Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 280 of 313
Found at i:85526125 original size:6 final size:6
Alignment explanation
Indices: 85526114--85526157 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
85526104 ATTTAGCCAT
* *
85526114 TTTTTA TTTTTA TTTTAATA TTTTTA TTTTTA ATTTAA TTTTTA
1 TTTTTA TTTTTA TTTT--TA TTTTTA TTTTTA TTTTTA TTTTTA
85526158 CATTTTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 26 0.81
8 6 0.19
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:85526139 original size:20 final size:19
Alignment explanation
Indices: 85526112--85526156 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
85526102 TAATTTAGCC
*
85526112 ATTTTTTATTTTTATTTTA
1 ATTTTTTATTTTTAATTTA
85526131 ATATTTTTATTTTTAATTTA
1 AT-TTTTTATTTTTAATTTA
85526151 ATTTTT
1 ATTTTT
85526157 ACATTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
ATTTTTTATTTTTAATTTA
Found at i:85526162 original size:20 final size:20
Alignment explanation
Indices: 85526114--85526168 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
85526104 ATTTAGCCAT
* *
85526114 TTTTTATTTTTATTTTAATA
1 TTTTCATTTTTAATTTAATA
*
85526134 TTTTTATTTTTAATTTAAT-
1 TTTTCATTTTTAATTTAATA
85526153 TTTTACA-TTTTAATTT
1 TTTT-CATTTTTAATTT
85526169 TCCGTTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 13 0.41
20 19 0.59
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTCATTTTTAATTTAATA
Found at i:85526166 original size:14 final size:13
Alignment explanation
Indices: 85526112--85526169 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 13
85526102 TAATTTAGCC
* *
85526112 ATTTTTTATTTTT
1 ATTTTTAATTTTA
* *
85526125 ATTTTAATATTTTT
1 ATTTTTA-ATTTTA
85526139 ATTTTTAA-TTTA
1 ATTTTTAATTTTA
85526151 ATTTTTACATTTTA
1 ATTTTTA-ATTTTA
85526165 ATTTT
1 ATTTT
85526170 CCGTTTCTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
12 10 0.26
13 7 0.18
14 21 0.55
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTTAATTTTA
Found at i:85527691 original size:18 final size:18
Alignment explanation
Indices: 85527668--85527703 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
85527658 AAGAAAACAA
85527668 GAGCATAAATCGGTGGTT
1 GAGCATAAATCGGTGGTT
*
85527686 GAGCATAAGTCGGTGGTT
1 GAGCATAAATCGGTGGTT
85527704 AGAGAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.11, G:0.36, T:0.28
Consensus pattern (18 bp):
GAGCATAAATCGGTGGTT
Found at i:85528019 original size:52 final size:52
Alignment explanation
Indices: 85527937--85528088 Score: 164
Period size: 52 Copynumber: 2.9 Consensus size: 52
85527927 AAAGTTTTTA
* * *
85527937 GGGTTCGGAGGAAATAAAAGTTTTGA-GAGAAAGCAAAAGGAAAAAAAATTGG
1 GGGTTTGG-GGAAGTAAAAGTTTTGAGGAGAAAGCAAAAGGAAAAAAAATTAG
* ****
85527989 GGGTTTGGGGAAGTAAAAGTTTTGAGGAGAAAGTAAAAGGAAAATTTTTTTAG
1 GGGTTTGGGGAAGTAAAAGTTTTGAGGAGAAAGCAAAAGGAAAA-AAAATTAG
* *
85528042 GGGTTTGGAGGGAAGTAAAACTTTTGAGG-GAAATCAAAAGGAAAAAA
1 GGGTTT-G-GGGAAGTAAAAGTTTTGAGGAGAAAGCAAAAGGAAAAAA
85528089 GTTATTCGAT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
51 16 0.19
52 24 0.29
53 9 0.11
54 15 0.18
55 19 0.23
ACGTcount: A:0.43, C:0.03, G:0.32, T:0.22
Consensus pattern (52 bp):
GGGTTTGGGGAAGTAAAAGTTTTGAGGAGAAAGCAAAAGGAAAAAAAATTAG
Found at i:85528421 original size:47 final size:47
Alignment explanation
Indices: 85528347--85528445 Score: 189
Period size: 47 Copynumber: 2.1 Consensus size: 47
85528337 AAATCATCCA
*
85528347 GATATGTTTCTATGGCCTAATTCGATTCGATTCATGAAACAAGGGAT
1 GATAAGTTTCTATGGCCTAATTCGATTCGATTCATGAAACAAGGGAT
85528394 GATAAGTTTCTATGGCCTAATTCGATTCGATTCATGAAACAAGGGAT
1 GATAAGTTTCTATGGCCTAATTCGATTCGATTCATGAAACAAGGGAT
85528441 GATAA
1 GATAA
85528446 TTGCTTCGAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (47 bp):
GATAAGTTTCTATGGCCTAATTCGATTCGATTCATGAAACAAGGGAT
Found at i:85529153 original size:25 final size:25
Alignment explanation
Indices: 85529124--85529179 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
85529114 ATAAACTTCC
*
85529124 AAATCAATCAATTATCT-G-AAAATGA
1 AAATCAAT-AATTATATAGCAAAAT-A
*
85529149 AAATCTATAATTATATAGCAAAATA
1 AAATCAATAATTATATAGCAAAATA
85529174 AAATCA
1 AAATCA
85529180 TTGTCGGTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 7 0.27
25 14 0.54
26 5 0.19
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (25 bp):
AAATCAATAATTATATAGCAAAATA
Found at i:85534581 original size:21 final size:20
Alignment explanation
Indices: 85534555--85534613 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
85534545 CAATTTTTTT
85534555 AAAAAAATTATAAAAATTAAA
1 AAAAAAATTA-AAAAATTAAA
* *
85534576 AAAAAAACTAAAAAGTATAAA
1 AAAAAAATTAAAAAAT-TAAA
* *
85534597 AAGAAAGTTAAAAAATT
1 AAAAAAATTAAAAAATT
85534614 TCTAGAATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 6 0.19
21 25 0.81
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (20 bp):
AAAAAAATTAAAAAATTAAA
Found at i:85534724 original size:16 final size:16
Alignment explanation
Indices: 85534705--85534735 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85534695 TTGAAAAAGT
85534705 TTTCAAATATATGTGG
1 TTTCAAATATATGTGG
*
85534721 TTTCAAATTTATGTG
1 TTTCAAATATATGTG
85534736 CTCTAACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATGTGG
Found at i:85542314 original size:2 final size:2
Alignment explanation
Indices: 85542309--85542343 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
85542299 TTTTTTCTTT
*
85542309 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
85542344 ATCGCTCGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:85552865 original size:6 final size:6
Alignment explanation
Indices: 85552855--85552886 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
85552845 CATTTAACCT
*
85552855 ATATAT ATATAC ATATAC ATATAC ATATAC AT
1 ATATAC ATATAC ATATAC ATATAC ATATAC AT
85552887 GACTCATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (6 bp):
ATATAC
Found at i:85553358 original size:23 final size:24
Alignment explanation
Indices: 85553327--85553374 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
85553317 AGATACGCGG
*
85553327 ATTCCACCCAAACACA-TCAGAAT
1 ATTCAACCCAAACACACTCAGAAT
*
85553350 ATTCAACCCAAACACACTCGGAAT
1 ATTCAACCCAAACACACTCAGAAT
85553374 A
1 A
85553375 ATATAAATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.44, C:0.33, G:0.06, T:0.17
Consensus pattern (24 bp):
ATTCAACCCAAACACACTCAGAAT
Found at i:85553420 original size:27 final size:27
Alignment explanation
Indices: 85553390--85553448 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
85553380 AATCCTCATT
*
85553390 AACACACCAGTATAAT-ATAGCCTCCCA
1 AACACAACAGTAT-ATCATAGCCTCCCA
* *
85553417 AACACAACGGTATATCATATCCTCCCA
1 AACACAACAGTATATCATAGCCTCCCA
85553444 AACAC
1 AACAC
85553449 GCCAATAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.41, C:0.34, G:0.07, T:0.19
Consensus pattern (27 bp):
AACACAACAGTATATCATAGCCTCCCA
Found at i:85554383 original size:12 final size:12
Alignment explanation
Indices: 85554366--85554395 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
85554356 TCCCCCTTTT
85554366 TTTTTCTTCCCC
1 TTTTTCTTCCCC
85554378 TTTTTCTTCCCC
1 TTTTTCTTCCCC
*
85554390 TGTTTC
1 TTTTTC
85554396 CATTTTGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.37, G:0.03, T:0.60
Consensus pattern (12 bp):
TTTTTCTTCCCC
Found at i:85554573 original size:41 final size:41
Alignment explanation
Indices: 85554527--85554614 Score: 117
Period size: 41 Copynumber: 2.1 Consensus size: 41
85554517 AATATTTTTA
* *
85554527 TTATAATTGTCATTATT-CAATTTATTTATTATA-AAAAAATT
1 TTATAATT-TAATTATTAC-ATTTACTTATTATATAAAAAATT
85554568 TTATAATTTAATTATTATCATTTACTTATTATATAAAAAATT
1 TTATAATTTAATTATTA-CATTTACTTATTATATAAAAAATT
85554610 TTATA
1 TTATA
85554615 TATATATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
40 7 0.17
41 21 0.50
42 14 0.33
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.52
Consensus pattern (41 bp):
TTATAATTTAATTATTACATTTACTTATTATATAAAAAATT
Found at i:85554590 original size:14 final size:14
Alignment explanation
Indices: 85554524--85554600 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 14
85554514 ACCAATATTT
*
85554524 TTATTATAATTGTCA
1 TTATTATAATT-TAA
* *
85554539 TTATT-CAATTTAT
1 TTATTATAATTTAA
***
85554552 TTATTATAAAAAAA
1 TTATTATAATTTAA
85554566 TT-TTATAATTTAA
1 TTATTATAATTTAA
* *
85554579 TTATTATCATTTAC
1 TTATTATAATTTAA
85554593 TTATTATA
1 TTATTATA
85554601 TAAAAAATTT
Statistics
Matches: 46, Mismatches: 14, Indels: 5
0.71 0.22 0.08
Matches are distributed among these distances:
13 16 0.35
14 25 0.54
15 5 0.11
ACGTcount: A:0.39, C:0.05, G:0.01, T:0.55
Consensus pattern (14 bp):
TTATTATAATTTAA
Found at i:85554867 original size:3 final size:3
Alignment explanation
Indices: 85554859--85554903 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
85554849 TTTTAAATCA
* * *
85554859 AAT AAT AAT AAT AAT AGT AAT AAT ATT AAC AAT AAT AATT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AA
85554904 AATCTAAGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:85555645 original size:17 final size:18
Alignment explanation
Indices: 85555625--85555659 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
85555615 TATTTTTTTA
85555625 AATAATTTT-TAAAATAC
1 AATAATTTTATAAAATAC
*
85555642 AATAGTTTTATAAAATAC
1 AATAATTTTATAAAATAC
85555660 TCGAACATTT
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:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (18 bp):
AATAATTTTATAAAATAC
Found at i:85567979 original size:21 final size:21
Alignment explanation
Indices: 85567955--85567995 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
85567945 TAAATGAAAT
85567955 GTTACAGTTATATGGAAAGAG
1 GTTACAGTTATATGGAAAGAG
85567976 GTTACAGTTATATGGAAAGA
1 GTTACAGTTATATGGAAAGA
85567996 CACACTATAT
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:0.39, C:0.05, G:0.27, T:0.29
Consensus pattern (21 bp):
GTTACAGTTATATGGAAAGAG
Found at i:85569043 original size:13 final size:13
Alignment explanation
Indices: 85569027--85569058 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
85569017 TATACGAGCT
*
85569027 TGTGACATGACCG
1 TGTGACACGACCG
85569040 TGTGACACGACCG
1 TGTGACACGACCG
85569053 TGTGAC
1 TGTGAC
85569059 CCTACTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.22, C:0.25, G:0.31, T:0.22
Consensus pattern (13 bp):
TGTGACACGACCG
Found at i:85577367 original size:20 final size:20
Alignment explanation
Indices: 85577322--85577375 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
85577312 TTGCACATGG
* *
85577322 CCGTGTGACGAAGGCACACA
1 CCGTGTGAAGCAGGCACACA
85577342 CTCGTGTGAAGCAGG-ACACGA
1 C-CGTGTGAAGCAGGCACAC-A
85577363 CCGTGTGAA-CAGG
1 CCGTGTGAAGCAGG
85577376 TTGTGTAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 4 0.13
20 13 0.43
21 13 0.43
ACGTcount: A:0.28, C:0.26, G:0.33, T:0.13
Consensus pattern (20 bp):
CCGTGTGAAGCAGGCACACA
Found at i:85578030 original size:21 final size:20
Alignment explanation
Indices: 85577995--85578034 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
85577985 AAAAAGAAAG
85577995 AAAGTAAAAACAATAGAAATA
1 AAAGTAAAAACAATA-AAATA
* *
85578016 AAAGTAATAATAATAAAAT
1 AAAGTAAAAACAATAAAAT
85578035 TAATAACAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAGTAAAAACAATAAAATA
Found at i:85579792 original size:27 final size:26
Alignment explanation
Indices: 85579761--85579834 Score: 62
Period size: 27 Copynumber: 2.8 Consensus size: 26
85579751 TAGTAAAGTG
85579761 CATAATAAAATAAAATAAAATAAAACA
1 CATAATAAAATAAAATAAAATAAAA-A
* ***
85579788 TATAAGTCCGA-AAAATAAAATAAAAA
1 CATAA-TAAAATAAAATAAAATAAAAA
85579814 CA-AATAACAATAAAAATAAAA
1 CATAATAA-AAT-AAAATAAAA
85579835 GATAGTTTGG
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
24 1 0.03
25 3 0.09
26 2 0.06
27 27 0.77
28 2 0.06
ACGTcount: A:0.72, C:0.08, G:0.03, T:0.18
Consensus pattern (26 bp):
CATAATAAAATAAAATAAAATAAAAA
Found at i:85579827 original size:16 final size:15
Alignment explanation
Indices: 85579800--85579829 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
85579790 TAAGTCCGAA
85579800 AAATAAAATAAAAAC
1 AAATAAAATAAAAAC
85579815 AAATAACAATAAAAA
1 AAATAA-AATAAAAA
85579830 TAAAAGATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (15 bp):
AAATAAAATAAAAAC
Found at i:85587338 original size:21 final size:20
Alignment explanation
Indices: 85587306--85587350 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
85587296 GTCTTAACAG
*
85587306 AACTGCTGATGTGGCAAGTT
1 AACTGCTAATGTGGCAAGTT
*
85587326 AACTAGCTAATGTGGCCAGTT
1 AACT-GCTAATGTGGCAAGTT
85587347 AACT
1 AACT
85587351 TGCCACATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (20 bp):
AACTGCTAATGTGGCAAGTT
Found at i:85587550 original size:73 final size:73
Alignment explanation
Indices: 85587464--85587606 Score: 268
Period size: 73 Copynumber: 2.0 Consensus size: 73
85587454 AGACTGTATG
* *
85587464 TCTTTGCTCCATGTCTGAATTCGGGGGCTGCTCAGCCTGTTGAAGAGCATTCTCCATTACGTGTA
1 TCTTTGCTCCATGTCTGAATTCGGGGGCTGCTCAGCCTATTGAAGAGCATTCTCCATTACATGTA
85587529 AAGCAGAC
66 AAGCAGAC
85587537 TCTTTGCTCCATGTCTGAATTCGGGGGCTGCTCAGCCTATTGAAGAGCATTCTCCATTACATGTA
1 TCTTTGCTCCATGTCTGAATTCGGGGGCTGCTCAGCCTATTGAAGAGCATTCTCCATTACATGTA
85587602 AAGCA
66 AAGCA
85587607 AGCAAAAAGT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.31
Consensus pattern (73 bp):
TCTTTGCTCCATGTCTGAATTCGGGGGCTGCTCAGCCTATTGAAGAGCATTCTCCATTACATGTA
AAGCAGAC
Found at i:85588259 original size:3 final size:3
Alignment explanation
Indices: 85588251--85588326 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
85588241 ATTTAATGAC
85588251 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
85588299 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
85588327 TTTAGGGGAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:85588394 original size:21 final size:21
Alignment explanation
Indices: 85588368--85588408 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
85588358 CAATGTGGCA
85588368 AGTTAACTAGCCACATCAGCT
1 AGTTAACTAGCCACATCAGCT
*
85588389 AGTTAACTTGCCACATCAGC
1 AGTTAACTAGCCACATCAGC
85588409 GGTTCTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (21 bp):
AGTTAACTAGCCACATCAGCT
Found at i:85588509 original size:30 final size:31
Alignment explanation
Indices: 85588443--85588513 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
85588433 ACTGTTATTC
* *
85588443 AGTGACTGTTTTGTCACTTTTTTATAACGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
*
85588474 AGTGACTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
*
85588503 GGGTGACTGTT
1 -AGTGACTGTT
85588514 GGTGTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.14
30 15 0.43
31 15 0.43
ACGTcount: A:0.20, C:0.10, G:0.21, T:0.49
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGTT
Found at i:85598906 original size:19 final size:18
Alignment explanation
Indices: 85598873--85598908 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
85598863 TTAAAAACTG
*
85598873 TTAAATTATAAAATATAA
1 TTAAATTAAAAAATATAA
85598891 TTAAATATAAAAAATATA
1 TTAAAT-TAAAAAATATA
85598909 TATATGTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TTAAATTAAAAAATATAA
Found at i:85603114 original size:21 final size:24
Alignment explanation
Indices: 85603090--85603137 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 24
85603080 GGAAAGAGAA
*
85603090 AGGGAAGA-CTGA-GAAA-GAAGG
1 AGGGAAGAGCGGATGAAAGGAAGG
85603111 AGGGGAAGAGCGGATGAAAGGAAGG
1 A-GGGAAGAGCGGATGAAAGGAAGG
85603136 AG
1 AG
85603138 AGAGTAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
21 1 0.05
22 7 0.32
23 3 0.14
24 5 0.23
25 6 0.27
ACGTcount: A:0.44, C:0.04, G:0.48, T:0.04
Consensus pattern (24 bp):
AGGGAAGAGCGGATGAAAGGAAGG
Found at i:85603784 original size:29 final size:31
Alignment explanation
Indices: 85603739--85603796 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
85603729 TTTTGTATCT
*
85603739 GTATTTTCACAAAATGTTTAGTATGGTATTC
1 GTATTTTCACAAAATGTTTAATATGGTATTC
85603770 GTATTTT-A-AAAATGTTTAATATGGTAT
1 GTATTTTCACAAAATGTTTAATATGGTAT
85603797 ATAATATGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 18 0.69
30 1 0.04
31 7 0.27
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.47
Consensus pattern (31 bp):
GTATTTTCACAAAATGTTTAATATGGTATTC
Found at i:85604014 original size:21 final size:21
Alignment explanation
Indices: 85603989--85604030 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
85603979 ATATTTAGTT
85603989 ATTTATTTTTAATTTAATTTA
1 ATTTATTTTTAATTTAATTTA
* *
85604010 ATTTATTTTTTATTTTATTTA
1 ATTTATTTTTAATTTAATTTA
85604031 TTTTTCTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTATTTTTAATTTAATTTA
Found at i:85604024 original size:16 final size:16
Alignment explanation
Indices: 85604005--85604035 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85603995 TTTTAATTTA
85604005 ATTTAATTTATTTTTT
1 ATTTAATTTATTTTTT
*
85604021 ATTTTATTTATTTTT
1 ATTTAATTTATTTTT
85604036 CTACATAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTTAATTTATTTTTT
Found at i:85605771 original size:41 final size:41
Alignment explanation
Indices: 85605689--85605783 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
85605679 TAGTTTATCT
** * * *
85605689 GATGATGCACTTATGTGTTAGCATACTTGTTCGGTATATCC
1 GATGATGCACTTACATGCTAGCATACTTGTTCAGTACATCC
*
85605730 GATGATGCACTTACATGCTAGTATA-TTGCTTCAGTACATCC
1 GATGATGCACTTACATGCTAGCATACTTG-TTCAGTACATCC
*
85605771 GATGATACACTTA
1 GATGATGCACTTA
85605784 TGTGCCAACA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
40 3 0.07
41 43 0.93
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (41 bp):
GATGATGCACTTACATGCTAGCATACTTGTTCAGTACATCC
Found at i:85605893 original size:43 final size:43
Alignment explanation
Indices: 85605828--85605933 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
85605818 TGTATATCCA
** * * * *
85605828 ATGATGCACTATGCATGGCAATATAATTGATTCGGTTTGTTCG
1 ATGATGCACTATGTGTGCCAATATAATTGATTCAGCTTGTCCG
* *
85605871 ATGATGCACCT-TGTGTGCCAATATAATTGCTTTAGCTTGTCCG
1 ATGATGCA-CTATGTGTGCCAATATAATTGATTCAGCTTGTCCG
85605914 ATGATGCACTATGTGTGCCA
1 ATGATGCACTATGTGTGCCA
85605934 GTATGTTTCC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 2 0.04
43 49 0.92
44 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.36
Consensus pattern (43 bp):
ATGATGCACTATGTGTGCCAATATAATTGATTCAGCTTGTCCG
Found at i:85613566 original size:42 final size:42
Alignment explanation
Indices: 85613503--85613629 Score: 159
Period size: 42 Copynumber: 3.0 Consensus size: 42
85613493 CTTCGTTTTC
** * * *
85613503 TCGATGCCATAGTTCAACTATGGTCTTACATATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
85613546 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
* *
85613587 TCGATGCCATAGCCCAGCTATGGTCTTACA-AGAATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
85613628 TC
1 TC
85613630 TCACTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 12 0.16
42 61 0.82
43 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:85613690 original size:47 final size:47
Alignment explanation
Indices: 85613586--85613710 Score: 137
Period size: 47 Copynumber: 2.7 Consensus size: 47
85613576 ATATTCATAT
* * * * *
85613586 ATCGATGCCATAGCCCAGCTATGGTCTTACA-AGAATCACATATCTC
1 ATCGATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCAC
* * * *
85613632 A-CTGATTCCATATCTCAGATATGGTCTTATACAGTAGCATATATCAC
1 ATC-GATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCAC
*
85613679 ATCGATGCCATATCCCATATATGGTCTTATAC
1 ATCGATGCCATATCCCAGATATGGTCTTATAC
85613711 GAAAATCACT
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
45 1 0.02
46 24 0.38
47 38 0.59
48 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (47 bp):
ATCGATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCAC
Found at i:85613771 original size:31 final size:31
Alignment explanation
Indices: 85613736--85613821 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 31
85613726 CTTGTCACTT
* * *
85613736 GTAGCCGAAGCTACCACTATTCACTGATTAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
85613767 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
85613798 GTAGCCGGAGCTACCACTTTTCAC
1 GTAGCCGGAGCTACCACTTTTCAC
85613822 GCTACCACTA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:85613827 original size:15 final size:15
Alignment explanation
Indices: 85613807--85613836 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
85613797 GGTAGCCGGA
*
85613807 GCTACCACTTTTCAC
1 GCTACCACTATTCAC
85613822 GCTACCACTATTCAC
1 GCTACCACTATTCAC
85613837 TGATCAGGTA
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:0.23, C:0.40, G:0.07, T:0.30
Consensus pattern (15 bp):
GCTACCACTATTCAC
Found at i:85613843 original size:46 final size:46
Alignment explanation
Indices: 85613776--85613867 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
85613766 GGTAGCCGGA
* *
85613776 GCTACCATTTTTCACTGATCAGGTAGCCGGAGCTACCACTTTTCAC
1 GCTACCACTATTCACTGATCAGGTAGCCGGAGCTACCACTTTTCAC
*
85613822 GCTACCACTATTCACTGATCAGGTAGCCGGAGCTACCATTTTTCAC
1 GCTACCACTATTCACTGATCAGGTAGCCGGAGCTACCACTTTTCAC
85613868 TGATCAGGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.29
Consensus pattern (46 bp):
GCTACCACTATTCACTGATCAGGTAGCCGGAGCTACCACTTTTCAC
Found at i:85613867 original size:31 final size:31
Alignment explanation
Indices: 85613822--85613961 Score: 226
Period size: 31 Copynumber: 4.5 Consensus size: 31
85613812 CACTTTTCAC
*
85613822 GCTACCACTATTCACTGATCAGGTAGCCGGA
1 GCTACCACTTTTCACTGATCAGGTAGCCGGA
*
85613853 GCTACCATTTTTCACTGATCAGGTAGCCGGA
1 GCTACCACTTTTCACTGATCAGGTAGCCGGA
*
85613884 GCTACCACTTTTCACTGATCAGGTAGCAGGA
1 GCTACCACTTTTCACTGATCAGGTAGCCGGA
* * *
85613915 ACTACCACTTTTCACTGATCAGGTAGCTGAA
1 GCTACCACTTTTCACTGATCAGGTAGCCGGA
85613946 GCTACCACTTTTCACT
1 GCTACCACTTTTCACT
85613962 TTTCACATAT
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 101 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (31 bp):
GCTACCACTTTTCACTGATCAGGTAGCCGGA
Found at i:85613872 original size:77 final size:77
Alignment explanation
Indices: 85613745--85613898 Score: 299
Period size: 77 Copynumber: 2.0 Consensus size: 77
85613735 TGTAGCCGAA
*
85613745 GCTACCACTATTCACTGATTAGGTAGCCGGAGCTACCATTTTTCACTGATCAGGTAGCCGGAGCT
1 GCTACCACTATTCACTGATCAGGTAGCCGGAGCTACCATTTTTCACTGATCAGGTAGCCGGAGCT
85613810 ACCACTTTTCAC
66 ACCACTTTTCAC
85613822 GCTACCACTATTCACTGATCAGGTAGCCGGAGCTACCATTTTTCACTGATCAGGTAGCCGGAGCT
1 GCTACCACTATTCACTGATCAGGTAGCCGGAGCTACCATTTTTCACTGATCAGGTAGCCGGAGCT
85613887 ACCACTTTTCAC
66 ACCACTTTTCAC
85613899 TGATCAGGTA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (77 bp):
GCTACCACTATTCACTGATCAGGTAGCCGGAGCTACCATTTTTCACTGATCAGGTAGCCGGAGCT
ACCACTTTTCAC
Found at i:85616733 original size:27 final size:27
Alignment explanation
Indices: 85616683--85616734 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
85616673 TGCAAACTAA
* ***
85616683 CTCCCTATTTATAATAACTTAAAAAAC
1 CTCCCTAATTATAATAAAAAAAAAAAC
85616710 CTCCCTAATTATAATAAAAAAAAAA
1 CTCCCTAATTATAATAAAAAAAAAA
85616735 TCAAAAGTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (27 bp):
CTCCCTAATTATAATAAAAAAAAAAAC
Found at i:85622606 original size:14 final size:14
Alignment explanation
Indices: 85622587--85622617 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
85622577 TTTTGTACAT
85622587 TAGATCATCCATTG
1 TAGATCATCCATTG
85622601 TAGATCATCCATTG
1 TAGATCATCCATTG
85622615 TAG
1 TAG
85622618 GATTAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (14 bp):
TAGATCATCCATTG
Found at i:85625530 original size:25 final size:25
Alignment explanation
Indices: 85625477--85625535 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
85625467 TAAAAATAGT
* * *
85625477 ATATGTTTTAAATTATTTTGAATGA
1 ATATGTTTTAAATTATATTAAAAGA
85625502 ATATGTTTTAAATTAATATTAAAAG-
1 ATATGTTTTAAATT-ATATTAAAAGA
*
85625527 ATATCTTTT
1 ATATGTTTT
85625536 TTTTTATTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 22 0.76
26 7 0.24
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (25 bp):
ATATGTTTTAAATTATATTAAAAGA
Found at i:85630392 original size:20 final size:20
Alignment explanation
Indices: 85630358--85630426 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
85630348 GACATTAAAA
*
85630358 TAAATTAAAATGTTTCTTCAT
1 TAAA-TAAAAAGTTTCTTCAT
* *
85630379 TAAATAAAAAGTTTATCTTAAA
1 TAAATAAAAAG-TT-TCTTCAT
* * *
85630401 TAAATAACAAGTTTATACAT
1 TAAATAAAAAGTTTCTTCAT
85630421 TAAATA
1 TAAATA
85630427 TTTTTGTGGA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
20 15 0.39
21 8 0.21
22 15 0.39
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.39
Consensus pattern (20 bp):
TAAATAAAAAGTTTCTTCAT
Found at i:85630404 original size:22 final size:24
Alignment explanation
Indices: 85630379--85630426 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
85630369 GTTTCTTCAT
85630379 TAAATAAAAAGTTTAT-C-TTAAA
1 TAAATAAAAAGTTTATACATTAAA
*
85630401 TAAATAACAAGTTTATACATTAAA
1 TAAATAAAAAGTTTATACATTAAA
85630425 TA
1 TA
85630427 TTTTTGTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.65
23 1 0.04
24 7 0.30
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.35
Consensus pattern (24 bp):
TAAATAAAAAGTTTATACATTAAA
Found at i:85633415 original size:23 final size:23
Alignment explanation
Indices: 85633389--85633440 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
85633379 AGGATTAACA
85633389 AATGTTAAAAGAAA-AGTTAAACG
1 AATGTTAAAAGAAACA-TTAAACG
85633412 AATGTTAAAAGAAACATTAAACG
1 AATGTTAAAAGAAACATTAAACG
85633435 AATGTT
1 AATGTT
85633441 GCATGACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 27 0.96
24 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.15, T:0.25
Consensus pattern (23 bp):
AATGTTAAAAGAAACATTAAACG
Found at i:85633420 original size:11 final size:12
Alignment explanation
Indices: 85633388--85633425 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
85633378 TAGGATTAAC
85633388 AAATGTTAAAAG
1 AAATGTTAAAAG
* *
85633400 AAAAGTTAAACG
1 AAATGTTAAAAG
85633412 -AATGTTAAAAG
1 AAATGTTAAAAG
85633423 AAA
1 AAA
85633426 CATTAAACGA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.61, C:0.03, G:0.16, T:0.21
Consensus pattern (12 bp):
AAATGTTAAAAG
Found at i:85634644 original size:53 final size:52
Alignment explanation
Indices: 85634586--85634718 Score: 153
Period size: 51 Copynumber: 2.6 Consensus size: 52
85634576 ATATCCTAAA
* *** *
85634586 TATGGTCTTATACGGAGTCATATTATCACAACACATTGATGCCATAGCCTAGC
1 TATGGTCTTATACGGAGTCACA-TATCACAACACACCAATGCCATAGCCCAGC
* **
85634639 TATGGTCTTATACGG-GTCACATATCATATTACACCAATGCCATAGCCCAGC
1 TATGGTCTTATACGGAGTCACATATCACAACACACCAATGCCATAGCCCAGC
*
85634690 TATGGTCTTATTCGGAAG-CACATATCACA
1 TATGGTCTTATACGG-AGTCACATATCACA
85634719 TCTTTTCCGT
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
51 37 0.54
52 15 0.22
53 16 0.24
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (52 bp):
TATGGTCTTATACGGAGTCACATATCACAACACACCAATGCCATAGCCCAGC
Found at i:85636205 original size:46 final size:44
Alignment explanation
Indices: 85636146--85636260 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
85636136 ACAGGACAGA
* *
85636146 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
85636192 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
85636236 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
85636261 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:85636241 original size:44 final size:45
Alignment explanation
Indices: 85636146--85636279 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
85636136 ACAGGACAGA
* *
85636146 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
85636192 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
85636236 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
85636280 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:85647220 original size:25 final size:25
Alignment explanation
Indices: 85647192--85647276 Score: 64
Period size: 25 Copynumber: 3.2 Consensus size: 25
85647182 AATTAAATTT
85647192 TATTTTAATTATCTTTAGGAAGTTA
1 TATTTTAATTATCTTTAGGAAGTTA
* * ** * *
85647217 TATTTTTAAATT-TGGTATGAATATAATTT
1 TA-TTTT-AATTAT-CT-TTAGGA-AGTTA
85647246 TATTTTAATTATCTTTAGGAAGTTA
1 TATTTTAATTATCTTTAGGAAGTTA
85647271 TATTTT
1 TATTTT
85647277 TAAATTTGGT
Statistics
Matches: 42, Mismatches: 12, Indels: 12
0.64 0.18 0.18
Matches are distributed among these distances:
25 11 0.26
26 8 0.19
27 10 0.24
28 8 0.19
29 5 0.12
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (25 bp):
TATTTTAATTATCTTTAGGAAGTTA
Found at i:85647224 original size:31 final size:31
Alignment explanation
Indices: 85647189--85647278 Score: 88
Period size: 31 Copynumber: 3.2 Consensus size: 31
85647179 TTTAATTAAA
85647189 TTTTATTTTAATTATCTTTAGGAAGTTATAT
1 TTTTATTTTAATTATCTTTAGGAAGTTATAT
** * *
85647220 TTTTA----AATT-T-GGTATGAA--TATAA
1 TTTTATTTTAATTATCTTTAGGAAGTTATAT
85647243 TTTTATTTTAATTATCTTTAGGAAGTTATAT
1 TTTTATTTTAATTATCTTTAGGAAGTTATAT
85647274 TTTTA
1 TTTTA
85647279 AATTTGGTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 16
0.64 0.12 0.24
Matches are distributed among these distances:
23 9 0.21
25 5 0.12
26 1 0.02
27 8 0.19
28 1 0.02
29 5 0.12
31 14 0.33
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (31 bp):
TTTTATTTTAATTATCTTTAGGAAGTTATAT
Found at i:85647268 original size:54 final size:54
Alignment explanation
Indices: 85647187--85647324 Score: 258
Period size: 54 Copynumber: 2.6 Consensus size: 54
85647177 GTTTTAATTA
85647187 AATTTTATTTTAATTATCTTTAGGAAGTTATATTTTTAAATTTGGTATGAATAT
1 AATTTTATTTTAATTATCTTTAGGAAGTTATATTTTTAAATTTGGTATGAATAT
85647241 AATTTTATTTTAATTATCTTTAGGAAGTTATATTTTTAAATTTGGTATGAATAT
1 AATTTTATTTTAATTATCTTTAGGAAGTTATATTTTTAAATTTGGTATGAATAT
* *
85647295 AATTTTATTTTAATTATTTTTACGAAGTTA
1 AATTTTATTTTAATTATCTTTAGGAAGTTA
85647325 GTTGTTTTTA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 82 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.54
Consensus pattern (54 bp):
AATTTTATTTTAATTATCTTTAGGAAGTTATATTTTTAAATTTGGTATGAATAT
Found at i:85650341 original size:16 final size:16
Alignment explanation
Indices: 85650322--85650358 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
85650312 CCTTTGTCGC
* *
85650322 CTTTTTATTTTATTTT
1 CTTTTAATTCTATTTT
85650338 CTTTTAATTCTATTTT
1 CTTTTAATTCTATTTT
85650354 CTTTT
1 CTTTT
85650359 CAAAAGCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.76
Consensus pattern (16 bp):
CTTTTAATTCTATTTT
Found at i:85658946 original size:10 final size:9
Alignment explanation
Indices: 85658935--85658993 Score: 55
Period size: 10 Copynumber: 6.1 Consensus size: 9
85658925 AAAAATAGAT
85658935 ATTGTAAAA
1 ATTGTAAAA
85658944 TATTGTAAAAA
1 -ATTGT-AAAA
*
85658955 ATTATAAAA
1 ATTGTAAAA
* *
85658964 ATTATTAGAA
1 ATT-GTAAAA
85658974 ATTGTAAAA
1 ATTGTAAAA
85658983 GATTGTAAAA
1 -ATTGTAAAA
85658993 A
1 A
85658994 AATTATTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
9 12 0.29
10 25 0.61
11 4 0.10
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (9 bp):
ATTGTAAAA
Found at i:85658955 original size:39 final size:39
Alignment explanation
Indices: 85658911--85659006 Score: 133
Period size: 39 Copynumber: 2.5 Consensus size: 39
85658901 TTAAAAACTA
* *
85658911 TAAAAAAATTATAAAAA-AATAGATATTGTAAAATATTG
1 TAAAAAAATTATAAAAATAATAGAAATTGTAAAAGATTG
*
85658949 T-AAAAAATTATAAAAATTATTAGAAATTGTAAAAGATTG
1 TAAAAAAATTATAAAAA-TAATAGAAATTGTAAAAGATTG
*
85658988 TAAAAAAATTATTAAAATA
1 TAAAAAAATTATAAAAATA
85659007 GTAAAAACTA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
37 15 0.29
38 1 0.02
39 21 0.41
40 14 0.27
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.32
Consensus pattern (39 bp):
TAAAAAAATTATAAAAATAATAGAAATTGTAAAAGATTG
Found at i:85658977 original size:29 final size:29
Alignment explanation
Indices: 85658945--85659013 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 29
85658935 ATTGTAAAAT
*
85658945 ATTGTAAAAAAT-TATAAAAATTATTAGAA
1 ATTGTAAAAAATGTAAAAAAATTATTA-AA
*
85658974 ATTGTAAAAGATTGTAAAAAAATTATTAAA
1 ATTGTAAAA-AATGTAAAAAAATTATTAAA
*
85659004 ATAGTAAAAA
1 ATTGTAAAAA
85659014 CTATTTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.29
30 12 0.34
31 13 0.37
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (29 bp):
ATTGTAAAAAATGTAAAAAAATTATTAAA
Found at i:85658981 original size:19 final size:20
Alignment explanation
Indices: 85658930--85658982 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
85658920 TATAAAAAAA
* *
85658930 TAGATATTGTAAAATATTGT
1 TAGAAATTGTAAAATATTAT
* * *
85658950 AAAAAATTATAAAA-ATTAT
1 TAGAAATTGTAAAATATTAT
85658969 TAGAAATTGTAAAA
1 TAGAAATTGTAAAA
85658983 GATTGTAAAA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (20 bp):
TAGAAATTGTAAAATATTAT
Found at i:85660283 original size:17 final size:17
Alignment explanation
Indices: 85660261--85660300 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
85660251 TTTTATAATG
* *
85660261 TATAATATCAATATATT
1 TATAATATAAATAAATT
85660278 TATAATATAAATAAATT
1 TATAATATAAATAAATT
85660295 TATAAT
1 TATAAT
85660301 TTTTTCCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
TATAATATAAATAAATT
Found at i:85660312 original size:27 final size:30
Alignment explanation
Indices: 85660272--85660353 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 30
85660262 ATAATATCAA
**
85660272 TATATTTATAATATAAATAAATTTAT-AAT
1 TATATTTCCAATATAAATAAATTTATAAAT
* *
85660301 T-T-TTTCCAATAT-GAT-GATATTATAAAT
1 TATATTTCCAATATAAATAAAT-TTATAAAT
85660328 TATATTTCCAATATAAATAAATTTAT
1 TATATTTCCAATATAAATAAATTTAT
85660354 CATATAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
25 2 0.05
26 6 0.15
27 12 0.29
28 2 0.05
29 11 0.27
30 6 0.15
31 2 0.05
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (30 bp):
TATATTTCCAATATAAATAAATTTATAAAT
Found at i:85668171 original size:34 final size:34
Alignment explanation
Indices: 85668128--85668196 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
85668118 AATGGAACGA
85668128 TGATGATTGATCATTGATGGATACCGTTGCCATG
1 TGATGATTGATCATTGATGGATACCGTTGCCATG
85668162 TGATGATTGATCATTGATGGATACCGTTGCCATG
1 TGATGATTGATCATTGATGGATACCGTTGCCATG
85668196 T
1 T
85668197 TTTCTTTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.36
Consensus pattern (34 bp):
TGATGATTGATCATTGATGGATACCGTTGCCATG
Found at i:85679161 original size:480 final size:480
Alignment explanation
Indices: 85676516--85683397 Score: 7902
Period size: 493 Copynumber: 14.1 Consensus size: 480
85676506 TTCGTCACCC
* *
85676516 AACAAACCCAACCATGTGTAATGCATAATTGAATATCAATCATGTAGCATATCATGCTAAACAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* *
85676581 ACAATATCGGTAAGAAAATCATATCAATCATGTAGCATAGCAAGCTAAACAGTACAGTAACAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTA
** * *
85676646 ACAATTGTTTAATCAACATAATTTAGTATAATAGTTTTGGAGACACGATTTTTATGTAATCACTA
131 ACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTA
* * ** *
85676711 TTAACAATAGCAATCAAGACATGTTTTTATGCAACCAACTTCATATCAATCACGATCATATAATC
196 TTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAATC
* * * * * * *
85676776 AATTAATCAGGAATAAAGACTTAATCATGACTTTAGGGCACTAACATGTAGGGAATTATTCATGG
261 AATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGG
* * * *
85676841 ACTAAAATGAAACATATAGCAAAATAGTGGAGTAACAGTGGAATAGGGGCTCACACGACTGTGTG
326 ACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTCACACGGCTGTGTG
* *
85676906 GGGAGGTCGTGTGAGGCGGTTTAGACTATGTTACTAAGTTACACGGCTGTGTAACTCATAGTGAC
391 GGGAGGCCGTGTGAGG-GGTTTAGACCATGTTACT--G----A-----GT-T-A--CATA--G-C
* * * *
85676971 TGTGTAACTCACTATGACCATGTGCAAATAAAAAAAAAATTTCCAA
437 TGTGTAACTCACTGTGACCGTGTGCAAAT--CAAAAAAATTCCCAA
* * * *
85677017 AACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATAACATGCTAAAAAAT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* * *
85677082 ACAATATAGGTAAGAGAATCATATCAATCATGTAGCATAACAAGCTAAACAGTACAATAACAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAG-----T-ACAGTA
*
85677147 ACAGTAATAGTAAAAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTC
125 AC------AGTAACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTC
* *
85677212 ATGTAATCACTATTAACAATAGCAATCAAGGCATGCTTACATGGAACCAATTTCATATCAATTAC
184 ATGTAATCACTATTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCAC
* ** *
85677277 GATCATATAATCAATTAATCAATAATGAAGTCTTAATCATGATTTTATAGCTCTAACATGTAAGG
249 GATCATATAATCAATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGG
* * * * * * *
85677342 AATTATTTAGGGATTAAAATGAAACATCTCGTAAAATAATGGAGAAACAGTGGAATA-GGGCTCA
314 AATTACTCAGGGACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTCA
* ** * * * **
85677406 CATGGCTGTGTGAAGAGGCCGTGTGAGGGGGTTTAGACCGTGTTACTGAGTTATATGGCCATGTA
379 CACGGCTGTGTGGGGAGGCCGTGTGA-GGGGTTTAGACCATGTTACTGAGTTACATAGCTGTGTA
* * * * *
85677471 ACTCATTGTGACCATATGCAAATAAAAAAAATTTCTCAA
443 ACTCACTGTGACCGTGTGCAAATCAAAAAAA-TTCCCAA
* * * * *
85677510 AACAAACCTAACTATGTGTAATGCATATTTGAATACCAATCATGTGGCATATCATGCTAAACAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* * *
85677575 -CTAATATAGGTAAGAGATTCATATCAATCATGTAGCATAGCATGCTAACCAGTATAGCAACAGT
66 AC-AATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAG--T----ACAGT
* * * *
85677639 AACAATAATAGTAACAATTTTTTAATCAACATGCTTTAGTATAAAAGTTTTGAAGACAGGATTTT
124 AAC------AGTAACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTT
* * * * *
85677704 CATGTAATTACTATTAACAATACCAATCAAGGCACGCTTACATGCGACTAATTTCATATCAATCA
183 CATGTAATCACTATTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCA
* * * * *
85677769 CGATCATATAATCAATTAATCATGAATGAAGTTTTAATTATGATTTTAGGGCTCAAACATATAGG
248 CGATCATATAATCAATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGG
** ** *
85677834 GAATTACTCATTGACTAAAATGAAACATATCGCAAAATAGTGGAA-AAACAGTACAATAGGGGTT
313 GAATTACTCAGGGACTAAAATGAAACATATCGCAAAATAGT-GAAGAAACAGTGGAATAGGGGCT
* * * * *
85677898 CACACGGCAGTGTAGGGAGACCGTGTGGGGGGTTTAGACCGTGTTACTGAGTTACATGACCGAGT
377 CACACGGCTGTGTGGGGAGGCCGTGTGAGGGGTTTAGACCATGTTACTGAGTTACAT-----AG-
* * *
85677963 AACTCACTATGACCATGTAAATCATTGTGACCATGTGCAAATCGAAAAAAATTTCCCAA
436 ------C--TG----TGTAACTCACTGTGACCGTGTGCAAATC-AAAAAAA-TTCCCAA
* * * *
85678022 AACAAACTCAACCATGTGTAATGCGTAATTGAATACCAATCATGTAGCATATCATGCTAAACAAT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* * *
85678087 ACAATATCGGTAAGAGAATCATATCAATTATGTAGCATAGCATGCTACATAGTACAGTAACAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTA
* * *
85678152 ATAATTGTTTAATTAACATG-TTTAGTATAACAGTTTTGGAGACACAATTTTCATGTAATCACTA
131 ACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTA
* * *
85678216 TTAACAATAACAATCAAGGCATGCTTATATGCAACCAATTTCATATCGATCACGATCATATAATC
196 TTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAATC
* * * *
85678281 AATTAATC-AGTAATGAAATCTTAATCATAATTTTAGGACTCTAACATGTAGAGAATTACTCTA-
261 AATTAATCAAG-AATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTC-AG
** * * * *
85678344 GGAAAAAAATCAAACATATCGCAAAATAATG--GAAAAAGTGGAATAGGGGCTCACACGGTTGTG
324 GGACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTCACACGGCTGTG
* * * *
85678407 TGGGGAGGCCGTGTGAGGGGATTTAGACCATGTTACTAAGTAACAT-GGTCGTGTAACTCACTTT
389 TGGGGAGGCCGTGTGAGGGG-TTTAGACCATGTTACTGAGTTACATAGCT-GTGTAACTCACTGT
*
85678471 GACCGTGTGCAAATCAAAAATAACTTTCCAA
452 GACCGTGTGCAAATCAAAAA-AA-TTCCCAA
* * * *
85678502 AACAAACCCAACTACGTGTAATGCATAATTGAATAACAATCATGTAGGATATCATGCTACACAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* * * * *
85678567 AAAATATCGGTAAAAGAATCATATTAATCATATAGCATAGCACGCTAAACAGTACAGTAACAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTA
* * * *
85678632 ACGATTGTTTAATCAACATTCTTTAGTATAACTGTTTTGGATACACGATTTTCATGTAATCACTA
131 ACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTA
*
85678697 TTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGAACATATAATC
196 TTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAATC
*
85678762 AATTAATCAGGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGG
261 AATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGG
* * * *
85678827 GCTAAAATGATACATATAGTAAAATAGTGAAGAAACAGTGGAATAGGGGCTCACACGGCTGTGTG
326 ACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTCACACGGCTGTGTG
* *
85678892 GGGAGGCCGTGTGAGAGGGTTTAGACCATGTTACTCAGTTACATAGCTGTGTAACTCACCGTGAC
391 GGGAGGCCGTGTGAG-GGGTTTAGACCATGTTACTGAGTTACATAGCTGTGTAACTCACTGTGAC
*
85678957 TGTGTGCAAAT-AAAAAAATTCCCAA
455 CGTGTGCAAATCAAAAAAATTCCCAA
* * * * *
85678982 AATAAACCCAACCACGTGTAATGCATAACTGAATACCAAACATGTAGCATGTCATGCTAAATAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
*
85679047 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCAAGCTAAACAGTAC-GATAACAGT
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTACAG-TAACAGT
* *
85679111 AACAATTATTTAATCAATATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACT
130 AACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACT
* * * *
85679176 ATTAACAATAGCAATCAAAGTATACTTACATGCAACCAATTTCATATCAATCACAATCATATAAT
195 ATTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAAT
* * *
85679241 CAATTAATCAAGAATGAAGACTTAATCA-CA----A------T--CA--TAGCGAATTACTCAGG
260 CAATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGG
* * *
85679291 GACTAAAATGAAACATATCGCAAAATAGT-AGAGAAACAGTGGAATAAGGACTCACACGACTGTG
325 GACTAAAATGAAACATATCGCAAAATAGTGA-AGAAACAGTGGAATAGGGGCTCACACGGCTGTG
* * * *
85679355 -GCGGGAAGCCGTGAGAGGGGATTTAGACCATGATACTGAGTTACATAGCCGTGTAACTCACTGT
389 TG-GGGAGGCCGTGTGAGGGG-TTTAGACCATGTTACTGAGTTACATAGCTGTGTAACTCACTGT
* * *** *
85679419 GACCGTGTGTAACTCGAAAATTTTTTTCCAA
452 GACCGTGTGCAAATC-AAAA-AAATTCCCAA
85679450 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* * * * *
85679515 AAAATATCAGTAAGAGAATCATATCAATCATGTAGCATAACGTGCTAAACTGTACAGTAACAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTA
* * * * *
85679580 GCAATTGTTTAATCAACATACTTTAGGATAACAG-TTTAGAGACATGATTTTCATGTAATCACTA
131 ACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTA
* * * * * * *
85679644 TTAACAATACCAATCAATGCATGCTTATAGGTAACCAATATCATGTCAATCACGATCATATAATC
196 TTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAATC
* * * *
85679709 AATTAATCAAGATTGAAGTCTTAATCATGATTTTAGCGCTCTAACATGCAGGGAA-TATTCAGGG
261 AATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGG
* * * * * * *
85679773 ACTAAAATGATACATATCACAAAATAATGGAGAAACAATGGAATAGGGGATCACACAGCTGTGTG
326 ACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTCACACGGCTGTGTG
* * ** ** * *
85679838 AGGAGGCCGTGTGAGAGGGTTTAGACCATGTTA-GGAGTTACACGGCTAAGTAACTCATTGTGAT
391 GGGAGGCCGTGTGAG-GGGTTTAGACCATGTTACTGAGTTACATAGCTGTGTAACTCACTGTGAC
* *
85679902 TGTGTGCAAATCGAAAAAAAATTCCTAA
455 CGTGTGCAAATC--AAAAAAATTCCCAA
* * * * *
85679930 AACGAACCTAACCACGTGTAATGCATAACTGAATACCAAACATGTACCATATCATGCTAAACAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* * *
85679995 ACAATATCAGTAAGAGAATCATATCAATCATGGAGCATAGCATGCTAAATAGTATAGTAACAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCT--A-A--ACAGT-ACAGTA
* *
85680060 ACAGTAACAATTGTTTAATCAACATGATTTAGTATAACAGTTTTGGAGACACAATTTTCATGTAA
125 ACAGTAACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAA
* * *
85680125 TCACTATTAACAATAGCAATCAAGGCATACTTACATGCAACCAATTTCATATCAATTACGATTAT
190 TCACTATTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCAT
* *
85680190 ATAATCAATTAATCAATAATGAAGTCTTAATCATGATTTTAAGGCTCTAACATGTAGGGAATTAC
255 ATAATCAATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTAC
* * ** * * * *
85680255 TTAGGGACTAAAATGAAACATCTTACAAAATAATGGAGAAACAGTAGAATA-GGGCTCACACAGC
320 TCAGGGACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTCACACGGC
* * *
85680319 TGTGTGGGGAGGCCGTGTGAGGGGGTTTAGACCGTGTTACTGAGTTACAT-GGTCGTGTAACTTA
385 TGTGTGGGGAGGCCGTGTGA-GGGGTTTAGACCATGTTACTGAGTTACATAGCT-GTGTAACTCA
*
85680383 CTGTGACCATGTGCAAAT-AGAAAAAATTTCCCAA
448 CTGTGACCGTGTGCAAATCA-AAAAAA-TTCCCAA
* * **
85680417 AACAAACCCAACCACTTGTAATGTATTTTTGAATACCAATCATGTAGCATATCATGCTAAACAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* *
85680482 ACAATATAGGTAAGAGATTCATATCAATCATGTAGCATAGCATGCTAAACAGTATAATAACAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAG-----T-ACAGTA
* * * *
85680547 ACAGTAATAGTAACAATTGTTTAATCAACATGTTTTAGTATAACAGTTTTGAAGGCATGATTTTC
125 AC------AGTAACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTC
* * * * * *
85680612 ATGTAATTACTATTAACAATAGCAACCAAGCCATGCTTATATGTAACCAATTTCATATCAATCAT
184 ATGTAATCACTATTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCAC
* * * **
85680677 GATCCTATAATCAATTAATCACA-AATGATGTTTTAATCATGATTTTAGGGCTCTAACATGTAAA
249 GATCATATAATCAATTAATCA-AGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGG
* * * * * * *
85680741 GAATTACTCATGAAATAAAATGAAACATATCACAAAATAGTGGAGAAACAGTGTAATAGGGGTTC
313 GAATTACTCAGGGACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTC
* * * *** * * *
85680806 ATACGGTTGTCTAAAGAGGCCGTGTGAAGGGGTTTAGACCGTGTTAC--A-TGAC----C-GAGT
378 ACACGGCTGTGTGGGGAGGCCGTGTG-AGGGGTTTAGACCATGTTACTGAGTTACATAGCTGTGT
* *
85680863 AACTCACTGCGACCGTGTGCAAATAAAAAAAATTTCCCAA
442 AACTCACTGTGACCGTGTGCAAATCAAAAAAA-TTCCCAA
* * * *
85680903 CACAAACCCAACCACGTGTAATGCATAACTGAATACCAATCATGTAGCATATCAAGCTAAATAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
** * *
85680968 ACAATATCGGTAAGAGAATCATATCAATCATACAGCATAGCATCCTAAACAGTACAGTAATAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTA
* * * *
85681033 ACAATTGTTTAATCAACATGCTTTAGTATAACTGATTTGGAGACACGATTTTCATGTAATTACTG
131 ACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTA
* *
85681098 TTAACAATAGCAATCAAGGCATGCTTACATGTAACCAATTTCATGTCAATCACGATCATATAATC
196 TTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAATC
* *
85681163 AATTAATCAATAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTTAGGG
261 AATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGG
* * * * * **
85681228 ACAAAAATTATACATATCGTAAAATAGTGCAGAAACAGTATAATAGGGGCTCACACGGCTGTGTG
326 ACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTCACACGGCTGTGTG
* * * *
85681293 AGGAGGCCTTGTGAGGGGGTTTAGACCATGTTACTGAGTTACATGGCCGTGTAACTCACTGTGAC
391 GGGAGGCCGTGTGA-GGGGTTTAGACCATGTTACTGAGTTACATAGCTGTGTAACTCACTGTGAC
* *
85681358 CGTATGCAAATCGAAAATAACTTCCCAA
455 CGTGTGCAAATC-AAAA-AAATTCCCAA
* * * *
85681386 AACAAACCCAACTACGTGTAATGCATAATTGAATTA-CAAACATGTAGCATATCATGTTAAACAA
1 AACAAACCCAACCACGTGTAATGCATAATTGAA-TACCAATCATGTAGCATATCATGCTAAACAG
*
85681450 TACATTATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTGTAGTAACAGT
65 TACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAAC-----AGT-ACAGT
85681515 AACAGTAACGGTAACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTT
124 AAC----A--GTAACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTT
* * * * ** *
85681580 CATGTAATCACTATTGACAATACCAGTCAAAGCATGCTTACATATAGCCAATTTCATATCAATCA
183 CATGTAATCACTATTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCA
* ** *
85681645 CGATCATATAATCAATTAATCAAGAATGAAGACTTAATCATGATTTTAAAGCTCTAACATTTAGG
248 CGATCATATAATCAATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGG
* * * ** * * ** *
85681710 GAATTACTCAGGGACTAAAATGATAGATATC-CTAAAATTGCAAAGAAACAATGGAACAAAGACT
313 GAATTACTCAGGGACTAAAATGAAACATATCGC-AAAATAGTGAAGAAACAGTGGAATAGGGGCT
* * * * * * * * *
85681774 CACACGGCTGCGTGCGGAGGCTGTGAGAGGGGCTTATACCGTATTACTAAGTTACATA-CTCGTG
377 CACACGGCTGTGTGGGGAGGCCGTGTGAGGGGTTTAGACCATGTTACTGAGTTACATAGCT-GTG
85681838 TAACTCACTGTGACCGTGTGCAAATCAAAAAAAATTCCCAA
441 TAACTCACTGTGACCGTGTGCAAATC-AAAAAAATTCCCAA
* * * * *
85681879 AACAAACCTAACAACGTGTAATGCATAATTTAATACCAGTCATATAGCATATCATGCTAAACAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* * * *
85681944 ACAATATCAGTAAGAGAATCATATCAATCATGTAACATAACATGCTAAACAGTACAGTAATAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTA
* * * * * **
85682009 ATAATTGTTTAATCAACATGCTTTAGTATAACAGGTTTGGAGAGAAGATTTTTATGTAATCGTTA
131 ACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTA
* * * *
85682074 TTAACAATAGCAACCATGGCATGCTTACATGTAACCAATTTCATATCAATCACGATCATATAACC
196 TTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAATC
* * * ** * * *
85682139 AATTAATCAATAATGAAGTCTGAATCATGATTTTAGGGCTCTAACATGCATAGAATGT-TTTAAG
261 AATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAAT-TACTCAGG
* * *
85682203 GACTAAAATGATACATATCGCAAAATAATGGAA-AAACAGTGGAATAGGGGCTCACACAGCTGTG
325 GACTAAAATGAAACATATCGCAAAATAGT-GAAGAAACAGTGGAATAGGGGCTCACACGGCTGTG
* * * ** * *
85682267 -GAGGAAGGCCGTGTGAGGGATTTAAACTGTGTTACTGAGTTATATGGCTGTGTAACTCACTGTG
389 TG-GGGAGGCCGTGTGAGGGGTTTAGACCATGTTACTGAGTTACATAGCTGTGTAACTCACTGTG
* * *
85682331 ACTGTGTGCAAATTGAAAAAAAATCCCAA
453 ACCGTGTGCAAA-TCAAAAAAATTCCCAA
* * * * *
85682360 AACAAACCTAGCCACATGTAAGGCATAATTAAATACCAATCATGTAGCATATCATGCTAAACAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* *
85682425 ACAATATCAGTAAGAGAATCATATCAATCATGTAGCATAGCACGCTAAACAGTACAGTAACAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCT--A-A--ACAGT-ACAGTA
* *
85682490 ACAGTAACAATTGTGTAATCAACATGTTTTAGTATAACAGTTTTGGAGATC-CGATTTTCATGTA
125 ACAGTAACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGA-CACGATTTTCATGTA
* * *
85682554 ATCACTATTAACAATAGCAATCAAGGTATGCTTACATGCAACCAATTTCATACCAATCACAATCA
189 ATCACTATTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCA
* * *
85682619 TATAATCAATTAATCAGGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACAGGTAGGGAATTT
254 TATAATCAATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTA
* * * * * * * *
85682684 CTCTGGGACTAAAATGATACATATCCCAAAATAGTGGAGATACAGTGTAGTAGGGGCACACACGG
319 CTCAGGGACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTCACACGG
* * * * *
85682749 CTGTGTGGGGAGGCCGTGTGAGGGTGTTTAAACCGTGTTACTCAATTACATAGCTGTCTAACTCA
384 CTGTGTGGGGAGGCCGTGTGAGGG-GTTTAGACCATGTTACTGAGTTACATAGCTGTGTAACTCA
* * *
85682814 TTATGACC-TAGTGCAAATCAAAAAATATTTTCCAA
448 CTGTGACCGT-GTGCAAATCAAAAAA-A-TTCCCAA
* * *
85682849 AACAAACCCAACCACGTGTAATGCGTAATTGAATAACAATCATGTAGCATATCATGCTAAACTGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* * *
85682914 ACAATATCGGTAAGAG-A--A-ATCAATCATGTAACATAGCAAGGTAAACAGTACTA-TAACAGT
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTAC-AGTAACAGT
* ** *
85682974 AACAATTGTTTAATCAACATGCTTTAATATAATTGTTTTAGAGACACGATTTTCATGTAATCACT
130 AACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACT
* * * * * *
85683039 ATTAACAATATCAATCAATGCATACTTACATGCAACAAATTTCATACCAATCAAGATCATATAAT
195 ATTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAAT
* * * *
85683104 CAATTAATCAGGAGTGAAGTCTTAATCATGATTTTAGGGCTTTAACATGTAGGGAATTACTTAGG
260 CAATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGG
* * * * * *
85683169 AACTAAAATGATACATAACCCAAAATAG-GAGAGAAACAGTGGAATAGGGGCTCACAAGCCTGTG
325 GACTAAAATGAAACATATCGCAAAATAGTGA-AGAAACAGTGGAATAGGGGCTCACACGGCTGTG
* * * * * * * * *
85683233 TGGGGAGACCTTGTAAGGGGTCTAAACCATGTTACTCAGTTACATAGCTATGTAACTTACTATGA
389 TGGGGAGGCCGTGTGAGGGGTTTAGACCATGTTACTGAGTTACATAGCTGTGTAACTCACTGTGA
* * *
85683298 CCGTATGCAGATCGAAAAACATTTCCCAA
454 CCGTGTGCAAATC-AAAAA-AATTCCCAA
* * *
85683327 AACAAAACCAACCACGTGTAAGGCATACTTGAATACCAATCATGTAGCATATCATGCTAAACAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
*
85683392 AAAATA
66 ACAATA
85683398 ATAGTAGCAG
Statistics
Matches: 5463, Mismatches: 756, Indels: 347
0.83 0.12 0.05
Matches are distributed among these distances:
464 5 0.00
465 133 0.02
467 114 0.02
468 153 0.03
469 2 0.00
472 1 0.00
473 2 0.00
474 258 0.05
475 1 0.00
476 1 0.00
477 3 0.00
478 121 0.02
479 265 0.05
480 583 0.11
481 658 0.12
482 52 0.01
483 211 0.04
484 12 0.00
485 26 0.00
486 199 0.04
487 555 0.10
488 131 0.02
489 84 0.02
490 2 0.00
491 3 0.00
492 13 0.00
493 682 0.12
494 152 0.03
495 241 0.04
497 44 0.01
498 25 0.00
499 174 0.03
500 23 0.00
501 110 0.02
505 1 0.00
506 10 0.00
507 8 0.00
510 2 0.00
511 25 0.00
512 160 0.03
513 218 0.04
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (480 bp):
AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTA
ACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTA
TTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAATC
AATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGG
ACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTCACACGGCTGTGTG
GGGAGGCCGTGTGAGGGGTTTAGACCATGTTACTGAGTTACATAGCTGTGTAACTCACTGTGACC
GTGTGCAAATCAAAAAAATTCCCAA
Found at i:85685913 original size:480 final size:479
Alignment explanation
Indices: 85683363--85687668 Score: 5175
Period size: 479 Copynumber: 9.0 Consensus size: 479
85683353 ACTTGAATAC
* * * * * * *
85683363 CAATCATGTAGCATATCATGCTAAACAGTAAAATAATAGTAGCAGTAACACTTGTGTAATAAAAA
1 CAATCATGTAGCATAGCATGCTAAACAG-----T-ACAGTAACAGTAACAATTGTTTAAT-CAAC
* * * *
85683428 ATGCTTTAGTACAACAATTTTGGAGACACGATTTTCATGTAATCACTATTAACAATATCGATCAA
59 ATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCAA
* * * * * *
85683493 GGCGTGTTTACATGCAACCAATTTCATACCAATCATGATCATATAATAAATTAATCAGGAACGAA
124 GGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAATCAATTAATCAGGAATGAA
** * * * * *
85683558 AACTTAATCATGATTTTAGAGCTCTAACATATAGAGAATTACTCAGGGACTAATATGATATATAT
189 GTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATA-
* * * * * * * * *
85683623 TACAAAATAGTGGAGAAAAAATGAAATATTGG-CCCACACAGATGTGTGGGGAGGCCGTGTGAGG
253 TCCAAAATAGTGGAGAAACAGTGGAATA-AGGACTCACACGGCTGTGT-GGGAGGCCGTGAGA-G
* *
85683687 GGGTTTAAACCGTGTTACTCAGTTACATTGCTGTGTAACTCACTATGACCGTGTGCAAATCAAAA
315 GGGTTTAAACCGTGTTACTGAGTTACATAGCTGTGTAACTCACTATGACCGTGTGCAAATCAAAA
* * * *
85683752 AACATTTCCCAAAATAAACCCAACCACGTGTAATGCATAATTAAATACCAATCATGTAGCATATC
380 AA-AATTCCCAAAACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATATC
* *
85683817 ATGCTAAACAGGACAATATCGGTAAGAGAATAATAT
444 ATGCTAAACAGTACAATATCGGTAAGAGAATCATAT
* * * * *
85683853 CAATAATGTAACATAGCAAGCTAAGCAGTACAGTAACAATAACAATTGTTTAATCAACATGCTTT
1 CAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACATGCTTT
* * * *
85683918 AGTGTAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTGACAATAGCAATTAAAGCATGC
66 AGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCAAGGCATGC
* * * *
85683983 TTACACGCAACCAATTTCATATCAATCCCGATCATATAACCAATTAATCAAGAATGAAGTCTTAA
131 TTACATGCAACCAATTTCATATCAATCACGATCATATAATCAATTAATCAGGAATGAAGTCTTAA
* * * * *
85684048 TCATAATTTTAGGACTTTAACATGTAGGGAATTACTCAGGGACTAAAATGAAACATATCGTAAAA
196 TCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATATC-CAAAA
* * * *
85684113 TAGTGGTGAAATAGTGGAATCAGGACTCACACGGCTGTGTGGGGAGGCCGTGAGAGTGGGTTTAT
260 TAGTGGAGAAACAGTGGAATAAGGACTCACACGGCTGTGT-GGGAGGCCGTGAGAG-GGGTTTAA
*
85684178 ACCGTGTTACTGAGTTACAT-GCCCGTGTAACTCACTATGACCGTGTGCAAATCAAAAAAAATTC
323 ACCGTGTTACTGAGTTACATAG-CTGTGTAACTCACTATGACCGTGTGCAAATCAAAAAAAATTC
* *
85684242 CCAAAACAAACCCAA-CA-ATGTGAAATGCATAATTGAATATCAATCATGTATCATATCATGCTA
387 CCAAAACAAACCCAACCACATGT--AATGCATAATTGAATACCAATCATGTAGCATATCATGCTA
* *
85684305 AACAGTACAATATCAGTAAGCGAATCATAT
450 AACAGTACAATATCGGTAAGAGAATCATAT
* * *
85684335 CAATCATGTAGCATAACATGCTAACCAGTATAGTAACAGTAACAATTGTTTAATCAACATGCTTT
1 CAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACATGCTTT
* * * *
85684400 AGTATAATAGGTTTGGAGACAAGATTTTCATGTAATCACTATTAACAATAGCAATCAATGCATGC
66 AGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCAAGGCATGC
*
85684465 TTACATGCAACCAATTTCATGTCAATCACGATCATATAA-CTAATTAATCAGGAATGAAGTCTTA
131 TTACATGCAACCAATTTCATATCAATCACGATCATATAATC-AATTAATCAGGAATGAAGTCTTA
* * * * * * *
85684529 ATTATGATTTTAGGGCTCTAACATGCATGGAAATATTCAGGGAGTAAAATGATACATATCAAAAA
195 ATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATATC--CAA
* * * * * *
85684594 AATAATGGAGAAACAGTGGAATAAGGGCTCACACAGCTGTGTAGGAAGGCCGTGTGAAGGGTTTA
258 AATAGTGGAGAAACAGTGGAATAAGGACTCACACGGCTGTGT-GGGAGGCCGTGAGAGGGGTTTA
* * * *
85684659 AACTGTGTTACTGAGTTAC--A-C-G-GCTAACTCACTGTGACTGTGTGCAAACTGAAAAAAAAT
322 AACCGTGTTACTGAGTTACATAGCTGTG-TAACTCACTATGACCGTGTGCAAA-TCAAAAAAAAT
* * *
85684719 TCCCAAAACGAACCCAACCACATGTAATGCATAATTGAATACCAATCATATATCATATCATGCTA
385 TCCCAAAACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTA
* *
85684784 AACAGTATAATATCGGTAAGGGAATCATAT
450 AACAGTACAATATCGGTAAGAGAATCATAT
** * * * *
85684814 CAAT-AGTGTTTCATAGTATGCTAAACAATACAGTAATAGTAATAGTAATAAT-TATGTAATCAA
1 CAATCA-TGTAGCATAGCATGCTAAACAGTACAGTAACAGT-A-A-CAAT--TGT-T-TAATCAA
*
85684877 CATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGTAATCA
58 CATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCA
* * *
85684942 AGGCATGCTTACTTGCAACCGATTTCATATCAATCACGATTATATAATCAATTAATCAGGAATGA
123 AGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAATCAATTAATCAGGAATGA
* * * *
85685007 AGTCTTAATCATAATTTTGGGGCTCTAATAGGTAGGGAATTACTCAGGGACTAAAATGATACATA
188 AGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATA
* * * ** * * * *
85685072 TCACAAAATAATGGAGAAACAGGGGAATAGGGGTTCACACGGTTGTATGGGGAGGCTGTGTGAGG
253 TC-CAAAATAGTGGAGAAACAGTGGAATAAGGACTCACACGGCTGTGT-GGGAGGCCGTGAGAGG
* * * *
85685137 GGATTTAGACCGTGTTACTCAGTTACATAGTTGTGTAACTCACTATGACCGTGTACAAATCGAAA
316 GG-TTTAAACCGTGTTACTGAGTTACATAGCTGTGTAACTCACTATGACCGTGTGCAAATC-AAA
***** * * * *
85685202 TTTTTTTTCCAAAACAAACCTAACCACATGTAATACATAATTAAATACCAATCATGTAGCATATC
379 AAAAATTCCCAAAACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATATC
* *
85685267 ATGCTAAATAGTACAATATCGGT-A-A-AA-GATAT
444 ATGCTAAACAGTACAATATCGGTAAGAGAATCATAT
* * * *
85685299 CAATCATGTAACAAAGCAAGCTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACGTGCTTT
1 CAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACATGCTTT
* * * * * *
85685364 AGTATAACAGTTTTAGAGACACGATTTTCAAGTAATCACTACTGACAATAGCAATTAATGCATGC
66 AGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCAAGGCATGC
* * *
85685429 TTACATGCAACCAATTTCATAACAATCACGATCATATAACCAATTAATCAAGAATGAAGTCTTAA
131 TTACATGCAACCAATTTCATATCAATCACGATCATATAATCAATTAATCAGGAATGAAGTCTTAA
* *
85685494 TCATGATTTTAGAGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATAGATATCCTAAAA
196 TCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATATCC-AAAA
* * * * * *
85685559 TTGTGAAGAAACAATGGAATAAGGACTCACACGGCTATGTGCGGAGGTCGTGAGAGGGGTTTATA
260 TAGTGGAGAAACAGTGGAATAAGGACTCACACGGCTGTGTG-GGAGGCCGTGAGAGGGGTTTAAA
* * * *
85685624 CCGTGTTTCTAAGTTACATACCTGTGTAACTCACTGTGACCGTGTGCAAAT-AAAAAAAATTCCC
324 CCGTGTTACTGAGTTACATAGCTGTGTAACTCACTATGACCGTGTGCAAATCAAAAAAAATTCCC
* * * * *
85685688 AAAACAAACCCAACAACGTGTAATGCATAATTTAATACCAGTCATTTAGCATATCATGCTAAACA
389 AAAACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACA
**
85685753 GTACAATATCAATAAGAGAATCATAT
454 GTACAATATCGGTAAGAGAATCATAT
*
85685779 CAATCATGTAGCATAACATGCTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACATGCTTT
1 CAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACATGCTTT
* * *
85685844 AGTATAACAGGTTTGGAGACACGATTTTCATGTAATCACTATTAATAATATCAATCAAGGCATGC
66 AGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCAAGGCATGC
* * *
85685909 TTACATGCAACCAATTTCATATCAATCACGATTATAT-AGCAATTAATCGGGAATGAAGTCTTAA
131 TTACATGCAACCAATTTCATATCAATCACGATCATATAATCAATTAATCAGGAATGAAGTCTTAA
* * * * *
85685973 TCATGATTTTAGGGCTCTAACATGCATGGAATTATTCAGGGTCTAAAATGATACATATTGCAAAA
196 TCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATA-TCCAAAA
* * * * * *
85686038 TAATGGAGAAACAGTGGAATAGGGACTCACACAGCTTTGTAGGAAGGCCGTGTGAGGGGTTTAAA
260 TAGTGGAGAAACAGTGGAATAAGGACTCACACGGCTGTGT-GGGAGGCCGTGAGAGGGGTTTAAA
* ** * * *
85686103 CTGTGTTACTGAGTTACACGGCTTTGTAACTCACTGTGACTGTGTGCAAAT-AGAAAAAAATTCC
324 CCGTGTTACTGAGTTACATAGCTGTGTAACTCACTATGACCGTGTGCAAATCA-AAAAAAATTCC
** * * * *
85686167 CAAAACAAACTTAACCACGTGTAAGGCATAATTGTATACCAATCATTTAGCATATCATGCTAAAC
388 CAAAACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAAC
85686232 AGTACAATATCGGTAAGAGAATCATAT
453 AGTACAATATCGGTAAGAGAATCATAT
* * * * * * *
85686259 GAATCATGTAGTATAGCATCCTAAATAGTATAGTAACAGTAACCATTGTGTAATCAACATGCTTT
1 CAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACATGCTTT
*
85686324 AGTATAACAGTTTTGGAGACACGATTATCATGTAATCACTATTAACAATAGCAATCAAGGCATGC
66 AGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCAAGGCATGC
* * *
85686389 TTACATGCAATCAATTTCATACCAATCACGATCATATAATCAATTAATCAGGAATAAAGTCTTAA
131 TTACATGCAACCAATTTCATATCAATCACGATCATATAATCAATTAATCAGGAATGAAGTCTTAA
* * ** *
85686454 TCATGATTTTAGGGCTCTAACTTGTAGGAAATTACTCAATGACTAAAATGATACATATCGAAAAA
196 TCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATATC-CAAAA
* * * * *
85686519 TAGTTGAGAAACAGTGGAATATGGGCTCACATGGC----T-----G-CGTGAG-GGGGTTTAGAC
260 TAGTGGAGAAACAGTGGAATAAGGACTCACACGGCTGTGTGGGAGGCCGTGAGAGGGGTTTAAAC
* * * * * * **
85686573 CATGTTACTTAGTTACTTAGTTGTGTAACTCACTATGACCGTGTGCAAATCGAAAGACGTTGCCC
325 CGTGTTACTGAGTTACATAGCTGTGTAACTCACTATGACCGTGTGCAAATCAAAAAAAATT-CCC
*
85686638 AAAACAAACCCAACCACATGTAATACATAATTGAATACCAATCATGTAGCATATCATGCTAAACA
389 AAAACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACA
* *
85686703 GTATAATATCGGTAGGAG-A--A-AT
454 GTACAATATCGGTAAGAGAATCATAT
* *
85686725 CAATCATGTAACATAGCA-GACTAAACAGTACAGTAATAGTAACAATTGTTTAATCAACATGCTT
1 CAATCATGTAGCATAGCATG-CTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACATGCTT
* * * * * * * * *
85686789 TAGTACAACAGTTTTCGTGACACAATTTTCATGTAATCATTATTGACAAAATCAATCAAAGCATG
65 TAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCAAGGCATG
* * * *
85686854 CTTCCGTGCATCCAATTTCATATCAATCACGATCATATAATCAATTAATCAAGAATGAAGTCTTA
130 CTTACATGCAACCAATTTCATATCAATCACGATCATATAATCAATTAATCAGGAATGAAGTCTTA
* * * * * *
85686919 ATCATCATTTTAGGGTTCTAACATGTAAGGAATTACTCAGGTACTAAAATGAAACATATCATAAA
195 ATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATATC-CAAA
* * * * * *
85686984 ATAGTGGAGAAACAGTAGAACAAGAAGTCACATGGCTGTGTAAGGAGGCCGTGAGAGGGGGTTTA
259 ATAGTGGAGAAACAGTGGAATAAGGACTCACACGGCTGTGT-GGGAGGCCGTGAGA-GGGGTTTA
* * * ** * ***
85687049 TATCGTGTTATTGAGTTACAT-GCCCCTGTAACTCACTATGACTGTGTGCAAATCGAAAAACTTT
322 AACCGTGTTACTGAGTTACATAG-CTGTGTAACTCACTATGACCGTGTGCAAATC-AAAAAAAAT
* * *
85687113 TCCCAAAACAAACCGAACAACATGTAATTCATAATTGAATACCAATCATGTAGCATATCATGCTA
385 TCCCAAAACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTA
*
85687178 AACAGTACAATATCAGTAAGAGAATCATAT
450 AACAGTACAATATCGGTAAGAGAATCATAT
* * * *
85687208 CAATCATGTAGCATAGCATGCTAAACAGTATAGTAATAGTTACAATTGTTTAATCAATATGCTTT
1 CAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACATGCTTT
* * *
85687273 AGTATAACAGTTTTGGAGACACGATTTTCATGTAATCGCTGTTAACAATAGCAATCAATGCATGC
66 AGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCAAGGCATGC
* * * * *
85687338 TTACATGCAACCAATTTCATATCAATCATGATCATATAATTAATTAATTAAGAATGAAGTCATAA
131 TTACATGCAACCAATTTCATATCAATCACGATCATATAATCAATTAATCAGGAATGAAGTCTTAA
* * *
85687403 TCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGAAATATATTGCAAAA
196 TCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATA-TCCAAAA
* *
85687468 TAGTGGAAAAATAGTGGAAT-AGTG-CTCACACGGCTGTGTGGGAGGCCGTGAG-GGGGAATTTA
260 TAGTGGAGAAACAGTGGAATAAG-GACTCACACGGCTGTGTGGGAGGCCGTGAGAGGGG--TTTA
* * * * * * *
85687530 AACCGTGGTACTGATTTACATGGCTGTGTAACTCACTGTGACTGTGTGCAAATC-GAAAAATTTC
322 AACCGTGTTACTGAGTTACATAGCTGTGTAACTCACTATGACCGTGTGCAAATCAAAAAAAATTC
* *
85687594 CCAAAACAAACCCAACCACATGCAATGCATAATTGAATACCAATCATGTACCATAGT-ATGCTAA
387 CCAAAACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATA-TCATGCTAA
85687658 ACAGTACAATA
451 ACAGTACAATA
85687669 ACAGTAACAA
Statistics
Matches: 3268, Mismatches: 477, Indels: 153
0.84 0.12 0.04
Matches are distributed among these distances:
466 252 0.08
467 1 0.00
469 57 0.02
470 83 0.03
471 1 0.00
476 76 0.02
477 9 0.00
478 78 0.02
479 739 0.23
480 420 0.13
481 175 0.05
482 357 0.11
483 572 0.18
484 79 0.02
485 239 0.07
486 4 0.00
487 1 0.00
488 2 0.00
489 99 0.03
490 24 0.01
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (479 bp):
CAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACATGCTTT
AGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCAAGGCATGC
TTACATGCAACCAATTTCATATCAATCACGATCATATAATCAATTAATCAGGAATGAAGTCTTAA
TCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATATCCAAAAT
AGTGGAGAAACAGTGGAATAAGGACTCACACGGCTGTGTGGGAGGCCGTGAGAGGGGTTTAAACC
GTGTTACTGAGTTACATAGCTGTGTAACTCACTATGACCGTGTGCAAATCAAAAAAAATTCCCAA
AACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
ACAATATCGGTAAGAGAATCATAT
Found at i:85693092 original size:17 final size:17
Alignment explanation
Indices: 85693070--85693107 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
85693060 GTAACACCCC
85693070 AGTTCTGGCGGATATAA
1 AGTTCTGGCGGATATAA
85693087 AGTTCTGGCGGATATAA
1 AGTTCTGGCGGATATAA
85693104 AGTT
1 AGTT
85693108 TTGGGTGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.32
Consensus pattern (17 bp):
AGTTCTGGCGGATATAA
Found at i:85701865 original size:15 final size:14
Alignment explanation
Indices: 85701847--85701877 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
85701837 TTAATTTATT
85701847 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
85701862 TAATAATAATCTAA
1 TAATAATAATCTAA
85701876 TA
1 TA
85701878 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:85701888 original size:21 final size:20
Alignment explanation
Indices: 85701864--85701932 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
85701854 AATGCTAATA
85701864 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
85701885 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
85701904 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
85701925 ATAATAAT
1 ATAATAAT
85701933 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:85706930 original size:20 final size:19
Alignment explanation
Indices: 85706900--85706949 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
85706890 TATTAATCAT
*
85706900 ATTTTATTAAATAAAAATA
1 ATTTTAATAAATAAAAATA
*
85706919 ATATTTAATAAATAAAATTA
1 AT-TTTAATAAATAAAAATA
85706939 ATTTT-ATAAAT
1 ATTTTAATAAAT
85706950 TTTATTAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 6 0.21
19 5 0.18
20 17 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTTAATAAATAAAAATA
Found at i:85708219 original size:26 final size:26
Alignment explanation
Indices: 85708183--85708234 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
85708173 TAAATAAAGA
85708183 TATGCATGAAGATCGAAACAAGTTTG
1 TATGCATGAAGATCGAAACAAGTTTG
85708209 TATGCATGAAGATCGAAACAAGTTTG
1 TATGCATGAAGATCGAAACAAGTTTG
85708235 ATCTACCTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (26 bp):
TATGCATGAAGATCGAAACAAGTTTG
Found at i:85720886 original size:48 final size:48
Alignment explanation
Indices: 85720819--85721001 Score: 303
Period size: 48 Copynumber: 3.8 Consensus size: 48
85720809 TGCGGGAGTA
* * * *
85720819 GGGGGTTTATATGGGGGAGTAGGAGCCTTGGTTGGTGGTGCTGGTGCT
1 GGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGTGCAGGAGCT
* *
85720867 GGGGGCTTAAATGGTGGAGTTGGAGCCTTGGTTGGTGGTGCAGGAGCT
1 GGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGTGCAGGAGCT
85720915 GGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGTGCAGGAGCT
1 GGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGTGCAGGAGCT
*
85720963 GGGGGTTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGT
1 GGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGT
85721002 TTATATGGTG
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 126 1.00
ACGTcount: A:0.13, C:0.09, G:0.49, T:0.30
Consensus pattern (48 bp):
GGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGTGCAGGAGCT
Found at i:85720929 original size:27 final size:27
Alignment explanation
Indices: 85720899--85720988 Score: 68
Period size: 27 Copynumber: 3.6 Consensus size: 27
85720889 GAGCCTTGGT
*
85720899 TGGTGGTGCAGGAGCTGGGGGCTTATA
1 TGGTGGAGCAGGAGCTGGGGGCTTATA
* *
85720926 TGGTGGAGTAGGAGC------CTTGGT-
1 TGGTGGAGCAGGAGCTGGGGGCTT-ATA
* *
85720947 TGGTGGTGCAGGAGCTGGGGGTTTATA
1 TGGTGGAGCAGGAGCTGGGGGCTTATA
*
85720974 TGGTGGAGTAGGAGC
1 TGGTGGAGCAGGAGC
85720989 CTTGGTTGGT
Statistics
Matches: 46, Mismatches: 9, Indels: 16
0.65 0.13 0.23
Matches are distributed among these distances:
21 16 0.35
22 1 0.02
26 1 0.02
27 28 0.61
ACGTcount: A:0.16, C:0.09, G:0.49, T:0.27
Consensus pattern (27 bp):
TGGTGGAGCAGGAGCTGGGGGCTTATA
Found at i:85721008 original size:33 final size:33
Alignment explanation
Indices: 85720963--85721042 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
85720953 TGCAGGAGCT
*
85720963 GGGGGTTTATATGGTGGAGTAGGAGCCTTGGTT
1 GGGGGTTTATATGGTGGAGTAGGAGCCTTGGTA
* * *
85720996 GGTGGTTTATATGGTGGAGTGGGGGCCTTGGTA
1 GGGGGTTTATATGGTGGAGTAGGAGCCTTGGTA
85721029 GGGGGTTTATATGG
1 GGGGGTTTATATGG
85721043 AGTGGGGCCC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.14, C:0.05, G:0.47, T:0.34
Consensus pattern (33 bp):
GGGGGTTTATATGGTGGAGTAGGAGCCTTGGTA
Found at i:85721046 original size:30 final size:31
Alignment explanation
Indices: 85720962--85721064 Score: 109
Period size: 33 Copynumber: 3.2 Consensus size: 31
85720952 GTGCAGGAGC
* *
85720962 TGGGGGTTTATATGGTGGAGTAGGAGCCTTGGT
1 TGGGGGTTTATA--GTGGAGTGGGGGCCTTGGT
*
85720995 TGGTGGTTTATATGGTGGAGTGGGGGCCTTGGT
1 TGGGGGTTTATA--GTGGAGTGGGGGCCTTGGT
* * *
85721028 AGGGGGTTTATA-TGGAGTGGGGCCCTTAGT
1 TGGGGGTTTATAGTGGAGTGGGGGCCTTGGT
85721058 TGGGGGT
1 TGGGGGT
85721065 GCTGGAGTTG
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
30 22 0.35
33 40 0.65
ACGTcount: A:0.13, C:0.07, G:0.48, T:0.33
Consensus pattern (31 bp):
TGGGGGTTTATAGTGGAGTGGGGGCCTTGGT
Found at i:85722883 original size:22 final size:23
Alignment explanation
Indices: 85722849--85722891 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
85722839 TAATAAAAAA
85722849 GCTAATTTTTTTCAATTTCATTT
1 GCTAATTTTTTTCAATTTCATTT
85722872 GCTAA-TTTTTTCAATTTCAT
1 GCTAATTTTTTTCAATTTCAT
85722892 ACTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.23, C:0.14, G:0.05, T:0.58
Consensus pattern (23 bp):
GCTAATTTTTTTCAATTTCATTT
Found at i:85726644 original size:14 final size:14
Alignment explanation
Indices: 85726621--85726653 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
85726611 TTATATTAGT
85726621 ATAA-TAAAATAAA
1 ATAATTAAAATAAA
*
85726634 ATAATTAAAATATA
1 ATAATTAAAATAAA
85726648 ATAATT
1 ATAATT
85726654 CTATTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATTAAAATAAA
Found at i:85726728 original size:16 final size:16
Alignment explanation
Indices: 85726707--85726738 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
85726697 AATAAAAAAG
85726707 TTTATATAATTAATAA
1 TTTATATAATTAATAA
85726723 TTTATATAATTAATAA
1 TTTATATAATTAATAA
85726739 ACAGTAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTATATAATTAATAA
Found at i:85728600 original size:3 final size:3
Alignment explanation
Indices: 85728592--85728634 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
85728582 TTTAGCAATT
* *
85728592 TTA TTA TTA TTA TTA CTA TTA TTA TTG TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
85728635 AATTGTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:85728742 original size:26 final size:27
Alignment explanation
Indices: 85728700--85728750 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
85728690 ATTTTTATAT
*
85728700 ACATATCTATCTATATATATAATTAAA
1 ACATATATATCTATATATATAATTAAA
*
85728727 ACATATATAT-TATATATATTATTA
1 ACATATATATCTATATATATAATTA
85728751 TTTCATATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (27 bp):
ACATATATATCTATATATATAATTAAA
Found at i:85730028 original size:137 final size:137
Alignment explanation
Indices: 85729782--85730029 Score: 487
Period size: 137 Copynumber: 1.8 Consensus size: 137
85729772 AAAAACGACC
*
85729782 GCTTTTCGAGGTGATCCAATCACACCTTATAAAAAGGATTGGTGGCGACTCCTGTTTCATTTTTT
1 GCTTTTCGAGGTGATCCAATCACACCTTATAAAAAGGATTGGTGGCGACTCCTGTCTCATTTTTT
85729847 TCAAAACCCAAGTCGACCCCGTTTTATCCAAAAAATGGTGTCAACAGCTTGGCGACTCCGCTGGG
66 TCAAAACCCAAGTCGACCCCGTTTTATCCAAAAAATGGTGTCAACAGCTTGGCGACTCCGCTGGG
85729912 GACAGGT
131 GACAGGT
85729919 GCTTTTCGAGGTGATCCAATCACACCTTATAAAAAGGATTGGTGGCGACTCCTGTCTCATTTTTT
1 GCTTTTCGAGGTGATCCAATCACACCTTATAAAAAGGATTGGTGGCGACTCCTGTCTCATTTTTT
85729984 TCAAAACCCAAGTCGACCCCGTTTTATCCAAAAAATGGTGTCAACA
66 TCAAAACCCAAGTCGACCCCGTTTTATCCAAAAAATGGTGTCAACA
85730030 ATGATTAAAT
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 110 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (137 bp):
GCTTTTCGAGGTGATCCAATCACACCTTATAAAAAGGATTGGTGGCGACTCCTGTCTCATTTTTT
TCAAAACCCAAGTCGACCCCGTTTTATCCAAAAAATGGTGTCAACAGCTTGGCGACTCCGCTGGG
GACAGGT
Found at i:85731842 original size:11 final size:11
Alignment explanation
Indices: 85731808--85731859 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 11
85731798 ATATTTTAAA
85731808 AAAAATT-TA-
1 AAAAATTATAT
85731817 AAAAATT-TAT
1 AAAAATTATAT
*
85731827 TAAAATTATAT
1 AAAAATTATAT
*
85731838 AAAAA--ACAT
1 AAAAATTATAT
85731847 AAAAATTATAT
1 AAAAATTATAT
85731858 AA
1 AA
85731860 TTTTTTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 17 0.49
10 6 0.17
11 12 0.34
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAAATTATAT
Found at i:85734708 original size:21 final size:21
Alignment explanation
Indices: 85734684--85734723 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
85734674 CGGGGTTCAT
*
85734684 GGTTTGAGATTTTAA-ATTTAG
1 GGTTTAAG-TTTTAATATTTAG
85734705 GGTTTAAGTTTTAATATTT
1 GGTTTAAGTTTTAATATTT
85734724 TATATTTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.00, G:0.20, T:0.53
Consensus pattern (21 bp):
GGTTTAAGTTTTAATATTTAG
Found at i:85734750 original size:28 final size:28
Alignment explanation
Indices: 85734692--85734770 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 28
85734682 ATGGTTTGAG
* * *
85734692 ATTTTAAATTTAGGGTTTAAGTTTTAAT
1 ATTTTAAATTTAGAGTTTAAGGTCTAAT
* * *
85734720 ATTTTATATTTAGAGTTTAGGGTCTATT
1 ATTTTAAATTTAGAGTTTAAGGTCTAAT
* *
85734748 A-TTTAGCATTTAGAATTTAAGGT
1 ATTTTA-AATTTAGAGTTTAAGGT
85734771 TACGTATTCA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 4 0.10
28 37 0.90
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.51
Consensus pattern (28 bp):
ATTTTAAATTTAGAGTTTAAGGTCTAAT
Found at i:85737417 original size:43 final size:43
Alignment explanation
Indices: 85737367--85737448 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
85737357 ATTTCATTTC
**
85737367 TCATCTCATAATCATTTCTCATATTTGTCATTTCAATATTTTT
1 TCATCTCATAATCATTTCTCATATTTCCCATTTCAATATTTTT
* *
85737410 TCATCTCATATTCATTTCTCATCTTTCCCATTTCAATAT
1 TCATCTCATAATCATTTCTCATATTTCCCATTTCAATAT
85737449 CAATCACATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.24, C:0.23, G:0.01, T:0.51
Consensus pattern (43 bp):
TCATCTCATAATCATTTCTCATATTTCCCATTTCAATATTTTT
Found at i:85742846 original size:21 final size:22
Alignment explanation
Indices: 85742817--85742863 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
85742807 CAGAAGGAGT
*
85742817 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
85742839 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
85742860 GAGT
1 GAGT
85742864 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:85746908 original size:15 final size:15
Alignment explanation
Indices: 85746888--85746918 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
85746878 TCTTAGTAAA
85746888 TTTAAAATTTAGTTT
1 TTTAAAATTTAGTTT
85746903 TTTAAAATTTAGTTT
1 TTTAAAATTTAGTTT
85746918 T
1 T
85746919 ATACTTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTAAAATTTAGTTT
Found at i:85753975 original size:43 final size:44
Alignment explanation
Indices: 85753916--85753998 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 44
85753906 ATGTCATTCT
*
85753916 ACACACTTAAAGCCCCAAACACTATTAATAACCAAGGCCTAAAA
1 ACACACTTAAAGCCCCAAACACTATTAAAAACCAAGGCCTAAAA
* *
85753960 ACACATTTAAA-CCCCAAACACTATTAAAAACGAAGGCCT
1 ACACACTTAAAGCCCCAAACACTATTAAAAACCAAGGCCT
85753999 TATGCAATTG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
43 26 0.72
44 10 0.28
ACGTcount: A:0.47, C:0.29, G:0.07, T:0.17
Consensus pattern (44 bp):
ACACACTTAAAGCCCCAAACACTATTAAAAACCAAGGCCTAAAA
Found at i:85756591 original size:13 final size:13
Alignment explanation
Indices: 85756570--85756599 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
85756560 CTTAAACTAA
*
85756570 ACTTTTCAAAAAC
1 ACTTCTCAAAAAC
85756583 ACTTCTCAAAAAC
1 ACTTCTCAAAAAC
85756596 ACTT
1 ACTT
85756600 TTTCACAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (13 bp):
ACTTCTCAAAAAC
Found at i:85771795 original size:225 final size:225
Alignment explanation
Indices: 85771404--85771853 Score: 900
Period size: 225 Copynumber: 2.0 Consensus size: 225
85771394 TCCTTTTATA
85771404 AACATTTGAATAGCCCAAGTTGGTCGTCAAAATTCTCTTGTTTCGGAGGAATACATCATCACATC
1 AACATTTGAATAGCCCAAGTTGGTCGTCAAAATTCTCTTGTTTCGGAGGAATACATCATCACATC
85771469 CAGCACGATAAGACACGATCCTTTATACCCCCGAAAATAACGATAAATTTTGACTTCCGAAAGTT
66 CAGCACGATAAGACACGATCCTTTATACCCCCGAAAATAACGATAAATTTTGACTTCCGAAAGTT
85771534 TATACGTTGAAAATTACAAAAGGATGCCCAATTATTCAGTCCAACGAAAAATCGAAACCCAGCAC
131 TATACGTTGAAAATTACAAAAGGATGCCCAATTATTCAGTCCAACGAAAAATCGAAACCCAGCAC
85771599 GATAGAGCACGATTCCCTGAATTTTCAAAC
196 GATAGAGCACGATTCCCTGAATTTTCAAAC
85771629 AACATTTGAATAGCCCAAGTTGGTCGTCAAAATTCTCTTGTTTCGGAGGAATACATCATCACATC
1 AACATTTGAATAGCCCAAGTTGGTCGTCAAAATTCTCTTGTTTCGGAGGAATACATCATCACATC
85771694 CAGCACGATAAGACACGATCCTTTATACCCCCGAAAATAACGATAAATTTTGACTTCCGAAAGTT
66 CAGCACGATAAGACACGATCCTTTATACCCCCGAAAATAACGATAAATTTTGACTTCCGAAAGTT
85771759 TATACGTTGAAAATTACAAAAGGATGCCCAATTATTCAGTCCAACGAAAAATCGAAACCCAGCAC
131 TATACGTTGAAAATTACAAAAGGATGCCCAATTATTCAGTCCAACGAAAAATCGAAACCCAGCAC
85771824 GATAGAGCACGATTCCCTGAATTTTCAAAC
196 GATAGAGCACGATTCCCTGAATTTTCAAAC
85771854 TTTGAACATT
Statistics
Matches: 225, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
225 225 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (225 bp):
AACATTTGAATAGCCCAAGTTGGTCGTCAAAATTCTCTTGTTTCGGAGGAATACATCATCACATC
CAGCACGATAAGACACGATCCTTTATACCCCCGAAAATAACGATAAATTTTGACTTCCGAAAGTT
TATACGTTGAAAATTACAAAAGGATGCCCAATTATTCAGTCCAACGAAAAATCGAAACCCAGCAC
GATAGAGCACGATTCCCTGAATTTTCAAAC
Found at i:85772072 original size:131 final size:130
Alignment explanation
Indices: 85771814--85772146 Score: 451
Period size: 131 Copynumber: 2.6 Consensus size: 130
85771804 GAAAAATCGA
* * ** * * *
85771814 AACCCAGCACGATAGAGCACGATTCCCTGAATTTTCAAACTTTGAACATTGCCTT-ATTTT--AG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAG
** * * *
85771876 AATTTAGAAAACATGAGTGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAATGAGGAATTGC
66 AATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGGAATTGC
* *
85771941 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCGAACATCAAACATTGCCTTCGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAG
85772006 AATTTTTAAAGACATGAGTGAAATTCCAAAGGAATACTT-GATTATTTTGAACAAACG-GGAAAT
66 AATTTTTAAA-ACATGAGTGAAATTCCAAAGGAATA-TTCGATTATTTTGAACAAACGAGG-AAT
85772069 TGC
128 TGC
* * *
85772072 AACCTAGCACGATAGGGCACGATTCCCCGAATTGCCTAATATCGAACATTGCCTTCGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAG
85772137 AATTTTTAAA
66 AATTTTTAAA
85772147 TGAATAATTA
Statistics
Matches: 182, Mismatches: 18, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
127 47 0.26
128 4 0.02
130 12 0.07
131 117 0.64
132 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (130 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAG
AATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGGAATTGC
Found at i:85776096 original size:18 final size:18
Alignment explanation
Indices: 85776062--85776096 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
85776052 AACAGAGCAG
85776062 ATACAAAACATATATCAC
1 ATACAAAACATATATCAC
85776080 ATACAGAAACATA-ATCA
1 ATACA-AAACATATATCA
85776097 AATGCAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.57, C:0.20, G:0.03, T:0.20
Consensus pattern (18 bp):
ATACAAAACATATATCAC
Found at i:85787883 original size:33 final size:32
Alignment explanation
Indices: 85787842--85787909 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 32
85787832 AATAAAAGAA
85787842 GAAAGCCTCCAATAATCCACTTAGATTGCTCT
1 GAAAGCCTCCAATAATCCACTTAGATTGCTCT
*
85787874 GAAAGGCCTCCAATAATCCACTTAGATTGCTTT
1 GAAA-GCCTCCAATAATCCACTTAGATTGCTCT
85787907 GAA
1 GAA
85787910 TCAAAAGGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 4 0.12
33 30 0.88
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (32 bp):
GAAAGCCTCCAATAATCCACTTAGATTGCTCT
Found at i:85792847 original size:28 final size:26
Alignment explanation
Indices: 85792816--85792886 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 26
85792806 ATTAAATTAC
*
85792816 TAAAATATTATTTATTATATTTAAAAGT
1 TAAAA-ATTATTTATTATAATT-AAAGT
*
85792844 TAAAAA-TATTTCATGTATAATTAAATT
1 TAAAAATTATTT-AT-TATAATTAAAGT
*
85792871 TAAAAATAATTTATTA
1 TAAAAATTATTTATTA
85792887 GTTATAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
26 7 0.19
27 15 0.41
28 15 0.41
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (26 bp):
TAAAAATTATTTATTATAATTAAAGT
Found at i:85805020 original size:24 final size:26
Alignment explanation
Indices: 85804984--85805034 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
85804974 TTTTAATGTA
85804984 TTAGAAAACTTTA-TT-TTAGTATTTT
1 TTAGAAAACTTTAGTTATTA-TATTTT
*
85805009 TTAGTAAA-TTTAGTTATTATATTTT
1 TTAGAAAACTTTAGTTATTATATTTT
85805034 T
1 T
85805035 AAAATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 4 0.17
25 16 0.70
26 3 0.13
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (26 bp):
TTAGAAAACTTTAGTTATTATATTTT
Found at i:85807026 original size:39 final size:39
Alignment explanation
Indices: 85806977--85807052 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
85806967 CATTAAAAGT
85806977 AGTGATTAATTGTCCTTAGTTGCTCACCTTCGAAATTAA
1 AGTGATTAATTGTCCTTAGTTGCTCACCTTCGAAATTAA
85807016 AGTGATTAATTGTCCTTAGTTGCTCACCTTCGAAATT
1 AGTGATTAATTGTCCTTAGTTGCTCACCTTCGAAATT
85807053 GACACAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.39
Consensus pattern (39 bp):
AGTGATTAATTGTCCTTAGTTGCTCACCTTCGAAATTAA
Found at i:85813971 original size:17 final size:18
Alignment explanation
Indices: 85813950--85813989 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
85813940 ATAATATATA
85813950 TACATATATATATAATGC
1 TACATATATATATAATGC
85813968 -ACATATATATATAATGC
1 TACATATATATATAATGC
85813985 TACAT
1 TACAT
85813990 TGTATTGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (18 bp):
TACATATATATATAATGC
Found at i:85815819 original size:23 final size:23
Alignment explanation
Indices: 85815793--85815838 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
85815783 GGTTAAGCTA
85815793 TAATTGAACCAGATAAATTGTTG
1 TAATTGAACCAGATAAATTGTTG
85815816 TAATTGAACCAGATAAATTGTTG
1 TAATTGAACCAGATAAATTGTTG
85815839 AGTAAAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (23 bp):
TAATTGAACCAGATAAATTGTTG
Found at i:85817968 original size:13 final size:14
Alignment explanation
Indices: 85817952--85817987 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
85817942 CAATCTCATA
85817952 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
85817965 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
85817978 TCTC-ATTTCA
1 TCTCAATTTCA
85817988 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:85817977 original size:18 final size:19
Alignment explanation
Indices: 85817939--85817979 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
85817929 TGGTTCATGT
85817939 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
85817958 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
85817976 TTTC
1 TTTC
85817980 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:85818169 original size:39 final size:38
Alignment explanation
Indices: 85818102--85818236 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
85818092 ACCAATATGG
* * *
85818102 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
85818141 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
85818179 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
85818220 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
85818237 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:85818502 original size:18 final size:19
Alignment explanation
Indices: 85818476--85818514 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
85818466 TTTCAATTCA
85818476 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
85818495 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
85818513 AT
1 AT
85818515 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:85819849 original size:5 final size:5
Alignment explanation
Indices: 85819839--85819872 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
85819829 TTACTTATTT
85819839 ATATA ATATA ATATA ATAATA ATATA ATATA ATA
1 ATATA ATATA ATATA AT-ATA ATATA ATATA ATA
85819873 ACAATTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:85819862 original size:16 final size:16
Alignment explanation
Indices: 85819841--85819873 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
85819831 ACTTATTTAT
85819841 ATAATATAATATAATA
1 ATAATATAATATAATA
85819857 ATAATATAATATAATA
1 ATAATATAATATAATA
85819873 A
1 A
85819874 CAATTTCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAATATAATATAATA
Found at i:85820004 original size:21 final size:22
Alignment explanation
Indices: 85819965--85820015 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
85819955 CATACAATTG
*
85819965 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
85819987 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
85820007 ATAAAATAA
1 TTAAAATAA
85820016 ATATATAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 8 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:85820205 original size:19 final size:22
Alignment explanation
Indices: 85820181--85820227 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
85820171 ATCCTTTCCA
85820181 CTAATTACT-CTTAATT-AAG-
1 CTAATTACTACTTAATTAAAGT
*
85820200 CTAATT-TTACTTAATTAAAGT
1 CTAATTACTACTTAATTAAAGT
85820221 CTAATTA
1 CTAATTA
85820228 ACCACTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 3 0.13
21 6 0.26
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (22 bp):
CTAATTACTACTTAATTAAAGT
Found at i:85821038 original size:13 final size:13
Alignment explanation
Indices: 85821020--85821044 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85821010 TTTTAAATGA
85821020 ACATATACAATAT
1 ACATATACAATAT
85821033 ACATATACAATA
1 ACATATACAATA
85821045 AAATACATGA
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:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATATACAATAT
Found at i:85821412 original size:17 final size:19
Alignment explanation
Indices: 85821390--85821428 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
85821380 TATATAAAAC
85821390 ATAATA-CTAA-AATATAT
1 ATAATATCTAAGAATATAT
*
85821407 ATAATATGTAAGAATATAT
1 ATAATATCTAAGAATATAT
85821426 ATA
1 ATA
85821429 TGCAATAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
19 10 0.53
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (19 bp):
ATAATATCTAAGAATATAT
Found at i:85821545 original size:20 final size:20
Alignment explanation
Indices: 85821505--85821545 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
85821495 TATGATATTA
* *
85821505 AAAGTATGTATACGTAGTAT
1 AAAGAATGTATACGTAATAT
*
85821525 AAAGAATGTATATGTAATAT
1 AAAGAATGTATACGTAATAT
85821545 A
1 A
85821546 GTATTAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.34
Consensus pattern (20 bp):
AAAGAATGTATACGTAATAT
Found at i:85821719 original size:16 final size:18
Alignment explanation
Indices: 85821679--85821725 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
85821669 AATATTTAAA
* *
85821679 AATAATAATAGTAAATAT
1 AATATTAATATTAAATAT
85821697 AATATTAATATTAAATA-
1 AATATTAATATTAAATAT
85821714 AA-ATTAATATTA
1 AATATTAATATTA
85821726 CAAATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 10 0.37
17 2 0.07
18 15 0.56
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AATATTAATATTAAATAT
Found at i:85822371 original size:47 final size:47
Alignment explanation
Indices: 85822302--85822393 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
85822292 ATATTTTCTT
85822302 TTATATGTTTTTTTAGTATAGATAGGAGAGAAAATAGATTTAAAATC
1 TTATATGTTTTTTTAGTATAGATAGGAGAGAAAATAGATTTAAAATC
85822349 TTATAT-TGTTTTTTAGTATAGATAGGAGAGAAAATAGATTTAAAA
1 TTATATGT-TTTTTTAGTATAGATAGGAGAGAAAATAGATTTAAAA
85822394 CGAAACTAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 1 0.02
47 43 0.98
ACGTcount: A:0.41, C:0.01, G:0.17, T:0.40
Consensus pattern (47 bp):
TTATATGTTTTTTTAGTATAGATAGGAGAGAAAATAGATTTAAAATC
Found at i:85827543 original size:23 final size:25
Alignment explanation
Indices: 85827498--85827544 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
85827488 AATAAATATA
*
85827498 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
85827523 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
85827545 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:85842829 original size:14 final size:13
Alignment explanation
Indices: 85842805--85842838 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
85842795 AATTAATTAT
*
85842805 TAATTTAATTAGA
1 TAATTTAATTAAA
85842818 TAATTCTAATTAAA
1 TAATT-TAATTAAA
85842832 TAATTTA
1 TAATTTA
85842839 TATAACTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (13 bp):
TAATTTAATTAAA
Found at i:85852099 original size:28 final size:29
Alignment explanation
Indices: 85852047--85852117 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 29
85852037 CAATGTTAAC
* *
85852047 TATTTTTGAATTTTTATTAACTTTTTATA
1 TATTTTTGAATTTTAAATAACTTTTTATA
*
85852076 T-TTTTTGAATTTTAAATATA-TTTTTTTA
1 TATTTTTGAATTTTAAATA-ACTTTTTATA
*
85852104 TATTTTTAAATTTT
1 TATTTTTGAATTTT
85852118 TTTGTTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 23 0.64
29 13 0.36
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (29 bp):
TATTTTTGAATTTTAAATAACTTTTTATA
Found at i:85857963 original size:19 final size:19
Alignment explanation
Indices: 85857939--85857986 Score: 80
Period size: 19 Copynumber: 2.5 Consensus size: 19
85857929 TTTTGTCACT
85857939 GTATTTCATTGTTTTGATA
1 GTATTTCATTGTTTTGATA
85857958 GTATTTCATTGTTTTGATA
1 GTATTTCATTGTTTTGATA
85857977 -TCATTTCATT
1 GT-ATTTCATT
85857987 ATTATATTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 1 0.04
19 27 0.96
ACGTcount: A:0.21, C:0.08, G:0.12, T:0.58
Consensus pattern (19 bp):
GTATTTCATTGTTTTGATA
Found at i:85858448 original size:19 final size:19
Alignment explanation
Indices: 85858424--85858461 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
85858414 TTTTAAAAAG
*
85858424 TTTTTTTAAATTATTTTAA
1 TTTTTTAAAATTATTTTAA
85858443 TTTTTTAAAATTATTTTAA
1 TTTTTTAAAATTATTTTAA
85858462 AAAATTGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTTTAAAATTATTTTAA
Found at i:85860830 original size:1 final size:1
Alignment explanation
Indices: 85860824--85860853 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
85860814 TTGATATCCC
85860824 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
85860854 GACTGGTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:85862626 original size:103 final size:105
Alignment explanation
Indices: 85862495--85862786 Score: 286
Period size: 103 Copynumber: 2.8 Consensus size: 105
85862485 TATAGTTATT
* *
85862495 TATTTTGTTAATAATTTATGGGATTAGGTTACAAATTGTTAGTGTTTAGTAGTTTAG-GATTTTG
1 TATTTTGTTAGTAATTTAT--GATTAGGTTATAAATTGTTAGTGTTTAGTAGTTTAGTG-TTTTG
*****
85862559 TGATTTTTTAGTAATGTAATTTTTTTTTTTAA-AA-TTATAGC
63 TGATTTTTTAGTAATGTAATTTTTAAAAATAATAATTTATAGC
* * * *
85862600 TATTTTGTTAGTAATTTATAATTAGGTTATATAAATTTTTAATGTTTAGT--TAT-GTGTTTTGT
1 TATTTTGTTAGTAATTTATGATTAGG-T-TATAAATTGTTAGTGTTTAGTAGTTTAGTGTTTTGT
* *
85862662 GATTTTTTAGTAATGT-A-TTTAAAAAATAATAATTTTATAGT
64 GATTTTTTAGTAATGTAATTTTTAAAAATAATAA-TTTATAGC
* *
85862703 TATTTTGTTAGTAACTTATGATTAGGTTATATAATTTGTTAGT-CTT--TAGTTTAGTGTTTTGT
1 TATTTTGTTAGTAATTTATGATTAGGTTATA-AA-TTGTTAGTGTTTAGTAGTTTAGTGTTTTGT
85862765 GATTTTTT--TAATGTAATTTTTA
64 GATTTTTTAGTAATGTAATTTTTA
85862787 TATAATGTTT
Statistics
Matches: 154, Mismatches: 20, Indels: 28
0.76 0.10 0.14
Matches are distributed among these distances:
100 7 0.05
101 13 0.08
102 31 0.20
103 66 0.43
104 1 0.01
105 36 0.23
ACGTcount: A:0.28, C:0.01, G:0.15, T:0.55
Consensus pattern (105 bp):
TATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTAGTTTAGTGTTTTGTGA
TTTTTTAGTAATGTAATTTTTAAAAATAATAATTTATAGC
Found at i:85862879 original size:27 final size:27
Alignment explanation
Indices: 85862856--85862910 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
85862846 GACAGGCCCC
**
85862856 ACCAGTCGCGCCTGTCAGATAGGCACA
1 ACCAGTCGCGCCTACCAGATAGGCACA
*
85862883 ACCAGTCGCGCCTACCAGATAGACACA
1 ACCAGTCGCGCCTACCAGATAGGCACA
85862910 A
1 A
85862911 TCTAGCCGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.35, G:0.22, T:0.13
Consensus pattern (27 bp):
ACCAGTCGCGCCTACCAGATAGGCACA
Done.