Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 56 of 172
Found at i:18251784 original size:18 final size:18
Alignment explanation
Indices: 18251754--18251809 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
18251744 AATGATCATC
*
18251754 ATTTCAATCATCAAATAT
1 ATTTAAATCATCAAATAT
*
18251772 ATTTAAATGATC--ATA-
1 ATTTAAATCATCAAATAT
*
18251787 ATTTCAATCATCAAATAT
1 ATTTAAATCATCAAATAT
18251805 ATTTA
1 ATTTA
18251810 CACAAGAATC
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 10 0.33
16 3 0.10
17 3 0.10
18 14 0.47
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (18 bp):
ATTTAAATCATCAAATAT
Found at i:18251785 original size:33 final size:33
Alignment explanation
Indices: 18251738--18251809 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
18251728 TTCTTTTTAC
* *
18251738 TATTCAAATGATCATCATTTCAATCATCAAATA
1 TATTTAAATGATCATAATTTCAATCATCAAATA
18251771 TATTTAAATGATCATAATTTCAATCATCAAATA
1 TATTTAAATGATCATAATTTCAATCATCAAATA
18251804 TATTTA
1 TATTTA
18251810 CACAAGAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (33 bp):
TATTTAAATGATCATAATTTCAATCATCAAATA
Found at i:18251799 original size:15 final size:15
Alignment explanation
Indices: 18251748--18251799 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
18251738 TATTCAAATG
*
18251748 ATCATCATTTCAATC
1 ATCATAATTTCAATC
* *
18251763 ATCAAATATATTTAAATG
1 ATC--ATA-ATTTCAATC
18251781 ATCATAATTTCAATC
1 ATCATAATTTCAATC
18251796 ATCA
1 ATCA
18251800 AATATATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 14 0.48
16 3 0.10
17 2 0.07
18 10 0.34
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.38
Consensus pattern (15 bp):
ATCATAATTTCAATC
Found at i:18254027 original size:27 final size:27
Alignment explanation
Indices: 18253996--18254173 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
18253986 TAAATTGTAC
18253996 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
18254023 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18254049 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
18254077 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
18254105 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18254132 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18254159 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18254174 GACTCAATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 106 0.81
28 25 0.19
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:18254163 original size:82 final size:81
Alignment explanation
Indices: 18253993--18254173 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
18253983 GATTAAATTG
* *
18253993 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18254058 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* ** *
18254074 TGCAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
18254138 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
18254156 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18254174 GACTCAATAT
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
81 19 0.22
82 67 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18261446 original size:47 final size:47
Alignment explanation
Indices: 18261392--18261502 Score: 159
Period size: 47 Copynumber: 2.4 Consensus size: 47
18261382 TTAGGATTTT
** * *
18261392 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCTGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCAA
* * *
18261439 ATGTGATGAATGTGAACATGCATGTATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCAA
18261486 ATGTGATGAATGTGAAC
1 ATGTGATGAATGTGAAC
18261503 NNNNNNNNNN
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCAA
Found at i:18276655 original size:23 final size:22
Alignment explanation
Indices: 18276623--18276666 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
18276613 TATAATCTAT
* *
18276623 ACCAAATCATGCCAAATCATAA
1 ACCAAATCATACCAAAACATAA
18276645 ACCAAAGTCATACCAAAACATA
1 ACCAAA-TCATACCAAAACATA
18276667 TGTTTCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.52, C:0.27, G:0.05, T:0.16
Consensus pattern (22 bp):
ACCAAATCATACCAAAACATAA
Found at i:18277448 original size:42 final size:43
Alignment explanation
Indices: 18277349--18277450 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 43
18277339 CCAACACCCT
* * *
18277349 AGACATGGTCTTACACGTAATCAAATATTAATACCACTGTCCT
1 AGACATGGTCTTACACGAAATCAAATATCAATACCACTGTCCC
* * * * *
18277392 AGACAGGGTTTTACACGAAATCAAATA-CGATGCTGA-TGTCCC
1 AGACATGGTCTTACACGAAATCAAATATCAATAC-CACTGTCCC
18277434 AGACATGGTCTTACACG
1 AGACATGGTCTTACACG
18277451 TAAGTCTCAA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 23 0.48
43 25 0.52
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (43 bp):
AGACATGGTCTTACACGAAATCAAATATCAATACCACTGTCCC
Found at i:18280622 original size:20 final size:20
Alignment explanation
Indices: 18280589--18280682 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 20
18280579 TGTGCAAATA
*
18280589 AGGG-CACCATAGTGTGA-AC
1 AGGGACACCAAAGTGT-ATAC
18280608 AGGGACACCAAAGTGTATAC
1 AGGGACACCAAAGTGTATAC
* **
18280628 AGGGGCACCGCAGTGTGA-AC
1 AGGGACACCAAAGTGT-ATAC
*
18280648 AGGGACACTAAAGTGTATAC
1 AGGGACACCAAAGTGTATAC
* *
18280668 AGGGGCACCGAAGTG
1 AGGGACACCAAAGTG
18280683 AAAATCCCAT
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
19 6 0.10
20 53 0.88
21 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.33, T:0.14
Consensus pattern (20 bp):
AGGGACACCAAAGTGTATAC
Found at i:18280645 original size:40 final size:40
Alignment explanation
Indices: 18280590--18280682 Score: 152
Period size: 40 Copynumber: 2.3 Consensus size: 40
18280580 GTGCAAATAA
18280590 GGGCACC-ATAGTGTGAACAGGGACACCAAAGTGTATACAG
1 GGGCACCGA-AGTGTGAACAGGGACACCAAAGTGTATACAG
* *
18280630 GGGCACCGCAGTGTGAACAGGGACACTAAAGTGTATACAG
1 GGGCACCGAAGTGTGAACAGGGACACCAAAGTGTATACAG
18280670 GGGCACCGAAGTG
1 GGGCACCGAAGTG
18280683 AAAATCCCAT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.32, C:0.20, G:0.33, T:0.14
Consensus pattern (40 bp):
GGGCACCGAAGTGTGAACAGGGACACCAAAGTGTATACAG
Found at i:18281338 original size:75 final size:75
Alignment explanation
Indices: 18281221--18281364 Score: 243
Period size: 75 Copynumber: 1.9 Consensus size: 75
18281211 CACACAGCCG
* *
18281221 GTCACATGCCCGTGTGTGAGACCATGTAGAGCATACTCACTTTATTTTAATTCAACACTAGGGGA
1 GTCACACGCCCGTGTGTGAGACCATGTAGAGCATACTCACTTTATTTTAATTCAACACCAGGGGA
18281286 CACACGGCTA
66 CACACGGCTA
* * *
18281296 GTCACACGCCCGTGTGTGAGACCGTGTGGAGCATACTGACTTTATTTTAATTCAACACCAGGGGA
1 GTCACACGCCCGTGTGTGAGACCATGTAGAGCATACTCACTTTATTTTAATTCAACACCAGGGGA
18281361 CACA
66 CACA
18281365 TAGCCGTGTA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 64 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (75 bp):
GTCACACGCCCGTGTGTGAGACCATGTAGAGCATACTCACTTTATTTTAATTCAACACCAGGGGA
CACACGGCTA
Found at i:18282433 original size:24 final size:23
Alignment explanation
Indices: 18282389--18282480 Score: 71
Period size: 24 Copynumber: 3.9 Consensus size: 23
18282379 TATTGAGTTG
*
18282389 AAACTGTAAGCTTTGACGAGCAAA
1 AAACAGTAAGCTTTGACGAGC-AA
* * * *
18282413 AAATAGTAAGCTTTTATGAGCTA
1 AAACAGTAAGCTTTGACGAGCAA
* *
18282436 AAACAGTAAGCTCTAACGAG-ATGA
1 AAACAGTAAGCTTTGACGAGCA--A
18282460 AAACAGTAAGCTCTT-ACGAGC
1 AAACAGTAAGCT-TTGACGAGC
18282481 TGATATATCG
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
23 17 0.32
24 35 0.66
25 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (23 bp):
AAACAGTAAGCTTTGACGAGCAA
Found at i:18283873 original size:19 final size:20
Alignment explanation
Indices: 18283835--18283875 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
18283825 TATTTTCATA
*
18283835 TAGCTTCCTCAGGTTCCCATG
1 TAGCTTCCTCA-GATCCCATG
18283856 TAGCTTCCTCA-ATCCCATG
1 TAGCTTCCTCAGATCCCATG
18283875 T
1 T
18283876 TTATGCCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
21 11 0.58
ACGTcount: A:0.17, C:0.34, G:0.15, T:0.34
Consensus pattern (20 bp):
TAGCTTCCTCAGATCCCATG
Found at i:18297734 original size:28 final size:29
Alignment explanation
Indices: 18297648--18297737 Score: 137
Period size: 29 Copynumber: 3.1 Consensus size: 29
18297638 TGAGCATGAC
* *
18297648 TATAAATGTGATTTGGTCCTGATGGGCCA
1 TATAAATGTGATTTGGCCCTAATGGGCCA
*
18297677 TATAAATGTGATTTGGCCCTAGTGGGCCA
1 TATAAATGTGATTTGGCCCTAATGGGCCA
*
18297706 TATAAATGTGATTAGG-CCTAATGGGCCA
1 TATAAATGTGATTTGGCCCTAATGGGCCA
18297734 TATA
1 TATA
18297738 TAGGTATGTG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 15 0.27
29 41 0.73
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (29 bp):
TATAAATGTGATTTGGCCCTAATGGGCCA
Found at i:18299444 original size:40 final size:39
Alignment explanation
Indices: 18299413--18299622 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
18299403 GGACTAAGAT
* *
18299413 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
18299453 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
18299493 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
18299533 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
18299573 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
18299612 CCGAAGGCATT
1 CCGAAGGCATT
18299623 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:18299576 original size:120 final size:120
Alignment explanation
Indices: 18299360--18299622 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
18299350 TTGAATGCTG
* *
18299360 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
18299424 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
18299480 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
18299543 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
18299599 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
18299623 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:18299642 original size:79 final size:80
Alignment explanation
Indices: 18299361--18299657 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
18299351 TGAATGCTGT
* ** * * * **
18299361 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
18299424 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
18299441 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
18299505 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
18299521 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
18299585 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
18299600 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
18299658 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:18307390 original size:40 final size:39
Alignment explanation
Indices: 18307359--18307568 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
18307349 GGACTAAGAT
* *
18307359 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
18307399 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
18307439 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
18307479 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
18307519 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
18307558 CCGAAGGCATT
1 CCGAAGGCATT
18307569 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:18307522 original size:120 final size:120
Alignment explanation
Indices: 18307306--18307568 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
18307296 TTGAATGCTG
* *
18307306 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
18307370 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
18307426 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
18307489 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
18307545 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
18307569 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:18307588 original size:79 final size:80
Alignment explanation
Indices: 18307307--18307603 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
18307297 TGAATGCTGT
* ** * * * **
18307307 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
18307370 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
18307387 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
18307451 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
18307467 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
18307531 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
18307546 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
18307604 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:18318676 original size:40 final size:40
Alignment explanation
Indices: 18318513--18318657 Score: 256
Period size: 40 Copynumber: 3.6 Consensus size: 40
18318503 CGGATGATAA
* *
18318513 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
18318553 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
18318593 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
18318633 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
18318658 AGCAAGTAGC
Statistics
Matches: 102, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
39 2 0.02
40 100 0.98
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:18328568 original size:60 final size:60
Alignment explanation
Indices: 18328494--18328612 Score: 229
Period size: 60 Copynumber: 2.0 Consensus size: 60
18328484 CTCAAATGAA
*
18328494 AAAATCAAAGCATGAAATTTTCACACATGCACTTTCACATATAATAAACACAGAATATAC
1 AAAATCAAAACATGAAATTTTCACACATGCACTTTCACATATAATAAACACAGAATATAC
18328554 AAAATCAAAACATGAAATTTTCACACATGCACTTTCACATATAATAAACACAGAATATA
1 AAAATCAAAACATGAAATTTTCACACATGCACTTTCACATATAATAAACACAGAATATA
18328613 ACATTTAATT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (60 bp):
AAAATCAAAACATGAAATTTTCACACATGCACTTTCACATATAATAAACACAGAATATAC
Found at i:18329781 original size:48 final size:47
Alignment explanation
Indices: 18329721--18329824 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 47
18329711 GTCCAACTAT
* * *
18329721 GGTCTTATACTAG-CTCTACTCTGCCCGTGCTGATGCCTATTCCC-GATA
1 GGTCTTACACTAGACTC-ACT-GGCCCGTGCCGATGCCTA-TCCCAGATA
* *
18329769 GGTCTTACACTAGAACTCACTGGGCTGTGCCGATGCCTATCCCAGATA
1 GGTCTTACACTAG-ACTCACTGGCCCGTGCCGATGCCTATCCCAGATA
18329817 GGTCTTAC
1 GGTCTTAC
18329825 GCTTAGCACA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
47 4 0.08
48 38 0.79
49 3 0.06
50 3 0.06
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.30
Consensus pattern (47 bp):
GGTCTTACACTAGACTCACTGGCCCGTGCCGATGCCTATCCCAGATA
Found at i:18331404 original size:43 final size:43
Alignment explanation
Indices: 18331356--18331596 Score: 482
Period size: 43 Copynumber: 5.6 Consensus size: 43
18331346 CCGGCATTAC
18331356 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
18331399 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
18331442 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
18331485 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
18331528 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
18331571 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
18331597 TAATACCAGC
Statistics
Matches: 198, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 198 1.00
ACGTcount: A:0.30, C:0.34, G:0.26, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:18331637 original size:38 final size:38
Alignment explanation
Indices: 18331589--18331712 Score: 167
Period size: 38 Copynumber: 3.2 Consensus size: 38
18331579 GGCACGAAGG
* * * *
18331589 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
18331627 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
18331665 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
18331704 GCCCGGATA
1 -CCCGGATA
18331713 CACATCAAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 64 0.83
39 5 0.06
40 8 0.10
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:18335494 original size:43 final size:41
Alignment explanation
Indices: 18335447--18335595 Score: 135
Period size: 44 Copynumber: 3.5 Consensus size: 41
18335437 CAATGCCAAC
*
18335447 GTCCCAGACGTTGTCTTACATGTAATCAAACATCGATGCCATT
1 GTCCCAGACGTGGTCTTACATGTAATCAAA-ATCGATGCCA-T
*
18335490 GTCCCAGACAG-GGTCTTACATGAAATCATATAA--GATGCCGAT
1 GTCCCAGAC-GTGGTCTTACATGTAATCA-A-AATCGATGCC-AT
* * *
18335532 GTCCCAGACATGGTCTTACACGTAAAAT-AGAATTCGATGCCAAT
1 GTCCCAGACGTGGTCTTACATGT--AATCA-AAATCGATGCC-AT
18335576 GTCCCAGACGTGGTCTTACA
1 GTCCCAGACGTGGTCTTACA
18335596 CGAAATCACA
Statistics
Matches: 88, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
42 27 0.31
43 27 0.31
44 33 0.38
45 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (41 bp):
GTCCCAGACGTGGTCTTACATGTAATCAAAATCGATGCCAT
Found at i:18335540 original size:42 final size:42
Alignment explanation
Indices: 18335481--18335608 Score: 129
Period size: 44 Copynumber: 3.0 Consensus size: 42
18335471 ATCAAACATC
*
18335481 GATGCCATTGTCCCAGACAGGGTCTTACATGAAATCATATAA-
1 GATGCCA-TGTCCCAGACAGGGTCTTACACGAAATCATATAAT
* *
18335523 GATGCCGATGTCCCAGACATGGTCTTACACGTAAA--ATAGAATT
1 GATGCC-ATGTCCCAGACAGGGTCTTACACG-AAATCATATAA-T
*
18335566 CGATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATCACATAA
1 -GATGCC-ATGTCCCAGACAG-GGTCTTACACGAAATCATATAA
18335609 CGAAATCCTA
Statistics
Matches: 71, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
41 5 0.07
42 27 0.38
43 7 0.10
44 28 0.39
45 4 0.06
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (42 bp):
GATGCCATGTCCCAGACAGGGTCTTACACGAAATCATATAAT
Found at i:18335583 original size:44 final size:43
Alignment explanation
Indices: 18335439--18335600 Score: 145
Period size: 43 Copynumber: 3.8 Consensus size: 43
18335429 AACATATACA
* * * * *
18335439 ATGCCAACGTCCCAGACGTTGTCTTACATGTAATCA-A-ACATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAACATAGA-ATCG
* * * *
18335482 ATGCCATTGTCCCAGACAGGGTCTTACATGAAATCATATAA--G
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAA-CATAGAATCG
*
18335524 ATGCCGATGTCCCAGACATGGTCTTACACGTAAA-ATAGAATTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAACATAGAA-TCG
*
18335568 ATGCCAATGTCCCAGACGTGGTCTTACACGAAA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAA
18335601 TCACATAACG
Statistics
Matches: 99, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
41 5 0.05
42 29 0.29
43 33 0.33
44 31 0.31
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAACATAGAATCG
Found at i:18337361 original size:47 final size:47
Alignment explanation
Indices: 18337310--18337399 Score: 117
Period size: 47 Copynumber: 1.9 Consensus size: 47
18337300 TAAGCTCTAT
* ***
18337310 TGAGCTAAAACGGTAAGCTTTGACAAGATGAAAATAGTAAGCTTTTA
1 TGAGCTAAAACAGTAAGCTCCAACAAGATGAAAATAGTAAGCTTTTA
* * *
18337357 TGAGCTGAAACAGTAAGCTCCAACGAGCTGAAAATAGTAAGCT
1 TGAGCTAAAACAGTAAGCTCCAACAAGATGAAAATAGTAAGCT
18337400 CTTACAAGCT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 36 1.00
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.23
Consensus pattern (47 bp):
TGAGCTAAAACAGTAAGCTCCAACAAGATGAAAATAGTAAGCTTTTA
Found at i:18337365 original size:24 final size:24
Alignment explanation
Indices: 18337338--18337400 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 24
18337328 TTTGACAAGA
*** *
18337338 TGAAAATAGTAAGCTTTTATGAGC
1 TGAAAATAGTAAGCTCCAACGAGC
*
18337362 TG-AAACAGTAAGCTCCAACGAGC
1 TGAAAATAGTAAGCTCCAACGAGC
18337385 TGAAAATAGTAAGCTC
1 TGAAAATAGTAAGCTC
18337401 TTACAAGCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 18 0.56
24 14 0.44
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.24
Consensus pattern (24 bp):
TGAAAATAGTAAGCTCCAACGAGC
Found at i:18337409 original size:24 final size:24
Alignment explanation
Indices: 18337322--18337409 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 24
18337312 AGCTAAAACG
*
18337322 GTAAGCT-TTGACAAGATGAAAATA
1 GTAAGCTCTT-ACAAGCTGAAAATA
* ** *
18337346 GTAAGCTTTTATGAGCTG-AAACA
1 GTAAGCTCTTACAAGCTGAAAATA
** *
18337369 GTAAGCTCCAACGAGCTGAAAATA
1 GTAAGCTCTTACAAGCTGAAAATA
18337393 GTAAGCTCTTACAAGCT
1 GTAAGCTCTTACAAGCT
18337410 AATATATTGG
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
23 18 0.36
24 30 0.60
25 2 0.04
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (24 bp):
GTAAGCTCTTACAAGCTGAAAATA
Found at i:18343004 original size:19 final size:20
Alignment explanation
Indices: 18342970--18343019 Score: 77
Period size: 19 Copynumber: 2.5 Consensus size: 20
18342960 TATTCTAGAA
18342970 ATTTTTTAAATATTTTTTA-G
1 ATTTTTTAAA-ATTTTTTATG
18342990 ATTTTTT-AAATTTTTTATG
1 ATTTTTTAAAATTTTTTATG
18343009 ATTTTTTAAAA
1 ATTTTTTAAAA
18343020 AAATATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.29
19 10 0.36
20 10 0.36
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (20 bp):
ATTTTTTAAAATTTTTTATG
Found at i:18343016 original size:10 final size:9
Alignment explanation
Indices: 18342981--18343016 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
18342971 TTTTTTAAAT
18342981 ATTTTTTAG
1 ATTTTTTAG
*
18342990 ATTTTTTAA
1 ATTTTTTAG
18342999 ATTTTTTATG
1 ATTTTTTA-G
18343009 ATTTTTTA
1 ATTTTTTA
18343017 AAAAAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (9 bp):
ATTTTTTAG
Found at i:18343056 original size:10 final size:10
Alignment explanation
Indices: 18343028--18343099 Score: 62
Period size: 10 Copynumber: 7.5 Consensus size: 10
18343018 AAAAATATAA
*
18343028 ATTTTGAA-A
1 ATTTTGAATT
*
18343037 ATTTTAAATT
1 ATTTTGAATT
18343047 ATTTTGAA-T
1 ATTTTGAATT
**
18343056 -TTTAAAATT
1 ATTTTGAATT
18343065 ATTTTGAATT
1 ATTTTGAATT
*
18343075 -TTTTAAAATT
1 ATTTT-GAATT
18343085 ATTTTGAATT
1 ATTTTGAATT
18343095 ATTTT
1 ATTTT
18343100 ATAATTTTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
8 5 0.10
9 13 0.27
10 27 0.55
11 4 0.08
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (10 bp):
ATTTTGAATT
Found at i:18343065 original size:18 final size:18
Alignment explanation
Indices: 18343036--18343094 Score: 93
Period size: 20 Copynumber: 3.2 Consensus size: 18
18343026 AAATTTTGAA
18343036 AATTTT-AAATTATTTTG
1 AATTTTAAAATTATTTTG
18343053 AATTTTAAAATTATTTTG
1 AATTTTAAAATTATTTTG
18343071 AATTTTTTAAAATTATTTTG
1 AA--TTTTAAAATTATTTTG
18343091 AATT
1 AATT
18343095 ATTTTATAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.15
18 15 0.38
20 18 0.46
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
AATTTTAAAATTATTTTG
Found at i:18343109 original size:10 final size:11
Alignment explanation
Indices: 18343054--18343111 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
18343044 ATTATTTTGA
18343054 ATTTTAAAATT
1 ATTTTAAAATT
*
18343065 ATTTT-GAATT
1 ATTTTAAAATT
18343075 -TTTTAAAATT
1 ATTTTAAAATT
*
18343085 ATTTT-GAATT
1 ATTTTAAAATT
*
18343095 ATTTTATAATT
1 ATTTTAAAATT
*
18343106 TTTTTA
1 ATTTTA
18343112 GAGAGACTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 4 0.10
10 17 0.44
11 18 0.46
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (11 bp):
ATTTTAAAATT
Found at i:18343417 original size:26 final size:26
Alignment explanation
Indices: 18343370--18343429 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
18343360 TTGGGATTTT
*
18343370 TATTTTTAAAATTTAATGTTTTTATA
1 TATTTTTAAAATTTAATATTTTTATA
* *
18343396 TATTCTTTAAAATTT-TTATTTTTTTA
1 TATT-TTTAAAATTTAATATTTTTATA
18343422 TAATTTTT
1 T-ATTTTT
18343430 GAATACTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 16 0.55
27 13 0.45
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (26 bp):
TATTTTTAAAATTTAATATTTTTATA
Found at i:18348746 original size:17 final size:16
Alignment explanation
Indices: 18348712--18348750 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
18348702 GTTTGGTTGA
* *
18348712 TTATTTTTTTAATGTT
1 TTATTTTTTGAATATT
18348728 TTATATTTTTGAATATT
1 TTAT-TTTTTGAATATT
18348745 TTATTT
1 TTATTT
18348751 ATAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (16 bp):
TTATTTTTTGAATATT
Found at i:18351059 original size:21 final size:21
Alignment explanation
Indices: 18351023--18351079 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
18351013 TAACTTAACA
* *
18351023 ATAAAAGATCAGGAATCTATG
1 ATAAAAGATTAAGAATCTATG
*
18351044 ATAAATGATTAAGAATCTATG
1 ATAAAAGATTAAGAATCTATG
18351065 ATAAAAGATTAAGAA
1 ATAAAAGATTAAGAA
18351080 CCTAATTACT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.53, C:0.05, G:0.16, T:0.26
Consensus pattern (21 bp):
ATAAAAGATTAAGAATCTATG
Found at i:18351511 original size:37 final size:37
Alignment explanation
Indices: 18351461--18351538 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 37
18351451 TAAAAAAGAC
*
18351461 TAAATCGTGTAAAGTGAAAAAGTGTTGTTCTAATAGT
1 TAAATCATGTAAAGTGAAAAAGTGTTGTTCTAATAGT
**
18351498 TAAATCATGTAAAGTTTAAAAGTGTTGTTCTAATAGT
1 TAAATCATGTAAAGTGAAAAAGTGTTGTTCTAATAGT
18351535 TAAA
1 TAAA
18351539 GGTATTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (37 bp):
TAAATCATGTAAAGTGAAAAAGTGTTGTTCTAATAGT
Found at i:18351537 original size:21 final size:21
Alignment explanation
Indices: 18351478--18351538 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
18351468 TGTAAAGTGA
18351478 AAAAGTGTTGTTCTAATAGTT
1 AAAAGTGTTGTTCTAATAGTT
**
18351499 -AAA-TCATG---TAA-AGTTT
1 AAAAGTGTTGTTCTAATAG-TT
18351515 AAAAGTGTTGTTCTAATAGTT
1 AAAAGTGTTGTTCTAATAGTT
18351536 AAA
1 AAA
18351539 GGTATTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 14
0.62 0.09 0.30
Matches are distributed among these distances:
15 2 0.07
16 5 0.17
17 3 0.10
18 3 0.10
19 3 0.10
20 3 0.10
21 8 0.28
22 2 0.07
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.39
Consensus pattern (21 bp):
AAAAGTGTTGTTCTAATAGTT
Found at i:18354839 original size:6 final size:6
Alignment explanation
Indices: 18354802--18354895 Score: 70
Period size: 6 Copynumber: 15.3 Consensus size: 6
18354792 TTGCATTCAC
* *
18354802 ATTCTGG ATT-TG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACTTG
1 ATTCT-G ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT-TC-TG
* *
18354852 ATTTTG ATTCTA ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
18354896 AATGTTTCTT
Statistics
Matches: 70, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
5 8 0.11
6 51 0.73
7 9 0.13
8 2 0.03
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:18354841 original size:25 final size:25
Alignment explanation
Indices: 18354802--18354886 Score: 86
Period size: 25 Copynumber: 3.4 Consensus size: 25
18354792 TTGCATTCAC
18354802 ATTCTGGATT-TGATTCTGTTACCTG
1 ATTCT-GATTCTGATTCTGTTACCTG
* * *
18354827 ATACTGATTCTGATTCTGTCACTTG
1 ATTCTGATTCTGATTCTGTTACCTG
* *
18354852 ATTTTGATTCTAATTCTGATT--CTG
1 ATTCTGATTCTGATTCTG-TTACCTG
18354876 ATTCTGATTCT
1 ATTCTGATTCT
18354887 AGTTCTGATA
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
24 16 0.33
25 32 0.65
26 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.49
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTG
Found at i:18356568 original size:27 final size:26
Alignment explanation
Indices: 18356537--18356869 Score: 110
Period size: 27 Copynumber: 12.6 Consensus size: 26
18356527 TTAGTTTACC
* * *
18356537 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTAC-CAAATACCCTCGATTTGTA
* *
18356564 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAA-TACCCTCGATTTGTA
*
18356591 AAATTAGCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATACCCTCGATTTGTA
*
18356618 AAATTACCGAAATA----AGA----TA
1 AAATTACC-AAATACCCTCGATTTGTA
* ** **
18356637 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCA-AATACCCTCGATTTGTA
**** **
18356664 AAATTACTGTTTTACCCTCGATTTACA
1 AAATTAC-CAAATACCCTCGATTTGTA
* ** **
18356691 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCA-AATACCCTCGATTTGTA
* ** * *
18356718 GAATTACCATTTTACCTTCGATTTATA
1 AAATTACCA-AATACCCTCGATTTGTA
* * * **
18356745 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTAC-CAAATACCCTCGATTTGTA
***
18356772 AAATTACCAAAATACCCTCGATCAATA
1 AAATTACC-AAATACCCTCGATTTGTA
*
18356799 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACC-AAATACCCTC-GATTTGTA
*
18356826 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACC-AAATACCCTC-GATTTGTA
*
18356853 AAATTATCGAAATACCC
1 AAATTA-CCAAATACCC
18356870 CTGTAGGGTA
Statistics
Matches: 245, Mismatches: 43, Indels: 36
0.76 0.13 0.11
Matches are distributed among these distances:
18 1 0.00
19 11 0.04
23 4 0.02
26 6 0.02
27 216 0.88
28 7 0.03
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.32
Consensus pattern (26 bp):
AAATTACCAAATACCCTCGATTTGTA
Found at i:18356703 original size:54 final size:54
Alignment explanation
Indices: 18356636--18356780 Score: 182
Period size: 54 Copynumber: 2.7 Consensus size: 54
18356626 GAAATAAGAT
**
18356636 AGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTAC
* * *
18356690 AGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCTTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTAC
* * *** * *
18356744 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 AGAATTACCATTTTACCCTCGATTTACAAAATTACCA
18356781 AAATACCCTC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 78 1.00
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (54 bp):
AGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTAC
Found at i:18356788 original size:81 final size:81
Alignment explanation
Indices: 18356636--18356793 Score: 208
Period size: 81 Copynumber: 2.0 Consensus size: 81
18356626 GAAATAAGAT
**** * *
18356636 AGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACCAT
1 AGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCAA
**
18356701 TTTACCCTCGATTTAC
66 AATACCCTCGATTTAC
* * * *
18356717 AGAATTACCATTTTACCTTCGATTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAA
1 AGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCAA
18356782 AATACCCTCGAT
66 AATACCCTCGAT
18356794 CAATAAAATT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (81 bp):
AGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCAA
AATACCCTCGATTTAC
Found at i:18356793 original size:54 final size:54
Alignment explanation
Indices: 18356676--18356869 Score: 174
Period size: 54 Copynumber: 3.6 Consensus size: 54
18356666 ATTACTGTTT
* * *** * * * ***
18356676 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
* *
18356730 TACCTTCGATTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
** * **
18356784 TACCCTCGATCAATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
* * * *
18356838 TACCC-CTGATTTGTGAAATTATCGAAATACCC
1 TACCCTC-GATTTATAAAATTACCAAAATACCC
18356870 CTGTAGGGTA
Statistics
Matches: 113, Mismatches: 26, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
53 1 0.01
54 112 0.99
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.32
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
Found at i:18356870 original size:27 final size:27
Alignment explanation
Indices: 18356737--18356872 Score: 139
Period size: 27 Copynumber: 5.0 Consensus size: 27
18356727 TTTTACCTTC
* * *
18356737 GATTTATAAAATTACTAAAATACCCTT
1 GATTTGTAAAATTACCAAAATACCCCT
* **
18356764 GGTTTACAAAATTACCAAAATA-CCCT
1 GATTTGTAAAATTACCAAAATACCCCT
***
18356790 CGATCAATAAAATTACCAAAATACCCCT
1 -GATTTGTAAAATTACCAAAATACCCCT
*
18356818 GGTTTGTAAAATTACCAAAATACCCCT
1 GATTTGTAAAATTACCAAAATACCCCT
* * *
18356845 GATTTGTGAAATTATCGAAATACCCCT
1 GATTTGTAAAATTACCAAAATACCCCT
18356872 G
1 G
18356873 TAGGGTAGAA
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.03
27 84 0.92
28 4 0.04
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
GATTTGTAAAATTACCAAAATACCCCT
Found at i:18365400 original size:29 final size:29
Alignment explanation
Indices: 18365358--18365489 Score: 203
Period size: 29 Copynumber: 4.6 Consensus size: 29
18365348 GTTAAACTAG
18365358 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTGAGTGTGCGAGCTTGAAATGCA
18365387 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTGAGTGTGCGAGCTTGAAATGCA
18365416 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTGAGTGTGCGAGCTTGAAATGCA
* * * *
18365445 TGGCGCTAAGTGTGCGAG-TTTAAAGTACA
1 TGGCACTGAGTGTGCGAGCTTGAAA-TGCA
*
18365474 TGGCACTAAGTGTGCG
1 TGGCACTGAGTGTGCG
18365490 CGGTTGATTA
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
28 5 0.05
29 92 0.95
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTGAGTGTGCGAGCTTGAAATGCA
Found at i:18367234 original size:27 final size:27
Alignment explanation
Indices: 18367141--18367243 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
18367131 GGGTGTTACA
* *
18367141 ACCCTTGTAGGGTAGAATTACTGAAAT
1 ACCCCTGTAGGGTAGAATTACCGAAAT
* *
18367168 ACCCCTATAGGGTAGAATTATCGAAAT
1 ACCCCTGTAGGGTAGAATTACCGAAAT
*
18367195 ACCCCTGTAGGGTAGAATTACCGAGAT
1 ACCCCTGTAGGGTAGAATTACCGAAAT
* * *
18367222 ACCCTTGTGGGGTAAAATTACC
1 ACCCCTGTAGGGTAGAATTACC
18367244 ATTTTGCCCC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
ACCCCTGTAGGGTAGAATTACCGAAAT
Found at i:18367681 original size:12 final size:12
Alignment explanation
Indices: 18367661--18367716 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
18367651 TTCTGTTACC
*
18367661 TGATACTGATTT
1 TGATTCTGATTT
*
18367673 TGATTCTGATTC
1 TGATTCTGATTT
*
18367685 TG-TCACTTGATTT
1 TGAT-TC-TGATTT
*
18367698 TGATTCTGATTA
1 TGATTCTGATTT
18367710 TGATTCT
1 TGATTCT
18367717 AATTCTAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
11 1 0.03
12 25 0.71
13 8 0.23
14 1 0.03
ACGTcount: A:0.20, C:0.12, G:0.16, T:0.52
Consensus pattern (12 bp):
TGATTCTGATTT
Found at i:18367740 original size:24 final size:24
Alignment explanation
Indices: 18367701--18367746 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
18367691 TTGATTTTGA
*
18367701 TTCTGATTATGATTCTAATTCTAG
1 TTCTGATAATGATTCTAATTCTAG
* *
18367725 TTCTGATAATGTTTCTTATTCT
1 TTCTGATAATGATTCTAATTCT
18367747 GTAATGGGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.13, G:0.11, T:0.54
Consensus pattern (24 bp):
TTCTGATAATGATTCTAATTCTAG
Found at i:18375252 original size:27 final size:26
Alignment explanation
Indices: 18375190--18375297 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 26
18375180 AGCATGGCTG
* * *
18375190 CCAGAACAGATAATATGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
18375216 CCAAATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
18375244 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
18375271 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
18375298 GCAGGACGCT
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 5 0.07
27 50 0.72
28 14 0.20
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:18376494 original size:13 final size:14
Alignment explanation
Indices: 18376463--18376503 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
18376453 GGATTCGGCT
18376463 ATGGAGAGAAGAAG
1 ATGGAGAGAAGAAG
*
18376477 A-GGAGA-AAGTAG
1 ATGGAGAGAAGAAG
*
18376489 ATGGAGAGAAAAAG
1 ATGGAGAGAAGAAG
18376503 A
1 A
18376504 AAAGAAGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
12 6 0.27
13 10 0.45
14 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.39, T:0.07
Consensus pattern (14 bp):
ATGGAGAGAAGAAG
Found at i:18376520 original size:26 final size:26
Alignment explanation
Indices: 18376463--18376520 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
18376453 GGATTCGGCT
* ** *
18376463 ATGGAGAGAAGAAGAGGAGAAAGTAG
1 ATGGAGAGAAAAAGAAAAGAAAGAAG
18376489 ATGGAGAGAAAAAGAAAAGAAGAGAAG
1 ATGGAGAGAAAAAGAAAAGAA-AGAAG
18376516 A-GGAG
1 ATGGAG
18376521 GGAGGATGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.40, T:0.05
Consensus pattern (26 bp):
ATGGAGAGAAAAAGAAAAGAAAGAAG
Found at i:18379692 original size:55 final size:54
Alignment explanation
Indices: 18379597--18379746 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
18379587 CTACTTTGTT
* ** * *
18379597 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
18379651 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
18379706 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
18379747 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:18379709 original size:27 final size:27
Alignment explanation
Indices: 18379569--18379746 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
18379559 TAAATTGTAC
18379569 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
18379596 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
18379622 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
18379650 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
18379678 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
18379705 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
18379732 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18379747 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:18379710 original size:82 final size:81
Alignment explanation
Indices: 18379570--18379725 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
18379560 AAATTGTACA
* * * *
18379570 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
18379635 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
18379651 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
18379714 TGTGCGAGTTGA
63 TGTGCGAATTGA
18379726 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:18381796 original size:39 final size:40
Alignment explanation
Indices: 18381724--18381973 Score: 265
Period size: 40 Copynumber: 6.3 Consensus size: 40
18381714 ACCCAAATAT
* ** *
18381724 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* * * *
18381762 CGTCGGGTCTTAGCCCGGATATGGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* * *
18381802 CTTCGAGACTTAGCCCGGATATAGTAACTCGTACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* ** *
18381842 CTTCGGGACTTAGCCCGGA-ATTAGTAACTCATATAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
* *
18381882 CTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* * * *
18381922 CTTCGGGACTTAGCCCAGA-ATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
18381962 CTTCGGGACTTA
1 CTTCGGGACTTA
18381974 ACCCCGTTAG
Statistics
Matches: 179, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
38 10 0.06
39 18 0.10
40 150 0.84
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
Found at i:18383385 original size:53 final size:53
Alignment explanation
Indices: 18383305--18383416 Score: 206
Period size: 53 Copynumber: 2.1 Consensus size: 53
18383295 TTCTCCAAGC
18383305 TCTTTTCCCTCTCTTTCTTTCTTCTATTCGGCCAAGTTCACAACATGAGAACT
1 TCTTTTCCCTCTCTTTCTTTCTTCTATTCGGCCAAGTTCACAACATGAGAACT
*
18383358 TCTTTTCCCTCTCTTTCTTTCTTCTATTCGGCCAAGTTCTCAACATGAGAACT
1 TCTTTTCCCTCTCTTTCTTTCTTCTATTCGGCCAAGTTCACAACATGAGAACT
*
18383411 TTTTTT
1 TCTTTT
18383417 TCTTTTCCTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.17, C:0.29, G:0.09, T:0.46
Consensus pattern (53 bp):
TCTTTTCCCTCTCTTTCTTTCTTCTATTCGGCCAAGTTCACAACATGAGAACT
Found at i:18390087 original size:40 final size:40
Alignment explanation
Indices: 18390030--18390199 Score: 200
Period size: 40 Copynumber: 4.2 Consensus size: 40
18390020 CACAAGGCCG
* * *
18390030 TCGGGTCTTAGCCCGG-ATATGGTCACTAGCACAAATGCCT
1 TCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCT
** *
18390070 TCGAAACTTAGCCCGG-ATATAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCT
* *
18390110 TCGGGACTTAGCCTGGAATTAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCT
* * * *
18390150 TCGGGACTTAGCCTGGAATTAATCACTAGCACAAATGTCT
1 TCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCT
18390190 TCGGGACTTA
1 TCGGGACTTA
18390200 ACCCCGTTAG
Statistics
Matches: 116, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
40 114 0.98
41 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCT
Found at i:18391590 original size:50 final size:50
Alignment explanation
Indices: 18391515--18391619 Score: 201
Period size: 50 Copynumber: 2.1 Consensus size: 50
18391505 TCTCCAAGCT
18391515 CTTTTCCCTCTCTTTCTTTCTTCTATTCGGCCAAGTTCACAACATGAGAA
1 CTTTTCCCTCTCTTTCTTTCTTCTATTCGGCCAAGTTCACAACATGAGAA
*
18391565 CTTTTCCCTCTCTTTCTTTCTTCTATTCGGCCAAGTTCTCAACATGAGAA
1 CTTTTCCCTCTCTTTCTTTCTTCTATTCGGCCAAGTTCACAACATGAGAA
18391615 CTTTT
1 CTTTT
18391620 TTTTCTTTTC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.18, C:0.30, G:0.10, T:0.43
Consensus pattern (50 bp):
CTTTTCCCTCTCTTTCTTTCTTCTATTCGGCCAAGTTCACAACATGAGAA
Found at i:18394248 original size:11 final size:11
Alignment explanation
Indices: 18394232--18394284 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
18394222 GTATATCATA
18394232 GCATATCATGT
1 GCATATCATGT
*
18394243 GCATATCAT-A
1 GCATATCATGT
*
18394253 ACATATCATGT
1 GCATATCATGT
*
18394264 GCATACCATG-
1 GCATATCATGT
*
18394274 ACATATCATGT
1 GCATATCATGT
18394285 ATAACAATAT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
10 16 0.48
11 17 0.52
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (11 bp):
GCATATCATGT
Found at i:18394248 original size:21 final size:21
Alignment explanation
Indices: 18394224--18394284 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
18394214 TAAAATGAGT
18394224 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
18394245 ATATCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
18394266 ATACCAT-GACATATCATGT
1 ATATCATAG-CATATCATGT
18394285 ATAACAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:18400272 original size:61 final size:61
Alignment explanation
Indices: 18400177--18400298 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
18400167 CCTTAAGAAT
*
18400177 TCTGCCTCATACTCCGCAACAGTCTTATTACCCTGAGCCAGATTCAAAAATTCCTTTCGAC
1 TCTGCCTCATACTCCGCAACAGTCTTATTACCCTGAGCCAAATTCAAAAATTCCTTTCGAC
18400238 TCTGCCTCATACTCCGCAACAGTCTTATTACCCTGAGCCAAATTCAAAAATTCCTTTCGAC
1 TCTGCCTCATACTCCGCAACAGTCTTATTACCCTGAGCCAAATTCAAAAATTCCTTTCGAC
18400299 GGGCATCCAC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.27, C:0.33, G:0.11, T:0.30
Consensus pattern (61 bp):
TCTGCCTCATACTCCGCAACAGTCTTATTACCCTGAGCCAAATTCAAAAATTCCTTTCGAC
Found at i:18402367 original size:11 final size:11
Alignment explanation
Indices: 18402351--18402403 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
18402341 GTATATCATA
18402351 GCATATCATGT
1 GCATATCATGT
*
18402362 GCATATCAT-A
1 GCATATCATGT
*
18402372 ACATATCATGT
1 GCATATCATGT
*
18402383 GCATACCATG-
1 GCATATCATGT
*
18402393 CCATATCATGT
1 GCATATCATGT
18402404 ATAACAATAT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
10 16 0.48
11 17 0.52
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (11 bp):
GCATATCATGT
Found at i:18402367 original size:21 final size:21
Alignment explanation
Indices: 18402343--18402403 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
18402333 TAAAATGAGT
18402343 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
18402364 ATATCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
18402385 ATACCAT-GCCATATCATGT
1 ATATCATAG-CATATCATGT
18402404 ATAACAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.33
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:18408403 original size:13 final size:13
Alignment explanation
Indices: 18408385--18408414 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
18408375 AGTTTAGCAA
18408385 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
18408398 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
18408411 TGCT
1 TGCT
18408415 GTGGAAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:18413408 original size:19 final size:19
Alignment explanation
Indices: 18413384--18413421 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18413374 AGGCTGATTT
18413384 TGGGCCGAAATGGG-TCGTG
1 TGGGCC-AAATGGGCTCGTG
*
18413403 TGGGCCCAATGGGCTCGTG
1 TGGGCCAAATGGGCTCGTG
18413422 GGCCCCACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.13, C:0.21, G:0.45, T:0.21
Consensus pattern (19 bp):
TGGGCCAAATGGGCTCGTG
Found at i:18414949 original size:46 final size:45
Alignment explanation
Indices: 18414908--18414995 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 45
18414898 CAGCTCGTAT
* * * *
18414908 GAGCTTACCCATTCAGGTCGTAAGAGCTTATTATTTTAGCTCATTG
1 GAGCTTACCCATTCAGCTCGAAAGAGCATACTA-TTTAGCTCATTG
* *
18414954 GATCTTACCGATTCAGCTCGAAAGAGCATACTATTTAGCTCA
1 GAGCTTACCCATTCAGCTCGAAAGAGCATACTATTTAGCTCA
18414996 ATAAAGCTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 9 0.25
46 27 0.75
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (45 bp):
GAGCTTACCCATTCAGCTCGAAAGAGCATACTATTTAGCTCATTG
Found at i:18415006 original size:45 final size:46
Alignment explanation
Indices: 18414909--18415006 Score: 108
Period size: 46 Copynumber: 2.2 Consensus size: 46
18414899 AGCTCGTATG
* * * * * **
18414909 AGCTTACCCATTCAGGTCGTAAGAGCTTATTATTTTAGCTCATTGG
1 AGCTTACCCATTCAGCTCGAAAGAGCATACTATTTTAGCTCAATAA
* *
18414955 ATCTTACCGATTCAGCTCGAAAGAGCATACTA-TTTAGCTCAATAA
1 AGCTTACCCATTCAGCTCGAAAGAGCATACTATTTTAGCTCAATAA
18415000 AGCTTAC
1 AGCTTAC
18415007 TGTTTTCAAC
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
45 16 0.38
46 26 0.62
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (46 bp):
AGCTTACCCATTCAGCTCGAAAGAGCATACTATTTTAGCTCAATAA
Found at i:18415891 original size:31 final size:31
Alignment explanation
Indices: 18415850--18415913 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
18415840 CCTTTTCATA
* * *
18415850 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTAGGCAGAAGCCT
**
18415881 TTTCAAATTTCATATTACTAGGCAGAAGCCT
1 TTTCAAATTTCATAACACTAGGCAGAAGCCT
18415912 TT
1 TT
18415914 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTAGGCAGAAGCCT
Found at i:18416159 original size:24 final size:24
Alignment explanation
Indices: 18416126--18416248 Score: 187
Period size: 24 Copynumber: 5.2 Consensus size: 24
18416116 GGCCTTGCCT
* *
18416126 CTTTTAATAACTAGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
18416150 CTTTTTATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
18416174 C-TTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
18416197 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
18416221 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
18416244 CTTTT
1 CTTTT
18416249 TCACTTCCTC
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 43 0.48
24 46 0.52
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:18416183 original size:47 final size:47
Alignment explanation
Indices: 18416128--18416249 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
18416118 CCTTGCCTCT
* *
18416128 TTTAATAACTAGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCC
* *
18416175 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCC
18416222 TTTAATAACTGGGGCATAAGCCCTTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTTT
18416250 CACTTCCTCC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCC
Found at i:18416186 original size:23 final size:23
Alignment explanation
Indices: 18416128--18416247 Score: 177
Period size: 23 Copynumber: 5.1 Consensus size: 23
18416118 CCTTGCCTCT
* *
18416128 TTTAATAACTAGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
18416151 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
18416175 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
18416198 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
18416222 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
18416245 TTT
1 TTT
18416248 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
23 46 0.53
24 41 0.47
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:18416323 original size:20 final size:20
Alignment explanation
Indices: 18416298--18416364 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
18416288 TTATGAATAC
18416298 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
18416318 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
18416338 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
18416358 ACCATGT
1 ATCATGT
18416365 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:18416329 original size:11 final size:11
Alignment explanation
Indices: 18416298--18416353 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
18416288 TTATGAATAC
18416298 ATCATGTGCAT
1 ATCATGTGCAT
*
18416309 ATCA--TACAT
1 ATCATGTGCAT
18416318 ATCATGTGCAT
1 ATCATGTGCAT
*
18416329 ATCA--TACAT
1 ATCATGTGCAT
*
18416338 GTCATGTGCAT
1 ATCATGTGCAT
18416349 ATCAT
1 ATCAT
18416354 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:18421513 original size:45 final size:45
Alignment explanation
Indices: 18421449--18421539 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
18421439 TATCCCCTGT
** *
18421449 TTCAGGGTTTGACTACTCTGACCTCTGTGTATTACGAATCAGATA
1 TTCAGGGTTCAACTACTCTGACCTCTGTGTATTACGAAGCAGATA
18421494 TTCAGGGTTCAACTACTCTGACCTCTGTGTATTACGAAGCAGATA
1 TTCAGGGTTCAACTACTCTGACCTCTGTGTATTACGAAGCAGATA
18421539 T
1 T
18421540 ATCTCTATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (45 bp):
TTCAGGGTTCAACTACTCTGACCTCTGTGTATTACGAAGCAGATA
Found at i:18422294 original size:19 final size:20
Alignment explanation
Indices: 18422270--18422307 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
18422260 GGTACCACCA
18422270 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
18422289 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
18422308 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:18422603 original size:46 final size:46
Alignment explanation
Indices: 18422536--18422657 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
18422526 CGCCCCTAAG
* * *
18422536 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* *
18422582 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
18422628 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
18422658 TGCTCAACCA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
Found at i:18422676 original size:46 final size:45
Alignment explanation
Indices: 18422534--18422676 Score: 137
Period size: 46 Copynumber: 3.1 Consensus size: 45
18422524 CCCGCCCCTA
* ** *
18422534 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
* ** **
18422579 AAATGAACTCGGACTCAACTCAACGAGTTCGGACATT-TGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
*
18422625 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCATCCT
18422672 AGTGA
1 AGTGA
18422677 CATGTCACTT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
46 78 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCCT
Found at i:18423114 original size:31 final size:30
Alignment explanation
Indices: 18423079--18423139 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
18423069 ATTTAATACG
18423079 AACTTTAAAAAAAATTACACTTTTGCCCCTA
1 AACTTT-AAAAAAATTACACTTTTGCCCCTA
* * *
18423110 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
18423140 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:18425098 original size:30 final size:30
Alignment explanation
Indices: 18425064--18425123 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
18425054 ATTTAATATG
18425064 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
18425094 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
18425124 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:18425158 original size:146 final size:146
Alignment explanation
Indices: 18424993--18425282 Score: 535
Period size: 146 Copynumber: 2.0 Consensus size: 146
18424983 CTTGAATCTC
* *
18424993 GTTTTTCTGGATTTATAATACCAAATTAATCTTCTTTAATACAGACATTTATCAAAACAGAATTT
1 GTTTTTCTGGATCTATAATACCAAATTAATCTTATTTAATACAGACATTTATCAAAACAGAATTT
*
18425058 AATATGAACTTTAAAAAAATTACACTTTTGCCCCTAAACTTTTGCATAATTACACTTTTGCCCCT
66 AATACGAACTTTAAAAAAATTACACTTTTGCCCCTAAACTTTTGCATAATTACACTTTTGCCCCT
18425123 AGGCTCGGGAATTACT
131 AGGCTCGGGAATTACT
*
18425139 GTTTTTCTGGATCTATAATACCAAATTAATCTTATTTAATACATACATTTATCAAAACAGAATTT
1 GTTTTTCTGGATCTATAATACCAAATTAATCTTATTTAATACAGACATTTATCAAAACAGAATTT
*
18425204 AATACGAACTTTAATAAAATTACACTTTTGCCCCTAAACTTTTGCATAATTACACTTTTGCCCCT
66 AATACGAACTTTAAAAAAATTACACTTTTGCCCCTAAACTTTTGCATAATTACACTTTTGCCCCT
18425269 AGGCTCGGGAATTA
131 AGGCTCGGGAATTA
18425283 AACTTTATTC
Statistics
Matches: 139, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
146 139 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (146 bp):
GTTTTTCTGGATCTATAATACCAAATTAATCTTATTTAATACAGACATTTATCAAAACAGAATTT
AATACGAACTTTAAAAAAATTACACTTTTGCCCCTAAACTTTTGCATAATTACACTTTTGCCCCT
AGGCTCGGGAATTACT
Found at i:18425244 original size:30 final size:30
Alignment explanation
Indices: 18425210--18425269 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
18425200 ATTTAATACG
*
18425210 AACTTTAATAAAATTACACTTTTGCCCCTA
1 AACTTTAACAAAATTACACTTTTGCCCCTA
** *
18425240 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAACAAAATTACACTTTTGCCCCTA
18425270 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTAACAAAATTACACTTTTGCCCCTA
Found at i:18431933 original size:19 final size:20
Alignment explanation
Indices: 18431909--18431946 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
18431899 GGTACCACCA
18431909 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
18431928 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
18431947 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:18432272 original size:46 final size:49
Alignment explanation
Indices: 18432171--18432345 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 49
18432161 AACCCGCCCC
* * *
18432171 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-GTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACATCCA
** *
18432217 TAAATGAACTCGGACTCAACTCAACCAGTTCGGATGCCAGTTACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
* * *
18432264 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
*
18432309 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
18432346 TCAACCATCC
Statistics
Matches: 108, Mismatches: 11, Indels: 17
0.79 0.08 0.12
Matches are distributed among these distances:
43 7 0.06
44 1 0.01
45 2 0.02
46 87 0.81
47 2 0.02
48 2 0.02
49 4 0.04
50 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
Found at i:18432333 original size:92 final size:92
Alignment explanation
Indices: 18432176--18432345 Score: 286
Period size: 92 Copynumber: 1.8 Consensus size: 92
18432166 GCCCCTAAGT
* *
18432176 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
18432241 CCAGTTCGGATGCCAGTTACATCTCAC
66 CCAGTTCGGATGCCAGTTACATCTCAC
* * *
18432268 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
18432333 CGAGTTCGGATGC
66 CCAGTTCGGATGC
18432346 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CCAGTTCGGATGCCAGTTACATCTCAC
Found at i:18432799 original size:30 final size:30
Alignment explanation
Indices: 18432765--18432824 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
18432755 ATTTAATACG
*
18432765 AACTTTAATAAAATTACACTTTTGCCCCTA
1 AACTTTAACAAAATTACACTTTTGCCCCTA
** *
18432795 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAACAAAATTACACTTTTGCCCCTA
18432825 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTAACAAAATTACACTTTTGCCCCTA
Found at i:18436504 original size:31 final size:31
Alignment explanation
Indices: 18436463--18436526 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
18436453 CCTTTTCATA
*
18436463 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
18436494 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
18436525 TT
1 TT
18436527 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:18436766 original size:24 final size:24
Alignment explanation
Indices: 18436739--18436885 Score: 208
Period size: 24 Copynumber: 6.2 Consensus size: 24
18436729 AGCCTTGCCT
* *
18436739 CTTTTAATAGCTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
18436763 CTTTTTATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
18436787 C-TTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
18436810 CTTTTGATAACTAGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
18436834 ATTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
18436858 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
18436881 CTTTT
1 CTTTT
18436886 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
23 43 0.39
24 66 0.61
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.30
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:18436800 original size:47 final size:47
Alignment explanation
Indices: 18436741--18436884 Score: 200
Period size: 47 Copynumber: 3.1 Consensus size: 47
18436731 CCTTGCCTCT
* * *
18436741 TTTAATAGCTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* * * *
18436788 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTAGGGCATAAGCCAT
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC-C
*
18436836 TTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
18436882 TTT
1 TTT
18436885 TTCACTTCCT
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
46 3 0.04
47 61 0.72
48 21 0.25
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:18436827 original size:71 final size:71
Alignment explanation
Indices: 18436752--18436885 Score: 232
Period size: 71 Copynumber: 1.9 Consensus size: 71
18436742 TTAATAGCTG
* * *
18436752 GGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGGCGTAAGCCCTTTTGA
1 GGGCAAAAGCCATTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTGA
18436817 TAACTA
66 TAACTA
*
18436823 GGGCATAAGCCATTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
1 GGGCAAAAGCCATTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
18436886 TCACTTCCTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 59 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (71 bp):
GGGCAAAAGCCATTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTGA
TAACTA
Found at i:18440464 original size:13 final size:13
Alignment explanation
Indices: 18440448--18440477 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
18440438 ATTGTCATGT
18440448 AATTGTTTTTCTG
1 AATTGTTTTTCTG
18440461 AATTGTTTTTCTG
1 AATTGTTTTTCTG
18440474 AATT
1 AATT
18440478 TAGCTGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (13 bp):
AATTGTTTTTCTG
Found at i:18451025 original size:27 final size:27
Alignment explanation
Indices: 18450994--18451171 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18450984 TAAATTGTAC
18450994 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
18451021 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18451047 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
18451075 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
18451103 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18451130 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18451157 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18451172 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:18451108 original size:82 final size:81
Alignment explanation
Indices: 18450995--18451150 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18450985 AAATTGTACA
* *
18450995 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18451059 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
18451076 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
18451141 TGCGAGTTGA
65 TGCGAATTGA
18451151 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:18451162 original size:82 final size:81
Alignment explanation
Indices: 18450991--18451171 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
18450981 GATTAAATTG
* *
18450991 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18451056 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
18451072 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
18451136 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
18451154 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18451172 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:18460236 original size:17 final size:17
Alignment explanation
Indices: 18460214--18460262 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
18460204 CTTATTGAAT
18460214 CCCGATAAATGA-AAGTG
1 CCCGATAAATGATAA-TG
* *
18460231 CCCGATCAATTATAATG
1 CCCGATAAATGATAATG
*
18460248 CCCGACAAATGATAA
1 CCCGATAAATGATAA
18460263 ATGATAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 24 0.92
18 2 0.08
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.20
Consensus pattern (17 bp):
CCCGATAAATGATAATG
Found at i:18466540 original size:45 final size:45
Alignment explanation
Indices: 18466476--18466583 Score: 207
Period size: 45 Copynumber: 2.4 Consensus size: 45
18466466 GTGTGATGAC
*
18466476 TCCTGACATTTTCAAATGTGTTTTTATATAGTAAATGGACCCTAA
1 TCCTGACATTTTCAAATGTGTTTTTATATAGTAAATAGACCCTAA
18466521 TCCTGACATTTTCAAATGTGTTTTTATATAGTAAATAGACCCTAA
1 TCCTGACATTTTCAAATGTGTTTTTATATAGTAAATAGACCCTAA
18466566 TCCTGACATTTTCAAATG
1 TCCTGACATTTTCAAATG
18466584 CCGTCTAATT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (45 bp):
TCCTGACATTTTCAAATGTGTTTTTATATAGTAAATAGACCCTAA
Found at i:18470489 original size:27 final size:28
Alignment explanation
Indices: 18470428--18470557 Score: 210
Period size: 27 Copynumber: 4.7 Consensus size: 28
18470418 GGGTTTAAAT
18470428 TATGTAGCACTAAGTGTGCGAGTTTGAC
1 TATGTAGCACTAAGTGTGCGAGTTTGAC
18470456 TATGTAGCACTAAGTGTGCGAG-TTGAC
1 TATGTAGCACTAAGTGTGCGAGTTTGAC
*
18470483 TATGTAGCACTAAGTGTGCGAGTTTGAT
1 TATGTAGCACTAAGTGTGCGAGTTTGAC
*
18470511 TATGTAGCACTAAGTGTGCGAG-TTGAT
1 TATGTAGCACTAAGTGTGCGAGTTTGAC
* *
18470538 TATATAGCACTGAGTGTGCG
1 TATGTAGCACTAAGTGTGCG
18470558 GACTTAATAT
Statistics
Matches: 98, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
27 50 0.51
28 48 0.49
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
TATGTAGCACTAAGTGTGCGAGTTTGAC
Found at i:18470498 original size:55 final size:55
Alignment explanation
Indices: 18470428--18470557 Score: 224
Period size: 55 Copynumber: 2.4 Consensus size: 55
18470418 GGGTTTAAAT
18470428 TATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGAC
1 TATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGAC
* *
18470483 TATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGAT
1 TATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGAC
* *
18470538 TATATAGCACTGAGTGTGCG
1 TATGTAGCACTAAGTGTGCG
18470558 GACTTAATAT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 71 1.00
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.32
Consensus pattern (55 bp):
TATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGAC
Found at i:18475374 original size:12 final size:12
Alignment explanation
Indices: 18475357--18475384 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
18475347 ACCTGATGAG
18475357 CGTGCGATTGCT
1 CGTGCGATTGCT
18475369 CGTGCGATTGCT
1 CGTGCGATTGCT
18475381 CGTG
1 CGTG
18475385 TAAGGATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.25, G:0.36, T:0.32
Consensus pattern (12 bp):
CGTGCGATTGCT
Found at i:18477735 original size:27 final size:27
Alignment explanation
Indices: 18477694--18477747 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
18477684 TATCATGTGA
* *
18477694 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
18477721 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
18477748 GGTTGTACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:18478822 original size:34 final size:33
Alignment explanation
Indices: 18478752--18478822 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
18478742 ACACAGTGTT
**
18478752 AGTACAATCTGGGCCAAAGCCCTATTCAGTAAC
1 AGTACAATCTGGGCCAAAGCCCTAAACAGTAAC
* ** *
18478785 AGTACAGTCTGGGCCTTAGCCCTTAAACAGTAGC
1 AGTACAATCTGGGCCAAAGCCC-TAAACAGTAAC
18478819 AGTA
1 AGTA
18478823 TGGGCCTAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
33 19 0.61
34 12 0.39
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (33 bp):
AGTACAATCTGGGCCAAAGCCCTAAACAGTAAC
Found at i:18478893 original size:31 final size:31
Alignment explanation
Indices: 18478850--18478933 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
18478840 TCAATCTCGA
18478850 CATAT-ACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
18478880 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
*
18478911 CATATCACTAGGCCAAAGCCTTT
1 CATATCACTGGGCCAAAGCCTTT
18478934 ATTGTAAACG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCAAAGCCTTTTCATAAAT
Found at i:18479017 original size:42 final size:42
Alignment explanation
Indices: 18478957--18479048 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
18478947 TGGCCCATAG
18478957 GCCCATTTCAATAACACATGAAATATC-AATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATA-CAAATGAATGTATGCAA
*
18478999 GCCCATTTCAATATCACATGAAATACAAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACAAATGAATGTATGCAA
18479041 GCCCATTT
1 GCCCATTT
18479049 AGGGAGACTA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 1 0.02
42 47 0.98
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACAAATGAATGTATGCAA
Found at i:18479224 original size:25 final size:25
Alignment explanation
Indices: 18479196--18479289 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 25
18479186 CTCTTTTAAT
*
18479196 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
18479221 AACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* **
18479246 AACTAGGGCTTAGCCCTTTTCG-TA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
18479270 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
18479290 AGCACTTCCT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
24 20 0.33
25 41 0.67
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:18480124 original size:27 final size:27
Alignment explanation
Indices: 18480094--18480158 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
18480084 GGGCATATTC
18480094 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
18480121 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
18480148 GTCTTTTTACC
1 GTCATTTTACC
18480159 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:18480160 original size:26 final size:26
Alignment explanation
Indices: 18480094--18480194 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 26
18480084 GGGCATATTC
18480094 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACC-TACAAGGGTATTACG
* *
18480121 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAAGGG-TATTACG
* * *
18480148 GTCTTTTTACCTATTAGGGGTATTTA--
1 GTCATTTTACCTA-CAAGGGTA-TTACG
*
18480174 GTCATTTCATCCTACAAGGGT
1 GTCATTTTA-CCTACAAGGGT
18480195 GTTTTGGTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
26 17 0.29
27 36 0.61
28 6 0.10
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.37
Consensus pattern (26 bp):
GTCATTTTACCTACAAGGGTATTACG
Found at i:18480241 original size:27 final size:27
Alignment explanation
Indices: 18480211--18480296 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
18480201 GTAAATCTAC
*
18480211 AAACCAAGGGTATTTCAGTAGTTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
18480238 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
18480264 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
18480294 AAA
1 AAA
18480297 TTAGGGGTGT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.02
27 21 0.44
28 7 0.15
29 18 0.38
30 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:18480384 original size:53 final size:54
Alignment explanation
Indices: 18480208--18480452 Score: 179
Period size: 54 Copynumber: 4.5 Consensus size: 54
18480198 TTGGTAAATC
* * * *** ** *
18480208 TACAAACCAAGGGTATTTCAGTAGTTTTGTAAACCAATGGTATTTCTATAATTTT
1 TACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCGATAA-TTT
* * * *** ** * * *
18480263 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATTAGGGGTGTTTTGGTAATTT
1 TACAAACT-AAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCGATAATTT
* * *
18480318 TACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTA-TTCGATAATTT
1 TACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCGATAATTT
* * * *
18480371 TACAAACTAAGGGTATTTTC-GTAATTTTACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACTAAGGGTA-TTTCGGTAATTTCACAAACCAGGGGTATTTCGATAATTT
* *
18480425 TACAAACTAGGGGTATTTTGGTTAATTT
1 TACAAACTAAGGGTATTTCGG-TAATTT
18480453 TATCCTACAG
Statistics
Matches: 150, Mismatches: 35, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
53 44 0.29
54 53 0.35
55 20 0.13
56 33 0.22
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
TACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCGATAATTT
Found at i:18480470 original size:28 final size:27
Alignment explanation
Indices: 18480274--18480454 Score: 197
Period size: 27 Copynumber: 6.7 Consensus size: 27
18480264 AGAAAGTCAA
** *
18480274 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
* *
18480301 GGGTGTTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
18480327 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* * * *
18480355 TGGTA-TTCGATAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
18480381 GGGTATTTTCGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
18480408 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
18480435 GGGTATTTTGGTTAATTTTA
1 GGGTATTTTGG-TAATTTTA
18480455 TCCTACAGGG
Statistics
Matches: 129, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
26 24 0.19
27 96 0.74
28 9 0.07
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:18480517 original size:27 final size:27
Alignment explanation
Indices: 18480483--18480603 Score: 174
Period size: 27 Copynumber: 4.5 Consensus size: 27
18480473 GTAATTTCAT
* *
18480483 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
18480510 AA-CTGAGGGT-AAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
*
18480536 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
18480563 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
18480590 AATCGAGGGTAAAA
1 AATCGAGGGTAAAA
18480604 CAGCAATTCT
Statistics
Matches: 86, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
26 24 0.28
27 62 0.72
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:18480540 original size:53 final size:54
Alignment explanation
Indices: 18480483--18480625 Score: 191
Period size: 54 Copynumber: 2.7 Consensus size: 54
18480473 GTAATTTCAT
* * * *
18480483 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGT-AAATGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAATGGTAATTCTATA
*
18480536 AATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
* **
18480590 AATCGAGGGTAAAACAGCAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGG
18480626 CATTTCAGTA
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 32 0.41
54 47 0.59
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.27
Consensus pattern (54 bp):
AATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:18480611 original size:27 final size:27
Alignment explanation
Indices: 18480483--18480625 Score: 155
Period size: 27 Copynumber: 5.3 Consensus size: 27
18480473 GTAATTTCAT
** * *
18480483 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTCTATA
* * *
18480510 AA-CTGAGGGT-AAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATAGTAATTCTATA
*
18480536 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAATAGTAATTCTATA
*
18480563 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTATA
* * *
18480590 AATCGAGGGTAAAACAGCAATTCTACA
1 AATCGAGGGTAAAATAGTAATTCTATA
18480617 AATCGAGGG
1 AATCGAGGG
18480626 CATTTCAGTA
Statistics
Matches: 104, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
26 24 0.23
27 80 0.77
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTCTATA
Found at i:18482980 original size:31 final size:31
Alignment explanation
Indices: 18482934--18483017 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
18482924 TCAGTCTCGA
18482934 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
18482964 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
18482995 CTTATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
18483018 ATTGTAAACA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:18483101 original size:42 final size:42
Alignment explanation
Indices: 18483041--18483132 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
18483031 TGGCCCATAG
* *
18483041 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGAAA
*
18483083 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGAAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGAAA
18483125 GCCCATTT
1 GCCCATTT
18483133 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGAAA
Found at i:18483310 original size:50 final size:51
Alignment explanation
Indices: 18483244--18483349 Score: 119
Period size: 50 Copynumber: 2.1 Consensus size: 51
18483234 AGCATAGCTG
**
18483244 CTTTTTCATATAACTGGAGGCCTAGCCTCTTTT-AAT-AACTAGGGCAAAGCC
1 CTTTTTCATATAACTGG-GGCAAAGCC-CTTTTCAATAAACTAGGGCAAAGCC
* ** *
18483295 CTTTTTGATA-AACTGGGGCAAAGCCCTTTTCGGTAAACTAGGGCATAGCC
1 CTTTTTCATATAACTGGGGCAAAGCCCTTTTCAATAAACTAGGGCAAAGCC
18483345 CTTTT
1 CTTTT
18483350 AGCACTTCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
48 5 0.11
49 8 0.17
50 25 0.53
51 9 0.19
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (51 bp):
CTTTTTCATATAACTGGGGCAAAGCCCTTTTCAATAAACTAGGGCAAAGCC
Found at i:18483314 original size:25 final size:25
Alignment explanation
Indices: 18483280--18483349 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
18483270 CTCTTTTAAT
*
18483280 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
* *
18483305 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGATA
*
18483330 AACTAGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
18483350 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:18484189 original size:27 final size:27
Alignment explanation
Indices: 18484159--18484223 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
18484149 GGGCATATTC
*
18484159 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAGGGGAT-TTACG
* *
18484186 GTCACTTTACCCTACAGGGGATTTACG
1 GTCATTTTACCATACAGGGGATTTACG
*
18484213 GTCTTTTTACC
1 GTCATTTTACC
18484224 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGATTTACG
Done.