Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold45
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: 1930935
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 50924 characters in sequence are not A, C, G, or T
File 1 of 7
Found at i:340 original size:6 final size:7
Alignment explanation
Indices: 323--348 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
313 ACAAACAGAA
323 AAAAATT
1 AAAAATT
330 AAAAATT
1 AAAAATT
337 AAAAATT
1 AAAAATT
344 AAAAA
1 AAAAA
349 AAAAGATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:422 original size:19 final size:19
Alignment explanation
Indices: 387--425 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
377 AAAAATGTTA
387 CTTTTATTTCTTCTTGAAT
1 CTTTTATTTCTTCTTGAAT
*
406 CTTTGTATTT-TTTTTGAAT
1 CTTT-TATTTCTTCTTGAAT
425 C
1 C
426 GGTTTTTCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.15, C:0.13, G:0.08, T:0.64
Consensus pattern (19 bp):
CTTTTATTTCTTCTTGAAT
Found at i:1375 original size:113 final size:113
Alignment explanation
Indices: 1221--1425 Score: 347
Period size: 113 Copynumber: 1.8 Consensus size: 113
1211 CTGCTCCATG
* * * *
1221 GCAACTTCAGAAAGATAAGATCTGTGGCTCTTCGAGGAAACATTTGCTATCTTTAGTCTGCTATA
1 GCAACTTCAGAAAGATAAGATCTGTGGCTCTTCGAGAAAACATTTACTATCTTCAGTCTGCTACA
* *
1286 CTGCAACTTTAGTGAGATAAGACTTGTTATGGTGTAATCCACTCTACT
66 CTGCAACCTCAGTGAGATAAGACTTGTTATGGTGTAATCCACTCTACT
*
1334 GCAACTTCAGAGAGATAAGATCTGTGGCTCTTCGAGAAAACATTTACTATCTTCAGTCTGCTACA
1 GCAACTTCAGAAAGATAAGATCTGTGGCTCTTCGAGAAAACATTTACTATCTTCAGTCTGCTACA
1399 CTGCAACCTCAGTGAGATAAGACTTGT
66 CTGCAACCTCAGTGAGATAAGACTTGT
1426 AGCTTCAACT
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
113 85 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (113 bp):
GCAACTTCAGAAAGATAAGATCTGTGGCTCTTCGAGAAAACATTTACTATCTTCAGTCTGCTACA
CTGCAACCTCAGTGAGATAAGACTTGTTATGGTGTAATCCACTCTACT
Found at i:1869 original size:128 final size:128
Alignment explanation
Indices: 1452--1853 Score: 646
Period size: 128 Copynumber: 3.1 Consensus size: 128
1442 ACTGCAACTT
*
1452 CAGGGAAATAGGATTTGTGGCTTAAATTTGCTTCCTTACTCTTGAAGATAAGATTTGT-CGTCAT
1 CAGGGAAATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTT-TCCGTC-T
* * * *
1516 T-GATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACTTATTCCACTGCTGAC
64 TCGATCTGCTCCGCTACTACTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* * *
1580 CAGGGAAATAGGACTTGTGGCTTAAATCTGCTTCATTACTCTTGAAGATAAGATTTGCCGTCTTC
1 CAGGGAAATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTTCCGTCTTC
*
1645 GATCTGCTCCGTTACTACTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
66 GATCTGCTCCGCTACTACTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* *
1708 CAGGGAGATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTTCCATCTTC
1 CAGGGAAATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTTCCGTCTTC
* *
1773 GATCTGCTCCGCTACTACTTAAGGAGACAAGATCTGTAATTTCCAACCTACTCCACTACTGAC
66 GATCTGCTCCGCTACTACTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
*
1836 CAGGGAGATAGGATTTGT
1 CAGGGAAATAGGATTTGT
1854 AACTTCGATC
Statistics
Matches: 255, Mismatches: 17, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
127 2 0.01
128 253 0.99
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (128 bp):
CAGGGAAATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTTCCGTCTTC
GATCTGCTCCGCTACTACTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
Found at i:1908 original size:88 final size:86
Alignment explanation
Indices: 1856--3400 Score: 2130
Period size: 88 Copynumber: 17.7 Consensus size: 86
1846 GGATTTGTAA
* * *
1856 CTTCGATCTGCTTCGCCGTTAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGTTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
*
1921 ACCGAGAG-GCAAGGTTTATGT
66 ACCGAGAGAG-AAGGTTTGTGT
* *
1942 CTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATTTGTTGTCTTCAACCAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
2007 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGA-G-AAGGTTTGTGT
* * * * *
2030 TTTCGATCTGCTTTGCTATCAATGTAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGTTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
* *
2095 ACCGAGCG-GCAAGGTTTATGT
66 ACCGAGAGAG-AAGGTTTGTGT
* * * *
2116 CTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGGTTTGTTGTCTTCAACCAGCTCCGTTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
* *
2181 ACCGAGCG-GCAAGGTTTATGT
66 ACCGAGAGAG-AAGGTTTGTGT
* * * *
2202 CTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGGTTTGTTGTCTTCAACCAGCTCCGTTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
* *
2267 ACCGAGCG-GCAAGGTTTATGT
66 ACCGAGAGAG-AAGGTTTGTGT
* * * *
2288 CTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGGTTTGTTGTCTTCAACCAGCTCCGTTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
* *
2353 ACCGAGCG-GCAAGGTTTATGT
66 ACCGAGAGAG-AAGGTTTGTGT
* *
2374 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATTTGTTGTCTTCAACCAGCTCCGATACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
* *
2439 ACTGAGAGAAGTAAGGTTTCTGT
66 ACCGAGAG-AG-AAGGTTTGTGT
* *
2462 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGACAAGATCTGTTGTCTTCAACCAGCTCTGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
2527 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGA-G-AAGGTTTGTGT
* *
2550 CTTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAACTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
* *
2615 ACCGAGACAGGCAAGGTTTGTGG
66 ACCGAGAGA-G-AAGGTTTGTGT
* * * *
2638 GTTCGATCTGTTTCGTTGTCAATGCAGGAAGGCAAGATTTGTTGTCTTCAACCAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
2703 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGA-G-AAGGTTTGTGT
* * * *
2726 CTTCGATCTACTTCGCTGTCAATGCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTTCACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
* *
2791 ACCGAGGGAGGCAAGGCTTGTGT
66 ACCGAGAGA-G-AAGGTTTGTGT
* * * * * *
2814 CTTCGATCCGCTTCGCTGTCGATTCAGGAAGACAAGATCTGTTGTCATCAACCAGCTCCACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
*
2879 ACCGAGAGAGGCAAGTTTTGTGT
66 ACCGAGAGA-G-AAGGTTTGTGT
* * * * * * *
2902 CTTCGAT-TCGTTTCGATGTCGATTCAAGAAGGCAAGATCTGTTGTCATCAACCAGCTCCACTAC
1 CTTCGATCT-GCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTAC
2966 AACCGAGAGAGGTAAGGTTTGTGT
65 AACCGAGAGA-G-AAGGTTTGTGT
*
2990 CTTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
3055 ACCGAGAGAGGTAAGGTTTGTGT
66 ACCGAGAGA-G-AAGGTTTGTGT
*
3078 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATTTGTTGTCTTCAACCAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
3143 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGA-G-AAGGTTTGTGT
*
3166 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
3231 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGA-G-AAGGTTTGTGT
3254 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
*
3319 ACCGAAAGAGACAAGGTTTGTGT
66 ACCG--AGAGAGAAGGTTTGTGT
* * *
3342 CTTCGATCTGCTTCACTGTCAATGCAGGAAGGTAAGATCTTTTGTCTTCAACCAGCTCC
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCC
3401 ATCACAATCG
Statistics
Matches: 1354, Mismatches: 96, Indels: 16
0.92 0.07 0.01
Matches are distributed among these distances:
86 399 0.29
87 1 0.00
88 948 0.70
89 1 0.00
90 5 0.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (86 bp):
CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
ACCGAGAGAGAAGGTTTGTGT
Found at i:5469 original size:20 final size:17
Alignment explanation
Indices: 5423--5457 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5413 CCTCGACCTC
5423 TCCT-TTTTCTTTTCTTT
1 TCCTATTTT-TTTTCTTT
5440 TCCTATTTTTTTTCTTT
1 TCCTATTTTTTTTCTTT
5457 T
1 T
5458 TCTCTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (17 bp):
TCCTATTTTTTTTCTTT
Found at i:9822 original size:25 final size:27
Alignment explanation
Indices: 9794--9854 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
9784 AATTATAAAT
*
9794 TATAAAATATATG-A-ATGTATGTACA
1 TATAAAATATATGCATATCTATGTACA
* *
9819 TATAAAAAATATGCATATCTATGTATA
1 TATAAAATATATGCATATCTATGTACA
9846 TATATAAAT
1 TATA-AAAT
9855 TATAAAGCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 12 0.41
26 1 0.03
27 13 0.45
28 3 0.10
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (27 bp):
TATAAAATATATGCATATCTATGTACA
Found at i:10079 original size:3 final size:3
Alignment explanation
Indices: 10071--10153 Score: 60
Period size: 3 Copynumber: 26.7 Consensus size: 3
10061 TAAGTGGGTA
* * *
10071 AAT AAT AAT AAT AAT GAA- AGT AAT AAT AAT AAAT GCAAT AAC AAG AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT -AAT --AAT AAT AAT AAT
* * **
10119 AAT AAT CAT AAT AAG CTT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10154 ATGGATTAGA
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
2 1 0.02
3 53 0.85
4 5 0.08
5 3 0.05
ACGTcount: A:0.61, C:0.05, G:0.06, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:10095 original size:21 final size:20
Alignment explanation
Indices: 10071--10154 Score: 73
Period size: 21 Copynumber: 3.9 Consensus size: 20
10061 TAAGTGGGTA
10071 AATAATAATAATAATGAAAGT
1 AATAATAATAATAAT-AAAGT
10092 AATAATAATAAATGCAATAACAAG-
1 AATAATAAT-AAT--AAT-A-AAGT
*
10116 AATAATAATCATAAT-AAGCTT
1 AATAATAATAATAATAAAG--T
10137 AATAATAATAATAATAAA
1 AATAATAATAATAATAAA
10155 TGGATTAGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 15
0.74 0.04 0.21
Matches are distributed among these distances:
18 3 0.06
21 26 0.50
22 5 0.10
23 2 0.04
24 13 0.25
25 3 0.06
ACGTcount: A:0.62, C:0.05, G:0.06, T:0.27
Consensus pattern (20 bp):
AATAATAATAATAATAAAGT
Found at i:11107 original size:13 final size:13
Alignment explanation
Indices: 11089--11114 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11079 GGGCGGCGAC
11089 AGAGGCTAGGGTT
1 AGAGGCTAGGGTT
11102 AGAGGCTAGGGTT
1 AGAGGCTAGGGTT
11115 TCTTTGTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.46, T:0.23
Consensus pattern (13 bp):
AGAGGCTAGGGTT
Found at i:11751 original size:54 final size:54
Alignment explanation
Indices: 11678--11830 Score: 148
Period size: 54 Copynumber: 2.9 Consensus size: 54
11668 CAACACGTCT
* * * *
11678 AGATTCGTAAAATCACGTAAGTAGAAGGTCGTAATCGTAAATCAGCAGAC-CGCG
1 AGATTCTTAAAAACCCGTAAGTAGAAGGTCGTGATCGTAAATCAGCAG-CTCGCG
* * * * * * *
11732 AGATTTTTAAAAACCCGTAAGTAGAAGCTTGTGGTAGTAAATCAGCAGCTTGTG
1 AGATTCTTAAAAACCCGTAAGTAGAAGGTCGTGATCGTAAATCAGCAGCTCGCG
** * *
11786 AGATTCTTAAAAAGTCATAA-TAGAAAGTCGTGATCGTAAATCAGC
1 AGATTCTTAAAAACCCGTAAGTAGAAGGTCGTGATCGTAAATCAGC
11831 GAACCATGAG
Statistics
Matches: 78, Mismatches: 20, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
53 21 0.27
54 57 0.73
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.25
Consensus pattern (54 bp):
AGATTCTTAAAAACCCGTAAGTAGAAGGTCGTGATCGTAAATCAGCAGCTCGCG
Found at i:12373 original size:54 final size:54
Alignment explanation
Indices: 12272--12425 Score: 143
Period size: 54 Copynumber: 2.9 Consensus size: 54
12262 TAGGTGGTCG
* * *
12272 TGATCGTAAATTAGTGGACTGTGAGATTCTTAAAATCCTGTATGTAGAAAATCA
1 TGATCGTAAATTAGTGGACCGTGAGATTCTTAAAATCCTATAAGTAGAAAATCA
**
12326 TGATCGTAAATTAGTGGACCGT-AGGATT-TGTAAAAT-CTCATAAGTAGAAGGTCA
1 TGATCGTAAATTAGTGGACCGTGA-GATTCT-TAAAATCCT-ATAAGTAGAAAATCA
* * *** * * *
12380 TGATCATAAATCAGCAAACTGTGAGATTCGTAAAATCCCATAAGTA
1 TGATCGTAAATTAGTGGACCGTGAGATTCTTAAAATCCTATAAGTA
12426 AAAGGTCATC
Statistics
Matches: 81, Mismatches: 13, Indels: 12
0.76 0.12 0.11
Matches are distributed among these distances:
53 4 0.05
54 75 0.93
55 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (54 bp):
TGATCGTAAATTAGTGGACCGTGAGATTCTTAAAATCCTATAAGTAGAAAATCA
Found at i:12522 original size:108 final size:108
Alignment explanation
Indices: 12350--12555 Score: 245
Period size: 108 Copynumber: 1.9 Consensus size: 108
12340 TGGACCGTAG
* * * *
12350 GATTTGTAAAATCTCATAAGTAGAAGGTCATGATCATAAATCAGCAAACTGTGAGATTCGTAAAA
1 GATTTGTAAAATCTCATAAGTAAAAGGTCATCATCATAAATCAGCAAACTGTGAAATTCATAAAA
*
12415 TCC-CATAAGTAAAAGGTCATCATTGTAAATCAATAGACCACAA
66 TCCTCA-AAATAAAAGGTCATCATTGTAAATCAATAGACCACAA
* * * * * **
12458 GATTTGTCAAATCTCGTAAGTAAAAGGTCGTCATCATAAATTA-CCAGGTAGTGAAATTCATAAA
1 GATTTGTAAAATCTCATAAGTAAAAGGTCATCATCATAAATCAGCAAACT-GTGAAATTCATAAA
* * *
12522 ATCCTGAAAATAAAAGGTCGTGATTGTAAATCAA
65 ATCCTCAAAATAAAAGGTCATCATTGTAAATCAA
12556 CTGAATCTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
107 3 0.04
108 77 0.95
109 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.27
Consensus pattern (108 bp):
GATTTGTAAAATCTCATAAGTAAAAGGTCATCATCATAAATCAGCAAACTGTGAAATTCATAAAA
TCCTCAAAATAAAAGGTCATCATTGTAAATCAATAGACCACAA
Found at i:12864 original size:54 final size:54
Alignment explanation
Indices: 12776--13563 Score: 409
Period size: 54 Copynumber: 14.6 Consensus size: 54
12766 AAACACACCT
* * * * *
12776 AGATTCGTAAAATCACGTAATTAGAAGGTTATGAACGTAAATTAGAGGACCGTG
1 AGATTCGTAAAATCCCATAAGTAGAAGGTCATGATCGTAAATTAGAGGACCGTG
* * * * *
12830 AGATTCATAAAATCCCGTAAGTAGAAGCTCATGAACGTAAATTA-ACGGATCGCT-
1 AGATTCGTAAAATCCCATAAGTAGAAGGTCATGATCGTAAATTAGA-GGACCG-TG
* * * * *
12884 AGATTCGTAAAATCCCATAAGTAGGAGGTTATGATCATAAATCA-ACGAACCGTG
1 AGATTCGTAAAATCCCATAAGTAGAAGGTCATGATCGTAAATTAGA-GGACCGTG
* * * * ** *
12938 AGATTTGTAAAATCCCGTAAGTAGAAGATCATGATCGTAAATTAAAGGACTATA
1 AGATTCGTAAAATCCCATAAGTAGAAGGTCATGATCGTAAATTAGAGGACCGTG
* * * * * * *
12992 AGATTTGTAAAATCCCGTAAGTAGAAGGTCATGATCATAAATCAGTGGACTGTA
1 AGATTCGTAAAATCCCATAAGTAGAAGGTCATGATCGTAAATTAGAGGACCGTG
* * * *** *
13046 AGATTCGTAAAATCTCATAAGTAGAAGGTCTTAATCGTAAATTAGCTAATCGTG
1 AGATTCGTAAAATCCCATAAGTAGAAGGTCATGATCGTAAATTAGAGGACCGTG
* ** * * * *
13100 AGATTCATAAAATTTCATAAGTAAAAGGTCATTATCGTAAATCAGCA-GACCATG
1 AGATTCGTAAAATCCCATAAGTAGAAGGTCATGATCGTAAATTAG-AGGACCGTG
* * * * * *
13154 AAATTCGTAAAATCCCATAAGTAAAAGGTTATCATCGTAAATAAGTA-GATCGTG
1 AGATTCGTAAAATCCCATAAGTAGAAGGTCATGATCGTAAATTAG-AGGACCGTG
* *** * * * ***
13208 AGAGTCGTAAAATCTTGTAAGT---AGGTCGTAATCGTAAATCAGCA-GACTACG
1 AGATTCGTAAAATCCCATAAGTAGAAGGTCATGATCGTAAATTAG-AGGACCGTG
* * * * * * * * * *
13259 AGATTTGTAAAGTCTCGTCAGTAAAAGGTCATGATCGTAAATCA-ATGAATCGCG
1 AGATTCGTAAAATCCCATAAGTAGAAGGTCATGATCGTAAATTAGA-GGACCGTG
* * ** ** *
13313 AGATTTGTAAAATCCCGA-AAGTAGAAAGTTGTGATCGTAAATCGGCA-GACTGTG
1 AGATTCGTAAAATCCC-ATAAGTAGAAGGTCATGATCGTAAATTAG-AGGACCGTG
* * * ** * * **
13367 AGATCCGTAAAATCCCGTAAGGAGAAGGTTGTGATCGTAAATCAGCA-AACTC-CA
1 AGATTCGTAAAATCCCATAAGTAGAAGGTCATGATCGTAAATTAG-AGGAC-CGTG
* * * * * * * * *
13421 AGATTCGTAAAATCTCGTAAGTTGAAGGTTC-TGATTGAAAATGAGTGGCCCATG
1 AGATTCGTAAAATCCCATAAGTAGAAGG-TCATGATCGTAAATTAGAGGACCGTG
* * * * * * *
13475 AGATTCGTAAAATCCTATATGTAAAATGTCATGATCTTAAATCAGAGGACCGCG
1 AGATTCGTAAAATCCCATAAGTAGAAGGTCATGATCGTAAATTAGAGGACCGTG
* ** * *
13529 AGATTCATAAAATCCTGTAAGTAGAAAGTCGTGAT
1 AGATTCGTAAAATCCCATAAGTAGAAGGTCATGAT
13564 TTTAATTAAA
Statistics
Matches: 567, Mismatches: 148, Indels: 38
0.75 0.20 0.05
Matches are distributed among these distances:
51 37 0.07
52 1 0.00
53 5 0.01
54 520 0.92
55 3 0.01
56 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (54 bp):
AGATTCGTAAAATCCCATAAGTAGAAGGTCATGATCGTAAATTAGAGGACCGTG
Found at i:13102 original size:162 final size:160
Alignment explanation
Indices: 12776--13554 Score: 495
Period size: 162 Copynumber: 4.8 Consensus size: 160
12766 AAACACACCT
* * * * * * * * *
12776 AGATTCGTAAAATCACGTAATTAGAAGGTTATGAACGTAAATTAGAGGACCGTGAGATTCATAAA
1 AGATTCGTAAAATCTCGTAAGTAAAAGGTCATGATCGTAAATTAAAGGACCATAAGATTCGTAAA
* * * * *
12841 ATCCCGTAAGTAGAAGCTCATGAACGTAAATTAACGGATCGCT-AGATTCGTAAAATCCCATAAG
66 ATCCCGTAAGTAGAAGGTCATGATCGTAAATCAGCAGATCG-TGAGATTCGTAAAATCCCATAAG
* * * *
12905 TAGGAGGTTATGATCATAAATCAACGAACCGTG
130 TAGAAGGTTATAATCGTAAATCAGC-AA-CGTG
* * * * * *
12938 AGATTTGTAAAATCCCGTAAGTAGAAGATCATGATCGTAAATTAAAGGACTATAAGATTTGTAAA
1 AGATTCGTAAAATCTCGTAAGTAAAAGGTCATGATCGTAAATTAAAGGACCATAAGATTCGTAAA
* ** * *
13003 ATCCCGTAAGTAGAAGGTCATGATCATAAATCAGTGGA-CTGTAAGATTCGTAAAATCTCATAAG
66 ATCCCGTAAGTAGAAGGTCATGATCGTAAATCAGCAGATC-GTGAGATTCGTAAAATCCCATAAG
*
13067 TAGAAGGTCT-TAATCGTAAATTAGCTAATCGTG
130 TAGAAGGT-TATAATCGTAAATCAGC-AA-CGTG
* * * * * *
13100 AGATTCATAAAATTTCATAAGTAAAAGGTCATTATCGTAAATCAGCA-GACCATGAA-ATTCGTA
1 AGATTCGTAAAATCTCGTAAGTAAAAGGTCATGATCGTAAATTA-AAGGACCAT-AAGATTCGTA
* * * * * * * ***
13163 AAATCCCATAAGTAAAAGGTTATCATCGTAAATAAGTAGATCGTGAGAGTCGTAAAATCTTGTAA
64 AAATCCCGTAAGTAGAAGGTCATGATCGTAAATCAGCAGATCGTGAGATTCGTAAAATCCCATAA
**
13228 GT---AGGTCGTAATCGTAAATCAGCAGAC-TACG
129 GTAGAAGGTTATAATCGTAAATCAGCA-ACGT--G
* * * * * * * *** *
13259 AGATTTGTAAAGTCTCGTCAGTAAAAGGTCATGATCGTAAATCAATGAATCGCGAGATTTGTAAA
1 AGATTCGTAAAATCTCGTAAGTAAAAGGTCATGATCGTAAATTAAAGGACCATAAGATTCGTAAA
* * ** * * *
13324 ATCCCGAAAGTAGAAAGTTGTGATCGTAAATCGGCAGA-CTGTGAGATCCGTAAAATCCCGTAAG
66 ATCCCGTAAGTAGAAGGTCATGATCGTAAATCAGCAGATC-GTGAGATTCGTAAAATCCCATAAG
* * * *
13388 GAGAAGGTTGTGATCGTAAATCAGCAAAC-TCCA
130 TAGAAGGTTATAATCGTAAATCAGC-AACGT--G
** * * * ** * *
13421 AGATTCGTAAAATCTCGTAAGTTGAAGGTTC-TGATTGAAAATGAGTGGCCCATGAGATTCGTAA
1 AGATTCGTAAAATCTCGTAAGTAAAAGG-TCATGATCGTAAATTAAAGGACCATAAGATTCGTAA
** * * * * * * * **
13485 AATCCTATATGTAAAATGTCATGATCTTAAATCAG-AGGACCGCGAGATTCATAAAATCCTGTAA
65 AATCCCGTAAGTAGAAGGTCATGATCGTAAATCAGCA-GATCGTGAGATTCGTAAAATCCCATAA
13549 GTAGAA
129 GTAGAA
13555 AGTCGTGATT
Statistics
Matches: 483, Mismatches: 114, Indels: 40
0.76 0.18 0.06
Matches are distributed among these distances:
157 1 0.00
158 4 0.01
159 116 0.24
161 3 0.01
162 350 0.72
163 9 0.02
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (160 bp):
AGATTCGTAAAATCTCGTAAGTAAAAGGTCATGATCGTAAATTAAAGGACCATAAGATTCGTAAA
ATCCCGTAAGTAGAAGGTCATGATCGTAAATCAGCAGATCGTGAGATTCGTAAAATCCCATAAGT
AGAAGGTTATAATCGTAAATCAGCAACGTG
Found at i:13104 original size:108 final size:108
Alignment explanation
Indices: 12776--13449 Score: 474
Period size: 108 Copynumber: 6.3 Consensus size: 108
12766 AAACACACCT
* * * * * * *
12776 AGATTCGTAAAATCACGTAATTAGAAGGTTATGAACGTAAATTAG-AGGACCGTGAGATTCATAA
1 AGATTCGTAAAATCCCGTAAGTAGAAGGTCATGATCGTAAATCAGCA-GACTGTGAGATTCGTAA
* * * * **
12840 AATCCCGTAAGTAGAAGCTCATGAACGTAAATTAACGGATCGCT-
65 AATCCCGTAAGTAGAAGGTCTTGATCGTAAATTAGCTAATCG-TG
* * * * * * *
12884 AGATTCGTAAAATCCCATAAGTAGGAGGTTATGATCATAAATCAAC-GAACCGTGAGATTTGTAA
1 AGATTCGTAAAATCCCGTAAGTAGAAGGTCATGATCGTAAATCAGCAG-ACTGTGAGATTCGTAA
* * * * * *
12948 AATCCCGTAAGTAGAAGATCATGATCGTAAATTAAAG-GACT-ATA
65 AATCCCGTAAGTAGAAGGTCTTGATCGTAAATT--AGCTAATCGTG
* * ** *
12992 AGATTTGTAAAATCCCGTAAGTAGAAGGTCATGATCATAAATCAGTGGACTGTAAGATTCGTAAA
1 AGATTCGTAAAATCCCGTAAGTAGAAGGTCATGATCGTAAATCAGCAGACTGTGAGATTCGTAAA
* * *
13057 ATCTCATAAGTAGAAGGTCTTAATCGTAAATTAGCTAATCGTG
66 ATCCCGTAAGTAGAAGGTCTTGATCGTAAATTAGCTAATCGTG
* ** * * * ** *
13100 AGATTCATAAAATTTCATAAGTAAAAGGTCATTATCGTAAATCAGCAGACCATGAAATTCGTAAA
1 AGATTCGTAAAATCCCGTAAGTAGAAGGTCATGATCGTAAATCAGCAGACTGTGAGATTCGTAAA
* * * *
13165 ATCCCATAAGTAAAAGGT-TATCATCGTAAATAAG-TAGATCGTG
66 ATCCCGTAAGTAGAAGGTCT-TGATCGTAAATTAGCTA-ATCGTG
* ** * * ** *
13208 AGAGTCGTAAAATCTTGTAAGT---AGGTCGTAATCGTAAATCAGCAGACTACGAGATTTGTAAA
1 AGATTCGTAAAATCCCGTAAGTAGAAGGTCATGATCGTAAATCAGCAGACTGTGAGATTCGTAAA
* * * * * * * *
13270 GTCTCGTCAGTAAAAGGTCATGATCGTAAATCA-ATGAATCGCG
66 ATCCCGTAAGTAGAAGGTCTTGATCGTAAATTAGCT-AATCGTG
* * * ** * *
13313 AGATTTGTAAAATCCCGAAAGTAGAAAGTTGTGATCGTAAATCGGCAGACTGTGAGATCCGTAAA
1 AGATTCGTAAAATCCCGTAAGTAGAAGGTCATGATCGTAAATCAGCAGACTGTGAGATTCGTAAA
* * * **
13378 ATCCCGTAAGGAGAAGGT-TGTGATCGTAAATCAGCAAACTC-CA
66 ATCCCGTAAGTAGAAGGTCT-TGATCGTAAATTAGCTAA-TCGTG
* *
13421 AGATTCGTAAAATCTCGTAAGTTGAAGGT
1 AGATTCGTAAAATCCCGTAAGTAGAAGGT
13450 TCTGATTGAA
Statistics
Matches: 449, Mismatches: 98, Indels: 38
0.77 0.17 0.06
Matches are distributed among these distances:
105 82 0.18
106 3 0.01
107 7 0.02
108 351 0.78
109 5 0.01
110 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (108 bp):
AGATTCGTAAAATCCCGTAAGTAGAAGGTCATGATCGTAAATCAGCAGACTGTGAGATTCGTAAA
ATCCCGTAAGTAGAAGGTCTTGATCGTAAATTAGCTAATCGTG
Found at i:13323 original size:105 final size:105
Alignment explanation
Indices: 13048--13326 Score: 251
Period size: 105 Copynumber: 2.6 Consensus size: 105
13038 GGACTGTAAG
* * * * * * * *
13048 ATTCGTAAAATCTCATAAGTAGAAGGTCTTAATCGTAAATTAGCTA-ATCGTGAGATTCATAAAA
1 ATTCGTAAAATCCCATAAGTAAAAGGTCATCATCGTAAATAAG-TAGATCGCGAGAGTCGTAAAA
* * * *
13112 T-TTCATAAGTAAAAGGTCATTATCGTAAATCAGCAGACCATGAA
65 TCTT-GTAAGT---AGGTCGTAATCGTAAATCAGCAGACCACGAA
* *
13156 ATTCGTAAAATCCCATAAGTAAAAGGTTATCATCGTAAATAAGTAGATCGTGAGAGTCGTAAAAT
1 ATTCGTAAAATCCCATAAGTAAAAGGTCATCATCGTAAATAAGTAGATCGCGAGAGTCGTAAAAT
* *
13221 CTTGTAAGTAGGTCGTAATCGTAAATCAGCAGACTACGAG
66 CTTGTAAGTAGGTCGTAATCGTAAATCAGCAGACCACGAA
* * * * * * * *
13261 ATTTGTAAAGTCTCGTCAGTAAAAGGTCATGATCGTAAATCAA-T-GAATCGCGAGATTTGTAAA
1 ATTCGTAAAATCCCATAAGTAAAAGGTCATCATCGTAAAT-AAGTAG-ATCGCGAGAGTCGTAAA
13324 ATC
64 ATC
13327 CCGAAAGTAG
Statistics
Matches: 143, Mismatches: 24, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
104 1 0.01
105 77 0.54
106 2 0.01
107 2 0.01
108 59 0.41
109 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (105 bp):
ATTCGTAAAATCCCATAAGTAAAAGGTCATCATCGTAAATAAGTAGATCGCGAGAGTCGTAAAAT
CTTGTAAGTAGGTCGTAATCGTAAATCAGCAGACCACGAA
Found at i:14857 original size:18 final size:18
Alignment explanation
Indices: 14823--14857 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14813 CTTTTAAAGA
* *
14823 TTTTATTTTATTTTTTTG
1 TTTTATTTTAATCTTTTG
14841 TTTTATTTTAATCTTTT
1 TTTTATTTTAATCTTTT
14858 CCCTAGAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTTATTTTAATCTTTTG
Found at i:18240 original size:537 final size:536
Alignment explanation
Indices: 17227--18300 Score: 2098
Period size: 537 Copynumber: 2.0 Consensus size: 536
17217 TAAGCTTCCA
17227 TCAATGTCCTTTAATGGCAAATTTCAAAATACTTGATAAAATAAAATAAAAAACTATTGGTATAT
1 TCAATGTCCTTTAATGGCAAATTTCAAAATACTTGATAAAATAAAATAAAAAACTATTGGTATAT
17292 ATATGGAAAGCAAGCTTTAAAGAGTCAAAATCTAAAAAAAATGAAGAATAACTATACCTTTTACT
66 ATATGGAAAGCAAGCTTTAAAGAGTCAAAATCTAAAAAAAATGAAGAATAACTATACCTTTTACT
17357 TGAATTTGAAGGAAAATAATGGAAGAAGTTTTTTTTTTCCCCAAACTTTCATGAGAAATATGAGA
131 TGAATTTGAAGGAAAATAATGGAAGAAGTTTTTTTTTTCCCCAAACTTTCATGAGAAATATGAGA
17422 AAAAACTAATAGTTCTCTCTTTTTATATATATTATAATATTTAATAAATTAATATTATTTTAAAT
196 AAAAACTAATAGTTCTCTCTTTTTATATATATTATAATATTTAATAAATTAATATTATTTTAAAT
17487 AAAATGTTAAATAATAATTATTTAATGAAAATATCATTTAAAGCCATCATGACACTTTTGATTTT
261 AAAATGTTAAATAATAATTATTTAATGAAAATATCATTTAAAGCCATCATGACACTTTTGATTTT
17552 TTTTAAGTAATAGAAAAATTGTCATTAAGTCCTTTCCATCAAAATAAAATAGGATAATTGCACTT
326 TTTTAAGTAATAGAAAAATTGTCATTAAGTCCTTTCCATCAAAATAAAATAGGATAATTGCACTT
17617 TAGTCTCTATACTTTTCTAACTTATTCAATTTAATCCCTGAACTCGATACCGAATTTTTAACTTA
391 TAGTCTCTATACTTTTCT-ACTTATTCAATTTAATCCCTGAACTCGATACCGAATTTTTAACTTA
17682 ACCACATACTCCTACTAATAATCAGCTGTGTTTTCATGTTTGACAGTTTTCTCTAAAAACGATCA
455 ACCACATACTCCTACTAATAATCAGCTGTGTTTTCATGTTTGACAGTTTTCTCTAAAAACGATCA
17747 CAATTTCTTATACTACT
520 CAATTTCTTATACTACT
17764 TCAATGTCCTTTAATGGCAAATTTCAAAATACTTGATAAAATAAAATAAAAAACTATTGGTATAT
1 TCAATGTCCTTTAATGGCAAATTTCAAAATACTTGATAAAATAAAATAAAAAACTATTGGTATAT
17829 ATATGGAAAGCAAGCTTTAAAGAGTCAAAATCTAAAAAAAATGAAGAATAACTATACCTTTTACT
66 ATATGGAAAGCAAGCTTTAAAGAGTCAAAATCTAAAAAAAATGAAGAATAACTATACCTTTTACT
17894 TGAATTTGAAGGAAAATAATGGAAGAAGTTTTTTTTTTCCCCAAACTTTCATGAGAAATATGAGA
131 TGAATTTGAAGGAAAATAATGGAAGAAGTTTTTTTTTTCCCCAAACTTTCATGAGAAATATGAGA
17959 AAAAACTAATAGTTCTCTCTTTTTATATATATTATAATATTTAATAAATTAATATTATTTTAAAT
196 AAAAACTAATAGTTCTCTCTTTTTATATATATTATAATATTTAATAAATTAATATTATTTTAAAT
18024 AAAATGTTAAATAATAATTATTTAATGAAAATATCATTTAAAGCCATCATGACACTTTTGATTTT
261 AAAATGTTAAATAATAATTATTTAATGAAAATATCATTTAAAGCCATCATGACACTTTTGATTTT
18089 TTTTAAGTAATAGAAAAATTGTCATTAAGTCCTTTCCATCAAAATAAAATAGGATAATTGCACTT
326 TTTTAAGTAATAGAAAAATTGTCATTAAGTCCTTTCCATCAAAATAAAATAGGATAATTGCACTT
18154 TAGTCTCTATACATACTTT-T-CTTATTCAATTTAATCCCTGAACTCGATACCGAATTTTTAACT
391 TAGTCTCTATAC-T--TTTCTACTTATTCAATTTAATCCCTGAACTCGATACCGAATTTTTAACT
18217 TAACCACATACTCCTACTAATAATCAGCTGTGTTTTCATGTTTGACAGTTTTCTCTAAAAACGAT
453 TAACCACATACTCCTACTAATAATCAGCTGTGTTTTCATGTTTGACAGTTTTCTCTAAAAACGAT
18282 CACAATTTCTTATACTACT
518 CACAATTTCTTATACTACT
18301 ATTTATTTAT
Statistics
Matches: 534, Mismatches: 0, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
537 529 0.99
538 1 0.00
539 1 0.00
540 3 0.01
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.37
Consensus pattern (536 bp):
TCAATGTCCTTTAATGGCAAATTTCAAAATACTTGATAAAATAAAATAAAAAACTATTGGTATAT
ATATGGAAAGCAAGCTTTAAAGAGTCAAAATCTAAAAAAAATGAAGAATAACTATACCTTTTACT
TGAATTTGAAGGAAAATAATGGAAGAAGTTTTTTTTTTCCCCAAACTTTCATGAGAAATATGAGA
AAAAACTAATAGTTCTCTCTTTTTATATATATTATAATATTTAATAAATTAATATTATTTTAAAT
AAAATGTTAAATAATAATTATTTAATGAAAATATCATTTAAAGCCATCATGACACTTTTGATTTT
TTTTAAGTAATAGAAAAATTGTCATTAAGTCCTTTCCATCAAAATAAAATAGGATAATTGCACTT
TAGTCTCTATACTTTTCTACTTATTCAATTTAATCCCTGAACTCGATACCGAATTTTTAACTTAA
CCACATACTCCTACTAATAATCAGCTGTGTTTTCATGTTTGACAGTTTTCTCTAAAAACGATCAC
AATTTCTTATACTACT
Found at i:21388 original size:39 final size:38
Alignment explanation
Indices: 21331--21432 Score: 116
Period size: 39 Copynumber: 2.6 Consensus size: 38
21321 CTTAACATAC
* * * * *
21331 AAGCATATATCACCATACTCATAAAATCTCATGACGTTT
1 AAGCATATCTCACAATACTC-TAAAATCACATAACATTT
*
21370 AAGCATATCTCATAATACTCGTAAAATCACATAACATTT
1 AAGCATATCTCACAATACTC-TAAAATCACATAACATTT
21409 AAGCATATAC-CACAATACTCTAAA
1 AAGCATAT-CTCACAATACTCTAAA
21433 GCATCTTTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
38 4 0.07
39 49 0.91
40 1 0.02
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.28
Consensus pattern (38 bp):
AAGCATATCTCACAATACTCTAAAATCACATAACATTT
Found at i:23970 original size:26 final size:26
Alignment explanation
Indices: 23922--23971 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
23912 TATATTTAAA
* *
23922 AATAATTATAATTTAATAGAAATTCT
1 AATAATTACAATTTAATAAAAATTCT
23948 AATAATTACACATTTAA-AAAAATT
1 AATAATTACA-ATTTAATAAAAATT
23972 ATTATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (26 bp):
AATAATTACAATTTAATAAAAATTCT
Found at i:42120 original size:23 final size:23
Alignment explanation
Indices: 42089--42140 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
42079 ACCTATTTTC
* * *
42089 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
42112 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
42135 TTACAG
1 TTACAG
42141 GCATCGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:43875 original size:21 final size:21
Alignment explanation
Indices: 43849--43892 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
43839 CATATCAAAA
43849 GAAAGCCTTTAAACAGAATCT
1 GAAAGCCTTTAAACAGAATCT
43870 GAAAGCCTTTAAACAGAATCT
1 GAAAGCCTTTAAACAGAATCT
43891 GA
1 GA
43893 TTCCATATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (21 bp):
GAAAGCCTTTAAACAGAATCT
Found at i:50309 original size:13 final size:13
Alignment explanation
Indices: 50291--50332 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
50281 AATTTTGATT
50291 TATTTAGTGATAA
1 TATTTAGTGATAA
50304 TATTTAG-GAT--
1 TATTTAGTGATAA
50314 TATTTAGTGATAA
1 TATTTAGTGATAA
50327 TATTTA
1 TATTTA
50333 AGAAAAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 3 0.12
13 13 0.50
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:52104 original size:12 final size:12
Alignment explanation
Indices: 52087--52115 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
52077 AAGTTATGAT
52087 AAATACCCAATA
1 AAATACCCAATA
52099 AAATACCCAATA
1 AAATACCCAATA
52111 AAATA
1 AAATA
52116 GATCACAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.17
Consensus pattern (12 bp):
AAATACCCAATA
Found at i:64608 original size:17 final size:17
Alignment explanation
Indices: 64583--64616 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
64573 AACCGTAATC
*
64583 ATTTTAATGTTAATTAT
1 ATTTGAATGTTAATTAT
*
64600 ATTTGAATGTTCATTAT
1 ATTTGAATGTTAATTAT
64617 GTTGTTTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (17 bp):
ATTTGAATGTTAATTAT
Found at i:66458 original size:18 final size:18
Alignment explanation
Indices: 66435--66469 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66425 TTCGAGAGTT
66435 ACACAGCCTGGCACATGG
1 ACACAGCCTGGCACATGG
* *
66453 ACACAGGCTGGGACATG
1 ACACAGCCTGGCACATG
66470 ACCGTGTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.31, T:0.11
Consensus pattern (18 bp):
ACACAGCCTGGCACATGG
Found at i:67851 original size:291 final size:284
Alignment explanation
Indices: 67313--67972 Score: 670
Period size: 291 Copynumber: 2.3 Consensus size: 284
67303 AATCGGGTGT
* * ** * *
67313 CAACTTGATTAGAGAAATTACAAAAATGT-ATTTTCGTATTTAAAATGGGTAATATTATTC-AAG
1 CAACTCGATTAG-GAAATTAAAAAAATGTCA-TACCGTATTTAAAATGAGTTATATTATTCGAA-
** * * *
67376 GGTATTTTAGTGGTTTTATTTTAAAAAAAAAACTAATAAAAATATGCATATGGTGAGATTTGAAC
63 GGTATTTTAGTCTTTTTACTTT---AAAAAAACCAATAAAAATATGCACATGGTGAGATTTGAAC
* * * * *
67441 CTACATCAATTGTATTAGAAAAACCTTTAATTTACCGCTTACCTAAACTTTTTTTTTGACATTTT
125 CCACATCAATTGCATTAGAAAAACATTTAATTTACCACTTA-C-AAACTTTTTTTATGACA-TTT
* * * *
67506 TATACATTCTAAATTTATTATGCACACTTTATTACCTCCATCAATTGTACTATTATTTAAGTTCT
187 TATACATTCTAAATTTATTATGCACACTTTATTAACTCCATCAATTGTACTATTAATAAAATTCT
67571 TGACTGAGTTGGTGAT-ATGAGTAAACCAGACAC
252 TGACTGAGTTGGT-ATCATGAGTAAACCAGACAC
* ** * * * *
67604 CAACTCGATTAGGGGAATTACGAAGATGTCCTTCTGTATTTAAAATGAGTTATATTATTCGAAGG
1 CAACTCGATTA-GGAAATTAAAAAAATGTCATACCGTATTTAAAATGAGTTATATTATTCGAAGG
* *
67669 TATTTTAATCTTTTTACTTT-AAAACACCAATAAAAATATGCACATGGTGAGATTTGAACCCACA
65 TATTTTAGTCTTTTTACTTTAAAAAAACCAATAAAAATATGCACATGGTGAGATTTGAACCCAC-
* * *
67733 TAAGTCAATTGCATTAGTAAAATATTTAATTTACCAC-TA-AAAGTTTTTTTAAT-AC-TTTTAT
129 --A-TCAATTGCATTAGAAAAACATTTAATTTACCACTTACAAACTTTTTTT-ATGACATTTTAT
* * *
67794 ACATTTTAATTTTATTATGCACACTTTATTAATTCCATCAATTGTATCTAAACTATTAATAAAAT
190 ACATTCTAAATTTATTATGCACACTTTATTAACTCCATCAATTG----T--ACTATTAATAAAAT
* * *
67859 TCTTGGCTGAGTTGGTATCATGAGTCAACCAGGCAC
249 TCTTGACTGAGTTGGTATCATGAGTAAACCAGACAC
* * * * * *
67895 CAACTTGTTTAGGAAATTAAAAAAATGTCATACCATATTTAAAATAACTTATATTATTCGAAGAT
1 CAACTCGATTAGGAAATTAAAAAAATGTCATACCGTATTTAAAATGAGTTATATTATTCGAAGGT
67960 ATTTTAGTCTTTT
66 ATTTTAGTCTTTT
67973 AAATTAAAAA
Statistics
Matches: 306, Mismatches: 48, Indels: 31
0.79 0.12 0.08
Matches are distributed among these distances:
285 46 0.15
287 51 0.17
288 1 0.00
289 1 0.00
290 60 0.20
291 144 0.47
292 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (284 bp):
CAACTCGATTAGGAAATTAAAAAAATGTCATACCGTATTTAAAATGAGTTATATTATTCGAAGGT
ATTTTAGTCTTTTTACTTTAAAAAAACCAATAAAAATATGCACATGGTGAGATTTGAACCCACAT
CAATTGCATTAGAAAAACATTTAATTTACCACTTACAAACTTTTTTTATGACATTTTATACATTC
TAAATTTATTATGCACACTTTATTAACTCCATCAATTGTACTATTAATAAAATTCTTGACTGAGT
TGGTATCATGAGTAAACCAGACAC
Found at i:68070 original size:285 final size:281
Alignment explanation
Indices: 67410--68121 Score: 619
Period size: 285 Copynumber: 2.5 Consensus size: 281
67400 AAAAAAAACT
* * ** * *
67410 AATAAAAATATGCATATGGTGAGATTTGAACCTACAT---CAATTGTATTAGAAAAACCTTTAAT
1 AATAAAAATATGCACATGGTGAGATTTGAACCCACATAGCCAATTACATTAGTAAAACATTTAAT
** * *
67472 TTACCGCTTACCTAAACTTTTTTTTTGACATTTTTATACATTCTAAATTTATTATGCACACTTTA
66 TTA-C-C--A-CTAAA-AGTTTTTTT-A-ATTTTTATACATTTTAATTTTATTATGCACACTTTA
* * *
67537 TTACCTCCATCAATTGTACTATTATTTAAGTTCTTGACTGAGTTGGTGATATGAGTAAACCAGAC
123 TTAACTCCATCAATTGTACTACTATTTAAATTCTTGACTGAGTTGGTGATATGAGTAAACCAGAC
* ** * * * ** * *
67602 ACCAACTCGATTAGGGGAATTACGAAGATGTCCTTCTGTATTTAAAATGAGTTATATTATTCGAA
188 ACCAACTCGATTAGGGAAATTAAAAAAATGTCATACCATATTTAAAATAACTTATATTATTCGAA
* **
67667 GGTATTTTAATCTTTTTACTTTAAAACACC
253 GATATTTTAATCTTTTTAAATTAAAACA-C
* * *
67697 AATAAAAATATGCACATGGTGAGATTTGAACCCACATAAGTCAATTGCATTAGTAAAATATTTAA
1 AATAAAAATATGCACATGGTGAGATTTGAACCCACAT-AGCCAATTACATTAGTAAAACATTTAA
*
67762 TTTACCACTAAAAGTTTTTTTAATACTTTTATACATTTTAATTTTATTATGCACACTTTATTAAT
65 TTTACCACTAAAAGTTTTTTTAAT--TTTTATACATTTTAATTTTATTATGCACACTTTATTAAC
* *
67827 TCCATCAATTGTATCTAAACTATTAATAAAATTCTTGGCTGAGTTGGT-ATCATGAGTCAACCAG
128 TCCATCAATTGTA-CT--ACTATT--T-AAATTCTTGACTGAGTTGGTGAT-ATGAGTAAACCAG
* * *
67891 GCACCAACTTGTTTA-GGAAATTAAAAAAATGTCATACCATATTTAAAATAACTTATATTATTCG
186 ACACCAACTCGATTAGGGAAATTAAAAAAATGTCATACCATATTTAAAATAACTTATATTATTCG
*
67955 AAGATATTTTAGTC-TTTTAAATT-AAA-A-
251 AAGATATTTTAATCTTTTTAAATTAAAACAC
* * * *
67982 AA-AAAATTATGCATATGGT-ATGATTTG-ATCC-CAT-GCCAATTACATT-G-AAAACCTTTAA
1 AATAAAAATATGCACATGGTGA-GATTTGAACCCACATAGCCAATTACATTAGTAAAACATTT-A
* * * * *
68040 ATTTGCCACTCAACCAAGACTTTATTTTAATTTACTTATACAATTTAATTTTATCACGCACATTT
64 ATTTACCACT-AA--AAG--TTT-TTTTAATTT--TTATACATTTTAATTTTATTATGCACACTT
* * *
68105 TCTTACCTCCATTAATT
121 TATTAACTCCATCAATT
68122 ACATATATTA
Statistics
Matches: 353, Mismatches: 49, Indels: 48
0.78 0.11 0.11
Matches are distributed among these distances:
278 7 0.02
279 11 0.03
280 12 0.03
282 6 0.02
283 8 0.02
284 25 0.07
285 103 0.29
286 7 0.02
287 37 0.10
288 8 0.02
289 8 0.02
290 55 0.16
291 66 0.19
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (281 bp):
AATAAAAATATGCACATGGTGAGATTTGAACCCACATAGCCAATTACATTAGTAAAACATTTAAT
TTACCACTAAAAGTTTTTTTAATTTTTATACATTTTAATTTTATTATGCACACTTTATTAACTCC
ATCAATTGTACTACTATTTAAATTCTTGACTGAGTTGGTGATATGAGTAAACCAGACACCAACTC
GATTAGGGAAATTAAAAAAATGTCATACCATATTTAAAATAACTTATATTATTCGAAGATATTTT
AATCTTTTTAAATTAAAACAC
Found at i:72331 original size:44 final size:43
Alignment explanation
Indices: 72283--72396 Score: 106
Period size: 44 Copynumber: 2.6 Consensus size: 43
72273 TCAATCTACT
* *
72283 CCACTGTAATCTCAGGGAGATAAGATTTGCTTAT-TCGGTCTGCC
1 CCACTGTAA-CTCAGGGAGATAAGACTTG-TTATCTCAGTCTGCC
* * * *
72327 CCACTGTGACTTTAGGG-GAATAAGACTTGTTTTCTCAGTCTGCT
1 CCACTGTAAC-TCAGGGAG-ATAAGACTTGTTATCTCAGTCTGCC
*
72371 CCACTGCAACCTCAGGGAGATAAGAC
1 CCACTGTAA-CTCAGGGAGATAAGAC
72397 CTGATGCCAT
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
43 5 0.09
44 49 0.88
45 2 0.04
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (43 bp):
CCACTGTAACTCAGGGAGATAAGACTTGTTATCTCAGTCTGCC
Found at i:72505 original size:44 final size:45
Alignment explanation
Indices: 72456--72569 Score: 115
Period size: 45 Copynumber: 2.6 Consensus size: 45
72446 TTAATCCACT
* * *
72456 CCACTGCAACTTCAGGGAGATAGGA-TTATCGGCTTCAATTTG-C
1 CCACTGCAACTTCAGGGAGATAAGATTTATCAGCTTCAATCTGTC
* * * * * *
72499 TTCACTGTAACCTCAAGGAGATAAGATTTGTCATCTTCAATCTGTC
1 -CCACTGCAACTTCAGGGAGATAAGATTTATCAGCTTCAATCTGTC
*
72545 CCACTGCAACTTCAGGGGGATAAGA
1 CCACTGCAACTTCAGGGAGATAAGA
72570 CTAGCTTACT
Statistics
Matches: 54, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
44 20 0.37
45 33 0.61
46 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGATTTATCAGCTTCAATCTGTC
Found at i:72653 original size:218 final size:217
Alignment explanation
Indices: 72183--72700 Score: 685
Period size: 218 Copynumber: 2.4 Consensus size: 217
72173 GCAAGAATTT
** *
72183 ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAA
1 ATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAA
* * * *
72248 CTTTAGGGAGATAGGGTTATCGACTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATTTGC
66 CTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGTAACCTCAAGGAGATAAGATTTGC
* ** ** * * * * *
72313 TTATTCGGTCTGCCCCACTGTGACTTTAGGGGAATAAGACTTGTTTTCTCAGTCTGCTCCACTGC
131 ATATTCAATCTGCCCCACTGCAACTTCAGGGGAATAAGACTAGCTTACTCAGTCTGCTCCACCGC
* *
72378 AACCTCAGGGAGATAAGACCTG
196 AACCTCAGAGAGATAAGACCTA
* * * * *
72400 ATGCCATCCACTCTACTGCAACTTCAGAAAGATAAGATCTATTATTTTAATCCACTCCACTGCAA
1 ATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAA
* * * *
72465 CTTCAGGGAGATAGGATTATCGGCTTCAATTTGCTTCACTGTAACCTCAAGGAGATAAGATTTGT
66 CTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGTAACCTCAAGGAGATAAGATTTG-
* * * * *
72530 CATCTTCAATCTGTCCCACTGCAACTTCAGGGGGATAAGACTAGCTTACTCAGTCTGTTCCGCCG
130 CATATTCAATCTGCCCCACTGCAACTTCAGGGGAATAAGACTAGCTTACTCAGTCTGCTCCACCG
* *
72595 TAACCTTAGAGAGATAAGACCTA
195 CAACCTCAGAGAGATAAGACCTA
* *
72618 ATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATTTATTACTTTAATCCGCTCCACTAAAA
1 ATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAA
*
72683 CTTCAAGGAGATAGGATT
66 CTTCAGGGAGATAGGATT
72701 TGTGGCTTAA
Statistics
Matches: 257, Mismatches: 43, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
217 113 0.44
218 144 0.56
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (217 bp):
ATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAA
CTTCAGGGAGATAGGATTATCGACTTCAATCTACTCCACTGTAACCTCAAGGAGATAAGATTTGC
ATATTCAATCTGCCCCACTGCAACTTCAGGGGAATAAGACTAGCTTACTCAGTCTGCTCCACCGC
AACCTCAGAGAGATAAGACCTA
Found at i:72883 original size:128 final size:128
Alignment explanation
Indices: 72693--73339 Score: 1012
Period size: 128 Copynumber: 5.1 Consensus size: 128
72683 CTTCAAGGAG
* * * * *
72693 ATAGGATTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCAGTCTTTGATCTGC
1 ATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTCGATCTGC
*
72758 TCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTACTGACTAGGGAA
66 TCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTACTGACCAGGGAA
*
72821 ATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTTTTCGATCTGC
1 ATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTCGATCTGC
* **
72886 TCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAATCTATTCCACCGCTGACCAGGGAA
66 TCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTACTGACCAGGGAA
72949 ATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTCGATCTGC
1 ATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTCGATCTGC
** * * *
73014 TCTACTACTGCTTAGAGAGATAAGATCTGTAATTTCCAACCTATTCCACTACTGACTAGGGAA
66 TCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTACTGACCAGGGAA
*
73077 ATAGGACTTGTGGCTTAAATTTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTCGATCTGC
1 ATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTCGATCTGC
* *
73142 TCCGCTACTTCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGAA
66 TCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTACTGACCAGGGAA
* * *
73205 ATAGGACTTATGGC-T-AATATGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTCGATCTGC
1 ATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTCGATCTGC
* * * * ** *
73268 TCTGCTATTGCTTAGGGAGACAAGA-CTGTAATTTTCAACCTATTCCACTGCTGGTCAGGGAG
66 TCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTACTGACCAGGGAA
*
73330 TTAGGACTTG
1 ATAGGACTTG
73340 CAATCTTCTA
Statistics
Matches: 480, Mismatches: 39, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
125 41 0.09
126 68 0.14
127 1 0.00
128 370 0.77
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (128 bp):
ATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTCGATCTGC
TCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTACTGACCAGGGAA
Found at i:73354 original size:44 final size:44
Alignment explanation
Indices: 73301--73427 Score: 200
Period size: 44 Copynumber: 2.9 Consensus size: 44
73291 GACTGTAATT
73301 TTCAACCTATTCCACTGCTGGTCAGGGAGTTAGGACTTGCAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGTTAGGACTTGCAATC
* * *
73345 TTCTACCTATTCCACTACTGGTCAGGGAGTTAAGACTTGCAATC
1 TTCAACCTATTCCACTGCTGGTCAGGGAGTTAGGACTTGCAATC
* * *
73389 TTCAACCTATTCTACTGCTGGTCAGGGAGCTAGAACTTG
1 TTCAACCTATTCCACTGCTGGTCAGGGAGTTAGGACTTG
73428 TGATTTCACC
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 74 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGGTCAGGGAGTTAGGACTTGCAATC
Found at i:74675 original size:14 final size:15
Alignment explanation
Indices: 74631--74689 Score: 63
Period size: 15 Copynumber: 4.0 Consensus size: 15
74621 TTAGCCTCTC
74631 CATTTTT-ACTTTTT
1 CATTTTTCACTTTTT
74645 CATCATTTAT-A-TTTTT
1 CAT--TTT-TCACTTTTT
74661 CA-TTTTCACTTTTT
1 CATTTTTCACTTTTT
74675 CATTTTTCACTTTTT
1 CATTTTTCACTTTTT
74690 TTTTACTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
12 1 0.03
13 4 0.10
14 10 0.26
15 12 0.31
16 10 0.26
17 2 0.05
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (15 bp):
CATTTTTCACTTTTT
Found at i:75578 original size:8 final size:8
Alignment explanation
Indices: 75537--75561 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
75527 TCTCCTTTTA
75537 TTTTTCCT
1 TTTTTCCT
75545 TTTTTCCT
1 TTTTTCCT
75553 TTTTTCCT
1 TTTTTCCT
75561 T
1 T
75562 CTCTCTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTCCT
Found at i:82238 original size:15 final size:15
Alignment explanation
Indices: 82191--82240 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
82181 ACGAATCGAA
82191 TCGAGTGAAT-AAAT
1 TCGAGTGAATGAAAT
*
82205 TCGAGTTGAGTCG-AA-
1 TCGAG-TGAAT-GAAAT
82220 TCGAGTGAATGAAAT
1 TCGAGTGAATGAAAT
82235 TCGAGT
1 TCGAGT
82241 TAAATTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
13 1 0.03
14 11 0.38
15 15 0.52
16 2 0.07
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (15 bp):
TCGAGTGAATGAAAT
Found at i:82475 original size:11 final size:11
Alignment explanation
Indices: 82433--82475 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
82423 TTTTAAATCT
82433 TAAATTTTTTA
1 TAAATTTTTTA
*
82444 TATATTTTTTA
1 TAAATTTTTTA
*
82455 -AAAATTTTTA
1 TAAATTTTTTA
*
82465 TAAATATTTTA
1 TAAATTTTTTA
82476 AATTTTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TAAATTTTTTA
Found at i:82478 original size:19 final size:19
Alignment explanation
Indices: 82432--82498 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 19
82422 TTTTTAAATC
* *
82432 TTAAATTTTTTATATATTTT
1 TTAAA-TTTTTATAAATATT
82452 TTAAAAATTTTTATAAATATT
1 TT--AAATTTTTATAAATATT
*
82473 TTAAA-TTTTAAAAATTATT
1 TTAAATTTTTATAAA-TATT
82492 TTAAATT
1 TTAAATT
82499 ATTTTAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 8 0.20
19 12 0.30
20 3 0.08
21 14 0.35
22 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAAATTTTTATAAATATT
Found at i:82485 original size:28 final size:29
Alignment explanation
Indices: 82450--82629 Score: 94
Period size: 29 Copynumber: 6.0 Consensus size: 29
82440 TTTATATATT
82450 TTTTAAAAATT-TTTATAAA-TATTTTAAA
1 TTTTAAAAATTATTT-TAAATTATTTTAAA
82478 TTTTAAAAATTATTTTAAATTATTTTAAAA
1 TTTTAAAAATTATTTTAAATTATTTT-AAA
* ***
82508 TTATT--TAATTAGGTCCCAAA--ATTATT--A
1 TT-TTAAAAATTA--TTTTAAATTATT-TTAAA
82535 TTTTAGAAAATT-TTTTAAATCTAAATTTTTTATATA
1 TTTTA-AAAATTATTTTAAAT-T--A--TTTTA-A-A
82571 TTTTTTAAAAATT-TTTATAAA-TATTTTAAA
1 --TTTTAAAAATTATTT-TAAATTATTTTAAA
82601 TTTTAAAAATTATTTTAAATTATTTTAAA
1 TTTTAAAAATTATTTTAAATTATTTTAAA
82630 ATTATTTTGA
Statistics
Matches: 118, Mismatches: 8, Indels: 51
0.67 0.05 0.29
Matches are distributed among these distances:
26 6 0.05
27 3 0.03
28 30 0.25
29 33 0.28
30 8 0.07
31 8 0.07
32 7 0.06
33 2 0.02
34 1 0.01
36 2 0.02
37 9 0.08
38 9 0.08
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (29 bp):
TTTTAAAAATTATTTTAAATTATTTTAAA
Found at i:82487 original size:18 final size:19
Alignment explanation
Indices: 82460--82513 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 19
82450 TTTTAAAAAT
*
82460 TTTTATAAA-TATTTTAAA
1 TTTTAAAAATTATTTTAAA
82478 TTTTAAAAATTATTTTAAA
1 TTTTAAAAATTATTTTAAA
*
82497 TTATTTTAAAATTATTT
1 -T-TTTAAAAATTATTT
82514 AATTAGGTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 8 0.26
19 9 0.29
20 1 0.03
21 13 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTAAAAATTATTTTAAA
Found at i:82514 original size:10 final size:10
Alignment explanation
Indices: 82455--82515 Score: 56
Period size: 10 Copynumber: 6.2 Consensus size: 10
82445 ATATTTTTTA
82455 AAAATT-TTT
1 AAAATTATTT
82464 ATAAA-TATTT
1 A-AAATTATTT
* *
82474 TAAATT-TTA
1 AAAATTATTT
82483 AAAATTATTT
1 AAAATTATTT
*
82493 TAAATTATTTT
1 AAAATTA-TTT
82504 AAAATTATTT
1 AAAATTATTT
82514 AA
1 AA
82516 TTAGGTCCCA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
9 12 0.29
10 20 0.49
11 9 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
AAAATTATTT
Found at i:82575 original size:11 final size:11
Alignment explanation
Indices: 82559--82597 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
82549 TTAAATCTAA
*
82559 ATTTTTTATAT
1 ATTTTTTAAAT
*
82570 ATTTTTTAAAA
1 ATTTTTTAAAT
82581 ATTTTTATAAAT
1 ATTTTT-TAAAT
82593 ATTTT
1 ATTTT
82598 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTTTTAAAT
Found at i:82601 original size:19 final size:19
Alignment explanation
Indices: 82556--82621 Score: 62
Period size: 21 Copynumber: 3.3 Consensus size: 19
82546 TTTTTAAATC
* *
82556 TAAATTTTTTATATATTTTT
1 TAAA-TTTTTATAAATATTT
82576 TAAAAATTTTTATAAATATTT
1 T--AAATTTTTATAAATATTT
*
82597 TAAA-TTTTAAAAATTATTT
1 TAAATTTTTATAAA-TATTT
82616 TAAATT
1 TAAATT
82622 ATTTTAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 8 0.21
19 12 0.31
20 2 0.05
21 14 0.36
22 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TAAATTTTTATAAATATTT
Found at i:82621 original size:123 final size:123
Alignment explanation
Indices: 82387--82636 Score: 484
Period size: 123 Copynumber: 2.0 Consensus size: 123
82377 TAAATTTTAG
82387 ATTTAATTAGGTCCCAAAATTATTATTTTAGAAAATTTTTAAATCTTAAATTTTTTATATATTTT
1 ATTTAATTAGGTCCCAAAATTATTATTTTAGAAAATTTTTAAATCTTAAATTTTTTATATATTTT
82452 TTAAAAATTTTTATAAATATTTTAAATTTTAAAAATTATTTTAAATTATTTTAAAATT
66 TTAAAAATTTTTATAAATATTTTAAATTTTAAAAATTATTTTAAATTATTTTAAAATT
82510 ATTTAATTAGGTCCCAAAATTATTATTTTAGAAAATTTTTTAAATC-TAAATTTTTTATATATTT
1 ATTTAATTAGGTCCCAAAATTATTATTTTAGAAAA-TTTTTAAATCTTAAATTTTTTATATATTT
82574 TTTAAAAATTTTTATAAATATTTTAAATTTTAAAAATTATTTTAAATTATTTTAAAATT
65 TTTAAAAATTTTTATAAATATTTTAAATTTTAAAAATTATTTTAAATTATTTTAAAATT
82633 ATTT
1 ATTT
82637 TGAATTATTT
Statistics
Matches: 126, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
123 116 0.92
124 10 0.08
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (123 bp):
ATTTAATTAGGTCCCAAAATTATTATTTTAGAAAATTTTTAAATCTTAAATTTTTTATATATTTT
TTAAAAATTTTTATAAATATTTTAAATTTTAAAAATTATTTTAAATTATTTTAAAATT
Found at i:82632 original size:21 final size:21
Alignment explanation
Indices: 82583--82653 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
82573 TTTTAAAAAT
82583 TTTTATAAA-TATTTTAAA-T-
1 TTTTA-AAATTATTTTAAATTA
*
82602 TTTAAAAATTATTTTAAATTA
1 TTTTAAAATTATTTTAAATTA
*
82623 TTTTAAAATTATTTTGAATTA
1 TTTTAAAATTATTTTAAATTA
*
82644 TTTTATAATT
1 TTTTAAAATT
82654 TTTGTTGAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
18 3 0.07
19 13 0.29
20 1 0.02
21 28 0.62
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (21 bp):
TTTTAAAATTATTTTAAATTA
Found at i:82642 original size:10 final size:10
Alignment explanation
Indices: 82579--82653 Score: 75
Period size: 10 Copynumber: 7.5 Consensus size: 10
82569 TATTTTTTAA
82579 AAATT-TTTAT
1 AAATTATTT-T
82589 AAA-TATTTT
1 AAATTATTTT
**
82598 AAATT-TTAA
1 AAATTATTTT
82607 AAATTATTTT
1 AAATTATTTT
82617 AAATTATTTT
1 AAATTATTTT
82627 AAAATTATTTT
1 -AAATTATTTT
*
82638 GAATTATTTT
1 AAATTATTTT
82648 ATAATT
1 A-AATT
82654 TTTGTTGAGA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
9 12 0.22
10 28 0.52
11 14 0.26
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (10 bp):
AAATTATTTT
Found at i:83232 original size:16 final size:17
Alignment explanation
Indices: 83201--83234 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
83191 TATAAGATAA
83201 AATAAAATAAAAATTTT
1 AATAAAATAAAAATTTT
*
83218 AATAAAAT-TAAATTTT
1 AATAAAATAAAAATTTT
83234 A
1 A
83235 GAAAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAAAATAAAAATTTT
Found at i:88072 original size:59 final size:59
Alignment explanation
Indices: 88002--88136 Score: 148
Period size: 59 Copynumber: 2.3 Consensus size: 59
87992 CACGACACAT
* * * * *
88002 AGGCAATACACAAAATTACGAGTTTATTGTCCC-GACGGACTTTCATAGAAGGTG-TCATG
1 AGGCAACACACAAAATCACGAGTTTACTGTCCCAG-CAGACTTTCACAGAAGGTGCT-ATG
* * * *
88061 GGGCAACACACAGAATCATGTGTTTACTGTCCCAGCAGACTTTCACAGAAGGTGCTATG
1 AGGCAACACACAAAATCACGAGTTTACTGTCCCAGCAGACTTTCACAGAAGGTGCTATG
*
88120 AGGCAACACACAGAATC
1 AGGCAACACACAAAATC
88137 GTATGTTTAC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
59 62 0.97
60 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (59 bp):
AGGCAACACACAAAATCACGAGTTTACTGTCCCAGCAGACTTTCACAGAAGGTGCTATG
Found at i:88144 original size:59 final size:59
Alignment explanation
Indices: 88030--88178 Score: 178
Period size: 59 Copynumber: 2.5 Consensus size: 59
88020 CGAGTTTATT
* * * * *
88030 GTCCCGACGGACTTTCATAGAAGGTG-TCATGGGGCAACACACAGAATCATGTGTTTACT
1 GTCCCGACAGACTTTCACAGAAGGTGCT-ATGAGGCAACACACAGAATCATATGTTTACA
*
88089 GTCCC-AGCAGACTTTCACAGAAGGTGCTATGAGGCAACACACAGAATCGTATGTTTACA
1 GTCCCGA-CAGACTTTCACAGAAGGTGCTATGAGGCAACACACAGAATCATATGTTTACA
* *
88148 GTCCCGACGGGCTTTCACAGTAA-GTGCTATG
1 GTCCCGACAGACTTTCACAG-AAGGTGCTATG
88179 GGTTTCTCCC
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
58 1 0.01
59 73 0.94
60 4 0.05
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (59 bp):
GTCCCGACAGACTTTCACAGAAGGTGCTATGAGGCAACACACAGAATCATATGTTTACA
Found at i:89369 original size:21 final size:21
Alignment explanation
Indices: 89345--89384 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
89335 GACTAAATCA
89345 GAAACTCAAAAAAAATTTCAC
1 GAAACTCAAAAAAAATTTCAC
* **
89366 GAAATTTTAAAAAAATTTC
1 GAAACTCAAAAAAAATTTC
89385 CTAGATACAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.28
Consensus pattern (21 bp):
GAAACTCAAAAAAAATTTCAC
Found at i:90404 original size:21 final size:21
Alignment explanation
Indices: 90378--90439 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
90368 GCAAGTGCTA
90378 AACGGAAACCCATAAGGGTTG
1 AACGGAAACCCATAAGGGTTG
* * *
90399 AACGGAAGCTCATAAGAGTTG
1 AACGGAAACCCATAAGGGTTG
*
90420 AACGAAAACCCATAAGGGTT
1 AACGGAAACCCATAAGGGTT
90440 AAACTGATCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.16
Consensus pattern (21 bp):
AACGGAAACCCATAAGGGTTG
Found at i:92884 original size:3 final size:3
Alignment explanation
Indices: 92876--92938 Score: 117
Period size: 3 Copynumber: 21.0 Consensus size: 3
92866 CGAGTATATG
*
92876 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
92924 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
92939 GTTTATCNNN
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:98179 original size:23 final size:23
Alignment explanation
Indices: 98135--98208 Score: 80
Period size: 23 Copynumber: 3.1 Consensus size: 23
98125 AAATCACAAC
98135 AAAATCAAAAAAGAA-AAGAAAAATTG
1 AAAAT-AAAAAA-AACAA-AAAAA-TG
*
98161 -AAATAAAAAAATCAAAAAAATG
1 AAAATAAAAAAAACAAAAAAATG
*
98183 AAAATAAAAAAAACAAAAAAAAG
1 AAAATAAAAAAAACAAAAAAATG
98206 AAA
1 AAA
98209 GAAAAAAGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
22 2 0.05
23 29 0.67
24 8 0.19
25 4 0.09
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (23 bp):
AAAATAAAAAAAACAAAAAAATG
Found at i:98205 original size:53 final size:52
Alignment explanation
Indices: 98117--98261 Score: 129
Period size: 53 Copynumber: 2.8 Consensus size: 52
98107 GTTCAAATTC
* * * * *
98117 AATCAAAAAAATCACAACAAAATCAAAAAAGAAAAGAAA-AATTGAAATAAAAA
1 AATCAAAAAAATCAAAACAAAATAAAAAAAAAAAAGAAAGAA--AAAAGAAAAA
* *
98170 AATCAAAAAAATGAAAATAAAA-AAAACAAAAAAAAGAAAGAAAAAAGAAAAA
1 AATCAAAAAAATCAAAACAAAATAAAA-AAAAAAAAGAAAGAAAAAAGAAAAA
98222 AATC---AAAATCAAAATCAAAATGACAAAAAGAAAAAAGAAA
1 AATCAAAAAAATCAAAA-CAAAAT-A-AAAAA-AAAAAAGAAA
98262 AGGAGAGGCC
Statistics
Matches: 76, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
49 9 0.12
50 4 0.05
52 18 0.24
53 43 0.57
54 2 0.03
ACGTcount: A:0.77, C:0.08, G:0.07, T:0.09
Consensus pattern (52 bp):
AATCAAAAAAATCAAAACAAAATAAAAAAAAAAAAGAAAGAAAAAAGAAAAA
Found at i:98223 original size:23 final size:21
Alignment explanation
Indices: 98141--98223 Score: 67
Period size: 22 Copynumber: 3.8 Consensus size: 21
98131 CAACAAAATC
* * *
98141 AAAAAAGAAAAGAAAAATTGA
1 AAAAAAAAAAAAAAAAAATGA
**
98162 AATAAAAAAATCAAAAAAATGA
1 AA-AAAAAAAAAAAAAAAATGA
*
98184 AAATAAAAAAAACAAAAAAAAGA
1 AAA-AAAAAAAA-AAAAAAATGA
* *
98207 AAGAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAA
98224 TCAAAATCAA
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
21 9 0.18
22 29 0.59
23 11 0.22
ACGTcount: A:0.82, C:0.02, G:0.08, T:0.07
Consensus pattern (21 bp):
AAAAAAAAAAAAAAAAAATGA
Found at i:98235 original size:35 final size:32
Alignment explanation
Indices: 98175--98262 Score: 77
Period size: 35 Copynumber: 2.6 Consensus size: 32
98165 AAAAAAATCA
98175 AAAAAATGAAAATAAAAAAAACAAAAAAAAGAAAG
1 AAAAAA-GAAAA-AAAAAAAACAAAAAAAA-AAAG
* ** *
98210 AAAAAAGAAAAAAATCAAAATCAAAATCAAAATG
1 AAAAAAGAAAAAAA--AAAAACAAAAAAAAAAAG
*
98244 ACAAAAAGAAAAAAGAAAA
1 A-AAAAAGAAAAAAAAAAA
98263 GGAGAGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
33 7 0.16
34 9 0.20
35 29 0.64
ACGTcount: A:0.80, C:0.06, G:0.08, T:0.07
Consensus pattern (32 bp):
AAAAAAGAAAAAAAAAAAACAAAAAAAAAAAG
Found at i:100794 original size:50 final size:50
Alignment explanation
Indices: 100626--101002 Score: 249
Period size: 50 Copynumber: 7.5 Consensus size: 50
100616 GAAGATTGCG
** * * *
100626 GTGCAGTGGAACAAATTAAAGCTACAACGGCGAATCTTACGTCCCTGACA
1 GTGCAGTTAAACAGATTAAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * * * ** **
100676 TTGTAATTAAAAAGATTAAAGGTACAATAGCGAATCTTACTT-CCC-AGG
1 GTGCAGTTAAACAGATTAAAGCTACAACGGCGAATCTTACTTCCCCGACA
* *
100724 GTGCAG-TAGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACA
1 GTGCAGTTA-AACAGATTAAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * ** ** * *
100774 TTGCAGTTAAAAAGATTAAAGCTACAACAACGAATCTTACTTCCTAGGCG
1 GTGCAGTTAAACAGATTAAAGCTACAACGGCGAATCTTACTTCCCCGACA
** * * ** *
100824 GTGCAGTGGAACAGATTGAAGCCACATTGGCGAATCTTGCTTCCCCGACA
1 GTGCAGTTAAACAGATTAAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * * * *
100874 CTACAGTTAAAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGACG
1 GTGCAGTT--AAACAGATTAAAGCTACAACGGCGAATCTTACTTCCCCGACA
** * * * ** *
100926 GTGCAGTGGAACAGA-TAGAAACCACAATGATGAATCTTGCTTCCCCGACA
1 GTGCAGTTAAACAGATTA-AAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * *
100976 TTACAGTTAAGCAGATTAAAGTTACAA
1 GTGCAGTTAAACAGATTAAAGCTACAA
101003 ATTAAATCCT
Statistics
Matches: 234, Mismatches: 85, Indels: 16
0.70 0.25 0.05
Matches are distributed among these distances:
47 2 0.01
48 31 0.13
49 7 0.03
50 153 0.65
51 4 0.02
52 37 0.16
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (50 bp):
GTGCAGTTAAACAGATTAAAGCTACAACGGCGAATCTTACTTCCCCGACA
Found at i:100794 original size:98 final size:99
Alignment explanation
Indices: 100623--101002 Score: 476
Period size: 102 Copynumber: 3.8 Consensus size: 99
100613 GTTGAAGATT
* * * * * ** *
100623 GCGGTGCAGTGGAACAAATTAAAGCTACAACGGCGAATCTTACGTCCCTGACATTGTAATTAAAA
1 GCGGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTACAGTTAAAA
* *
100688 AGATTAAAGGTACAATAGCGAATCTTACTTCCCA
66 AGATTAAAGCTACAACAGCGAATCTTACTTCCCA
* *
100722 G-GGTGCAGTAGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 GCGGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTACAGTTAAAA
* *
100786 AGATTAAAGCTACAACAACGAATCTTACTTCCTA
66 AGATTAAAGCTACAACAGCGAATCTTACTTCCCA
* ** *
100820 GGCGGTGCAGTGGAACAGATTGAAGCCACATTGGCGAATCTTGCTTCCCCGACACTACAGTTAAA
1 -GCGGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTACAGTT--A
100885 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCA
63 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCA
* * **
100922 GACGGTGCAGTGGAACAGA-TAGAAACCACAATGATGAATCTTGCTTCCCCGACATTACAGTTAA
1 G-CGGTGCAGTGGAACAGATTA-AAGCCACAACGGCGAATCTTGCTTCCCCGACATTACAGTTAA
** *
100986 GCAGATTAAAGTTACAA
64 AAAGATTAAAGCTACAA
101003 ATTAAATCCT
Statistics
Matches: 246, Mismatches: 29, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
98 85 0.35
99 2 0.01
100 69 0.28
101 2 0.01
102 88 0.36
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (99 bp):
GCGGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTACAGTTAAAA
AGATTAAAGCTACAACAGCGAATCTTACTTCCCA
Found at i:101800 original size:18 final size:18
Alignment explanation
Indices: 101777--101831 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
101767 ATTTGCAGTT
101777 TTTTTCTTTTGTTTTTTC
1 TTTTTCTTTTGTTTTTTC
* *
101795 TTTTTCTTTTCTCTGTTTC
1 TTTTTCTTTTGT-TTTTTC
101814 -TTTTCATTTCTGTTTTTT
1 TTTTTC-TTT-TGTTTTTT
101832 TTCTATATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 16 0.53
19 12 0.40
20 2 0.07
ACGTcount: A:0.02, C:0.15, G:0.05, T:0.78
Consensus pattern (18 bp):
TTTTTCTTTTGTTTTTTC
Found at i:120752 original size:13 final size:13
Alignment explanation
Indices: 120728--120851 Score: 124
Period size: 13 Copynumber: 9.3 Consensus size: 13
120718 TTATACATCT
*
120728 ATTTCTATATAACC
1 ATTTC-ATATAATC
*
120742 ATTTCATATAAGC
1 ATTTCATATAATC
120755 ATTTCATATAATC
1 ATTTCATATAATC
120768 ATTTCATATAATC
1 ATTTCATATAATC
* *
120781 ATTTCGTATAACC
1 ATTTCATATAATC
* *
120794 ATTTCATCTAAAC
1 ATTTCATATAATC
* *
120807 ATTTCATTTTATC
1 ATTTCATATAATC
120820 ATTTCATATACA-C
1 ATTTCATATA-ATC
*
120833 ATTTAACACATAATC
1 ATTT--CATATAATC
120848 ATTT
1 ATTT
120852 TTGTATATCA
Statistics
Matches: 93, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
13 76 0.82
14 7 0.08
15 10 0.11
ACGTcount: A:0.36, C:0.19, G:0.02, T:0.44
Consensus pattern (13 bp):
ATTTCATATAATC
Found at i:125358 original size:33 final size:33
Alignment explanation
Indices: 125316--125457 Score: 115
Period size: 33 Copynumber: 4.3 Consensus size: 33
125306 GCATCCATAG
*
125316 AGATAGTCCGCTGGGATAGAAAACATAAAACAA
1 AGATAGTCCGCTGGGATAGAAAACACAAAACAA
* * * *
125349 AGATAGTCCGCTGGGACA-ATAAACATATAATAA
1 AGATAGTCCGCTGGGATAGA-AAACACAAAACAA
* * ** * * *
125382 AGATAGTCCACTGAGATAGTGAACACATAATAG
1 AGATAGTCCGCTGGGATAGAAAACACAAAACAA
** * *
125415 AGATAGTTTGCTGGGATAGCAAACACAAAACAG
1 AGATAGTCCGCTGGGATAGAAAACACAAAACAA
*
125448 AGATATTCCG
1 AGATAGTCCG
125458 TTGAGACAAT
Statistics
Matches: 86, Mismatches: 21, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
32 1 0.01
33 85 0.99
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.20
Consensus pattern (33 bp):
AGATAGTCCGCTGGGATAGAAAACACAAAACAA
Found at i:126977 original size:37 final size:37
Alignment explanation
Indices: 126926--127000 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
126916 TTATTATAGG
*
126926 CTAGTCACCGTAGCCATCAACTAAATTCCCATCCTCT
1 CTAGTCACCATAGCCATCAACTAAATTCCCATCCTCT
126963 CTAGTCACCATAGCCATCAACTAAATTCCCATCCTCT
1 CTAGTCACCATAGCCATCAACTAAATTCCCATCCTCT
127000 C
1 C
127001 ATTTTCCTCC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.28, C:0.39, G:0.07, T:0.27
Consensus pattern (37 bp):
CTAGTCACCATAGCCATCAACTAAATTCCCATCCTCT
Found at i:129590 original size:71 final size:73
Alignment explanation
Indices: 129513--129652 Score: 257
Period size: 74 Copynumber: 1.9 Consensus size: 73
129503 ATTTCTAACG
129513 CTCAAAGTTTATGAA-GAAATAAAAACCTAATATAAT-AGAGAAAATAAGTAAAACTAAAACTCT
1 CTCAAAGTTTATGAAGGAAATAAAAACCTAATATAATAAGAGAAAATAAGTAAAACTAAAACTCT
129576 TAAAAACT
66 TAAAAACT
129584 CTCAAAGTTTATGAAGGAAATAAAAACCTAATATAATAGAGAGAAAATAAGTAAAACTAAAACTC
1 CTCAAAGTTTATGAAGGAAATAAAAACCTAATATAATA-AGAGAAAATAAGTAAAACTAAAACTC
129649 TTAA
65 TTAA
129653 TAAAACCTGA
Statistics
Matches: 66, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
71 15 0.23
72 21 0.32
74 30 0.45
ACGTcount: A:0.56, C:0.11, G:0.10, T:0.24
Consensus pattern (73 bp):
CTCAAAGTTTATGAAGGAAATAAAAACCTAATATAATAAGAGAAAATAAGTAAAACTAAAACTCT
TAAAAACT
Found at i:133061 original size:3 final size:3
Alignment explanation
Indices: 133053--133089 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
133043 TTTTGTACAG
133053 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATGT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
133090 TGTGTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:133358 original size:9 final size:9
Alignment explanation
Indices: 133344--133410 Score: 91
Period size: 9 Copynumber: 7.4 Consensus size: 9
133334 TTTGGTTAAA
133344 AATTAACCG
1 AATTAACCG
*
133353 AATTAATCG
1 AATTAACCG
133362 AATTAACCG
1 AATTAACCG
*
133371 AATTAGCC-
1 AATTAACCG
*
133379 AACTTACCCG
1 AA-TTAACCG
133389 AATTAACCG
1 AATTAACCG
133398 AATTAACCG
1 AATTAACCG
133407 AATT
1 AATT
133411 GAATCACTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
8 2 0.04
9 47 0.92
10 2 0.04
ACGTcount: A:0.42, C:0.22, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:135398 original size:20 final size:21
Alignment explanation
Indices: 135359--135398 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
135349 TCTTGGAGAT
135359 CTTTTATTTCTTCTCCTTTTC
1 CTTTTATTTCTTCTCCTTTTC
* *
135380 CTTTTCTTT-TTCTCTTTTT
1 CTTTTATTTCTTCTCCTTTT
135399 AGTAATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (21 bp):
CTTTTATTTCTTCTCCTTTTC
Found at i:135860 original size:10 final size:10
Alignment explanation
Indices: 135813--135872 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
135803 AGAAAAATTT
135813 TAATTTTTTA
1 TAATTTTTTA
*
135823 -ACTTTCTTTA
1 TAATTT-TTTA
*
135833 TATATTCTTTA
1 TA-ATTTTTTA
* *
135844 GAATTTTTTG
1 TAATTTTTTA
135854 TAA-TTTTTA
1 TAATTTTTTA
135863 TAATTTTTTA
1 TAATTTTTTA
135873 AAAATATAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
9 12 0.32
10 18 0.47
11 6 0.16
12 2 0.05
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:135867 original size:19 final size:19
Alignment explanation
Indices: 135813--135872 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 19
135803 AGAAAAATTT
135813 TAATTTTT-TAACTTTCTTTA
1 TAATTTTTATAA-TTT-TTTA
* *
135833 TATATTCTTTAGAATTTTTTG
1 TA-ATT-TTTATAATTTTTTA
135854 TAATTTTTATAATTTTTTA
1 TAATTTTTATAATTTTTTA
135873 AAAATATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
19 12 0.36
20 5 0.15
21 8 0.24
22 6 0.18
23 2 0.06
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (19 bp):
TAATTTTTATAATTTTTTA
Found at i:135944 original size:20 final size:19
Alignment explanation
Indices: 135882--135953 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 19
135872 AAAAATATAA
135882 ATTTTGGAATTTTTATAAATG
1 ATTTT-GAATTTTTA-AAATG
*
135903 -TTTTGAA-TTTTAAAATTT
1 ATTTTGAATTTTTAAAA-TG
135921 ATTTTGAATTTTTTAAAATG
1 ATTTTGAA-TTTTTAAAATG
*
135941 ATTTTAAATTTTT
1 ATTTTGAATTTTT
135954 TTGTATTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
17 3 0.07
18 6 0.14
19 15 0.34
20 12 0.27
21 8 0.18
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAATG
Found at i:135955 original size:21 final size:21
Alignment explanation
Indices: 135910--135954 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
135900 ATGTTTTGAA
* *
135910 TTTTAAAATTTATTTTGAATT
1 TTTTAAAATTGATTTTAAATT
135931 TTTTAAAA-TGATTTTAAATT
1 TTTTAAAATTGATTTTAAATT
135951 TTTT
1 TTTT
135955 TGTATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTAAAATTGATTTTAAATT
Found at i:143322 original size:21 final size:22
Alignment explanation
Indices: 143287--143344 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
143277 ATTAGAAGCA
* *
143287 AGAAGTCGTAACATT-AGACCTT
1 AGAAGTCGCAACATTCA-ACATT
143309 AGAA-TCGCAACATTCAACATT
1 AGAAGTCGCAACATTCAACATT
*
143330 AGAAGTCACAACATT
1 AGAAGTCGCAACATT
143345 TGAGACAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (22 bp):
AGAAGTCGCAACATTCAACATT
Found at i:145779 original size:22 final size:22
Alignment explanation
Indices: 145725--145779 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
145715 TGCTAGTAGT
*
145725 CAGAATGGCTAAGAGCCGTAAA
1 CAGAATGGCTAAGAGCCATAAA
* * *
145747 CAGGATAGCTATA-AGCTATAAA
1 CAGAATGGCTA-AGAGCCATAAA
145769 CAGAATGGCTA
1 CAGAATGGCTA
145780 CAAACCATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (22 bp):
CAGAATGGCTAAGAGCCATAAA
Found at i:145834 original size:32 final size:31
Alignment explanation
Indices: 145779--145951 Score: 172
Period size: 32 Copynumber: 5.5 Consensus size: 31
145769 CAGAATGGCT
* *
145779 ACAAA-CCATAAGTACAGTAATATGATTGGC
1 ACAAAGCCATCAGTACAGTAATATGATCGGC
* *
145809 ACAAAGCCATCAATAGCAGTGATATGATCGGC
1 ACAAAGCCATCAGTA-CAGTAATATGATCGGC
* *
145841 ACACAGACATCAGTA-ATGATAATATGATCGGC
1 ACAAAGCCATCAGTACA-G-TAATATGATCGGC
* * *
145873 ACAAAGTCATCAGTAACGGTAATATGATCGGT
1 ACAAAGCCATCAGT-ACAGTAATATGATCGGC
* *
145905 ACAAAGCCATCAGCA-ACGCTAATATGATCAGC
1 ACAAAGCCATCAGTACA-G-TAATATGATCGGC
145937 ACAAAGCCATCAGTA
1 ACAAAGCCATCAGTA
145952 GCATCACAGC
Statistics
Matches: 117, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
30 6 0.05
31 10 0.09
32 99 0.85
33 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.20
Consensus pattern (31 bp):
ACAAAGCCATCAGTACAGTAATATGATCGGC
Found at i:145898 original size:64 final size:64
Alignment explanation
Indices: 145796--145951 Score: 195
Period size: 64 Copynumber: 2.4 Consensus size: 64
145786 ATAAGTACAG
* * * * * * *
145796 TAATATGATTGGCACAAAGCCATCAATAGCAGTGATATGATCGGCACACAGACATCAGTAATGA
1 TAATATGATCGGCACAAAGCCATCAGTAACAGTAATATGATCGGCACAAAGACATCAGCAACGA
* * * * *
145860 TAATATGATCGGCACAAAGTCATCAGTAACGGTAATATGATCGGTACAAAGCCATCAGCAACGC
1 TAATATGATCGGCACAAAGCCATCAGTAACAGTAATATGATCGGCACAAAGACATCAGCAACGA
*
145924 TAATATGATCAGCACAAAGCCATCAGTA
1 TAATATGATCGGCACAAAGCCATCAGTA
145952 GCATCACAGC
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 78 1.00
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (64 bp):
TAATATGATCGGCACAAAGCCATCAGTAACAGTAATATGATCGGCACAAAGACATCAGCAACGA
Found at i:146169 original size:23 final size:23
Alignment explanation
Indices: 146139--146182 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
146129 TACCAAACAC
146139 AGACAAATCAACCATTTAACCAT
1 AGACAAATCAACCATTTAACCAT
*
146162 AGACAAATCAATCATTTAACC
1 AGACAAATCAACCATTTAACC
146183 TCGAGGGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.25, G:0.05, T:0.23
Consensus pattern (23 bp):
AGACAAATCAACCATTTAACCAT
Found at i:146244 original size:27 final size:27
Alignment explanation
Indices: 146214--146341 Score: 168
Period size: 27 Copynumber: 4.7 Consensus size: 27
146204 TACCATCTAC
*
146214 GGGTATTACGATCATTTTACCCTACAG
1 GGGTATTACGATCATTTTACCCTACAA
* *
146241 GGGTATTACGGTCATTTTACCCTACAG
1 GGGTATTACGATCATTTTACCCTACAA
* *
146268 GGGCATTACGATCAGTTTACCCTACAA
1 GGGTATTACGATCATTTTACCCTACAA
* * *
146295 GGGCATTACGGTTATTTTACCCTACAA
1 GGGTATTACGATCATTTTACCCTACAA
146322 GGGTATTAC-AGTCATTTTAC
1 GGGTATTACGA-TCATTTTAC
146342 AAATATTAGG
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
GGGTATTACGATCATTTTACCCTACAA
Found at i:155284 original size:50 final size:50
Alignment explanation
Indices: 155175--155424 Score: 261
Period size: 50 Copynumber: 4.9 Consensus size: 50
155165 ACATTAAGAG
* * *
155175 GATGAGA--TCCCATGTATGACCATGTCTGGGACATGGCATTAGCATTATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACTGA
* *
155226 GATTATGAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
*
155279 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
* ** * * *
155329 GATAAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACTTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
* ** * * * *
155379 TATGAGAACTCCCATGTAAGACCATATCTGTGATATGACATTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
155425 GTACAAGAAA
Statistics
Matches: 167, Mismatches: 27, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
50 123 0.74
51 1 0.01
53 4 0.02
54 6 0.04
56 33 0.20
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
Found at i:157922 original size:23 final size:23
Alignment explanation
Indices: 157891--157937 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
157881 GCTTTGGCTT
*
157891 AATTCCAAGATTA-AGCTTTTTTA
1 AATTCCAAG-TTATAGCATTTTTA
*
157914 AATTTCAAGTTATAGCATTTTTA
1 AATTCCAAGTTATAGCATTTTTA
157937 A
1 A
157938 TTTATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.45
Consensus pattern (23 bp):
AATTCCAAGTTATAGCATTTTTA
Found at i:158068 original size:32 final size:31
Alignment explanation
Indices: 158026--158086 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
158016 TAAAATTTAT
* * *
158026 TTTTAATTTTTGTATTTTTTAAATTAATTAA
1 TTTTAATTTTTATACTTTTTAAATAAATTAA
*
158057 TTTTAATTTTTTATACTTTTTGAATAAATT
1 TTTTAA-TTTTTATACTTTTTAAATAAATT
158087 TAAATTATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 6 0.24
32 19 0.76
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (31 bp):
TTTTAATTTTTATACTTTTTAAATAAATTAA
Found at i:163638 original size:85 final size:85
Alignment explanation
Indices: 163544--163717 Score: 339
Period size: 85 Copynumber: 2.0 Consensus size: 85
163534 GTGGTTAAGG
163544 TATTTTTTATTTATATAAAATTTAACACATTTAATTTGTATTAAATAGGTTTGGAGACATTTGTA
1 TATTTTTTATTTATATAAAATTTAACACATTTAATTTGTATTAAATAGGTTTGGAGACATTTGTA
*
163609 TATTCGTGTTGTGTTTATGT
66 TATTCGTGTTGCGTTTATGT
163629 TATTTTTTATTTATATAAAATTTAACACATTTAATTTGTATTAAATAGGTTTGGAGACATTTGTA
1 TATTTTTTATTTATATAAAATTTAACACATTTAATTTGTATTAAATAGGTTTGGAGACATTTGTA
163694 TATTCGTGTTGCGTTTATGT
66 TATTCGTGTTGCGTTTATGT
163714 TATT
1 TATT
163718 ATTATTTTTT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 88 1.00
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (85 bp):
TATTTTTTATTTATATAAAATTTAACACATTTAATTTGTATTAAATAGGTTTGGAGACATTTGTA
TATTCGTGTTGCGTTTATGT
Found at i:175025 original size:50 final size:50
Alignment explanation
Indices: 174970--175114 Score: 166
Period size: 50 Copynumber: 2.9 Consensus size: 50
174960 TATTGAGGTT
*
174970 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAG
* * * * *
175020 ATGAGAGGTCCC-TCGTAAGACCATGTCTGGGACATTGCATGGGCATCGAT
1 ATGAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCAAG
** * * * *
175070 ATGAGAACTCCCATGTAAGATCATATTTGGGATATGGCATTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
175115 GTACAGGAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
49 1 0.01
50 77 0.97
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAG
Found at i:186326 original size:15 final size:15
Alignment explanation
Indices: 186306--186334 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
186296 ATGATTTATT
186306 CTAAGATTTATCTAA
1 CTAAGATTTATCTAA
186321 CTAAGATTTATCTA
1 CTAAGATTTATCTA
186335 CTTAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (15 bp):
CTAAGATTTATCTAA
Found at i:186749 original size:15 final size:16
Alignment explanation
Indices: 186704--186753 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 16
186694 TTAAAATATC
* *
186704 ATTTTTTATATTTTTAT
1 ATTTTTAATAATTTT-T
186721 ACTTTTTAATAATTTTT
1 A-TTTTTAATAATTTTT
186738 ATTTTTAA-AATTTTT
1 ATTTTTAATAATTTTT
186753 A
1 A
186754 AATTAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 8 0.27
16 7 0.23
17 3 0.10
18 12 0.40
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTTTAATAATTTTT
Found at i:190492 original size:28 final size:29
Alignment explanation
Indices: 190439--190498 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
190429 CCATAAAGTA
*
190439 ATATTATAATATAACTATTACCAAAA-AT
1 ATATTATAATATAACTATTAACAAAAGAT
* *
190467 ATATTATAATATAGATTA-TAATAAAAGAT
1 ATATTATAATATA-ACTATTAACAAAAGAT
190496 ATA
1 ATA
190499 ATATTACATG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (29 bp):
ATATTATAATATAACTATTAACAAAAGAT
Found at i:191978 original size:18 final size:20
Alignment explanation
Indices: 191934--191987 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
191924 AAGGTTTTTC
*
191934 TTTTCTTCTTTCTGATTCGGT
1 TTTTTTTCTTTCTGATTC-GT
*
191955 TATTTTTTCTTTC-GATTCTT
1 T-TTTTTTCTTTCTGATTCGT
191975 TTTTTCTTCTTTC
1 TTTTT-TTCTTTC
191988 CTTTTTGTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 4 0.14
20 9 0.31
21 6 0.21
22 10 0.34
ACGTcount: A:0.06, C:0.19, G:0.07, T:0.69
Consensus pattern (20 bp):
TTTTTTTCTTTCTGATTCGT
Found at i:192800 original size:24 final size:25
Alignment explanation
Indices: 192773--192821 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
192763 TTTTGAGGGT
* *
192773 GTTTTTAAATTTATT-ATTATTATG
1 GTTTTAAAATATATTAATTATTATG
192797 GTTTTAAAATATATTAAATTATTAT
1 GTTTTAAAATATATT-AATTATTAT
192822 TTTAATTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.62
26 8 0.38
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (25 bp):
GTTTTAAAATATATTAATTATTATG
Found at i:197958 original size:7 final size:7
Alignment explanation
Indices: 197946--197999 Score: 85
Period size: 7 Copynumber: 8.0 Consensus size: 7
197936 CTGAGTCAAA
197946 AAAAATG
1 AAAAATG
197953 AAAAATG
1 AAAAATG
197960 AAAAATG
1 AAAAATG
*
197967 -AGAATG
1 AAAAATG
197973 AAAAATG
1 AAAAATG
197980 AAAAATG
1 AAAAATG
197987 -AAAATG
1 AAAAATG
197993 AAAAATG
1 AAAAATG
198000 GAGAGGCTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 11 0.26
7 32 0.74
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:197974 original size:20 final size:20
Alignment explanation
Indices: 197947--197999 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
197937 TGAGTCAAAA
197947 AAAATGAAAAATGAAAAATG
1 AAAATGAAAAATGAAAAATG
*
197967 AGAATGAAAAATGAAAAATG
1 AAAATGAAAAATGAAAAATG
197987 AAAATGAAAAATG
1 AAAATGAAAAATG
198000 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (20 bp):
AAAATGAAAAATGAAAAATG
Found at i:197991 original size:13 final size:14
Alignment explanation
Indices: 197946--197999 Score: 85
Period size: 13 Copynumber: 4.0 Consensus size: 14
197936 CTGAGTCAAA
197946 AAAAATGAAAAATG
1 AAAAATGAAAAATG
*
197960 AAAAATG-AGAATG
1 AAAAATGAAAAATG
197973 AAAAATGAAAAATG
1 AAAAATGAAAAATG
197987 -AAAATGAAAAATG
1 AAAAATGAAAAATG
198000 GAGAGGCTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
13 25 0.68
14 12 0.32
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:199529 original size:7 final size:7
Alignment explanation
Indices: 199517--199570 Score: 85
Period size: 7 Copynumber: 8.0 Consensus size: 7
199507 CTGAGTCAAA
199517 AAAAATG
1 AAAAATG
199524 AAAAATG
1 AAAAATG
199531 AAAAATG
1 AAAAATG
*
199538 -AGAATG
1 AAAAATG
199544 AAAAATG
1 AAAAATG
199551 AAAAATG
1 AAAAATG
199558 -AAAATG
1 AAAAATG
199564 AAAAATG
1 AAAAATG
199571 GAGAGGCTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 11 0.26
7 32 0.74
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:199545 original size:20 final size:20
Alignment explanation
Indices: 199518--199570 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
199508 TGAGTCAAAA
199518 AAAATGAAAAATGAAAAATG
1 AAAATGAAAAATGAAAAATG
*
199538 AGAATGAAAAATGAAAAATG
1 AAAATGAAAAATGAAAAATG
199558 AAAATGAAAAATG
1 AAAATGAAAAATG
199571 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (20 bp):
AAAATGAAAAATGAAAAATG
Found at i:199562 original size:13 final size:14
Alignment explanation
Indices: 199517--199570 Score: 85
Period size: 13 Copynumber: 4.0 Consensus size: 14
199507 CTGAGTCAAA
199517 AAAAATGAAAAATG
1 AAAAATGAAAAATG
*
199531 AAAAATG-AGAATG
1 AAAAATGAAAAATG
199544 AAAAATGAAAAATG
1 AAAAATGAAAAATG
199558 -AAAATGAAAAATG
1 AAAAATGAAAAATG
199571 GAGAGGCTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
13 25 0.68
14 12 0.32
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:201044 original size:43 final size:43
Alignment explanation
Indices: 200977--201190 Score: 146
Period size: 43 Copynumber: 4.7 Consensus size: 43
200967 TCAGAGATCT
*
200977 TATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGACACTATCC
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAGACACTATCC
* * * * ** *
201020 TATCTCCCTGAAGTTAGAGTGGAGC-GTATTAAAATAAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAG-ATT-GAAGACACTATCC
* * ** *
201064 TATCTCACTGAAGTTACAGTAAAGTAGATCGCATCAGATTGAAGCCAGAAATCT
1 TATCTCCCTGAAGTTACAGT---G--GA--G---CAGATTGAAGACA-CTATCC
*
201118 TATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGACACTATCC
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAGACACTATCC
201161 TATCTCCCTGAAGTTACAGTGGAGCAGATT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATT
201191 AAAATAAAGG
Statistics
Matches: 131, Mismatches: 23, Indels: 34
0.70 0.12 0.18
Matches are distributed among these distances:
42 1 0.01
43 52 0.40
44 41 0.31
47 2 0.02
49 4 0.03
51 2 0.02
53 5 0.04
54 23 0.18
55 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (43 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACACTATCC
Found at i:201092 original size:176 final size:174
Alignment explanation
Indices: 200784--201100 Score: 537
Period size: 176 Copynumber: 1.8 Consensus size: 174
200774 AACAGACCAT
200784 CGAAGATTTTCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGACACTATCCTATCT
1 CGAAGATTTTCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGACACTATCCTATCT
* * ** *
200849 CCCTGAAGTTACAGTGGAGCAGATTTAAATAAATGATCTTATCTCTTTGAAGTTACAGTAGAGTA
66 CCCTGAAGTTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCACTGAAGTTACAGTAAAGTA
200914 GATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGAC
131 GATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGAC
*
200958 CGAAGATTTTCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACTATCCTAT
1 CGAAGATTTTC--AGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGACACTATCCTAT
*
201023 CTCCCTGAAGTTAGAGTGGAGC-GTATTAAAATAAAGGATCTTATCTCACTGAAGTTACAGTAAA
64 CTCCCTGAAGTTACAGTGGAGCAG-ATTAAAATAAAGGATCTTATCTCACTGAAGTTACAGTAAA
201087 GTAGATCGCATCAG
128 GTAGATCGCATCAG
201101 ATTGAAGCCA
Statistics
Matches: 133, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
174 11 0.08
175 1 0.01
176 121 0.91
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (174 bp):
CGAAGATTTTCAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGACACTATCCTATCT
CCCTGAAGTTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCACTGAAGTTACAGTAAAGTA
GATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGAC
Found at i:201136 original size:141 final size:143
Alignment explanation
Indices: 200968--201525 Score: 918
Period size: 142 Copynumber: 3.9 Consensus size: 143
200958 CGAAGATTTT
*
200968 CAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGAC-ACT-ATCCTATCTCCCTGA
1 CAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CTACTAATCCTATCTCCCTGA
* * * *
201031 AG-TTAGAGTGGAGCGTATTAAAATAAAGGATCTTATCTCACTGAAGTTACAGTAAAGTAGATCG
65 AGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
201095 CATCAGATTGAAGC
130 CATCAGATTGAAGC
201109 CAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGAC-ACT-ATCCTATCTCCCTGA
1 CAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CTACTAATCCTATCTCCCTGA
* *
201172 AG-TTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTTTCTGAAGTTACAGTAGAGTAGATCG
65 AGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
201236 CATCAGATTGAAGC
130 CATCAGATTGAAGC
*
201250 CAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTG-A
1 CAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTACTAATCCTATCTCCCTGAA
201314 GATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGC
66 GATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGC
*
201379 GTCAGATTGAAGC
131 ATCAGATTGAAGC
* *
201392 CAGAAATCTTATCTCCCTGAGATTACAGGCGGAGCAGA-TGAAGCTAGTAATCTTATCTCCCT-A
1 CAGAAATCTTATCTCCCTGAGATTACA-GCGGAGCAGATTGAAGCTACTAATCCTATCTCCCTGA
*
201455 AGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
65 AGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
201520 CATCAG
130 CATCAG
201526 GTATTATCTC
Statistics
Matches: 398, Mismatches: 14, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
140 1 0.00
141 181 0.45
142 206 0.52
143 10 0.03
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (143 bp):
CAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTACTAATCCTATCTCCCTGAA
GATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGC
ATCAGATTGAAGC
Found at i:201307 original size:44 final size:44
Alignment explanation
Indices: 201239--201468 Score: 189
Period size: 44 Copynumber: 5.0 Consensus size: 44
201229 TAGATCGCAT
*
201239 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* * *
201283 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* ** * *
201327 CGGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCG
1 CAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTAC---AGCG--GA----G
*
201380 TCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGGCGGAG
1 -CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACA-GCGGAG
* * *
201426 CAGA-TGAAGCTAGTAATCTTATCTCCCTAAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
201469 TGGATTAAAA
Statistics
Matches: 148, Mismatches: 21, Indels: 35
0.73 0.10 0.17
Matches are distributed among these distances:
42 1 0.01
43 10 0.07
44 92 0.62
45 4 0.03
46 1 0.01
47 3 0.02
49 2 0.01
50 2 0.01
51 1 0.01
52 2 0.01
53 1 0.01
54 23 0.16
55 4 0.03
56 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
Found at i:201462 original size:98 final size:97
Alignment explanation
Indices: 201283--201469 Score: 225
Period size: 98 Copynumber: 1.9 Consensus size: 97
201273 TACAGCGGAG
* * * * * *
201283 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATGAAAAT-AAGAATCTT
*
201348 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCGT
65 ATCTCCCTGAAGTTACAGTAGAGTAGATCGCGT
* **
201381 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGGCGGAGCAGATGAAGCT-AGTAATCT
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACA-GCGGAGCAGATGAAAATAAG-AATCT
*
201445 TATCTCCCT-AAGATTACAGTGGAGT
64 TATCTCCCTGAAG-TTACAGTAGAGT
201470 GGATTAAAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
97 5 0.07
98 58 0.77
99 12 0.16
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (97 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATGAAAATAAGAATCTTA
TCTCCCTGAAGTTACAGTAGAGTAGATCGCGT
Found at i:201659 original size:50 final size:50
Alignment explanation
Indices: 201601--201960 Score: 310
Period size: 50 Copynumber: 7.2 Consensus size: 50
201591 ACAGTGGAAT
* *
201601 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAATTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * ** * * ** ** *
201651 AGATTAAAGCCACAGCGGTGAATCCTACTTCCTTGGCAGTATAGTGGAAC
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
*
201701 AGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * ** * * * ** *
201751 AGATTAAAGCCACAGCGGCGAATCCTACTTCCAAGGCAATGTAGTGGAAC
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
*
201801 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * * * * * ** *
201851 AGATTAAAGCTACAAT-AGCGAATCTTACCTCTCAGACGA-TACCGTGGAAC
1 AGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGAC-ATTGCAGTTAAAA
* *
201901 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTACAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
201951 AGATTAAAGC
1 AGATTAAAGC
201961 TACAACAGCG
Statistics
Matches: 235, Mismatches: 71, Indels: 8
0.75 0.23 0.03
Matches are distributed among these distances:
49 2 0.01
50 230 0.98
51 3 0.01
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
Found at i:201766 original size:100 final size:100
Alignment explanation
Indices: 201593--201979 Score: 519
Period size: 100 Copynumber: 3.9 Consensus size: 100
201583 CAAGCGATAC
* * *
201593 AGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAATTAAAAAGATTAA
1 AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
* *
201658 AGCCACAGCGGTGAATCCTACTTCCTTGGCAGTAT
66 AGCCACAGCGGCGAATCCTACTTCCTAGGCAGTAT
*
201693 AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACATTGCAGTTAAAAAGATTAA
1 AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
* * *
201758 AGCCACAGCGGCGAATCCTACTTCCAAGGCAATGT
66 AGCCACAGCGGCGAATCCTACTTCCTAGGCAGTAT
*
201793 AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAAAGATTAA
1 AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
* *** * * *
201858 AGCTACAATAGCGAATCTTACCT-CTCAGAC-G-AT
66 AGCCACAGCGGCGAATCCTACTTCCT-AGGCAGTAT
* *
201891 ACCGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATT
1 A--GTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATT
* * * *
201956 AAAGCTACAACAGCGAATCTTACT
64 AAAGCCACAGCGGCGAATCCTACT
201980 CCCCAAGCGG
Statistics
Matches: 258, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
98 2 0.01
99 1 0.00
100 255 0.99
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (100 bp):
AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
AGCCACAGCGGCGAATCCTACTTCCTAGGCAGTAT
Found at i:201998 original size:100 final size:100
Alignment explanation
Indices: 201571--202010 Score: 512
Period size: 100 Copynumber: 4.4 Consensus size: 100
201561 AAGAATTACA
*
201571 AATCTTA-TCTCCCAAGCGATACAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
1 AATCTTACTC-CCCAAGCGATACAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
* * * * *
201635 GACATTGTAATTAAAAAGATTAAAGCCACAGCGGTG
65 GACATTGCAGTTAAAAAGATTAAAGCCACAACAGCG
* * *** * *
201671 AATCCTACTTCCTTGGC-AGTATAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCTC
1 AATCTTACTCCCCAAGCGA-TACAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
* *
201735 GACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
65 GACATTGCAGTTAAAAAGATTAAAGCCACAACAGCG
* * * **
201771 AATCCTACT-TCCAAGGCAATGTAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
1 AATCTTACTCCCCAA-GCGATACAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
* * *
201835 GACATTGCAGTTCAAAAGATTAAAGCTACAATAGCG
65 GACATTGCAGTTAAAAAGATTAAAGCCACAACAGCG
* * *
201871 AATCTTAC-CTCTC-AGACGATACCGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCC
1 AATCTTACTC-CCCAAG-CGATACAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCC
* *
201934 CGACATTACAGTTAAAAAGATTAAAGCTACAACAGCG
64 CGACATTGCAGTTAAAAAGATTAAAGCCACAACAGCG
* * * *
201971 AATCTTACTCCCCAAGCGGTCCAGTGGAACAAATTGAAGC
1 AATCTTACTCCCCAAGCGATACAGTGGAACAGATTAAAGC
202011 TACAATAGCA
Statistics
Matches: 292, Mismatches: 39, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
99 3 0.01
100 283 0.97
101 6 0.02
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (100 bp):
AATCTTACTCCCCAAGCGATACAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
ACATTGCAGTTAAAAAGATTAAAGCCACAACAGCG
Found at i:202838 original size:22 final size:22
Alignment explanation
Indices: 202802--202858 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 22
202792 ACAAAAGTTT
202802 TTCTTTTCTTCTTTCCGATTCGG
1 TTCTTTTCTTCTTT-CGATTCGG
202825 TTCTTTT-TTCTTTCGATTC--
1 TTCTTTTCTTCTTTCGATTCGG
202844 TAT-TTTTCTTCTTTC
1 T-TCTTTTCTTCTTTC
202859 CTTTTTGTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
19 5 0.16
20 8 0.25
21 6 0.19
22 6 0.19
23 7 0.22
ACGTcount: A:0.05, C:0.23, G:0.07, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTCTTTCGATTCGG
Found at i:202844 original size:16 final size:17
Alignment explanation
Indices: 202820--202853 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
202810 TTCTTTCCGA
*
202820 TTCGGTTCT-TTTTTCT
1 TTCGATTCTATTTTTCT
202836 TTCGATTCTATTTTTCT
1 TTCGATTCTATTTTTCT
202853 T
1 T
202854 CTTTCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.06, C:0.18, G:0.09, T:0.68
Consensus pattern (17 bp):
TTCGATTCTATTTTTCT
Found at i:203670 original size:24 final size:25
Alignment explanation
Indices: 203643--203691 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
203633 TTTTGAGGGT
* *
203643 GTTTTTAAATTTATT-ATTATTATG
1 GTTTTAAAATATATTAATTATTATG
203667 GTTTTAAAATATATTAAATTATTAT
1 GTTTTAAAATATATT-AATTATTAT
203692 TTTAATTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.62
26 8 0.38
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (25 bp):
GTTTTAAAATATATTAATTATTATG
Found at i:206440 original size:19 final size:18
Alignment explanation
Indices: 206418--206469 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
206408 AATTACAAAA
*
206418 AAAAATCAAAATAATTTT
1 AAAAATCAAAATAAATTT
*
206436 CAAAAATTAAAAATAAAATTT
1 -AAAAA-TCAAAAT-AAATTT
*
206457 AAAATTCAAAATA
1 AAAAATCAAAATA
206470 TTTATAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
18 1 0.04
19 11 0.41
20 10 0.37
21 5 0.19
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAATCAAAATAAATTT
Found at i:206520 original size:18 final size:17
Alignment explanation
Indices: 206493--206528 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
206483 TAAAATTTGT
*
206493 ATTTTTAAAAAATTATA
1 ATTTTTAAAAAAATATA
206510 ATTTTTAAAAAAAATATA
1 ATTTTT-AAAAAAATATA
206528 A
1 A
206529 AAAATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTTTAAAAAAATATA
Found at i:214619 original size:17 final size:17
Alignment explanation
Indices: 214599--214634 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
214589 ATAATAAACT
214599 ATAATATATAATATATA
1 ATAATATATAATATATA
* *
214616 ATAATATGTACTATATA
1 ATAATATATAATATATA
214633 AT
1 AT
214635 GTACTACTAT
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:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (17 bp):
ATAATATATAATATATA
Found at i:214776 original size:18 final size:17
Alignment explanation
Indices: 214727--214777 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
214717 ATTAATACAC
214727 ACATATAAACTATTAAT
1 ACATATAAACTATTAAT
* *
214744 A-TTACTAAAAATATTAAT
1 ACATA-T-AAACTATTAAT
214762 ACATATATAACTATTA
1 ACATATA-AACTATTA
214778 TTATAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
16 2 0.08
17 3 0.12
18 19 0.73
19 2 0.08
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (17 bp):
ACATATAAACTATTAAT
Found at i:214889 original size:118 final size:117
Alignment explanation
Indices: 214643--214860 Score: 280
Period size: 118 Copynumber: 1.9 Consensus size: 117
214633 ATGTACTACT
* * * *
214643 ATAC-TATATAACTATTATTATACTATAGGTTATAATAAAAGATACAGTATTACATAATATTATA
1 ATACATATATAACTATTATTATAATATAGATTATAATAAAAGATACAATATTACAT-AGATTATA
* * *
214707 ATGTTTAGTAATTAATACACACATATAAACTATTAATATTACTAAAAATATTA
65 ATGTTTAATAATCAATACACACATATAAACTATTAATATTACTAAAAATATAA
*
214760 ATACATATATAACTATTATTATAATATAGATTATAATAAAAGATATAATATTACAT-GA-TATAA
1 ATACATATATAACTATTATTATAATATAGATTATAATAAAAGATACAATATTACATAGATTATAA
* * * * * *
214823 TGTTTAATCATCGATGCATATATATAAATTATTAATAT
66 TGTTTAATAATCAATACACACATATAAACTATTAATAT
214861 ATTATATAAT
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
115 35 0.40
116 1 0.01
117 4 0.05
118 47 0.54
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (117 bp):
ATACATATATAACTATTATTATAATATAGATTATAATAAAAGATACAATATTACATAGATTATAA
TGTTTAATAATCAATACACACATATAAACTATTAATATTACTAAAAATATAA
Found at i:214982 original size:20 final size:20
Alignment explanation
Indices: 214954--214991 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
214944 ATTTCAACCA
214954 ATATAATAATAAATAATAAC
1 ATATAATAATAAATAATAAC
* *
214974 ATATGATAATAATTAATA
1 ATATAATAATAAATAATA
214992 TATAATGTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (20 bp):
ATATAATAATAAATAATAAC
Found at i:215029 original size:229 final size:232
Alignment explanation
Indices: 214778--215230 Score: 612
Period size: 239 Copynumber: 1.9 Consensus size: 232
214768 ATAACTATTA
*
214778 TTATAATATAGATTATAATAAAAGATATAATATTACAT-GA-TATAATGTTTAATCATCGATGCA
1 TTATAATATAGAATATAATAAAAGATATAATATTACATAGATTATAATGTTTAATCATCGATGCA
* * *
214841 TATATATAAATTATTAATATATTATATA-ATATG-A-AAT-AACATTATATAATATAGTAGGTGG
66 TATATATAAACTATCAATATATTATATACATATGAACAATAAACATTATATAATATAGTAGGAGG
* * *
214902 TTTAACTTTCAAATGTACACAAAGGATAGGAACTTAAAGCATATTTCAACCAATATAATAATAAA
131 TCTAACTTCCAAATGCACACAAAGGATAGGAACTTAAAGCATATTTCAACC-A-AT-ATAATAAA
214967 TAATAACATATGATAATAATTAATATATAATGTACTACTG
193 TAATAACATATGATAATAATTAATATATAATGTACTACTG
* ** * *
215007 TTATATTATAGAATATAATAAAAGATATGGTATTACATAATATTATAATGTTTAATCATTGATGC
1 TTATAATATAGAATATAATAAAAGATATAATATTACAT-AGATTATAATGTTTAATCATCGATGC
215072 ATATATATAAACTATCAATATATTATATACTATATGACACAATACAACATTATATAATATAGTAG
65 ATATATATAAACTATCAATATATTATATAC-ATATGA-ACAATA-AACATTATATAATATAGTAG
* * ** * * * *
215137 GAGGTCTAACTTCCAAATGCATATAAATTATAGGGATTTAGAGCATATTTCAACCAGTATAATAA
127 GAGGTCTAACTTCCAAATGCACACAAAGGATAGGAACTTAAAGCATATTTCAACCAATATAATAA
*
215202 ATAATAATATATGATAATAATTAATATAT
192 ATAATAACATATGATAATAATTAATATAT
215231 TATATATTAC
Statistics
Matches: 193, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
229 34 0.18
231 1 0.01
232 48 0.25
234 5 0.03
236 36 0.19
237 4 0.02
238 1 0.01
239 64 0.33
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.36
Consensus pattern (232 bp):
TTATAATATAGAATATAATAAAAGATATAATATTACATAGATTATAATGTTTAATCATCGATGCA
TATATATAAACTATCAATATATTATATACATATGAACAATAAACATTATATAATATAGTAGGAGG
TCTAACTTCCAAATGCACACAAAGGATAGGAACTTAAAGCATATTTCAACCAATATAATAAATAA
TAACATATGATAATAATTAATATATAATGTACTACTG
Found at i:217279 original size:25 final size:25
Alignment explanation
Indices: 217239--217306 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
217229 GAGCCATTAA
** **
217239 CAGGAAGCTCATAAGAGCCATTTAT
1 CAGGAAGCTCCGAAGAGCCAAATAT
*
217264 C-GAGAAGCTTCGAAGAGCCAAATAT
1 CAG-GAAGCTCCGAAGAGCCAAATAT
217289 CAGGAAGCTCCGAAGAGC
1 CAGGAAGCTCCGAAGAGC
217307 AATAAACGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.16
Consensus pattern (25 bp):
CAGGAAGCTCCGAAGAGCCAAATAT
Found at i:224058 original size:8 final size:8
Alignment explanation
Indices: 224045--224069 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
224035 TAGTTGATTA
224045 CTTAGTGT
1 CTTAGTGT
224053 CTTAGTGT
1 CTTAGTGT
224061 CTTAGTGT
1 CTTAGTGT
224069 C
1 C
224070 GAGAATTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.16, G:0.24, T:0.48
Consensus pattern (8 bp):
CTTAGTGT
Found at i:224653 original size:18 final size:21
Alignment explanation
Indices: 224614--224654 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
224604 AATGTAAAAT
224614 AATAATAATGATGACAATGCA
1 AATAATAATGATGACAATGCA
224635 AATAA-AATGAT-ACAA-GCA
1 AATAATAATGATGACAATGCA
224653 AA
1 AA
224655 ACAATAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 4 0.20
20 6 0.30
21 5 0.25
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.20
Consensus pattern (21 bp):
AATAATAATGATGACAATGCA
Found at i:226148 original size:21 final size:21
Alignment explanation
Indices: 226124--226176 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
226114 AAGGCCTGAT
*
226124 TCCGACGACGGCAAAAGGTCC
1 TCCGTCGACGGCAAAAGGTCC
* *
226145 TCCGTCGACGGCGAAGGGTCC
1 TCCGTCGACGGCAAAAGGTCC
226166 TCCGTCGACGG
1 TCCGTCGACGG
226177 GGCCACAGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.19, C:0.34, G:0.34, T:0.13
Consensus pattern (21 bp):
TCCGTCGACGGCAAAAGGTCC
Found at i:227176 original size:3 final size:3
Alignment explanation
Indices: 227168--227198 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
227158 GAAGAGAGCC
*
227168 AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
227199 GCAAAGACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:227404 original size:20 final size:20
Alignment explanation
Indices: 227379--227416 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
227369 TAACGTGACA
*
227379 AGTTAACTGGTCACATCAGC
1 AGTTAACTGGCCACATCAGC
*
227399 AGTTAACTTGCCACATCA
1 AGTTAACTGGCCACATCA
227417 ACTATCCCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (20 bp):
AGTTAACTGGCCACATCAGC
Found at i:230241 original size:43 final size:42
Alignment explanation
Indices: 230148--230311 Score: 143
Period size: 43 Copynumber: 3.9 Consensus size: 42
230138 GCTGAGAGAA
* * ** * * **
230148 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTCTT
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGACG-CTTTTTCAC
* * * *
230191 AAGCGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTT-TCAC
* *
230234 AAACGCCGCTAAAGAACATGACCTTTAGCAACGCTTCTTTCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGACGCTT-TTTCAC
*
230277 AAACGCCGC-AAACGAACAA-ACCTTCAGCGACGCTT
1 AAACGCCGCTAAA-GAACAAGACCTTTAGCGACGCTT
230312 GTAGCAAAAA
Statistics
Matches: 100, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 21 0.21
43 77 0.77
44 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTTTCAC
Found at i:230284 original size:86 final size:85
Alignment explanation
Indices: 230148--230311 Score: 186
Period size: 86 Copynumber: 1.9 Consensus size: 85
230138 GCTGAGAGAA
* ** ** * * ** * *
230148 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTCTTAAGCGCCGCTAAA-GACCAAGA
1 AAACGCCGCTAAAGAACATGACCTTTAGCAACGCTTCTTTCACAAACGCCGC-AAACGAACAA-A
* *
230212 CCTTTAGCGGCGCTTTTCCCAC
64 CCTTCAGCGACGCTTTTCCCAC
230234 AAACGCCGCTAAAGAACATGACCTTTAGCAACGCTTCTTTCACAAACGCCGCAAACGAACAAACC
1 AAACGCCGCTAAAGAACATGACCTTTAGCAACGCTTCTTTCACAAACGCCGCAAACGAACAAACC
230299 TTCAGCGACGCTT
66 TTCAGCGACGCTT
230312 GTAGCAAAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
85 17 0.27
86 47 0.73
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (85 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCAACGCTTCTTTCACAAACGCCGCAAACGAACAAACC
TTCAGCGACGCTTTTCCCAC
Found at i:235366 original size:103 final size:102
Alignment explanation
Indices: 235145--235455 Score: 402
Period size: 103 Copynumber: 3.0 Consensus size: 102
235135 GCAAAAAAAA
*
235145 TTCATTTTGAACAAAACT-ACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTATTTTTTATAAA
1 TTCATTTTGAACAAAA-TGACGCCGTTTTGCTATGCT-AAA--TTTTT-TTTTATTTTTTATAAA
* *
235209 TTGATTTA-TTTTTGCGGCGTTTTTTATAAAAAC-CCTACCAT
61 TTGATTTATTTTTTGCGGCGTTTTTTATAAAAACGCC-GCTAT
*
235250 TTCATTTTGAACAAAATGACGTCGTTTTGCTATGCTAAATTTTTTTTTATTTTTTAGTAAATTGA
1 TTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAATTTTTTTTTATTTTTTA-TAAATTGA
* *
235315 TTTATTTTTTGTGGC-ATTTTTATAAAAAACGCCGCTAT
65 TTTATTTTTTGCGGCGTTTTTTAT-AAAAACGCCGCTAT
* *
235353 TTCATTTTGAACAAAATGACGCCGTTTTGCTATGC-CAA-TTTTTTTGATTTTTT-TAAAATTGA
1 TTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAATTTTTTTTTATTTTTTAT-AAATTGA
235415 TTTATTTTTTGCGGCGTTTTTTTAATAAAAACGCCGCTAT
65 TTTATTTTTTGCGGCG-TTTTTT-ATAAAAACGCCGCTAT
235455 T
1 T
235456 GCTTATCTTT
Statistics
Matches: 186, Mismatches: 11, Indels: 21
0.85 0.05 0.10
Matches are distributed among these distances:
99 1 0.01
100 21 0.11
101 26 0.14
102 46 0.25
103 54 0.29
104 6 0.03
105 32 0.17
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.49
Consensus pattern (102 bp):
TTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAAATTTTTTTTTATTTTTTATAAATTGAT
TTATTTTTTGCGGCGTTTTTTATAAAAACGCCGCTAT
Done.