Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01018987.1 Corchorus olitorius cultivar O-4 contig19020, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 151408
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:1298 original size:12 final size:12
Alignment explanation
Indices: 1281--1312 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
1271 TACCCTATGT
*
1281 AAACACGACATG
1 AAACACGACACG
1293 AAACACGACACG
1 AAACACGACACG
1305 AAACACGA
1 AAACACGA
1313 ATTGCCAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.53, C:0.28, G:0.16, T:0.03
Consensus pattern (12 bp):
AAACACGACACG
Found at i:11528 original size:31 final size:31
Alignment explanation
Indices: 11439--11528 Score: 110
Period size: 31 Copynumber: 2.9 Consensus size: 31
11429 ACGATGGCAT
* * ** **
11439 GCCACGTGTACCAAAAAGCGACATGTGGCAC
1 GCCATGTGTACCAAAAAGTGACACATATCAC
11470 GCCATGTGTACCAAAAAGTGACACATATCAC
1 GCCATGTGTACCAAAAAGTGACACATATCAC
11501 GCCATGTGTACCAAAAAAGTGAC-CATAT
1 GCCATGTGTACC-AAAAAGTGACACATAT
11529 GTTTCAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 42 0.81
32 10 0.19
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.18
Consensus pattern (31 bp):
GCCATGTGTACCAAAAAGTGACACATATCAC
Found at i:14273 original size:13 final size:13
Alignment explanation
Indices: 14255--14282 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14245 TAGACTATAT
14255 CTGCAGTTACAAA
1 CTGCAGTTACAAA
14268 CTGCAGTTACAAA
1 CTGCAGTTACAAA
14281 CT
1 CT
14283 TACAGTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (13 bp):
CTGCAGTTACAAA
Found at i:14320 original size:23 final size:23
Alignment explanation
Indices: 14290--14333 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
14280 ACTTACAGTG
14290 AATGGTCAATGAAGTTATTTTGC
1 AATGGTCAATGAAGTTATTTTGC
14313 AATGGTCAATGAAGTTATTTT
1 AATGGTCAATGAAGTTATTTT
14334 ACAAAAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (23 bp):
AATGGTCAATGAAGTTATTTTGC
Found at i:21003 original size:13 final size:13
Alignment explanation
Indices: 20987--21033 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
20977 TTAAAATTTA
20987 TTATTAATTTAAT
1 TTATTAATTTAAT
21000 TTATTAATTGTAA-
1 TTATTAATT-TAAT
* *
21013 -AATTTATTTAAT
1 TTATTAATTTAAT
21025 TTATTAATT
1 TTATTAATT
21034 GGTAAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
11 3 0.11
12 6 0.22
13 15 0.56
14 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
TTATTAATTTAAT
Found at i:21021 original size:25 final size:25
Alignment explanation
Indices: 20993--21048 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 25
20983 TTTATTATTA
20993 ATTTAATTTATTAATT-GTAAAATTT
1 ATTTAATTTATTAATTGGT-AAATTT
21018 ATTTAATTTATTAATTGGTAAATTT
1 ATTTAATTTATTAATTGGTAAATTT
*
21043 AATTAA
1 ATTTAA
21049 GGTTAAGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (25 bp):
ATTTAATTTATTAATTGGTAAATTT
Found at i:26038 original size:1 final size:1
Alignment explanation
Indices: 26032--26057 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
26022 TTGCTGTTAC
26032 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
26058 GAGGGTGCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:26563 original size:50 final size:50
Alignment explanation
Indices: 26488--26589 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
26478 TGGAGGTCAG
26488 GCATTTACTGGCAAGCAACGGGTATTTACATTAAACTTTTCTGTTACCAA
1 GCATTTACTGGCAAGCAACGGGTATTTACATTAAACTTTTCTGTTACCAA
26538 GCATTTACTGGCAAGCAACGGGTATTTACATTAAACTTTTCTGTTACCAA
1 GCATTTACTGGCAAGCAACGGGTATTTACATTAAACTTTTCTGTTACCAA
26588 GC
1 GC
26590 TGATCTAATG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (50 bp):
GCATTTACTGGCAAGCAACGGGTATTTACATTAAACTTTTCTGTTACCAA
Found at i:34509 original size:11 final size:10
Alignment explanation
Indices: 34484--34543 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 10
34474 TGGCCGGAAG
34484 AGAAAGAAAAGA
1 AGAAAG-AAA-A
*
34496 AGATAGAGAAA
1 AGAAAGA-AAA
34507 AGAAAGAAAA
1 AGAAAGAAAA
34517 AG-AAGAAAA
1 AGAAAGAAAA
* *
34526 GGAAGGAAAA
1 AGAAAGAAAA
34536 A-AAAGAAA
1 AGAAAGAAA
34544 CGATAAATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
9 14 0.35
10 11 0.28
11 8 0.20
12 7 0.17
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (10 bp):
AGAAAGAAAA
Found at i:34523 original size:18 final size:18
Alignment explanation
Indices: 34480--34543 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
34470 GCTATGGCCG
*
34480 GAAGAGAAAGAAAAGAAGATA
1 GAAGA-AAAG-AAAGAA-AAA
34501 G-AGAAAAGAAAGAAAAA
1 GAAGAAAAGAAAGAAAAA
*
34518 GAAGAAAAGGAAGGAAAAA
1 GAAGAAAA-GAAAGAAAAA
*
34537 AAAGAAA
1 GAAGAAA
34544 CGATAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
17 3 0.08
18 12 0.32
19 19 0.50
20 3 0.08
21 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.27, T:0.02
Consensus pattern (18 bp):
GAAGAAAAGAAAGAAAAA
Found at i:42622 original size:20 final size:19
Alignment explanation
Indices: 42575--42612 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
42565 AATTCAAAAC
42575 AAAATAAAAACTACCCATTT
1 AAAAT-AAAACTACCCATTT
*
42595 TAAATAAAACTACCCATT
1 AAAATAAAACTACCCATT
42613 AAAGGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAATAAAACTACCCATTT
Found at i:42894 original size:20 final size:20
Alignment explanation
Indices: 42871--42909 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
42861 TTATTTATAT
*
42871 CATTTTAAAAAAAAACTACC
1 CATTTAAAAAAAAAACTACC
42891 CATTTAAAAAAAAAACTAC
1 CATTTAAAAAAAAAACTAC
42910 AACAAATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.18, G:0.00, T:0.23
Consensus pattern (20 bp):
CATTTAAAAAAAAAACTACC
Found at i:43132 original size:31 final size:31
Alignment explanation
Indices: 43094--43156 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
43084 ACGAGTTTTG
**
43094 TAAAACTTTTGAATCGTCTATTATACCCTTA
1 TAAAACTTTTGAATCACCTATTATACCCTTA
43125 TAAAACTTTTGAATCACCTATTATACCCTTA
1 TAAAACTTTTGAATCACCTATTATACCCTTA
43156 T
1 T
43157 TTTTCGAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (31 bp):
TAAAACTTTTGAATCACCTATTATACCCTTA
Found at i:43296 original size:93 final size:94
Alignment explanation
Indices: 43193--43363 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 94
43183 TTGTTTAAAT
*
43193 TTTTATAGTTTTAGTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATAACTA
1 TTTTATAGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATAACTA
43258 -TTTTATTTTTACCATTTTACCATTTTAC
66 TTTTTATTTTTACCATTTTACCATTTTAC
* *
43286 TTTTATAGTTTTACTCAACTAAAAACTCTATTTTTATTTGATTAAATCTAATATCCTTATACCTA
1 TTTTATAGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATAACTA
43351 TTTTTATTTTTAC
66 TTTTTATTTTTAC
43364 GATATTACTA
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
93 62 0.84
94 12 0.16
ACGTcount: A:0.32, C:0.14, G:0.02, T:0.52
Consensus pattern (94 bp):
TTTTATAGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATAACTA
TTTTTATTTTTACCATTTTACCATTTTAC
Found at i:43819 original size:6 final size:7
Alignment explanation
Indices: 43794--43818 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
43784 GAATTTAAAG
43794 TTTTTAT
1 TTTTTAT
43801 TTTTTAT
1 TTTTTAT
43808 TTTTTAT
1 TTTTTAT
43815 TTTT
1 TTTT
43819 AAAAAGAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:56571 original size:22 final size:22
Alignment explanation
Indices: 56543--56585 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
56533 GGGCCAAATA
*
56543 GGCACGTGGGGTCGT-CTGTGCC
1 GGCACGT-GAGTCGTGCTGTGCC
56565 GGCACGTGAGTCGTGCTGTGC
1 GGCACGTGAGTCGTGCTGTGC
56586 TAGCCCATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.07, C:0.26, G:0.44, T:0.23
Consensus pattern (22 bp):
GGCACGTGAGTCGTGCTGTGCC
Found at i:61746 original size:12 final size:12
Alignment explanation
Indices: 61729--61777 Score: 73
Period size: 12 Copynumber: 4.2 Consensus size: 12
61719 TTAAACATAG
61729 CTAACTAAGTAA
1 CTAACTAAGTAA
61741 CTAACTAAGTAA
1 CTAACTAAGTAA
*
61753 CTAACTTAGTAA
1 CTAACTAAGTAA
*
61765 C-AACTAATTAA
1 CTAACTAAGTAA
61776 CT
1 CT
61778 CTTAACCAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (12 bp):
CTAACTAAGTAA
Found at i:82856 original size:97 final size:97
Alignment explanation
Indices: 82703--82886 Score: 332
Period size: 97 Copynumber: 1.9 Consensus size: 97
82693 GCATGCAAAG
* *
82703 GATGAAAAGGAAACTTGGAGCCAAGAAAATGAAATCTATAAATAGACACATTGATATAATGATGG
1 GATGAAAAGGAAACTTGGAGCAAAGAAAACGAAATCTATAAATAGACACATTGATATAATGATGG
82768 ACACGTTCTATTTTAGTTTAATCTCAAAGCAT
66 ACACGTTCTATTTTAGTTTAATCTCAAAGCAT
*
82800 GATGAAAAGGAAACTTGGAGCAAAGAAAACGAAATCTATAAATAGACACATTGATATTATGATGG
1 GATGAAAAGGAAACTTGGAGCAAAGAAAACGAAATCTATAAATAGACACATTGATATAATGATGG
*
82865 ACATGTTCTATTTTAGTTTAAT
66 ACACGTTCTATTTTAGTTTAAT
82887 GTGATAACTT
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 83 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (97 bp):
GATGAAAAGGAAACTTGGAGCAAAGAAAACGAAATCTATAAATAGACACATTGATATAATGATGG
ACACGTTCTATTTTAGTTTAATCTCAAAGCAT
Found at i:84995 original size:25 final size:24
Alignment explanation
Indices: 84967--85016 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
84957 AATATAAAGA
84967 ATTAAATAAATAATATATATCTGAT
1 ATTAAATAAATAATATATAT-TGAT
* * *
84992 ATTATATATATATTATATATTGAT
1 ATTAAATAAATAATATATATTGAT
85016 A
1 A
85017 AACGGTCGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (24 bp):
ATTAAATAAATAATATATATTGAT
Found at i:87960 original size:7 final size:7
Alignment explanation
Indices: 87948--87977 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
87938 CTTAATTTAA
87948 TCTTTCT
1 TCTTTCT
87955 TCTTTCT
1 TCTTTCT
87962 TCTTTCT
1 TCTTTCT
87969 TCTTTCT
1 TCTTTCT
87976 TC
1 TC
87978 GCCAGCCTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (7 bp):
TCTTTCT
Found at i:100892 original size:15 final size:16
Alignment explanation
Indices: 100872--100906 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
100862 TTTAAAAATC
100872 ACAATTAAA-AAGAAA
1 ACAATTAAACAAGAAA
*
100887 ACAATTAAACTAGAAA
1 ACAATTAAACAAGAAA
100903 ACAA
1 ACAA
100907 AGCAAAGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.69, C:0.11, G:0.06, T:0.14
Consensus pattern (16 bp):
ACAATTAAACAAGAAA
Found at i:102343 original size:19 final size:18
Alignment explanation
Indices: 102310--102345 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
102300 TTGAATTAAT
102310 TCTTCAAAAATCTTCAAG
1 TCTTCAAAAATCTTCAAG
*
102328 TCTTCAAATTATCTTCAA
1 TCTTCAAA-AATCTTCAA
102346 ATGGTCTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (18 bp):
TCTTCAAAAATCTTCAAG
Found at i:112880 original size:18 final size:17
Alignment explanation
Indices: 112857--112900 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
112847 GTGCTATTCA
112857 CCCCCTCCCCCCCACACC
1 CCCCCTCCCCCCC-CACC
*
112875 CCCCCTACCCCCCCCCCC
1 CCCCCT-CCCCCCCCACC
112893 CCCCCTCC
1 CCCCCTCC
112901 TCCTCTAGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 2 0.08
18 15 0.62
19 7 0.29
ACGTcount: A:0.07, C:0.86, G:0.00, T:0.07
Consensus pattern (17 bp):
CCCCCTCCCCCCCCACC
Found at i:114464 original size:22 final size:22
Alignment explanation
Indices: 114434--114486 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
114424 ACTTATATAT
* *
114434 AATTAAATTGATA-TTTATTTA
1 AATTTAATTGAAATTTTATTTA
* *
114455 ATATTTAATTTAAATTTTATTTC
1 A-ATTTAATTGAAATTTTATTTA
114478 AATTTAATT
1 AATTTAATT
114487 ATGTTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.04
22 17 0.65
23 8 0.31
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
AATTTAATTGAAATTTTATTTA
Found at i:115570 original size:44 final size:43
Alignment explanation
Indices: 115303--116287 Score: 261
Period size: 44 Copynumber: 22.3 Consensus size: 43
115293 TGTGGTTACT
* * * * *
115303 AAAATTTTATAGTGTGGTTCTCAAAA-TTCAATAGTGTGGTTATC
1 AAAATTTCATA-TGTGGTTATCAAAATTTC-ATAGGGAGATTATC
* * * * ** *
115347 AAAATTTTATAATGAGGTTACCAAAATTTCAAAGATAGGATT-TT
1 AAAATTTCAT-ATGTGGTTATCAAAATTTCATAGGGA-GATTATC
* * * * **
115391 AAAATTTTATAATGTAGTTATCACAATTTCAT-GGGATACAATC
1 AAAATTTCAT-ATGTGGTTATCAAAATTTCATAGGGAGATTATC
* * * * * * *
115434 AAACTTTTATATGGAGGTTACCAAAATTTCATAAGGAGGTTATT
1 AAAATTTCATAT-GTGGTTATCAAAATTTCATAGGGAGATTATC
* * * *
115478 GAAA-TTCAT-GGTAAGGTTATCAAAATTTCACAGGGAGGTTA-C
1 AAAATTTCATATGT--GGTTATCAAAATTTCATAGGGAGATTATC
* *
115520 TAAAATTTCATACTCTGGTTATCAAAATTTCATAGGGCGATTATC
1 -AAAATTTCATA-TGTGGTTATCAAAATTTCATAGGGAGATTATC
* * * *
115565 GAAATTTTATATGGAGGTTATCAAAATTTCATAGGAAGATTATC
1 AAAATTTCATAT-GTGGTTATCAAAATTTCATAGGGAGATTATC
* * *
115609 AAAATTTCATAGTGTGCTTATAAAAATTACATAGTGAGATAGAGTGAGCTAATC
1 AAAATTTCATA-TGTGGTTATCAAAATTTCATAG-G-G--AGA-T----T-ATC
* * * *
115663 AAAATTTCA-AGTGTCGTTACCAAAATTTCATAGTGTA-ATAATC
1 AAAATTTCATA-TGTGGTTATCAAAATTTCATAG-GGAGATTATC
* * * * *
115706 ACAATTTCATA-GAGGTTAAC-AAATTTCATGGGGAGGTTATC
1 AAAATTTCATATGTGGTTATCAAAATTTCATAGGGAGATTATC
* * * * * * *
115747 GAAATTTTAGA-GGGAGATTATCAAAATTTCATAGTGTGGTTATC
1 AAAATTTCATATGTG-G-TTATCAAAATTTCATAGGGAGATTATC
* * *
115791 AATATTTTATAATGTGG---T----ATTTCAGAGGGAGAGGTTATC
1 AAAATTTCAT-ATGTGGTTATCAAAATTTCATAGGGAGA--TTATC
* * * * * * *
115830 AAATTTTCATGGTGTAGTAATTAAAATTTCATATATAGTGAGATTAAC
1 AAAATTTCAT-ATGTGGTTATCAAAATTTC----ATAGGGAGATTATC
* * * * * *
115878 AAAATTAATTTGATAGTGTGCTTCTCAAAATTTTATAAGGAGATTAAC
1 --AA--AATTTCATA-TGTGGTTATCAAAATTTCATAGGGAGATTATC
* * ** *
115926 AAAATTTCATAAGTAAGTTATCGTAATTTTAT-GGTGTAGTTAATTATC
1 AAAATTTCATATGT-GGTTATCAAAATTTCATAGG-G-AG---ATTATC
* * * ***
115974 AAAATTTCAT-TGGGGTTATCAAAATTTAATAGTGTTCTTATC
1 AAAATTTCATATGTGGTTATCAAAATTTCATAGGGAGATTATC
* * * ** *
116016 AAAATTTCGTATGAGGTTAACAAAATTT--T-GTAAG-TTATAA
1 AAAATTTCATATGTGGTTATCAAAATTTCATAGGGAGATTAT-C
* * *
116056 AAAAATT-ATATG-GATGTTATCAAAATTTCATA-AGATGGTTATC
1 AAAATTTCATATGTG--GTTATCAAAATTTCATAGGGA-GATTATC
* * *
116099 AAAATTTCATGAGGTGGTTTTCAAAATTTCAT---GAGGTTATC
1 AAAATTTCAT-ATGTGGTTATCAAAATTTCATAGGGAGATTATC
* * * *
116140 AAAATTTCAAATGGAGGTTATCAAAATTTTATAGGGAGATTTATA
1 AAAATTTCATAT-GTGGTTATCAAAATTTCATAGGGAGA-TTATC
* ** * *
116185 AAAATTTCATA-GTGAGGTATCGCAATTTCAT-GGTATGGTTATC
1 AAAATTTCATATGTG-GTTATCAAAATTTCATAGGGA-GATTATC
* * * * * * *
116228 AAAATTTCATAATGTGATTACCAATATTTTATTGGAAGGTTATC
1 AAAATTTCAT-ATGTGGTTATCAAAATTTCATAGGGAGATTATC
116272 AAAATTTCATAATGTG
1 AAAATTTCAT-ATGTG
116288 CGCTTCAGTG
Statistics
Matches: 692, Mismatches: 170, Indels: 158
0.68 0.17 0.15
Matches are distributed among these distances:
37 10 0.01
38 1 0.00
39 24 0.03
40 23 0.03
41 58 0.08
42 29 0.04
43 118 0.17
44 267 0.39
45 36 0.05
46 25 0.04
47 2 0.00
48 35 0.05
49 2 0.00
50 10 0.01
52 18 0.03
53 22 0.03
54 12 0.02
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (43 bp):
AAAATTTCATATGTGGTTATCAAAATTTCATAGGGAGATTATC
Found at i:115629 original size:22 final size:22
Alignment explanation
Indices: 115251--115646 Score: 199
Period size: 22 Copynumber: 18.1 Consensus size: 22
115241 TTTAATTTTG
*
115251 GAGGTTATCAAAA-TTCATTGT
1 GAGGTTATCAAAATTTCATAGT
* * *
115272 GTGGTTA-CTAAAATTTTATTGT
1 GAGGTTATC-AAAATTTCATAGT
* *
115294 GTGGTTA-CTAAAATTTTATAGT
1 GAGGTTATC-AAAATTTCATAGT
* *
115316 GTGGTTCTCAAAA-TTCAATAGT
1 GAGGTTATCAAAATTTC-ATAGT
* * *
115338 GTGGTTATCAAAATTTTATAAT
1 GAGGTTATCAAAATTTCATAGT
* *
115360 GAGGTTACCAAAATTTCAAAGAT
1 GAGGTTATCAAAATTTCATAG-T
* * *
115383 -AGGATT-TTAAAATTTTATAAT
1 GAGG-TTATCAAAATTTCATAGT
* *
115404 GTA-GTTATCACAATTTCAT-GG
1 G-AGGTTATCAAAATTTCATAGT
**** * *
115425 GATACAATCAAACTTTTATA-T
1 GAGGTTATCAAAATTTCATAGT
*
115446 GGAGGTTACCAAAATTTCATAAG-
1 -GAGGTTATCAAAATTTCAT-AGT
** *
115469 GAGGTTATTGAAA-TTCATGGT
1 GAGGTTATCAAAATTTCATAGT
* * *
115490 AAGGTTATCAAAATTTCACAGG
1 GAGGTTATCAAAATTTCATAGT
*
115512 GAGGTTA-CTAAAATTTCATACT
1 GAGGTTATC-AAAATTTCATAGT
** *
115534 CTGGTTATCAAAATTTCATAGG
1 GAGGTTATCAAAATTTCATAGT
* * * *
115556 GCGATTATCGAAATTTTATA-T
1 GAGGTTATCAAAATTTCATAGT
115577 GGAGGTTATCAAAATTTCATAG-
1 -GAGGTTATCAAAATTTCATAGT
*
115599 GAAGATTATCAAAATTTCATAGT
1 G-AGGTTATCAAAATTTCATAGT
* * * *
115622 GTGCTTATAAAAATTACATAGT
1 GAGGTTATCAAAATTTCATAGT
115644 GAG
1 GAG
115647 ATAGAGTGAG
Statistics
Matches: 281, Mismatches: 71, Indels: 45
0.71 0.18 0.11
Matches are distributed among these distances:
20 3 0.01
21 43 0.15
22 225 0.80
23 10 0.04
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (22 bp):
GAGGTTATCAAAATTTCATAGT
Found at i:115789 original size:22 final size:22
Alignment explanation
Indices: 115660--115808 Score: 90
Period size: 22 Copynumber: 7.0 Consensus size: 22
115650 GAGTGAGCTA
*
115660 ATCAAAATTTCA-AGTGTCGTT
1 ATCAAAATTTCATAGTGTGGTT
* ** *
115681 ACCAAAATTTCATAGTGTAATA
1 ATCAAAATTTCATAGTGTGGTT
* *
115703 ATCACAATTTCATA--GAGGTT
1 ATCAAAATTTCATAGTGTGGTT
* * * *
115723 AAC-AAATTTCATGGGGAGGTT
1 ATCAAAATTTCATAGTGTGGTT
* * * * * *
115744 ATCGAAATTTTAGAGGGAGATT
1 ATCAAAATTTCATAGTGTGGTT
115766 ATCAAAATTTCATAGTGTGGTT
1 ATCAAAATTTCATAGTGTGGTT
* * *
115788 ATCAATATTTTATAATGTGGT
1 ATCAAAATTTCATAGTGTGGT
115809 ATTTCAGAGG
Statistics
Matches: 97, Mismatches: 27, Indels: 7
0.74 0.21 0.05
Matches are distributed among these distances:
19 8 0.08
20 4 0.04
21 19 0.20
22 66 0.68
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (22 bp):
ATCAAAATTTCATAGTGTGGTT
Found at i:115882 original size:26 final size:26
Alignment explanation
Indices: 115852--115936 Score: 72
Period size: 26 Copynumber: 3.4 Consensus size: 26
115842 TGTAGTAATT
115852 AAAATTTCATATATAGTGAGATTAAC
1 AAAATTTCATATATAGTGAGATTAAC
* * * * **
115878 AAAA-TTAATTTGATAGTGTGCTTCTC
1 AAAATTTCATAT-ATAGTGAGATTAAC
115904 AAAATTT--TATA-AG-GAGATTAAC
1 AAAATTTCATATATAGTGAGATTAAC
115926 AAAATTTCATA
1 AAAATTTCATA
115937 AGTAAGTTAT
Statistics
Matches: 44, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
22 12 0.27
23 2 0.05
24 3 0.07
25 7 0.16
26 18 0.41
27 2 0.05
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (26 bp):
AAAATTTCATATATAGTGAGATTAAC
Found at i:116096 original size:22 final size:22
Alignment explanation
Indices: 116071--116283 Score: 133
Period size: 22 Copynumber: 9.8 Consensus size: 22
116061 TTATATGGAT
116071 GTTATCAAAATTTCATAAGATG
1 GTTATCAAAATTTCATAAGATG
* *
116093 GTTATCAAAATTTCATGAGGTG
1 GTTATCAAAATTTCATAAGATG
*
116115 GTTTTCAAAATTTCAT--GA-G
1 GTTATCAAAATTTCATAAGATG
116134 GTTATCAAAATTTCA-AATGGA-G
1 GTTATCAAAATTTCATAA--GATG
*
116156 GTTATCAAAATTTTATAGGGAGAT-
1 GTTATCAAAATTTCATA---AGATG
*
116180 -TTATAAAAATTTCAT-AG-TG
1 GTTATCAAAATTTCATAAGATG
* ** *
116199 AGGTATCGCAATTTCAT-GGTATG
1 -GTTATCAAAATTTCATAAG-ATG
116222 GTTATCAAAATTTCATAATG-TG
1 GTTATCAAAATTTCATAA-GATG
* * * * ** *
116244 ATTACCAATATTTTATTGGAAG
1 GTTATCAAAATTTCATAAGATG
116266 GTTATCAAAATTTCATAA
1 GTTATCAAAATTTCATAA
116284 TGTGCGCTTC
Statistics
Matches: 144, Mismatches: 30, Indels: 34
0.69 0.14 0.16
Matches are distributed among these distances:
18 1 0.01
19 17 0.12
20 1 0.01
21 13 0.09
22 92 0.64
23 16 0.11
24 3 0.02
26 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
GTTATCAAAATTTCATAAGATG
Found at i:116365 original size:22 final size:22
Alignment explanation
Indices: 116301--116387 Score: 81
Period size: 22 Copynumber: 3.9 Consensus size: 22
116291 TTCAGTGGGA
* *
116301 GGTTATCAAAGTTTCATAGGAT
1 GGTTATCAAAATTTTATAGGAT
116323 GGTTATCAAAATTTTATTAGG-T
1 GGTTATCAAAATTTTA-TAGGAT
*
116345 GGTTATTAAAATTTTTATAGG--
1 GGTTATCAAAA-TTTTATAGGAT
*
116366 GAGTATAACAAAATTTTATAGG
1 G-GT-TATCAAAATTTTATAGG
116388 GAAGCTAACA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
21 1 0.02
22 40 0.71
23 15 0.27
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.40
Consensus pattern (22 bp):
GGTTATCAAAATTTTATAGGAT
Found at i:116378 original size:23 final size:23
Alignment explanation
Indices: 116352--116403 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
116342 GGTGGTTATT
116352 AAAATTTTTATAGGG-AGTATAAC
1 AAAATTTTTATAGGGAAG-ATAAC
*
116375 AAAA-TTTTATAGGGAAGCTAAC
1 AAAATTTTTATAGGGAAGATAAC
116397 AAAATTT
1 AAAATTT
116404 CATATGGAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (23 bp):
AAAATTTTTATAGGGAAGATAAC
Found at i:116388 original size:22 final size:21
Alignment explanation
Indices: 116352--116412 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
116342 GGTGGTTATT
116352 AAAATTTTTATAGGGAGTATAAC
1 AAAA-TTTTATAGGGAG-ATAAC
*
116375 AAAATTTTATAGGGAAGCTAAC
1 AAAATTTTATAGGG-AGATAAC
* *
116397 AAAATTTCATATGGAG
1 AAAATTTTATAGGGAG
116413 GTTCTCGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.06
22 26 0.76
23 6 0.18
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.31
Consensus pattern (21 bp):
AAAATTTTATAGGGAGATAAC
Found at i:119074 original size:43 final size:43
Alignment explanation
Indices: 119013--119147 Score: 270
Period size: 43 Copynumber: 3.1 Consensus size: 43
119003 CAGAATCAGA
119013 ATATTAATGGTATTCAATCTCTTAAATATCACTTATATCTAAC
1 ATATTAATGGTATTCAATCTCTTAAATATCACTTATATCTAAC
119056 ATATTAATGGTATTCAATCTCTTAAATATCACTTATATCTAAC
1 ATATTAATGGTATTCAATCTCTTAAATATCACTTATATCTAAC
119099 ATATTAATGGTATTCAATCTCTTAAATATCACTTATATCTAAC
1 ATATTAATGGTATTCAATCTCTTAAATATCACTTATATCTAAC
119142 ATATTA
1 ATATTA
119148 GCACACATGG
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 92 1.00
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.42
Consensus pattern (43 bp):
ATATTAATGGTATTCAATCTCTTAAATATCACTTATATCTAAC
Found at i:119402 original size:17 final size:17
Alignment explanation
Indices: 119380--119415 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
119370 GATTTGTAAA
119380 AGTTTGTTACACCAGAT
1 AGTTTGTTACACCAGAT
* *
119397 AGTTTGTTATACTAGAT
1 AGTTTGTTACACCAGAT
119414 AG
1 AG
119416 CTCTTTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (17 bp):
AGTTTGTTACACCAGAT
Found at i:120350 original size:116 final size:116
Alignment explanation
Indices: 120146--120374 Score: 431
Period size: 116 Copynumber: 2.0 Consensus size: 116
120136 GTTCAGAGAG
120146 ATTTCAACTGCAATTCGGGCGCGTGAAACACCAATTTCTCTTGAAGAACTCCACGACAAACTTGT
1 ATTTCAACTGCAATTCGGGCGCGTGAAACACCAATTTCTCTTGAAGAACTCCACGACAAACTTGT
*
120211 TTCCTTCGAACTTTTTCTCAAACAGGAAGCTGAAAATCCTGCCATACACCA
66 TTCCTTCGAACTTTTTCTCAAACAGAAAGCTGAAAATCCTGCCATACACCA
*
120262 ATTTCAACTGCAATTCGGGCGCGTGAAACACCAATTTCTCTTGAGGAACTCCACGACAAACTTGT
1 ATTTCAACTGCAATTCGGGCGCGTGAAACACCAATTTCTCTTGAAGAACTCCACGACAAACTTGT
*
120327 TTCCTTCGAACTTTTTCTCAAACAGAAAGCTGAAAATCCTGTCATACA
66 TTCCTTCGAACTTTTTCTCAAACAGAAAGCTGAAAATCCTGCCATACA
120375 GGTACCCACT
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 110 1.00
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (116 bp):
ATTTCAACTGCAATTCGGGCGCGTGAAACACCAATTTCTCTTGAAGAACTCCACGACAAACTTGT
TTCCTTCGAACTTTTTCTCAAACAGAAAGCTGAAAATCCTGCCATACACCA
Found at i:121936 original size:30 final size:30
Alignment explanation
Indices: 121900--121973 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
121890 TCCAGCTTCA
121900 CCGCAGGATGTACAGGCAGATGCTCCACTG
1 CCGCAGGATGTACAGGCAGATGCTCCACTG
121930 CCGCAGGATGTACAGGCAGATGCTCCACTG
1 CCGCAGGATGTACAGGCAGATGCTCCACTG
*
121960 CCGCAGGATTTACA
1 CCGCAGGATGTACA
121974 AAATATTGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.24, C:0.30, G:0.28, T:0.18
Consensus pattern (30 bp):
CCGCAGGATGTACAGGCAGATGCTCCACTG
Found at i:122006 original size:18 final size:18
Alignment explanation
Indices: 121980--122039 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
121970 TACAAAATAT
*
121980 TGTTACACTGCCGCAGGA
1 TGTTCCACTGCCGCAGGA
* * *
121998 TGTTCCACTACTGCAGAA
1 TGTTCCACTGCCGCAGGA
* *
122016 TGTTGCATTGCCGCAGGA
1 TGTTCCACTGCCGCAGGA
122034 TGTTCC
1 TGTTCC
122040 GCTATCGCAA
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.28
Consensus pattern (18 bp):
TGTTCCACTGCCGCAGGA
Found at i:129006 original size:183 final size:181
Alignment explanation
Indices: 128683--129102 Score: 633
Period size: 183 Copynumber: 2.3 Consensus size: 181
128673 TTTTTTTGCG
*
128683 AAACATCTCTTTTTGGCACGCCAGGTGGGACTCAAAATGATTGTCTTCTCACTACGCGTCGTCAA
1 AAACATCTCTTTTTGGCACACC-GGTGGGACTCAAAATGATTGTCTTCTCACT-CGCGTCGTCAA
* * * * *
128748 ATCTTTTTCAATTTTTTCTCAAGTTGGCGATCCCCGACATTTCTTTTAATTTTCGCAAATCTGGT
64 ATCTTTTTCAATTTTTCCTCAAGTCGGCGATCCCCGACATTTCTCTTAATTTCCGCAAATCTGAT
* * *
128813 GTCCGCCTAGGCCAGGCTCACACCAATGTTTTCCTCCCACTTCGGCCATACCA
129 GTCAGCCTAGGCCAGGCCCACACCAATGTTTTCCTCCCACTTCGGCCACACCA
* *
128866 AAACATCTCTTTTTGGCACACCTGGTGGGACACAAAATGATTGTCCTCTCACTCTGCGTCGTCAA
1 AAACATCTCTTTTTGGCACACC-GGTGGGACTCAAAATGATTGTCTTCTCACTC-GCGTCGTCAA
* *
128931 ATCTTTTTCAATTTTTCCTCAAGTCGGCGATCCCCGACTTTTCTCTTAATTTCCGCAGATCTGAT
64 ATCTTTTTCAATTTTTCCTCAAGTCGGCGATCCCCGACATTTCTCTTAATTTCCGCAAATCTGAT
* *
128996 GTCAGCCTAGGCCAGGCCCGCACCAATGTTTTCCTCCCACTTTGGCCACACCA
129 GTCAGCCTAGGCCAGGCCCACACCAATGTTTTCCTCCCACTTCGGCCACACCA
* * *
129049 AAACATCTCTTTTTGGCACGTCCGGTGGGACTCAAAATAATTGACTTCTCACTC
1 AAACATCTCTTTTTGGCAC-ACCGGTGGGACTCAAAATGATTGTCTTCTCACTC
129103 CGTGTATTGT
Statistics
Matches: 214, Mismatches: 21, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
182 1 0.00
183 211 0.99
184 2 0.01
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (181 bp):
AAACATCTCTTTTTGGCACACCGGTGGGACTCAAAATGATTGTCTTCTCACTCGCGTCGTCAAAT
CTTTTTCAATTTTTCCTCAAGTCGGCGATCCCCGACATTTCTCTTAATTTCCGCAAATCTGATGT
CAGCCTAGGCCAGGCCCACACCAATGTTTTCCTCCCACTTCGGCCACACCA
Found at i:141711 original size:15 final size:16
Alignment explanation
Indices: 141683--141712 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
141673 TTTCCCAAGT
141683 AGTTACAGAGAGAAAC
1 AGTTACAGAGAGAAAC
141699 AGTTACA-AGAGAAA
1 AGTTACAGAGAGAAA
141713 GAAAGGGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.10, G:0.23, T:0.13
Consensus pattern (16 bp):
AGTTACAGAGAGAAAC
Found at i:145153 original size:11 final size:11
Alignment explanation
Indices: 145129--145163 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
145119 TTGACAACGC
145129 AACAAAAACAA
1 AACAAAAACAA
* *
145140 AACGAAAACGA
1 AACAAAAACAA
145151 AACAAAAACAA
1 AACAAAAACAA
145162 AA
1 AA
145164 AACAGAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.77, C:0.17, G:0.06, T:0.00
Consensus pattern (11 bp):
AACAAAAACAA
Found at i:146125 original size:32 final size:32
Alignment explanation
Indices: 146026--146117 Score: 132
Period size: 32 Copynumber: 2.9 Consensus size: 32
146016 AAAAGCTCAC
* *
146026 TTTGGGTCAAGTTGATTCGGGTTCGGGTTAAA
1 TTTGGGTCAGGTTGATTCGGGTTCGGGTTAAT
* *
146058 TTTGGATCAGGTTGATTCGGGTTCGGGTCAAT
1 TTTGGGTCAGGTTGATTCGGGTTCGGGTTAAT
*
146090 TTTGGGTCAGGTT-ATTCGGATTCGGGTT
1 TTTGGGTCAGGTTGATTCGGGTTCGGGTT
146118 GGATTTTGAC
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 13 0.25
32 40 0.75
ACGTcount: A:0.15, C:0.11, G:0.35, T:0.39
Consensus pattern (32 bp):
TTTGGGTCAGGTTGATTCGGGTTCGGGTTAAT
Found at i:146284 original size:20 final size:20
Alignment explanation
Indices: 146251--146289 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
146241 CAAAAATGAA
*
146251 ATTTTCAGAAATTATTATTT
1 ATTTTCAGAAATTAGTATTT
146271 ATTTTCA-AATATTAGTATT
1 ATTTTCAGAA-ATTAGTATT
146290 GAATTCAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (20 bp):
ATTTTCAGAAATTAGTATTT
Found at i:147403 original size:15 final size:15
Alignment explanation
Indices: 147383--147412 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
147373 TATCGTACAT
147383 AAGTTATAGTTTAAG
1 AAGTTATAGTTTAAG
147398 AAGTTATAGTTTAAG
1 AAGTTATAGTTTAAG
147413 GTGTAACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (15 bp):
AAGTTATAGTTTAAG
Found at i:148860 original size:200 final size:199
Alignment explanation
Indices: 148407--148931 Score: 761
Period size: 200 Copynumber: 2.6 Consensus size: 199
148397 TAATTGAGTT
* * *
148407 TTTTCATAATTAATTAAATATTTAATATTAACACGTATTCCCTAAGGCGACACATGTCAACCCTT
1 TTTT-ATAATTAATTAAATATTTAATATTAATACATATTCCCTAAGGGGACACATGTCAACCCTT
** * *
148472 AAACCCCGCGTGTGCAGTCTGCTAAACTCCACTGATGGTGTATTGTATAATTTTTCTTATATGAT
65 AAACCCCGCACGTGTAGTCTGCTAAACTCCACTGATGGTGTATTGTATAATTTTTCTTATAGGAT
* *
148537 TATCATACAATACACTGTAAGTGTAAATTTTGGACTCCATAAGCGGGTTAAAAGGTTGACACATT
130 TATCATACAATACACTGTAAGTGTAAACTTTGGACTCCATAAGCAGGTTAAAAGGTTGACACATT
148602 ACCCA
195 ACCCA
* * *
148607 TTTCATAA-TATATTAAAAATTTAATATTAATACATATTCCCTAAGGGGACACATGTCAGCCCTT
1 TTTTATAATTA-ATTAAATATTTAATATTAATACATATTCCCTAAGGGGACACATGTCAACCCTT
* *
148671 AAACCCCACACGTGTAGTCTGCTAAACTCCACTGACGGTGTATTGTATAATTTTTCTTATAGGGA
65 AAACCCCGCACGTGTAGTCTGCTAAACTCCACTGATGGTGTATTGTATAATTTTTCTTATA-GGA
* *
148736 TTATTATACAATACACTGTCAA-TGTAAACTTTGGATTCCATAAGCAGGTTAAGAA-GTTGACAC
129 TTATCATACAATACACTGT-AAGTGTAAACTTTGGACTCCATAAGCAGGTTAA-AAGGTTGACAC
*
148799 A-TACTTCA
192 ATTAC-CCA
* *
148807 TTTTATAATTAATTAAATATTTAATATTTATACATATTCCCTAAGGGGACACATGTCAACCTTTA
1 TTTTATAATTAATTAAATATTTAATATTAATACATATTCCCTAAGGGGACACATGTCAACCCTTA
* * **
148872 AACACCGCACGTGTAGTCTGCTAAACTCCATTGATGGCATATTGTATAATTTTTCTTATA
66 AACCCCGCACGTGTAGTCTGCTAAACTCCACTGATGGTGTATTGTATAATTTTTCTTATA
148932 ATTAACTGAT
Statistics
Matches: 291, Mismatches: 28, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
198 2 0.01
199 111 0.38
200 172 0.59
201 6 0.02
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (199 bp):
TTTTATAATTAATTAAATATTTAATATTAATACATATTCCCTAAGGGGACACATGTCAACCCTTA
AACCCCGCACGTGTAGTCTGCTAAACTCCACTGATGGTGTATTGTATAATTTTTCTTATAGGATT
ATCATACAATACACTGTAAGTGTAAACTTTGGACTCCATAAGCAGGTTAAAAGGTTGACACATTA
CCCA
Done.