Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold39
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: 4724573
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 178835 characters in sequence are not A, C, G, or T
File 25 of 27
Found at i:4221925 original size:13 final size:13
Alignment explanation
Indices: 4221907--4221931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4221897 CATTTTATGG
4221907 TGTATCGATACAA
1 TGTATCGATACAA
4221920 TGTATCGATACA
1 TGTATCGATACA
4221932 CACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4223081 original size:13 final size:13
Alignment explanation
Indices: 4223063--4223088 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4223053 ACAAAGATCC
4223063 ATGTATCGATACA
1 ATGTATCGATACA
4223076 ATGTATCGATACA
1 ATGTATCGATACA
4223089 TTGAGTAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4223185 original size:19 final size:19
Alignment explanation
Indices: 4223138--4223208 Score: 124
Period size: 19 Copynumber: 3.6 Consensus size: 19
4223128 AGCGATACAT
4223138 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
4223157 TGTATATCGATACAACACTTA
1 TG--TATCGATACAACACTTA
4223178 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
4223197 TGTATCGATACA
1 TGTATCGATACA
4223209 GTTACTGTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
19 31 0.62
21 19 0.38
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:4226351 original size:21 final size:21
Alignment explanation
Indices: 4226327--4226382 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
4226317 TTTTTACCTA
* *
4226327 CATGTATCGATATATGCCTTC
1 CATGTATCGATACATACCTTC
*
4226348 CATGTATCGATACATACCTTT
1 CATGTATCGATACATACCTTC
4226369 CATGTATCGATACA
1 CATGTATCGATACA
4226383 AGGTCCTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (21 bp):
CATGTATCGATACATACCTTC
Found at i:4228770 original size:13 final size:13
Alignment explanation
Indices: 4228754--4228778 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4228744 TAATTTATCA
4228754 TGTATCGATACAT
1 TGTATCGATACAT
4228767 TGTATCGATACA
1 TGTATCGATACA
4228779 AACAGTCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4228790 original size:20 final size:20
Alignment explanation
Indices: 4228767--4228804 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4228757 ATCGATACAT
4228767 TGTATCGATACAAACAGTCA
1 TGTATCGATACAAACAGTCA
4228787 TGTATCGATACAAACAGT
1 TGTATCGATACAAACAGT
4228805 GGTAGAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAACAGTCA
Found at i:4228906 original size:20 final size:20
Alignment explanation
Indices: 4228883--4228935 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
4228873 CAAAGCATAA
4228883 TGTATCGATACATCTGGATG
1 TGTATCGATACATCTGGATG
4228903 TGTATCGATACATCTGGATG
1 TGTATCGATACATCTGGATG
4228923 TGTATCGATACAT
1 TGTATCGATACAT
4228936 ACAAGGGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATCTGGATG
Found at i:4229514 original size:29 final size:31
Alignment explanation
Indices: 4229470--4229530 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
4229460 CTCTCGTTTA
*
4229470 AAAAATTTTCTTCCCC-TTAATAAAAAATTT
1 AAAAACTTTCTTCCCCTTTAATAAAAAATTT
*
4229500 AAAAACTTTC-TCCCCTTTGATAAAAAATTT
1 AAAAACTTTCTTCCCCTTTAATAAAAAATTT
4229530 A
1 A
4229531 TTTTCAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 5 0.18
30 23 0.82
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.38
Consensus pattern (31 bp):
AAAAACTTTCTTCCCCTTTAATAAAAAATTT
Found at i:4237640 original size:19 final size:19
Alignment explanation
Indices: 4237596--4237651 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
4237586 CTACCAGTTT
**
4237596 CATGTATTGATACAATTGTG
1 CATGTATTGATACAA-TGAA
*
4237616 CATGTATCGATACAATGAA
1 CATGTATTGATACAATGAA
4237635 CATGTATTGATACAATG
1 CATGTATTGATACAATG
4237652 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (19 bp):
CATGTATTGATACAATGAA
Found at i:4237673 original size:20 final size:20
Alignment explanation
Indices: 4237648--4237688 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4237638 GTATTGATAC
4237648 AATGTATCGATACAAAGCAT
1 AATGTATCGATACAAAGCAT
4237668 AATGTATCGATACAAAGCAT
1 AATGTATCGATACAAAGCAT
4237688 A
1 A
4237689 GATATATCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (20 bp):
AATGTATCGATACAAAGCAT
Found at i:4239374 original size:20 final size:20
Alignment explanation
Indices: 4239349--4239386 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4239339 TTATGAGAGG
4239349 CATATATATTCGATTTCACC
1 CATATATATTCGATTTCACC
*
4239369 CATATATATTTGATTTCA
1 CATATATATTCGATTTCA
4239387 TCACCTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (20 bp):
CATATATATTCGATTTCACC
Found at i:4240224 original size:10 final size:10
Alignment explanation
Indices: 4240209--4240249 Score: 73
Period size: 10 Copynumber: 4.1 Consensus size: 10
4240199 AATCTCATTT
*
4240209 TCACTGTTCA
1 TCACTGTTTA
4240219 TCACTGTTTA
1 TCACTGTTTA
4240229 TCACTGTTTA
1 TCACTGTTTA
4240239 TCACTGTTTA
1 TCACTGTTTA
4240249 T
1 T
4240250 GTATCAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.20, C:0.22, G:0.10, T:0.49
Consensus pattern (10 bp):
TCACTGTTTA
Found at i:4240333 original size:52 final size:52
Alignment explanation
Indices: 4240228--4240326 Score: 144
Period size: 52 Copynumber: 1.9 Consensus size: 52
4240218 ATCACTGTTT
* * **
4240228 ATCACTGTTTATCACTGTTTATGTATCAATATGTTGTGAATAGTATCACTAC
1 ATCACTGTTCATCACTGTTCATGTATCAATACATTGTGAATAGTATCACTAC
**
4240280 ATCACTGTTCATCACTGTTCATGTATTGATACATTGTGAATAGTATC
1 ATCACTGTTCATCACTGTTCATGTATCAATACATTGTGAATAGTATC
4240327 GATACATTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.41
Consensus pattern (52 bp):
ATCACTGTTCATCACTGTTCATGTATCAATACATTGTGAATAGTATCACTAC
Found at i:4242404 original size:21 final size:21
Alignment explanation
Indices: 4242380--4242436 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
4242370 TAATTTTCTT
* *
4242380 GAAAAGAAATTAAATGAATTA
1 GAAAAGAAAATAAATAAATTA
4242401 GAAAAGAAAATAAATAAATTA
1 GAAAAGAAAATAAATAAATTA
* *
4242422 GAAGAGAAAAGAAAT
1 GAAAAGAAAATAAAT
4242437 GAGTTGCAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.18
Consensus pattern (21 bp):
GAAAAGAAAATAAATAAATTA
Found at i:4248586 original size:19 final size:19
Alignment explanation
Indices: 4248562--4248599 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4248552 AATTTAAGAC
4248562 GTTATCTAGACTAAATAAT
1 GTTATCTAGACTAAATAAT
*
4248581 GTTATCTAGACTACATAAT
1 GTTATCTAGACTAAATAAT
4248600 ATTAGTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (19 bp):
GTTATCTAGACTAAATAAT
Found at i:4248947 original size:77 final size:76
Alignment explanation
Indices: 4248695--4248980 Score: 274
Period size: 76 Copynumber: 3.8 Consensus size: 76
4248685 TAGCTAGGAT
* * *
4248695 AAATTCAAATTTAAATTAAATATTATCTTAATTTG-ATCTCATCAAAT-TGAAAATATTCAAAAT
1 AAATTTAAATTTAAATTGAATATTATCTTAA-TTGAATCTCATCAAATCT-CAAATATTCAAAAT
*
4248758 TTAAGATG-AATTC
64 TTAA-AAGAAATTC
* * * * * * * * *
4248771 AAATTTAAATTTAAA-TCAGGTATTATCTTGATTTAATCTAATCAAATCTTAGATATTTAGAATT
1 AAATTTAAATTTAAATTGA-ATATTATCTTAATTGAATCTCATCAAATCTCAAATATTCAAAATT
* *
4248835 CAAAATAAATTC
65 TAAAAGAAATTC
* * * * *
4248847 AAATGTAAATTTAAATTGAATATTATCTTGATTGCATCTCATTAAATCTCTAATATTCAAAATTT
1 AAATTTAAATTTAAATTGAATATTATCTTAATTGAATCTCATCAAATCTCAAATATTCAAAATTT
4248912 GAAAAGAAATTC
66 -AAAAGAAATTC
** * * *
4248924 ATTTTTAAATTTAAATTGGATATTATCTTAATTTAATCTCATTAAATCTCAAATATT
1 AAATTTAAATTTAAATTGAATATTATCTTAATTGAATCTCATCAAATCTCAAATATT
4248981 TAGAATTCAA
Statistics
Matches: 169, Mismatches: 35, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
75 5 0.03
76 102 0.60
77 62 0.37
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (76 bp):
AAATTTAAATTTAAATTGAATATTATCTTAATTGAATCTCATCAAATCTCAAATATTCAAAATTT
AAAAGAAATTC
Found at i:4248972 original size:153 final size:152
Alignment explanation
Indices: 4248701--4248991 Score: 383
Period size: 153 Copynumber: 1.9 Consensus size: 152
4248691 GGATAAATTC
*
4248701 AAATTTAAATTAAATATTATCTTAATTTGATCTCATCAAATTGAAAATATTCAAAATTTAAGATG
1 AAATTTAAATTAAATATTATCTTAATTTGATCTCATCAAATTGAAAATATTCAAAATTTAAGAAG
* * *
4248766 AATTCAAATTTAAATTTAAATCAGGTATTATCTTGATTTAATCTAATCAAATCTTAGATATTTAG
66 AATTCAAATTTAAATTTAAATCAGGTATTATCTTAATTTAATCTAATCAAATCTCAAATATTTAG
4248831 AATTCAAAATAAATTCAAATGT
131 AATTCAAAATAAATTCAAATGT
* * * **
4248853 AAATTTAAATTGAATATTATCTTGA-TTGCATCTCATTAAATCT-CTAATATTCAAAATTTGAA-
1 AAATTTAAATTAAATATTATCTTAATTTG-ATCTCATCAAAT-TGAAAATATTCAAAATTT-AAG
** * * *
4248915 AAGAAATTCATTTTTAAATTTAAAT-TGGATATTATCTTAATTTAATCTCATTAAATCTCAAATA
63 AAG-AATTCAAATTTAAATTTAAATCAGG-TATTATCTTAATTTAATCTAATCAAATCTCAAATA
4248979 TTTAGAATTCAAA
126 TTTAGAATTCAAA
4248992 TCTTAAATTT
Statistics
Matches: 120, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
151 3 0.03
152 52 0.43
153 65 0.54
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.41
Consensus pattern (152 bp):
AAATTTAAATTAAATATTATCTTAATTTGATCTCATCAAATTGAAAATATTCAAAATTTAAGAAG
AATTCAAATTTAAATTTAAATCAGGTATTATCTTAATTTAATCTAATCAAATCTCAAATATTTAG
AATTCAAAATAAATTCAAATGT
Found at i:4249339 original size:91 final size:91
Alignment explanation
Indices: 4249184--4249356 Score: 247
Period size: 91 Copynumber: 1.9 Consensus size: 91
4249174 GTAAGATCTA
* * * * *
4249184 TTACTCTTGAAAAATCATTCATTGAGGCTTAGACAAAATTTGACATCTACAATTATCTTTTATAA
1 TTACTCTTGAAAAATCATTCATTGAGGCTCAAACAAAAATAGACATCTACAATTATCTTGTATAA
* *
4249249 TAAATTGTGTAAAATTGGTGTGGTTG
66 TAAATTGGGCAAAATTGGTGTGGTTG
* **
4249275 TTACTTTTGAAAAATCATTCATTGAGGCTCAAACAAAAATAGTTATCTACAATTATCTTGTATAA
1 TTACTCTTGAAAAATCATTCATTGAGGCTCAAACAAAAATAGACATCTACAATTATCTTGTATAA
*
4249340 TCAATTGGGCAAAATTG
66 TAAATTGGGCAAAATTG
4249357 AAAAATAAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
91 71 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (91 bp):
TTACTCTTGAAAAATCATTCATTGAGGCTCAAACAAAAATAGACATCTACAATTATCTTGTATAA
TAAATTGGGCAAAATTGGTGTGGTTG
Found at i:4250472 original size:19 final size:20
Alignment explanation
Indices: 4250448--4250503 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
4250438 TGTATCGATA
*
4250448 CATTGTATCGAGACATGC-T
1 CATTGTATCGATACATGCAT
*
4250467 CATTGTATCGATACATACAT
1 CATTGTATCGATACATGCAT
*
4250487 AATTGTATCGATACATG
1 CATTGTATCGATACATG
4250504 AAACTAGCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (20 bp):
CATTGTATCGATACATGCAT
Found at i:4250493 original size:20 final size:19
Alignment explanation
Indices: 4250449--4250502 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
4250439 GTATCGATAC
* * *
4250449 ATTGTATCGAGACATGCTC
1 ATTGTATCGATACATACTA
4250468 ATTGTATCGATACATACATA
1 ATTGTATCGATACATAC-TA
4250488 ATTGTATCGATACAT
1 ATTGTATCGATACAT
4250503 GAAACTAGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (19 bp):
ATTGTATCGATACATACTA
Found at i:4252992 original size:13 final size:13
Alignment explanation
Indices: 4252974--4252999 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4252964 ACATTTTATG
4252974 ATGTATCGATACA
1 ATGTATCGATACA
4252987 ATGTATCGATACA
1 ATGTATCGATACA
4253000 TACTGTGTGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4252994 original size:33 final size:32
Alignment explanation
Indices: 4252952--4253019 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
4252942 CGTTACAAGC
**
4252952 CAATGTATCGATACATTTTATGATGTATCGATA
1 CAATGTATCGATACATACTATG-TGTATCGATA
*
4252985 CAATGTATCGATACATACTGTGTGTATCGATA
1 CAATGTATCGATACATACTATGTGTATCGATA
4253017 CAA
1 CAA
4253020 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATACTATGTGTATCGATA
Found at i:4253099 original size:20 final size:21
Alignment explanation
Indices: 4253051--4253103 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
4253041 GCCAATGACT
**
4253051 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
**
4253072 AATATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
4253092 TGTATCGATACA
1 TGTATCGATACA
4253104 ATGTATCGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:4253109 original size:13 final size:13
Alignment explanation
Indices: 4253091--4253119 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4253081 ACATTTGGTC
4253091 ATGTATCGATACA
1 ATGTATCGATACA
4253104 ATGTATCGATACA
1 ATGTATCGATACA
4253117 ATG
1 ATG
4253120 CAATCTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4253130 original size:20 final size:20
Alignment explanation
Indices: 4253105--4253155 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4253095 ATCGATACAA
*
4253105 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
4253125 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
4253145 TGTATCGATAC
1 TGTATCGATAC
4253156 TTTTTAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:4253714 original size:22 final size:21
Alignment explanation
Indices: 4253671--4253714 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
4253661 TTTTCTTTTC
* *
4253671 TCTCCCCCTTAATCAAACATT
1 TCTCCCCCTTAATAAAAAATT
*
4253692 TCTCCCCCTTAGTAAAATAATT
1 TCTCCCCCTTAATAAAA-AATT
4253714 T
1 T
4253715 AACACTTTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.30, C:0.32, G:0.02, T:0.36
Consensus pattern (21 bp):
TCTCCCCCTTAATAAAAAATT
Found at i:4255549 original size:13 final size:13
Alignment explanation
Indices: 4255531--4255569 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
4255521 ATAATCCCCT
4255531 TGTATCGATACAG
1 TGTATCGATACAG
*
4255544 TGTATCGATACAA
1 TGTATCGATACAG
4255557 TGTATCGATACAG
1 TGTATCGATACAG
4255570 AGAATGCTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:4261746 original size:13 final size:13
Alignment explanation
Indices: 4261728--4261753 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4261718 ACATTTTATG
4261728 ATGTATCGATACA
1 ATGTATCGATACA
4261741 ATGTATCGATACA
1 ATGTATCGATACA
4261754 TACTGTGTGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4261748 original size:33 final size:32
Alignment explanation
Indices: 4261706--4261773 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
4261696 CGTTACAAGC
**
4261706 CAATGTATCGATACATTTTATGATGTATCGATA
1 CAATGTATCGATACATACTATG-TGTATCGATA
*
4261739 CAATGTATCGATACATACTGTGTGTATCGATA
1 CAATGTATCGATACATACTATGTGTATCGATA
4261771 CAA
1 CAA
4261774 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATACTATGTGTATCGATA
Found at i:4261852 original size:20 final size:21
Alignment explanation
Indices: 4261805--4261857 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
4261795 GCCAATGACT
**
4261805 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
4261826 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
4261846 TGTATCGATACA
1 TGTATCGATACA
4261858 ATGTATTGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:4261888 original size:20 final size:20
Alignment explanation
Indices: 4261859--4261909 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
4261849 ATCGATACAA
* *
4261859 TGTATTGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
4261879 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
4261899 TGTATCGATAC
1 TGTATCGATAC
4261910 TTTTCAGGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:4268662 original size:17 final size:18
Alignment explanation
Indices: 4268640--4268699 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 18
4268630 ATCGATACAT
4268640 CATGCT-TTGTATCGATA
1 CATGCTATTGTATCGATA
4268657 CATGCTCATTGTATCGATA
1 CATGCT-ATTGTATCGATA
* *
4268676 CATACACAATTGTATCGATA
1 CAT--GCTATTGTATCGATA
4268696 CATG
1 CATG
4268700 AAACTAGCAG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 6 0.17
19 14 0.39
20 15 0.42
21 1 0.03
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (18 bp):
CATGCTATTGTATCGATA
Found at i:4268670 original size:19 final size:20
Alignment explanation
Indices: 4268646--4268699 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
4268636 ACATCATGCT
*
4268646 TTGTATCGATACATGCTC-A
1 TTGTATCGATACATGCACAA
*
4268665 TTGTATCGATACATACACAA
1 TTGTATCGATACATGCACAA
4268685 TTGTATCGATACATG
1 TTGTATCGATACATG
4268700 AAACTAGCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATGCACAA
Found at i:4272961 original size:22 final size:21
Alignment explanation
Indices: 4272919--4272961 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
4272909 TCCTGTCATG
*
4272919 TTTTGATTATTTTCATGTTAT
1 TTTTGATTATTTTAATGTTAT
4272940 TTTTGTATTATATTTAAT-TTAT
1 TTTTG-ATTAT-TTTAATGTTAT
4272962 CTCATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.67
Consensus pattern (21 bp):
TTTTGATTATTTTAATGTTAT
Found at i:4274699 original size:26 final size:27
Alignment explanation
Indices: 4274668--4274723 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
4274658 AAATATATTC
4274668 TTTATATCATATC-GTTTATATAA-TAT
1 TTTATA-CATATCAGTTTATATAATTAT
* *
4274694 TTTATACATATCATTTTGTATAATTAT
1 TTTATACATATCAGTTTATATAATTAT
4274721 TTT
1 TTT
4274724 TTAAAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 6 0.23
26 14 0.54
27 6 0.23
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (27 bp):
TTTATACATATCAGTTTATATAATTAT
Found at i:4275331 original size:3 final size:3
Alignment explanation
Indices: 4275289--4275317 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4275279 TTCTATTTAT
4275289 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4275318 TTTATAGTAA
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4275529 original size:3 final size:3
Alignment explanation
Indices: 4275523--4275565 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
4275513 TAATTGTTAC
*
4275523 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4275566 GTCATTTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:4275853 original size:20 final size:21
Alignment explanation
Indices: 4275823--4275861 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4275813 TATTTATAGT
4275823 ATTTTTATCATATCATATTTA
1 ATTTTTATCATATCATATTTA
*
4275844 ATTTTT-TCATATTATATT
1 ATTTTTATCATATCATATT
4275862 ATATAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTTATCATATCATATTTA
Found at i:4284266 original size:25 final size:24
Alignment explanation
Indices: 4284238--4284292 Score: 94
Period size: 23 Copynumber: 2.3 Consensus size: 24
4284228 TAGTAGTCAC
4284238 AAAATATTTACAGCTATTAAAACAG
1 AAAATA-TTACAGCTATTAAAACAG
4284263 AAAATA-TACAGCTATTAAAACAG
1 AAAATATTACAGCTATTAAAACAG
4284286 AAAATAT
1 AAAATAT
4284293 CTCTTCCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 23 0.79
25 6 0.21
ACGTcount: A:0.56, C:0.11, G:0.07, T:0.25
Consensus pattern (24 bp):
AAAATATTACAGCTATTAAAACAG
Found at i:4295969 original size:2 final size:2
Alignment explanation
Indices: 4295962--4296002 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4295952 TTTTTAAGTG
4295962 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4296003 TAAATTCTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4297468 original size:6 final size:6
Alignment explanation
Indices: 4297457--4297496 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
4297447 CTCATGCAAA
*
4297457 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT TAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
4297497 GCAAATGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:4298003 original size:18 final size:18
Alignment explanation
Indices: 4297946--4298003 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
4297936 AAATTTTATT
* *
4297946 ATTATATAACTAAT-ATA
1 ATTATATAAATAATAAAA
4297963 ATTA-ATTAAA-AATAAATA
1 ATTATA-TAAATAATAAA-A
4297981 ATTATATAAATAATAAAA
1 ATTATATAAATAATAAAA
4297999 ATTAT
1 ATTAT
4298004 TATTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
16 4 0.12
17 8 0.24
18 15 0.44
19 7 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTATATAAATAATAAAA
Found at i:4307866 original size:11 final size:11
Alignment explanation
Indices: 4307846--4307886 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
4307836 AAAGGTTTTA
*
4307846 AATAATTAAAT
1 AATAAATAAAT
4307857 AATAAATAAAT
1 AATAAATAAAT
4307868 --TAAATTAAAT
1 AATAAA-TAAAT
4307878 AATAAATAA
1 AATAAATAA
4307887 TAACTATGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 4 0.15
10 5 0.19
11 13 0.50
12 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AATAAATAAAT
Found at i:4309627 original size:19 final size:18
Alignment explanation
Indices: 4309600--4309638 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
4309590 ACTCAATTGG
*
4309600 TAAATTATTAAAAATTAAA
1 TAAACTATTAAAAA-TAAA
*
4309619 TAAACTATTAATAATAAA
1 TAAACTATTAAAAATAAA
4309637 TA
1 TA
4309639 TAAAATCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAACTATTAAAAATAAA
Found at i:4310266 original size:8 final size:8
Alignment explanation
Indices: 4310255--4310302 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
4310245 ACATATACAC
4310255 ATATATTT
1 ATATATTT
4310263 ATATATTTT
1 ATATA-TTT
*
4310272 GTTAATATTT
1 -AT-ATATTT
*
4310282 ATACATTT
1 ATATATTT
4310290 ATATATTT
1 ATATATTT
4310298 ATATA
1 ATATA
4310303 AAAATATCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 22 0.67
9 4 0.12
10 4 0.12
11 3 0.09
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (8 bp):
ATATATTT
Found at i:4312360 original size:21 final size:21
Alignment explanation
Indices: 4312334--4312375 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4312324 AGCTACTGCC
4312334 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
4312355 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
4312376 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:4312380 original size:13 final size:13
Alignment explanation
Indices: 4312362--4312387 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4312352 ATTAAGGAAA
4312362 TGTATCGATACAT
1 TGTATCGATACAT
4312375 TGTATCGATACAT
1 TGTATCGATACAT
4312388 CGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4314806 original size:52 final size:53
Alignment explanation
Indices: 4314749--4314849 Score: 168
Period size: 52 Copynumber: 1.9 Consensus size: 53
4314739 CAATTGTTCA
*
4314749 TAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTCCTT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTT
* *
4314801 TAATCGGGGATACTCCGACTCCGATTTTATTTCCAAAAACACCAATTTT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTT
4314850 TCACTATCGA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 31 0.69
53 14 0.31
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.34
Consensus pattern (53 bp):
TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCCTT
Found at i:4314865 original size:52 final size:52
Alignment explanation
Indices: 4314757--4314872 Score: 144
Period size: 52 Copynumber: 2.2 Consensus size: 52
4314747 CATAATCGGG
* ** **
4314757 GATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGG
1 GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACTAATCGAA
* * *
4314809 GATACTCCGACTCCGATTTTATTTCCAAAAACACCAATTTTTCACT-ATCGAA
1 GATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTCCACTAATCGAA
4314861 GATACTCCAACC
1 GATACTCCAACC
4314873 TCGTTATTTC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
52 37 0.70
53 16 0.30
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.32
Consensus pattern (52 bp):
GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACTAATCGAA
Found at i:4315017 original size:79 final size:77
Alignment explanation
Indices: 4314885--4315119 Score: 231
Period size: 79 Copynumber: 3.0 Consensus size: 77
4314875 GTTATTTCAT
** *
4314885 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCTGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCC--GTTTTATTCCCAAAATAT
*
4314950 TGATTTCTCATAAT
64 TGATTTCTCATAAC
* * *
4314964 TGGGGATACTCCAACCCCGTTATTTCCGAGGGAATACTCCAATCCCGATTTTATTCCC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA-CCCG-TTTTATTCCCAAAAT-A
* * *
4315028 TCGATTTTTCACAAC
63 TTGATTTCTCATAAC
* * * * *
4315043 CGGGGATACTCTAACCTCATTATTTTCAAGGGGATACTCCAACCCCGTTATTA-TCTCCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA-CCCGTT-TTATTC-CCAAAATA
*
4315107 TTAAATTTCTCAT
63 TT-GATTTCTCAT
4315120 CGGGACATAT
Statistics
Matches: 126, Mismatches: 23, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
78 8 0.06
79 105 0.83
80 13 0.10
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (77 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCGTTTTATTCCCAAAATATTG
ATTTCTCATAAC
Found at i:4317524 original size:20 final size:19
Alignment explanation
Indices: 4317478--4317533 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
4317468 AAAACCCTTA
**
4317478 AATGTATCGATACACAATTC
1 AATGTATCGATACA-TGTTC
*
4317498 AAAGTATCGATACATGTTGC
1 AATGTATCGATACATGTT-C
4317518 AATGTATCGATACATG
1 AATGTATCGATACATG
4317534 AAAAAGATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACATGTTC
Found at i:4321714 original size:15 final size:15
Alignment explanation
Indices: 4321694--4321732 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
4321684 TAAAAATGTC
*
4321694 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
*
4321709 CAAAATGAAGAAGTT
1 CAAAATGAAGAAGCT
*
4321724 CCAAATGAA
1 CAAAATGAA
4321733 ATTAATGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.51, C:0.13, G:0.21, T:0.15
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:4323816 original size:13 final size:13
Alignment explanation
Indices: 4323798--4323822 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4323788 CATTTTTCTT
4323798 TGTATCGATACAC
1 TGTATCGATACAC
4323811 TGTATCGATACA
1 TGTATCGATACA
4323823 GGGGGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:4323977 original size:20 final size:20
Alignment explanation
Indices: 4323934--4323979 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
4323924 AAATCTTTTA
4323934 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
4323955 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
4323975 CAAAA
1 CAAAA
4323980 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:4325475 original size:23 final size:21
Alignment explanation
Indices: 4325433--4325476 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
4325423 GTTTAATGTT
**
4325433 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
4325454 TTTGCATTGTACTTTGAATTTTA
1 TTTGC-TTG-ACTTTGAATTTTA
4325477 ATCTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.59
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:4325722 original size:18 final size:18
Alignment explanation
Indices: 4325699--4325737 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
4325689 TAAGGGGGAG
4325699 AATGTACGAATTCGTTAA
1 AATGTACGAATTCGTTAA
*
4325717 AATGTACGAATTTGTTAA
1 AATGTACGAATTCGTTAA
4325735 AAT
1 AAT
4325738 TATTTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (18 bp):
AATGTACGAATTCGTTAA
Found at i:4327066 original size:13 final size:13
Alignment explanation
Indices: 4327048--4327073 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4327038 CAATTTTTTG
4327048 TGTATCGATACAT
1 TGTATCGATACAT
4327061 TGTATCGATACAT
1 TGTATCGATACAT
4327074 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4327138 original size:21 final size:21
Alignment explanation
Indices: 4327112--4327187 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
4327102 CTGCCAAGAA
*
4327112 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
4327133 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
4327153 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
4327174 ATGTATCGATACAT
1 ATGTATCGATACAT
4327188 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:4327158 original size:20 final size:20
Alignment explanation
Indices: 4327133--4327205 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
4327123 CATCTTTTTT
4327133 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
4327153 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
4327174 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
4327194 ATGTATCGATAC
1 ATGTATCGATAC
4327206 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:4327169 original size:41 final size:41
Alignment explanation
Indices: 4327112--4327205 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
4327102 CTGCCAAGAA
*
4327112 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
4327153 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
4327194 ATGTATCGATAC
1 ATGTATCGATAC
4327206 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:4329631 original size:13 final size:13
Alignment explanation
Indices: 4329613--4329650 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
4329603 ATAAACACCC
4329613 TGTATCGATACAG
1 TGTATCGATACAG
*
4329626 TGTATCGATACAT
1 TGTATCGATACAG
4329639 TGTATCGATACA
1 TGTATCGATACA
4329651 AATAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:4331752 original size:15 final size:15
Alignment explanation
Indices: 4331732--4331762 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4331722 ATTTCGTTTG
*
4331732 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
4331747 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
4331762 G
1 G
4331763 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:4333598 original size:21 final size:21
Alignment explanation
Indices: 4333569--4333613 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4333559 AAGTTTTCAT
*
4333569 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
4333589 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
4333611 TTT
1 TTT
4333614 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:4335857 original size:13 final size:13
Alignment explanation
Indices: 4335839--4335864 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4335829 CAATTTTTTG
4335839 TGTATCGATACAT
1 TGTATCGATACAT
4335852 TGTATCGATACAT
1 TGTATCGATACAT
4335865 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4335929 original size:21 final size:21
Alignment explanation
Indices: 4335903--4335978 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
4335893 CTGCCAAGAA
*
4335903 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
4335924 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
4335944 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
4335965 ATGTATCGATACAT
1 ATGTATCGATACAT
4335979 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:4335949 original size:20 final size:20
Alignment explanation
Indices: 4335924--4335996 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
4335914 CATCTTTTTT
4335924 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
4335944 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
4335965 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
4335985 ATGTATCGATAC
1 ATGTATCGATAC
4335997 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:4335960 original size:41 final size:41
Alignment explanation
Indices: 4335903--4335996 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
4335893 CTGCCAAGAA
*
4335903 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
4335944 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
4335985 ATGTATCGATAC
1 ATGTATCGATAC
4335997 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:4336408 original size:13 final size:13
Alignment explanation
Indices: 4336390--4336415 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4336380 TACACAAAGT
4336390 ATGTATCGATACA
1 ATGTATCGATACA
4336403 ATGTATCGATACA
1 ATGTATCGATACA
4336416 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4336413 original size:32 final size:33
Alignment explanation
Indices: 4336372--4336435 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
4336362 TAGCCAAACT
**
4336372 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
4336404 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
4336436 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:4337991 original size:43 final size:43
Alignment explanation
Indices: 4337943--4338029 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
4337933 TTAAAGTTAG
4337943 AATAAATAGTATAAATAACATAGTGTCCAATCAAAATGAGTAT
1 AATAAATAGTATAAATAACATAGTGTCCAATCAAAATGAGTAT
4337986 AATAAATAGTATAAATAACATAGTGTCCAATCAAAATGAGTAT
1 AATAAATAGTATAAATAACATAGTGTCCAATCAAAATGAGTAT
4338029 A
1 A
4338030 TTTAAATTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.28
Consensus pattern (43 bp):
AATAAATAGTATAAATAACATAGTGTCCAATCAAAATGAGTAT
Found at i:4338863 original size:26 final size:25
Alignment explanation
Indices: 4338834--4338935 Score: 114
Period size: 26 Copynumber: 3.9 Consensus size: 25
4338824 AGAATCCCAA
* * *
4338834 ATAAAGTTTAACTTTATTAATCTCGG
1 ATAAAGTTAAACTTTATCAATC-CAG
*
4338860 ATAAAGTTAAACTTTATTAATCCTAG
1 ATAAAGTTAAACTTTATCAATCC-AG
* *
4338886 ATAAAGTTGAATTTTATCAATCCCAG
1 ATAAAGTTAAACTTTATCAAT-CCAG
4338912 ATAAAGTTGAAACTTTATCAATCC
1 ATAAAGTT-AAACTTTATCAATCC
4338936 TATCATTATA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
25 1 0.02
26 52 0.79
27 13 0.20
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (25 bp):
ATAAAGTTAAACTTTATCAATCCAG
Found at i:4338902 original size:52 final size:53
Alignment explanation
Indices: 4338834--4338937 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 53
4338824 AGAATCCCAA
* * * * *
4338834 ATAAAGTTTAACTTTATTAATCTCGGATAAAGTT-AAACTTTATTAATCCTAG
1 ATAAAGTTGAACTTTATCAATCCCAGATAAAGTTGAAACTTTATCAATCCTAG
*
4338886 ATAAAGTTGAATTTTATCAATCCCAGATAAAGTTGAAACTTTATCAATCCTA
1 ATAAAGTTGAACTTTATCAATCCCAGATAAAGTTGAAACTTTATCAATCCTA
4338938 TCATTATAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
52 29 0.64
53 16 0.36
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (53 bp):
ATAAAGTTGAACTTTATCAATCCCAGATAAAGTTGAAACTTTATCAATCCTAG
Found at i:4341721 original size:20 final size:20
Alignment explanation
Indices: 4341677--4341750 Score: 67
Period size: 21 Copynumber: 3.6 Consensus size: 20
4341667 TTCTACAATT
* * *
4341677 TGTATTGATACAAACAGTAAA
1 TGTATCGATACATA-AGTGAA
4341698 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
* ***
4341718 TGTATTGATACATGCTTGAAA
1 TGTATCGATACATAAGTG-AA
4341739 TGTATCGATACA
1 TGTATCGATACA
4341751 AAACTACCAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 19 0.43
21 25 0.57
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:4342256 original size:33 final size:33
Alignment explanation
Indices: 4342214--4342279 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
4342204 ATGCTAGGAG
4342214 AGGGAAATGTCCTAAATACCTTTATTTTTGGTT
1 AGGGAAATGTCCTAAATACCTTTATTTTTGGTT
4342247 AGGGAAATGTCCTAAATACCTTTATTTTTGGTT
1 AGGGAAATGTCCTAAATACCTTTATTTTTGGTT
4342280 CCACAATCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.42
Consensus pattern (33 bp):
AGGGAAATGTCCTAAATACCTTTATTTTTGGTT
Found at i:4343496 original size:148 final size:148
Alignment explanation
Indices: 4343228--4343524 Score: 542
Period size: 148 Copynumber: 2.0 Consensus size: 148
4343218 ATCGGGTGTA
*
4343228 CTCTAACCCCATTCTTCCGAGGGGATACTCCAACCTCGCTTTAAACTTCTCAAGATTTAATTTTT
1 CTCTAACCCCATTCTTCCGAGGGGATACTCCAACCTCGCCTTAAACTTCTCAAGATTTAATTTTT
*
4343293 ATTTTGCTCAAATTATCTTCGTCGGGATATTCCAACCCTATTTCTCCGAGGGGATACTCCAACCC
66 ATTTTGCTCAAATTATCTTCGTCGGGATATTCCAACCCCATTTCTCCGAGGGGATACTCCAACCC
4343358 CGTTTTTCAACCAAAAAT
131 CGTTTTTCAACCAAAAAT
*
4343376 CTCTAACCCCATTCTTCCGAGGGGATACTCCAACCTCGCCTTAAACTTCTTAAGATTTAGA-TTT
1 CTCTAACCCCATTCTTCCGAGGGGATACTCCAACCTCGCCTTAAACTTCTCAAGATTTA-ATTTT
*
4343440 TATTTTGCTCAAATTATCTTCGTCGGGATATTCCAACCCCATTTTTCCGAGGGGATACTCCAACC
65 TATTTTGCTCAAATTATCTTCGTCGGGATATTCCAACCCCATTTCTCCGAGGGGATACTCCAACC
4343505 CCGTTTTTCAACCAAAAAT
130 CCGTTTTTCAACCAAAAAT
4343524 C
1 C
4343525 AAATTCTTTT
Statistics
Matches: 144, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
148 143 0.99
149 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (148 bp):
CTCTAACCCCATTCTTCCGAGGGGATACTCCAACCTCGCCTTAAACTTCTCAAGATTTAATTTTT
ATTTTGCTCAAATTATCTTCGTCGGGATATTCCAACCCCATTTCTCCGAGGGGATACTCCAACCC
CGTTTTTCAACCAAAAAT
Found at i:4348852 original size:135 final size:135
Alignment explanation
Indices: 4348610--4348880 Score: 524
Period size: 135 Copynumber: 2.0 Consensus size: 135
4348600 ATAAGCTTAA
*
4348610 GATTTTTATCAAGCGAACATCACAAACTTGGGGTAAATTTAATTTTCAGGTCTGGAAATTTGATT
1 GATTTTTATCAAGCGAACATCACAAACTTGGGGTAAATTTAATTTTCAGGTCTGAAAATTTGATT
4348675 AAATAAGGTTCAAAATTTTGATTTTCTAATCAAAATAGCCATGCACATGCTCCTAAAATGTTTGT
66 AAATAAGGTTCAAAATTTTGATTTTCTAATCAAAATAGCCATGCACATGCTCCTAAAATGTTTGT
4348740 GCCTT
131 GCCTT
4348745 GATTTTTATCAAGCGAACATCACAAACTTGGGGTAAATTTAATTTTCAGGTCTGAAAATTTGATT
1 GATTTTTATCAAGCGAACATCACAAACTTGGGGTAAATTTAATTTTCAGGTCTGAAAATTTGATT
*
4348810 AAATAAGGTTCAAAATTTTGATTTTCTAATCAAAATAGCCATGTACATGCTCCTAAAATGTTTGT
66 AAATAAGGTTCAAAATTTTGATTTTCTAATCAAAATAGCCATGCACATGCTCCTAAAATGTTTGT
4348875 GCCTT
131 GCCTT
4348880 G
1 G
4348881 CTTTGTGTCA
Statistics
Matches: 134, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 134 1.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (135 bp):
GATTTTTATCAAGCGAACATCACAAACTTGGGGTAAATTTAATTTTCAGGTCTGAAAATTTGATT
AAATAAGGTTCAAAATTTTGATTTTCTAATCAAAATAGCCATGCACATGCTCCTAAAATGTTTGT
GCCTT
Found at i:4355577 original size:15 final size:15
Alignment explanation
Indices: 4355557--4355604 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
4355547 TTTCCGCCAA
4355557 ATCCACCACAAAATC
1 ATCCACCACAAAATC
** *
4355572 ATCCACCACCTAATT
1 ATCCACCACAAAATC
* *
4355587 ACCCACCACTAAATC
1 ATCCACCACAAAATC
4355602 ATC
1 ATC
4355605 GATACACTGC
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.40, C:0.42, G:0.00, T:0.19
Consensus pattern (15 bp):
ATCCACCACAAAATC
Found at i:4361575 original size:13 final size:13
Alignment explanation
Indices: 4361558--4361605 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
4361548 CCTTCATACA
4361558 AAAAAAAACTAAA-
1 AAAAAAAAC-AAAC
*
4361571 AAAAAGAACAAAC
1 AAAAAAAACAAAC
*
4361584 ACAAAAAACAAAC
1 AAAAAAAACAAAC
4361597 AAACAAAAA
1 AAA-AAAAA
4361606 AGAAGGGTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 3 0.10
13 21 0.72
14 5 0.17
ACGTcount: A:0.81, C:0.15, G:0.02, T:0.02
Consensus pattern (13 bp):
AAAAAAAACAAAC
Found at i:4361591 original size:16 final size:16
Alignment explanation
Indices: 4361563--4361606 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
4361553 ATACAAAAAA
4361563 AAACTAAAAAAA-AGAAC
1 AAAC-AAAAAAACA-AAC
4361580 AAACACAAAAAACAAAC
1 AAACA-AAAAAACAAAC
4361597 AAACAAAAAA
1 AAACAAAAAA
4361607 GAAGGGTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 6 0.24
17 18 0.72
18 1 0.04
ACGTcount: A:0.80, C:0.16, G:0.02, T:0.02
Consensus pattern (16 bp):
AAACAAAAAAACAAAC
Found at i:4362956 original size:28 final size:28
Alignment explanation
Indices: 4362925--4362997 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 28
4362915 CACCTCTTTT
* * *
4362925 AAAGCCTACGAGTCAGTAGAATCCTTCC
1 AAAGCCCACGAGTCAATAGAATCCATCC
** *
4362953 AAAGCCCATTAGTCAATGGAATCCATCC
1 AAAGCCCACGAGTCAATAGAATCCATCC
* *
4362981 AAAGCCCATGATTCAAT
1 AAAGCCCACGAGTCAAT
4362998 GGCACCCTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (28 bp):
AAAGCCCACGAGTCAATAGAATCCATCC
Found at i:4362998 original size:28 final size:28
Alignment explanation
Indices: 4362943--4363129 Score: 142
Period size: 28 Copynumber: 6.6 Consensus size: 28
4362933 CGAGTCAGTA
*
4362943 GAATCCTTCCAAAGCCCATTAGTCAATG
1 GAATCCTTCCAAAGCCCATAAGTCAATG
* * *
4362971 GAATCCATCCAAAGCCCATGATTCAATG
1 GAATCCTTCCAAAGCCCATAAGTCAATG
* * *
4362999 GCACCCTTTCAAAGCCCATAAGTCAATG
1 GAATCCTTCCAAAGCCCATAAGTCAATG
* * ** **
4363027 GCACCCTTTTAAAGCCCACGAGTCAATG
1 GAATCCTTCCAAAGCCCATAAGTCAATG
* * *
4363055 GCA-CCTTCTCAAAGCCCACAAGTCAGTG
1 GAATCCTTC-CAAAGCCCATAAGTCAATG
* * * *
4363083 GCATCTTTCCAAAGCCCATGAGTTAATG
1 GAATCCTTCCAAAGCCCATAAGTCAATG
* * *
4363111 GCATTCTTTCAAAAGCCCA
1 G-AATCCTTCCAAAGCCCA
4363130 CGAGTTAGTG
Statistics
Matches: 132, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
27 4 0.03
28 110 0.83
29 18 0.14
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (28 bp):
GAATCCTTCCAAAGCCCATAAGTCAATG
Found at i:4363012 original size:56 final size:55
Alignment explanation
Indices: 4362947--4363214 Score: 205
Period size: 56 Copynumber: 4.8 Consensus size: 55
4362937 TCAGTAGAAT
* * * *
4362947 CCTTCCAAAGCCCATTAGTCAATGGAATCCATCCAAAGCCCATGATTCAATGGCA
1 CCTTTCAAAGCCCATAAGTCAATGGCATCCTTCCAAAGCCCATGATTCAATGGCA
* ** * *
4363002 CCCTTTCAAAGCCCATAAGTCAATGGCACCCTTTTAAAGCCCACGAGTCAATGGCA
1 -CCTTTCAAAGCCCATAAGTCAATGGCATCCTTCCAAAGCCCATGATTCAATGGCA
* * *
4363058 CCTTCTCAAAGCCCACAAGTCAGTGGCATCTTTCCAAAGCCCATGAGTT-AATGGCA
1 CCTT-TCAAAGCCCATAAGTCAATGGCATCCTTCCAAAGCCCATGA-TTCAATGGCA
* ** * * * * ** *
4363114 TTCTTTCAAAAGCCCACGAGTTAGTGGCATCCTTTCAAAATCCCACCAGTCAATGGCA
1 -CCTTTC-AAAGCCCATAAGTCAATGGCATCC-TTCCAAAGCCCATGATTCAATGGCA
* * ** * * *
4363172 CCTTTTAAAAGCCCCTAAGAGAGTGGCACCCTTTCAAAGCCCA
1 CC-TTTCAAAGCCCATAAGTCAATGGCATCCTTCCAAAGCCCA
4363215 CATAAATTGG
Statistics
Matches: 168, Mismatches: 37, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
55 4 0.02
56 98 0.58
57 45 0.27
58 21 0.12
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (55 bp):
CCTTTCAAAGCCCATAAGTCAATGGCATCCTTCCAAAGCCCATGATTCAATGGCA
Found at i:4363275 original size:28 final size:28
Alignment explanation
Indices: 4362997--4363525 Score: 409
Period size: 28 Copynumber: 18.4 Consensus size: 28
4362987 CATGATTCAA
* * *
4362997 TGGCACCCTTTCAAAGCCCATAAGTCAA
1 TGGCACCCTTTCAAAGCCCACAAGTTAG
* * * *
4363025 TGGCACCCTTTTAAAGCCCACGAGTCAA
1 TGGCACCCTTTCAAAGCCCACAAGTTAG
*
4363053 TGGCA-CCTTCTCAAAGCCCACAAGTCAG
1 TGGCACCCTT-TCAAAGCCCACAAGTTAG
* ** *
4363081 TGGCA-TCTTTCCAAAGCCCATGAGTTAA
1 TGGCACCCTTT-CAAAGCCCACAAGTTAG
** *
4363109 TGGCATTCTTTCAAAAGCCCACGAGTTAG
1 TGGCACCCTTTC-AAAGCCCACAAGTTAG
* * * * *
4363138 TGGCATCCTTTCAAAATCCCACCAGTCAA
1 TGGCACCCTTTC-AAAGCCCACAAGTTAG
* * **
4363167 TGGCACCTTTTAAAAGCCC-CTAAGAGAG
1 TGGCACCCTTTCAAAGCCCAC-AAGTTAG
* *
4363195 TGGCACCCTTTCAAAGCCCACATAAATTGG
1 TGGCACCCTTTCAAAGCCCAC--AAGTTAG
*
4363225 TGGCAACCTCTTTCAAAGCCCACAAGTCAG
1 TGGC-ACC-CTTTCAAAGCCCACAAGTTAG
* **
4363255 TGGCAACCCCTT-AAAGCCCACCCAAGTCGG
1 TGGC-ACCCTTTCAAAGCCCA--CAAGTTAG
* * *
4363285 TGGCAACCTCTCTCAAAGTCCACAAGTCAG
1 TGGC-ACC-CTTTCAAAGCCCACAAGTTAG
* *
4363315 TGGCACCTTTTCGAAGCCCACAAGTTAG
1 TGGCACCCTTTCAAAGCCCACAAGTTAG
* ** *
4363343 TAGCACCCTTTTGAAGCCTACAAGTTAG
1 TGGCACCCTTTCAAAGCCCACAAGTTAG
4363371 TGGCACCCTTTCAAAGCCCACAAGTTAG
1 TGGCACCCTTTCAAAGCCCACAAGTTAG
* *
4363399 TGGCATCCTTTCGAAGCCCACAAGTTAG
1 TGGCACCCTTTCAAAGCCCACAAGTTAG
* * * *
4363427 TGGCACCCTTTCGAAGCCTACAAATCAG
1 TGGCACCCTTTCAAAGCCCACAAGTTAG
* * *
4363455 TGGCATCCTTTTAAAGCACACAAGTTAG
1 TGGCACCCTTTCAAAGCCCACAAGTTAG
* *
4363483 TGGCAACCTTCTCTAAAGCCCACACAAGTTGG
1 TGGCACCCTT-TC-AAAG-CC-CACAAGTTAG
4363515 TGGCAACCCTT
1 TGGC-ACCCTT
4363526 CTAAACCCAA
Statistics
Matches: 411, Mismatches: 72, Indels: 31
0.80 0.14 0.06
Matches are distributed among these distances:
27 6 0.01
28 250 0.61
29 60 0.15
30 50 0.12
31 6 0.01
32 34 0.08
33 5 0.01
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (28 bp):
TGGCACCCTTTCAAAGCCCACAAGTTAG
Found at i:4363401 original size:84 final size:84
Alignment explanation
Indices: 4362890--4363506 Score: 431
Period size: 84 Copynumber: 7.2 Consensus size: 84
4362880 TCAATACGAC
* * * * * * *
4362890 CCTTTTCAAAGCCCAC-AGTCTGTGGCACCTCTTTTAAAGCCTACGAGTCAGTAGAATCCTTCCA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACC-CTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCA
** * * *
4362954 AAGCCCATTAGTCAATGGAA
65 AAGCCCACAAGTTAGTGGCA
* * ** * * * * * *
4362974 TCC-ATCCAAAGCCCATGATTCAATGGCACCCTTTCAAAGCCCATAAGTCAATGGCACCCTTTTA
1 -CCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCA
* * *
4363038 AAGCCCACGAGTCAATGGCA
65 AAGCCCACAAGTTAGTGGCA
* * * ** * * **
4363058 CCTTCTCAAAGCCCACAAGTCAGTGGCA-TCTTTCCAAAGCCCATGAGTTAATGGCATTCTTTCA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTT-TAAAGCCCACAAGTCAGTGGCACCCTTTC-
*
4363122 AAAGCCCACGAGTTAGTGGCA
64 AAAGCCCACAAGTTAGTGGCA
* * * **
4363143 TCC-TTTCAAAATCCCACCAGTCAATGGCA-CCTTTTAAAAGCCC-CTAAGAGAGTGGCACCCTT
1 -CCTTTTC-AAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCAC-AAGTCAGTGGCACCCTT
* *
4363205 TCAAAGCCCACATAAATTGGTGGCAA
62 TCAAAGCCCAC--AAGTTAGTGGC-A
* *
4363231 CCTCTTTCAAAGCCCACAAGTCAGTGGCAACCC-CTTAAAGCCCACCCAAGTCGGTGGCAACCTC
1 CCT-TTTCAAAGCCCACAAGTCAGTGGC-ACCCTTTTAAAGCCCA--CAAGTCAGTGGC-ACC-C
* * *
4363295 TCTCAAAGTCCACAAGTCAGTGGCA
60 TTTCAAAGCCCACAAGTTAGTGGCA
* * * * * *
4363320 CCTTTTCGAAGCCCACAAGTTAGTAGCACCCTTTTGAAGCCTACAAGTTAGTGGCACCCTTTCAA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAA
4363385 AGCCCACAAGTTAGTGGCA
66 AGCCCACAAGTTAGTGGCA
* * ** * * * *
4363404 TCC-TTTCGAAGCCCACAAGTTAGTGGCACCCTTTCGAAGCCTACAAATCAGTGGCATCCTTTTA
1 -CCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCA
*
4363468 AAGCACACAAGTTAGTGGCAA
65 AAGCCCACAAGTTAGTGGC-A
*
4363489 CCTTCTCTAAAGCCCACA
1 CCTTTTC-AAAGCCCACA
4363507 CAAGTTGGTG
Statistics
Matches: 425, Mismatches: 82, Indels: 49
0.76 0.15 0.09
Matches are distributed among these distances:
83 6 0.01
84 191 0.45
85 52 0.12
86 63 0.15
87 14 0.03
88 54 0.13
89 11 0.03
90 18 0.04
91 4 0.01
92 12 0.03
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (84 bp):
CCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAA
AGCCCACAAGTTAGTGGCA
Found at i:4364472 original size:20 final size:20
Alignment explanation
Indices: 4364447--4364523 Score: 100
Period size: 20 Copynumber: 3.9 Consensus size: 20
4364437 TTTTATCCAG
4364447 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
4364467 ATGTATCAATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
4364487 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
4364507 ATGTATCCATACATTTT
1 ATGTATCGATACATTTT
4364524 GTTTTTTTAC
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:4368131 original size:20 final size:20
Alignment explanation
Indices: 4368106--4368160 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
4368096 CGACATCTGC
* *
4368106 ATGTATTGATACATCGAATA
1 ATGTATCGATACATCAAATA
4368126 ATGTATCGATACATCAAATA
1 ATGTATCGATACATCAAATA
4368146 ATGTATCGATACATC
1 ATGTATCGATACATC
4368161 TAGGTAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATCAAATA
Found at i:4369093 original size:61 final size:61
Alignment explanation
Indices: 4368994--4369114 Score: 154
Period size: 61 Copynumber: 2.0 Consensus size: 61
4368984 TAAGTATGCA
** ** *
4368994 AAGAATGATATTGGTGCCAATATGCTGGTTCATAGCCAACAATATCAGGCTTGAAGATGAG
1 AAGAATGATAAGGGTGCCAATATGCTAATTCATAGCCAACAATATCAGGCTTAAAGATGAG
* **
4369055 AAGAATGATAAGGGTGCCAATATGCTAATTCA-AGGCCAACGATATTGGGCTTAAAGATGA
1 AAGAATGATAAGGGTGCCAATATGCTAATTCATA-GCCAACAATATCAGGCTTAAAGATGA
4369115 CAAAGGTGCC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 1 0.02
61 50 0.98
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (61 bp):
AAGAATGATAAGGGTGCCAATATGCTAATTCATAGCCAACAATATCAGGCTTAAAGATGAG
Found at i:4369211 original size:52 final size:52
Alignment explanation
Indices: 4369067--4369214 Score: 188
Period size: 52 Copynumber: 2.8 Consensus size: 52
4369057 GAATGATAAG
* * * *
4369067 GGTGCCAATATGCTAATTCAAGGCCAACGATATTGGGCTTAAAGATGACAAA
1 GGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGACAAA
* * * * ** *
4369119 GGTGCCAATGTGCTGATTCAAGGCTGGTGACATTAAACTTAAAGATGGCAAA
1 GGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGACAAA
*
4369171 TGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAG
1 GGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAG
4369215 GTACCAATGT
Statistics
Matches: 78, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
52 78 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (52 bp):
GGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGATGACAAA
Found at i:4369236 original size:43 final size:41
Alignment explanation
Indices: 4369175--4369325 Score: 121
Period size: 43 Copynumber: 3.6 Consensus size: 41
4369165 GGCAAATGTG
* *
4369175 CCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGGTA
1 CCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT-AA-GTA
* ** *
4369218 CCAATGTGCTGATTCAAGGCCAACGGCATTGGATTTGAAG-A
1 CCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT-AAGTA
** * *
4369259 TGAAGGTGCCAAT-ATTCAAGGCCAGCGATATTGGGCTT--GTA
1 CCAATGTG-C--TGATTCAAGGCCAGCGATATTGGACTTAAGTA
*
4369300 CCAATGTGCTGATTCAAGGCTAGCGA
1 CCAATGTGCTGATTCAAGGCCAGCGA
4369326 CATTAGTCTT
Statistics
Matches: 84, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
38 1 0.01
39 14 0.17
40 2 0.02
41 12 0.14
42 2 0.02
43 52 0.62
44 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (41 bp):
CCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAGTA
Found at i:4369353 original size:86 final size:83
Alignment explanation
Indices: 4369186--4369389 Score: 196
Period size: 82 Copynumber: 2.3 Consensus size: 83
4369176 CAATATGCTG
* * *
4369186 ATTCAAGGCTAGCGATATTGGACTTAAAGGTACCAATGTGCTGATTCAAGGCCAACGGCATTGGA
1 ATTCAAGGCCAGCGATATTGGACTT--A-GTACCAATGTGCTGATTCAAGGCCAACGACATTAGA
*
4369251 TTTGAAGATGAAGGTGCCAAT
63 TTTAAAGATGAAGGTGCCAAT
* * *
4369272 ATTCAAGGCCAGCGATATTGGGCTT-GTACCAATGTGCTGATTCAAGGCTAGCGACATTAG-TCT
1 ATTCAAGGCCAGCGATATTGGACTTAGTACCAATGTGCTGATTCAAGGCCAACGACATTAGAT-T
4369335 TAAAAGATGACAGGGGTGCCGATATGCT
65 T-AAAGATGA-A--GGTGCC-A-A---T
*
4369363 GATTCAAGGCCAACGATATTGGACTTA
1 -ATTCAAGGCCAGCGATATTGGACTTA
4369390 AGATGATAAA
Statistics
Matches: 97, Mismatches: 9, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
81 1 0.01
82 33 0.34
83 7 0.07
84 1 0.01
86 29 0.30
87 1 0.01
88 1 0.01
91 1 0.01
92 23 0.24
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (83 bp):
ATTCAAGGCCAGCGATATTGGACTTAGTACCAATGTGCTGATTCAAGGCCAACGACATTAGATTT
AAAGATGAAGGTGCCAAT
Found at i:4369390 original size:53 final size:51
Alignment explanation
Indices: 4369300--4369435 Score: 155
Period size: 51 Copynumber: 2.6 Consensus size: 51
4369290 TGGGCTTGTA
* * * * * **
4369300 CCAATGTGCTGATTCAAGGCTAGCGACATTAGTCTTAAAAGATGACAGGGGTG
1 CCAATATGCTGATTCAAGGCCAACGATATTAGACTT--AAGATGACAAAGGTG
* * * *
4369353 CCGATATGCTGATTCAAGGCCAACGATATTGGACTTAAGATGATAAAGTTG
1 CCAATATGCTGATTCAAGGCCAACGATATTAGACTTAAGATGACAAAGGTG
4369404 CCAATATGCTGATTCAAGGCCAACGATATTAG
1 CCAATATGCTGATTCAAGGCCAACGATATTAG
4369436 GCTTGTGCCA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
51 41 0.59
53 29 0.41
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (51 bp):
CCAATATGCTGATTCAAGGCCAACGATATTAGACTTAAGATGACAAAGGTG
Found at i:4369456 original size:39 final size:38
Alignment explanation
Indices: 4369402--4369552 Score: 140
Period size: 39 Copynumber: 3.6 Consensus size: 38
4369392 ATGATAAAGT
4369402 TGCCAATATGCTGATTCAAGGCCAACGATATTAGGCTTG
1 TGCCAATATGCTGATTCAAGGCCAACGATATT-GGCTTG
* * *
4369441 TGCCAATTTGCTGATTCAAGGACAACGACATTGGTCTTAAAGATGAAAG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGG-C-T-----T----G
*
4369490 TGCCAATATGCTAATTCAAGGCCAACGATATTGGGCTTG
1 TGCCAATATGCTGATTCAAGGCCAACGATATT-GGCTTG
*
4369529 TGCCAATGTGCTGATTCAAGGCCA
1 TGCCAATATGCTGATTCAAGGCCA
4369553 GTGACATTGG
Statistics
Matches: 91, Mismatches: 9, Indels: 24
0.73 0.07 0.19
Matches are distributed among these distances:
38 2 0.02
39 53 0.58
40 1 0.01
43 1 0.01
45 1 0.01
48 1 0.01
49 30 0.33
50 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (38 bp):
TGCCAATATGCTGATTCAAGGCCAACGATATTGGCTTG
Found at i:4369527 original size:88 final size:90
Alignment explanation
Indices: 4369350--4369569 Score: 320
Period size: 88 Copynumber: 2.5 Consensus size: 90
4369340 GATGACAGGG
* * *
4369350 GTGCCGATATGCTGATTCAAGGCCAACGATATTGGACTT-AAGATGATAAAGTTGCCAATATGCT
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGA-AAAGTTGCCAATATGCT
*
4369414 GATTCAAGGCCAACGATATTAGGCTT
65 AATTCAAGGCCAACGATATTAGGCTT
* *
4369440 GTGCCAATTTGCTGATTCAAGGACAACGACATTGGTCTTAAAGATG-AAAG-TGCCAATATGCTA
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAAAGTTGCCAATATGCTA
*
4369503 ATTCAAGGCCAACGATATTGGGCTT
66 ATTCAAGGCCAACGATATTAGGCTT
* **
4369528 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAA
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAA
4369570 ACATGATAGG
Statistics
Matches: 118, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
88 74 0.63
89 4 0.03
90 34 0.29
91 6 0.05
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (90 bp):
GTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAAAGTTGCCAATATGCTA
ATTCAAGGCCAACGATATTAGGCTT
Found at i:4369542 original size:231 final size:227
Alignment explanation
Indices: 4369172--4369672 Score: 659
Period size: 231 Copynumber: 2.2 Consensus size: 227
4369162 GATGGCAAAT
* *
4369172 GTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGGTACCAATGTGCTGATTCAAGG
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT--A-GTACCAATGTGCTGATTCAAGG
* * * * *
4369237 CCAACGGCATTGGATTTGAAGATGAAGGTGCCAATATTCAAGGCCAGCGATATTGGGCTTGTACC
63 ACAACGACATTGGATTTAAAGATGAAAGTGCCAATATTCAAGGCCAACGATATTGGGCTTGTACC
* * * *
4369302 AATGTGCTGATTCAAGGCTAGCGACATTAGTCTTAAAAGATGACAGGGGTGCCGATATGCTGATT
128 AATGTGCTGATTCAAGGCCAGCGACATTAGTCTTAAAACATGACAGGGGTACCAATATGCTGATT
4369367 C-AAGGCCAACGATATTGGACTTAAGATGATAAAG
193 CAAAGGCCAACGATATTGGACTTAAGATGATAAAG
* * *
4369401 TTGCCAATATGCTGATTCAAGGCCAACGATATTAGG-CTT-GTGCCAATTTGCTGATTCAAGGAC
1 GTGCCAATATGCTGATTCAAGGCCAACGATATT-GGACTTAGTACCAATGTGCTGATTCAAGGAC
4369464 AACGACATTGG-TCTTAAAGATGAAAGTGCCAATATGCTAATTCAAGGCCAACGATATTGGGCTT
65 AACGACATTGGAT-TTAAAGATGAAAGTGCC-A-A---T-ATTCAAGGCCAACGATATTGGGCTT
* * * *
4369528 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAACATGATAGGGGTACCAATATGC
123 GTACCAATGTGCTGATTCAAGGCCAGCGACATTAGTCTTAAAACATGACAGGGGTACCAATATGC
* * *
4369593 TGATTCAAATGCTAGCGATATTGGACTTAAGATGATAAAG
188 TGATTCAAAGGCCAACGATATTGGACTTAAGATGATAAAG
* * *
4369633 GTGCTAATATGTTGATTCAAGGCCAACAATATTGGACTTA
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
4369673 AAAAGAGATG
Statistics
Matches: 236, Mismatches: 25, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
224 1 0.00
225 46 0.19
226 1 0.00
227 1 0.00
229 33 0.14
230 3 0.01
231 89 0.38
232 62 0.26
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (227 bp):
GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAGTACCAATGTGCTGATTCAAGGACA
ACGACATTGGATTTAAAGATGAAAGTGCCAATATTCAAGGCCAACGATATTGGGCTTGTACCAAT
GTGCTGATTCAAGGCCAGCGACATTAGTCTTAAAACATGACAGGGGTACCAATATGCTGATTCAA
AGGCCAACGATATTGGACTTAAGATGATAAAG
Found at i:4369803 original size:27 final size:26
Alignment explanation
Indices: 4369756--4369933 Score: 113
Period size: 27 Copynumber: 6.3 Consensus size: 26
4369746 AGGTTCCATG
* *
4369756 GAGTTGTGGACTTCAACGGGTGCCAA
1 GAGTTGTGGACTTAAAAGGGTGCCAA
*
4369782 TGAGTTGTGGGCTTAAAAGGGTGCCACA
1 -GAGTTGTGGACTTAAAAGGGTGCCA-A
* *
4369810 GAGTTGTGGACTTAAAAGGTTGCCACG
1 GAGTTGTGGACTTAAAAGGGTGCCA-A
* *
4369837 GAGTTGTGAACTTTGAAAAGAAAAAGGTGCCAC
1 GAGTTGTGGAC-TT-AAAAG-----GGTGCCAA
* *** *
4369870 GAAATTACAGACTTAAAAGGGTGCTAGA
1 G-AGTTGTGGACTTAAAAGGGTGCCA-A
* *
4369898 GAGTTGTGAACTTAAAAGGGTGCTATA
1 GAGTTGTGGACTTAAAAGGGTGCCA-A
4369925 GAGTTGTGG
1 GAGTTGTGG
4369934 GCTTTGAAAA
Statistics
Matches: 118, Mismatches: 23, Indels: 20
0.73 0.14 0.12
Matches are distributed among these distances:
27 90 0.76
28 4 0.03
29 5 0.04
32 5 0.04
33 3 0.03
34 11 0.09
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.25
Consensus pattern (26 bp):
GAGTTGTGGACTTAAAAGGGTGCCAA
Found at i:4369867 original size:88 final size:88
Alignment explanation
Indices: 4369784--4369971 Score: 250
Period size: 88 Copynumber: 2.1 Consensus size: 88
4369774 GGTGCCAATG
* * *
4369784 AGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGTTGCCACGGAGTTGTGAACT
1 AGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGAACTTAAAAGGGTGCCACAGAGTTGTGAACT
4369849 TTGAAAAGAAAAAGGTGCCACGA
66 TTGAAAAGAAAAAGGTGCCACGA
* *** * * * * * **
4369872 AATTACAGACTTAAAAGGGTGCTAGAGAGTTGTGAACTTAAAAGGGTGCTATAGAGTTGTGGGCT
1 AGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGAACTTAAAAGGGTGCCACAGAGTTGTGAACT
4369937 TTGAAAAGAAAAAGGTGCCACGA
66 TTGAAAAGAAAAAGGTGCCACGA
4369960 AGTTGTGGGCTT
1 AGTTGTGGGCTT
4369972 TGGAAAGAAA
Statistics
Matches: 81, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.32, C:0.12, G:0.31, T:0.24
Consensus pattern (88 bp):
AGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGAACTTAAAAGGGTGCCACAGAGTTGTGAACT
TTGAAAAGAAAAAGGTGCCACGA
Found at i:4369964 original size:34 final size:34
Alignment explanation
Indices: 4369926--4369990 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
4369916 GGTGCTATAG
4369926 AGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGA
1 AGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGA
*
4369960 AGTTGTGGGCTTTGGAAAGAAAAAGGTGCCA
1 AGTTGTGGGCTTTGAAAAGAAAAAGGTGCCA
4369991 TGGAGTTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.34, C:0.11, G:0.34, T:0.22
Consensus pattern (34 bp):
AGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGA
Found at i:4370046 original size:27 final size:27
Alignment explanation
Indices: 4369980--4370199 Score: 101
Period size: 27 Copynumber: 7.9 Consensus size: 27
4369970 TTTGGAAAGA
* * *
4369980 AAAAGG-TGCCATGGAGTTATGGATTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
*
4370006 AAAACGATGCCACGGAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
* *
4370033 AAAAGGGTGTCACGGAG-TG-GG-CTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
* * * * *
4370057 AAAAGGATGCCATGAAATTATCGACTTTGAAAAT
1 AAAAGGATGCCACGGAGTTGTGGAC--T-----T
* *
4370091 AAAAAGG-TGCCACAGAGTTATGGACTT
1 -AAAAGGATGCCACGGAGTTGTGGACTT
* *
4370118 AAAAGGAAAATGTGCCATGGAATTGTGGACTT
1 AAAAGG---A--TGCCACGGAGTTGTGGACTT
*
4370150 AAAAGTG-TGCCACAGAGTTGTGGACTT
1 AAAAG-GATGCCACGGAGTTGTGGACTT
* * *
4370177 AAAAGGGTACCACGAAGTTGTGG
1 AAAAGGATGCCACGGAGTTGTGG
4370200 GCTTTGAAAA
Statistics
Matches: 145, Mismatches: 29, Indels: 39
0.68 0.14 0.18
Matches are distributed among these distances:
24 15 0.10
25 3 0.02
26 15 0.10
27 68 0.47
29 1 0.01
32 22 0.15
33 1 0.01
34 14 0.10
35 6 0.04
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (27 bp):
AAAAGGATGCCACGGAGTTGTGGACTT
Found at i:4370231 original size:34 final size:33
Alignment explanation
Indices: 4370177--4370635 Score: 408
Period size: 34 Copynumber: 14.0 Consensus size: 33
4370167 TTGTGGACTT
* * * *
4370177 AAAAGGGTACCACGAAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTGAAAAG
*
4370211 AAAAAGGTGCCATGGAGTTGTGGACTT-AACAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTGAA-AAG
* * *
4370244 GAAAAGGATGCCACGGAGTTGTGGGCTTTGAAAAA
1 AAAAAGG-TGCCACGGAGTTGTGGAC-TTGAAAAG
*
4370279 AAAAAGGTGCCATGGAGTTGTGGACTT-AAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTGAAAAG
* *
4370311 -----GGTGCC-TGGAGTTGTGGACTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTGAAAAG
* *
4370338 AAAAAGGTGCC-CAGAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTGAAAAG
* * *
4370371 AAAAAGGTGCCATGAAGTTGTGGACTT-AAATG
1 AAAAAGGTGCCACGGAGTTGTGGACTTGAAAAG
4370403 -AAAAGGATGCCACGGAGTTGTGGACTTTGAAAAG
1 AAAAAGG-TGCCACGGAGTTGTGGAC-TTGAAAAG
* * ** * *
4370437 GAAAATGTGCCACAAAATTGTGGACTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTGAAAAG
* *
4370470 AAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTGAAAAG
* *
4370504 -AAAAGGTGCCACGAAATTGTGGACTT-AAAATG
1 AAAAAGGTGCCACGGAGTTGTGGACTTGAAAA-G
* * * *
4370536 AAAAAGATGCCACGGAGTTATGGGCTTTGAAAAA
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTGAAAAG
4370570 AAAAAGGTGCCACGGAGTTGTGGACTT-AAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTGAAAAG
* * *
4370602 -AAAAGGATGCCACAGAGTTATAGACTTTGAAAAG
1 AAAAAGG-TGCCACGGAGTTGTGGAC-TTGAAAAG
4370636 GGAAAGCGCC
Statistics
Matches: 348, Mismatches: 53, Indels: 48
0.78 0.12 0.11
Matches are distributed among these distances:
26 15 0.04
27 11 0.03
31 16 0.05
32 64 0.18
33 105 0.30
34 116 0.33
35 19 0.05
36 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.21
Consensus pattern (33 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTGAAAAG
Found at i:4370320 original size:26 final size:27
Alignment explanation
Indices: 4370279--4370337 Score: 102
Period size: 26 Copynumber: 2.2 Consensus size: 27
4370269 CTTTGAAAAA
4370279 AAAAAGGTGCCATGGAGTTGTGGACTT
1 AAAAAGGTGCCATGGAGTTGTGGACTT
*
4370306 AAAAGGGTGCC-TGGAGTTGTGGACTT
1 AAAAAGGTGCCATGGAGTTGTGGACTT
4370332 AAAAAG
1 AAAAAG
4370338 AAAAAGGTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.32, C:0.10, G:0.34, T:0.24
Consensus pattern (27 bp):
AAAAAGGTGCCATGGAGTTGTGGACTT
Found at i:4370370 original size:33 final size:33
Alignment explanation
Indices: 4370319--4370635 Score: 301
Period size: 33 Copynumber: 9.6 Consensus size: 33
4370309 AGGGTGCCTG
*
4370319 GAGTTGTGGACTTAAAAAGAAAAAGGTGCC-CA
1 GAGTTGTGGACTTGAAAAGAAAAAGGTGCCACA
* *
4370351 GAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCA-T
1 GAGTTGTGGAC-TTGAAAAGAAAAAGGTGCCACA
* *
4370384 GAAGTTGTGGACTT-AAATG-AAAAGGATGCCACG
1 G-AGTTGTGGACTTGAAAAGAAAAAGG-TGCCACA
* *
4370417 GAGTTGTGGACTTTGAAAAGGAAAATGTGCCACA
1 GAGTTGTGGAC-TTGAAAAGAAAAAGGTGCCACA
* * *
4370451 AAATTGTGGACTTAAAAAGAAAAAGGTGCCACA
1 GAGTTGTGGACTTGAAAAGAAAAAGGTGCCACA
*
4370484 GAGTTGTGGGCTTTGAAAAG-AAAAGGTGCCAC-
1 GAGTTGTGGAC-TTGAAAAGAAAAAGGTGCCACA
* * *
4370516 GAAATTGTGGACTT-AAAATGAAAAAGATGCCACG
1 G-AGTTGTGGACTTGAAAA-GAAAAAGGTGCCACA
* * * *
4370550 GAGTTATGGGCTTTGAAAAAAAAAAGGTGCCACG
1 GAGTTGTGGAC-TTGAAAAGAAAAAGGTGCCACA
4370584 GAGTTGTGGACTT-AAAAG-AAAAGGATGCCACA
1 GAGTTGTGGACTTGAAAAGAAAAAGG-TGCCACA
* *
4370616 GAGTTATAGACTTTGAAAAG
1 GAGTTGTGGAC-TTGAAAAG
4370636 GGAAAGCGCC
Statistics
Matches: 235, Mismatches: 32, Indels: 34
0.78 0.11 0.11
Matches are distributed among these distances:
31 16 0.07
32 52 0.22
33 93 0.40
34 65 0.28
35 9 0.04
ACGTcount: A:0.39, C:0.11, G:0.28, T:0.21
Consensus pattern (33 bp):
GAGTTGTGGACTTGAAAAGAAAAAGGTGCCACA
Found at i:4370377 original size:66 final size:67
Alignment explanation
Indices: 4370320--4370635 Score: 410
Period size: 66 Copynumber: 4.8 Consensus size: 67
4370310 GGGTGCCTGG
*
4370320 AGTTGTGGACTTAAAAAGAAAAAGGTGCC-CAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCAT
1 AGTTGTGGACTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCAC
4370384 GA
66 GA
* * * * *
4370386 AGTTGTGGACTT-AAATG-AAAAGGATGCCACGGAGTTGTGGACTTTGAAAAGGAAAATGTGCCA
1 AGTTGTGGACTTAAAAAGAAAAAGG-TGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCA
*
4370449 CAA
65 CGA
*
4370452 AATTGTGGACTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAG-AAAAGGTGCCAC
1 AGTTGTGGACTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCAC
4370516 GA
66 GA
* * * * * *
4370518 AATTGTGGACTTAAAATGAAAAAGATGCCACGGAGTTATGGGCTTTGAAAAAAAAAAGGTGCCAC
1 AGTTGTGGACTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCAC
*
4370583 GG
66 GA
* * *
4370585 AGTTGTGGACTT-AAAAG-AAAAGGATGCCACAGAGTTATAGACTTTGAAAAG
1 AGTTGTGGACTTAAAAAGAAAAAGG-TGCCACAGAGTTGTGGGCTTTGAAAAG
4370636 GGAAAGCGCC
Statistics
Matches: 218, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
64 6 0.03
65 13 0.06
66 140 0.64
67 53 0.24
68 6 0.03
ACGTcount: A:0.39, C:0.11, G:0.28, T:0.22
Consensus pattern (67 bp):
AGTTGTGGACTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCAC
GA
Found at i:4370461 original size:158 final size:155
Alignment explanation
Indices: 4370057--4370596 Score: 497
Period size: 158 Copynumber: 3.4 Consensus size: 155
4370047 GAGTGGGCTT
* * * * * *
4370057 AAAAGGATGCCATGAAATTATCGACTTTGAAAATAAAAAGG-TGCCACAGAGTTATGGAC-TT-A
1 AAAAGG-TGCCATGAAGTTGTGGAC-TT-AAAATGAAAAGGATGCCACGGAGTTGTGGACTTTGA
*
4370119 AAAGGAAAATGTGCCATGGAATTGTGGACTTAAAAGTGTGCCACAGAGTTGTGGACTTAAAAGGG
63 AAAGGAAAATGTGCCATGGAATTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGG
4370184 TACCACGAAGTTGTGGGCTTTGAAAAGA
128 TACCACGAAGTTGTGGGCTTTGAAAAGA
* * *
4370212 AAAAGGTGCCATGGAGTTGTGGACTTAACAAGGAAAAGGATGCCACGGAGTTGTGGGCTTTGAAA
1 AAAAGGTGCCATGAAGTTGTGGACTTAA-AATGAAAAGGATGCCACGGAGTTGTGGACTTTGAAA
** * * **
4370277 AAAAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGGTGCC-TGGAGTTGTGGACTTAAAAAGAAA
65 AGGAAAATGTGCCATGGAATTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTT-AAAAG---
*
4370341 AAGGTGCC-C-AGAGTTGTGGGCTTTGAAAAGA
126 --GGTACCACGA-AGTTGTGGGCTTTGAAAAGA
4370372 AAAAGGTGCCATGAAGTTGTGGACTT-AAATGAAAAGGATGCCACGGAGTTGTGGACTTTGAAAA
1 AAAAGGTGCCATGAAGTTGTGGACTTAAAATGAAAAGGATGCCACGGAGTTGTGGACTTTGAAAA
*** *
4370436 GGAAAATGTGCCACAAAATTGTGGACTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAA
66 GGAAAATGTGCCATGGAATTGTGGACTT-AAAAG-----GGTGCCACAGAGTTGTGGAC-TT-AA
* * *
4370501 AAGAAAAGGTGCCACGAAATTGTGGAC-TT-AAAATGA
123 AAG----GGTACCACGAAGTTGTGGGCTTTGAAAA-GA
* * * * * **
4370537 AAAAGATGCCACGGAGTTATGGGCTTTGAAAAAAAAAAGG-TGCCACGGAGTTGTGGACTT
1 AAAAGGTGCCATGAAGTTGTGGAC-TT-AAAATGAAAAGGATGCCACGGAGTTGTGGACTT
4370597 AAAAGAAAAG
Statistics
Matches: 320, Mismatches: 40, Indels: 38
0.80 0.10 0.10
Matches are distributed among these distances:
152 2 0.01
153 10 0.03
154 29 0.09
155 21 0.07
156 43 0.13
158 56 0.17
159 7 0.02
160 46 0.14
161 5 0.02
164 10 0.03
165 43 0.13
166 18 0.06
167 21 0.07
168 9 0.03
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.22
Consensus pattern (155 bp):
AAAAGGTGCCATGAAGTTGTGGACTTAAAATGAAAAGGATGCCACGGAGTTGTGGACTTTGAAAA
GGAAAATGTGCCATGGAATTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTAC
CACGAAGTTGTGGGCTTTGAAAAGA
Found at i:4370564 original size:133 final size:133
Alignment explanation
Indices: 4370322--4370635 Score: 456
Period size: 132 Copynumber: 2.4 Consensus size: 133
4370312 GTGCCTGGAG
*
4370322 TTGTGGACTTAAAAAGAAAAAGGTGCC-CAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCATGA
1 TTGTGGACTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGA
* * * ** *
4370386 AGTTGTGGACTTAAATGAAAAGGATGCCACGGAGTTGTGGACTTTGAAAAGGAAAATGTGCCACA
66 AATTGTGGACTTAAATGAAAAAGATGCCACGGAGTTATGGACTTTGAAAAAAAAAAGGTGCCACA
4370451 AAA
131 AAA
4370454 TTGTGGACTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAG-AAAAGGTGCCACGA
1 TTGTGGACTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGA
*
4370518 AATTGTGGACTTAAAATGAAAAAGATGCCACGGAGTTATGGGCTTTGAAAAAAAAAAGGTGCCAC
66 AATTGTGGACTT-AAATGAAAAAGATGCCACGGAGTTATGGACTTTGAAAAAAAAAAGGTGCCAC
** *
4370583 GGAG
130 AAAA
* * *
4370587 TTGTGGACTT-AAAAG-AAAAGGATGCCACAGAGTTATAGACTTTGAAAAG
1 TTGTGGACTTAAAAAGAAAAAGG-TGCCACAGAGTTGTGGGCTTTGAAAAG
4370636 GGAAAGCGCC
Statistics
Matches: 165, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
131 6 0.04
132 80 0.48
133 79 0.48
ACGTcount: A:0.39, C:0.11, G:0.28, T:0.22
Consensus pattern (133 bp):
TTGTGGACTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGA
AATTGTGGACTTAAATGAAAAAGATGCCACGGAGTTATGGACTTTGAAAAAAAAAAGGTGCCACA
AAA
Found at i:4383405 original size:52 final size:52
Alignment explanation
Indices: 4383327--4383455 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
4383317 CGAAATATGA
* *
4383327 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
4383379 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
4383431 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
4383456 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:4383468 original size:52 final size:51
Alignment explanation
Indices: 4383327--4383475 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
4383317 CGAAATATGA
*
4383327 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
4383379 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
4383431 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
4383476 ATATATTGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:4383566 original size:33 final size:33
Alignment explanation
Indices: 4383529--4383595 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4383519 AGTAGCTCAA
4383529 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
4383562 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
4383595 A
1 A
4383596 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:4383569 original size:13 final size:13
Alignment explanation
Indices: 4383551--4383575 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4383541 CAAAAAAATA
4383551 TGTATCGATACAT
1 TGTATCGATACAT
4383564 TGTATCGATACA
1 TGTATCGATACA
4383576 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4384680 original size:33 final size:32
Alignment explanation
Indices: 4384645--4384794 Score: 96
Period size: 33 Copynumber: 4.7 Consensus size: 32
4384635 ATGGGCTTTA
4384645 AAAAGAAAAAGGTGCCACAAAGTTGTGGACTT
1 AAAAGAAAAAGGTGCCACAAAGTTGTGGACTT
** *
4384677 AAAAG-----GGTGCCACGGAGTTATGGACTT
1 AAAAGAAAAAGGTGCCACAAAGTTGTGGACTT
* *
4384704 AAAAGGAAAAAAGTGCCACGAAA-TTGTGGGCTTT
1 AAAA-GAAAAAGGTGCCAC-AAAGTTGTGGAC-TT
* * ** *
4384738 GAAAAGAAAAAGTTTCCACGGAGTTGTCGACTT
1 -AAAAGAAAAAGGTGCCACAAAGTTGTGGACTT
* * *
4384771 GAAAGAAAAAAGATGCCACCAAGT
1 AAAAG-AAAAAGGTGCCACAAAGT
4384795 CATGGATTTG
Statistics
Matches: 87, Mismatches: 20, Indels: 21
0.68 0.16 0.16
Matches are distributed among these distances:
27 23 0.26
28 1 0.01
32 9 0.10
33 30 0.34
34 20 0.23
35 4 0.05
ACGTcount: A:0.41, C:0.14, G:0.26, T:0.19
Consensus pattern (32 bp):
AAAAGAAAAAGGTGCCACAAAGTTGTGGACTT
Found at i:4384688 original size:27 final size:27
Alignment explanation
Indices: 4384650--4384709 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
4384640 CTTTAAAAAG
* *
4384650 AAAAAGGTGCCACAAAGTTGTGGACTT
1 AAAAGGGTGCCACAAAGTTATGGACTT
**
4384677 AAAAGGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACAAAGTTATGGACTT
4384704 AAAAGG
1 AAAAGG
4384710 AAAAAAGTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCACAAAGTTATGGACTT
Found at i:4384696 original size:61 final size:60
Alignment explanation
Indices: 4384533--4384732 Score: 188
Period size: 61 Copynumber: 3.3 Consensus size: 60
4384523 TAACCTATTA
* * *
4384533 GTGCCACACAATTGTGGACTTCAAAGGGTGCCACGAAGTTGT-GGATTTAAAAAGAAAAAAG
1 GTGCCACA-AATTGTGGACTTAAAAGGGTGCCACGAAGTTATGGGCTTTAAAAAG-AAAAAG
** * ** * * * *
4384594 GTTTCATGGAGGTTATGGACTTAAAAGGATACGACGAAGTTATGGGCTTTAAAAAGAAAAAG
1 GTGCCA--CAAATTGTGGACTTAAAAGGGTGCCACGAAGTTATGGGCTTTAAAAAGAAAAAG
* * * *
4384656 GTGCCACAAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGAC-TTAAAAGGAAAAAA
1 GTGCCACAAA-TTGTGGACTTAAAAGGGTGCCACGAAGTTATGGGCTTTAAAAAGAAAAAG
4384716 GTGCCACGAAATTGTGG
1 GTGCCAC-AAATTGTGG
4384733 GCTTTGAAAA
Statistics
Matches: 109, Mismatches: 25, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
60 26 0.24
61 36 0.33
62 35 0.32
63 12 0.11
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.23
Consensus pattern (60 bp):
GTGCCACAAATTGTGGACTTAAAAGGGTGCCACGAAGTTATGGGCTTTAAAAAGAAAAAG
Found at i:4384891 original size:64 final size:64
Alignment explanation
Indices: 4384810--4385106 Score: 213
Period size: 64 Copynumber: 4.7 Consensus size: 64
4384800 ATTTGGAAGG
* * * *
4384810 AAAAGGATGCCAGTGAGTTGTGGACTTGGAGAAGA-ATTGCCATTAAGCCGTGGACTTAGATGA-
1 AAAAGGATGCCACTGAGTCGTGGACTTGGAGAAGAGA-TGCCACTAAGCCGTGGACTTAG-GGAG
4384873 A
64 A
* * ** *
4384874 AAAAGGATGCTACTGAGTCGTGGAGTTGGAGAAGAGATGCCACTAAGTTGTGGACTTTGGGAGA
1 AAAAGGATGCCACTGAGTCGTGGACTTGGAGAAGAGATGCCACTAAGCCGTGGACTTAGGGAGA
* * * ** * * * *
4384938 AAAAGGATGCCACTAAGCCATTAACTTAGAAGAAAAAAGATGCCACTGAGTCGTGGACTT--GGA
1 AAAAGGATGCCACTGAGTCGTGGACTT-G--GAGAAGAGATGCCACTAAGCCGTGGACTTAGGGA
4385001 G-
63 GA
* * * * **
4385002 AAGA-GATGCCACTTG-GTCGTGGACTT-TAGGAAG-GATGCCA-TAGAGTCGTGGACCTA-AAA
1 AAAAGGATGCCAC-TGAGTCGTGGACTTGGA-GAAGAGATGCCACTA-AGCCGTGGACTTAGGGA
4385061 GGA
63 -GA
4385064 AAAA-GATGCCACTGAGTCGTGGACTTGGAGAAGAGATGCCACT
1 AAAAGGATGCCACTGAGTCGTGGACTTGGAGAAGAGATGCCACT
4385107 TGGTCGTGGA
Statistics
Matches: 183, Mismatches: 35, Indels: 30
0.74 0.14 0.12
Matches are distributed among these distances:
58 1 0.01
59 19 0.10
60 3 0.02
61 3 0.02
62 26 0.14
63 25 0.14
64 75 0.41
65 6 0.03
67 25 0.14
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (64 bp):
AAAAGGATGCCACTGAGTCGTGGACTTGGAGAAGAGATGCCACTAAGCCGTGGACTTAGGGAGA
Found at i:4384948 original size:34 final size:34
Alignment explanation
Indices: 4384774--4385120 Score: 127
Period size: 33 Copynumber: 10.9 Consensus size: 34
4384764 TCGACTTGAA
* * * *
4384774 AGAAAAAAGATGCCACCAAGTCATGGA-TTTGGA
1 AGAAAAAGGATGCCACTAAGTCGTGGACTTTGGG
* * * *
4384807 AGGAAAAGGATGCCAGTGAGTTGTGGAC-TT-GG
1 AGAAAAAGGATGCCACTAAGTCGTGGACTTTGGG
* * * * * *
4384839 AGAAGAA--TTGCCATTAAGCCGTGGACTTAGATG
1 AGAAAAAGGATGCCACTAAGTCGTGGACTTTG-GG
* * *
4384872 A-AAAAAGGATGCTACTGAGTCGTGGA-GTT-GG
1 AGAAAAAGGATGCCACTAAGTCGTGGACTTTGGG
* *
4384903 AG-AAGA-GATGCCACTAAGTTGTGGACTTTGGG
1 AGAAAAAGGATGCCACTAAGTCGTGGACTTTGGG
* * ** * *
4384935 AGAAAAAGGATGCCACTAAGCCATTAAC-TTAGA
1 AGAAAAAGGATGCCACTAAGTCGTGGACTTTGGG
* *
4384968 AGAAAAAAGATGCCACTGAGTCGTGGAC-TT-GG
1 AGAAAAAGGATGCCACTAAGTCGTGGACTTTGGG
* **
4385000 AG-AAGA-GATGCCACTTGGTCGTGGACTTT---
1 AGAAAAAGGATGCCACTAAGTCGTGGACTTTGGG
* * ***
4385029 AG--GAAGGATGCCA-TAGAGTCGTGGAC-CTAAA
1 AGAAAAAGGATGCCACTA-AGTCGTGGACTTTGGG
*
4385060 AGGAAAAA-GATGCCACTGAGTCGTGGAC-TT-GG
1 A-GAAAAAGGATGCCACTAAGTCGTGGACTTTGGG
* **
4385092 AG-AAGA-GATGCCACTTGGTCGTGGACTTT
1 AGAAAAAGGATGCCACTAAGTCGTGGACTTT
4385121 AGGAAGGATG
Statistics
Matches: 230, Mismatches: 62, Indels: 46
0.68 0.18 0.14
Matches are distributed among these distances:
28 3 0.01
29 18 0.08
30 69 0.30
31 17 0.07
32 19 0.08
33 73 0.32
34 31 0.13
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.22
Consensus pattern (34 bp):
AGAAAAAGGATGCCACTAAGTCGTGGACTTTGGG
Found at i:4384992 original size:97 final size:95
Alignment explanation
Indices: 4384773--4385146 Score: 365
Period size: 92 Copynumber: 4.0 Consensus size: 95
4384763 GTCGACTTGA
** * * * * * *
4384773 AAGAAAAAAGATGCCACCAAGTCATGGATTTGGAAGGAAAAGGATGCCAGTGAGTTGTGGAC-TT
1 AAGAAAAAAGATGCCACTGAGTCGTGGACTTGG-A-GAAGA-GATGCCACTTAGTCGTGGACTTT
*
4384837 GGAGAAGAA--TTGCCATTAAGCCGTGGACTTAG
63 GGAGAAGAAGGATGCCA-TAAGCCGTGGACTTAG
* * * * *
4384869 ATGAAAAAAGGATGCTACTGAGTCGTGGAGTTGGAGAAGAGATGCCACTAAGTTGTGGACTTTGG
1 AAGAAAAAA-GATGCCACTGAGTCGTGGACTTGGAGAAGAGATGCCACTTAGTCGTGGACTTT-G
* * **
4384934 GAGAAAAAGGATGCCACTAAGCCATTAACTTAG
64 GAGAAGAAGGATGCCA-TAAGCCGTGGACTTAG
*
4384967 AAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAGAAGAGATGCCACTTGGTCGTGGACTTT--A
1 AAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAGAAGAGATGCCACTTAGTCGTGGACTTTGGA
* * *
4385030 G--GAAGGATGCCATAGAGTCGTGGACCTAA
66 GAAGAAGGATGCCATA-AGCCGTGGACTTAG
* *
4385059 AAGGAAAAAGATGCCACTGAGTCGTGGACTTGGAGAAGAGATGCCACTTGGTCGTGGACTTT--A
1 AAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAGAAGAGATGCCACTTAGTCGTGGACTTTGGA
*
4385122 G--GAAGGATGCCATAGAGTCGTGGAC
66 GAAGAAGGATGCCATA-AGCCGTGGAC
4385147 CTTTGGAAAA
Statistics
Matches: 243, Mismatches: 29, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
91 2 0.01
92 105 0.43
94 20 0.08
95 6 0.02
96 17 0.07
97 67 0.28
98 26 0.11
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (95 bp):
AAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAGAAGAGATGCCACTTAGTCGTGGACTTTGGA
GAAGAAGGATGCCATAAGCCGTGGACTTAG
Found at i:4385026 original size:30 final size:31
Alignment explanation
Indices: 4384815--4385146 Score: 167
Period size: 30 Copynumber: 10.7 Consensus size: 31
4384805 GAAGGAAAAG
* *
4384815 GATGCCA-GTGAGTTGTGGACTTGGAGAAGA
1 GATGCCACTTGAGTCGTGGACTTGGAGAAGA
* * * *
4384845 -ATTGCCA-TTAAGCCGTGGACTTAGATGAAAAAA
1 GA-TGCCACTTGAGTCGTGGACTT-G--GAGAAGA
* *
4384878 GGATGCTAC-TGAGTCGTGGAGTTGGAGAAGA
1 -GATGCCACTTGAGTCGTGGACTTGGAGAAGA
* * *
4384909 GATGCCAC-TAAGTTGTGGACTTTGGGAGAAAAA
1 GATGCCACTTGAGTCGTGGAC-TT-GGAG-AAGA
* * * ** * *
4384942 GGATGCCAC-TAAGCCATTAACTTAGAAGAAAAAA
1 -GATGCCACTTGAGTCGTGGACTT-G--GAGAAGA
4384976 GATGCCAC-TGAGTCGTGGACTTGGAGAAGA
1 GATGCCACTTGAGTCGTGGACTTGGAGAAGA
*
4385006 GATGCCACTTG-GTCGTGGACTT-TAGGAAG-
1 GATGCCACTTGAGTCGTGGACTTGGA-GAAGA
* * *
4385035 GATGCCA-TAGAGTCGTGGACCTAAAAGGA-AAAA
1 GATGCCACTTGAGTCGTGGA-CT---TGGAGAAGA
4385068 GATGCCAC-TGAGTCGTGGACTTGGAGAAGA
1 GATGCCACTTGAGTCGTGGACTTGGAGAAGA
*
4385098 GATGCCACTTG-GTCGTGGACTT-TAGGAAG-
1 GATGCCACTTGAGTCGTGGACTTGGA-GAAGA
*
4385127 GATGCCA-TAGAGTCGTGGAC
1 GATGCCACTTGAGTCGTGGAC
4385147 CTTTGGAAAA
Statistics
Matches: 234, Mismatches: 41, Indels: 55
0.71 0.12 0.17
Matches are distributed among these distances:
28 4 0.02
29 37 0.16
30 88 0.38
31 12 0.05
32 9 0.04
33 46 0.20
34 35 0.15
35 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.22
Consensus pattern (31 bp):
GATGCCACTTGAGTCGTGGACTTGGAGAAGA
Found at i:4385091 original size:92 final size:92
Alignment explanation
Indices: 4384871--4385148 Score: 369
Period size: 92 Copynumber: 3.0 Consensus size: 92
4384861 GGACTTAGAT
* * ** *
4384871 GAAAAAAGGATGCTACTGAGTCGTGGAGTTGGAGAAGAGATGCCACTAAGTTGTGGACTTTGGGA
1 GAAAAAA-GATGCCACTGAGTCGTGGACTTGGAGAAGAGATGCCACTTGGTCGTGGACTTT---A
* * * ** * *
4384936 GAAAAAGGATGCCACTA-AGCCATTAACTTAGAA
62 G--GAAGGATGCCA-TAGAGTCGTGGACCTAAAA
4384969 GAAAAAAGATGCCACTGAGTCGTGGACTTGGAGAAGAGATGCCACTTGGTCGTGGACTTTAGGAA
1 GAAAAAAGATGCCACTGAGTCGTGGACTTGGAGAAGAGATGCCACTTGGTCGTGGACTTTAGGAA
4385034 GGATGCCATAGAGTCGTGGACCTAAAA
66 GGATGCCATAGAGTCGTGGACCTAAAA
*
4385061 GGAAAAAGATGCCACTGAGTCGTGGACTTGGAGAAGAGATGCCACTTGGTCGTGGACTTTAGGAA
1 GAAAAAAGATGCCACTGAGTCGTGGACTTGGAGAAGAGATGCCACTTGGTCGTGGACTTTAGGAA
4385126 GGATGCCATAGAGTCGTGGACCT
66 GGATGCCATAGAGTCGTGGACCT
4385149 TTGGAAAAAG
Statistics
Matches: 166, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
91 2 0.01
92 107 0.64
94 2 0.01
97 48 0.29
98 7 0.04
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.21
Consensus pattern (92 bp):
GAAAAAAGATGCCACTGAGTCGTGGACTTGGAGAAGAGATGCCACTTGGTCGTGGACTTTAGGAA
GGATGCCATAGAGTCGTGGACCTAAAA
Found at i:4386400 original size:16 final size:16
Alignment explanation
Indices: 4386345--4386406 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
4386335 CTTTTTCATC
* *
4386345 TTTTGTTGTTGTTGTT
1 TTTTTTTGTTTTTGTT
* *
4386361 TTTTTTGTGTGTGTGTT
1 TTTTTT-TGTTTTTGTT
*
4386378 TTGTTTTGTTTTTGTT
1 TTTTTTTGTTTTTGTT
*
4386394 TTTTTTTCTTTTT
1 TTTTTTTGTTTTT
4386407 TTGACTTTTT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
16 24 0.67
17 12 0.33
ACGTcount: A:0.00, C:0.02, G:0.19, T:0.79
Consensus pattern (16 bp):
TTTTTTTGTTTTTGTT
Found at i:4386406 original size:10 final size:10
Alignment explanation
Indices: 4386356--4386408 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
4386346 TTTGTTGTTG
4386356 TTGTTTTTTT
1 TTGTTTTTTT
* *
4386366 TGTGTGTGTGTT
1 T-TGT-TTTTTT
4386378 TTGTTTTGTTT
1 TTGTTTT-TTT
4386389 TTGTTTTTTT
1 TTGTTTTTTT
*
4386399 TTCTTTTTTT
1 TTGTTTTTTT
4386409 GACTTTTTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 15 0.43
11 15 0.43
12 5 0.14
ACGTcount: A:0.00, C:0.02, G:0.17, T:0.81
Consensus pattern (10 bp):
TTGTTTTTTT
Found at i:4393628 original size:13 final size:13
Alignment explanation
Indices: 4393612--4393637 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4393602 TAGGGTAGTT
4393612 TTGTATCGATACA
1 TTGTATCGATACA
4393625 TTGTATCGATACA
1 TTGTATCGATACA
4393638 AAACTTATGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4405175 original size:20 final size:20
Alignment explanation
Indices: 4405152--4405190 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
4405142 TGTAAAAGGA
4405152 AAAAAAACAACAAA-AAAAAT
1 AAAAAAACAA-AAACAAAAAT
4405172 AAAAAAACAAAAACAAAAA
1 AAAAAAACAAAAACAAAAA
4405191 AGCAAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.03
Consensus pattern (20 bp):
AAAAAAACAAAAACAAAAAT
Done.