Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 61 of 373
Found at i:18339043 original size:43 final size:43
Alignment explanation
Indices: 18338702--18339029 Score: 444
Period size: 43 Copynumber: 7.6 Consensus size: 43
18338692 TTATCGTACA
* * *
18338702 ATGCTAACATCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * * *
18338745 ATGCC-ACTGTCCCAGATAG-GGTCTTACTCGTAAACATATATCG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACACGTAATCACATATCG
*
18338788 ATGCTAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
18338831 ATGCCAACGTCCTAGATGTGCTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * * *
18338874 ATGCCAATGACCCAAACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
18338917 ATGCCAACGTCCCAGACGTGGTCTTACATGTAGTCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
18338960 ATGCCATCATCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
18339003 ATGCCAACGTCCTAGACGTGGTCTTAC
1 ATGCCAACGTCCCAGACGTGGTCTTAC
18339030 TCACACACAC
Statistics
Matches: 245, Mismatches: 36, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
42 3 0.01
43 239 0.98
44 3 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:18339078 original size:56 final size:56
Alignment explanation
Indices: 18338991--18339122 Score: 192
Period size: 56 Copynumber: 2.4 Consensus size: 56
18338981 TCTTACACGT
* * **
18338991 AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACTCACACACACATATTGG
1 AATCACATATCGATGCCAACGTACTAAACGTGGTCTTACTCACACACACATATCAG
* * * *
18339047 AATCACATAACGATGCCAACGTATTAAACGTGGTCTTACTCGCACACACGTATCAG
1 AATCACATATCGATGCCAACGTACTAAACGTGGTCTTACTCACACACACATATCAG
18339103 AATCACATATCGATGCCAAC
1 AATCACATATCGATGCCAAC
18339123 TCAAAAAATG
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 67 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.23
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTACTAAACGTGGTCTTACTCACACACACATATCAG
Found at i:18345453 original size:21 final size:21
Alignment explanation
Indices: 18345427--18345469 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
18345417 AGGACCCACA
18345427 TACTTAGCATGAAAACTAGTC
1 TACTTAGCATGAAAACTAGTC
*
18345448 TACTTAGCCTGAAAACTAGTC
1 TACTTAGCATGAAAACTAGTC
18345469 T
1 T
18345470 TGAAAAACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (21 bp):
TACTTAGCATGAAAACTAGTC
Found at i:18348880 original size:13 final size:13
Alignment explanation
Indices: 18348862--18348887 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18348852 CCAACACGCT
18348862 ACATACCACTAGA
1 ACATACCACTAGA
18348875 ACATACCACTAGA
1 ACATACCACTAGA
18348888 CTAGTAGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.31, G:0.08, T:0.15
Consensus pattern (13 bp):
ACATACCACTAGA
Found at i:18350001 original size:28 final size:28
Alignment explanation
Indices: 18349961--18350016 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
18349951 CAAACTAACC
18349961 AATAAGTAGGGAGAAAACATATGTTCTT
1 AATAAGTAGGGAGAAAACATATGTTCTT
18349989 AATAAGTAGGGAGAAAACATATGTTCTT
1 AATAAGTAGGGAGAAAACATATGTTCTT
18350017 TCTCATATTA
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:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (28 bp):
AATAAGTAGGGAGAAAACATATGTTCTT
Found at i:18350841 original size:27 final size:27
Alignment explanation
Indices: 18350803--18350886 Score: 159
Period size: 27 Copynumber: 3.1 Consensus size: 27
18350793 ATTCTCCCAA
*
18350803 ACTTAAAGTTTGTATTGTCTTCAATGC
1 ACTTAAAGTTTGCATTGTCTTCAATGC
18350830 ACTTAAAGTTTGCATTGTCTTCAATGC
1 ACTTAAAGTTTGCATTGTCTTCAATGC
18350857 ACTTAAAGTTTGCATTGTCTTCAATGC
1 ACTTAAAGTTTGCATTGTCTTCAATGC
18350884 ACT
1 ACT
18350887 AACATTTAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (27 bp):
ACTTAAAGTTTGCATTGTCTTCAATGC
Found at i:18354676 original size:23 final size:23
Alignment explanation
Indices: 18354618--18354685 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
18354608 GTATATATAC
*
18354618 TAGCAGCTTTGCTGCGTTACTAT
1 TAGCAGCTTTGTTGCGTTACTAT
*
18354641 TAGCAACTTTGTTGCGTTACTAT
1 TAGCAGCTTTGTTGCGTTACTAT
* * *
18354664 TAGCAGCTATGTTACGATACTA
1 TAGCAGCTTTGTTGCGTTACTA
18354686 GTGAGCTAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (23 bp):
TAGCAGCTTTGTTGCGTTACTAT
Found at i:18354762 original size:21 final size:21
Alignment explanation
Indices: 18354721--18354763 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
18354711 AATCCCCACA
* *
18354721 TGGTGAGTTGGTTGGTATGGG
1 TGGTGAGCTGGTTGATATGGG
18354742 TGGTGAGCTGGTTTGAT-TGGG
1 TGGTGAGCTGG-TTGATATGGG
18354763 T
1 T
18354764 TGGGTTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.09, C:0.02, G:0.49, T:0.40
Consensus pattern (21 bp):
TGGTGAGCTGGTTGATATGGG
Found at i:18358286 original size:27 final size:27
Alignment explanation
Indices: 18358238--18358296 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
18358228 ATGTGCCTAA
* * *
18358238 CATACTTATTGATGACTCTGTGTTGAT
1 CATATTTATTGAAGACTCTGTGTCGAT
* *
18358265 CATATTTATTGAAGGCTGTGTGTCGAT
1 CATATTTATTGAAGACTCTGTGTCGAT
*
18358292 TATAT
1 CATAT
18358297 AACCGTCGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (27 bp):
CATATTTATTGAAGACTCTGTGTCGAT
Found at i:18364397 original size:34 final size:34
Alignment explanation
Indices: 18364354--18364421 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
18364344 GAATGTCGTG
*
18364354 CATGGGACAATGTCAAAGCAAAGATTTATAACGT
1 CATGGGACAACGTCAAAGCAAAGATTTATAACGT
18364388 CATGGGACAACGTCAAAGCAAAGATTTATAACGT
1 CATGGGACAACGTCAAAGCAAAGATTTATAACGT
18364422 TCTCATATGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (34 bp):
CATGGGACAACGTCAAAGCAAAGATTTATAACGT
Found at i:18384499 original size:43 final size:42
Alignment explanation
Indices: 18384376--18384529 Score: 177
Period size: 42 Copynumber: 3.6 Consensus size: 42
18384366 TAAGTATATG
**
18384376 TGTAAGACCATATCTGGGATATGGCATC-A-ACATGAGATTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGATACA--AGATTTCA
* **
18384418 TGTAAGACCATATCTGAGATATGGCATCGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATACAAGATTTCA
* * * *
18384460 TATAAGACCATAGCTGGGCTATTGGCATCGATACAAGATTACA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATACAAGATTTCA
*
18384503 TGTAAGACCATATCTGGGATACGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
18384530 TGGTATGGTA
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 55 0.59
43 37 0.40
44 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATACAAGATTTCA
Found at i:18388312 original size:40 final size:39
Alignment explanation
Indices: 18388231--18388411 Score: 177
Period size: 40 Copynumber: 4.5 Consensus size: 39
18388221 AATGATGTCT
* * * *
18388231 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATCC
* * * *
18388271 GGACTAAGATCCAAAGGCATTTGTGTGAGTTACTAATTCC
1 GGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATCC
* * *
18388311 GGGCTAAGCCCGAAGGTATTAGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
18388350 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
18388390 GGGCTATGTCCCGAAGGCATTT
1 GGGCTAAGT-CCGAAGGCATTT
18388412 AACGAGTAGC
Statistics
Matches: 116, Mismatches: 21, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 32 0.28
40 75 0.65
41 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
GGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:18388418 original size:79 final size:77
Alignment explanation
Indices: 18388284--18388444 Score: 175
Period size: 79 Copynumber: 2.1 Consensus size: 77
18388274 CTAAGATCCA
* * * *
18388284 AAGGCATTTGTGTGAGTTACTAATTCCGGGCTAAGCCCGAAGGTATTAGTGCGAGTTA-CTAAAT
1 AAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTAG-ACGAG-TAGCTAAAT
*
18388348 CCGGGTTAAGTCCCG
64 CC-GGTTAAATCCCG
* *
18388363 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTA-ACGAGTAGCTATA
1 AAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCA-TTAGACGAGTAGCTAAA
*
18388426 TCCGGTTAAATTCCG
63 TCCGGTTAAATCCCG
18388441 AAGG
1 AAGG
18388445 TACGTGATTC
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
78 18 0.26
79 40 0.57
80 9 0.13
81 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (77 bp):
AAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTAGACGAGTAGCTAAATCC
GGTTAAATCCCG
Found at i:18391385 original size:26 final size:26
Alignment explanation
Indices: 18391349--18391401 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
18391339 GTGCAAAAGG
18391349 GTAAACTTACCATGAGAGTTCAAGAT
1 GTAAACTTACCATGAGAGTTCAAGAT
18391375 GTAAACTTACCATGAGAGTTCAAGAT
1 GTAAACTTACCATGAGAGTTCAAGAT
18391401 G
1 G
18391402 ATCACGTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (26 bp):
GTAAACTTACCATGAGAGTTCAAGAT
Found at i:18400134 original size:49 final size:49
Alignment explanation
Indices: 18400062--18400161 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
18400052 CATATAATGC
18400062 ATACGGCTCTGGTTGCTAGTAACTCGTACTAACATCATTCGTTTAAAGT
1 ATACGGCTCTGGTTGCTAGTAACTCGTACTAACATCATTCGTTTAAAGT
18400111 ATACGGCTCTGGTTGCTAGTAACTCGTACTAACATCATTCGTTTAAAGT
1 ATACGGCTCTGGTTGCTAGTAACTCGTACTAACATCATTCGTTTAAAGT
18400160 AT
1 AT
18400162 TCCAATAAGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (49 bp):
ATACGGCTCTGGTTGCTAGTAACTCGTACTAACATCATTCGTTTAAAGT
Found at i:18410410 original size:18 final size:18
Alignment explanation
Indices: 18410387--18410430 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
18410377 CGTTCCCAAG
*
18410387 CCACACGGGAGTGTGTGA
1 CCACACGGGAGTGTGTCA
*
18410405 CCACACGGGCGTGTGTCA
1 CCACACGGGAGTGTGTCA
18410423 CCACACGG
1 CCACACGG
18410431 CCTACCTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.20, C:0.32, G:0.34, T:0.14
Consensus pattern (18 bp):
CCACACGGGAGTGTGTCA
Found at i:18414630 original size:23 final size:23
Alignment explanation
Indices: 18414604--18414654 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
18414594 TATCACATAA
18414604 TAAA-CACATAATTCAAACCAACT
1 TAAATCAC-TAATTCAAACCAACT
**
18414627 TAAATGGCTAATTCAAACCAACT
1 TAAATCACTAATTCAAACCAACT
18414650 TAAAT
1 TAAAT
18414655 GGCCAAATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.25
Consensus pattern (23 bp):
TAAATCACTAATTCAAACCAACT
Found at i:18414655 original size:23 final size:23
Alignment explanation
Indices: 18414612--18414657 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
18414602 AATAAACACA
18414612 TAATTCAAACCAACTTAAATGGC
1 TAATTCAAACCAACTTAAATGGC
18414635 TAATTCAAACCAACTTAAATGGC
1 TAATTCAAACCAACTTAAATGGC
18414658 CAAATACATG
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:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (23 bp):
TAATTCAAACCAACTTAAATGGC
Found at i:18417925 original size:30 final size:30
Alignment explanation
Indices: 18417891--18417981 Score: 164
Period size: 30 Copynumber: 3.0 Consensus size: 30
18417881 ATTGGCTGAA
*
18417891 TCGTGTCGTCGTTTTTACATTCCAAGTAAG
1 TCGTGTCGTCGTTTTTACATTCCAGGTAAG
18417921 TCGTGTCGTCGTTTTTACATTCCAGGTAAG
1 TCGTGTCGTCGTTTTTACATTCCAGGTAAG
*
18417951 TCGTGTCGTCATTTTTACATTCCAGGTAAG
1 TCGTGTCGTCGTTTTTACATTCCAGGTAAG
18417981 T
1 T
18417982 TTGTATATAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.41
Consensus pattern (30 bp):
TCGTGTCGTCGTTTTTACATTCCAGGTAAG
Found at i:18431605 original size:144 final size:144
Alignment explanation
Indices: 18431350--18431627 Score: 342
Period size: 144 Copynumber: 1.9 Consensus size: 144
18431340 TGTGAGTATT
* * * ** *
18431350 GAGATCCCGTATAAGACCATACCTGGGATATGGCATTGGCATCGAGATGAGATTTCGTGTAAGAC
1 GAGATCCCGTATAAGACCACACCTGGGACATGGCATCGGCATCGAGATGAGATCCCATGTAAGAC
* * * ** * *
18431415 CATATCTCGGATATGGTATTGGCATTAGTATGAGATCTTATGTAAGACCATATCTAGGATATGGC
66 CATATCTCGGATATGGCATTGGCATCAATATGAGATCCCATATAAGACCATATCTAGGACATGGC
18431480 ATCGACATCGATAA
131 ATCGACATCGATAA
*** *
18431494 GAGATCCCGTATAAGACCACGTTTGGGACATGGCATCGGCATC-AGTATGATATCCCATGTAAGA
1 GAGATCCCGTATAAGACCACACCTGGGACATGGCATCGGCATCGAG-ATGAGATCCCATGTAAGA
* * * * *
18431558 CCATATCTGGGATATGGCATTGGCATCAATATGAGGTCCCGTATAAGACCATGTCTGGGACATGG
65 CCATATCTCGGATATGGCATTGGCATCAATATGAGATCCCATATAAGACCATATCTAGGACATGG
18431623 CATCG
130 CATCG
18431628 GCACCGTTAT
Statistics
Matches: 111, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
143 2 0.02
144 109 0.98
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (144 bp):
GAGATCCCGTATAAGACCACACCTGGGACATGGCATCGGCATCGAGATGAGATCCCATGTAAGAC
CATATCTCGGATATGGCATTGGCATCAATATGAGATCCCATATAAGACCATATCTAGGACATGGC
ATCGACATCGATAA
Found at i:18431639 original size:96 final size:96
Alignment explanation
Indices: 18431344--18431630 Score: 349
Period size: 96 Copynumber: 3.0 Consensus size: 96
18431334 ATGACATGTG
* * * * ** *
18431344 AGTATTGAGATCCCGTATAAGACCATACCTGGGATATGGCATTGGCATCGAGATGAGATTTCGTG
1 AGTA-TGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGATCCCGTA
* * * * * *
18431409 TAAGACCATATCTCGGATATGGTATTGGCATT
65 TAAGACCATGTCTGGGACATGGCATCGGCATC
** * * * *
18431441 AGTATGAGATCTTATGTAAGACCATATCTAGGATATGGCATCGACATCGATAAGAGATCCCGTAT
1 AGTATGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGATCCCGTAT
* *
18431506 AAGACCACGTTTGGGACATGGCATCGGCATC
66 AAGACCATGTCTGGGACATGGCATCGGCATC
* * *
18431537 AGTATGATATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAATATGAGGTCCCGTAT
1 AGTATGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGATCCCGTAT
18431602 AAGACCATGTCTGGGACATGGCATCGGCA
66 AAGACCATGTCTGGGACATGGCATCGGCA
18431631 CCGTTATGAG
Statistics
Matches: 158, Mismatches: 32, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
96 154 0.97
97 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (96 bp):
AGTATGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGATCCCGTAT
AAGACCATGTCTGGGACATGGCATCGGCATC
Found at i:18431653 original size:48 final size:48
Alignment explanation
Indices: 18431349--18431641 Score: 275
Period size: 48 Copynumber: 6.1 Consensus size: 48
18431339 ATGTGAGTAT
* * * *
18431349 TGAGATCCCGTATAAGACCATACCTGGGATATGGCATTGGCATCGAGA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATA
** * * * *
18431397 TGAGATTTCGTGTAAGACCATATCTCGGATATGGTATTGGCAT-TAGTA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGA-TA
*** * *
18431445 TGAGATCTTATGTAAGACCATATCTAGGATATGGCATCGACATCGATA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATA
* * ** * *
18431493 AGAGATCCCGTATAAGACCACGTTTGGGACATGGCATCGGCATC-AGTA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGA-TA
* * * *
18431541 TGATATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAATA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATA
* * * * * *
18431589 TGAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCGGCACCGTTA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATA
18431637 TGAGA
1 TGAGA
18431642 CTTCGTGTAA
Statistics
Matches: 194, Mismatches: 47, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
47 2 0.01
48 190 0.98
49 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (48 bp):
TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATA
Found at i:18431664 original size:96 final size:96
Alignment explanation
Indices: 18431361--18431723 Score: 328
Period size: 96 Copynumber: 3.8 Consensus size: 96
18431351 AGATCCCGTA
* * * ** * ** *
18431361 TAAGACCATACCTGGGATATGGCATTGGCATCGAGATGAGATTTCGTGTAAGACCATATCTCGGA
1 TAAGACCATATCTGGGATATGGCATTGGCATCAATATGAGATCCCGTATAAGACCACGTCTGGGA
* * * *
18431426 TATGGTATTGGCATTAGTATGAGATCTT-ATG
66 CATGGCATCGGCATCAGTATGAGA-CTTCATG
* * * * * *
18431457 TAAGACCATATCTAGGATATGGCATCGACATCGATAAGAGATCCCGTATAAGACCACGTTTGGGA
1 TAAGACCATATCTGGGATATGGCATTGGCATCAATATGAGATCCCGTATAAGACCACGTCTGGGA
* *
18431522 CATGGCATCGGCATCAGTATGATA-TCCCATG
66 CATGGCATCGGCATCAGTATGAGACT-TCATG
* *
18431553 TAAGACCATATCTGGGATATGGCATTGGCATCAATATGAGGTCCCGTATAAGACCATGTCTGGGA
1 TAAGACCATATCTGGGATATGGCATTGGCATCAATATGAGATCCCGTATAAGACCACGTCTGGGA
* *
18431618 CATGGCATCGGCA-CCGTTATGAGACTTCGTG
66 CATGGCATCGGCATCAG-TATGAGACTTCATG
* * * * * * * *
18431649 TAAGATCGTAGCTGGG--CT---ATTGGCATCAATGTGTGATCCCATATAAGACCACGTTTGGGA
1 TAAGACCATATCTGGGATATGGCATTGGCATCAATATGAGATCCCGTATAAGACCACGTCTGGGA
* *
18431709 CATGGCTTTGGCATC
66 CATGGCATCGGCATC
18431724 CTATTCTGTG
Statistics
Matches: 219, Mismatches: 43, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
91 47 0.21
92 1 0.00
94 2 0.01
95 2 0.01
96 166 0.76
97 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (96 bp):
TAAGACCATATCTGGGATATGGCATTGGCATCAATATGAGATCCCGTATAAGACCACGTCTGGGA
CATGGCATCGGCATCAGTATGAGACTTCATG
Found at i:18440429 original size:26 final size:27
Alignment explanation
Indices: 18440388--18440445 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
18440378 AACTTAGCCA
* * *
18440388 TTTTTTATTTATATTTTAATATTTTTG
1 TTTTTAATTTATATTTTAACATTTTAG
*
18440415 TTTTTAATTTA-ATTTTTACATTTTAG
1 TTTTTAATTTATATTTTAACATTTTAG
18440441 TTTTT
1 TTTTT
18440446 CTTTTATTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.72
Consensus pattern (27 bp):
TTTTTAATTTATATTTTAACATTTTAG
Found at i:18443337 original size:27 final size:26
Alignment explanation
Indices: 18443244--18443345 Score: 96
Period size: 26 Copynumber: 3.8 Consensus size: 26
18443234 CAGAAGCAGT
* * * *
18443244 TTGGGCCTGAGTCCATTACAGTAATAG
1 TTGGGCCT-AGCCCATAATAGTAACAG
* * **
18443271 TTGGGCCTAGCCCAAAACAGTGTCAG
1 TTGGGCCTAGCCCATAATAGTAACAG
* *
18443297 ATGGGCCTAGCCCATATTAGTAACAG
1 TTGGGCCTAGCCCATAATAGTAACAG
18443323 TTGGGCCTTAGCCCATAATAGTA
1 TTGGGCC-TAGCCCATAATAGTA
18443346 TCAACATCAG
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 38 0.63
27 22 0.37
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (26 bp):
TTGGGCCTAGCCCATAATAGTAACAG
Found at i:18444225 original size:27 final size:27
Alignment explanation
Indices: 18444192--18444253 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
18444182 CAAAACAATC
* * *
18444192 ATTTTACCCTATAAGTGTATTTTGGTA
1 ATTTTACACTACAAGAGTATTTTGGTA
18444219 ATTTTACACTACAAGAGTATTTTGGTA
1 ATTTTACACTACAAGAGTATTTTGGTA
18444246 ATTTTACA
1 ATTTTACA
18444254 AACTGAGGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (27 bp):
ATTTTACACTACAAGAGTATTTTGGTA
Found at i:18446828 original size:9 final size:9
Alignment explanation
Indices: 18446816--18446846 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
18446806 AAAAACTAAA
18446816 AAATTTAAT
1 AAATTTAAT
18446825 AAATTTAAT
1 AAATTTAAT
18446834 AAATTTAAT
1 AAATTTAAT
18446843 AAAT
1 AAAT
18446847 AAAAAAAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAATTTAAT
Found at i:18447814 original size:28 final size:29
Alignment explanation
Indices: 18447782--18447839 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
18447772 TTAGTTGTTT
*
18447782 TATTATTATTATTAGATTTAG-GTTATTA
1 TATTATTATTATTAGATTTAGTGATATTA
* *
18447810 TATTATTTTTATTAGTTTTAGTGATATTA
1 TATTATTATTATTAGATTTAGTGATATTA
18447839 T
1 T
18447840 TATTCATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.60
Consensus pattern (29 bp):
TATTATTATTATTAGATTTAGTGATATTA
Found at i:18450083 original size:16 final size:16
Alignment explanation
Indices: 18450058--18450088 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18450048 ACCCAAGGGT
18450058 GAAGGCAGAAAATCGC
1 GAAGGCAGAAAATCGC
*
18450074 GAAGGTAGAAAATCG
1 GAAGGCAGAAAATCG
18450089 GTTTAGGAGG
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:0.45, C:0.13, G:0.32, T:0.10
Consensus pattern (16 bp):
GAAGGCAGAAAATCGC
Found at i:18453279 original size:41 final size:43
Alignment explanation
Indices: 18453181--18453339 Score: 155
Period size: 43 Copynumber: 3.8 Consensus size: 43
18453171 CAATTCCATA
* * * *
18453181 TCCCAGATATGGTCTTACATGTTATCACATATCGATGTCATTG
1 TCCCAGACATGGTCTTACATGTAATCACATATCGATGCCAATG
* * *
18453224 TCCCAGACAGGGTCTTACATG-AATTATATAT-GATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCACATATCGATGCCAATG
* * ** *
18453265 TCCCAGGCATGGTCTTACACGTTTTCTCACT-TCGATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCACA-TATCGATGCCAATG
* *
18453308 TCCTAGACATGGTCTTACACG-AATCACATATC
1 TCCCAGACATGGTCTTACATGTAATCACATATC
18453340 AAAAGTCCTA
Statistics
Matches: 92, Mismatches: 20, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
41 27 0.29
42 16 0.17
43 49 0.53
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGTAATCACATATCGATGCCAATG
Found at i:18455035 original size:18 final size:20
Alignment explanation
Indices: 18454976--18455036 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 20
18454966 AGGCAAAAAT
18454976 AAAT-AAGATAAAAAGATAACA
1 AAATAAAGA-AAAAA-ATAACA
*
18454997 AACTAAAGAAAAACAACTAACA
1 AAATAAAGAAAAA-AA-TAACA
18455019 AAAT-AA-AAAAAAATAACA
1 AAATAAAGAAAAAAATAACA
18455037 GGGCATAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
18 5 0.14
19 2 0.06
20 5 0.14
21 10 0.29
22 13 0.37
ACGTcount: A:0.74, C:0.10, G:0.05, T:0.11
Consensus pattern (20 bp):
AAATAAAGAAAAAAATAACA
Found at i:18456378 original size:21 final size:21
Alignment explanation
Indices: 18456354--18456395 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
18456344 TTAACGGGAC
18456354 AGCTGACGTGGCTAGTTAACT
1 AGCTGACGTGGCTAGTTAACT
*
18456375 AGCTGATGTGGCTAGTTAACT
1 AGCTGACGTGGCTAGTTAACT
18456396 TGCCATGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (21 bp):
AGCTGACGTGGCTAGTTAACT
Found at i:18458640 original size:17 final size:17
Alignment explanation
Indices: 18458620--18458653 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
18458610 TATATTACTA
18458620 TTATTATCCAT-TATTTT
1 TTATTAT-CATATATTTT
18458637 TTATTATCATATATTTT
1 TTATTATCATATATTTT
18458654 ATCTATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATCATATATTTT
Found at i:18458690 original size:14 final size:14
Alignment explanation
Indices: 18458635--18458709 Score: 55
Period size: 14 Copynumber: 5.3 Consensus size: 14
18458625 ATCCATTATT
*
18458635 TTTTATTATCATATA
1 TTTTATT-TTATATA
* *
18458650 TTTTATCTATAAATTA
1 TTTTAT-TTTATA-TA
* *
18458666 TATTATATTATATA
1 TTTTATTTTATATA
18458680 TTTTATTTTATATA
1 TTTTATTTTATATA
*
18458694 -TTT-CTTTATATA
1 TTTTATTTTATATA
18458706 TTTT
1 TTTT
18458710 TTATAAAATT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
12 8 0.17
13 6 0.13
14 14 0.30
15 11 0.23
16 8 0.17
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTATTTTATATA
Found at i:18458701 original size:12 final size:11
Alignment explanation
Indices: 18458685--18458714 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
18458675 ATATATTTTA
18458685 TTTTATATATT
1 TTTTATATATT
18458696 TCTTTATATATT
1 T-TTTATATATT
18458708 TTTTATA
1 TTTTATA
18458715 AAATTGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTATATATT
Found at i:18458732 original size:20 final size:21
Alignment explanation
Indices: 18458704--18458743 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18458694 TTTCTTTATA
*
18458704 TATTTTTTA-TAAAATTGTAT
1 TATTATTTACTAAAATTGTAT
*
18458724 TATTATTTACTAAATTTGTA
1 TATTATTTACTAAAATTGTA
18458744 AATGGAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (21 bp):
TATTATTTACTAAAATTGTAT
Found at i:18459085 original size:18 final size:18
Alignment explanation
Indices: 18459059--18459099 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
18459049 TACCATATTA
*
18459059 TATTTCATACTATATTTT
1 TATTACATACTATATTTT
18459077 TATTACATACTATATTTT
1 TATTACATACTATATTTT
18459095 TATTA
1 TATTA
18459100 TTCAATATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTACATACTATATTTT
Found at i:18459174 original size:22 final size:22
Alignment explanation
Indices: 18459143--18459185 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
18459133 ATATATCTTT
* *
18459143 TTATTATATATTATTTATTTTG
1 TTATTATATACTAATTATTTTG
*
18459165 TTATTTTATACTAATTATTTT
1 TTATTATATACTAATTATTTT
18459186 ACCATATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTATATACTAATTATTTTG
Found at i:18459237 original size:21 final size:22
Alignment explanation
Indices: 18459211--18459271 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
18459201 GCAAAATACT
18459211 TATTATATTT-TTATTATTTTA
1 TATTATATTTCTTATTATTTTA
18459232 TATTATATTTCCTTA-TATTTTA
1 TATTATATTT-CTTATTATTTTA
* *
18459254 T-TCATATTATATTATTAT
1 TATTATATT-TCTTATTAT
18459272 ACATAACTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 19 0.56
22 12 0.35
23 3 0.09
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTATATTTCTTATTATTTTA
Found at i:18462509 original size:79 final size:77
Alignment explanation
Indices: 18462395--18462538 Score: 234
Period size: 79 Copynumber: 1.8 Consensus size: 77
18462385 AATATGCATG
* * * *
18462395 ATATCTGGAATTATATCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATATCCGGGTTTAAA
1 ATATCTGGAATTATATCGGACTTAAGGTCCACAGGCTATATGCTAGAAATATATCCGGGTTTAAA
18462460 TACCCGCAGGCT
66 TACCCGCAGGCT
18462472 ATATGCTGGAATTATATCCGGACTTAAGGTCCACAGGCTATATGCTAGAAATATATCCGGGTTTA
1 ATAT-CTGGAATTATAT-CGGACTTAAGGTCCACAGGCTATATGCTAGAAATATATCCGGGTTTA
18462537 AA
64 AA
18462539 GTCCCGAAGG
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
77 4 0.07
78 12 0.20
79 45 0.74
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (77 bp):
ATATCTGGAATTATATCGGACTTAAGGTCCACAGGCTATATGCTAGAAATATATCCGGGTTTAAA
TACCCGCAGGCT
Found at i:18462527 original size:39 final size:39
Alignment explanation
Indices: 18462395--18462531 Score: 172
Period size: 39 Copynumber: 3.5 Consensus size: 39
18462385 AATATGCATG
18462395 ATAT-CTGGAATTATAT-CGGACTTAAGGTCCGCAGGCT
1 ATATGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCT
* ** *
18462432 ATGTGCTGGAATTATATCCGGGTTTAA-ATACCCGCAGGCT
1 ATATGCTGGAATTATATCCGGACTTAAGGT--CCGCAGGCT
*
18462472 ATATGCTGGAATTATATCCGGACTTAAGGTCCACAGGCT
1 ATATGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCT
* *
18462511 ATATGCTAGAAATATATCCGG
1 ATATGCTGGAATTATATCCGG
18462532 GTTTAAAGTC
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
37 3 0.04
38 13 0.15
39 34 0.40
40 33 0.39
41 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (39 bp):
ATATGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCT
Found at i:18474427 original size:206 final size:206
Alignment explanation
Indices: 18474031--18474585 Score: 907
Period size: 206 Copynumber: 2.7 Consensus size: 206
18474021 GCAGATCTGG
* *
18474031 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAAAAAATCGAAGACATAGCT
1 CTGAAGCAA-ATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
*
18474096 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGT-AG
65 GATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * * *
18474160 AGAGCAGATCGAAGTTTGGCGTATCCATATTCGATGGAGGGCAGACACATAGTAGATCTAACCTT
130 AGAACAAATCGAAGTTTGGCGTATCCATATTCGACGGAGGGCAAACACATAGCAGATCTAACCTT
18474225 CAGATGATTAGA
195 CAGATGATTAGA
18474237 CTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAA-ATCATAGCT
1 CTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGA-CATAGCT
* * * *
18474301 GATTTAGCTTTCACGTGCTTACGCTGAAGTAAGTCTAAGATGATTTAGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
*
18474366 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAAACACATAGCAGATCTAACCTT
130 AGAACAAATCGAAGTTTGGCGTATCCATATTCGACGGAGGGCAAACACATAGCAGATCTAACCTT
18474431 CAGATGATTAGA
195 CAGATGATTAGA
* * * * *
18474443 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGTTGACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
*
18474508 ATTTGGTTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
18474573 GAACAAATCGAAG
131 GAACAAATCGAAG
18474586 AAGCAGATTT
Statistics
Matches: 323, Mismatches: 23, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
204 1 0.00
205 108 0.33
206 213 0.66
207 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (206 bp):
CTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTTTGGCGTATCCATATTCGACGGAGGGCAAACACATAGCAGATCTAACCTTC
AGATGATTAGA
Found at i:18476189 original size:16 final size:15
Alignment explanation
Indices: 18476158--18476216 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
18476148 ATATTTTTAA
*
18476158 ATATTAGTTATATATT
1 ATATTA-TTATCTATT
18476174 ACTATTATTATCTATT
1 A-TATTATTATCTATT
*
18476190 ATTTTTATTATC-A-T
1 A-TATTATTATCTATT
18476204 ATATT-TTATCTAT
1 ATATTATTATCTAT
18476217 AAATTATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
12 5 0.14
13 4 0.11
14 2 0.06
15 1 0.03
16 19 0.53
17 5 0.14
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (15 bp):
ATATTATTATCTATT
Found at i:18476247 original size:14 final size:14
Alignment explanation
Indices: 18476192--18476266 Score: 55
Period size: 14 Copynumber: 5.3 Consensus size: 14
18476182 TATCTATTAT
*
18476192 TTTTATTATCATATA
1 TTTTATT-TTATATA
* *
18476207 TTTTATCTATAAATTA
1 TTTTAT-TTTATA-TA
* *
18476223 TATTATATTATATA
1 TTTTATTTTATATA
18476237 TTTTATTTTATATA
1 TTTTATTTTATATA
*
18476251 -TTT-CTTTATATA
1 TTTTATTTTATATA
18476263 TTTT
1 TTTT
18476267 TTATAAAATT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
12 8 0.17
13 6 0.13
14 14 0.30
15 11 0.23
16 8 0.17
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTATTTTATATA
Found at i:18476251 original size:44 final size:48
Alignment explanation
Indices: 18476166--18476253 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 48
18476156 AAATATTAGT
*
18476166 TATATATTACTATTATTATCTATTATTTTTATTATCATATATTTTATC
1 TATAAATTACTATTATTATCTATTATTTTTATTATCATATATTTTATC
*
18476214 TATAAATTA-TATTA-TAT-TA-TATATTTTATT-TTATATATTT
1 TATAAATTACTATTATTATCTATTAT-TTTTATTATCATATATTT
18476254 CTTTATATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
44 12 0.32
45 9 0.24
46 3 0.08
47 5 0.14
48 8 0.22
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (48 bp):
TATAAATTACTATTATTATCTATTATTTTTATTATCATATATTTTATC
Found at i:18476258 original size:12 final size:11
Alignment explanation
Indices: 18476242--18476271 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
18476232 ATATATTTTA
18476242 TTTTATATATT
1 TTTTATATATT
18476253 TCTTTATATATT
1 T-TTTATATATT
18476265 TTTTATA
1 TTTTATA
18476272 AAATTGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTATATATT
Found at i:18476289 original size:20 final size:21
Alignment explanation
Indices: 18476261--18476300 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18476251 TTTCTTTATA
*
18476261 TATTTTTTA-TAAAATTGTAT
1 TATTATTTACTAAAATTGTAT
*
18476281 TATTATTTACTAAATTTGTA
1 TATTATTTACTAAAATTGTA
18476301 AATGGCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (21 bp):
TATTATTTACTAAAATTGTAT
Found at i:18476635 original size:18 final size:18
Alignment explanation
Indices: 18476609--18476649 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
18476599 TACCATATTA
*
18476609 TATTTCATACTATATTTT
1 TATTACATACTATATTTT
18476627 TATTACATACTATATTTT
1 TATTACATACTATATTTT
18476645 TATTA
1 TATTA
18476650 TTCAATATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTACATACTATATTTT
Found at i:18476770 original size:10 final size:10
Alignment explanation
Indices: 18476755--18476812 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
18476745 TGCAAAATAC
18476755 TTATTATATT
1 TTATTATATT
18476765 TTATTAT-TT
1 TTATTATATT
18476774 TATATTATATT
1 T-TATTATATT
**
18476785 TCCTTATATT
1 TTATTATATT
18476795 TTATTCATATT
1 TTATT-ATATT
*
18476806 ATATTAT
1 TTATTAT
18476813 TATACATAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 3 0.08
10 25 0.62
11 12 0.30
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (10 bp):
TTATTATATT
Found at i:18476776 original size:15 final size:15
Alignment explanation
Indices: 18476756--18476815 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
18476746 GCAAAATACT
18476756 TATTATATTTTATTA
1 TATTATATTTTATTA
* *
18476771 TTTTATATTATATT-
1 TATTATATTTTATTA
*
18476785 TCCTTATATTTTATTCA
1 T-ATTATATTTTATT-A
18476802 TATTATATTATTAT
1 TATTATATT-TTAT
18476816 ACATAACTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
14 1 0.03
15 23 0.64
16 7 0.19
17 5 0.14
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTATATTTTATTA
Found at i:18476782 original size:5 final size:5
Alignment explanation
Indices: 18476756--18476812 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
18476746 GCAAAATACT
* * * *
18476756 TATTA TATTT TATTA TTTTA TATTA TATT- TCCTTA TATTT TATTCA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA T-ATTA TATTA TATT-A TATTA
18476807 TATTA T
1 TATTA T
18476813 TATACATAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
4 1 0.02
5 35 0.85
6 5 0.12
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (5 bp):
TATTA
Found at i:18478838 original size:14 final size:14
Alignment explanation
Indices: 18478821--18478873 Score: 70
Period size: 14 Copynumber: 3.6 Consensus size: 14
18478811 CTTTTTCTCC
*
18478821 TCTTCTTCTTTTCT
1 TCTTTTTCTTTTCT
*
18478835 TCTTTTTCTCCGTTCT
1 TCTTTTTCT--TTTCT
18478851 TCTTTTTCTTTTCT
1 TCTTTTTCTTTTCT
18478865 TCTTTTTCT
1 TCTTTTTCT
18478874 ACTGCCCAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
14 21 0.62
16 13 0.38
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (14 bp):
TCTTTTTCTTTTCT
Found at i:18478867 original size:24 final size:23
Alignment explanation
Indices: 18478805--18478867 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 23
18478795 GCACATTCCA
18478805 TTTTCTCTTTTTCTCCTCTTCTTC
1 TTTTCT-TTTTTCTCCTCTTCTTC
*
18478829 TTTTCTTCTTTTTCTCC-GTTCTTC
1 TTTTC-T-TTTTTCTCCTCTTCTTC
18478853 TTTTTCTTTTCTTCT
1 -TTTTCTTTT-TTCT
18478868 TTTTCTACTG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
23 3 0.09
24 16 0.46
25 16 0.46
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTCTTTTTTCTCCTCTTCTTC
Found at i:18486434 original size:43 final size:43
Alignment explanation
Indices: 18486373--18486484 Score: 156
Period size: 43 Copynumber: 2.6 Consensus size: 43
18486363 TTATGAAAAA
* *
18486373 AAACGCCGCTAAAAGTCATGACCTTTAGC-GACGC-TTTCCTCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCAG-CCCTTTTCC-CAC
*
18486416 AAACGCCGCTACAGGTCATGACCTTTAGCAGCCCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCAGCCCTTTTCCCAC
*
18486459 AAACGCCGCTAAAGGTCATAACCTTT
1 AAACGCCGCTAAAGGTCATGACCTTT
18486485 TAAAAATTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
43 56 0.90
44 6 0.10
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGACCTTTAGCAGCCCTTTTCCCAC
Found at i:18486519 original size:20 final size:20
Alignment explanation
Indices: 18486496--18486551 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
18486486 AAAAATTTAT
18486496 TTTATTTTAATTAAATAATA
1 TTTATTTTAATTAAATAATA
* *
18486516 TTTATTTCTATTTTAAATATTA
1 TTTATTT-TA-ATTAAATAATA
18486538 TATTATGTTTAATT
1 T-TTAT-TTTAATT
18486552 TTTGAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.24
21 2 0.07
22 12 0.41
23 6 0.21
24 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTATTTTAATTAAATAATA
Found at i:18493424 original size:7 final size:7
Alignment explanation
Indices: 18493384--18493482 Score: 51
Period size: 7 Copynumber: 13.9 Consensus size: 7
18493374 ACTAATTAAT
18493384 CTAAACC
1 CTAAACC
18493391 CTAAATCC
1 CTAAA-CC
18493399 CT-AACC
1 CTAAACC
*
18493405 CTTTAACC
1 C-TAAACC
18493413 CTAAACC
1 CTAAACC
*
18493420 TTAAAACC
1 CT-AAACC
*
18493428 C-AACCCC
1 CTAA-ACC
*
18493435 CTAAAAC
1 CTAAACC
*
18493442 TTAAACC
1 CTAAACC
18493449 CT-AACC
1 CTAAACC
* *
18493455 TTTAACC
1 CTAAACC
18493462 CATAAACC
1 C-TAAACC
* *
18493470 ATAATCC
1 CTAAACC
18493477 CTAAAC
1 CTAAAC
18493483 ACATAATCCA
Statistics
Matches: 68, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
6 10 0.15
7 37 0.54
8 21 0.31
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:18493436 original size:22 final size:22
Alignment explanation
Indices: 18493411--18493454 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
18493401 AACCCTTTAA
*
18493411 CCCTAAACCTTAAAACCC-AACC
1 CCCTAAAACTT-AAACCCTAACC
18493433 CCCTAAAACTTAAACCCTAACC
1 CCCTAAAACTTAAACCCTAACC
18493455 TTTAACCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.41, C:0.43, G:0.00, T:0.16
Consensus pattern (22 bp):
CCCTAAAACTTAAACCCTAACC
Found at i:18493487 original size:15 final size:14
Alignment explanation
Indices: 18493461--18493498 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
18493451 AACCTTTAAC
18493461 CCATAAACCATAAT
1 CCATAAACCATAAT
*
18493475 CCCTAAACACATAAT
1 CCATAAAC-CATAAT
18493490 CCATAAACC
1 CCATAAACC
18493499 TTACAATCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.18
Consensus pattern (14 bp):
CCATAAACCATAAT
Found at i:18494098 original size:39 final size:39
Alignment explanation
Indices: 18494006--18494098 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 39
18493996 CAATCAAGCA
* *
18494006 TTAGCGGCGTTTTCTAAAAAGCGTCGCTAAAGGTGTACAT
1 TTAGCGGCGTTTT-TAAAAAGCGTCGCTAAAGCTATACAT
* * * *
18494046 ATAGCGGCATTTTTAAAAAGCGTCGCTAATGCTAATTC-T
1 TTAGCGGCGTTTTTAAAAAGCGTCGCTAAAGCT-ATACAT
*
18494085 TTAGTGGCGTTTTT
1 TTAGCGGCGTTTTT
18494099 CATTCAAACA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
39 30 0.70
40 13 0.30
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (39 bp):
TTAGCGGCGTTTTTAAAAAGCGTCGCTAAAGCTATACAT
Found at i:18495841 original size:45 final size:46
Alignment explanation
Indices: 18495791--18495877 Score: 122
Period size: 45 Copynumber: 1.9 Consensus size: 46
18495781 CCATTTTGAG
**
18495791 AAAACCACATTCATTTCCAAATG-ATTCCATTTCTCTATTTCAAAT
1 AAAACCACAACCATTTCCAAATGTATTCCATTTCTCTATTTCAAAT
* * *
18495836 AAAACCATAACCATTTCTAAATGTTTTCCATTTCTCTATTTC
1 AAAACCACAACCATTTCCAAATGTATTCCATTTCTCTATTTC
18495878 TGTTCATTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 19 0.53
46 17 0.47
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.40
Consensus pattern (46 bp):
AAAACCACAACCATTTCCAAATGTATTCCATTTCTCTATTTCAAAT
Found at i:18504535 original size:17 final size:17
Alignment explanation
Indices: 18504509--18504543 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18504499 TCGCAGTCTC
*
18504509 TATCAATTTTGCTACAG
1 TATCAATTTTACTACAG
*
18504526 TATCAGTTTTACTACAG
1 TATCAATTTTACTACAG
18504543 T
1 T
18504544 TTTAGTATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (17 bp):
TATCAATTTTACTACAG
Found at i:18508898 original size:20 final size:20
Alignment explanation
Indices: 18508873--18508912 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
18508863 GGGTCATGCG
18508873 CCCTTAACTTATGGTAAGTT
1 CCCTTAACTTATGGTAAGTT
*
18508893 CCCTTAACTTCTGGTAAGTT
1 CCCTTAACTTATGGTAAGTT
18508913 TGACCTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (20 bp):
CCCTTAACTTATGGTAAGTT
Found at i:18518485 original size:50 final size:49
Alignment explanation
Indices: 18518364--18518539 Score: 203
Period size: 50 Copynumber: 3.5 Consensus size: 49
18518354 TGAGGTCGCA
* * *
18518364 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
**
18518415 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * * *
18518465 TGTGTGGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
*
18518514 TGTGTAGTACTAAATGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
18518540 TGCATACCAG
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 29 0.27
50 42 0.39
51 32 0.30
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:18532167 original size:41 final size:40
Alignment explanation
Indices: 18532104--18532191 Score: 115
Period size: 41 Copynumber: 2.2 Consensus size: 40
18532094 TGATGATATA
* * *
18532104 TCGGTTAAATATGGCACTTAGTGTGCGGATTCTG-TATAGCT
1 TCGGCTAAATATGGCACCTAGTGTGC-GATT-TGAGATAGCT
*
18532145 TCGGCTAAATTTGGCACCTAGTGTGCGATTTGAGATAGCT
1 TCGGCTAAATATGGCACCTAGTGTGCGATTTGAGATAGCT
18532185 TCGGCTA
1 TCGGCTA
18532192 TGTACAACAC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 2 0.05
40 17 0.40
41 23 0.55
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (40 bp):
TCGGCTAAATATGGCACCTAGTGTGCGATTTGAGATAGCT
Found at i:18532273 original size:28 final size:28
Alignment explanation
Indices: 18532199--18532292 Score: 109
Period size: 28 Copynumber: 3.4 Consensus size: 28
18532189 CTATGTACAA
* * *
18532199 CACTTAGTGTGCGAGACA-TCAAATATGG
1 CACTTAGTGTGCGAGATATTGAGA-ATGG
*
18532227 CACTTAGTGTGCGAAATATTGAGAATGG
1 CACTTAGTGTGCGAGATATTGAGAATGG
* *
18532255 CACTTAGTGTGCGAGATATTGAGACTAG
1 CACTTAGTGTGCGAGATATTGAGAATGG
*
18532283 CACGTAGTGT
1 CACTTAGTGT
18532293 ATGAAATATC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 54 0.95
29 3 0.05
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (28 bp):
CACTTAGTGTGCGAGATATTGAGAATGG
Found at i:18532301 original size:28 final size:28
Alignment explanation
Indices: 18532226--18532301 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
18532216 ATCAAATATG
* * *
18532226 GCACTTAGTGTGCGAAATATTGAGAATG
1 GCACGTAGTGTACGAAATATTGAGAATA
* * * *
18532254 GCACTTAGTGTGCGAGATATTGAGACTA
1 GCACGTAGTGTACGAAATATTGAGAATA
*
18532282 GCACGTAGTGTATGAAATAT
1 GCACGTAGTGTACGAAATAT
18532302 CGAATGATTC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACGTAGTGTACGAAATATTGAGAATA
Found at i:18534682 original size:19 final size:19
Alignment explanation
Indices: 18534660--18534723 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
18534650 CACTTACATG
18534660 CCCCTGTTGTACTTCGGTA
1 CCCCTGTTGTACTTCGGTA
* * *
18534679 CCCCTGATTGCAATTAC-GTG
1 CCCCTG-TTGTACTT-CGGTA
*
18534699 CCCCTGTTGTACTTTGGTA
1 CCCCTGTTGTACTTCGGTA
18534718 CCCCTG
1 CCCCTG
18534724 ATCACACCTG
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
19 20 0.57
20 14 0.40
21 1 0.03
ACGTcount: A:0.12, C:0.33, G:0.20, T:0.34
Consensus pattern (19 bp):
CCCCTGTTGTACTTCGGTA
Found at i:18534743 original size:29 final size:29
Alignment explanation
Indices: 18534701--18534759 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
18534691 ATTACGTGCC
18534701 CCTGTTGTACTTTGGTACCCCTGATCACA
1 CCTGTTGTACTTTGGTACCCCTGATCACA
18534730 CCTGTTGTACTTTGGTACCCCTGATCACA
1 CCTGTTGTACTTTGGTACCCCTGATCACA
18534759 C
1 C
18534760 TTACGTGCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.34
Consensus pattern (29 bp):
CCTGTTGTACTTTGGTACCCCTGATCACA
Found at i:18534805 original size:38 final size:39
Alignment explanation
Indices: 18534730--18534831 Score: 127
Period size: 38 Copynumber: 2.6 Consensus size: 39
18534720 CCTGATCACA
18534730 CCTGTTGTACTTTGGTACCCCTGATCACACTTACGTGCC
1 CCTGTTGTACTTTGGTACCCCTGATCACACTTACGTGCC
* *
18534769 CCTGTTGTACTTT-TTACCTCTGGA-CACACTTACGTGCC
1 CCTGTTGTACTTTGGTACCCCT-GATCACACTTACGTGCC
** * *
18534807 CCTGTTACATTTTGGTACTCCTGAT
1 CCTGTTGTACTTTGGTACCCCTGAT
18534832 AGCACTTCCA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
38 32 0.62
39 20 0.38
ACGTcount: A:0.16, C:0.30, G:0.17, T:0.37
Consensus pattern (39 bp):
CCTGTTGTACTTTGGTACCCCTGATCACACTTACGTGCC
Found at i:18535980 original size:27 final size:27
Alignment explanation
Indices: 18535936--18536008 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
18535926 TATTGAAATG
* * *
18535936 CCCTCGACTTGTAAAATTACCA-AAGTA
1 CCCTCGATTTATAGAATTA-CAGAAGTA
* ***
18535963 CTCTCGATTTATAGAATTACAGTTTTA
1 CCCTCGATTTATAGAATTACAGAAGTA
18535990 CCCTCGATTTATAGAATTA
1 CCCTCGATTTATAGAATTA
18536009 TCGTTTTACC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 2 0.05
27 35 0.95
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.36
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACAGAAGTA
Found at i:18535995 original size:54 final size:54
Alignment explanation
Indices: 18535936--18536062 Score: 130
Period size: 54 Copynumber: 2.4 Consensus size: 54
18535926 TATTGAAATG
* * * *
18535936 CCCTCGACTTGTAAAATTACCAAAGTACTCTCGATTTATAGAATTACAGTTTTA
1 CCCTCGACTTATAAAATTACCAAAGTACCCTCAATTTATAAAATTACAGTTTTA
* * * **** *
18535990 CCCTCGATTTATAGAATTATCGTTTTACCCTCAATTTATAAAATTACCGTTTTA
1 CCCTCGACTTATAAAATTACCAAAGTACCCTCAATTTATAAAATTACAGTTTTA
*
18536044 CCCTCGA-TTATGAAATTAC
1 CCCTCGACTTATAAAATTAC
18536063 TGAAATACCC
Statistics
Matches: 58, Mismatches: 15, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
53 9 0.16
54 49 0.84
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.38
Consensus pattern (54 bp):
CCCTCGACTTATAAAATTACCAAAGTACCCTCAATTTATAAAATTACAGTTTTA
Found at i:18536014 original size:27 final size:26
Alignment explanation
Indices: 18535965--18536052 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 26
18535955 CCAAAGTACT
18535965 CTCGATTTATAGAATTACAGTTTTACC
1 CTCGATTTATAGAATTAC-GTTTTACC
18535992 CTCGATTTATAGAATTATCGTTTTACC
1 CTCGATTTATAGAATTA-CGTTTTACC
* *
18536019 CTCAATTTATAAAATTACCGTTTTACC
1 CTCGATTTATAGAATTA-CGTTTTACC
18536046 CTCGATT
1 CTCGATT
18536053 ATGAAATTAC
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.42
Consensus pattern (26 bp):
CTCGATTTATAGAATTACGTTTTACC
Found at i:18536094 original size:26 final size:27
Alignment explanation
Indices: 18536056--18536208 Score: 114
Period size: 27 Copynumber: 5.7 Consensus size: 27
18536046 CTCGATTATG
**
18536056 AAATTACTGAAATACCCCT-GTAGGATA
1 AAATTACCAAAATACCCCTAGTAGG-TA
* **
18536083 GAATTACC-AAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
**
18536109 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
** * ** *
18536136 AAATTACCAAAATACCATTGGTTTGTG
1 AAATTACCAAAATACCCCTAGTAGGTA
* * **
18536163 AAATTACCGAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AGTAGGTA
18536190 AAATTACCAAAATACCCCT
1 AAATTACCAAAATACCCCT
18536209 GATTTACAAA
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
26 21 0.20
27 81 0.76
28 4 0.04
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTAGGTA
Found at i:18536113 original size:53 final size:54
Alignment explanation
Indices: 18536056--18536205 Score: 153
Period size: 54 Copynumber: 2.8 Consensus size: 54
18536046 CTCGATTATG
* * *
18536056 AAATTACTGAAATACCCCT-GTAGGATAGAATTACC-AAATACCCCTAGTTTGTA
1 AAATTACCGAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGTTTGTA
* ** * * *
18536109 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCATTGGTTTGTG
1 AAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGTTTGTA
* **
18536163 AAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 AAATTACCGAAATACCCCT-AGTAGGTAAAATTACCAAAATACC
18536206 CCTGATTTAC
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
53 30 0.36
54 53 0.64
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.29
Consensus pattern (54 bp):
AAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGTTTGTA
Found at i:18536127 original size:27 final size:27
Alignment explanation
Indices: 18536084--18536208 Score: 173
Period size: 27 Copynumber: 4.7 Consensus size: 27
18536074 TGTAGGATAG
18536084 AATTACC-AAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
18536110 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
** * *
18536137 AATTACCAAAATACCATTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
18536164 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
18536191 AATTACCAAAATACCCCT
1 AATTACCAAAATACCCCT
18536209 GATTTACAAA
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 9 0.11
27 72 0.85
28 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:18536213 original size:27 final size:26
Alignment explanation
Indices: 18536084--18536222 Score: 154
Period size: 27 Copynumber: 5.2 Consensus size: 26
18536074 TGTAGGATAG
18536084 AATTACC-AAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTA-TTTGTAA
18536110 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTA-TTTGTAA
** * *
18536137 AATTACCAAAATACCATTGGTTTGTGA
1 AATTACCAAAATACCCCT-ATTTGTAA
* *
18536164 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCC-CTATTTGTAA
**
18536191 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCT-ATTTGTAA
18536218 AATTA
1 AATTA
18536223 TAGAAATACC
Statistics
Matches: 95, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
26 8 0.08
27 87 0.92
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (26 bp):
AATTACCAAAATACCCCTATTTGTAA
Found at i:18536221 original size:54 final size:54
Alignment explanation
Indices: 18536084--18536290 Score: 161
Period size: 54 Copynumber: 3.8 Consensus size: 54
18536074 TGTAGGATAG
** * *
18536084 AATTACC-AAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTACAAAATTACCGAAATACCCTC-AATTTGTAA
** * ***
18536137 AATTACCAAAATACCATTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCCTGATTTACAAAATTACCGAAATACCCTCAATTTGTAA
** * * *
18536191 AATTACCAAAATACCCCTGATTTACAAAATTATAGAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCCCTGATTTACAAAATTACCGAAATACCC-TCAATTTGT-AA
* ** * *
18536247 AATTA-TAGAAATACCTTTGGTTTACAAAATTACTGAAATACCCT
1 AATTACCA-AAATACCCCTGATTTACAAAATTACCGAAATACCCT
18536291 TGGTTTGTAG
Statistics
Matches: 125, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
53 7 0.06
54 72 0.58
55 9 0.07
56 37 0.30
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGATTTACAAAATTACCGAAATACCCTCAATTTGTAA
Found at i:18536293 original size:27 final size:27
Alignment explanation
Indices: 18536084--18536297 Score: 144
Period size: 27 Copynumber: 7.9 Consensus size: 27
18536074 TGTAGGATAG
* * *
18536084 AATTACC-AAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCTTGGTTTGCAA
* * * *
18536110 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCTTGGTTTGCAA
* * **
18536137 AATTACCAAAATACCATTGGTTTGTGA
1 AATTACCGAAATACCCTTGGTTTGCAA
*** *
18536164 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCGAAATACCCTTGGTTTGCAA
* * * *
18536191 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCGAAATACCCTTGGTTTGCAA
** *
18536218 AATTATAGAAATACCCTTGACTTT-CTAAA
1 AATTACCGAAATACCCTTG-GTTTGC--AA
** * *
18536247 AATTATAGAAATACCTTTGGTTTACAA
1 AATTACCGAAATACCCTTGGTTTGCAA
*
18536274 AATTACTGAAATACCCTTGGTTTG
1 AATTACCGAAATACCCTTGGTTTG
18536298 TAGATTTACC
Statistics
Matches: 156, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
26 7 0.04
27 122 0.78
28 6 0.04
29 21 0.13
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGGTTTGCAA
Found at i:18537250 original size:25 final size:26
Alignment explanation
Indices: 18537191--18537261 Score: 108
Period size: 26 Copynumber: 2.8 Consensus size: 26
18537181 AGGAAGTGCT
*
18537191 AAAAGGGCTATGCCCCAGTTTACCGA
1 AAAAGGGCTTTGCCCCAGTTTACCGA
* *
18537217 AAAAGGGCTTTGCCCTAGTTTATC-A
1 AAAAGGGCTTTGCCCCAGTTTACCGA
18537242 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
18537262 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 20 0.49
26 21 0.51
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTTGCCCCAGTTTACCGA
Found at i:18537274 original size:24 final size:24
Alignment explanation
Indices: 18537191--18537288 Score: 67
Period size: 25 Copynumber: 4.0 Consensus size: 24
18537181 AGGAAGTGCT
* *
18537191 AAAAG-GGCTATGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
18537215 GAAAA-AGGGCTTTGCCCTAGTTTATC
1 -AAAAGA-GGCTTTGCCCCAG-TTATC
*
18537241 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
18537265 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
18537289 ATGATAAAGC
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
24 15 0.24
25 31 0.50
26 16 0.26
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:18539862 original size:27 final size:27
Alignment explanation
Indices: 18539843--18539988 Score: 193
Period size: 27 Copynumber: 5.4 Consensus size: 27
18539833 ATTACCAAAG
*
18539843 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
18539870 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
18539897 TACCCTTGATTTACAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
18539924 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
** * * *
18539951 TACCCTTAATTTACAAAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
18539978 TACCCTCGATT
1 TACCCTCGATT
18539989 GTGAAATTAC
Statistics
Matches: 101, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:18539876 original size:54 final size:54
Alignment explanation
Indices: 18539818--18539988 Score: 225
Period size: 54 Copynumber: 3.2 Consensus size: 54
18539808 TATTGAAATG
* * *** * *
18539818 CCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTATCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTACCCTTGATTTACAGAATTATCGTTTTA
* **
18539872 CCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTATCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTACCCTTGATTTACAGAATTATCGTTTTA
* * *
18539926 CCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAAAATTATCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTACCCTTGATTTACAGAATTATCGTTTTA
18539980 CCCTCGATT
1 CCCTCGATT
18539989 GTGAAATTAC
Statistics
Matches: 103, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 103 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (54 bp):
CCCTCGATTTATAAAATTACCATTTTACCCTTGATTTACAGAATTATCGTTTTA
Found at i:18540050 original size:27 final size:27
Alignment explanation
Indices: 18540020--18540198 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
18540010 TGTAGGATAG
18540020 AATTACCGAAATACCTCTAGTTTGTAA
1 AATTACCGAAATACCTCTAGTTTGTAA
* * * *
18540047 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCGAAATACCTCTAGTTTGTAA
* *
18540074 AATTACCAAAATACCCTCAAG-TTGTAA
1 AATTACCGAAATA-CCTCTAGTTTGTAA
* * * **
18540101 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCGAAATACCTCTAGTTTGTAA
** * *
18540128 AATTATAGAAATACC-CTTGACTTTCTAAA
1 AATTACCGAAATACCTC-T-AGTTTGT-AA
* * * **
18540157 AATTACAGAAATACCTTTGGTTTACAA
1 AATTACCGAAATACCTCTAGTTTGTAA
*
18540184 AATTACTGAAATACC
1 AATTACCGAAATACC
18540199 CTTGGTTTGT
Statistics
Matches: 120, Mismatches: 26, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
26 5 0.04
27 87 0.73
28 11 0.09
29 17 0.14
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCGAAATACCTCTAGTTTGTAA
Found at i:18540059 original size:54 final size:54
Alignment explanation
Indices: 18539978--18540118 Score: 146
Period size: 54 Copynumber: 2.6 Consensus size: 54
18539968 ATTATCGTTT
* * ** *
18539978 TACCCTCGA-TTGTGAAATTACTGAAATACCCCT-GTAGGAT-AGAATTACCGAAA
1 TACCCTCAAGTTGTAAAATTACCAAAATACCCCTGGTAGG-TGA-AATTACCAAAA
* * **
18540031 TA-CCTCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCAAAA
1 TACCCTCAAG-TTGTAAAATTACCAAAATACCCCTGGTAGGTGAAATTACCAAAA
18540085 TACCCTCAAGTTGTAAAATTACCAAAATACCCCT
1 TACCCTCAAGTTGTAAAATTACCAAAATACCCCT
18540119 AATTTACAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
52 5 0.07
53 2 0.03
54 56 0.77
55 10 0.14
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (54 bp):
TACCCTCAAGTTGTAAAATTACCAAAATACCCCTGGTAGGTGAAATTACCAAAA
Found at i:18540140 original size:54 final size:56
Alignment explanation
Indices: 18540020--18540144 Score: 143
Period size: 54 Copynumber: 2.3 Consensus size: 56
18540010 TGTAGGATAG
* ** ***
18540020 AATTACC-GAAATA-CCTCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAGAAATACCCTCAAGTTTGTAAAATTACCAAAATACCACTAATTTACAA
*
18540074 AATTACCA-AAATACCCTCAAG-TTGTAAAATTACCAAAATACCCCTAATTTACAA
1 AATTACCAGAAATACCCTCAAGTTTGTAAAATTACCAAAATACCACTAATTTACAA
*
18540128 AATTA-TAGAAATACCCT
1 AATTACCAGAAATACCCT
18540145 TGACTTTCTA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
53 1 0.02
54 53 0.88
55 6 0.10
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (56 bp):
AATTACCAGAAATACCCTCAAGTTTGTAAAATTACCAAAATACCACTAATTTACAA
Found at i:18541173 original size:25 final size:25
Alignment explanation
Indices: 18541106--18541175 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
18541096 AGGAAGTGCT
* * *
18541106 AAAAGGGCTATGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
18541131 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
18541156 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
18541176 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:18541188 original size:24 final size:24
Alignment explanation
Indices: 18541131--18541202 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
18541121 CAATTTACCG
18541131 AAAAG-GGCTTTGCCCCAGTTTATC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
18541155 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
18541179 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
18541203 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:18541429 original size:30 final size:31
Alignment explanation
Indices: 18541395--18541477 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
18541385 CACTTACAGT
18541395 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
18541425 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
18541456 AAAGGCTTCGGTCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
18541478 TCGAGACTGA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 16 0.31
31 35 0.69
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:18550023 original size:39 final size:39
Alignment explanation
Indices: 18549980--18550185 Score: 218
Period size: 39 Copynumber: 5.3 Consensus size: 39
18549970 TTATATAATT
* * *
18549980 ATACCCCTGATCATACTTACGTGACCTTATTGTACTTCG
1 ATACCCCTGATCGTACTTACGTGCCCCTATTGTACTTCG
* * *
18550019 ATACCCCTAATCGTACTTACGTGCCCTTGTTGTACTTCG
1 ATACCCCTGATCGTACTTACGTGCCCCTATTGTACTTCG
* *
18550058 GTACCCCTGATCTTACTTACGTGCCCCTATTGTACTTC-
1 ATACCCCTGATCGTACTTACGTGCCCCTATTGTACTTCG
* * * * *
18550096 AGTACTCCTGATCGCAATTAGGTGCCCCTATTCTACTTCG
1 A-TACCCCTGATCGTACTTACGTGCCCCTATTGTACTTCG
* * * *
18550136 ATACCCCTGAAT-GCACTTACGTGCCCCTATTATATTTCA
1 ATACCCCTG-ATCGTACTTACGTGCCCCTATTGTACTTCG
*
18550175 ATACTCCTGAT
1 ATACCCCTGAT
18550186 AACACTTTTG
Statistics
Matches: 141, Mismatches: 23, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
38 2 0.01
39 136 0.96
40 3 0.02
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.35
Consensus pattern (39 bp):
ATACCCCTGATCGTACTTACGTGCCCCTATTGTACTTCG
Found at i:18550053 original size:19 final size:19
Alignment explanation
Indices: 18550031--18550094 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
18550021 ACCCCTAATC
*
18550031 GTACTTACGTGCCCTTGTT
1 GTACTTACGTGCCCCTGTT
*
18550050 GTACTT-CGGTACCCCTGATCT
1 GTACTTAC-GTGCCCCTG-T-T
*
18550071 -TACTTACGTGCCCCTATT
1 GTACTTACGTGCCCCTGTT
18550089 GTACTT
1 GTACTT
18550095 CAGTACTCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
18 2 0.06
19 19 0.53
20 13 0.36
21 2 0.06
ACGTcount: A:0.14, C:0.30, G:0.17, T:0.39
Consensus pattern (19 bp):
GTACTTACGTGCCCCTGTT
Found at i:18550084 original size:20 final size:20
Alignment explanation
Indices: 18549983--18550085 Score: 56
Period size: 20 Copynumber: 5.2 Consensus size: 20
18549973 TATAATTATA
*
18549983 CCCCTGATCATACTTACGTG
1 CCCCTGATCTTACTTACGTG
* * *
18550003 -ACCTTAT-TGTACTT-CGATA
1 CCCCTGATCT-TACTTACG-TG
* *
18550022 CCCCTAATCGTACTTACGTG
1 CCCCTGATCTTACTTACGTG
* *
18550042 CCCTTG-T-TGTACTT-CGGTA
1 CCCCTGATCT-TACTTAC-GTG
18550061 CCCCTGATCTTACTTACGTG
1 CCCCTGATCTTACTTACGTG
18550081 CCCCT
1 CCCCT
18550086 ATTGTACTTC
Statistics
Matches: 59, Mismatches: 14, Indels: 20
0.63 0.15 0.22
Matches are distributed among these distances:
18 3 0.05
19 24 0.41
20 28 0.47
21 4 0.07
ACGTcount: A:0.17, C:0.33, G:0.15, T:0.35
Consensus pattern (20 bp):
CCCCTGATCTTACTTACGTG
Found at i:18560611 original size:32 final size:32
Alignment explanation
Indices: 18560575--18560636 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
18560565 CAACTAACCA
* *
18560575 ATGAGTTA-TCAAATTAAATTAATTAATTTATC
1 ATGAGTTACT-AAATTAAAGTAATCAATTTATC
*
18560607 ATGAGTTACTAAATTCAAGTAATCAATTTA
1 ATGAGTTACTAAATTAAAGTAATCAATTTA
18560637 ATCAATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 25 0.96
33 1 0.04
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (32 bp):
ATGAGTTACTAAATTAAAGTAATCAATTTATC
Found at i:18560827 original size:17 final size:17
Alignment explanation
Indices: 18560795--18560827 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18560785 CACATGAAAT
18560795 ATAATCATTTTATTAAA
1 ATAATCATTTTATTAAA
18560812 ATAAT-ATTTTAGTTAA
1 ATAATCATTTTA-TTAA
18560828 GATCATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (17 bp):
ATAATCATTTTATTAAA
Found at i:18561037 original size:22 final size:22
Alignment explanation
Indices: 18560986--18561038 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
18560976 GTGAAAATAT
*
18560986 TTTTATTTTTTATAAATTGAAC
1 TTTTATTTTTTATAAATTAAAC
* * *
18561008 TATAATTTTATTATATA-TAAAC
1 TTTTATTTT-TTATAAATTAAAC
18561030 TTTTATTTT
1 TTTTATTTT
18561039 CACCATTTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTATTTTTTATAAATTAAAC
Found at i:18570253 original size:21 final size:22
Alignment explanation
Indices: 18570229--18570269 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18570219 ATTTTCAGTA
*
18570229 AATTT-AATCTGTTAAAATTTG
1 AATTTAAATCCGTTAAAATTTG
18570250 AATTTAAATCCGTTAAAATT
1 AATTTAAATCCGTTAAAATT
18570270 CTTTCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (22 bp):
AATTTAAATCCGTTAAAATTTG
Found at i:18571222 original size:21 final size:21
Alignment explanation
Indices: 18571198--18571242 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
18571188 CTTTTCTTCT
18571198 AAATTTCTCAAAAAATCTCTC
1 AAATTTCTCAAAAAATCTCTC
***
18571219 AAATTTCTCCCTAAATCTCTC
1 AAATTTCTCAAAAAATCTCTC
18571240 AAA
1 AAA
18571243 GCTCTTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATTTCTCAAAAAATCTCTC
Found at i:18571468 original size:11 final size:11
Alignment explanation
Indices: 18571452--18571476 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18571442 TAAATAATTT
18571452 TAATTTTTTTA
1 TAATTTTTTTA
18571463 TAATTTTTTTA
1 TAATTTTTTTA
18571474 TAA
1 TAA
18571477 CAGTCTGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTTTA
Found at i:18573023 original size:18 final size:18
Alignment explanation
Indices: 18573000--18573042 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
18572990 TGCCAGGTGC
* *
18573000 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
18573018 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
18573036 GTTTCCT
1 GTATCCT
18573043 TTTCCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:18575092 original size:21 final size:21
Alignment explanation
Indices: 18575063--18575116 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
18575053 GGGCTCACAT
*
18575063 GCCCGTATGGCCAAAGGACAC
1 GCCCGTATGACCAAAGGACAC
*
18575084 GCCCTTATGACCAAAGGACAC
1 GCCCGTATGACCAAAGGACAC
* *
18575105 ACCCGTGTGACC
1 GCCCGTATGACC
18575117 CTATGACATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.35, G:0.24, T:0.13
Consensus pattern (21 bp):
GCCCGTATGACCAAAGGACAC
Found at i:18576822 original size:48 final size:48
Alignment explanation
Indices: 18576746--18576970 Score: 301
Period size: 48 Copynumber: 4.7 Consensus size: 48
18576736 CATACCCTAG
* * *
18576746 GTGCGAATATCATGGCCAGAGGCCAAATCAATG-AAGCTCGCACCCGAA
1 GTGCTAATATCATGGCCCGAAGCCAAATCAATGTAA-CTCGCACCCGAA
* * * *
18576794 GTGCTAATATCATGGCTCGAAGCTAAATCAATGTAACTTGTACCCGAA
1 GTGCTAATATCATGGCCCGAAGCCAAATCAATGTAACTCGCACCCGAA
* *
18576842 GTGCTAATATCATGGCTCGAAGCCAAATCAATGTAACTCGCACCTGAA
1 GTGCTAATATCATGGCCCGAAGCCAAATCAATGTAACTCGCACCCGAA
* *
18576890 GTGCTAATAGT-ATGGCCCGAAGCCAAATCAATGTAACTCACACCCAAA
1 GTGCTAATA-TCATGGCCCGAAGCCAAATCAATGTAACTCGCACCCGAA
* *
18576938 GTGCTAATATCATGCCCCGAAGCCAATTCAATG
1 GTGCTAATATCATGGCCCGAAGCCAAATCAATG
18576971 AAGATCCTAA
Statistics
Matches: 157, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
47 1 0.01
48 153 0.97
49 3 0.02
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (48 bp):
GTGCTAATATCATGGCCCGAAGCCAAATCAATGTAACTCGCACCCGAA
Found at i:18585383 original size:26 final size:26
Alignment explanation
Indices: 18585354--18585461 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
18585344 TGGTACAAAT
18585354 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
18585380 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18585406 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18585432 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18585458 TGAT
1 TGAT
18585462 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18587124 original size:27 final size:26
Alignment explanation
Indices: 18587082--18587222 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 26
18587072 AGGAAGTGTC
* *
18587082 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
18587109 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
18587136 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
18587163 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
18587190 CTGGTGGCTCTACCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
18587217 CTGGTG
1 CTGGTG
18587223 ACTTCGTCAC
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.10
27 86 0.88
28 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:18587165 original size:54 final size:53
Alignment explanation
Indices: 18587082--18587222 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 53
18587072 AGGAAGTGTC
*
18587082 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
*
18587136 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
* * *
18587190 CTGGTGGCTCTACCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
18587223 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 7 0.09
54 73 0.91
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
Found at i:18592526 original size:26 final size:26
Alignment explanation
Indices: 18592497--18592630 Score: 232
Period size: 26 Copynumber: 5.2 Consensus size: 26
18592487 TGGTACAAAT
18592497 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
18592523 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18592549 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18592575 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18592601 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18592627 TGAT
1 TGAT
18592631 GGACATTTCA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18594074 original size:24 final size:23
Alignment explanation
Indices: 18594047--18594102 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
18594037 AATTACTTAA
18594047 TACCCCTATGCATGGAAA-TACTGT
1 TACCCCTA-G-ATGGAAATTACTGT
* *
18594071 TACCCCTAGGTGTAAATTACTGT
1 TACCCCTAGATGGAAATTACTGT
18594094 TACCCCTAG
1 TACCCCTAG
18594103 GTGCAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 5 0.17
23 16 0.55
24 8 0.28
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (23 bp):
TACCCCTAGATGGAAATTACTGT
Found at i:18594095 original size:23 final size:24
Alignment explanation
Indices: 18594065--18594129 Score: 87
Period size: 23 Copynumber: 2.7 Consensus size: 24
18594055 TGCATGGAAA
*
18594065 TACTGTTACCCCTAGGTG-TAAAT
1 TACTGTTACCCCTAGGTGCAAAAT
18594088 TACTGTTACCCCTAGGTGCAAAAT
1 TACTGTTACCCCTAGGTGCAAAAT
*
18594112 TACCGTTATACCCCTAGG
1 TACTG-T-TACCCCTAGG
18594130 GTTAATTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
23 18 0.49
24 8 0.22
25 1 0.03
26 10 0.27
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (24 bp):
TACTGTTACCCCTAGGTGCAAAAT
Found at i:18594271 original size:27 final size:27
Alignment explanation
Indices: 18594231--18594359 Score: 165
Period size: 27 Copynumber: 4.8 Consensus size: 27
18594221 AGGAAGCGTC
*
18594231 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
*
18594258 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
18594285 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
*
18594312 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
* *
18594339 CTGGTAGCTCTACCACA-ATAT
1 CTGGTGGCTCTGCCACATATAT
18594360 TGTATCAGGT
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
26 6 0.07
27 82 0.90
28 3 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:18594313 original size:54 final size:54
Alignment explanation
Indices: 18594231--18594357 Score: 218
Period size: 54 Copynumber: 2.4 Consensus size: 54
18594221 AGGAAGCGTC
18594231 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
18594285 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
18594339 CTGGTAGCTCTACCACAAT
1 CTGGTGGCTATGCCACAAT
18594358 ATTGTATCAG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:18611868 original size:125 final size:124
Alignment explanation
Indices: 18611646--18612043 Score: 555
Period size: 125 Copynumber: 3.2 Consensus size: 124
18611636 AAGGCCAAAT
* * *
18611646 AGGAACTATTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTAATAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGTGCA
* *
18611711 TCCTGCTTGAAGCGCTTTTGACACTATTTTTCAGAATCGTCTTCTCAAAATTATTTTTTC
66 TCCTGCTTGAAGCGTTTTTGAAACTATTTTTCA-AATCGTCTTCTCAAAATTATTTTTTC
* * * *
18611771 AGGAACTACTGTAGAAAAATAGCATCCACATGGGAGCTTTTTTCAGTAATTTTGTTAACAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGTGCA
*
18611836 TCCTGCTTGAAGCGTTTTTGAAACTATTTTTCAAAATCGTCTTTTCAAAATTATTTTTTC
66 TCCTGCTTGAAGCGTTTTTGAAACTATTTTTC-AAATCGTCTTCTCAAAATTATTTTTTC
* *
18611896 AGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGGAGATTTTTTCAATAATTTTGCTAACAGTGC
1 AGGAACTACTGTAGAAAAAGAGCGTCCACGT-GGGAGCTTTTTTCAGTAATTTTGCTAACAGTGC
* * * * *
18611961 ATCCTGCTTGAAGCGTTTTT-AACATTATCTTTTCAAAACTATTTTCTCAAAATTAATTTTTC
65 ATCCTGCTTGAAGCGTTTTTGAA-ACTAT-TTTTCAAATC-GTCTTCTCAAAATTATTTTTTC
* * *
18612023 TGAAACTACTATAGAAAAAGA
1 AGGAACTACTGTAGAAAAAGA
18612044 CAAAATCCTT
Statistics
Matches: 243, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
125 143 0.59
126 59 0.24
127 41 0.17
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (124 bp):
AGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACAGTGCA
TCCTGCTTGAAGCGTTTTTGAAACTATTTTTCAAATCGTCTTCTCAAAATTATTTTTTC
Found at i:18612141 original size:34 final size:33
Alignment explanation
Indices: 18612101--18612228 Score: 121
Period size: 34 Copynumber: 3.7 Consensus size: 33
18612091 CACAAAATTA
18612101 TTAAAAAAACTAAACCCTAATTTAATTAATTTT
1 TTAAAAAAACTAAACCCTAATTTAATTAATTTT
** * *
18612134 CTTAAAAACTCTAAACTCTAATTTAATTCATTTAT
1 -TTAAAAAAACTAAACCCTAATTTAATTAATTT-T
*** * *
18612169 TTAAAACCCCTAAAGCTTAATTTAATTAATTTTT
1 TTAAAAAAACTAAACCCTAATTTAATTAA-TTTT
*
18612203 TTAAAAAAACTCTAAACTCTAATTTA
1 TTAAAAAAA--CTAAACCCTAATTTA
18612229 TTTTTTAAAA
Statistics
Matches: 74, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
34 58 0.78
35 4 0.05
36 12 0.16
ACGTcount: A:0.44, C:0.15, G:0.01, T:0.41
Consensus pattern (33 bp):
TTAAAAAAACTAAACCCTAATTTAATTAATTTT
Found at i:18615283 original size:195 final size:195
Alignment explanation
Indices: 18614951--18615339 Score: 564
Period size: 195 Copynumber: 2.0 Consensus size: 195
18614941 CCTCCAGAGT
* *
18614951 TCAAGACACTAGCAATTAATTCTATTTTCGAAATTCATCGCTTGCCTACCTGACTGGACCAGAAA
1 TCAAGACACTAGCAATTAATTCTATTTTCGAAATTCATCACTTGCCTACCTGACGGGACCAGAAA
* * *
18615016 AGTTATTTCATCAGTCGAAATTAATAGTTTCAGAACTAGACCGAGAACCAATCAATGTACTGGTC
66 AGTTATTTCATCAATCGAAATCAATAGTTTCAGAACTAGACCGAGAACCAATCAAGGTACTGGTC
* * *
18615081 TAAATATATGGGTTGAACCGATTGACCCGCGAATCGATATAGACCGATTAAACTAAGTTAAAAAG
131 TAAATATATGGGTTGAACCAATTGACCCGCGAATCGATACAAACCGATTAAACTAAGTTAAAAAG
** * * * *
18615146 TCAAGACACTAGTGATTAATTCTATTTTTGAACTTCATCACTTGCCTACTTGACGGGACTAGAAA
1 TCAAGACACTAGCAATTAATTCTATTTTCGAAATTCATCACTTGCCTACCTGACGGGACCAGAAA
* * * * *
18615211 AGTTATTTCATTAATCGAAATCAATATTTTTAGAACTAGACCGATAACCAATCAAGGTATTGGT-
66 AGTTATTTCATCAATCGAAATCAATAGTTTCAGAACTAGACCGAGAACCAATCAAGGTACTGGTC
* * *
18615275 TCAAATATATGGGTTGAATCAATTGACCCGCGAATCGATACAAACCGATTGATCTAAGTTAAAAA
131 T-AAATATATGGGTTGAACCAATTGACCCGCGAATCGATACAAACCGATTAAACTAAGTTAAAAA
18615340 AACCAATTGA
Statistics
Matches: 171, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
194 1 0.01
195 170 0.99
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (195 bp):
TCAAGACACTAGCAATTAATTCTATTTTCGAAATTCATCACTTGCCTACCTGACGGGACCAGAAA
AGTTATTTCATCAATCGAAATCAATAGTTTCAGAACTAGACCGAGAACCAATCAAGGTACTGGTC
TAAATATATGGGTTGAACCAATTGACCCGCGAATCGATACAAACCGATTAAACTAAGTTAAAAAG
Found at i:18621659 original size:27 final size:27
Alignment explanation
Indices: 18621628--18621681 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
18621618 TATTTTACTT
*
18621628 AGTTTAAAATCTTAGTTTTTAATCACC
1 AGTTTAAAATCCTAGTTTTTAATCACC
18621655 AGTTTAAAATCCTAGTTTTTAATCACC
1 AGTTTAAAATCCTAGTTTTTAATCACC
18621682 CTTTTCAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (27 bp):
AGTTTAAAATCCTAGTTTTTAATCACC
Found at i:18628551 original size:25 final size:25
Alignment explanation
Indices: 18628515--18628570 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
18628505 TTTCTCCTAA
18628515 ATTTTAATTTTAGTCAATTATCTAAT
1 ATTTTAATTTTAGTCAATTAT-TAAT
* * *
18628541 TTTTTAA-TTTATTGAATTATTAAT
1 ATTTTAATTTTAGTCAATTATTAAT
18628565 ATTTTA
1 ATTTTA
18628571 TATTAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 9 0.35
25 11 0.42
26 6 0.23
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (25 bp):
ATTTTAATTTTAGTCAATTATTAAT
Found at i:18628583 original size:25 final size:25
Alignment explanation
Indices: 18628530--18628583 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
18628520 AATTTTAGTC
* * *
18628530 AATTATCTAATTTTTTAATTTATTG
1 AATTATCTAATATTTTAATTAATTA
18628555 AATTAT-TAATATTTTATATTAATTA
1 AATTATCTAATATTTTA-ATTAATTA
18628580 AATT
1 AATT
18628584 TTGGAGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (25 bp):
AATTATCTAATATTTTAATTAATTA
Found at i:18636034 original size:13 final size:13
Alignment explanation
Indices: 18636016--18636040 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18636006 TAATGGTATA
18636016 TTGAATCCATGAC
1 TTGAATCCATGAC
18636029 TTGAATCCATGA
1 TTGAATCCATGA
18636041 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:18636621 original size:27 final size:27
Alignment explanation
Indices: 18636586--18636764 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
18636576 TTAAATTGTA
18636586 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
18636613 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
18636640 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
18636667 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
18636695 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
18636722 TAGCACTAAGTGTGCGAGATGATTATA
1 TAGCACTAAGTGTGCGATATGACTATG
*
18636749 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
18636765 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:18636702 original size:82 final size:81
Alignment explanation
Indices: 18636588--18636738 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
18636578 AAATTGTATA
* *
18636588 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18636652 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
18636669 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
18636734 TGCGA
65 TGCGA
18636739 GATGATTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 15 0.24
82 46 0.74
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18636755 original size:82 final size:81
Alignment explanation
Indices: 18636584--18636764 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 81
18636574 GATTAAATTG
* *
18636584 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18636649 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
18636665 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
18636729 AAGTGTGCGAGA-TGATTA
64 AAGTGTGCGA-ATTGACCA
*
18636747 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
18636765 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 17 0.21
82 64 0.78
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18638431 original size:44 final size:44
Alignment explanation
Indices: 18638378--18638466 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
18638368 AAAATAACCA
18638378 ATGTAAGCTTTATAGCTTAGTAAGCTTGTATGATAATAAGAAAT
1 ATGTAAGCTTTATAGCTTAGTAAGCTTGTATGATAATAAGAAAT
18638422 ATGTAAGCTTTATAGCTTAGTAAGCTTGTATGATAATAAGAAAT
1 ATGTAAGCTTTATAGCTTAGTAAGCTTGTATGATAATAAGAAAT
18638466 A
1 A
18638467 AATATCACCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (44 bp):
ATGTAAGCTTTATAGCTTAGTAAGCTTGTATGATAATAAGAAAT
Found at i:18666832 original size:13 final size:13
Alignment explanation
Indices: 18666814--18666840 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18666804 GTTCGGCAGG
18666814 GACACGCTCGTGT
1 GACACGCTCGTGT
18666827 GACACGCTCGTGT
1 GACACGCTCGTGT
18666840 G
1 G
18666841 CGATTATTGA
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:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (13 bp):
GACACGCTCGTGT
Done.