Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 173 of 175
Found at i:52181607 original size:18 final size:18
Alignment explanation
Indices: 52181584--52181619 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
52181574 AATCGGATAC
52181584 ATGCACGATTGAAACAAT
1 ATGCACGATTGAAACAAT
*
52181602 ATGCACGATTGGAACAAT
1 ATGCACGATTGAAACAAT
52181620 GCAGCGTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (18 bp):
ATGCACGATTGAAACAAT
Found at i:52184907 original size:110 final size:110
Alignment explanation
Indices: 52184717--52185022 Score: 501
Period size: 110 Copynumber: 2.8 Consensus size: 110
52184707 AAACTTGGCA
* * * ** *
52184717 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TCCCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAATG
52184779 CAAAATATTGCCTTATTTTGAAATTTTTATGAAGGATATTAAGCC
66 CAAAATATTGCCTTATTTTGAAATTTTTATGAAGGATATTAAGCC
*
52184824 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAATG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAATG
52184889 CAAAATATTGCCTTATTTTGAAATTTTTATGAAGGATATTAAGCC
66 CAAAATATTGCCTTATTTTGAAATTTTTATGAAGGATATTAAGCC
52184934 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAATG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAATG
* * *
52184999 CTAAATATTGCCTCAATTTGAAAT
66 CAAAATATTGCCTTATTTTGAAAT
52185023 ATTCTCTTTT
Statistics
Matches: 185, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
107 14 0.08
109 26 0.14
110 145 0.78
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (110 bp):
ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAATG
CAAAATATTGCCTTATTTTGAAATTTTTATGAAGGATATTAAGCC
Found at i:52185209 original size:12 final size:12
Alignment explanation
Indices: 52185192--52185225 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
52185182 GAATGGACAT
**
52185192 ATAAATAATTAA
1 ATAAATAAAAAA
52185204 ATAAATAAAAAA
1 ATAAATAAAAAA
52185216 ATAAATAAAA
1 ATAAATAAAA
52185226 TAGATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAAATAAAAAA
Found at i:52185540 original size:17 final size:17
Alignment explanation
Indices: 52185518--52185550 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
52185508 GAGTTTATAC
52185518 ATATAATGAT-TTAAAAT
1 ATATAAT-ATATTAAAAT
52185535 ATATAATATATTAAAA
1 ATATAATATATTAAAA
52185551 GAATTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
ATATAATATATTAAAAT
Found at i:52187950 original size:47 final size:47
Alignment explanation
Indices: 52187899--52188121 Score: 331
Period size: 47 Copynumber: 4.7 Consensus size: 47
52187889 TTAGGATTCT
* * *
52187899 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
52187946 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
52187993 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
52188040 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
52188087 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
52188122 TCCCGAAGGG
Statistics
Matches: 162, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.01
47 161 0.99
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:52187974 original size:25 final size:25
Alignment explanation
Indices: 52187946--52188024 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
52187936 CTAATGGCCG
52187946 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
52187971 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
52187993 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
52188018 ATGTGAT
1 ATGTGAT
52188025 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:52188296 original size:37 final size:37
Alignment explanation
Indices: 52188240--52188318 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
52188230 CCGAGCTCTA
* * *
52188240 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
52188277 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
52188314 AAGAC
1 AAGAC
52188319 TTCATAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:52190484 original size:40 final size:40
Alignment explanation
Indices: 52190174--52190555 Score: 339
Period size: 40 Copynumber: 9.6 Consensus size: 40
52190164 TCGAATGATG
* **
52190174 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TGTA
* * * * *
52190214 TCCGGACTAAGAT-CCGAAG-GCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TGTA
* * * **
52190253 TTCCGGGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TGTA
* * * * * * *
52190293 TCTGGGTTAAGTCCCGAAG-GCATTTGTACGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TGTA
* *
52190333 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
52190373 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
52190413 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
52190453 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* ** * * * *
52190493 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
52190533 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
52190556 ATCATGCTGG
Statistics
Matches: 294, Mismatches: 41, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
39 33 0.11
40 242 0.82
41 19 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:52193499 original size:47 final size:47
Alignment explanation
Indices: 52193448--52193717 Score: 416
Period size: 47 Copynumber: 5.7 Consensus size: 47
52193438 TTAGGATTCT
* * *
52193448 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
52193495 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
52193542 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
52193589 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
52193636 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
52193683 ACGTGATGGATTTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
52193718 TCCCGAAGGG
Statistics
Matches: 208, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 207 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:52193892 original size:37 final size:37
Alignment explanation
Indices: 52193836--52193914 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
52193826 CCGAGCTCTA
* * *
52193836 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
52193873 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
52193910 AAGAC
1 AAGAC
52193915 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:52196877 original size:44 final size:44
Alignment explanation
Indices: 52196813--52197164 Score: 219
Period size: 44 Copynumber: 8.0 Consensus size: 44
52196803 AGGATAGTGT
* * *
52196813 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTAG
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTAG
* * ** *
52196857 CTTCAATTTGTTCCACTGTAACCTCAGGGAGATAAGATCTGAAATC
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT-CTA-G
** * ** * *
52196903 CTTCGGTCTGCTCCATTGTAATATCAGGGAGATAAGATTTCTGG
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTAG
* * ** *
52196947 CTTCAATCTGCTCCGCTGTAACCTCAGAGAGATAAGATCTGAAATT
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT-CTA-G
*** * * *
52196993 CTTTGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CTTGTAT
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATC-TCTAG
* * * * * * * *
52197037 ATTCAACCTACCCCACTGTAACTTCAGGGAGATAA-AGTTTGTGG
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGA-TCTCTAG
* * * *
52197081 CTCCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGA-CT-T-G
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTAG
* * * * * *
52197122 ATGCGATCTGCTCCACCGTAATCTCAGAGAGATAAGATCTCTA
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTA
52197165 ATATTCACCG
Statistics
Matches: 232, Mismatches: 65, Indels: 22
0.73 0.20 0.07
Matches are distributed among these distances:
41 33 0.14
42 3 0.01
43 3 0.01
44 125 0.54
45 4 0.02
46 64 0.28
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTAG
Found at i:52196966 original size:90 final size:90
Alignment explanation
Indices: 52196813--52197161 Score: 327
Period size: 90 Copynumber: 3.9 Consensus size: 90
52196803 AGGATAGTGT
* * * *
52196813 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTAGCTTCAATTTGTTCCACTGTAA
1 CTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTAGCTTCAATCTGCTCCACTGTAA
*
52196878 CCTCAGGGAGATAAGATCTGAAATC
66 CCTCAGAGAGATAAGATCTGAAATC
* * * * *
52196903 CTTCGGTCTGCTCCATTGTAATATCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCGCTGTAA
1 CTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTAGCTTCAATCTGCTCCACTGTAA
*
52196968 CCTCAGAGAGATAAGATCTGAAATT
66 CCTCAGAGAGATAAGATCTGAAATC
* * * * ** * * *
52196993 CTTTGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CTTGTATATTCAACCTACCCCACTGTA
1 CTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGATC-TCTAGCTTCAATCTGCTCCACTGTA
* * * *
52197057 ACTTCAGGGAGATAA-AGTTTG---TGG
65 ACCTCAGAGAGATAAGA-TCTGAAAT-C
* * * * * * *
52197081 CTCCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGA-CT-T-GATGCGATCTGCTCCACCGTAA
1 CTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTAGCTTCAATCTGCTCCACTGTAA
*
52197143 TCTCAGAGAGATAAGATCT
66 CCTCAGAGAGATAAGATCT
52197162 CTAATATTCA
Statistics
Matches: 209, Mismatches: 46, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
85 28 0.13
86 2 0.01
87 2 0.01
88 32 0.15
89 1 0.00
90 144 0.69
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (90 bp):
CTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTAGCTTCAATCTGCTCCACTGTAA
CCTCAGAGAGATAAGATCTGAAATC
Found at i:52209558 original size:17 final size:17
Alignment explanation
Indices: 52209536--52209568 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
52209526 GAGTTTATAC
52209536 ATATAATGAT-TTAAAAT
1 ATATAAT-ATATTAAAAT
52209553 ATATAATATATTAAAA
1 ATATAATATATTAAAA
52209569 GAATTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
ATATAATATATTAAAAT
Found at i:52215782 original size:24 final size:24
Alignment explanation
Indices: 52215712--52215819 Score: 135
Period size: 24 Copynumber: 4.3 Consensus size: 24
52215702 TTCTCAAACG
* *
52215712 TTATATATTATTACTTTTTAAAAATTA
1 TTATGTATTATTA--TTTT-AAATTTA
* * *
52215739 TAATGTATTTTTTATTTTAAGTTTA
1 TTATGTA-TTATTATTTTAAATTTA
52215764 TTATGTATTATTATTTTAAATTTA
1 TTATGTATTATTATTTTAAATTTA
52215788 TTATGTATTATTATTTTAAATTTA
1 TTATGTATTATTATTTTAAATTTA
52215812 TTATGTAT
1 TTATGTAT
52215820 CACTACTTAA
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
24 47 0.65
25 11 0.15
26 4 0.06
27 5 0.07
28 5 0.07
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (24 bp):
TTATGTATTATTATTTTAAATTTA
Found at i:52222530 original size:46 final size:47
Alignment explanation
Indices: 52222443--52222534 Score: 141
Period size: 47 Copynumber: 2.0 Consensus size: 47
52222433 AGTCCCTGTA
* ** *
52222443 CATTAGTTTTCGGATTTTTTAAATATATTTGGTTCTGCTTTTATTTC
1 CATTAGTTTTCGGATTTTTAAAATATATTTGCCTCTACTTTTATTTC
52222490 CATTAGTTTTCGGATTTTTAAAATATATTT-CCTCTACTTTTATTT
1 CATTAGTTTTCGGATTTTTAAAATATATTTGCCTCTACTTTTATTT
52222535 TACAGTAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 12 0.29
47 29 0.71
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.57
Consensus pattern (47 bp):
CATTAGTTTTCGGATTTTTAAAATATATTTGCCTCTACTTTTATTTC
Found at i:52227174 original size:31 final size:31
Alignment explanation
Indices: 52227139--52227205 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
52227129 TTAGTATACG
52227139 TACTTTCCGTGCATAAGATTTTGTTAACATA
1 TACTTTCCGTGCATAAGATTTTGTTAACATA
52227170 TACTTTCCGTGCATAAGATTTTGTTAACATA
1 TACTTTCCGTGCATAAGATTTTGTTAACATA
52227201 TACTT
1 TACTT
52227206 CTTCTACTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.43
Consensus pattern (31 bp):
TACTTTCCGTGCATAAGATTTTGTTAACATA
Found at i:52227472 original size:115 final size:116
Alignment explanation
Indices: 52227247--52227482 Score: 305
Period size: 115 Copynumber: 2.0 Consensus size: 116
52227237 ATAGAGTTGT
* *
52227247 AAATGAATAGAAAATTTGATTAATTCTTCATTAACATTTAGATGTTTGTTCATTTATCAAGTTGA
1 AAATGAATAGAAAATTTGATTAATACTTCATCAACATTTAGATGTTTG-T--TTTATCAAGTTGA
** * * *
52227312 ATAAACGGATTTGAATAATATTTTAAGACTCATTTATTAATCGAATCGAACATG
63 ATAAACAAATTTGAACAAAATTTTAAGACTCATTTATTAAACGAATCGAACATG
* * * *
52227366 AAATGAATAGAAAATTTGATTTATAGTTCATCAACATTTAGGTGTTTG-TTTATCAAGTTGCATA
1 AAATGAATAGAAAATTTGATTAATACTTCATCAACATTTAGATGTTTGTTTTATCAAGTTGAATA
* *
52227430 AACAAATTTGAACAAAATTTTACAG-TTCATTTATTAAACGAATCTAACATG
66 AACAAATTTGAACAAAATTTTA-AGACTCATTTATTAAACGAATCGAACATG
52227481 AA
1 AA
52227483 CAAAGCTTGT
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
115 58 0.56
116 2 0.02
119 43 0.42
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (116 bp):
AAATGAATAGAAAATTTGATTAATACTTCATCAACATTTAGATGTTTGTTTTATCAAGTTGAATA
AACAAATTTGAACAAAATTTTAAGACTCATTTATTAAACGAATCGAACATG
Found at i:52231115 original size:21 final size:21
Alignment explanation
Indices: 52231091--52231134 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
52231081 TGCGACAAAA
* *
52231091 AAAAACTCAAGTATCAAATTG
1 AAAAACTCAAATAACAAATTG
*
52231112 AAAAGCTCAAATAACAAATTG
1 AAAAACTCAAATAACAAATTG
52231133 AA
1 AA
52231135 CATTTTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.57, C:0.14, G:0.09, T:0.20
Consensus pattern (21 bp):
AAAAACTCAAATAACAAATTG
Found at i:52231826 original size:26 final size:26
Alignment explanation
Indices: 52231797--52231847 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
52231787 AATAATGAAT
52231797 TTTTAGAT-ATTTTTAA-AGTTTTTTTA
1 TTTT-GATGATTTTTAATA-TTTTTTTA
*
52231823 TTTTTATGATTTTTAATATTTTTTT
1 TTTTGATGATTTTTAATATTTTTTT
52231848 CTAGGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 2 0.09
26 19 0.86
27 1 0.05
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (26 bp):
TTTTGATGATTTTTAATATTTTTTTA
Found at i:52239389 original size:26 final size:27
Alignment explanation
Indices: 52239352--52239408 Score: 107
Period size: 26 Copynumber: 2.1 Consensus size: 27
52239342 TAGAAGAGGG
52239352 AAACATAATTATTTCCTTTCAGCTTCA
1 AAACATAATTATTTCCTTTCAGCTTCA
52239379 AAAC-TAATTATTTCCTTTCAGCTTCA
1 AAACATAATTATTTCCTTTCAGCTTCA
52239405 AAAC
1 AAAC
52239409 CCTAAATGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 26 0.87
27 4 0.13
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.39
Consensus pattern (27 bp):
AAACATAATTATTTCCTTTCAGCTTCA
Found at i:52266716 original size:156 final size:156
Alignment explanation
Indices: 52266432--52266725 Score: 498
Period size: 156 Copynumber: 1.9 Consensus size: 156
52266422 AAAAAATAAA
*
52266432 AAGAAATTAATGCATATTAGTCTAAGACACCCTCTATACTCAATGGTCACTTAAAACCAATACTA
1 AAGAAATTAATGCATACTAGTCTAAGACACCCTCTATACTCAATGGTCACTTAAAACCAATACTA
* * *
52266497 TATCATTAAAATTTGACTAACACTTCCATCCACATTCAAAAATTAAGCAAGTAACACTATACCAA
66 TATCATTAAAATTTAACCAACACTTCCATCCACATTCAAAAATTAAGCAAGCAACACTATACCAA
52266562 TCAAAAAAATGACATTTGATTCAAAC
131 TCAAAAAAATGACATTTGATTCAAAC
* * *
52266588 AAGAAATTAATGCATACTAGTCTAAGACACCTTCTATACTTAATGGTCACTTACAACCAATACTA
1 AAGAAATTAATGCATACTAGTCTAAGACACCCTCTATACTCAATGGTCACTTAAAACCAATACTA
* * *
52266653 TATGATTAAAATTTAACCAACACTTTCATCCAGATTCAAAAATTAAGCAAGCAACACTATACCAA
66 TATCATTAAAATTTAACCAACACTTCCATCCACATTCAAAAATTAAGCAAGCAACACTATACCAA
52266718 TCAAAAAA
131 TCAAAAAA
52266726 GAAATTACAT
Statistics
Matches: 128, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
156 128 1.00
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.27
Consensus pattern (156 bp):
AAGAAATTAATGCATACTAGTCTAAGACACCCTCTATACTCAATGGTCACTTAAAACCAATACTA
TATCATTAAAATTTAACCAACACTTCCATCCACATTCAAAAATTAAGCAAGCAACACTATACCAA
TCAAAAAAATGACATTTGATTCAAAC
Found at i:52269280 original size:22 final size:24
Alignment explanation
Indices: 52269255--52269313 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 24
52269245 TCACGTCAAT
*
52269255 AAATAATATAAAAATTA-TA-AAA
1 AAATAATATAAAAATAATTATAAA
*
52269277 AAATAATTTAAAAATAATTATAAA
1 AAATAATATAAAAATAATTATAAA
*
52269301 AAATCATA-AAAAA
1 AAATAATATAAAAA
52269314 CAACAATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 15 0.48
23 7 0.23
24 9 0.29
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (24 bp):
AAATAATATAAAAATAATTATAAA
Found at i:52269289 original size:10 final size:12
Alignment explanation
Indices: 52269255--52269302 Score: 57
Period size: 11 Copynumber: 4.2 Consensus size: 12
52269245 TCACGTCAAT
52269255 AAATAA-TATAA
1 AAATAATTATAA
* *
52269266 AAATTA-TAAAA
1 AAATAATTATAA
52269277 AAATAATT-TAA
1 AAATAATTATAA
52269288 AAATAATTATAA
1 AAATAATTATAA
52269300 AAA
1 AAA
52269303 ATCATAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
11 24 0.77
12 7 0.23
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAATAATTATAA
Found at i:52271570 original size:3 final size:3
Alignment explanation
Indices: 52271564--52271589 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
52271554 AATCAAACAT
52271564 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
52271590 CATGTTCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:52278039 original size:72 final size:72
Alignment explanation
Indices: 52277922--52278121 Score: 346
Period size: 72 Copynumber: 2.8 Consensus size: 72
52277912 CCTAAGAATT
* *
52277922 AACGGTTGAGATTGCAACAAGGATATTTGACTTTTGTGATCTGAAAATTAACATGACCAATGGTC
1 AACGGTTGAGATTGCAACAAGGATATTTGCCTTTTATGATCTGAAAATTAACATGACCAATGGTC
52277987 AAATATA
66 AAATATA
* *
52277994 AACGGTTGAGATTGCATCAAGGATATTTGCCTTTTATGATCTGAAAATTAACATAACCAATGGTC
1 AACGGTTGAGATTGCAACAAGGATATTTGCCTTTTATGATCTGAAAATTAACATGACCAATGGTC
52278059 AAATATA
66 AAATATA
* *
52278066 AACGATTGAGATTGCAACAAGGATATTTTCCTTTTATGATCTGAAAATTAACATGA
1 AACGGTTGAGATTGCAACAAGGATATTTGCCTTTTATGATCTGAAAATTAACATGA
52278122 TCGGTAGTAA
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 120 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (72 bp):
AACGGTTGAGATTGCAACAAGGATATTTGCCTTTTATGATCTGAAAATTAACATGACCAATGGTC
AAATATA
Found at i:52278306 original size:29 final size:29
Alignment explanation
Indices: 52278223--52278311 Score: 72
Period size: 29 Copynumber: 3.1 Consensus size: 29
52278213 TTTGTTATTT
* *
52278223 AATTATAAAAAGTTATAAAATGGTCATTC
1 AATTATAAAAAATTATAAAATGGTCAATC
* * **** *
52278252 AATTATTCATAAATT-TTTTTTAGTCAATC
1 AATTA-TAAAAAATTATAAAATGGTCAATC
*
52278281 AATTATAAAAAATTATAAAATGGTCACTC
1 AATTATAAAAAATTATAAAATGGTCAATC
52278310 AA
1 AA
52278312 CTATTTAGTT
Statistics
Matches: 41, Mismatches: 17, Indels: 4
0.66 0.27 0.06
Matches are distributed among these distances:
28 7 0.17
29 28 0.68
30 6 0.15
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (29 bp):
AATTATAAAAAATTATAAAATGGTCAATC
Found at i:52280580 original size:17 final size:16
Alignment explanation
Indices: 52280557--52280603 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
52280547 ATATTACTTA
52280557 AAATTAATTTTTAGAT
1 AAATTAATTTTTAGAT
52280573 ATAATTAAATTTTT-GAT
1 A-AATT-AATTTTTAGAT
*
52280590 AAATATATTTTTTA
1 AAAT-TAATTTTTA
52280604 AAATTATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 10 0.38
17 9 0.35
18 7 0.27
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (16 bp):
AAATTAATTTTTAGAT
Found at i:52280611 original size:15 final size:16
Alignment explanation
Indices: 52280557--52280611 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 16
52280547 ATATTACTTA
52280557 AAATTA-ATTTTTAGAT
1 AAATTATATTTTT-GAT
*
52280573 ATAATTAAATTTTTGAT
1 A-AATTATATTTTTGAT
*
52280590 AAA-TATATTTTTTA-
1 AAATTATATTTTTGAT
52280604 AAATTATA
1 AAATTATA
52280612 AAATATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 3 0.09
15 13 0.38
16 3 0.09
17 9 0.26
18 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (16 bp):
AAATTATATTTTTGAT
Found at i:52281252 original size:24 final size:25
Alignment explanation
Indices: 52281225--52281271 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
52281215 TTCAAAAATT
52281225 AAAAAA-TAATTA-TTAAATTATTTG
1 AAAAAACT-ATTACTTAAATTATTTG
*
52281249 AAAAAACTTTTACTTAAATTATT
1 AAAAAACTATTACTTAAATTATT
52281272 CAACTGTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (25 bp):
AAAAAACTATTACTTAAATTATTTG
Found at i:52282650 original size:44 final size:44
Alignment explanation
Indices: 52282587--52282675 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
52282577 CATATAATCT
* * *
52282587 ACTCAAGTTTGAGTCTTTAGAGGTTTAATGGTCAAGGGATGTTC
1 ACTCAAATTTGAGTCTTTAGAAGTTTAATGGTCAAGAGATGTTC
*
52282631 ACTCAAATTTGAG-CATTTAGAAGTTTAGTGGTCAAGAGATGTTC
1 ACTCAAATTTGAGTC-TTTAGAAGTTTAATGGTCAAGAGATGTTC
52282675 A
1 A
52282676 ACTATCAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 1 0.03
44 39 0.98
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (44 bp):
ACTCAAATTTGAGTCTTTAGAAGTTTAATGGTCAAGAGATGTTC
Found at i:52290262 original size:16 final size:16
Alignment explanation
Indices: 52290243--52290292 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
52290233 GTGTTGATAT
*
52290243 ATAATTTAAATTTAAA
1 ATAATTTAAATTCAAA
* *
52290259 ATAATCTAAACTCAAA
1 ATAATTTAAATTCAAA
*
52290275 ATAATTAAAATTCGAAA
1 ATAATTTAAATTC-AAA
52290292 A
1 A
52290293 GATATATATG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 23 0.85
17 4 0.15
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (16 bp):
ATAATTTAAATTCAAA
Found at i:52291963 original size:23 final size:23
Alignment explanation
Indices: 52291909--52291964 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
52291899 GTGCGAGATC
*
52291909 GTGATGTGGGGACTTTTAACGTT
1 GTGATGTCGGGACTTTTAACGTT
* * * *
52291932 GCGACGTCGGGACTTTTGATGTT
1 GTGATGTCGGGACTTTTAACGTT
52291955 GTGATGTCGG
1 GTGATGTCGG
52291965 ATGGAGAGGT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.14, C:0.12, G:0.38, T:0.36
Consensus pattern (23 bp):
GTGATGTCGGGACTTTTAACGTT
Found at i:52316122 original size:23 final size:23
Alignment explanation
Indices: 52316096--52316139 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
52316086 ATATAACCTC
52316096 TTAAAAAATAATAAAATTATAAA
1 TTAAAAAATAATAAAATTATAAA
* *
52316119 TTAACACATAATAAAATTATA
1 TTAAAAAATAATAAAATTATA
52316140 TTTTAGTCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (23 bp):
TTAAAAAATAATAAAATTATAAA
Found at i:52320595 original size:157 final size:155
Alignment explanation
Indices: 52320302--52320598 Score: 425
Period size: 157 Copynumber: 1.9 Consensus size: 155
52320292 CTGTATTAAA
* * * * * * *
52320302 AGTTAACTTGTATTTTGTCTCCTTTATTAAAAAATAGATAAATTAGTCTTTATGTGTTAGATCAA
1 AGTTAAATAGTATTTTGCCTCCTTTATTAAAAAATAGACAAATTAATCCTTATATGTTAGATCAA
* * *
52320367 AGAGAAAATCAATCCTTTTTGTTAAAAAATTTATTCATTTATATTGTTAAAGACTATTGTGACTG
66 AGAGAAAATCAATCCTTTTTGTTAAAAAATTTATTCATTTACATTGTTAAAAACTATTGT-ACTA
*
52320432 ATAGAATAACTGGACAGTGCCACATG
130 ACAGAATAACTGGACAGTGCCACATG
* *
52320458 AGTTAAATAGTATTTTGCCTCCTTTATTAAAAAAATGGGCAAATTAATCCTTATATGTTAGATCA
1 AGTTAAATAGTATTTTGCCTCCTTTATT-AAAAAATAGACAAATTAATCCTTATATGTTAGATCA
*
52320523 AAGAGAAAATCAATCCTTTTTGTTAAAAATTTTATTCATTTACATTGTTAAAAACTAGTTAGT-C
65 AAGAGAAAATCAATCCTTTTTGTTAAAAAATTTATTCATTTACATTGTTAAAAACTA-TT-GTAC
52320587 TAACAGAATAAC
128 TAACAGAATAAC
52320599 CAAAAAGTGA
Statistics
Matches: 124, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
156 25 0.20
157 95 0.77
158 2 0.02
159 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (155 bp):
AGTTAAATAGTATTTTGCCTCCTTTATTAAAAAATAGACAAATTAATCCTTATATGTTAGATCAA
AGAGAAAATCAATCCTTTTTGTTAAAAAATTTATTCATTTACATTGTTAAAAACTATTGTACTAA
CAGAATAACTGGACAGTGCCACATG
Found at i:52323694 original size:57 final size:57
Alignment explanation
Indices: 52323592--52323704 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 57
52323582 TCAGATCAAA
* * * *
52323592 ATTTCATTTATTTGTACTATTAAAAACTGATGTGGATTACGGAATAACCAAACAATG
1 ATTTCATCTATTTGTACTATTAAAAACTGATATGAATTACAGAATAACCAAACAATG
* * *
52323649 ATTTCATCTATTTGTACTATTAAAAACTGGTATGAATTATAGAATAATCAAACAAT
1 ATTTCATCTATTTGTACTATTAAAAACTGATATGAATTACAGAATAACCAAACAAT
52323705 AACACGTGAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (57 bp):
ATTTCATCTATTTGTACTATTAAAAACTGATATGAATTACAGAATAACCAAACAATG
Found at i:52335686 original size:27 final size:27
Alignment explanation
Indices: 52335645--52335720 Score: 134
Period size: 27 Copynumber: 2.8 Consensus size: 27
52335635 AACATGTCAT
*
52335645 TAATTTTACTCAAGCCCGTTTTTCAAA
1 TAATTTTACTCAAGCCCATTTTTCAAA
*
52335672 TAATTTTACTTAAGCCCATTTTTCAAA
1 TAATTTTACTCAAGCCCATTTTTCAAA
52335699 TAATTTTACTCAAGCCCATTTT
1 TAATTTTACTCAAGCCCATTTT
52335721 ATACTTAGGG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.43
Consensus pattern (27 bp):
TAATTTTACTCAAGCCCATTTTTCAAA
Found at i:52337201 original size:43 final size:43
Alignment explanation
Indices: 52337129--52337240 Score: 131
Period size: 43 Copynumber: 2.6 Consensus size: 43
52337119 TGTTTTCGTA
* * *
52337129 TAAGACCACGTCTGGGAC-GTTGGCCTCGAATTGT-ATATACATG
1 TAAGACCACGTATGGGACAG-TGGCATCGAAATGTGAT-TACATG
52337172 TAAGACC-CTGTATGGGACAGTGGCATCGAAATGTGATTACATG
1 TAAGACCAC-GTATGGGACAGTGGCATCGAAATGTGATTACATG
* *
52337215 TAAGACCACGTCTGGGACATTGGCAT
1 TAAGACCACGTATGGGACAGTGGCAT
52337241 TGTACGAGTT
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
42 1 0.02
43 55 0.92
44 4 0.07
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (43 bp):
TAAGACCACGTATGGGACAGTGGCATCGAAATGTGATTACATG
Found at i:52339797 original size:42 final size:42
Alignment explanation
Indices: 52339751--52339863 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 42
52339741 GAGCTGAATG
* * * *
52339751 GAAACCTATAATGGTTAATTTGAAGCTTAGAAGAGCTAAACT
1 GAAACCCATAAGGGTTAATCTGAAGCTTAAAAGAGCTAAACT
* * * * *
52339793 GAAACCCATTAGGGTTAAACTGAAGCTCAAAATAGCTGAACT
1 GAAACCCATAAGGGTTAATCTGAAGCTTAAAAGAGCTAAACT
* *
52339835 GAAACCCAGAAGGGTTAATCTGAAACTTA
1 GAAACCCATAAGGGTTAATCTGAAGCTTA
52339864 TATGAGTTAA
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAATCTGAAGCTTAAAAGAGCTAAACT
Found at i:52339830 original size:84 final size:84
Alignment explanation
Indices: 52339701--52339863 Score: 186
Period size: 84 Copynumber: 1.9 Consensus size: 84
52339691 GCACATAAGT
* * * * * * *
52339701 GCTAAACGAAAACCCGTAAGGGTTGAACGGAAGCTCATAGGAGCTGAA-TGGAAACCTATAATGG
1 GCTAAACGAAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACT-GAAACCCAGAAGGG
* *
52339765 TTAATTTGAAGCTTAGAAGA
65 TTAATCTGAAACTTAGAAGA
* * *
52339785 GCTAAACTG-AAACCCATTAGGGTTAAACTGAAGCTCAAAATAGCTGAACTGAAACCCAGAAGGG
1 GCTAAAC-GAAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACTGAAACCCAGAAGGG
52339849 TTAATCTGAAACTTA
65 TTAATCTGAAACTTA
52339864 TATGAGTTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
84 63 0.97
85 2 0.03
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (84 bp):
GCTAAACGAAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAACTGAAACCCAGAAGGGT
TAATCTGAAACTTAGAAGA
Found at i:52346695 original size:17 final size:18
Alignment explanation
Indices: 52346673--52346710 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
52346663 ATTATTATTT
*
52346673 TAAAATTT-ACTATTAAA
1 TAAAATTTAAATATTAAA
52346690 TAAAATTTAAATATTAAA
1 TAAAATTTAAATATTAAA
52346708 TAA
1 TAA
52346711 TTTATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAAATATTAAA
Found at i:52356457 original size:31 final size:29
Alignment explanation
Indices: 52356419--52356491 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 29
52356409 ATATTTTAAA
52356419 ATGTATATAATTAAATCAAAATCAAGGTTTT
1 ATGTATATAATTAAAT-AAAATCAA-GTTTT
* * *
52356450 ATGTATATATATGAACTAAATTCAAGTTTT
1 ATGTATATA-ATTAAATAAAATCAAGTTTT
52356480 ATGTATATAATT
1 ATGTATATAATT
52356492 GCATTAAATC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 2 0.05
30 14 0.38
31 16 0.43
32 5 0.14
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (29 bp):
ATGTATATAATTAAATAAAATCAAGTTTT
Found at i:52356500 original size:30 final size:31
Alignment explanation
Indices: 52356419--52356500 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
52356409 ATATTTTAAA
* * *
52356419 ATGTATATAATTAAATCAAAATCAAGGTTTT
1 ATGTATATAATTGAATTAAATTCAAGGTTTT
*
52356450 ATGTATAT-ATATGAACTAAATTCAA-GTTTT
1 ATGTATATAAT-TGAATTAAATTCAAGGTTTT
*
52356480 ATGTATATAATTGCATTAAAT
1 ATGTATATAATTGAATTAAAT
52356501 CAAAATTCAT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
30 23 0.53
31 20 0.47
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (31 bp):
ATGTATATAATTGAATTAAATTCAAGGTTTT
Found at i:52356615 original size:8 final size:8
Alignment explanation
Indices: 52356602--52356635 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
52356592 AATATCAAAT
52356602 AATAATAA
1 AATAATAA
52356610 AATAAT-A
1 AATAATAA
*
52356617 AATAATGA
1 AATAATAA
52356625 AATAATAA
1 AATAATAA
52356633 AAT
1 AAT
52356636 CCTTAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (8 bp):
AATAATAA
Found at i:52356622 original size:15 final size:15
Alignment explanation
Indices: 52356602--52356633 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
52356592 AATATCAAAT
52356602 AATAATAAAATAATA
1 AATAATAAAATAATA
*
52356617 AATAATGAAATAATA
1 AATAATAAAATAATA
52356632 AA
1 AA
52356634 ATCCTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (15 bp):
AATAATAAAATAATA
Found at i:52358264 original size:220 final size:220
Alignment explanation
Indices: 52357872--52358285 Score: 519
Period size: 220 Copynumber: 1.9 Consensus size: 220
52357862 GCAGCTGGCC
* * *
52357872 GGATCTTCAACAATGGCAGGTATTGTCTCTGGGTCGTCTTTGCTGAGAGCTGTGTATGGTTCATG
1 GGATCCTCAACAATGGCAGGTATAGTCTCTGGGTCGTCTTTGCCGAGAGCTGTGTATGGTTCATG
* * * * ** * * * *
52357937 GATGGAGAGTGCCTCTAGGAAACGGGTTATACGCGGGCACACGACTGCTCATCATGGGGACGTGA
66 GAGGGAGAATGCCTCGAGGAAACGGGTCATACGCGGGCACACGACCACCCACCAAGGGGACGTAA
**
52358002 ACCATACACGCCTCTTGGTAGAGGCGGGAGACAAAATCTTGGCACAACCC-GAGAACAATACCTA
131 ACCATACACGCCTCTCAGTAGAGGCGGGAGACAAAATCTTGGCACAACCCAG-GAACAATACCTA
52358066 CCATAATCTTTGGGTTACAGCCGGTT
195 CCATAATCTTTGGGTTACAGCCGGTT
* * * * *
52358092 GGATCCTCATCAATGGCAGGTATAGTCTTTGGGTTGTCTTTGCCGAGAGTTGTGTATTGTTCATG
1 GGATCCTCAACAATGGCAGGTATAGTCTCTGGGTCGTCTTTGCCGAGAGCTGTGTATGGTTCATG
* * * * *
52358157 GAGGGGGAATGCCTCGAGGCAACGTGTCATGC-CTGGGCACAC-AGCCACCCACCAAGGGGATGT
66 GAGGGAGAATGCCTCGAGGAAACGGGTCATACGC-GGGCACACGA-CCACCCACCAAGGGGACGT
** * *
52358220 AAACTGTACACGGCTCTCAGTAGAGGCGGGAGACAAAATCTTGGCACAACTCAGGAACAATACCT
129 AAACCATACACGCCTCTCAGTAGAGGCGGGAGACAAAATCTTGGCACAACCCAGGAACAATACCT
52358285 A
194 A
52358286 TCATTGTTGG
Statistics
Matches: 162, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
219 2 0.01
220 159 0.98
221 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (220 bp):
GGATCCTCAACAATGGCAGGTATAGTCTCTGGGTCGTCTTTGCCGAGAGCTGTGTATGGTTCATG
GAGGGAGAATGCCTCGAGGAAACGGGTCATACGCGGGCACACGACCACCCACCAAGGGGACGTAA
ACCATACACGCCTCTCAGTAGAGGCGGGAGACAAAATCTTGGCACAACCCAGGAACAATACCTAC
CATAATCTTTGGGTTACAGCCGGTT
Found at i:52367619 original size:31 final size:32
Alignment explanation
Indices: 52367581--52367640 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
52367571 AGAAGGATTA
52367581 ATTTATTT-TTTTGTCT-AATAT-ATATAAATTT
1 ATTTATTTATTTT-T-TAAATATAATATAAATTT
52367612 ATTTATTTATTTTTTAAATATAATATAAA
1 ATTTATTTATTTTTTAAATATAATATAAA
52367641 ATACAAGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 1 0.04
31 14 0.54
32 11 0.42
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (32 bp):
ATTTATTTATTTTTTAAATATAATATAAATTT
Found at i:52377004 original size:27 final size:27
Alignment explanation
Indices: 52376965--52377028 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
52376955 TATAAAAAAA
* **
52376965 ACCAAAATGTTATCCCTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
*
52376992 ACCAAAATATTATAATTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
*
52377019 ATCAAAATAT
1 ACCAAAATAT
52377029 ATTAAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (27 bp):
ACCAAAATATTATAACTTTTTTTATTT
Found at i:52377057 original size:14 final size:15
Alignment explanation
Indices: 52377034--52377063 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
52377024 AATATATTAA
52377034 AAAAACAAAAACCTG
1 AAAAACAAAAACCTG
52377049 AAAAA-AAAAACCTG
1 AAAAACAAAAACCTG
52377063 A
1 A
52377064 CAACAGCCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.70, C:0.17, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAACAAAAACCTG
Found at i:52377166 original size:27 final size:27
Alignment explanation
Indices: 52377095--52377169 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
52377085 CACATTGGCG
* *
52377095 GCACCAAAGGTGCCAAAATGATTGGCA
1 GCACCAAAGGTGCCAAAGTGATTGCCA
*
52377122 GCACCAAAGGTGCCAAAGTGATTGTCCT
1 GCACCAAAGGTGCCAAAGTGATTG-CCA
52377150 G-ACCAAAGGTGCCAAAGTGA
1 GCACCAAAGGTGCCAAAGTGA
52377170 ATGGTCTGAC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 42 0.95
28 2 0.05
ACGTcount: A:0.35, C:0.23, G:0.27, T:0.16
Consensus pattern (27 bp):
GCACCAAAGGTGCCAAAGTGATTGCCA
Found at i:52377178 original size:27 final size:27
Alignment explanation
Indices: 52377097--52377180 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
52377087 CATTGGCGGC
* * *
52377097 ACCAAAGGTGCCAAAATGATTGG-CAG
1 ACCAAAGGTGCCAAAGTGAATGGTCTG
*
52377123 CACCAAAGGTGCCAAAGTG-ATTGTCCTG
1 -ACCAAAGGTGCCAAAGTGAATGGT-CTG
52377151 ACCAAAGGTGCCAAAGTGAATGGTCTG
1 ACCAAAGGTGCCAAAGTGAATGGTCTG
52377178 ACC
1 ACC
52377181 GGACTAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
26 2 0.04
27 41 0.84
28 6 0.12
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (27 bp):
ACCAAAGGTGCCAAAGTGAATGGTCTG
Found at i:52377869 original size:19 final size:19
Alignment explanation
Indices: 52377845--52377907 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
52377835 TCTAATTAAG
52377845 TAATAACTCTATTTTACTT
1 TAATAACTCTATTTTACTT
* * ** ***
52377864 TAATAAGTTTATTAAAAAG
1 TAATAACTCTATTTTACTT
52377883 TAATAACTCTATTTTACTT
1 TAATAACTCTATTTTACTT
52377902 TAATAA
1 TAATAA
52377908 ACTATTGCTT
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (19 bp):
TAATAACTCTATTTTACTT
Found at i:52378519 original size:26 final size:26
Alignment explanation
Indices: 52378467--52378528 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
52378457 TTTTTTTGGT
***
52378467 ATATTTTGGTAAATAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAGGATA
52378493 ATATTTTGGTAAATAAAAAAAGGATA
1 ATATTTTGGTAAATAAAAAAAGGATA
*
52378519 ACATTTTGGT
1 ATATTTTGGT
52378529 TATTTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.47, C:0.02, G:0.13, T:0.39
Consensus pattern (26 bp):
ATATTTTGGTAAATAAAAAAAGGATA
Found at i:52385666 original size:15 final size:14
Alignment explanation
Indices: 52385641--52385709 Score: 50
Period size: 15 Copynumber: 4.6 Consensus size: 14
52385631 TTAATGTGAC
* *
52385641 TATATATAAAATTA
1 TATAAATAAAAATA
52385655 TAATAAATAAAAATA
1 T-ATAAATAAAAATA
*
52385670 TATAAAATTATTAAATA
1 TAT-AAA-TA-AAAATA
52385687 T-TAAATTAAAAATAA
1 TATAAA-TAAAAAT-A
52385702 TATAAATA
1 TATAAATA
52385710 TATATTTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
14 7 0.16
15 25 0.56
16 7 0.16
17 6 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TATAAATAAAAATA
Found at i:52385693 original size:40 final size:44
Alignment explanation
Indices: 52385644--52385728 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
52385634 ATGTGACTAT
*
52385644 ATATAAAATT-ATAATAA-ATAAA-A-ATATATAAAATTATTAA
1 ATATAAAATTAAAAATAATATAAATATATATATAAAATTATTAA
* * *
52385684 ATATTAAATTAAAAATAATATAAATATATATTTAAAATTTTTAA
1 ATATAAAATTAAAAATAATATAAATATATATATAAAATTATTAA
52385728 A
1 A
52385729 AAATAATATG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
40 9 0.24
41 6 0.16
42 5 0.14
43 1 0.03
44 16 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (44 bp):
ATATAAAATTAAAAATAATATAAATATATATATAAAATTATTAA
Found at i:52390722 original size:21 final size:21
Alignment explanation
Indices: 52390679--52390723 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
52390669 ATACAATATT
**
52390679 AATATTTTAAAGATTAATTAA
1 AATATTTTAAAGATTAAAAAA
* *
52390700 AATATTTTGAAGTTTAAAAAA
1 AATATTTTAAAGATTAAAAAA
52390721 AAT
1 AAT
52390724 TAAAATTTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (21 bp):
AATATTTTAAAGATTAAAAAA
Found at i:52398978 original size:32 final size:32
Alignment explanation
Indices: 52398924--52398986 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
52398914 ACTTGTTCGA
* ** * *
52398924 GTCATTTCGAGTTTGAATCATTTTGGGTTTAT
1 GTCATTTCGAGATCAAAACATTTTGGATTTAT
52398956 GTCATTTCGAGATCAAAACATTTTGGATTTA
1 GTCATTTCGAGATCAAAACATTTTGGATTTA
52398987 GGTAATCTAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.44
Consensus pattern (32 bp):
GTCATTTCGAGATCAAAACATTTTGGATTTAT
Found at i:52400421 original size:16 final size:16
Alignment explanation
Indices: 52400389--52400438 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
52400379 TAAATGACCT
*
52400389 AAACTTAAAATAATCC
1 AAACTTAAAACAATCC
52400405 AAA-TTAGAAACAATCC
1 AAACTTA-AAACAATCC
52400421 AAACTTAAAACAA-CC
1 AAACTTAAAACAATCC
52400436 AAA
1 AAA
52400439 AATTCGAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 8 0.26
16 20 0.65
17 3 0.10
ACGTcount: A:0.60, C:0.20, G:0.02, T:0.18
Consensus pattern (16 bp):
AAACTTAAAACAATCC
Found at i:52400929 original size:47 final size:47
Alignment explanation
Indices: 52400878--52400974 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
52400868 CCGTTTTGGG
*
52400878 TGTTTTAGACATTCCTTGTTTAGGGTTCTTTATGGAGAGATATTGTA
1 TGTTTTAGACACTCCTTGTTTAGGGTTCTTTATGGAGAGATATTGTA
52400925 TGTTTTAGACACTCCTTGTTTAGGGTTCTTTATGGAGAGATATTGTA
1 TGTTTTAGACACTCCTTGTTTAGGGTTCTTTATGGAGAGATATTGTA
52400972 TGT
1 TGT
52400975 AACATGAGGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.21, C:0.09, G:0.24, T:0.46
Consensus pattern (47 bp):
TGTTTTAGACACTCCTTGTTTAGGGTTCTTTATGGAGAGATATTGTA
Found at i:52409211 original size:16 final size:16
Alignment explanation
Indices: 52409163--52409215 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
52409153 GGGTTTTTCG
*
52409163 AGTTTG-ATCATTTTA
1 AGTTTGAATTATTTTA
52409178 TA-TTTGAAGTTAATTTTA
1 -AGTTTGAA-TT-ATTTTA
52409196 AGTTTGAATTATTTTA
1 AGTTTGAATTATTTTA
52409212 AGTT
1 AGTT
52409216 CGGGTAATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
15 4 0.12
16 12 0.38
17 4 0.12
18 12 0.38
ACGTcount: A:0.30, C:0.02, G:0.13, T:0.55
Consensus pattern (16 bp):
AGTTTGAATTATTTTA
Found at i:52413812 original size:18 final size:18
Alignment explanation
Indices: 52413778--52413815 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
52413768 TCAACAAACA
*
52413778 ATTTAATAATTATAAAAT
1 ATTTAATAATTAAAAAAT
52413796 ATTTAA-AATTTAAAAAAT
1 ATTTAATAA-TTAAAAAAT
52413814 AT
1 AT
52413816 AAAAAGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTAATAATTAAAAAAT
Found at i:52418693 original size:19 final size:19
Alignment explanation
Indices: 52418665--52418704 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
52418655 GCTATATTCG
*
52418665 ATTTAAATTTAAATTTAAT
1 ATTTAAATTTAAATTCAAT
* *
52418684 ATTTATATTTTAATTCAAT
1 ATTTAAATTTAAATTCAAT
52418703 AT
1 AT
52418705 AATTTATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTAAATTTAAATTCAAT
Found at i:52430621 original size:104 final size:104
Alignment explanation
Indices: 52430363--52430652 Score: 399
Period size: 104 Copynumber: 2.8 Consensus size: 104
52430353 GTGTCCAGGA
* * *
52430363 ACATAGGCGTGTGCCCAGGCCGTGTGAGCCACACAGGCAAGGACATGGGCGTGTGTCCAAGCCGT
1 ACATGGGCGTGTGCCCAGGCCGTGTGAGCCACACGGGCAAGGACATGGGCGTGTGTCCAGGCCGT
* ***
52430428 GTAACTCACTATTT--AC-GTAGAACCACACGGGCAAGG
66 GTAACTCACTATTTACACTTTAGAACCACACAACCAAGG
* *
52430464 ACATGGG-GTGTGCCTAGGACGTGTGAGCCACACGGGCAAGGACATGGGCGTGTGTCCAGGCCGT
1 ACATGGGCGTGTGCCCAGGCCGTGTGAGCCACACGGGCAAGGACATGGGCGTGTGTCCAGGCCGT
*
52430528 GTAACTCACTATTTACACTTTAGAACCACACAACCAGGG
66 GTAACTCACTATTTACACTTTAGAACCACACAACCAAGG
* * * * *
52430567 ATATGGGCGTGTGCCCAAGCCGTGTGAGCCACATGGGCAAGGAAATGGACGTGTGTCCAGGCCGT
1 ACATGGGCGTGTGCCCAGGCCGTGTGAGCCACACGGGCAAGGACATGGGCGTGTGTCCAGGCCGT
* *
52430632 GTAACTCACTGTTTACGCTTT
66 GTAACTCACTATTTACACTTT
52430653 TCGTGTGCCC
Statistics
Matches: 166, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
100 67 0.40
101 6 0.04
102 2 0.01
103 21 0.13
104 70 0.42
ACGTcount: A:0.24, C:0.25, G:0.31, T:0.20
Consensus pattern (104 bp):
ACATGGGCGTGTGCCCAGGCCGTGTGAGCCACACGGGCAAGGACATGGGCGTGTGTCCAGGCCGT
GTAACTCACTATTTACACTTTAGAACCACACAACCAAGG
Found at i:52430707 original size:80 final size:80
Alignment explanation
Indices: 52430574--52430726 Score: 238
Period size: 80 Copynumber: 1.9 Consensus size: 80
52430564 GGGATATGGG
* *
52430574 CGTGTGCCCAAGCCGTGTGAGCCACATGGGCAAGGAAATGGACGTGTGTCCAGGCCGTGTAACTC
1 CGTGTGCCCAAGCCATGTGAGCCACATGGGCAAGGAAATGGACGTGTGTCCAGGCCGTATAACTC
52430639 ACTGTTTACGCTTTT
66 ACTGTTTACGCTTTT
* *
52430654 CGTGTGCCCAGGCCATGTGAGCCACATGGGCAAGGACAT-GA-GTGTCTGTCCAGGCCGTATAAC
1 CGTGTGCCCAAGCCATGTGAGCCACATGGGCAAGGAAATGGACGTG--TGTCCAGGCCGTATAAC
52430717 TCACTGTTTA
64 TCACTGTTTA
52430727 TGATTTAGAA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
78 3 0.04
79 2 0.03
80 62 0.93
ACGTcount: A:0.21, C:0.25, G:0.29, T:0.24
Consensus pattern (80 bp):
CGTGTGCCCAAGCCATGTGAGCCACATGGGCAAGGAAATGGACGTGTGTCCAGGCCGTATAACTC
ACTGTTTACGCTTTT
Found at i:52430780 original size:184 final size:184
Alignment explanation
Indices: 52430471--52430832 Score: 467
Period size: 184 Copynumber: 2.0 Consensus size: 184
52430461 AGGACATGGG
* * * * *
52430471 GTGTGCCTAGGACGTGTGAGCCACACGGGCAAGGACATGGGCGTGTGTCCAGGCCGTGTAACTCA
1 GTGTGCCCAGGACATGTGAGCCACACGGGCAAGGACATGAGCGTCTGTCCAGGCCGTATAACTCA
** * *
52430536 CTATTTACACTTTAGAACCACACAACCAGGGATATGGGCGTGTGCCCAAGCCGTGTGAGCCACAT
66 CTATTTACACTTTAGAACCACACAACCAGCAACATGGGCGTGTGCCCAAGCCGTGTGAGCCACAC
*
52430601 GGGCAAGGAAATGGACGTGTGTCCAGGCCGTGTAACTCACTGTTTACGCTTTTC
131 GAGCAAGGAAATGGACGTGTGTCCAGGCCGTGTAACTCACTGTTTACGCTTTTC
* * *
52430655 GTGTGCCCAGGCCATGTGAGCCACATGGGCAAGGACATGAGTGTCTGTCCAGGCCGTATAACTCA
1 GTGTGCCCAGGACATGTGAGCCACACGGGCAAGGACATGAGCGTCTGTCCAGGCCGTATAACTCA
* * *** * * *
52430720 CTGTTTATGA-TTTAGAACCACACGGGCAGACAACATGTGCGTGTG-TCAAGCTGTGTGAGCCAC
66 CTATTTA-CACTTTAGAACCACACAACCAG-CAACATGGGCGTGTGCCCAAGCCGTGTGAGCCAC
* * * *
52430783 ACGAGTAAGGACATGGGCGTGTGTCCAGGCCGTGTAATTCACTGTTTACG
129 ACGAGCAAGGAAATGGACGTGTGTCCAGGCCGTGTAACTCACTGTTTACG
52430833 ATTTAGAACC
Statistics
Matches: 151, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
184 139 0.92
185 12 0.08
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (184 bp):
GTGTGCCCAGGACATGTGAGCCACACGGGCAAGGACATGAGCGTCTGTCCAGGCCGTATAACTCA
CTATTTACACTTTAGAACCACACAACCAGCAACATGGGCGTGTGCCCAAGCCGTGTGAGCCACAC
GAGCAAGGAAATGGACGTGTGTCCAGGCCGTGTAACTCACTGTTTACGCTTTTC
Found at i:52430849 original size:104 final size:104
Alignment explanation
Indices: 52430669--52430870 Score: 305
Period size: 104 Copynumber: 1.9 Consensus size: 104
52430659 GCCCAGGCCA
* * * *
52430669 TGTGAGCCACATGGGCAAGGACATGAGTGTCTGTCCAGGCCGTATAACTCACTGTTTATGATTTA
1 TGTGAGCCACACGAGCAAGGACATGAGCGTCTGTCCAGGCCGTATAACTCACTGTTTACGATTTA
52430734 GAACCACACGGGCAGACAACATGTGCGTGTGTCAAGCTG
66 GAACCACACGGGCAGACAACATGTGCGTGTGTCAAGCTG
* * * * *
52430773 TGTGAGCCACACGAGTAAGGACATGGGCGTGTGTCCAGGCCGTGTAATTCACTGTTTACGATTTA
1 TGTGAGCCACACGAGCAAGGACATGAGCGTCTGTCCAGGCCGTATAACTCACTGTTTACGATTTA
* *
52430838 GAACCACACGGGGAGATAACATGTGCGTGTGTC
66 GAACCACACGGGCAGACAACATGTGCGTGTGTC
52430871 TGGGCTATGT
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
104 87 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (104 bp):
TGTGAGCCACACGAGCAAGGACATGAGCGTCTGTCCAGGCCGTATAACTCACTGTTTACGATTTA
GAACCACACGGGCAGACAACATGTGCGTGTGTCAAGCTG
Found at i:52431706 original size:10 final size:10
Alignment explanation
Indices: 52431691--52431750 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
52431681 ATAGCATACA
52431691 TGCTCTGTTC
1 TGCTCTGTTC
*
52431701 TGCTCTATT-
1 TGCTCTGTTC
* **
52431710 TCGTTCTACTC
1 T-GCTCTGTTC
52431721 TGCTCTGTTC
1 TGCTCTGTTC
*
52431731 TGTTCTGTTC
1 TGCTCTGTTC
*
52431741 TGTTCTGTTC
1 TGCTCTGTTC
52431751 AATTCTACTC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
9 1 0.02
10 39 0.95
11 1 0.02
ACGTcount: A:0.03, C:0.27, G:0.17, T:0.53
Consensus pattern (10 bp):
TGCTCTGTTC
Found at i:52431750 original size:15 final size:15
Alignment explanation
Indices: 52431694--52431747 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
52431684 GCATACATGC
*
52431694 TCTGTTCTGCTCTAT
1 TCTGTTCTGCTCTGT
* *
52431709 T-TCGTTCTACTCTGC
1 TCT-GTTCTGCTCTGT
*
52431724 TCTGTTCTGTTCTGT
1 TCTGTTCTGCTCTGT
52431739 TCTGTTCTG
1 TCTGTTCTG
52431748 TTCAATTCTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
14 1 0.03
15 29 0.94
16 1 0.03
ACGTcount: A:0.04, C:0.26, G:0.17, T:0.54
Consensus pattern (15 bp):
TCTGTTCTGCTCTGT
Found at i:52431762 original size:15 final size:15
Alignment explanation
Indices: 52431744--52431786 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
52431734 TCTGTTCTGT
52431744 TCTGTTCAATTCTAC
1 TCTGTTCAATTCTAC
* *
52431759 TCTGCTCTATTCTAC
1 TCTGTTCAATTCTAC
* *
52431774 TCTATTCGATTCT
1 TCTGTTCAATTCT
52431787 GTACTGTACG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.07, T:0.49
Consensus pattern (15 bp):
TCTGTTCAATTCTAC
Found at i:52431766 original size:5 final size:5
Alignment explanation
Indices: 52431719--52431750 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
52431709 TTCGTTCTAC
*
52431719 TCTGC TCTGT TCTGT TCTGT TCTGT TCTGT TC
1 TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT TC
52431751 AATTCTACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.25, G:0.19, T:0.56
Consensus pattern (5 bp):
TCTGT
Found at i:52432404 original size:22 final size:22
Alignment explanation
Indices: 52432376--52432417 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
52432366 ATTTTTAATC
52432376 TTTTACATAAAATCAATTTATA
1 TTTTACATAAAATCAATTTATA
52432398 TTTTACATAAAATCAATTTA
1 TTTTACATAAAATCAATTTA
52432418 AATCAAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTTACATAAAATCAATTTATA
Found at i:52432457 original size:14 final size:13
Alignment explanation
Indices: 52432438--52432487 Score: 57
Period size: 14 Copynumber: 3.7 Consensus size: 13
52432428 GACATTAATT
52432438 TATTTTTAATATAA
1 TATTTTT-ATATAA
52432452 TATTTTTATA-AA
1 TATTTTTATATAA
*
52432464 TATATATTATATAA
1 TAT-TTTTATATAA
52432478 TATTTCTTAT
1 TATTT-TTAT
52432488 CCATATTGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 5 0.16
13 10 0.32
14 16 0.52
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (13 bp):
TATTTTTATATAA
Found at i:52435106 original size:15 final size:15
Alignment explanation
Indices: 52435086--52435193 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
52435076 TTTATGGAAA
52435086 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
52435101 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
52435115 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
52435131 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
52435145 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
52435161 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
52435175 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
52435191 ATC
1 ATC
52435194 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:52435115 original size:30 final size:30
Alignment explanation
Indices: 52435079--52435193 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
52435069 ATCCATATTT
*
52435079 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
52435109 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
52435139 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
52435169 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
52435194 GAGATATTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:52439795 original size:15 final size:15
Alignment explanation
Indices: 52439775--52439882 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
52439765 TTTATGGAAA
52439775 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
52439790 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
52439804 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
52439820 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
52439834 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
52439850 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
52439864 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
52439880 ATC
1 ATC
52439883 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:52439804 original size:30 final size:30
Alignment explanation
Indices: 52439768--52439882 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
52439758 ATCCATATTT
*
52439768 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
52439798 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
52439828 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
52439858 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
52439883 GAGATATTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:52442263 original size:21 final size:22
Alignment explanation
Indices: 52442224--52442266 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
52442214 AAAAACGAAT
52442224 TAAATATTATTAGTAAAAATTAA
1 TAAATATTATTA-TAAAAATTAA
52442247 TAAATATTATT-TAAAAATTA
1 TAAATATTATTATAAAAATTA
52442267 TTTTTTATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
23 11 0.55
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TAAATATTATTATAAAAATTAA
Found at i:52442301 original size:22 final size:22
Alignment explanation
Indices: 52442270--52442317 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
52442260 AAAATTATTT
*
52442270 TTTATCTTTTACATAAAATCAA
1 TTTATATTTTACATAAAATCAA
*
52442292 TTTATATTTTACATAAAGTCAA
1 TTTATATTTTACATAAAATCAA
52442314 TTTA
1 TTTA
52442318 AATCAAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTATATTTTACATAAAATCAA
Found at i:52442357 original size:14 final size:13
Alignment explanation
Indices: 52442338--52442384 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
52442328 GACTTTAATT
52442338 TATTTTTAATATAA
1 TATTTTT-ATATAA
52442352 TATTTTTATA-AA
1 TATTTTTATATAA
*
52442364 TATATATTATATAA
1 TAT-TTTTATATAA
52442378 TATTTTT
1 TATTTTT
52442385 TTATTCATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 5 0.17
13 12 0.41
14 12 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTTTTATATAA
Found at i:52448745 original size:28 final size:28
Alignment explanation
Indices: 52448706--52448835 Score: 80
Period size: 26 Copynumber: 4.9 Consensus size: 28
52448696 TTGTTGAAAA
*
52448706 TATAACAA-ATATATATGTATATATAAAT
1 TATAA-AATATATATAAGTATATATAAAT
* *
52448734 TATAAAATATATGTACA-TATATGT--AT
1 TATAAAATATATATA-AGTATATATAAAT
* ** *
52448760 TATAAAATGTATATAAGTATACGTATAT
1 TATAAAATATATATAAGTATATATAAAT
* *
52448788 TTTAAAAT-TATA-AAGTATATACAAA-
1 TATAAAATATATATAAGTATATATAAAT
* *
52448813 -A-AAAATATATGTATGTATATATA
1 TATAAAATATATATAAGTATATATA
52448836 TAGGAGTTAT
Statistics
Matches: 80, Mismatches: 15, Indels: 17
0.71 0.13 0.15
Matches are distributed among these distances:
23 5 0.06
24 3 0.04
25 10 0.12
26 30 0.38
27 6 0.08
28 26 0.32
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (28 bp):
TATAAAATATATATAAGTATATATAAAT
Found at i:52448780 original size:26 final size:25
Alignment explanation
Indices: 52448706--52448808 Score: 75
Period size: 28 Copynumber: 3.9 Consensus size: 25
52448696 TTGTTGAAAA
* *
52448706 TATAACAAATATATATGTATATATAAAT
1 TATAA-AATTATATAAGTATATAT--AT
* *
52448734 TATAAAATATATGTACA-TATATGTAT
1 TATAAAAT-TATATA-AGTATATATAT
52448760 TATAAAATGTATATAAGTATACGTATAT
1 TATAAAAT-TATATAAGTATA--TATAT
*
52448788 TTTAAAATTATA-AAGTATATA
1 TATAAAATTATATAAGTATATA
52448809 CAAAAAAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
24 2 0.03
25 1 0.02
26 26 0.42
27 6 0.10
28 27 0.44
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.41
Consensus pattern (25 bp):
TATAAAATTATATAAGTATATATAT
Found at i:52448883 original size:58 final size:59
Alignment explanation
Indices: 52448821--52448931 Score: 172
Period size: 58 Copynumber: 1.9 Consensus size: 59
52448811 AAAAAAATAT
* *
52448821 ATGTATGTATATATA-TAGGAGTTATAGAATATAAAACACATATATAT-TATAAGAATGC
1 ATGTATATATATATATTA-AAGTTATAGAATATAAAACACATATATATGTATAAGAATGC
*
52448879 ATGTATATATATATATTAAAGTTATAGAATATAAAACACATATGTATGTATAA
1 ATGTATATATATATATTAAAGTTATAGAATATAAAACACATATATATGTATAA
52448932 ATATATAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
58 41 0.85
59 7 0.15
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.36
Consensus pattern (59 bp):
ATGTATATATATATATTAAAGTTATAGAATATAAAACACATATATATGTATAAGAATGC
Found at i:52449067 original size:20 final size:22
Alignment explanation
Indices: 52449016--52449067 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
52449006 AATTTTGAAT
*
52449016 AATAATACATGGTAAATTTATAC
1 AATAATA-ATGATAAATTTATAC
* *
52449039 AATATTAATGATAGATTTA-A-
1 AATAATAATGATAAATTTATAC
52449059 AATAATAAT
1 AATAATAAT
52449068 ATATTATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 8 0.32
21 1 0.04
22 10 0.40
23 6 0.24
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (22 bp):
AATAATAATGATAAATTTATAC
Found at i:52450652 original size:23 final size:24
Alignment explanation
Indices: 52450608--52450652 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
52450598 GAAAAAGGTT
*
52450608 TTCTTTTTTCCTTTTTCAATTGGG
1 TTCTTTTTTCCTTTTCCAATTGGG
*
52450632 TTCTTTTTT-CTTTTCCGATTG
1 TTCTTTTTTCCTTTTCCAATTG
52450653 CTCTTCTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.07, C:0.18, G:0.11, T:0.64
Consensus pattern (24 bp):
TTCTTTTTTCCTTTTCCAATTGGG
Found at i:52451822 original size:6 final size:6
Alignment explanation
Indices: 52451801--52451838 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
52451791 AATTGTCCAC
52451801 TTTTA- TTTTA- TTTTAT TTTTAT TTTT-T TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
52451839 ATCTTCCAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 15 0.48
6 16 0.52
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:52451837 original size:11 final size:11
Alignment explanation
Indices: 52451801--52451837 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
52451791 AATTGTCCAC
*
52451801 TTTTATTTTAT
1 TTTTTTTTTAT
*
52451812 TTTATTTTTAT
1 TTTTTTTTTAT
52451823 TTTTTTTTTAT
1 TTTTTTTTTAT
52451834 TTTT
1 TTTT
52451838 AATCTTCCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTAT
Found at i:52465288 original size:12 final size:12
Alignment explanation
Indices: 52465271--52465313 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
52465261 TTAATCGAGC
52465271 TTGAGCTAAGTA
1 TTGAGCTAAGTA
52465283 TTGAGCTCAA--A
1 TTGAGCT-AAGTA
52465294 CTTGAGCTAAGTA
1 -TTGAGCTAAGTA
52465307 TTGAGCT
1 TTGAGCT
52465314 CAAACTTGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
11 3 0.11
12 21 0.78
13 3 0.11
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (12 bp):
TTGAGCTAAGTA
Found at i:52465302 original size:24 final size:24
Alignment explanation
Indices: 52465270--52465325 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
52465260 TTTAATCGAG
52465270 CTTGAGCTAAGTATTGAGCTCAAA
1 CTTGAGCTAAGTATTGAGCTCAAA
52465294 CTTGAGCTAAGTATTGAGCTCAAA
1 CTTGAGCTAAGTATTGAGCTCAAA
52465318 CTTGAGCT
1 CTTGAGCT
52465326 TGAGCTTGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (24 bp):
CTTGAGCTAAGTATTGAGCTCAAA
Found at i:52465322 original size:12 final size:12
Alignment explanation
Indices: 52465283--52465325 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
52465273 GAGCTAAGTA
52465283 TTGAGCTCAAAC
1 TTGAGCTCAAAC
52465295 TTGAGCT-AAGTA-
1 TTGAGCTCAA--AC
52465307 TTGAGCTCAAAC
1 TTGAGCTCAAAC
52465319 TTGAGCT
1 TTGAGCT
52465326 TGAGCTTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
11 3 0.11
12 21 0.78
13 3 0.11
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (12 bp):
TTGAGCTCAAAC
Found at i:52472290 original size:20 final size:20
Alignment explanation
Indices: 52472265--52472304 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
52472255 TACGAAAAAT
* *
52472265 TAAAATTTTTGACTCTTAAC
1 TAAAATTTTTAACTATTAAC
52472285 TAAAATTTTTAACTATTAAC
1 TAAAATTTTTAACTATTAAC
52472305 ATCACATAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (20 bp):
TAAAATTTTTAACTATTAAC
Found at i:52473548 original size:31 final size:30
Alignment explanation
Indices: 52473472--52473628 Score: 100
Period size: 31 Copynumber: 5.0 Consensus size: 30
52473462 CTTTTAAAGA
* * *
52473472 TTTTAAAATTTTAATTAGACCCTTTTTTCAAAAG
1 TTTTAAAATTTTAATTA-AACC---TCTCAAAAT
* *
52473506 TTCTAAAATTTTAATTAAACCTTTCAAAAT
1 TTTTAAAATTTTAATTAAACCTCTCAAAAT
* * ** *
52473536 TTTTGAAAATTTTCATTTTATTCTCTCAAAAC
1 TTTT-AAAATTTT-AATTAAACCTCTCAAAAT
* *
52473568 TTTTAAAACTTTTAATTAAACCCCTCACAAT
1 TTTTAAAA-TTTTAATTAAACCTCTCAAAAT
* *
52473599 TTTTGAAAAATTTAAATAAACC-CTCCAAAA
1 TTTT-AAAATTTTAATTAAACCTCT-CAAAA
52473629 CTCAATGTCA
Statistics
Matches: 98, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
30 13 0.13
31 42 0.43
32 24 0.24
33 3 0.03
34 16 0.16
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (30 bp):
TTTTAAAATTTTAATTAAACCTCTCAAAAT
Found at i:52475228 original size:12 final size:12
Alignment explanation
Indices: 52475207--52475243 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
52475197 GTTATTTCCA
52475207 TTTCCACCGCCG
1 TTTCCACCGCCG
*
52475219 TTTGCACCGCCG
1 TTTCCACCGCCG
*
52475231 TTTCCACCACCG
1 TTTCCACCGCCG
52475243 T
1 T
52475244 CATCTTCTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.11, C:0.46, G:0.16, T:0.27
Consensus pattern (12 bp):
TTTCCACCGCCG
Found at i:52476587 original size:23 final size:24
Alignment explanation
Indices: 52476545--52476593 Score: 91
Period size: 23 Copynumber: 2.1 Consensus size: 24
52476535 TACACATTGT
52476545 GTAATTTGAACTTTTTTTTATTTC
1 GTAATTTGAACTTTTTTTTATTTC
52476569 GTAATTTGAAC-TTTTTTTATTTC
1 GTAATTTGAACTTTTTTTTATTTC
52476592 GT
1 GT
52476594 TTTTCTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.20, C:0.08, G:0.10, T:0.61
Consensus pattern (24 bp):
GTAATTTGAACTTTTTTTTATTTC
Found at i:52482842 original size:42 final size:42
Alignment explanation
Indices: 52482782--52482868 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
52482772 TGCTTACATG
*
52482782 TGGCATCCCATGTTTCATACGTAAGCTCTCTCACCTAAATAA
1 TGGCATCCCATGTCTCATACGTAAGCTCTCTCACCTAAATAA
52482824 TGGCATCCCATGTCTCATACGTAAGCTCTCTCACCTAAATAA
1 TGGCATCCCATGTCTCATACGTAAGCTCTCTCACCTAAATAA
52482866 TGG
1 TGG
52482869 AAGCATATGC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.30
Consensus pattern (42 bp):
TGGCATCCCATGTCTCATACGTAAGCTCTCTCACCTAAATAA
Found at i:52483660 original size:28 final size:28
Alignment explanation
Indices: 52483606--52483661 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
52483596 CGTCTCATAA
* *
52483606 TCTCATCCTCTCTTCACAACGATTCTCT
1 TCTCATCCTCTCCTCACAACGACTCTCT
*
52483634 TCTCATCCTCTCCTCACAACGGCTCTCT
1 TCTCATCCTCTCCTCACAACGACTCTCT
52483662 ACCCTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.16, C:0.43, G:0.05, T:0.36
Consensus pattern (28 bp):
TCTCATCCTCTCCTCACAACGACTCTCT
Found at i:52491395 original size:100 final size:94
Alignment explanation
Indices: 52491283--52491460 Score: 248
Period size: 95 Copynumber: 1.8 Consensus size: 94
52491273 GTTAAAAATA
52491283 AAATATATTTAACATAATGATAAATATAAAAAATATATAATTTCATTATATAATTACATATTTAT
1 AAATATATTTAACATAATGAT--ATAT--AAAATATAT-ATTTCATTATATAATTACATATTTAT
52491348 TAATTTATTTATATAAATAGAGGAGTTATTAATTG
61 TAATTTATTTATA-AAATAGAGGAGTTATTAATTG
* * * * * *
52491383 AAATATTTTTAACATCATGATATATATATTATATATTTTATTATATAATTACATATTTATTATTT
1 AAATATATTTAACATAATGATATATAAAATATATATTTCATTATATAATTACATATTTATTAATT
52491448 TATTTATAAAATA
66 TATTTATAAAATA
52491461 TTTCAAATAT
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
94 5 0.07
95 37 0.51
96 7 0.10
98 4 0.06
100 19 0.26
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (94 bp):
AAATATATTTAACATAATGATATATAAAATATATATTTCATTATATAATTACATATTTATTAATT
TATTTATAAAATAGAGGAGTTATTAATTG
Found at i:52491429 original size:19 final size:19
Alignment explanation
Indices: 52491403--52491445 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
52491393 AACATCATGA
*
52491403 TATATATATTATATATTTTAT
1 TATATA-ATTACATA-TTTAT
52491424 TATATAATTACATATTTAT
1 TATATAATTACATATTTAT
52491443 TAT
1 TAT
52491446 TTTATTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 7 0.33
21 6 0.29
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATAATTACATATTTAT
Found at i:52494567 original size:18 final size:18
Alignment explanation
Indices: 52494544--52494582 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
52494534 TCTAAACTTA
52494544 TTTTTTATAT-ATTTCATG
1 TTTTTTATATGA-TTCATG
*
52494562 TTTTTTTTATGATTCATG
1 TTTTTTATATGATTCATG
52494580 TTT
1 TTT
52494583 AGGATTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.69
Consensus pattern (18 bp):
TTTTTTATATGATTCATG
Found at i:52497529 original size:23 final size:23
Alignment explanation
Indices: 52497499--52497548 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
52497489 TTTTTCCTAC
52497499 TTATAATTGTAATTGATTTTGAT
1 TTATAATTGTAATTGATTTTGAT
52497522 TTATAATTGTAATTGATTTTGAT
1 TTATAATTGTAATTGATTTTGAT
52497545 TTAT
1 TTAT
52497549 GAATGATTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (23 bp):
TTATAATTGTAATTGATTTTGAT
Found at i:52499431 original size:39 final size:39
Alignment explanation
Indices: 52499386--52499466 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
52499376 TGCCAGCTTG
52499386 TTATTTTCACATATACTAACTAAAAATCTAGTTAATGAA
1 TTATTTTCACATATACTAACTAAAAATCTAGTTAATGAA
*
52499425 TTATTTTCACATATACTAACTAAAAATCTAGTTACTGAA
1 TTATTTTCACATATACTAACTAAAAATCTAGTTAATGAA
52499464 TTA
1 TTA
52499467 ACGACTATCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.40
Consensus pattern (39 bp):
TTATTTTCACATATACTAACTAAAAATCTAGTTAATGAA
Found at i:52499918 original size:15 final size:16
Alignment explanation
Indices: 52499898--52499929 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
52499888 GTTATTATCG
52499898 TATTTAA-TATATATT
1 TATTTAATTATATATT
52499913 TATTTAATTATATATT
1 TATTTAATTATATATT
52499929 T
1 T
52499930 GTATGGCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTAATTATATATT
Found at i:52501895 original size:22 final size:22
Alignment explanation
Indices: 52501845--52501895 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
52501835 AAACATACAT
*
52501845 ATTTAATTATTTATATTTATTA
1 ATTTAATTATATATATTTATTA
*
52501867 ATATAATTA-ATATGATTTATTA
1 ATTTAATTATATAT-ATTTATTA
*
52501889 TTTTAAT
1 ATTTAAT
52501896 AAGTTATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTTAATTATATATATTTATTA
Found at i:52507323 original size:3 final size:3
Alignment explanation
Indices: 52507317--52507345 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
52507307 ACACCAGACC
52507317 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
52507346 AGTTAACCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:52511330 original size:87 final size:87
Alignment explanation
Indices: 52511214--52511375 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
52511204 AGACTTGATG
* * * * *
52511214 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACC
52511278 TCAGGGAGATAGGATAGTGTCTT
65 TCAGGGAGATAGGATAGTGTCTT
* * * * *
52511301 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
52511366 CAGGGAGATA
66 CAGGGAGATA
52511376 AGATCTGAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 63 0.98
88 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (87 bp):
CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
CAGGGAGATAGGATAGTGTCTT
Found at i:52511563 original size:214 final size:214
Alignment explanation
Indices: 52511175--52511642 Score: 652
Period size: 214 Copynumber: 2.2 Consensus size: 214
52511165 GTTGTTTTCA
* * * * *
52511175 GTCTATTCCACTGCATCTTCAGGGAAATAAGACTTGATGCGATCTACTCTGCTGTAACCTCAGAG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
** * *
52511240 AGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGAT
66 AGATAAGATCC----TTTTAATCCGCTCCACTGTAACTTCAAAGAGATAGGATACTATCTTCGAT
52511305 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGG
127 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGG
52511370 GAGATAAGATCTGAAATTCTCCG
192 GAGATAAGATCTGAAATTCTCCG
* * * * *
52511393 GTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGATGTGATCTTCTCTACTGTAACTTTAGAG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
* *
52511458 AGATAAGATCC-TTTAATCCGCTCCATTGTAA-TCTCAAAGAGATAGGATTACTATCTTTGATCT
66 AGATAAGATCCTTTTAATCCGCTCCACTGTAACT-TCAAAGAGATAGGA-TACTATCTTCGATCT
*
52511521 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCGCTGTAACCTCAGGGA
129 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
* **
52511586 GATAAGATCTGAAATTTTTTG
194 GATAAGATCTGAAATTCTCCG
* * * *
52511607 GCCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTG
52511643 TATAATAAAC
Statistics
Matches: 223, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
212 1 0.00
213 31 0.14
214 125 0.56
218 66 0.30
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (214 bp):
GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
AGATAAGATCCTTTTAATCCGCTCCACTGTAACTTCAAAGAGATAGGATACTATCTTCGATCTGC
TCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGA
TAAGATCTGAAATTCTCCG
Found at i:52511595 original size:44 final size:43
Alignment explanation
Indices: 52511226--52511595 Score: 236
Period size: 44 Copynumber: 8.6 Consensus size: 43
52511216 ATCTACTCTG
* * ** * *
52511226 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGAT-CTCTGCTTCAATCTGCTCCA
* * ** * *
52511270 CTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCTCTG-CTTCAATCTGCTCCA
*
52511313 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTCT-GCTTCAATCTGCTCCA
* * * ** *
52511357 CTGTAACCTCAGGGAGATAAGATCTGAAATTCTCCGGTCTACTCCA
1 CTGTAACCTCAGGGAGATAAGATCT---CTGCTTCAATCTGCTCCA
* * * * *
52511403 CTGTAACCTCAGGGAAATAAGA-C-CTGATGT-GATCTTCTCTA
1 CTGTAACCTCAGGGAGATAAGATCTCTGCT-TCAATCTGCTCCA
* * * *
52511444 CTGTAACTTTAGAGAGATAAGATC-CT--TT-AATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTCTGCTTCAATCTGCTCCA
* * ** * * ** *
52511483 TTGTAATCTCAAAGAGATAGGAT-TACTATCTTTGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCT-CT-GCTTCAATCTGCTCCA
* *
52511527 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCTCT-GCTTCAATCTGCTCCA
52511571 CTGTAACCTCAGGGAGATAAGATCT
1 CTGTAACCTCAGGGAGATAAGATCT
52511596 GAAATTTTTT
Statistics
Matches: 252, Mismatches: 59, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
39 25 0.10
40 3 0.01
41 28 0.11
42 4 0.02
43 32 0.13
44 124 0.49
45 3 0.01
46 32 0.13
47 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (43 bp):
CTGTAACCTCAGGGAGATAAGATCTCTGCTTCAATCTGCTCCA
Found at i:52523826 original size:12 final size:12
Alignment explanation
Indices: 52523791--52523824 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
52523781 CATCAAATTG
52523791 AAAATAATAATAA
1 AAAATAA-AATAA
52523804 AAAATAAAATAA
1 AAAATAAAATAA
52523816 AAAAGTAAA
1 AAAA-TAAA
52523825 TAGTGATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:52523962 original size:46 final size:46
Alignment explanation
Indices: 52523898--52523987 Score: 105
Period size: 46 Copynumber: 2.0 Consensus size: 46
52523888 AAGTATAAAA
*
52523898 ATATAAGTATGTACATATA-ATATATTTATAAAAT-TA-GAAAATATAG
1 ATATAAGTATATACATATACA-A-A-TTATAAAATATACGAAAATATAG
**
52523944 ATATAAGTATATGTATATACAAATTATAAAATATACGAAAATAT
1 ATATAAGTATATACATATACAAATTATAAAATATACGAAAATAT
52523988 GATTTGTATG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
44 9 0.24
45 3 0.08
46 25 0.66
47 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (46 bp):
ATATAAGTATATACATATACAAATTATAAAATATACGAAAATATAG
Found at i:52524128 original size:12 final size:12
Alignment explanation
Indices: 52524113--52524194 Score: 76
Period size: 12 Copynumber: 6.6 Consensus size: 12
52524103 AGGTATAAAT
*
52524113 ATAATGATAGTA
1 ATAATAATAGTA
52524125 ATAATAATAGTA
1 ATAATAATAGTA
* *
52524137 GTAATAATACTA
1 ATAATAATAGTA
*
52524149 ACAATAATAGTAAA
1 ATAATAATAGT--A
52524163 GATAATAATAGTA
1 -ATAATAATAGTA
*
52524176 A-ATATAATAATA
1 ATA-ATAATAGTA
52524188 ATAATAA
1 ATAATAA
52524195 AATAAAAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
11 1 0.02
12 43 0.75
13 2 0.04
14 1 0.02
15 10 0.18
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:52524131 original size:3 final size:3
Alignment explanation
Indices: 52524113--52524199 Score: 63
Period size: 3 Copynumber: 29.3 Consensus size: 3
52524103 AGGTATAAAT
* * * * * * *
52524113 ATA ATG ATA GTA ATA ATA ATA GTA GTA ATA ATA CTA ACA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
52524161 A-A GATA ATA ATA GTA A-A TATA ATA ATA ATA ATA A-A ATA A
1 ATA -ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA A
52524200 AAAAAAATAA
Statistics
Matches: 65, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
2 4 0.06
3 59 0.91
4 2 0.03
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:52540163 original size:30 final size:31
Alignment explanation
Indices: 52540129--52540187 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
52540119 TTTGGTTTCT
*
52540129 TTTATAGA-ATTTATAATTTTTTATGATAGA
1 TTTATAGACATTTATAATTTTATATGATAGA
* * *
52540159 TTTATTGACATTTTTAGTTTTATATGATA
1 TTTATAGACATTTATAATTTTATATGATA
52540188 AATTAATACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (31 bp):
TTTATAGACATTTATAATTTTATATGATAGA
Found at i:52541043 original size:23 final size:23
Alignment explanation
Indices: 52541013--52541058 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
52541003 ACTGCCCCAA
52541013 TTTTTTGATGTCTTATTGGTGGG
1 TTTTTTGATGTCTTATTGGTGGG
52541036 TTTTTTGATGTCTTATTGGTGGG
1 TTTTTTGATGTCTTATTGGTGGG
52541059 GTTATCATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.04, G:0.30, T:0.57
Consensus pattern (23 bp):
TTTTTTGATGTCTTATTGGTGGG
Found at i:52548229 original size:120 final size:122
Alignment explanation
Indices: 52548075--52548365 Score: 462
Period size: 120 Copynumber: 2.4 Consensus size: 122
52548065 TAGTATGATG
* **
52548075 ATAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
* * *
52548140 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-T
66 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
* *
52548196 -TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTA
* *
52548259 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 TCATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
52548317 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
52548366 ATATGATTAA
Statistics
Matches: 154, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
119 2 0.01
120 106 0.69
121 1 0.01
122 43 0.28
123 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (122 bp):
ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
Found at i:52548262 original size:59 final size:58
Alignment explanation
Indices: 52548082--52548365 Score: 150
Period size: 59 Copynumber: 4.7 Consensus size: 58
52548072 ATGATAAATT
* ** * *
52548082 ATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGTATC
* * * * * * * *
52548141 ATATATTATGATTTTAGAA-A-A-TTCATATAAGAATATTTAATATTAAGAATTTTATTA-AATC
1 ATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTAA-ATT-A-TATTTTA-TAGTATC
52548202 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTATATTTTATAGTATC
* * ** * * * *
52548261 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATT-T-TATTATA-AAT
1 ATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATATTTTATAGTAT
*
52548323 T
58 C
*
52548324 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAA
52548366 ATATGATTAA
Statistics
Matches: 167, Mismatches: 37, Indels: 45
0.67 0.15 0.18
Matches are distributed among these distances:
56 12 0.07
57 6 0.04
58 13 0.08
59 39 0.23
60 11 0.07
61 30 0.18
62 15 0.09
63 12 0.07
64 7 0.04
65 6 0.04
66 16 0.10
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (58 bp):
ATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATATTTTATAGTATC
Found at i:52548344 original size:18 final size:19
Alignment explanation
Indices: 52548309--52548345 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
52548299 ATTATTAAGA
52548309 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
52548328 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
52548346 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:52548605 original size:16 final size:16
Alignment explanation
Indices: 52548581--52548649 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
52548571 GATTAGCTAT
*
52548581 TACAACTCTAATCCAA
1 TACACCTCTAATCCAA
52548597 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
52548614 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
52548630 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
52548646 TACA
1 TACA
52548650 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 35 0.69
17 16 0.31
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:52548628 original size:33 final size:32
Alignment explanation
Indices: 52548581--52548649 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
52548571 GATTAGCTAT
52548581 TACAACTCTAATCCAATACACCTCTAATCCCAA
1 TACAACTCTAATCCAATACACCTCTAAT-CCAA
*
52548614 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACAACTCTAATCCAATACACCTCTAATCCAA
52548646 TACA
1 TACA
52548650 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (32 bp):
TACAACTCTAATCCAATACACCTCTAATCCAA
Found at i:52550031 original size:104 final size:104
Alignment explanation
Indices: 52549851--52550275 Score: 663
Period size: 104 Copynumber: 4.1 Consensus size: 104
52549841 TGTTGTAAAT
* * *
52549851 TTAGAGGCTTCAAGATTTTCTTGTAAGTAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
*
52549916 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTAAAC
66 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
* *
52549955 TTAGAGGTTTAAAAATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
*
52550020 TTTTGATTCATCATTTTCGCTTAAACTTGAATATTTAAC
66 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
* *
52550059 TTAGAGGTTTCAAGATTTTCATGTAAACAAGGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
52550124 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
66 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
* * * * *
52550163 TTAGAGGTTTCAAGATTTTTATGTAAATAATTAATCAAAGCTCTTACATTGTAGCAGGAGTTTGT
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
* * * *
52550228 TTTTGA-TCTGTAATTTTCGCATAAACTCGAGTATTTAAC
66 TTTTGATTC-ATCATTTTCGCTTAAACTTGAGTATTTAAC
*
52550267 TTAGTGGTT
1 TTAGAGGTT
52550276 GGTGCCTGAT
Statistics
Matches: 296, Mismatches: 24, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
103 2 0.01
104 294 0.99
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.41
Consensus pattern (104 bp):
TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
Found at i:52552320 original size:91 final size:91
Alignment explanation
Indices: 52552182--52552389 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
52552172 TTGATTTTAG
* *
52552182 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
52552247 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
52552274 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
52552339 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
52552365 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
52552390 GTTATAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:52552358 original size:26 final size:28
Alignment explanation
Indices: 52552304--52552364 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
52552294 TATTATCAAG
* *
52552304 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
52552332 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
52552358 AATTATA
1 AATTATA
52552365 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:52552364 original size:44 final size:43
Alignment explanation
Indices: 52552222--52552364 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
52552212 GAATTTTATG
* *
52552222 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
52552266 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
52552313 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
52552357 AAATTATA
1 AAATTATA
52552365 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Done.