Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 106 of 290
Found at i:36295545 original size:27 final size:27
Alignment explanation
Indices: 36295503--36295672 Score: 207
Period size: 27 Copynumber: 6.3 Consensus size: 27
36295493 GACCCCAGTT
** * *
36295503 TGTAAAATTATTGAAATACCACGGTAG
1 TGTAAAATTATCAAAATACCCCTGTAG
* *
36295530 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCAAAATACCCCTGTAG
* *
36295557 TGTTAAATTACCAAAATACCCCTGTAG
1 TGTAAAATTATCAAAATACCCCTGTAG
* *
36295584 TGTAAAATCACCAAAATACCCCTGTAG
1 TGTAAAATTATCAAAATACCCCTGTAG
*
36295611 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATTATCAAAATACCCCTGTAG
*
36295638 TGTAAAATTA-CTGAAATACCCCTGTAG
1 TGTAAAATTATC-AAAATACCCCTGTAG
*
36295665 GGTAAAAT
1 TGTAAAAT
36295673 GGCTATTTTT
Statistics
Matches: 126, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.01
27 125 0.99
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.29
Consensus pattern (27 bp):
TGTAAAATTATCAAAATACCCCTGTAG
Found at i:36295638 original size:81 final size:81
Alignment explanation
Indices: 36295516--36295672 Score: 251
Period size: 81 Copynumber: 1.9 Consensus size: 81
36295506 AAAATTATTG
* *
36295516 AAATACCACGGTAGTGTAAAATTATCGAAATACCCTTGTAGTGTTAAATTACCAAAATACCCCTG
1 AAATACCACGGTAGTGTAAAATTATCAAAATACCCTTGTAGTGTAAAATTACCAAAATACCCCTG
*
36295581 TAGTGTAAAATCACCA
66 TAGGGTAAAATCACCA
* * **
36295597 AAATACCCCTGTAGTGTAAAATTATCAAAATACCCTTGTAGTGTAAAATTACTGAAATACCCCTG
1 AAATACCACGGTAGTGTAAAATTATCAAAATACCCTTGTAGTGTAAAATTACCAAAATACCCCTG
36295662 TAGGGTAAAAT
66 TAGGGTAAAAT
36295673 GGCTATTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 69 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.28
Consensus pattern (81 bp):
AAATACCACGGTAGTGTAAAATTATCAAAATACCCTTGTAGTGTAAAATTACCAAAATACCCCTG
TAGGGTAAAATCACCA
Found at i:36297657 original size:7 final size:7
Alignment explanation
Indices: 36297647--36297675 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
36297637 ATGAATGATA
36297647 AGGGATG
1 AGGGATG
36297654 AGGGATG
1 AGGGATG
36297661 AGGGATG
1 AGGGATG
36297668 AGGGATG
1 AGGGATG
36297675 A
1 A
36297676 TTAGAAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.55, T:0.14
Consensus pattern (7 bp):
AGGGATG
Found at i:36297660 original size:21 final size:21
Alignment explanation
Indices: 36297636--36297675 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
36297626 AGGAGAGAAT
*
36297636 GATGAATGATAAGGGATGAGG
1 GATGAAGGATAAGGGATGAGG
* *
36297657 GATGAGGGATGAGGGATGA
1 GATGAAGGATAAGGGATGA
36297676 TTAGAAATGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.47, T:0.17
Consensus pattern (21 bp):
GATGAAGGATAAGGGATGAGG
Found at i:36298895 original size:25 final size:24
Alignment explanation
Indices: 36298867--36298916 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 24
36298857 TATGGCTCAA
36298867 GATATACTACTATGGCTCAACATAG
1 GATATA-TACTATGGCTCAACATAG
* *
36298892 G--ATATGCTATGGCTCGACATAG
1 GATATATACTATGGCTCAACATAG
36298914 GAT
1 GAT
36298917 GGGTTTCATG
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
22 17 0.81
23 3 0.14
25 1 0.05
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (24 bp):
GATATATACTATGGCTCAACATAG
Found at i:36308371 original size:43 final size:43
Alignment explanation
Indices: 36308201--36308372 Score: 145
Period size: 43 Copynumber: 4.0 Consensus size: 43
36308191 ACATAGGATT
* * * ** *
36308201 TCGATATGTGATTTCATGTAAGACCACGTCTCAGACGTTGCCA
1 TCGATATTTGATTACATGTAAGACCATGTCTGGGACGTTGGCA
* * * *
36308244 TCGAT-TTGAGATTTAC-TGTAAGACCATGTCTGGGACATCGACA
1 TCGATATT-TGA-TTACATGTAAGACCATGTCTGGGACGTTGGCA
* * * * *
36308287 TCG-TATTTGATTTCGTGTAAGACCTTGTTTGGGATAG-TGGCA
1 TCGATATTTGATTACATGTAAGACCATGTCTGGGA-CGTTGGCA
*
36308329 TCGATATTTGATTACATATAAGACCATGTCTGGGACGTTGGCA
1 TCGATATTTGATTACATGTAAGACCATGTCTGGGACGTTGGCA
36308372 T
1 T
36308373 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 23, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
41 3 0.03
42 28 0.28
43 65 0.66
44 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
TCGATATTTGATTACATGTAAGACCATGTCTGGGACGTTGGCA
Found at i:36313762 original size:40 final size:39
Alignment explanation
Indices: 36313686--36313766 Score: 108
Period size: 40 Copynumber: 2.1 Consensus size: 39
36313676 AACGACTTAC
**
36313686 CGGCTAAAATGGCACTTAGTGTGCGGTTCGAAATAGCTT
1 CGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCTT
* * *
36313725 CGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCTT
1 CGGCTAAAA-TGGCACTTAGTGTGCAATTCGAAATAGCTT
36313765 CG
1 CG
36313767 ACTATATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 9 0.25
40 27 0.75
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (39 bp):
CGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCTT
Found at i:36313824 original size:28 final size:28
Alignment explanation
Indices: 36313781--36313855 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
36313771 TATTTATATA
* * *
36313781 AATGGAACTTAATGTGC-AAAGTATCAAG
1 AATGGCACTTAGTGTGCGAAA-CATCAAG
* *
36313809 GATGGCACTTAGTGTGCGAAACATCCAG
1 AATGGCACTTAGTGTGCGAAACATCAAG
*
36313837 AATAGCACTTAGTGTGCGA
1 AATGGCACTTAGTGTGCGA
36313856 GGTATAGAGT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 36 0.92
29 3 0.08
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (28 bp):
AATGGCACTTAGTGTGCGAAACATCAAG
Found at i:36316657 original size:50 final size:50
Alignment explanation
Indices: 36316589--36316719 Score: 192
Period size: 50 Copynumber: 2.6 Consensus size: 50
36316579 TGATATGTGT
36316589 CAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGAAAAAAGGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGAAAAAA-GAGAGC
* * * * * *
36316639 CAGTGTAAGACCATGTCTGGGATATGGCATCGGCCTCTATATAAGAGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGAAAAAAGAGAGC
36316689 CAGTGTAAGACCATGTCTGGGACATGGCATC
1 CAGTGTAAGACCATGTCTGGGACATGGCATC
36316720 CACTCGATAT
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
50 67 0.92
51 6 0.08
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.21
Consensus pattern (50 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGAAAAAAGAGAGC
Found at i:36316790 original size:43 final size:44
Alignment explanation
Indices: 36316691--36316810 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 44
36316681 AAGAGAGTCA
36316691 GTGTAAGACCATGTCTGGGACATGGCATCCACTCGATATGTGATTAC
1 GTGTAAGACCATGTCTGGGACATGGCAT---CTCGATATGTGATTAC
* *
36316738 ATGTAAGACCATGTCTGGGACATTGGCAT-T-G-TATTGTGATTTC
1 GTGTAAGACCATGTCTGGGACA-TGGCATCTCGATA-TGTGATTAC
* *
36316781 GTGTAAGACCTTGTGTGGGACAGTGGCATC
1 GTGTAAGACCATGTCTGGGACA-TGGCATC
36316811 GATATAACAT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
42 2 0.03
43 34 0.53
44 1 0.02
47 21 0.33
48 6 0.09
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (44 bp):
GTGTAAGACCATGTCTGGGACATGGCATCTCGATATGTGATTAC
Found at i:36320384 original size:41 final size:41
Alignment explanation
Indices: 36320339--36320463 Score: 223
Period size: 41 Copynumber: 3.0 Consensus size: 41
36320329 GGTAAAAGTG
36320339 TGAATAAATTAAAAATATGGACTGATATGAGCATGTATAAA
1 TGAATAAATTAAAAATATGGACTGATATGAGCATGTATAAA
*
36320380 TGAATAAATTAAAAATATGGACTGATATGAGCATGTATGAA
1 TGAATAAATTAAAAATATGGACTGATATGAGCATGTATAAA
*
36320421 TGAATAAATTAAAAATATGGACTGATATGAGCATATATCAAA
1 TGAATAAATTAAAAATATGGACTGATATGAGCATGTAT-AAA
36320463 T
1 T
36320464 TCGGATAGCT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
41 77 0.96
42 3 0.04
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.30
Consensus pattern (41 bp):
TGAATAAATTAAAAATATGGACTGATATGAGCATGTATAAA
Found at i:36320879 original size:40 final size:39
Alignment explanation
Indices: 36320820--36320895 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 39
36320810 GACTTATCGG
36320820 CTAAAATGGCACTTAGTGTGCAATTCGAAATAGCTTCGA
1 CTAAAATGGCACTTAGTGTGCAATTCGAAATAGCTTCGA
* * *
36320859 CTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCTT
1 CTAAAA-TGGCACTTAGTGTGCAATTCGAAATAGCTT
36320896 TGGCTATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 6 0.18
40 27 0.82
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (39 bp):
CTAAAATGGCACTTAGTGTGCAATTCGAAATAGCTTCGA
Found at i:36326197 original size:26 final size:26
Alignment explanation
Indices: 36326166--36326218 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
36326156 GTGTCTATGG
*
36326166 ATTGAATTGAATGATTTTTTGAATAA
1 ATTGAATTGAATGATTTGTTGAATAA
36326192 ATTGAATTGAATGATTTGTTGAATAA
1 ATTGAATTGAATGATTTGTTGAATAA
36326218 A
1 A
36326219 AGAATTAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (26 bp):
ATTGAATTGAATGATTTGTTGAATAA
Found at i:36326686 original size:43 final size:42
Alignment explanation
Indices: 36326531--36326687 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 42
36326521 TGCATTTTCG
*
36326531 TGTAAGACCACGTCTGAGACGTTGGCATCA-ACTTATGATTTACA
1 TGTAAGACCATGTCTGAGACGTTGGCATCATA-TT-TGA-TTACA
* ** * * * ** * *
36326575 TGCAAGATGATGTGTGGGACATCAGCATCATATTTGATTTCG
1 TGTAAGACCATGTCTGAGACGTTGGCATCATATTTGATTACA
* *
36326617 TGTAAGACCCTATCTGGGAGA-G-TGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCT--GAGACGTTGGCATC-ATATTTGATTACA
36326660 TGTAAGACCATGTCTGAGACGTTGGCAT
1 TGTAAGACCATGTCTGAGACGTTGGCAT
36326688 TGTACAAGCT
Statistics
Matches: 82, Mismatches: 25, Indels: 13
0.68 0.21 0.11
Matches are distributed among these distances:
41 4 0.05
42 18 0.22
43 33 0.40
44 26 0.32
45 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGAGACGTTGGCATCATATTTGATTACA
Found at i:36337348 original size:19 final size:18
Alignment explanation
Indices: 36337320--36337359 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
36337310 ATGAAATTTT
36337320 AATTAGTATTATGAGATAA
1 AATTAGTATTATGAGA-AA
* *
36337339 AATTATTATTATTAGAAA
1 AATTAGTATTATGAGAAA
36337357 AAT
1 AAT
36337360 AATACTGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (18 bp):
AATTAGTATTATGAGAAA
Found at i:36344001 original size:27 final size:27
Alignment explanation
Indices: 36343970--36344147 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
36343960 TAAATTGTAC
36343970 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
36343997 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36344023 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
36344051 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
36344079 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36344106 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
36344133 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36344148 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:36344084 original size:82 final size:81
Alignment explanation
Indices: 36343971--36344126 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
36343961 AAATTGTACA
* *
36343971 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
36344035 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
36344052 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
36344117 TGCGAGTTGA
65 TGCGAATTGA
36344127 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:36344138 original size:82 final size:81
Alignment explanation
Indices: 36343967--36344147 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
36343957 GATTAAATTG
* *
36343967 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
36344032 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
36344048 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
36344112 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
36344130 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
36344148 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:36352191 original size:27 final size:27
Alignment explanation
Indices: 36352160--36352337 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
36352150 TAAATTGTAC
36352160 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
36352187 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36352213 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
36352241 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
36352269 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36352296 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
36352323 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36352338 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:36352274 original size:82 final size:81
Alignment explanation
Indices: 36352161--36352316 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
36352151 AAATTGTACA
* *
36352161 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
36352225 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
36352242 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
36352307 TGCGAGTTGA
65 TGCGAATTGA
36352317 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:36352328 original size:82 final size:81
Alignment explanation
Indices: 36352157--36352337 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
36352147 GATTAAATTG
* *
36352157 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
36352222 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
36352238 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
36352302 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
36352320 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
36352338 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:36359283 original size:133 final size:134
Alignment explanation
Indices: 36358945--36359344 Score: 766
Period size: 134 Copynumber: 3.0 Consensus size: 134
36358935 AACTAGCTCC
*
36358945 AGCTAGCCCGTACCTTCATTTTTGAATCTGTTAAAAATTTTAGAAGTTTCCATTGATGAATCCTG
1 AGCTAGTCCGTACCTTCATTTTTGAATCTGTTAAAAATTTTAGAAGTTTCCATTGATGAATCCTG
36359010 AA-TTTTTTTAATGAATACCATGTATTTGAAGCTTTGATTGTGTTGTTTAATGAATTTGTAAAGT
66 AATTTTTTTTAATGAATACCATGTATTTGAAGCTTTGATTGTGTTGTTTAATGAATTTGTAAAGT
36359074 GATA
131 GATA
36359078 AGCTAGTCCGTACCTTCATTTTTGAATCTGTTAAAAATTTTAGAAGTTTCCATTGATGAATCCTG
1 AGCTAGTCCGTACCTTCATTTTTGAATCTGTTAAAAATTTTAGAAGTTTCCATTGATGAATCCTG
*
36359143 AATTTTTTTTAATGAATACCATGTATTTGAAGCTTTGATTGTGTTGTTTAATGAATTTGTAGAGT
66 AATTTTTTTTAATGAATACCATGTATTTGAAGCTTTGATTGTGTTGTTTAATGAATTTGTAAAGT
36359208 GATA
131 GATA
36359212 AGCTAGTCCGTACCTTCATTTTTGAATCTGTTAAAAATTTTAGAAGTTTCCATTGATGAATCCTG
1 AGCTAGTCCGTACCTTCATTTTTGAATCTGTTAAAAATTTTAGAAGTTTCCATTGATGAATCCTG
*
36359277 AATTTTTTTTAATGAATACCATGTATTTGAAGCTTTGATTGTGTTGTTTAATGAATCTGTAAAGT
66 AATTTTTTTTAATGAATACCATGTATTTGAAGCTTTGATTGTGTTGTTTAATGAATTTGTAAAGT
36359342 GAT
131 GAT
36359345 TTTTGTTAGA
Statistics
Matches: 262, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
133 66 0.25
134 196 0.75
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (134 bp):
AGCTAGTCCGTACCTTCATTTTTGAATCTGTTAAAAATTTTAGAAGTTTCCATTGATGAATCCTG
AATTTTTTTTAATGAATACCATGTATTTGAAGCTTTGATTGTGTTGTTTAATGAATTTGTAAAGT
GATA
Found at i:36361603 original size:48 final size:48
Alignment explanation
Indices: 36361488--36361709 Score: 215
Period size: 48 Copynumber: 4.7 Consensus size: 48
36361478 GTAAGATTCT
* * * *
36361488 AATGCCATATCCCAGACATGGTCTTACATGGGATCACAAATCGAAGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATCGATGCC
* * * *
36361536 GAT---A-G-CCTAG-CTATGGTCTTACACGATG-TCTCATATCGATGCC
1 AATGCCATGTCCCAGAC-ATGGTCTTACATG-GGATCTCATATCGATGCC
* * * *
36361579 AATGCCATATCCCAGATATGGTCTTACATGGGATCACATGTCGATGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATCGATGCC
* * * *
36361627 AATTCCATGTCCCATACATGGTATTACATGGGATCTCATAACGATGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATCGATGCC
* *
36361675 AATGCCATGTCCTAGGCATGGTCTTACATGGGATC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGATC
36361710 ACACATAACC
Statistics
Matches: 136, Mismatches: 29, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
42 1 0.01
43 30 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 101 0.74
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (48 bp):
AATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATCGATGCC
Found at i:36364860 original size:46 final size:46
Alignment explanation
Indices: 36364810--36364982 Score: 212
Period size: 46 Copynumber: 3.7 Consensus size: 46
36364800 TGGTTGAGCA
36364810 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
36364856 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
36364901 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
36364949 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
36364983 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 8, Indels: 20
0.80 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.06
46 57 0.52
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:36364966 original size:93 final size:93
Alignment explanation
Indices: 36364807--36364977 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
36364797 GGATGGTTGA
* *
36364807 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
36364872 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
36364900 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
36364964 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
36364978 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 4 0.05
93 71 0.95
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:36369221 original size:68 final size:67
Alignment explanation
Indices: 36369149--36369298 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
36369139 CATCATGTGT
* * * *
36369149 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
36369211 ATGTAG
62 ATGTAG
** * *
36369217 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
36369282 AG
66 AG
36369284 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
36369299 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:36369254 original size:64 final size:64
Alignment explanation
Indices: 36369173--36369356 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
36369163 AGACATTATG
* *
36369173 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
36369237 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
36369302 AA
63 AA
* * * *
36369304 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
36369357 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:36370880 original size:13 final size:13
Alignment explanation
Indices: 36370862--36370888 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
36370852 TGTCTCAACT
36370862 GACTTTGGGACAC
1 GACTTTGGGACAC
36370875 GACTTTGGGACAC
1 GACTTTGGGACAC
36370888 G
1 G
36370889 GGCGTGTGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (13 bp):
GACTTTGGGACAC
Found at i:36371503 original size:89 final size:89
Alignment explanation
Indices: 36371388--36371565 Score: 329
Period size: 89 Copynumber: 2.0 Consensus size: 89
36371378 AAAGAAAATT
36371388 TCCTGGGATTTCTTTCAGAGTGAGTTGAAAAAGATGTATGGCGAGAAATGGTATCTAGACAAGAA
1 TCCTGGGATTTCTTTCAGAGTGAGTTGAAAAAGATGTATGGCGAGAAATGGTATCTAGACAAGAA
36371453 AAAGATAGAATTTCTTGAGTTATG
66 AAAGATAGAATTTCTTGAGTTATG
* * *
36371477 TCCTGGGATTTCTTTCAGAGTGAGTTGAAAATGATGTATGTCGGGAAATGGTATCTAGACAAGAA
1 TCCTGGGATTTCTTTCAGAGTGAGTTGAAAAAGATGTATGGCGAGAAATGGTATCTAGACAAGAA
36371542 AAAGATAGAATTTCTTGAGTTATG
66 AAAGATAGAATTTCTTGAGTTATG
36371566 ACAAGGAATT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 86 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (89 bp):
TCCTGGGATTTCTTTCAGAGTGAGTTGAAAAAGATGTATGGCGAGAAATGGTATCTAGACAAGAA
AAAGATAGAATTTCTTGAGTTATG
Found at i:36373873 original size:26 final size:26
Alignment explanation
Indices: 36373844--36373906 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 26
36373834 AGAGTATGCT
36373844 CCCTGATTATGTACC-CTGATGGGTAC
1 CCCTGATTATGTACCTC-GATGGGTAC
36373870 CCCTGATTATGTACCTCGATGGGTAC
1 CCCTGATTATGTACCTCGATGGGTAC
36373896 CCCTGATTATG
1 CCCTGATTATG
36373907 AATTGACAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 35 0.97
27 1 0.03
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.32
Consensus pattern (26 bp):
CCCTGATTATGTACCTCGATGGGTAC
Found at i:36377159 original size:39 final size:40
Alignment explanation
Indices: 36377064--36377325 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
36377054 TTGAATGATG
*
36377064 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
36377102 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
36377143 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
36377182 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
36377221 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
36377260 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
36377299 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
36377326 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:36384469 original size:18 final size:18
Alignment explanation
Indices: 36384429--36384490 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
36384419 CTTGGCCCAT
* *
36384429 TGCAGTAAAAGTAAATGG
1 TGCAGTAAAAGTAATTAG
* *
36384447 AGCAGTAATAGTAATTAG
1 TGCAGTAAAAGTAATTAG
* * *
36384465 TGCAGCAACAGTAATCAG
1 TGCAGTAAAAGTAATTAG
*
36384483 TACAGTAA
1 TGCAGTAA
36384491 CAGTTTAAAC
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.23
Consensus pattern (18 bp):
TGCAGTAAAAGTAATTAG
Found at i:36384492 original size:18 final size:18
Alignment explanation
Indices: 36384449--36384494 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
36384439 GTAAATGGAG
* * *
36384449 CAGTAATAGTAATTAGTG
1 CAGTAACAGTAATCAGTA
*
36384467 CAGCAACAGTAATCAGTA
1 CAGTAACAGTAATCAGTA
36384485 CAGTAACAGT
1 CAGTAACAGT
36384495 TTAAACAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (18 bp):
CAGTAACAGTAATCAGTA
Found at i:36384905 original size:26 final size:26
Alignment explanation
Indices: 36384851--36384975 Score: 137
Period size: 27 Copynumber: 4.7 Consensus size: 26
36384841 CCTCACATAG
*
36384851 GGGCAAAACAGTCAATTTACC-ATGCAA
1 GGGCAAAACAGTCATTTTACCTAT--AA
***
36384878 GGGCATTTCAGTCATTTTACCTATAA
1 GGGCAAAACAGTCATTTTACCTATAA
36384904 GGGCAAAACAGTCATTTTACCTCATAA
1 GGGCAAAACAGTCATTTTACCT-ATAA
* *
36384931 GAGCAAAACAGTCATTTTACC-ACATA
1 GGGCAAAACAGTCATTTTACCTATA-A
*
36384957 GGGCAAAATAGTCATTTTA
1 GGGCAAAACAGTCATTTTA
36384976 TTGATTACGG
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.02
26 39 0.46
27 41 0.49
28 2 0.02
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (26 bp):
GGGCAAAACAGTCATTTTACCTATAA
Found at i:36384923 original size:53 final size:52
Alignment explanation
Indices: 36384844--36384975 Score: 142
Period size: 53 Copynumber: 2.5 Consensus size: 52
36384834 ATAAATACCT
* * ***
36384844 CACATAGGGGCAAAACAGTCAATTTACCATGC-AAGGGCATTTCAGTCATTTTAC
1 CACATA-GGGCAAAACAGTCATTTTACC-T-CAAAGAGCAAAACAGTCATTTTAC
*
36384898 C-TATAAGGGCAAAACAGTCATTTTACCTCATAAGAGCAAAACAGTCATTTTAC
1 CACAT-AGGGCAAAACAGTCATTTTACCTCA-AAGAGCAAAACAGTCATTTTAC
*
36384951 CACATAGGGCAAAATAGTCATTTTA
1 CACATAGGGCAAAACAGTCATTTTA
36384976 TTGATTACGG
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
51 1 0.02
52 1 0.02
53 60 0.91
54 4 0.06
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (52 bp):
CACATAGGGCAAAACAGTCATTTTACCTCAAAGAGCAAAACAGTCATTTTAC
Found at i:36388788 original size:16 final size:16
Alignment explanation
Indices: 36388769--36388799 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36388759 CTTCTTCACT
36388769 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
36388785 TACTTACTTACTTAA
1 TACTCACTTACTTAA
36388800 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:36388805 original size:20 final size:20
Alignment explanation
Indices: 36388766--36388805 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
36388756 AAACTTCTTC
* *
36388766 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
36388786 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
36388806 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:36388916 original size:23 final size:24
Alignment explanation
Indices: 36388878--36388922 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
36388868 TTTGCTCTTC
*
36388878 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
36388902 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
36388923 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:36390920 original size:30 final size:29
Alignment explanation
Indices: 36390886--36390942 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
36390876 ATCGGAAGCT
*
36390886 TTGGCACTAAGTGTGTGATTTAAACTAGAC
1 TTGGCACTAAGTGTGCGATTT-AACTAGAC
36390916 TTGGCACTAAGTGTGCGATTTAACTAG
1 TTGGCACTAAGTGTGCGATTTAACTAG
36390943 CTTCGGCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (29 bp):
TTGGCACTAAGTGTGCGATTTAACTAGAC
Found at i:36400614 original size:28 final size:27
Alignment explanation
Indices: 36400551--36400702 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
36400541 ATATTAAGTC
* *
36400551 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
36400578 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
36400606 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
36400633 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
36400661 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
36400688 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36400703 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:36400635 original size:55 final size:55
Alignment explanation
Indices: 36400551--36400727 Score: 264
Period size: 55 Copynumber: 3.2 Consensus size: 55
36400541 ATATTAAGTC
* * *
36400551 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
36400606 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
36400661 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
36400717 CGCACACTTAG
1 CGCACACTTAG
36400728 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
55 95 0.86
56 16 0.14
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:36406430 original size:33 final size:33
Alignment explanation
Indices: 36406393--36406466 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 33
36406383 CCTACCAAGG
* * *
36406393 TCTTACACTCATAATGCCATAACCTAGTTATGA
1 TCTTACACTCAGAATGCCATAACCCAGCTATGA
* *
36406426 TCTTATCA-TCAGGATGCCATAGCCCAGCTATGA
1 TCTTA-CACTCAGAATGCCATAACCCAGCTATGA
*
36406459 TTTTACAC
1 TCTTACAC
36406467 ATATACATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
32 2 0.06
33 29 0.88
34 2 0.06
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (33 bp):
TCTTACACTCAGAATGCCATAACCCAGCTATGA
Found at i:36408174 original size:43 final size:43
Alignment explanation
Indices: 36408119--36408279 Score: 161
Period size: 43 Copynumber: 3.7 Consensus size: 43
36408109 TGCCAACGTA
* *
36408119 CCAGAC-GTGGTCTTACATGTAATCAAATATCGATGCCACTGTC
1 CCAGACAG-GGTCTTACACGAAATCAAATATCGATGCCACTGTC
* *
36408162 CCAAACAGGGTCTTACACGAAATCAAATAT-GATGCCAATGTC
1 CCAGACAGGGTCTTACACGAAATCAAATATCGATGCCACTGTC
* * *
36408204 CTAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-GTC
1 CCAGACAGGGTCTTACACG-AAATC-AAATATCGATGCC-ACTGTC
* *
36408248 CCAGAC-GTGGTCTTACATGAAATCACATATCG
1 CCAGACAG-GGTCTTACACGAAATCAAATATCG
36408280 GAATCCTATG
Statistics
Matches: 97, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
42 28 0.29
43 41 0.42
44 27 0.28
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
CCAGACAGGGTCTTACACGAAATCAAATATCGATGCCACTGTC
Found at i:36408249 original size:86 final size:85
Alignment explanation
Indices: 36408108--36408277 Score: 204
Period size: 86 Copynumber: 2.0 Consensus size: 85
36408098 AGCTCGTACA
* *
36408108 ATGCCAACGTACCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAAACAG-GG
1 ATGCCAACGTACCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAAAC-GTGG
36408172 TCTTACACGAAATCAAATATG
65 TCTTACACGAAATCAAATATG
* * *
36408193 ATGCCAATGT-CCTAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-GTCCCAGACG
1 ATGCCAACGTACC-AGACATGGTCTTACACGT-AATC-AAATATCGATGCC-ACTGTCCCAAACG
* *
36408255 TGGTCTTACATGAAATCACATAT
62 TGGTCTTACACGAAATCAAATAT
36408278 CGGAATCCTA
Statistics
Matches: 73, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
84 2 0.03
85 26 0.36
86 41 0.56
87 4 0.05
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (85 bp):
ATGCCAACGTACCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAAACGTGGT
CTTACACGAAATCAAATATG
Found at i:36410676 original size:39 final size:39
Alignment explanation
Indices: 36410642--36410738 Score: 142
Period size: 39 Copynumber: 2.5 Consensus size: 39
36410632 CCGGATTCCA
*
36410642 TTCCAGCACATA-CTCTGCGGACTTGAAGTCCGGATATAT
1 TTCCAGCACATAGC-CTGCGGACTTCAAGTCCGGATATAT
*
36410681 TTCCAGTACATAGCCTGCGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
* *
36410720 TCCCAGCATATAGCCTGCG
1 TTCCAGCACATAGCCTGCG
36410739 TGTAACACCC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
39 51 0.98
40 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
Found at i:36420966 original size:39 final size:39
Alignment explanation
Indices: 36420922--36421195 Score: 431
Period size: 39 Copynumber: 7.0 Consensus size: 39
36420912 CCGGATTCCA
* *
36420922 TTCCAGCACGTAGCCTACGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
36420961 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
36421000 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
36421039 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
36421078 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
* * * * *
36421117 TCCCAGCATATAGCCTGCGGACCTCATGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
* * * * * *
36421156 TCCCAGCATATAGCTTGCGGACCTCATGTCTGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
36421195 T
1 T
36421196 CCCGATATCA
Statistics
Matches: 225, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 225 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
Found at i:36423864 original size:13 final size:13
Alignment explanation
Indices: 36423846--36423881 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
36423836 TACTCGTAAA
36423846 CACATATCGAAGT
1 CACATATCGAAGT
36423859 CACATATCGAAGT
1 CACATATCGAAGT
36423872 CACATATCGA
1 CACATATCGA
36423882 TGCCATGGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (13 bp):
CACATATCGAAGT
Found at i:36435579 original size:13 final size:13
Alignment explanation
Indices: 36435561--36435588 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36435551 TATATATATA
36435561 AAAGAAACAAAAG
1 AAAGAAACAAAAG
36435574 AAAGAAACAAAAG
1 AAAGAAACAAAAG
36435587 AA
1 AA
36435589 TAAAAAGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAGAAACAAAAG
Found at i:36436382 original size:15 final size:14
Alignment explanation
Indices: 36436359--36436408 Score: 73
Period size: 15 Copynumber: 3.4 Consensus size: 14
36436349 TTTATTAAAT
36436359 TTATATTGATTGATA
1 TTATATTGATTGA-A
*
36436374 TTATTTTGATTGAA
1 TTATATTGATTGAA
36436388 TTTATATTGATTGAA
1 -TTATATTGATTGAA
36436403 TTATAT
1 TTATAT
36436409 AATATACATG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
14 7 0.22
15 25 0.78
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (14 bp):
TTATATTGATTGAA
Found at i:36436810 original size:23 final size:23
Alignment explanation
Indices: 36436780--36436866 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
36436770 GCTTTATCGA
* *
36436780 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
36436803 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
36436824 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
36436846 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
36436867 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:36439731 original size:5 final size:6
Alignment explanation
Indices: 36439715--36439741 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
36439705 CATTCCCTTG
36439715 ATTTTT ATTTTT ATTTTT ATTTTT ATT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATT
36439742 CCAACCTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:36441361 original size:47 final size:46
Alignment explanation
Indices: 36441310--36441404 Score: 109
Period size: 46 Copynumber: 2.0 Consensus size: 46
36441300 TAAGCACATT
* * *
36441310 TTTGTTTTGACAACTTAACTGCAACTATAGTGGCTCGACCACATATA
1 TTTGTTCTGACAACTTAACTG-AAATATAGTGGCTCGACCAAATATA
* * ** *
36441357 TTTGTTCTGATATCTTAGTTGAAATATAGTGGCTTGACCAAATATA
1 TTTGTTCTGACAACTTAACTGAAATATAGTGGCTCGACCAAATATA
36441403 TT
1 TT
36441405 CGATATGGTA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
46 24 0.60
47 16 0.40
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (46 bp):
TTTGTTCTGACAACTTAACTGAAATATAGTGGCTCGACCAAATATA
Found at i:36446330 original size:29 final size:29
Alignment explanation
Indices: 36446297--36446353 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
36446287 CTGTGTCACC
* *
36446297 CACACAGTCTCAG-ACATGCCCGTGTGGCT
1 CACACAGTCT-AGCACATGACCATGTGGCT
*
36446326 CACACGGTCTAGCACATGACCATGTGGC
1 CACACAGTCTAGCACATGACCATGTGGC
36446354 ATCGACAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.23, C:0.33, G:0.25, T:0.19
Consensus pattern (29 bp):
CACACAGTCTAGCACATGACCATGTGGCT
Found at i:36449472 original size:52 final size:52
Alignment explanation
Indices: 36449411--36449510 Score: 182
Period size: 52 Copynumber: 1.9 Consensus size: 52
36449401 CGCATACGAT
* *
36449411 TAACTCAGATTTTGAAGTTAGAGCTCCTCTATCTTTTTATTAATATCATCAC
1 TAACTCAGATTTTGAAGTCAGAGCTCCTCTATCTTGTTATTAATATCATCAC
36449463 TAACTCAGATTTTGAAGTCAGAGCTCCTCTATCTTGTTATTAATATCA
1 TAACTCAGATTTTGAAGTCAGAGCTCCTCTATCTTGTTATTAATATCA
36449511 CCACAAATGG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (52 bp):
TAACTCAGATTTTGAAGTCAGAGCTCCTCTATCTTGTTATTAATATCATCAC
Found at i:36450088 original size:19 final size:19
Alignment explanation
Indices: 36450064--36450102 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
36450054 TAAGAATCTT
*
36450064 ATCAAATTGAGTGTTACAA
1 ATCAAATTGAATGTTACAA
36450083 ATCAAATTGAATGTTACAA
1 ATCAAATTGAATGTTACAA
36450102 A
1 A
36450103 AATGTGTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (19 bp):
ATCAAATTGAATGTTACAA
Found at i:36473909 original size:24 final size:25
Alignment explanation
Indices: 36473857--36473915 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
36473847 TTTTAGAATA
*
36473857 TTTAGTATTTATTAGCATAATATAT
1 TTTAGTATTTATTAGCATAATAAAT
*
36473882 TTTA-TATTTATTAGTATAA-AAAT
1 TTTAGTATTTATTAGCATAATAAAT
*
36473905 CTTTATTATTT
1 -TTTAGTATTT
36473916 CTTTCTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 3 0.10
24 18 0.60
25 9 0.30
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (25 bp):
TTTAGTATTTATTAGCATAATAAAT
Found at i:36476160 original size:14 final size:14
Alignment explanation
Indices: 36476141--36476190 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
36476131 TGGTTATGGC
36476141 AGTTAGTAGTTAAT
1 AGTTAGTAGTTAAT
*
36476155 AGTTAG-AGCTTAGT
1 AGTTAGTAG-TTAAT
36476169 AGTTATGGTAGTT-AT
1 AGTTA--GTAGTTAAT
36476184 AGTTAGT
1 AGTTAGT
36476191 TAACTATTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
13 4 0.13
14 15 0.50
15 6 0.20
16 3 0.10
17 2 0.07
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.42
Consensus pattern (14 bp):
AGTTAGTAGTTAAT
Found at i:36482778 original size:23 final size:22
Alignment explanation
Indices: 36482726--36482778 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
36482716 TCCACGTCTT
*
36482726 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
36482748 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
36482771 TTTCTTTT
1 TTTCTTTT
36482779 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:36485132 original size:22 final size:23
Alignment explanation
Indices: 36485107--36485166 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
36485097 TGGACTGAAT
36485107 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
36485129 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
36485151 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
36485167 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:36485134 original size:4 final size:4
Alignment explanation
Indices: 36485116--36485149 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
36485106 TATAAAAATT
36485116 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
36485150 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:36488484 original size:40 final size:40
Alignment explanation
Indices: 36488427--36488509 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
36488417 ACATCTTCAG
* * *
36488427 TTGCACGTACTTTACCCGAGA-AACTTATGTGCATGGATTC
1 TTGCACGTACTTGACCCG-GACAACTTATATGCATGAATTC
36488467 TTGCACGTACTTGACCCGGACAACTTATATGCATGAATTC
1 TTGCACGTACTTGACCCGGACAACTTATATGCATGAATTC
36488507 TTG
1 TTG
36488510 TGTGCATGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
39 2 0.05
40 37 0.95
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (40 bp):
TTGCACGTACTTGACCCGGACAACTTATATGCATGAATTC
Found at i:36489005 original size:28 final size:28
Alignment explanation
Indices: 36488973--36489028 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
36488963 AGCTGTAAAA
36488973 AATTTATTTATCCTGCATGATATGAAGG
1 AATTTATTTATCCTGCATGATATGAAGG
36489001 AATTTATTTATCCTGCATGATATGAAGG
1 AATTTATTTATCCTGCATGATATGAAGG
36489029 CTAAGTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (28 bp):
AATTTATTTATCCTGCATGATATGAAGG
Found at i:36494323 original size:23 final size:23
Alignment explanation
Indices: 36494297--36494342 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
36494287 ATCATGGTTG
36494297 AATTTGGATGATAATCATCTCTT
1 AATTTGGATGATAATCATCTCTT
36494320 AATTTGGATGATAATCATCTCTT
1 AATTTGGATGATAATCATCTCTT
36494343 CTAGATATGA
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:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (23 bp):
AATTTGGATGATAATCATCTCTT
Found at i:36494637 original size:18 final size:19
Alignment explanation
Indices: 36494614--36494656 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
36494604 CAGGCAAGCC
36494614 TTTTG-AAGTAGTATTGTA
1 TTTTGTAAGTAGTATTGTA
36494632 TTTTGATTAAGTAGTATTGTA
1 TTTTG--TAAGTAGTATTGTA
36494653 TTTT
1 TTTT
36494657 TGGATGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.23
21 17 0.77
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (19 bp):
TTTTGTAAGTAGTATTGTA
Found at i:36496991 original size:46 final size:44
Alignment explanation
Indices: 36496898--36496991 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 44
36496888 ATTACAACAT
36496898 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
*
36496942 CATTCCATTCAACCAAACA-ATTGAATTACTGATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACT-ATTACAGTTCTATTC
36496988 CATT
1 CATT
36496992 ACAGCTCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 4 0.09
46 19 0.41
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:36496994 original size:16 final size:16
Alignment explanation
Indices: 36496973--36497044 Score: 99
Period size: 16 Copynumber: 4.5 Consensus size: 16
36496963 TGAATTACTG
36496973 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTCC
*
36496989 ATTACAGCTCTATTCC
1 ATTACAGTTCTATTCC
* *
36497005 ATTACAGCTCTATTCA
1 ATTACAGTTCTATTCC
* *
36497021 ATTACAGTCCTATTCT
1 ATTACAGTTCTATTCC
36497037 ATTACAGT
1 ATTACAGT
36497045 GAACCAAACG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:36497640 original size:31 final size:31
Alignment explanation
Indices: 36497605--36497674 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
36497595 ACCTAGTTAT
* *
36497605 CAAGTTTAGAAGCCAATGTGAACATACTTGC
1 CAAGTTCAGAAGCCAATGTGAACATACGTGC
* *
36497636 CAAGTTCAGGAGCCAATGTGAACATACGTGT
1 CAAGTTCAGAAGCCAATGTGAACATACGTGC
36497667 CAAGTTCA
1 CAAGTTCA
36497675 AGGGCCATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.24
Consensus pattern (31 bp):
CAAGTTCAGAAGCCAATGTGAACATACGTGC
Found at i:36498091 original size:15 final size:16
Alignment explanation
Indices: 36498071--36498113 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
36498061 TTTTAATTAA
36498071 ATAAATATAATTTA-T
1 ATAAATATAATTTATT
*
36498086 ATAAATATTATTTTATT
1 ATAAATA-TAATTTATT
*
36498103 TTAAATATAAT
1 ATAAATATAAT
36498114 GTTAAAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 7 0.30
16 9 0.39
17 7 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATAAATATAATTTATT
Found at i:36501137 original size:25 final size:26
Alignment explanation
Indices: 36501085--36501139 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
36501075 TATCTATTAC
36501085 TATTTGATTTTCAATAATTTTACTAT
1 TATTTGATTTTCAATAATTTTACTAT
36501111 TATTTGATTTT-AATAATATTTAC-AT
1 TATTTGATTTTCAATAAT-TTTACTAT
36501136 TATT
1 TATT
36501140 ATGAATGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 12 0.43
26 16 0.57
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (26 bp):
TATTTGATTTTCAATAATTTTACTAT
Found at i:36501687 original size:30 final size:30
Alignment explanation
Indices: 36501653--36501738 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
36501643 AAAACCCTAG
*
36501653 CCACCTTGCCTCCCAATTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
*
36501683 CCACCTTGCCTCCCACTTGCATCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
**
36501713 CCACCTTATCTCCCACTTGCACCTAC
1 CCACCTTGCCTCCCACTTGCACCTAC
36501739 ACCATCAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.19, C:0.50, G:0.06, T:0.26
Consensus pattern (30 bp):
CCACCTTGCCTCCCACTTGCACCTACTCCA
Found at i:36502239 original size:9 final size:9
Alignment explanation
Indices: 36502227--36502305 Score: 50
Period size: 9 Copynumber: 8.1 Consensus size: 9
36502217 GAGAGCTTTG
*
36502227 TTTTATTTT
1 TTTTATTAT
36502236 TTTTATTATT
1 TTTTATTA-T
36502246 TTTACTATTAT
1 TTT--TATTAT
*
36502257 TTATATTAT
1 TTTTATTAT
*
36502266 TATTATTAT
1 TTTTATTAT
*
36502275 TTCTCATGTAT
1 TT-TTAT-TAT
*
36502286 ATATTATTAT
1 -TTTTATTAT
*
36502296 TTATATTAT
1 TTTTATTAT
36502305 T
1 T
36502306 ATATTGTATA
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
9 29 0.54
10 10 0.19
11 9 0.17
12 6 0.11
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (9 bp):
TTTTATTAT
Found at i:36502246 original size:12 final size:12
Alignment explanation
Indices: 36502229--36502307 Score: 61
Period size: 12 Copynumber: 6.3 Consensus size: 12
36502219 GAGCTTTGTT
*
36502229 TTATTTTTTTTA
1 TTATTTTTATTA
*
36502241 TTATTTTTACTA
1 TTATTTTTATTA
*
36502253 TTATTTATATTA
1 TTATTTTTATTA
*
36502265 TTATTATTATT-
1 TTATTTTTATTA
*
36502276 TCTCATGTATATATTA
1 T-T-AT-T-TTTATTA
*
36502292 TTATTTATATTA
1 TTATTTTTATTA
36502304 TTAT
1 TTAT
36502308 ATTGTATATA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
11 1 0.02
12 41 0.76
13 3 0.06
14 3 0.06
15 5 0.09
16 1 0.02
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:36502290 original size:21 final size:18
Alignment explanation
Indices: 36502237--36502307 Score: 79
Period size: 18 Copynumber: 3.7 Consensus size: 18
36502227 TTTTATTTTT
* *
36502237 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
36502256 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
36502274 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
36502295 TTTATATTATTAT
1 TTTATATTATTAT
36502308 ATTGTATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
18 19 0.42
19 9 0.20
20 5 0.11
21 12 0.27
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:36502427 original size:30 final size:30
Alignment explanation
Indices: 36502393--36502478 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
36502383 AAAACCCTAG
*
36502393 CCACCTTGCCTCCCAATTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
*
36502423 CCACCTTGCCTCCCACTTGCATCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
**
36502453 CCACCTTATCTCCCACTTGCACCTAC
1 CCACCTTGCCTCCCACTTGCACCTAC
36502479 ACCATCAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.19, C:0.50, G:0.06, T:0.26
Consensus pattern (30 bp):
CCACCTTGCCTCCCACTTGCACCTACTCCA
Found at i:36502979 original size:9 final size:9
Alignment explanation
Indices: 36502967--36503045 Score: 50
Period size: 9 Copynumber: 8.1 Consensus size: 9
36502957 GAGAGCTTTG
*
36502967 TTTTATTTT
1 TTTTATTAT
36502976 TTTTATTATT
1 TTTTATTA-T
36502986 TTTACTATTAT
1 TTT--TATTAT
*
36502997 TTATATTAT
1 TTTTATTAT
*
36503006 TATTATTAT
1 TTTTATTAT
*
36503015 TTCTCATGTAT
1 TT-TTAT-TAT
*
36503026 ATATTATTAT
1 -TTTTATTAT
*
36503036 TTATATTAT
1 TTTTATTAT
36503045 T
1 T
36503046 ATATTGTATA
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
9 29 0.54
10 10 0.19
11 9 0.17
12 6 0.11
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (9 bp):
TTTTATTAT
Found at i:36502986 original size:12 final size:12
Alignment explanation
Indices: 36502969--36503047 Score: 61
Period size: 12 Copynumber: 6.3 Consensus size: 12
36502959 GAGCTTTGTT
*
36502969 TTATTTTTTTTA
1 TTATTTTTATTA
*
36502981 TTATTTTTACTA
1 TTATTTTTATTA
*
36502993 TTATTTATATTA
1 TTATTTTTATTA
*
36503005 TTATTATTATT-
1 TTATTTTTATTA
*
36503016 TCTCATGTATATATTA
1 T-T-AT-T-TTTATTA
*
36503032 TTATTTATATTA
1 TTATTTTTATTA
36503044 TTAT
1 TTAT
36503048 ATTGTATATA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
11 1 0.02
12 41 0.76
13 3 0.06
14 3 0.06
15 5 0.09
16 1 0.02
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:36503030 original size:21 final size:18
Alignment explanation
Indices: 36502977--36503047 Score: 79
Period size: 18 Copynumber: 3.7 Consensus size: 18
36502967 TTTTATTTTT
* *
36502977 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
36502996 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
36503014 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
36503035 TTTATATTATTAT
1 TTTATATTATTAT
36503048 ATTGTATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
18 19 0.42
19 9 0.20
20 5 0.11
21 12 0.27
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:36503057 original size:740 final size:740
Alignment explanation
Indices: 36501638--36503117 Score: 2960
Period size: 740 Copynumber: 2.0 Consensus size: 740
36501628 AAAAAAAAAA
36501638 AAGACAAAACCCTAGCCACCTTGCCTCCCAATTGCACCTACTCCACCACCTTGCCTCCCACTTGC
1 AAGACAAAACCCTAGCCACCTTGCCTCCCAATTGCACCTACTCCACCACCTTGCCTCCCACTTGC
36501703 ATCTACTCCACCACCTTATCTCCCACTTGCACCTACACCATCAAATGGAGAAGAGACATAGAATG
66 ATCTACTCCACCACCTTATCTCCCACTTGCACCTACACCATCAAATGGAGAAGAGACATAGAATG
36501768 ATAAGAAAATGTATGTAAGATGACTATAAAAGCAAAACCAAAAGTCCATTGTAAAAAAAAAAGGA
131 ATAAGAAAATGTATGTAAGATGACTATAAAAGCAAAACCAAAAGTCCATTGTAAAAAAAAAAGGA
36501833 AAGAATTGTATTTTTTAAAAGTTTTTTTGATACAAAAAAAGAGAAGAATGTAAAAGCAAAAGGTT
196 AAGAATTGTATTTTTTAAAAGTTTTTTTGATACAAAAAAAGAGAAGAATGTAAAAGCAAAAGGTT
36501898 TGCAAGCAAATCTGAAATAAAAAAAGCGAGTATTGAAAAAGAAAAGATTCAAACGCGTTAAGGTT
261 TGCAAGCAAATCTGAAATAAAAAAAGCGAGTATTGAAAAAGAAAAGATTCAAACGCGTTAAGGTT
36501963 TTTATTTCTTTTTTCTTTTTATTTTCACTTTTTTTATACATATAAACATTTTTTCTTTTTTTCTT
326 TTTATTTCTTTTTTCTTTTTATTTTCACTTTTTTTATACATATAAACATTTTTTCTTTTTTTCTT
36502028 TTCTTTCAAAAATAGTATACATATATTTAGATATAAAAATAAAAAAGAAAACAAAAAATAATACA
391 TTCTTTCAAAAATAGTATACATATATTTAGATATAAAAATAAAAAAGAAAACAAAAAATAATACA
36502093 TTTTTTAAATTTCTGGCCACCGCGCACGGTGGCCGGCGACGGCGGCAAAGAAGGCGGACGGCGCC
456 TTTTTTAAATTTCTGGCCACCGCGCACGGTGGCCGGCGACGGCGGCAAAGAAGGCGGACGGCGCC
36502158 GGTCCGGCGTCTGGGTACTGACCGGACCATGGTCGGAATGGGGAAAGAGGGAGAGAGTTGAGAGC
521 GGTCCGGCGTCTGGGTACTGACCGGACCATGGTCGGAATGGGGAAAGAGGGAGAGAGTTGAGAGC
36502223 TTTGTTTTATTTTTTTTATTATTTTTACTATTATTTATATTATTATTATTATTTCTCATGTATAT
586 TTTGTTTTATTTTTTTTATTATTTTTACTATTATTTATATTATTATTATTATTTCTCATGTATAT
36502288 ATTATTATTTATATTATTATATTGTATATACACTCTCTATATTTATTTATATTATTACTATCATT
651 ATTATTATTTATATTATTATATTGTATATACACTCTCTATATTTATTTATATTATTACTATCATT
36502353 ATTGTTACTTCTATTATTTTTTATC
716 ATTGTTACTTCTATTATTTTTTATC
36502378 AAGACAAAACCCTAGCCACCTTGCCTCCCAATTGCACCTACTCCACCACCTTGCCTCCCACTTGC
1 AAGACAAAACCCTAGCCACCTTGCCTCCCAATTGCACCTACTCCACCACCTTGCCTCCCACTTGC
36502443 ATCTACTCCACCACCTTATCTCCCACTTGCACCTACACCATCAAATGGAGAAGAGACATAGAATG
66 ATCTACTCCACCACCTTATCTCCCACTTGCACCTACACCATCAAATGGAGAAGAGACATAGAATG
36502508 ATAAGAAAATGTATGTAAGATGACTATAAAAGCAAAACCAAAAGTCCATTGTAAAAAAAAAAGGA
131 ATAAGAAAATGTATGTAAGATGACTATAAAAGCAAAACCAAAAGTCCATTGTAAAAAAAAAAGGA
36502573 AAGAATTGTATTTTTTAAAAGTTTTTTTGATACAAAAAAAGAGAAGAATGTAAAAGCAAAAGGTT
196 AAGAATTGTATTTTTTAAAAGTTTTTTTGATACAAAAAAAGAGAAGAATGTAAAAGCAAAAGGTT
36502638 TGCAAGCAAATCTGAAATAAAAAAAGCGAGTATTGAAAAAGAAAAGATTCAAACGCGTTAAGGTT
261 TGCAAGCAAATCTGAAATAAAAAAAGCGAGTATTGAAAAAGAAAAGATTCAAACGCGTTAAGGTT
36502703 TTTATTTCTTTTTTCTTTTTATTTTCACTTTTTTTATACATATAAACATTTTTTCTTTTTTTCTT
326 TTTATTTCTTTTTTCTTTTTATTTTCACTTTTTTTATACATATAAACATTTTTTCTTTTTTTCTT
36502768 TTCTTTCAAAAATAGTATACATATATTTAGATATAAAAATAAAAAAGAAAACAAAAAATAATACA
391 TTCTTTCAAAAATAGTATACATATATTTAGATATAAAAATAAAAAAGAAAACAAAAAATAATACA
36502833 TTTTTTAAATTTCTGGCCACCGCGCACGGTGGCCGGCGACGGCGGCAAAGAAGGCGGACGGCGCC
456 TTTTTTAAATTTCTGGCCACCGCGCACGGTGGCCGGCGACGGCGGCAAAGAAGGCGGACGGCGCC
36502898 GGTCCGGCGTCTGGGTACTGACCGGACCATGGTCGGAATGGGGAAAGAGGGAGAGAGTTGAGAGC
521 GGTCCGGCGTCTGGGTACTGACCGGACCATGGTCGGAATGGGGAAAGAGGGAGAGAGTTGAGAGC
36502963 TTTGTTTTATTTTTTTTATTATTTTTACTATTATTTATATTATTATTATTATTTCTCATGTATAT
586 TTTGTTTTATTTTTTTTATTATTTTTACTATTATTTATATTATTATTATTATTTCTCATGTATAT
36503028 ATTATTATTTATATTATTATATTGTATATACACTCTCTATATTTATTTATATTATTACTATCATT
651 ATTATTATTTATATTATTATATTGTATATACACTCTCTATATTTATTTATATTATTACTATCATT
36503093 ATTGTTACTTCTATTATTTTTTATC
716 ATTGTTACTTCTATTATTTTTTATC
36503118 TCTGACTACT
Statistics
Matches: 740, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
740 740 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (740 bp):
AAGACAAAACCCTAGCCACCTTGCCTCCCAATTGCACCTACTCCACCACCTTGCCTCCCACTTGC
ATCTACTCCACCACCTTATCTCCCACTTGCACCTACACCATCAAATGGAGAAGAGACATAGAATG
ATAAGAAAATGTATGTAAGATGACTATAAAAGCAAAACCAAAAGTCCATTGTAAAAAAAAAAGGA
AAGAATTGTATTTTTTAAAAGTTTTTTTGATACAAAAAAAGAGAAGAATGTAAAAGCAAAAGGTT
TGCAAGCAAATCTGAAATAAAAAAAGCGAGTATTGAAAAAGAAAAGATTCAAACGCGTTAAGGTT
TTTATTTCTTTTTTCTTTTTATTTTCACTTTTTTTATACATATAAACATTTTTTCTTTTTTTCTT
TTCTTTCAAAAATAGTATACATATATTTAGATATAAAAATAAAAAAGAAAACAAAAAATAATACA
TTTTTTAAATTTCTGGCCACCGCGCACGGTGGCCGGCGACGGCGGCAAAGAAGGCGGACGGCGCC
GGTCCGGCGTCTGGGTACTGACCGGACCATGGTCGGAATGGGGAAAGAGGGAGAGAGTTGAGAGC
TTTGTTTTATTTTTTTTATTATTTTTACTATTATTTATATTATTATTATTATTTCTCATGTATAT
ATTATTATTTATATTATTATATTGTATATACACTCTCTATATTTATTTATATTATTACTATCATT
ATTGTTACTTCTATTATTTTTTATC
Found at i:36503174 original size:12 final size:13
Alignment explanation
Indices: 36503127--36503179 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 13
36503117 CTCTGACTAC
*
36503127 TATTATTATATA-
1 TATTATTATGTAT
36503139 TA-TA-TATGTAT
1 TATTATTATGTAT
*
36503150 TATTGTT-TGTAT
1 TATTATTATGTAT
36503162 TATTATTAT-TAT
1 TATTATTATGTAT
36503174 TATTAT
1 TATTAT
36503180 CACCCCTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 5 0.15
11 4 0.12
12 23 0.68
13 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (13 bp):
TATTATTATGTAT
Found at i:36505470 original size:19 final size:19
Alignment explanation
Indices: 36505446--36505491 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
36505436 CTTCCTCTCT
*
36505446 TTTGCATT-CATTTCATGCA
1 TTTGCATTGCATTGCAT-CA
*
36505465 TTTGCATTGCATTGCATTA
1 TTTGCATTGCATTGCATCA
36505484 TTTGCATT
1 TTTGCATT
36505492 AGGCTTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (19 bp):
TTTGCATTGCATTGCATCA
Found at i:36513943 original size:88 final size:87
Alignment explanation
Indices: 36513828--36514059 Score: 349
Period size: 88 Copynumber: 2.6 Consensus size: 87
36513818 TGACCTTCGC
36513828 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGAGGAGCAGATCGAAGACATAGCTG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCG-GGAGCAGATCGAAGACATAGCTG
* *
36513893 ATTTGGTTTTCACGTGTTTACGT
65 ATTTGGCTTTCACGTGTTTACAT
*
36513916 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGTTG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGC-GGGAGCAGATCGAAGACATAGCTG
36513981 ATTTGGCTTTCACGTGTTTACAT
65 ATTTGGCTTTCACGTGTTTACAT
* * ** * *
36514004 TGAAACAAATCCAAGATGATTTGGTGTCTCTGTAGC-GGCGGAGAACAGATCGAAGA
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGG-GAGCAGATCGAAGA
36514060 TTGCAGATTT
Statistics
Matches: 133, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
86 2 0.02
87 16 0.12
88 114 0.86
89 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (87 bp):
TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGAGCAGATCGAAGACATAGCTGA
TTTGGCTTTCACGTGTTTACAT
Found at i:36514197 original size:88 final size:88
Alignment explanation
Indices: 36514047--36515024 Score: 463
Period size: 88 Copynumber: 11.1 Consensus size: 88
36514037 AGCGGCGGAG
* * * * *
36514047 AACAGATCGAAGATTGCAGATTTGGCATCCCTATGTTTATAGGGAA-AAGATCAAAGATAGCAGA
1 AACAGATCGAAGATTACAGA-TTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAA-ATAGCAGA
*
36514111 TCTGACATTCTC-GTGCTTACAGTAA
64 TCTGACATTCTCTGTGCTTACAG-GA
* *
36514136 AACAGATCGAAGATTTCAGCA-TGGCATCCCTATGCTTATAGGGAACAAGTTGAAAATAGCAGAT
1 AACAGATCGAAGATTACAG-ATTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGAT
* * * * *
36514200 TTGGCATCCT-TGTGCTTATAGGG
65 CTGACATTCTCTGTGCTTACAGGA
* * * * * * * * **
36514223 AATAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGC-AGATCGAAGATTTCAG
1 AACAGATCGAAGATTACAGAT-TGGCATCCCTGTGCTTATAGGGAA-CAAG-TTGAAAATAGCAG
* * * *
36514287 --CATGGCA-TCCCTGTGCTTATAGGG
63 ATC-TGACATTCTCTGTGCTTACAGGA
* * * * * *
36514311 AACA-AGTTGAAAATAACAGATTTGGCATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAACAG
1 AACAGA-TCGAAGATTACAGA-TTGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAATAGCAG
36514374 ATCTGACATTC-CTGTGCTTACAGTGA
63 ATCTGACATTCTCTGTGCTTACAG-GA
* * * * *
36514400 AGCAGATCGAAGATTTCAGCA-TGGTATCCCTGGGCTTATAGGGAACAAGTTAAAAATAGCAGAT
1 AACAGATCGAAGATTACAG-ATTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGAT
* * * * *
36514464 TTGGCA-TCCCTGTGCTTATAGGG
65 CTGACATTCTCTGTGCTTACAGGA
* * * * * * * **
36514487 AACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGC-AGATCGAAGATTTCAG
1 AACAGATCGAAGATTACAGAT-TGGCATCCCTGTGCTTATAGGGAA-CAAG-TTGAAAATAGCAG
** * * * *
36514551 --CATGGTA-TCCCTGGGCTTATAGGG
63 ATC-TGACATTCTCTGTGCTTACAGGA
* * * * * * **
36514575 AACA-AGT-TAAAAATAGCAGATTTGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGATAATA
1 AACAGA-TCGAAGATTA-CAGA-TTGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAATAGCA
36514637 GATCTGACATTC-CTGTGCTTACAGTGA
62 GATCTGACATTCTCTGTGCTTACAG-GA
* * * * *
36514664 AACAGATCGAAGATTTCA-ACATGGCATCCCTATGCTTATAGGGAACAAGTTGAAAATGGAAGAT
1 AACAGATCGAAGATTACAGA-TTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGAT
* * * * *
36514728 TTGGCA-TCCCTGTGCTTATAGGG
65 CTGACATTCTCTGTGCTTACAGGA
* * * * * * * * **
36514751 AACAGATCGAAGATAACAGATCTGACATTCATGTGCTTACAGTGAAGC-AGATCGAAGATTTCAG
1 AACAGATCGAAGATTACAGAT-TGGCATCCCTGTGCTTATAGGGAA-CAAG-TTGAAAATAGCAG
* * * * *
36514815 --CATGGCA-TCCCTGTACTTATAGGG
63 ATC-TGACATTCTCTGTGCTTACAGGA
* * * * * * *
36514839 AACA-AGTTGAAAATAACAGATTTGGCATCCCTGTGCTTATAGGGGAC-AGATCGAAGATAACAG
1 AACAGA-TCGAAGATTACAGA-TTGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAATAGCAG
*
36514902 ATCTGACATTC-ATGTGCTTACAGTGA
63 ATCTGACATTCTCTGTGCTTACAG-GA
* * * *
36514928 AGCAGATCGAAGATTTCAGCA-TGGCATCCCTGTACTTATAGGGAACAAGTTGAAAATAACAGAT
1 AACAGATCGAAGATTACAG-ATTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGAT
* * * * * *
36514992 TTGGCA-TCCCTGTGTTTATAGGG
65 CTGACATTCTCTGTGCTTACAGGA
36515015 AACAGATCGA
1 AACAGATCGA
36515025 CGATAGTAGA
Statistics
Matches: 689, Mismatches: 150, Indels: 102
0.73 0.16 0.11
Matches are distributed among these distances:
86 2 0.00
87 118 0.17
88 454 0.66
89 105 0.15
90 10 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (88 bp):
AACAGATCGAAGATTACAGATTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATC
TGACATTCTCTGTGCTTACAGGA
Found at i:36514236 original size:132 final size:132
Alignment explanation
Indices: 36514062--36515904 Score: 3050
Period size: 132 Copynumber: 14.1 Consensus size: 132
36514052 ATCGAAGATT
* * * * *
36514062 GCAGATTTGGCATCCCTATGTTTATAGGGAAAAGATCAAAGATAGCAGATCTGACATT-CTCGTG
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCT-GTG
* * *
36514126 CTTACAGTAAAACAGATCGAAGATTTCAGCATGGCATCCCTATGCTTATAGGGAACAAGTTGAAA
65 CTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAA
36514191 ATA
130 ATA
* *
36514194 GCAGATTTGGCATCCTTGTGCTTATAGGGAATAGATCGAAGATAACAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
36514259 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
36514324 TA
131 TA
*
36514326 ACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
* * *
36514391 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGTATCCCTGGGCTTATAGGGAACAAGTTAAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
36514456 TA
131 TA
36514458 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
* * *
36514523 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGTATCCCTGGGCTTATAGGGAACAAGTTAAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
36514588 TA
131 TA
* *
36514590 GCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAATAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
* * *
36514655 TTACAGTGAAACAGATCGAAGATTTCAACATGGCATCCCTATGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
*
36514720 TG
131 TA
* *
36514722 GAAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCATGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
*
36514787 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTACTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
36514852 TA
131 TA
* * *
36514854 ACAGATTTGGCATCCCTGTGCTTATAGGGGACAGATCGAAGATAACAGATCTGACATTCATGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
*
36514919 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTACTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
36514984 TA
131 TA
* * * ** *
36514986 ACAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGACGATAGTAGATCTAACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
* * *
36515051 TTACAGTGAAACAGATCGAAAATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTAAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
36515116 TA
131 TA
*
36515118 GCAGATTTGGCATCCCTGTGCTTAT---G----G---G--G--AACAGATTTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
* *
36515169 TTACAGTGAAGTAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
36515234 TA
131 TA
*
36515236 ACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
36515301 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
36515366 TA
131 TA
* * * * * *
36515368 ACAGATTTGACATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTAACATTCTTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
* * * *
36515433 TTACAGTGAAACAGATCGAAGATTTCAGTATGACATCCCTGTGCTTTTAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
36515498 TA
131 TA
36515500 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
*
36515565 TTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
36515630 TA
131 TA
*
36515632 ACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
36515697 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
36515762 TA
131 TA
*
36515764 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAACAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
*
36515829 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCATGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
36515894 TA
131 TA
*
36515896 ACAGATTTG
1 GCAGATTTG
36515905 ACCCCCTAAG
Statistics
Matches: 1607, Mismatches: 89, Indels: 30
0.93 0.05 0.02
Matches are distributed among these distances:
118 104 0.06
120 1 0.00
121 1 0.00
122 1 0.00
125 2 0.00
128 1 0.00
129 1 0.00
130 1 0.00
132 1493 0.93
133 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (132 bp):
GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
TA
Found at i:36515247 original size:44 final size:44
Alignment explanation
Indices: 36515147--36515904 Score: 632
Period size: 44 Copynumber: 17.2 Consensus size: 44
36515137 GCTTATGGGG
* * * * * *
36515147 AACAGATTTGACATTCCTGTGCTTACAGTGAAGTAGATCAAAGAT
1 AACAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
** * *
36515192 TTCAGCA--TGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAAT
1 AACAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
36515235 AACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
1 AACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * *
36515279 AACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
1 AACAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
** * *
36515324 TTCAGCA--TGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAAT
1 AACAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* *
36515367 AACAGATTTGACATCCCTGTGTTTATAGGGAACAGATCGAAGAT
1 AACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * ** * * * *
36515411 AGCAGATCTAACATTCTTGTGCTTACAGTGAAACAGATCGAAGAT
1 AACAGATTTGGCATCCCTGTGCTTATAG-GGAACAGATCGAAGAT
** * * * * *
36515456 TTCAG-TATGACATCCCTGTGCTTTTAGGGAACA-AGTTGAAAAT
1 AACAGATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
*
36515499 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
1 AACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * * *
36515543 AACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGAT
1 AACAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
** * *
36515588 TTCAGCA--TGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAAT
1 AACAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
36515631 AACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
1 AACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * *
36515675 AACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
1 AACAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
** * *
36515720 TTCAGCA--TGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAAT
1 AACAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
* *
36515763 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATTGAAGAT
1 AACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
* * * * *
36515807 AACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
1 AACAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
** * * *
36515852 TTCAGCA--TGGCATCCATGTGCTTATAGGGAACA-AGTTGAAAAT
1 AACAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGAT
36515895 AACAGATTTG
1 AACAGATTTG
36515905 ACCCCCTAAG
Statistics
Matches: 568, Mismatches: 113, Indels: 65
0.76 0.15 0.09
Matches are distributed among these distances:
42 11 0.02
43 66 0.12
44 402 0.71
45 84 0.15
46 5 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (44 bp):
AACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT
Found at i:36516007 original size:87 final size:87
Alignment explanation
Indices: 36515896--36516321 Score: 534
Period size: 87 Copynumber: 4.9 Consensus size: 87
36515886 GTTGAAAATA
* ** **
36515896 ACAGAT-TTGACCCCCTAAGCAGTAGGGAAACAGATTAAAAGCGACGGGCCTT-AACTCCCTAAG
1 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGAACCTTAAAC-CCCTAAG
*
36515959 TAGTAGGGTAACAGGTTAAATTT
65 CAGTAGGGTAACAGGTTAAATTT
** * *
36515982 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGACGGCGATGAACCTTAAACCCTTAAGC
1 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGAACCTTAAACCCCTAAGC
* *
36516047 AGTAGGGTAATAGGTTGAATTT
66 AGTAGGGTAACAGGTTAAATTT
* *
36516069 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGAGCCTT-AACTCCTTAAG
1 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGAACCTTAAAC-CCCTAAG
* * *
36516133 TAGTAGGGTAACAAGCTAAATTT
65 CAGTAGGGTAACAGGTTAAATTT
* * *
36516156 ACAAATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCTTAAACCCCTAAGC
1 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGAACCTTAAACCCCTAAGC
* *
36516221 AGTAGGGTAATAGGTTGAATTT
66 AGTAGGGTAACAGGTTAAATTT
* * * * ** * *
36516243 ACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCTTTAAACCCCAAAGC
1 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGAACCTTAAACCCCTAAGC
*
36516308 AATAGGGTAACAGG
66 AGTAGGGTAACAGG
36516322 CTGAAAATTA
Statistics
Matches: 296, Mismatches: 40, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
86 9 0.03
87 281 0.95
88 6 0.02
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (87 bp):
ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGAACCTTAAACCCCTAAGC
AGTAGGGTAACAGGTTAAATTT
Found at i:36516276 original size:43 final size:43
Alignment explanation
Indices: 36515896--36516273 Score: 228
Period size: 43 Copynumber: 8.7 Consensus size: 43
36515886 GTTGAAAATA
* * * ***
36515896 ACAGAT-TTGACCCCCTAAGCAGTAGGGAAACAGATTAAAAGCG
1 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGGTT-GAATTT
* ** * * * *
36515939 ACGGGCCTTAACTCCCTAAGTAGTAGGGTAACAGGTTAAATTT
1 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTT
* * **
36515982 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCG-A-CG
1 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTT
* * * * * *
36516023 GCGATGAACCTTAAACCCTTAAGCAGTAGGGTAATAGGTTGAATTT
1 AC-A-G-ATCTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTT
* * ***
36516069 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCG
1 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGGTTG-AATTT
* * * * * * * *
36516113 AC-GAGCCTTAACTCCTTAAGTAGTAGGGTAACAAGCTAAATTT
1 ACAGA-TCTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTT
* * * *
36516156 ACAAATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAA--G
1 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTT
* * * * *
36516197 GCGATGAACCTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAATTT
1 AC-A-G-ATCTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTT
36516243 ACAGATCTTAACCCCCTAAGCAGTAGGGAAA
1 ACAGATCTTAACCCCCTAAGCAGTAGGGAAA
36516274 TAGATCGAAG
Statistics
Matches: 240, Mismatches: 81, Indels: 28
0.69 0.23 0.08
Matches are distributed among these distances:
41 2 0.01
42 3 0.01
43 118 0.49
44 112 0.47
45 3 0.01
46 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (43 bp):
ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTT
Found at i:36516319 original size:174 final size:174
Alignment explanation
Indices: 36515896--36516282 Score: 668
Period size: 174 Copynumber: 2.2 Consensus size: 174
36515886 GTTGAAAATA
* **
36515896 ACAGAT-TTGACCCCCTAAGCAGTAGGGAAACAGATTAAAAGCGACGGGCCTTAACTCCCTAAGT
1 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGGGCCTTAACTCCCTAAGT
* * * *
36515960 AGTAGGGTAACAGGTTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGACGGC
66 AGTAGGGTAACAAGCTAAATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGC
*
36516025 GATGAACCTTAAACCCTTAAGCAGTAGGGTAATAGGTTGAATTT
131 GATGAACCTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAATTT
* *
36516069 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGAGCCTTAACTCCTTAAGT
1 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGGGCCTTAACTCCCTAAGT
36516134 AGTAGGGTAACAAGCTAAATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGC
66 AGTAGGGTAACAAGCTAAATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGC
36516199 GATGAACCTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAATTT
131 GATGAACCTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAATTT
*
36516243 ACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAA
1 ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAA
36516283 GGTGATGGGC
Statistics
Matches: 202, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
173 6 0.03
174 196 0.97
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (174 bp):
ACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGGGCCTTAACTCCCTAAGT
AGTAGGGTAACAAGCTAAATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGC
GATGAACCTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAATTT
Found at i:36516524 original size:87 final size:85
Alignment explanation
Indices: 36516378--36516799 Score: 433
Period size: 79 Copynumber: 5.0 Consensus size: 85
36516368 CGAAGCCACA
* **
36516378 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAACC
1 TGAATTTACA-ATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATAAGCCTTAAACC
36516443 CCTAAGCAGTAGGGTAACATGC
65 CCTAAGCAGTAGGGTAACA-GC
* * *
36516465 TGAATTTACATATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGATAAGCCTTAAACC
1 TGAATTTACA-ATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATAAGCCTTAAACC
*
36516530 CCTAAGCAGTAGAGTAACAG-
65 CCTAAGCAGTAGGGTAACAGC
* * * *
36516550 -G---TTA-AAT-TTATAGACCCTAAACAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAAACC
1 TGAATTTACAATCTTA-ACACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATAAGCCTTAAACC
*
36516609 CCTAAGCAGTAGAGTAACAG-
65 CCTAAGCAGTAGGGTAACAGC
* * * *
36516629 -G---TTA-AAT-TTATAGACCCTAAACAGTAGGGAAACAGATCGAAGGTGACAAGCCTT-AACC
1 TGAATTTACAATCTTA-ACACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATAAGCCTTAAACC
**
36516687 CCTAAATAGTAGGGTAACAGGC
65 CCTAAGCAGTAGGGTAACA-GC
* * ** ** *
36516709 TAAATTAACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAATACGATGGGCCTTAAATC
1 TGAATTTACA-ATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATAAGCCTTAAACC
*
36516774 CCTAAGCAGTAGGGTACCAAGC
65 CCTAAGCAGTAGGGTAAC-AGC
36516796 TGAA
1 TGAA
36516800 AATTACAACT
Statistics
Matches: 292, Mismatches: 31, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
78 23 0.08
79 118 0.40
80 1 0.00
81 3 0.01
84 3 0.01
85 1 0.00
86 38 0.13
87 104 0.36
88 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (85 bp):
TGAATTTACAATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATAAGCCTTAAACCC
CTAAGCAGTAGGGTAACAGC
Found at i:36516549 original size:44 final size:43
Alignment explanation
Indices: 36516391--36516541 Score: 153
Period size: 44 Copynumber: 3.5 Consensus size: 43
36516381 ATTTACAGAT
* * * *
36516391 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCAAAGACGAT-AGC
* * * ** *
36516435 CTTAAACCCCTAAGCAGTAGGGTAACATGCTGAATTTAC-ATA-T
1 CTTAAACCCCTAAGCAGTAGGGAAACA-GATCAA-AGACGATAGC
*
36516478 CTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGATAAGC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCAAAGACGAT-AGC
36516522 CTTAAACCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAG
36516542 AGTAACAGGT
Statistics
Matches: 84, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
41 2 0.02
42 6 0.07
43 26 0.31
44 44 0.52
45 5 0.06
46 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.19
Consensus pattern (43 bp):
CTTAAACCCCTAAGCAGTAGGGAAACAGATCAAAGACGATAGC
Found at i:36516575 original size:35 final size:35
Alignment explanation
Indices: 36516529--36516655 Score: 87
Period size: 35 Copynumber: 3.4 Consensus size: 35
36516519 AGCCTTAAAC
*
36516529 CCCTAAGCAGTAGAGTAACAGGTTAAATTTATAGA
1 CCCTAAACAGTAGAGTAACAGGTTAAATTTATAGA
** * *
36516564 CCCTAAACAGTAGGGAAACAGATCGAAGGTGACAAGCCTTA-A-A
1 CCCTAAACAGTA--G-AGTA-A-C--AGGTTA-AA--TTTATAGA
*
36516607 CCCCTAAGCAGTAGAGTAACAGGTTAAATTTATAGA
1 C-CCTAAACAGTAGAGTAACAGGTTAAATTTATAGA
36516643 CCCTAAACAGTAG
1 CCCTAAACAGTAG
36516656 GGAAACAGAT
Statistics
Matches: 68, Mismatches: 11, Indels: 26
0.65 0.10 0.25
Matches are distributed among these distances:
34 3 0.04
35 23 0.34
36 4 0.06
37 6 0.09
38 2 0.03
39 2 0.03
40 2 0.03
41 2 0.03
42 6 0.09
43 4 0.06
44 11 0.16
45 3 0.04
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (35 bp):
CCCTAAACAGTAGAGTAACAGGTTAAATTTATAGA
Found at i:36516691 original size:43 final size:44
Alignment explanation
Indices: 36516642--36516755 Score: 117
Period size: 43 Copynumber: 2.6 Consensus size: 44
36516632 AAATTTATAG
* *
36516642 ACCCTAAACAGTAGGGAAACAGATCGAAGGTGACA-AGCCTTAAC
1 ACCCTAAACAGTAGGGAAACAGATCGAAAGTAACAGA-CCTTAAC
* * * * * *
36516686 -CCCTAAATAGTAGGGTAACAG-GCTAAATTAACAGATCTTAAC
1 ACCCTAAACAGTAGGGAAACAGATCGAAAGTAACAGACCTTAAC
*
36516728 ACCCTAAGCAGTAGGGAAACAGATCGAA
1 ACCCTAAACAGTAGGGAAACAGATCGAA
36516756 TACGATGGGC
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
42 13 0.24
43 38 0.70
44 3 0.06
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (44 bp):
ACCCTAAACAGTAGGGAAACAGATCGAAAGTAACAGACCTTAAC
Found at i:36518905 original size:31 final size:31
Alignment explanation
Indices: 36518870--36518961 Score: 72
Period size: 31 Copynumber: 3.2 Consensus size: 31
36518860 AATAATTTAT
36518870 TTAAAGTAAAAAAATAATATTTTAAATTTTC
1 TTAAAGTAAAAAAATAATATTTTAAATTTTC
**** * *
36518901 TTAAAAGTTCTCACAT-ATAATTT--A--TT-
1 TT-AAAGTAAAAAAATAATATTTTAAATTTTC
36518927 -TAAAGTAAAAAAATAATATTTTAAATTTTC
1 TTAAAGTAAAAAAATAATATTTTAAATTTTC
36518957 TTAAA
1 TTAAA
36518962 AGTTCTCACA
Statistics
Matches: 41, Mismatches: 12, Indels: 16
0.59 0.17 0.23
Matches are distributed among these distances:
24 8 0.20
25 7 0.17
27 3 0.07
29 3 0.07
31 12 0.29
32 8 0.20
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (31 bp):
TTAAAGTAAAAAAATAATATTTTAAATTTTC
Found at i:36518922 original size:56 final size:56
Alignment explanation
Indices: 36518861--36518973 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
36518851 TTTGCTGAGA
36518861 ATAATTTATTTAAAGTAAAAAAATAATATTTTAAATTTTCTTAAAAGTTCTCACAT
1 ATAATTTATTTAAAGTAAAAAAATAATATTTTAAATTTTCTTAAAAGTTCTCACAT
36518917 ATAATTTATTTAAAGTAAAAAAATAATATTTTAAATTTTCTTAAAAGTTCTCACAT
1 ATAATTTATTTAAAGTAAAAAAATAATATTTTAAATTTTCTTAAAAGTTCTCACAT
36518973 A
1 A
36518974 CATAACACTC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (56 bp):
ATAATTTATTTAAAGTAAAAAAATAATATTTTAAATTTTCTTAAAAGTTCTCACAT
Found at i:36519655 original size:13 final size:13
Alignment explanation
Indices: 36519639--36519670 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
36519629 AAAATAAGTC
36519639 TAAAAAATTAAAA
1 TAAAAAATTAAAA
*
36519652 TAAAAAATTAATA
1 TAAAAAATTAAAA
36519665 TAAAAA
1 TAAAAA
36519671 CTAAAACGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
TAAAAAATTAAAA
Found at i:36527666 original size:12 final size:13
Alignment explanation
Indices: 36527651--36527683 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
36527641 TTAGATTAAA
36527651 ATTTAAAT-ATGT
1 ATTTAAATAATGT
*
36527663 ATTTAAATAATTT
1 ATTTAAATAATGT
36527676 ATTTAAAT
1 ATTTAAAT
36527684 TTAAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (13 bp):
ATTTAAATAATGT
Found at i:36527725 original size:18 final size:20
Alignment explanation
Indices: 36527702--36527746 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
36527692 AATTAAACAT
36527702 TTTATTAAAATA-TA-TTAA
1 TTTATTAAAATATTAGTTAA
*
36527720 TTTATTCAAATATTAGTTAA
1 TTTATTAAAATATTAGTTAA
*
36527740 TTAATTA
1 TTTATTA
36527747 TATAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 11 0.50
19 2 0.09
20 9 0.41
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTATTAAAATATTAGTTAA
Found at i:36527819 original size:16 final size:16
Alignment explanation
Indices: 36527798--36527829 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36527788 AAGCTAAAAG
36527798 TGTAAGAACTAAATTT
1 TGTAAGAACTAAATTT
*
36527814 TGTAAGTACTAAATTT
1 TGTAAGAACTAAATTT
36527830 ATATTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (16 bp):
TGTAAGAACTAAATTT
Found at i:36531287 original size:22 final size:22
Alignment explanation
Indices: 36531229--36531287 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
36531219 CATTTCACTG
* *
36531229 CTATTTTGTTGTTGTTTTGCTA
1 CTATTTTGTTGTTATATTGCTA
* * *
36531251 CCATTTCGTTATTATATTGCTA
1 CTATTTTGTTGTTATATTGCTA
*
36531273 CTATTTTGTCGTTAT
1 CTATTTTGTTGTTAT
36531288 TGTTTTATTG
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.15, C:0.14, G:0.14, T:0.58
Consensus pattern (22 bp):
CTATTTTGTTGTTATATTGCTA
Found at i:36532907 original size:17 final size:19
Alignment explanation
Indices: 36532885--36532925 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
36532875 AGCTCGCAGT
36532885 TGAGCTCTCAA-G-CTTGG
1 TGAGCTCTCAAGGTCTTGG
36532902 TGAG--CTCAAGGTCTTGG
1 TGAGCTCTCAAGGTCTTGG
36532919 TGAGCTC
1 TGAGCTC
36532926 ATAGTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
15 5 0.25
16 1 0.05
17 13 0.65
19 1 0.05
ACGTcount: A:0.17, C:0.22, G:0.32, T:0.29
Consensus pattern (19 bp):
TGAGCTCTCAAGGTCTTGG
Found at i:36532972 original size:17 final size:16
Alignment explanation
Indices: 36532918--36532976 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 16
36532908 CAAGGTCTTG
36532918 GTGAGCTCATAGTTTTA
1 GTGAGCTCATAG-TTTA
*
36532935 -TAGAGCTCGTATA-TTTG
1 GT-GAGCTC--ATAGTTTA
36532952 GTGAGCTCATAGTTCTA
1 GTGAGCTCATAGTT-TA
36532969 GTGAGCTC
1 GTGAGCTC
36532977 GCAGTTCGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
15 3 0.09
16 3 0.09
17 24 0.71
18 1 0.03
19 3 0.09
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.37
Consensus pattern (16 bp):
GTGAGCTCATAGTTTA
Found at i:36533919 original size:17 final size:17
Alignment explanation
Indices: 36533899--36533950 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
36533889 ATTAACAAAT
*
36533899 TAAAATAATTAT-GTTAA
1 TAAAATAATAATAG-TAA
*
36533916 TAAAACAATAATAGTAA
1 TAAAATAATAATAGTAA
*
36533933 TAAAATAATAATATTAA
1 TAAAATAATAATAGTAA
36533950 T
1 T
36533951 GATATACTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 29 0.97
18 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
TAAAATAATAATAGTAA
Found at i:36535198 original size:19 final size:19
Alignment explanation
Indices: 36535170--36535209 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
36535160 TATGTTATTA
36535170 TATTACTTT-AATAAAATAT
1 TATTACTTTAAATAAAA-AT
*
36535189 TATTATTTTAAATAAAAAT
1 TATTACTTTAAATAAAAAT
36535208 TA
1 TA
36535210 AATAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTACTTTAAATAAAAAT
Found at i:36535219 original size:12 final size:11
Alignment explanation
Indices: 36535196--36535233 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
36535186 TATTATTATT
36535196 TTAAATAAAAA
1 TTAAATAAAAA
36535207 TTAAATAAAAA
1 TTAAATAAAAA
* *
36535218 AT-AATTAAAA
1 TTAAATAAAAA
36535228 TTAAAT
1 TTAAAT
36535234 GTAATGACCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TTAAATAAAAA
Found at i:36535715 original size:27 final size:26
Alignment explanation
Indices: 36535683--36535759 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 26
36535673 ATTTCTTAAA
36535683 TAATAAGTAAAAGATATTTATATATAT-
1 TAATAAGTAAAAGATA-TTATAT-TATG
*
36535710 TAATAATTAATAATTGATATTATATTATG
1 TAATAAGTAA-AA--GATATTATATTATG
* *
36535739 AAATAAGTAAATGATAATTAT
1 TAATAAGTAAAAGAT-ATTAT
36535760 TATTGGTACA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
26 3 0.07
27 14 0.34
28 6 0.15
29 14 0.34
30 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.42
Consensus pattern (26 bp):
TAATAAGTAAAAGATATTATATTATG
Found at i:36536015 original size:18 final size:18
Alignment explanation
Indices: 36535971--36536006 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
36535961 AAAGAAAATG
*
36535971 AAAGAAAGA-AGAACAAA
1 AAAGAAACAGAGAACAAA
36535988 AAAGAAACAGAGAACAAA
1 AAAGAAACAGAGAACAAA
36536006 A
1 A
36536007 CGGAAACAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.75, C:0.08, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAGAAACAGAGAACAAA
Found at i:36536980 original size:27 final size:27
Alignment explanation
Indices: 36536917--36537016 Score: 96
Period size: 27 Copynumber: 3.6 Consensus size: 27
36536907 TTTAATGCCT
36536917 TATTGGTGTGTTTGGGAGGATATGA-TA
1 TATTGGTGTGTTTGGGAGGATAT-ATTA
** * *
36536944 TACCGATGTGTTTGGGAGGCTATATTA
1 TATTGGTGTGTTTGGGAGGATATATTA
*
36536971 TATTGGTGTGTTAGGGAGGATTTATATTA
1 TATTGGTGTGTTTGGGAGGA--TATATTA
36537000 T-TCTGGGTGTGTTTGGG
1 TAT-T-GGTGTGTTTGGG
36537017 TTGGATATTC
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
26 1 0.02
27 36 0.62
28 1 0.02
29 9 0.16
30 11 0.19
ACGTcount: A:0.19, C:0.04, G:0.35, T:0.42
Consensus pattern (27 bp):
TATTGGTGTGTTTGGGAGGATATATTA
Found at i:36538899 original size:69 final size:69
Alignment explanation
Indices: 36538788--36538925 Score: 249
Period size: 69 Copynumber: 2.0 Consensus size: 69
36538778 TTCCTCTAAC
36538788 TTTTCCAGATTCTTTATTTGATCACAAGTCACTTGATTCATTGTCCAATGGCACTAAAGATATGA
1 TTTTCCAGATTCTTTATTTGATCACAAGTCACTTGATTCATTGTCCAATGGCACTAAAGATATGA
36538853 ATTA
66 ATTA
* * *
36538857 TTTTCTAGATTCTTTATTTGATCACAAGTCACTTGATTCATTGTCCAATTGCACTAAAGATATGG
1 TTTTCCAGATTCTTTATTTGATCACAAGTCACTTGATTCATTGTCCAATGGCACTAAAGATATGA
36538922 ATTA
66 ATTA
36538926 GTTAGAATCA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (69 bp):
TTTTCCAGATTCTTTATTTGATCACAAGTCACTTGATTCATTGTCCAATGGCACTAAAGATATGA
ATTA
Found at i:36542439 original size:43 final size:43
Alignment explanation
Indices: 36542377--36542666 Score: 282
Period size: 43 Copynumber: 6.8 Consensus size: 43
36542367 TTACATTACC
* *
36542377 TTTAGCGGCGCTTTTCCCACAAACGCTGCTATAGAACATGACT
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACT
* * *
36542420 TTTAGCGACGCTTTACCCACAAACACCGCTAAAGAACATGACT
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACT
* * * * * *
36542463 TTTAGCGGTGCTTTCCCCATAAATGCCGCTAAAGAACATAACC
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACT
* ** * * * *
36542506 TTTAACGATGC-TTTCTCTACAAATGCCGCTAGAGAACATGACC
1 TTTAGCGGCGCTTTTC-CCACAAACGCCGCTAAAGAACATGACT
* * *
36542549 TTTAGCGGCGCTTTTCCCA-AAAAGCCGCTAAAAAACATAACT
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACT
* * *
36542591 TTTAGCGGCGCTTTTCCCAAAAATGCTGCTAAAGAA-ATGACT
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACT
** * *
36542633 TTTAGCAACAG-TTTTCCCAAAAACGCTGCTAAAG
1 TTTAGCGGC-GCTTTTCCCACAAACGCCGCTAAAG
36542667 GTCATGAAAA
Statistics
Matches: 207, Mismatches: 36, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
42 74 0.36
43 129 0.62
44 4 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACT
Found at i:36544148 original size:183 final size:183
Alignment explanation
Indices: 36543421--36544368 Score: 797
Period size: 183 Copynumber: 5.2 Consensus size: 183
36543411 TTCTAGCAAC
* * * * *
36543421 TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTT-AAA
1 TAAACACTTCAATTTGCAACACTTAAACAATTCAATTTACAACATTTAAACACATCAATTTGCAG
** * * * * * * *
36543485 CA-TTTAAACA-CTTCAATTTGCAGCACTTTA-ACATCTTAATTAACAAC-ATTTATACACCTCA
66 CACTTT-AACATC-TCAATTAACAACA-TTTATACACCTCAATT-ACAGCGA-TAAAACATCTCA
* * * * *
36543546 A-TTACAGCGA-TAAAACATTTCAATTTCCAGCAAC-TAAACACTTCAATTTACAGCATT
126 ATTTCCAGCAACT-AAACACTTCAATTTGCAGC-ACTTAAACACTTCAATTTACAACATT
* * * * * * *
36543603 TAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACA
1 TAAACACTTCAATTTGCAACACTTAAACAATTCAATTTACAACA-TTTAAACACATCAATTTGCA
* * * * **
36543667 GCA-TTTAAACA-CTTCAATTTACAACATTTAAACACTTCAATTTGCAGC-ACTTTAACA-CTTC
65 GCACTTT-AACATC-TCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACATC-TC
* ** * * * * *
36543728 AATTTACAGCATTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTGCAGCACTT
125 AATTTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACA-TT
** * * * ** * * *
36543788 T-AACA-TCTCAATTAACAATATTTATACACCTCAA-TTACAGCGA-TAAAACATC-TCAATTTC
1 TAAACACT-TCAATTTGCAACACTTAAACAATTCAATTTACAAC-ATTTAAACA-CATCAATTTG
** * * * *
36543848 CAGCAACTAATTAAACA-CTTCAATTTGCAACACTTA-ATCACTTCAACTTACAAC-ATTTAAAC
63 CAGC-ACT--TT-AACATC-TCAATTAACAACATTTATA-CACCTCAA-TTACAGCGA-TAAAAC
* ** * ** * * * *
36543910 A-CTTTAATTTAAAACATTTGAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGCATT
120 ATC-TCAATTTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATT
* *
36543974 TAAACACTTCAATTTGCAGCGCTTAAACAATTCAATTTACAACATTTAAACACATCAATTTGCAG
1 TAAACACTTCAATTTGCAACACTTAAACAATTCAATTTACAACATTTAAACACATCAATTTGCAG
* *
36544039 CACTTTAACATCTCAATTAACAATATTTATACACCTCAATTACAGCGATAAAACATCTTAATTTC
66 CACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTC
* *
36544104 CAGCAACTAAACACTTCAATTTGCAGCGCTTAAACAATTCAATTTACAACATT
131 CAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATT
* *
36544157 TAAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAACATTTAAACACATCAATTTGCAG
1 TAAACACTTCAATTTGCAACACTTAAACAATTCAATTTACAACATTTAAACACATCAATTTGCAG
*
36544222 CACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTG
66 CACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTC
*
36544287 CATCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATT
131 CAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATT
* * *
36544340 TAAACACTTAAATTTACAACATTTAAACA
1 TAAACACTTCAATTTGCAACACTTAAACA
36544369 CTTAATAAAT
Statistics
Matches: 649, Mismatches: 90, Indels: 53
0.82 0.11 0.07
Matches are distributed among these distances:
182 58 0.09
183 329 0.51
184 101 0.16
185 9 0.01
186 4 0.01
187 124 0.19
188 24 0.04
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.32
Consensus pattern (183 bp):
TAAACACTTCAATTTGCAACACTTAAACAATTCAATTTACAACATTTAAACACATCAATTTGCAG
CACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTC
CAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATT
Found at i:36544373 original size:23 final size:23
Alignment explanation
Indices: 36543421--36544371 Score: 807
Period size: 23 Copynumber: 41.4 Consensus size: 23
36543411 TTCTAGCAAC
* * *
36543421 TAAACACTTCAATTTGCAGCACT
1 TAAACACTTCAATTTACAACATT
36543444 TAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAACATT
36543467 TAAACACTTCAATTTA-AACATT
1 TAAACACTTCAATTTACAACATT
* *
36543489 TAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAACA-TT
*
36543513 T-AACATCTT-AATTAACAACATT
1 TAAACA-CTTCAATTTACAACATT
* * *
36543535 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAAC-ATT
* * * * **
36543557 AAAACATTTCAATTTCCAGCAAC
1 TAAACACTTCAATTTACAACATT
*
36543580 TAAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAACATT
36543603 TAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAACATT
* *
36543626 TAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAACA-TT
*
36543650 T-AACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAACATT
36543672 TAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAACATT
* *
36543695 TAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAACA-TT
*
36543719 T-AACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAACATT
36543741 TAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAACATT
* *
36543764 TAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAACA-TT
* *
36543788 T-AACA-TCTCAATTAACAATATT
1 TAAACACT-TCAATTTACAACATT
* * *
36543810 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAAC-ATT
* *
36543832 AAAACA-TCTCAATTTCCAGCAACTAAT
1 TAAACACT-TCAATTT--A-CAAC-ATT
* *
36543859 TAAACACTTCAATTTGCAACACT
1 TAAACACTTCAATTTACAACATT
* *
36543882 TAATCACTTCAACTTACAACATT
1 TAAACACTTCAATTTACAACATT
* *
36543905 TAAACACTTTAATTTAAAACATT
1 TAAACACTTCAATTTACAACATT
* *
36543928 TGAACACTTCAATTTGCAACACTT
1 TAAACACTTCAATTTACAACA-TT
*
36543952 T-AACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAACATT
* * **
36543974 TAAACACTTCAATTTGCAGCGCT
1 TAAACACTTCAATTTACAACATT
*
36543997 TAAACAATTCAATTTACAACATT
1 TAAACACTTCAATTTACAACATT
* * *
36544020 TAAACACATCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAACA-TT
* *
36544044 T-AACA-TCTCAATTAACAATATT
1 TAAACACT-TCAATTTACAACATT
* * *
36544066 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAAC-ATT
* * * **
36544088 AAAACATCTT-AATTTCCAGCAAC
1 TAAACA-CTTCAATTTACAACATT
* * **
36544111 TAAACACTTCAATTTGCAGCGCT
1 TAAACACTTCAATTTACAACATT
*
36544134 TAAACAATTCAATTTACAACATT
1 TAAACACTTCAATTTACAACATT
*
36544157 TAAACACTTCAATTTGCAACACTT
1 TAAACACTTCAATTTACAACA-TT
36544181 T-AACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAACATT
* * *
36544203 TAAACACATCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAACA-TT
*
36544227 T-AACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAACATT
* * *
36544249 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAAC-ATT
* * * **
36544271 AAAACA-TCTCAATTTGCATCAAC
1 TAAACACT-TCAATTTACAACATT
* * *
36544294 TAAACACTTCAATTTGCAGCACT
1 TAAACACTTCAATTTACAACATT
36544317 TAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAACATT
*
36544340 TAAACACTTAAATTTACAACATT
1 TAAACACTTCAATTTACAACATT
36544363 TAAACACTT
1 TAAACACTT
36544372 AATAAATTAA
Statistics
Matches: 752, Mismatches: 130, Indels: 92
0.77 0.13 0.09
Matches are distributed among these distances:
22 106 0.14
23 595 0.79
24 32 0.04
25 1 0.00
26 4 0.01
27 13 0.02
28 1 0.00
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACTTCAATTTACAACATT
Found at i:36545875 original size:6 final size:6
Alignment explanation
Indices: 36545840--36545874 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
36545830 TGTAAGAAAT
*
36545840 CAAAAA CAAAAA CAAAAA CAAAAG CAAAAA -AAAAA
1 CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA
36545875 AGCTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:36546122 original size:14 final size:14
Alignment explanation
Indices: 36546099--36546194 Score: 97
Period size: 14 Copynumber: 6.8 Consensus size: 14
36546089 GTTTTTATCA
*
36546099 AAACCTTAAACACT
1 AAACCCTAAACACT
36546113 AAACCCTAAACACT
1 AAACCCTAAACACT
*
36546127 AAACCCAAAAC-CT
1 AAACCCTAAACACT
*
36546140 AAAACCTTAAACTA-T
1 -AAACCCTAAAC-ACT
* *
36546155 AAATCCTAAACCCT
1 AAACCCTAAACACT
*
36546169 AAACTCTAAACACT
1 AAACCCTAAACACT
36546183 AAAACCCTAAAC
1 -AAACCCTAAAC
36546195 TAAAAAATCA
Statistics
Matches: 66, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
13 2 0.03
14 53 0.80
15 11 0.17
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (14 bp):
AAACCCTAAACACT
Found at i:36546194 original size:7 final size:7
Alignment explanation
Indices: 36546099--36546194 Score: 77
Period size: 7 Copynumber: 13.6 Consensus size: 7
36546089 GTTTTTATCA
*
36546099 AAACCTT
1 AAACCCT
*
36546106 AAACACT
1 AAACCCT
36546113 AAACCCT
1 AAACCCT
*
36546120 AAACACT
1 AAACCCT
36546127 AAACCC-
1 AAACCCT
*
36546133 AAAACCT
1 AAACCCT
*
36546140 AAAACCTT
1 -AAACCCT
**
36546148 AAACTAT
1 AAACCCT
*
36546155 AAATCCT
1 AAACCCT
36546162 AAACCCT
1 AAACCCT
*
36546169 AAACTCT
1 AAACCCT
*
36546176 AAACACT
1 AAACCCT
36546183 AAAACCCT
1 -AAACCCT
36546191 AAAC
1 AAAC
36546195 TAAAAAATCA
Statistics
Matches: 69, Mismatches: 17, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
6 5 0.07
7 53 0.77
8 11 0.16
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:36547018 original size:41 final size:41
Alignment explanation
Indices: 36546967--36547062 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
36546957 TGATTTTTTG
* ** * *
36546967 CAAACACCGCTAATAATTGACCTTTTGAGGCATTTTTCTCA
1 CAAACGCCGCTAATAACAGACATTTTGAGACATTTTTCTCA
* * *
36547008 CAAACGCCGCTAATACCAGACATTTTGCGACGTTTTTCTCA
1 CAAACGCCGCTAATAACAGACATTTTGAGACATTTTTCTCA
*
36547049 CAAACGCCACTAAT
1 CAAACGCCGCTAAT
36547063 GCCAGACCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.29
Consensus pattern (41 bp):
CAAACGCCGCTAATAACAGACATTTTGAGACATTTTTCTCA
Found at i:36547068 original size:41 final size:41
Alignment explanation
Indices: 36546999--36547103 Score: 133
Period size: 41 Copynumber: 2.6 Consensus size: 41
36546989 TTTTGAGGCA
* *
36546999 TTTTTCTCACAAACGCCGCTAATACCAGACATTTTGC-GACG
1 TTTTTCTCACAAACGCCACTAATGCCAGACATTTTGCAG-CG
*
36547040 TTTTTCTCACAAACGCCACTAATGCCAGACCTTTTGCAGCG
1 TTTTTCTCACAAACGCCACTAATGCCAGACATTTTGCAGCG
* **
36547081 -TTTTCTAATTAACGCCACTAATG
1 TTTTTCTCACAAACGCCACTAATG
36547104 TTTAACTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 20 0.35
41 36 0.63
42 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (41 bp):
TTTTTCTCACAAACGCCACTAATGCCAGACATTTTGCAGCG
Found at i:36552156 original size:18 final size:18
Alignment explanation
Indices: 36552119--36552157 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
36552109 TAATTAATCT
* *
36552119 AATAACAAAATAGTAATA
1 AATAACAAAAAAGGAATA
*
36552137 AATAACAAAAAAGGACTA
1 AATAACAAAAAAGGAATA
36552155 AAT
1 AAT
36552158 CAAACCTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.08, G:0.08, T:0.18
Consensus pattern (18 bp):
AATAACAAAAAAGGAATA
Found at i:36556206 original size:5 final size:5
Alignment explanation
Indices: 36556198--36556223 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
36556188 AACTTCACTT
36556198 TATTA TATTA TATTA TATTA TATTA T
1 TATTA TATTA TATTA TATTA TATTA T
36556224 CATGTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:36557923 original size:26 final size:25
Alignment explanation
Indices: 36557887--36557937 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
36557877 AGGATTTTGA
*
36557887 ATATCTGAATCTAATTCTGTAATCTG
1 ATATCTGAATCTAAATCTGT-ATCTG
*
36557913 ATATTTGAATCTAAATCTGTATCTG
1 ATATCTGAATCTAAATCTGTATCTG
36557938 TTACTGTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (25 bp):
ATATCTGAATCTAAATCTGTATCTG
Found at i:36558253 original size:17 final size:17
Alignment explanation
Indices: 36558227--36558259 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36558217 GCTTTGGTAA
36558227 AACATTTTAT-TAAAAC
1 AACATTTTATGTAAAAC
36558243 AACAGTTTTATGTAAAA
1 AACA-TTTTATGTAAAA
36558260 AATGGTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (17 bp):
AACATTTTATGTAAAAC
Found at i:36569300 original size:17 final size:18
Alignment explanation
Indices: 36569278--36569312 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
36569268 AATCTAGGTG
36569278 TGTGGGCC-ACACGGGTA
1 TGTGGGCCTACACGGGTA
36569295 TGTGGGCCTACACGGGTA
1 TGTGGGCCTACACGGGTA
36569313 AGCCACACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.17, C:0.23, G:0.40, T:0.20
Consensus pattern (18 bp):
TGTGGGCCTACACGGGTA
Done.