGCTT
1 AACAGAAGCTCATAAAAGCTT
* *
88518823 AACAGAATCTCATAAGAGCTT
1 AACAGAAGCTCATAAAAGCTT
*
88518844 AATAGAAGCTCATAAAAGCT
1 AACAGAAGCTCATAAAAGCT
88518864 GATCCACCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
19 11 0.20
21 43 0.80
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (21 bp):
AACAGAAGCTCATAAAAGCTT
Found at i:88521811 original size:22 final size:22
Alignment explanation
Indices: 88521784--88521830 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
88521774 CAACATGCCA
*
88521784 GTGTGGCTGGTGTGACACGCCT
1 GTGTGGCTGATGTGACACGCCT
*
88521806 GTGTGGCTGATGTGACACGTCT
1 GTGTGGCTGATGTGACACGCCT
88521828 GTG
1 GTG
88521831 GTAAGCTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.11, C:0.19, G:0.40, T:0.30
Consensus pattern (22 bp):
GTGTGGCTGATGTGACACGCCT
Found at i:88522948 original size:20 final size:20
Alignment explanation
Indices: 88522903--88522950 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
88522893 GTAACAGTAG
* *
88522903 TCGACACATATAGTGTATCG
1 TCGACACATATAATGTATCA
* *
88522923 TTGACACATATAATGTCTCA
1 TCGACACATATAATGTATCA
88522943 TCGACACA
1 TCGACACA
88522951 CAATCGGAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (20 bp):
TCGACACATATAATGTATCA
Found at i:88523790 original size:24 final size:25
Alignment explanation
Indices: 88523762--88523808 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
88523752 TATTCGTGCC
88523762 TTTATTTCTCTT-TTTTCTTTATGT
1 TTTATTTCTCTTATTTTCTTTATGT
*
88523786 TTTATTTCTTTTATTTTCTTTAT
1 TTTATTTCTCTTATTTTCTTTAT
88523809 TCATTCTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTATTTCTCTTATTTTCTTTATGT
Found at i:88527471 original size:3 final size:3
Alignment explanation
Indices: 88527463--88527498 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
88527453 AATGTGAAGC
88527463 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
88527499 TGTTCCTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:88528039 original size:23 final size:24
Alignment explanation
Indices: 88528007--88528057 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
88527997 TTTAGTAATA
*
88528007 AATAGTATTTT-TAATACTTTATTT
1 AATAGTATTTTATAATACTAT-TTT
*
88528031 AATA-TATTTTATATTACTATTTT
1 AATAGTATTTTATAATACTATTTT
88528054 AATA
1 AATA
88528058 ATAAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (24 bp):
AATAGTATTTTATAATACTATTTT
Found at i:88530882 original size:53 final size:53
Alignment explanation
Indices: 88530801--88530951 Score: 212
Period size: 53 Copynumber: 2.8 Consensus size: 53
88530791 CTTACACGGT
* * * *
88530801 TCACATATCATACCGAAGCCATATCCCAGATATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACAGTA
*
88530856 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACAGTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACAGTA
** *
88530909 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
88530952 GCACACTTAG
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 81 0.92
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACAGTA
Found at i:88537142 original size:53 final size:53
Alignment explanation
Indices: 88537062--88537217 Score: 192
Period size: 53 Copynumber: 3.0 Consensus size: 53
88537052 GACGAAAAAT
* *
88537062 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * * *
88537114 ATGTGATACTGTGACTCCGTATAAGACCATAGCTAGGCTATGGCATCAGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * *
88537167 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTA
88537218 TGATATGTGA
Statistics
Matches: 89, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
51 4 0.04
52 10 0.11
53 75 0.84
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
Found at i:88540231 original size:23 final size:22
Alignment explanation
Indices: 88540193--88540276 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 22
88540183 TATGACTAAA
** *
88540193 TTATATTAAAAGATTTTTTATTT
1 TTATATTAAATTATTTATTA-TT
88540216 TTATATTAAATTATTTAAATTATT
1 TTATATTAAATTATTT--ATTATT
* *
88540240 TTATATTAAATTAAATTAGTATT
1 TTATATTAAATT-ATTTATTATT
88540263 TTATATTAAATTAT
1 TTATATTAAATTAT
88540277 ATTAAGAGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
22 1 0.02
23 31 0.60
24 14 0.27
25 6 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATATTAAATTATTTATTATT
Found at i:88540242 original size:10 final size:10
Alignment explanation
Indices: 88540216--88540281 Score: 68
Period size: 10 Copynumber: 6.9 Consensus size: 10
88540206 TTTTTTATTT
88540216 TTATATTAAA
1 TTATATTAAA
88540226 TTAT-TTAAA
1 TTATATTAAA
* *
88540235 TTATTTTATA
1 TTATATTAAA
*
88540245 TTAAATTAAA
1 TTATATTAAA
88540255 TTAGTATT---
1 TTA-TATTAAA
88540263 TTATATTAAA
1 TTATATTAAA
88540273 TTATATTAA
1 TTATATTAA
88540282 GAGATTTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
7 4 0.09
8 3 0.07
9 9 0.20
10 27 0.59
11 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (10 bp):
TTATATTAAA
Found at i:88540280 original size:23 final size:23
Alignment explanation
Indices: 88540214--88540280 Score: 91
Period size: 23 Copynumber: 2.9 Consensus size: 23
88540204 GATTTTTTAT
*
88540214 TTTTATATTAAATTAT-TTAAATTA
1 TTTTATATTAAATTATATT--AGTA
*
88540238 TTTTATATTAAATTAAATTAGTA
1 TTTTATATTAAATTATATTAGTA
88540261 TTTTATATTAAATTATATTA
1 TTTTATATTAAATTATATTA
88540281 AGAGATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
23 22 0.56
24 15 0.38
25 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (23 bp):
TTTTATATTAAATTATATTAGTA
Found at i:88558301 original size:33 final size:33
Alignment explanation
Indices: 88558264--88558333 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
88558254 GATTATGATG
88558264 GTTAGTTTGGTTTGGTTTAAATAAGTTGATTAT
1 GTTAGTTTGGTTTGGTTTAAATAAGTTGATTAT
88558297 GTTAGTTTGGTTTGGTTTAAATAAGTTGATTAT
1 GTTAGTTTGGTTTGGTTTAAATAAGTTGATTAT
88558330 GTTA
1 GTTA
88558334 TTGAGTTGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (33 bp):
GTTAGTTTGGTTTGGTTTAAATAAGTTGATTAT
Found at i:88560254 original size:10 final size:10
Alignment explanation
Indices: 88560239--88560273 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
88560229 GTATGATTAT
88560239 ATTATGTTAA
1 ATTATGTTAA
*
88560249 ATTATGATTAT
1 ATTATG-TTAA
88560260 ATTATGTTAA
1 ATTATGTTAA
88560270 ATTA
1 ATTA
88560274 CTAATTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (10 bp):
ATTATGTTAA
Found at i:88560254 original size:21 final size:21
Alignment explanation
Indices: 88560230--88560273 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
88560220 GCTTAAGAAG
88560230 TATGATTATATTATGTTAAAT
1 TATGATTATATTATGTTAAAT
88560251 TATGATTATATTATGTTAAAT
1 TATGATTATATTATGTTAAAT
88560272 TA
1 TA
88560274 CTAATTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (21 bp):
TATGATTATATTATGTTAAAT
Found at i:88560263 original size:11 final size:11
Alignment explanation
Indices: 88560230--88560265 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
88560220 GCTTAAGAAG
88560230 TATGATTATAT
1 TATGATTATAT
*
88560241 TATG-TTAAAT
1 TATGATTATAT
88560251 TATGATTATAT
1 TATGATTATAT
88560262 TATG
1 TATG
88560266 TTAAATTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (11 bp):
TATGATTATAT
Found at i:88585295 original size:24 final size:24
Alignment explanation
Indices: 88585240--88585286 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
88585230 GTTTCAAAGA
*
88585240 ATACTAACTATAGTGTTTTAGAAC
1 ATACTAACTACAGTGTTTTAGAAC
88585264 ATACTAACTACAGTGTTTTAGAA
1 ATACTAACTACAGTGTTTTAGAA
88585287 TAGTTTAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (24 bp):
ATACTAACTACAGTGTTTTAGAAC
Found at i:88589315 original size:30 final size:29
Alignment explanation
Indices: 88589272--88589333 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 29
88589262 AAACATAAGA
88589272 TTGTGTTGTTGTAAAATATGTAAATTTGT
1 TTGTGTTGTTGTAAAATATGTAAATTTGT
*
88589301 TTGTGTTGGTTGTAAAATTTGTAAATTTGT
1 TTGTGTT-GTTGTAAAATATGTAAATTTGT
88589331 TTG
1 TTG
88589334 CCCAACAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.24, C:0.00, G:0.23, T:0.53
Consensus pattern (29 bp):
TTGTGTTGTTGTAAAATATGTAAATTTGT
Found at i:88591634 original size:53 final size:52
Alignment explanation
Indices: 88591497--88591648 Score: 164
Period size: 52 Copynumber: 2.9 Consensus size: 52
88591487 ATGTGATACA
* **
88591497 TGATTCCGTATAAGACCATAGCCGGGCTATGGCATCGGTACCATATGATTCG
1 TGATTCCGTATAAGACCATATCCGGGCTATGGCATCGGTATGATATGATTCG
* * * * *
88591549 T-ATCCCCGTATAAGACCATAGT-TGGGCTATGGCATCGGTGTGATGTGATTATG
1 TGAT-TCCGTATAAGACCATA-TCCGGGCTATGGCATCGGTATGATATGATT-CG
* * *
88591602 TGATTCCGTATAATACCATATCCGGGATATGGCATTGGTATGATATG
1 TGATTCCGTATAAGACCATATCCGGGCTATGGCATCGGTATGATATG
88591649 TGGTCCGTGT
Statistics
Matches: 80, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
51 2 0.03
52 40 0.50
53 36 0.45
54 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (52 bp):
TGATTCCGTATAAGACCATATCCGGGCTATGGCATCGGTATGATATGATTCG
Found at i:88599367 original size:15 final size:15
Alignment explanation
Indices: 88599347--88599376 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
88599337 AAGTCCTAAG
*
88599347 AAAATAGAATTAGAA
1 AAAATAGAAATAGAA
88599362 AAAATAGAAATAGAA
1 AAAATAGAAATAGAA
88599377 TTCTTAGGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (15 bp):
AAAATAGAAATAGAA
Found at i:88604329 original size:28 final size:27
Alignment explanation
Indices: 88604228--88604329 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
88604218 TCAGTGTTAA
* *
88604228 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
88604256 CTGGGCCATAGCCCCT-TACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
*
88604288 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
88604316 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
88604330 TATTACAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 7 0.12
28 27 0.46
30 2 0.03
32 16 0.27
33 7 0.12
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:88604349 original size:60 final size:60
Alignment explanation
Indices: 88604229--88604354 Score: 159
Period size: 60 Copynumber: 2.1 Consensus size: 60
88604219 CAGTGTTAAC
* *
88604229 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATAT
* *
88604290 TGGGCC-TAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATATAT
1 TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TATAT
88604350 TGGGC
1 TGGGC
88604355 TTTGGCCATA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
59 4 0.07
60 43 0.74
61 11 0.19
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (60 bp):
TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGATCAGAGTATAT
Found at i:88604412 original size:19 final size:20
Alignment explanation
Indices: 88604370--88604412 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
88604360 CCATATTAAC
** *
88604370 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
88604390 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
88604409 ACAG
1 ACAG
88604413 CCTCATATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:88606561 original size:15 final size:15
Alignment explanation
Indices: 88606524--88606552 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
88606514 TTTTCCTATC
88606524 TAATAATAATAATTA
1 TAATAATAATAATTA
88606539 TAATAATAATAATT
1 TAATAATAATAATT
88606553 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:88609430 original size:27 final size:28
Alignment explanation
Indices: 88609392--88609444 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
88609382 CTATTCAGAA
* *
88609392 ATCAGTATTAAT-TGGGCCTTAGCCCAT
1 ATCAATATTAATCTGGGCCATAGCCCAT
88609419 ATCAATATTAATCTGGGCCATAGCCC
1 ATCAATATTAATCTGGGCCATAGCCC
88609445 CTTACAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (28 bp):
ATCAATATTAATCTGGGCCATAGCCCAT
Found at i:88609511 original size:61 final size:61
Alignment explanation
Indices: 88609369--88609540 Score: 167
Period size: 60 Copynumber: 2.8 Consensus size: 61
88609359 TCAAGCTTTA
* *
88609369 CTGGGCC-TAAGCCCTATT-CAGAAATCAGTATTA-ATTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCAT-AGCCCTATTACAG-AATCAG-AGTATATTGGGCC-TAGCCCATATCAATATCAAT
* *
88609431 CTGGGCCATAGCCC-CTTACAGAATCAGAGTATATTGGGCCTAGCCCATATCAGTATCAAT
1 CTGGGCCATAGCCCTATTACAGAATCAGAGTATATTGGGCCTAGCCCATATCAATATCAAT
* * * * * *
88609491 CTGGGTCGTATCCCTATTACA-AGTC-GAGATATATTGGGCCTTGTCCATAT
1 CTGGGCCATAGCCCTATTACAGAATCAGAG-TATATTGGGCCTAGCCCATAT
88609541 TAACACAATT
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
59 3 0.03
60 54 0.57
61 21 0.22
62 15 0.16
63 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (61 bp):
CTGGGCCATAGCCCTATTACAGAATCAGAGTATATTGGGCCTAGCCCATATCAATATCAAT
Found at i:88611864 original size:17 final size:19
Alignment explanation
Indices: 88611842--88611887 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
88611832 ACATACATGC
88611842 AATAAT-ATTTT-TCTAAT
1 AATAATAATTTTATCTAAT
*
88611859 AATAATAATTTTATCTCAT
1 AATAATAATTTTATCTAAT
*
88611878 AATACTAATT
1 AATAATAATT
88611888 AAAATTTCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.24
18 5 0.20
19 14 0.56
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (19 bp):
AATAATAATTTTATCTAAT
Found at i:88617683 original size:9 final size:10
Alignment explanation
Indices: 88617656--88617682 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
88617646 GGATAATTTT
88617656 ATTTTTTTCA
1 ATTTTTTTCA
88617666 ATTTTTTTCA
1 ATTTTTTTCA
88617676 ATTTTTT
1 ATTTTTT
88617683 CGGTTTCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTTTTTCA
Found at i:88620930 original size:12 final size:12
Alignment explanation
Indices: 88620913--88620941 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
88620903 ATTCATGAAG
88620913 AAATTTTTTAGA
1 AAATTTTTTAGA
88620925 AAATTTTTTAGA
1 AAATTTTTTAGA
88620937 AAATT
1 AAATT
88620942 CTTCTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
AAATTTTTTAGA
Found at i:88630906 original size:4 final size:4
Alignment explanation
Indices: 88630897--88630935 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
88630887 TTTATTTTCC
* *
88630897 TCTT TCTT TCTT TCTT TCTT TCCT TCCT TCTTT TCTT TC
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TC-TT TCTT TC
88630936 CTTTTTTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 29 0.91
5 3 0.09
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TCTT
Found at i:88630936 original size:13 final size:13
Alignment explanation
Indices: 88630903--88630944 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
88630893 TTCCTCTTTC
*
88630903 TTTCTTTCTTTC-
1 TTTCTTTCCTTCT
*
88630915 TTTCCTTCCTTCT
1 TTTCTTTCCTTCT
*
88630928 TTTCTTTCCTTTT
1 TTTCTTTCCTTCT
88630941 TTTC
1 TTTC
88630945 CCTTTTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTCTTTCCTTCT
Found at i:88630942 original size:12 final size:13
Alignment explanation
Indices: 88630898--88630944 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
88630888 TTATTTTCCT
88630898 CTTTCTTTCTTT-
1 CTTTCTTTCTTTC
*
88630910 CTTTCTTTCCTTC
1 CTTTCTTTCTTTC
88630923 C-TTCTTTTCTTTC
1 CTTTC-TTTCTTTC
*
88630936 CTTTTTTTC
1 CTTTCTTTC
88630945 CCTTTTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 14 0.48
13 13 0.45
14 2 0.07
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (13 bp):
CTTTCTTTCTTTC
Found at i:88633126 original size:43 final size:42
Alignment explanation
Indices: 88633013--88633126 Score: 147
Period size: 43 Copynumber: 2.7 Consensus size: 42
88633003 AATTGCCGAG
* * *
88633013 ATGAGATTACATGTAAGACCATGCCTGGGACATTTGCATTGT
1 ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
* *
88633055 ATTGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGAT
1 A-TGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* *
88633099 ATGAGATAACATGTAAGACCATATCTGG
1 ATGAGATTACATGTAAGACCATGTCTGG
88633127 TATATGGCAT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.02
43 58 0.95
44 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:88635540 original size:137 final size:136
Alignment explanation
Indices: 88635286--88635627 Score: 454
Period size: 137 Copynumber: 2.5 Consensus size: 136
88635276 TCCCATCCAC
* * * * * * *
88635286 GGTCTTATTTATCTT-TGACATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TG
1 GGTCTTATTTAT-TTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATA
* ** *
88635349 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCT
64 TCA-GGTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCT
88635414 TTCAACCAT
128 TTCAACCAT
*
88635423 GGTCTTATTTATTTCTCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATAT
1 GGTCTTATTTATTTCT-GTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
88635488 CAGGTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGCTGCCATGGTATCTTT
65 CAGGTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTT
88635553 CAACCAT
130 CAACCAT
*** * *
88635560 GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 GGTCTTATTTATTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
88635625 CAG
65 CAG
88635628 AGAGCACACT
Statistics
Matches: 181, Mismatches: 20, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
136 2 0.01
137 141 0.78
138 38 0.21
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (136 bp):
GGTCTTATTTATTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
AGGTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTC
AACCAT
Found at i:88635627 original size:46 final size:46
Alignment explanation
Indices: 88635309--88635627 Score: 428
Period size: 46 Copynumber: 7.0 Consensus size: 46
88635299 TTTGACATGA
* * * * * *
88635309 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
88635355 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*** * *
88635401 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTC-TCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-ATCAGGT
*
88635447 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGG-
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
88635492 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
88635538 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
88635584 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
88635628 AGAGCACACT
Statistics
Matches: 252, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
45 50 0.20
46 201 0.80
47 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:88635727 original size:54 final size:54
Alignment explanation
Indices: 88635662--88635780 Score: 238
Period size: 54 Copynumber: 2.2 Consensus size: 54
88635652 CCTTACAGTG
88635662 GGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCA
1 GGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCA
88635716 GGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCA
1 GGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCA
88635770 GGATTACCAGT
1 GGATTACCAGT
88635781 AAATCCCCTG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (54 bp):
GGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCA
Found at i:88637849 original size:18 final size:20
Alignment explanation
Indices: 88637834--88637870 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
88637824 TAATAATAAA
*
88637834 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
88637854 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
88637871 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:88640413 original size:13 final size:12
Alignment explanation
Indices: 88640388--88640412 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88640378 TTTATCTAAC
88640388 ATTTTAAAAAAA
1 ATTTTAAAAAAA
88640400 ATTTTAAAAAAA
1 ATTTTAAAAAAA
88640412 A
1 A
88640413 AGAAAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTTTAAAAAAA
Found at i:88641911 original size:2 final size:2
Alignment explanation
Indices: 88641904--88641935 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
88641894 GAATCAGATC
88641904 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
88641936 CTGCAACCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:88655638 original size:68 final size:68
Alignment explanation
Indices: 88655512--88655639 Score: 157
Period size: 68 Copynumber: 1.9 Consensus size: 68
88655502 TCCCCAAGTC
* * *
88655512 AAGTACTTCATCTTCTCAGGCACTTAGCTTTTCAAAGCTTTTGACCTGCCCAGTTCACATACTTC
1 AAGTACTTCATCTTCTCAAGCACTTAGCTTTTCAAAGCTTTTGACCAGCCCAGGTCACATACTTC
88655577 TTA
66 TTA
** * * * * **
88655580 AAGTACTTTGTCTTCTCAAGCGCTTGGCTTTTTACAGCTTTTGACCAGCTTAGGTCACAT
1 AAGTACTTCATCTTCTCAAGCACTTAGCTTTTCAAAGCTTTTGACCAGCCCAGGTCACAT
88655640 TCACCTTCTC
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 49 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.38
Consensus pattern (68 bp):
AAGTACTTCATCTTCTCAAGCACTTAGCTTTTCAAAGCTTTTGACCAGCCCAGGTCACATACTTC
TTA
Found at i:88661309 original size:8 final size:8
Alignment explanation
Indices: 88661267--88661291 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
88661257 TATATGACTA
88661267 AATAAAAT
1 AATAAAAT
88661275 AATAAAAT
1 AATAAAAT
88661283 AATAAAAT
1 AATAAAAT
88661291 A
1 A
88661292 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:88661331 original size:31 final size:31
Alignment explanation
Indices: 88661279--88661337 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
88661269 TAAAATAATA
*
88661279 AAATAATAAAATATCTTATTAAAATATTAAAT
1 AAATAATAAAATATCTAATT-AAATATTAAAT
*
88661311 AAATAAT-AATTATCTAATTAAATATTA
1 AAATAATAAAATATCTAATTAAATATTA
88661338 TAAAATATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.32
31 10 0.40
32 7 0.28
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (31 bp):
AAATAATAAAATATCTAATTAAATATTAAAT
Found at i:88664282 original size:21 final size:21
Alignment explanation
Indices: 88664258--88664298 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
88664248 CATGGCAGAG
88664258 TAGTTTGTCTCAGAAGCAATT
1 TAGTTTGTCTCAGAAGCAATT
88664279 TAGTTTGTCTCAGAAGCAAT
1 TAGTTTGTCTCAGAAGCAAT
88664299 ATTTGAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (21 bp):
TAGTTTGTCTCAGAAGCAATT
Found at i:88669874 original size:43 final size:43
Alignment explanation
Indices: 88669785--88669878 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
88669775 ACACTTGAAA
* * *
88669785 TTAAAACTTAGAAAAGAGGCCCAATAGAGCCGCAGTATTGCTGT
1 TTAAAACTAAGAAAAGAAGCCCAATA-AGCCGCAGTATTGATGT
*
88669829 TTAAAACTAAGAAAAAGAAGCCCAAT-AGCCG-AGCTGTTGATGT
1 TTAAAACTAAG-AAAAGAAGCCCAATAAGCCGCAG-TATTGATGT
88669872 TTAAAAC
1 TTAAAAC
88669879 CCATTTTGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
42 2 0.05
43 19 0.43
44 10 0.23
45 13 0.30
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.22
Consensus pattern (43 bp):
TTAAAACTAAGAAAAGAAGCCCAATAAGCCGCAGTATTGATGT
Found at i:88671955 original size:14 final size:14
Alignment explanation
Indices: 88671936--88671963 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
88671926 ATGCTCACGG
88671936 TATAACTAATTAAT
1 TATAACTAATTAAT
88671950 TATAACTAATTAAT
1 TATAACTAATTAAT
88671964 CGTCTTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TATAACTAATTAAT
Found at i:88676597 original size:49 final size:49
Alignment explanation
Indices: 88676525--88676622 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
88676515 TTTACAATAC
*
88676525 ATTGTTGAAAAGAAGCTATTCACAAGCTTAATCAAACTCTCAAATTAGT
1 ATTGTTGAAAAGAAGCTATTCACAAGCTTAATCAAACTCTCAAACTAGT
88676574 ATTGTTGAAAAGAAGCTATTCACAAGCTTAATCAAACTCTCAAACTAGT
1 ATTGTTGAAAAGAAGCTATTCACAAGCTTAATCAAACTCTCAAACTAGT
88676623 CAATTTATCT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (49 bp):
ATTGTTGAAAAGAAGCTATTCACAAGCTTAATCAAACTCTCAAACTAGT
Found at i:88682539 original size:2 final size:2
Alignment explanation
Indices: 88682532--88682556 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
88682522 GGCCGAATGT
88682532 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
88682557 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:88684380 original size:26 final size:26
Alignment explanation
Indices: 88684342--88684473 Score: 248
Period size: 26 Copynumber: 5.1 Consensus size: 26
88684332 GGTACAAATC
88684342 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
*
88684368 GATAATGGATTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
88684394 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
88684420 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
88684446 GATAATGGGTTA-GTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
88684471 GAT
1 GAT
88684474 GGGCATTTCA
Statistics
Matches: 104, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 16 0.15
26 88 0.85
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.35
Consensus pattern (26 bp):
GATAATGGGTTAGGTAAATGTTCCAT
Found at i:88685985 original size:26 final size:26
Alignment explanation
Indices: 88685956--88686008 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
88685946 TTTACAGCTT
88685956 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
88685982 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
88686008 T
1 T
88686009 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:88698411 original size:15 final size:14
Alignment explanation
Indices: 88698393--88698423 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
88698383 TTAATTTATT
88698393 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
88698408 TAATAATAATCTAA
1 TAATAATAATCTAA
88698422 TA
1 TA
88698424 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:88698434 original size:21 final size:20
Alignment explanation
Indices: 88698410--88698478 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
88698400 AATGCTAATA
88698410 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
88698431 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
88698450 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
88698471 ATAATAAT
1 ATAATAAT
88698479 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:88698474 original size:27 final size:28
Alignment explanation
Indices: 88698444--88698496 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
88698434 ATGTTAATTA
*
88698444 ATAATTATAATAATT-TAATATAAAACC
1 ATAATAATAATAATTATAATATAAAACC
*
88698471 ATAATAATAATCATTATAATATAAAA
1 ATAATAATAATAATTATAATATAAAA
88698497 ACCTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (28 bp):
ATAATAATAATAATTATAATATAAAACC
Found at i:88702697 original size:27 final size:27
Alignment explanation
Indices: 88702666--88702728 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
88702656 AATCCTCTAT
88702666 AACACACCAGTATAAT-ATAGCCTCCCA
1 AACACACCAGTAT-ATCATAGCCTCCCA
* * *
88702693 AACACTCCGGTATATCATATCCTCCCA
1 AACACACCAGTATATCATAGCCTCCCA
88702720 AACACACCA
1 AACACACCA
88702729 ATAAGGTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.38, C:0.37, G:0.06, T:0.19
Consensus pattern (27 bp):
AACACACCAGTATATCATAGCCTCCCA
Found at i:88705806 original size:24 final size:21
Alignment explanation
Indices: 88705756--88705798 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
88705746 CATAACGACC
88705756 TTCAACTGGCCCCCCCAATTA
1 TTCAACTGGCCCCCCCAATTA
88705777 TTCAACTGGCCCCCCCAATTA
1 TTCAACTGGCCCCCCCAATTA
88705798 T
1 T
88705799 ACTCCAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.42, G:0.09, T:0.26
Consensus pattern (21 bp):
TTCAACTGGCCCCCCCAATTA
Found at i:88719995 original size:30 final size:30
Alignment explanation
Indices: 88719961--88720020 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
88719951 ACTTAACAAG
**
88719961 CAAATACCTCTAAAATAATAATGAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
88719991 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
88720021 TAATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:88722682 original size:48 final size:48
Alignment explanation
Indices: 88722608--88722765 Score: 192
Period size: 48 Copynumber: 3.3 Consensus size: 48
88722598 TACTCGTTTG
* * * *
88722608 GGTTAAATCTACATGAACAATAAATAATAGTTCTTGGTTACCCGTTAA
1 GGTTAAACCTACACGAATAATGAATAATAGTTCTTGGTTACCCGTTAA
* * ** *
88722656 GGTTAAACCTATACGAATAATGAATAATAGTGT-TTAGTTACCTATTAG
1 GGTTAAACCTACACGAATAATGAATAATAGT-TCTTGGTTACCCGTTAA
* * *
88722704 GGTTAAACCTACACGAATAATTAATATTAGTGCTTGGTTACCCGTTAA
1 GGTTAAACCTACACGAATAATGAATAATAGTTCTTGGTTACCCGTTAA
88722752 GGTTAAACCTACAC
1 GGTTAAACCTACAC
88722766 TATAAATATC
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
48 90 0.99
49 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (48 bp):
GGTTAAACCTACACGAATAATGAATAATAGTTCTTGGTTACCCGTTAA
Found at i:88723724 original size:16 final size:16
Alignment explanation
Indices: 88723689--88723744 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
88723679 TTAACTTATT
*
88723689 ATTTAATT-ATAATTA
1 ATTTAATTAATCATTA
*
88723704 GTTTAATTAATCATTA
1 ATTTAATTAATCATTA
88723720 ATTTAA-TAA-CATTA
1 ATTTAATTAATCATTA
*
88723734 ACCTTAATTAA
1 A-TTTAATTAA
88723745 CAGTTTTGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
14 6 0.18
15 14 0.41
16 14 0.41
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTTAATTAATCATTA
Done.