Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
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: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 41
Found at i:5259026 original size:21 final size:21
Alignment explanation
Indices: 5258978--5259115 Score: 111
Period size: 20 Copynumber: 6.7 Consensus size: 21
5258968 GCAACTGTAG
** **
5258978 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGATTTTCA
*
5258999 A-TATCGCAACGCTATTTTCA
1 ACTATCGCAACGCGATTTTCA
** **
5259019 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGATTTTCA
* *
5259040 A-AATCGCAACGCGATTTTTA
1 ACTATCGCAACGCGATTTTCA
** **
5259060 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGATTTTCA
*
5259081 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
5259101 ACTATCGCAACGCGA
1 ACTATCGCAACGCGA
5259116 ATTTGCGATA
Statistics
Matches: 88, Mismatches: 26, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
20 45 0.51
21 43 0.49
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (21 bp):
ACTATCGCAACGCGATTTTCA
Found at i:5259289 original size:15 final size:15
Alignment explanation
Indices: 5259269--5259298 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5259259 TGTAGGAGCG
*
5259269 TAAATAAATTAAATT
1 TAAATAAATAAAATT
5259284 TAAATAAATAAAATT
1 TAAATAAATAAAATT
5259299 ATATTTGTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATAAATAAAATT
Found at i:5260043 original size:24 final size:25
Alignment explanation
Indices: 5260004--5260054 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
5259994 GATTTTACTT
*
5260004 ATTTAATTTTTTTTGCATATATAAA
1 ATTTAATTTTTTTTGCAGATATAAA
5260029 ATTTAA-TTTTTTTGCAGATATAAA
1 ATTTAATTTTTTTTGCAGATATAAA
5260053 AT
1 AT
5260055 GGCAGACGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (25 bp):
ATTTAATTTTTTTTGCAGATATAAA
Found at i:5263010 original size:21 final size:21
Alignment explanation
Indices: 5262980--5263028 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
5262970 ACGTGTATGC
*
5262980 GAGCAAGTTGCTATCACATGA
1 GAGCATGTTGCTATCACATGA
5263001 GAGCATGTTGCTATCACATGA
1 GAGCATGTTGCTATCACATGA
5263022 GAGCATG
1 GAGCATG
5263029 AATACTTCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (21 bp):
GAGCATGTTGCTATCACATGA
Found at i:5270264 original size:64 final size:64
Alignment explanation
Indices: 5270195--5270356 Score: 195
Period size: 64 Copynumber: 2.5 Consensus size: 64
5270185 TTATATGAAT
* ** *
5270195 GTGCATCGATGCATTGGTAGTGCATCGATGCA-CTATTTTAA-AATAATAACATCGAATGTAATT
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATC-ACGTTAATAATAA-AACATCGAATGCAATT
5270258 C
64 C
* * * *
5270259 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCGTTAATAATGAAACATCGAATGCAATTG
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATCACGTTAATAATAAAACATCGAATGCAATTC
*
5270323 GTGCATCGATGCATAAGG-AGTGTATCGATGCATC
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCATC
5270357 CCAACAATAA
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
64 78 0.92
65 7 0.08
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (64 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCATCACGTTAATAATAAAACATCGAATGCAATTC
Found at i:5270366 original size:64 final size:64
Alignment explanation
Indices: 5270242--5270419 Score: 189
Period size: 64 Copynumber: 2.8 Consensus size: 64
5270232 TTAAAATAAT
* * ***
5270242 AACATCGAATGTAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCGTTAATAATGA
1 AACATCGAATGCAATTCGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAATGA
* *
5270306 AACATCGAATGCAATTGGTGCATCGATGCATAAGGAGTGTATCGATGCATCCCAACAATAAT-A
1 AACATCGAATGCAATTCGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAATGA
* * * * * * * *
5270369 CTATATCGAATAC-CTTTGATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 -AACATCGAATGCAATTCG-TGCATCGATGCATAAGGAGTGCATCGATGCAT
5270420 ACCTTCATTA
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
63 4 0.04
64 92 0.96
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCAATTCGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAATGA
Found at i:5270745 original size:12 final size:12
Alignment explanation
Indices: 5270728--5270762 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
5270718 ATATATGTTC
5270728 ATGTGATATGAT
1 ATGTGATATGAT
5270740 ATGTGATATGAT
1 ATGTGATATGAT
5270752 ATGTGATATGA
1 ATGTGATATGA
5270763 CATATAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:5270772 original size:24 final size:24
Alignment explanation
Indices: 5270713--5270774 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
5270703 ACATGCATAA
*
5270713 GACATATATATGTTCATGTGATAT
1 GACATATATATGATCATGTGATAT
* *
5270737 GATATGTGATATGAT-ATGTGATAT
1 GACATAT-ATATGATCATGTGATAT
5270761 GACATATAATATGA
1 GACATAT-ATATGA
5270775 GAACATGATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
24 25 0.81
25 6 0.19
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (24 bp):
GACATATATATGATCATGTGATAT
Found at i:5270937 original size:15 final size:15
Alignment explanation
Indices: 5270919--5270980 Score: 115
Period size: 15 Copynumber: 4.1 Consensus size: 15
5270909 GAGGGTATAA
5270919 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
5270934 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
*
5270949 TAGTCCTTAGGGATG
1 TAGTCCTTCGGGATG
5270964 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
5270979 TA
1 TA
5270981 ATGGTCCTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.16, C:0.18, G:0.32, T:0.34
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:5277257 original size:64 final size:64
Alignment explanation
Indices: 5277188--5277412 Score: 231
Period size: 64 Copynumber: 3.5 Consensus size: 64
5277178 TTATATGAAT
* * *
5277188 GTGCATCGATGCATTAGTAGTGCATCGATGCA-CTATTTTAA-AATAATAACATCGAATGTAATT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATC-ATGTTAATAATAA-AACATCGAATGCAATT
5277251 C
64 C
* * *
5277252 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCTGTTAATAATGAAACATCGAATGCAATTG
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCATGTTAATAATAAAACATCGAATGCAATTC
* ***** ** * * *
5277316 GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAATACTACATCGAATAC-CTTT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCATGTTAATAATAAAACATCGAATGCAATTC
* *
5277379 GATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 G-TGCATCGATGCATAAGTAGTGCATCGATGCAT
5277413 ACCTTCATTA
Statistics
Matches: 138, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
63 3 0.02
64 130 0.94
65 5 0.04
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (64 bp):
GTGCATCGATGCATAAGTAGTGCATCGATGCATCATGTTAATAATAAAACATCGAATGCAATTC
Found at i:5277738 original size:12 final size:12
Alignment explanation
Indices: 5277721--5277767 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
5277711 ATATATGTTC
5277721 ATGTGATATGAT
1 ATGTGATATGAT
5277733 ATGTGATATGAT
1 ATGTGATATGAT
*
5277745 ATGTGATATGAC
1 ATGTGATATGAT
*
5277757 ATGTAATATGA
1 ATGTGATATGA
5277768 GAACATGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.38
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:5277930 original size:15 final size:15
Alignment explanation
Indices: 5277912--5277943 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
5277902 GAGGGTATAA
5277912 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
5277927 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
5277942 TA
1 TA
5277944 ATGGTCATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.16, C:0.19, G:0.31, T:0.34
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:5281097 original size:31 final size:31
Alignment explanation
Indices: 5281059--5281122 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
5281049 CGTTGTTCAG
5281059 ATAACCTAAAATAGCACTAGCCCCATTAATC
1 ATAACCTAAAATAGCACTAGCCCCATTAATC
*
5281090 ATAACCTAAAATAGCACTAGTCCCATTAATC
1 ATAACCTAAAATAGCACTAGCCCCATTAATC
5281121 AT
1 AT
5281123 CAAGAGATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.42, C:0.27, G:0.06, T:0.25
Consensus pattern (31 bp):
ATAACCTAAAATAGCACTAGCCCCATTAATC
Found at i:5283214 original size:14 final size:16
Alignment explanation
Indices: 5283195--5283226 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
5283185 ATTCAGTAAT
5283195 TATTTT-TAAA-ATTA
1 TATTTTATAAACATTA
5283209 TATTTTATAAACATTA
1 TATTTTATAAACATTA
5283225 TA
1 TA
5283227 ATTATTCACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 4 0.25
16 6 0.38
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTTTATAAACATTA
Found at i:5286288 original size:2 final size:2
Alignment explanation
Indices: 5286281--5286314 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
5286271 TAAAAATTAA
5286281 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5286315 CGAATGAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5286729 original size:20 final size:20
Alignment explanation
Indices: 5286704--5286776 Score: 121
Period size: 20 Copynumber: 3.6 Consensus size: 20
5286694 GACCAACAAA
5286704 ATCGCAACGCGATCTCCAGT
1 ATCGCAACGCGATCTCCAGT
5286724 ATCGCAACGCGATCTCCAGT
1 ATCGCAACGCGATCTCCAGT
5286744 ATCGCAACGCGATCTCCAG-
1 ATCGCAACGCGATCTCCAGT
*
5286763 ATTCACAACGCGAT
1 A-TCGCAACGCGAT
5286777 TTTGACTATC
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
19 1 0.02
20 50 0.98
ACGTcount: A:0.27, C:0.34, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGATCTCCAGT
Found at i:5286848 original size:20 final size:20
Alignment explanation
Indices: 5286825--5286874 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
5286815 GAATATGTAA
5286825 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
5286845 ATCGCAATGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
5286865 GTCGCAACGC
1 ATCGCAACGC
5286875 TGAATTTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:5287735 original size:24 final size:24
Alignment explanation
Indices: 5287684--5287737 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
5287674 GTATTCAAAA
*
5287684 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
5287708 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
5287732 TTTGAT
1 TTTGAT
5287738 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:5290328 original size:140 final size:140
Alignment explanation
Indices: 5290076--5290358 Score: 557
Period size: 140 Copynumber: 2.0 Consensus size: 140
5290066 GAAAACGTTG
5290076 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
*
5290141 TTGAACATTGTTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
5290206 CGAATTTGAC
131 CGAATTTGAC
5290216 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
5290281 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
5290346 CGAATTTGAC
131 CGAATTTGAC
5290356 TAT
1 TAT
5290359 CGCAACTCAA
Statistics
Matches: 142, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 142 1.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
CGAATTTGAC
Found at i:5290354 original size:20 final size:20
Alignment explanation
Indices: 5290329--5290479 Score: 188
Period size: 20 Copynumber: 7.8 Consensus size: 20
5290319 TTACACATTC
*
5290329 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
5290349 ATTTGACTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
*
5290368 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
5290383 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
5290403 ATTTGACTATCACAACGCGA
1 ATTTGACTATCGCAACGCGA
*
5290423 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
5290443 ATTTGATTATCGCAACGGGA
1 ATTTGACTATCGCAACGCGA
*
5290463 ATTTGACTATCACAACG
1 ATTTGACTATCGCAACG
5290480 AGAAAATCGC
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
14 9 0.08
15 3 0.03
19 3 0.03
20 98 0.87
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.26
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:5290430 original size:40 final size:39
Alignment explanation
Indices: 5290329--5290519 Score: 186
Period size: 40 Copynumber: 5.1 Consensus size: 39
5290319 TTACACATTC
*
5290329 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACTC-A
1 ATTTG-ATATCGCAACGCGAATTTGACTATCGCAACGCGA
*
5290368 A----AAATCGCAACGCGAATTTGACTATCGCAACGCGA
1 ATTTGATATCGCAACGCGAATTTGACTATCGCAACGCGA
* *
5290403 ATTTGACTATCACAACGCGAATTTGACTATCGCAACGTGA
1 ATTTGA-TATCGCAACGCGAATTTGACTATCGCAACGCGA
* * *
5290443 ATTTGATTATCGCAACGGGAATTTGACTATCACAACGAGA
1 ATTTGA-TATCGCAACGCGAATTTGACTATCGCAACGCGA
* * * *
5290483 A----A-ATCGCAAAGCGTATTAGACTATTGCAACGCGA
1 ATTTGATATCGCAACGCGAATTTGACTATCGCAACGCGA
5290517 ATT
1 ATT
5290520 GACTTTCGAG
Statistics
Matches: 127, Mismatches: 17, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
34 56 0.44
35 2 0.02
36 1 0.01
39 2 0.02
40 66 0.52
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.25
Consensus pattern (39 bp):
ATTTGATATCGCAACGCGAATTTGACTATCGCAACGCGA
Found at i:5290553 original size:20 final size:20
Alignment explanation
Indices: 5290518--5290601 Score: 125
Period size: 20 Copynumber: 4.2 Consensus size: 20
5290508 GCAACGCGAA
5290518 TTGACTTTCG-AGTTGCGATT
1 TTGACTTTCGCA-TTGCGATT
* *
5290538 TTGGCTTTCACATTGCGATT
1 TTGACTTTCGCATTGCGATT
*
5290558 TTAACTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
5290578 TTGACTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
5290598 TTGA
1 TTGA
5290602 GTTTAGCGTT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 56 0.98
21 1 0.02
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.45
Consensus pattern (20 bp):
TTGACTTTCGCATTGCGATT
Found at i:5290751 original size:27 final size:27
Alignment explanation
Indices: 5290719--5290870 Score: 104
Period size: 27 Copynumber: 5.7 Consensus size: 27
5290709 ATAAGAATTA
*
5290719 TTTACACATCAATTAAACAAATCAACT
1 TTTACAAATCAATTAAACAAATCAACT
** *
5290746 TTTACAAATCAACTTTTATAAATCAA-T
1 TTTACAAATCAA-TTAAACAAATCAACT
** * * *
5290773 TAAACAAGCA-CAAAT-AA-GAAT-TA-T
1 TTTACAA--ATCAATTAAACAAATCAACT
*
5290797 T-TACACATCAATTAAACAAATCAACT
1 TTTACAAATCAATTAAACAAATCAACT
*
5290823 TTTACAAATTAATTAAACAAATCAGACT
1 TTTACAAATCAATTAAACAAATCA-ACT
5290851 TTTA-AGAATCAATTAAACAA
1 TTTACA-AATCAATTAAACAA
5290871 TAAAAAAATG
Statistics
Matches: 96, Mismatches: 18, Indels: 21
0.71 0.13 0.16
Matches are distributed among these distances:
21 1 0.01
22 4 0.04
23 5 0.05
24 6 0.06
25 4 0.04
26 3 0.03
27 39 0.41
28 33 0.34
29 1 0.01
ACGTcount: A:0.51, C:0.16, G:0.03, T:0.30
Consensus pattern (27 bp):
TTTACAAATCAATTAAACAAATCAACT
Found at i:5290754 original size:14 final size:14
Alignment explanation
Indices: 5290735--5290771 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
5290725 CATCAATTAA
5290735 ACAAATCAACTTTT
1 ACAAATCAACTTTT
5290749 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
5290763 ATAAATCAA
1 ACAAATCAA
5290772 TTAAACAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:5290787 original size:77 final size:77
Alignment explanation
Indices: 5290689--5290831 Score: 277
Period size: 77 Copynumber: 1.9 Consensus size: 77
5290679 TTTACATTTC
*
5290689 AATCAATTAAATAAGCACAAATAAGAATTATTTACACATCAATTAAACAAATCAACTTTTACAAA
1 AATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTAAACAAATCAACTTTTACAAA
5290754 TCAACTTTTATA
66 TCAACTTTTATA
5290766 AATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTAAACAAATCAACTTTTACAAA
1 AATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTAAACAAATCAACTTTTACAAA
5290831 T
66 T
5290832 TAATTAAACA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
77 65 1.00
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.29
Consensus pattern (77 bp):
AATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTAAACAAATCAACTTTTACAAA
TCAACTTTTATA
Found at i:5290813 original size:36 final size:36
Alignment explanation
Indices: 5290690--5290815 Score: 119
Period size: 36 Copynumber: 3.4 Consensus size: 36
5290680 TTACATTTCA
*
5290690 ATCAATTAAATAAGCACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAGCACAAATAAGAATTATTTACAC
* *** * * *
5290726 ATCAATTAAACAAATCAACTTTTACA-AATCAACTTTTATAA
1 ATCAATTAAAC-AAGC-ACAAATA-AGAAT-TA--TTTACAC
5290767 ATCAATTAAACAAGCACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAGCACAAATAAGAATTATTTACAC
5290803 ATCAATTAAACAA
1 ATCAATTAAACAA
5290816 ATCAACTTTT
Statistics
Matches: 68, Mismatches: 15, Indels: 14
0.70 0.15 0.14
Matches are distributed among these distances:
36 28 0.41
37 3 0.04
38 9 0.13
39 9 0.13
40 3 0.04
41 16 0.24
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.29
Consensus pattern (36 bp):
ATCAATTAAACAAGCACAAATAAGAATTATTTACAC
Found at i:5290864 original size:28 final size:27
Alignment explanation
Indices: 5290796--5290870 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 27
5290786 ATAAGAATTA
*
5290796 TTTACACATCAATTAAACAAATCAACT
1 TTTACAAATCAATTAAACAAATCAACT
*
5290823 TTTACAAATTAATTAAACAAATCAGACT
1 TTTACAAATCAATTAAACAAATCA-ACT
5290851 TTTA-AGAATCAATTAAACAA
1 TTTACA-AATCAATTAAACAA
5290871 TAAAAAAATG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 23 0.53
28 20 0.47
ACGTcount: A:0.51, C:0.16, G:0.03, T:0.31
Consensus pattern (27 bp):
TTTACAAATCAATTAAACAAATCAACT
Found at i:5292219 original size:21 final size:21
Alignment explanation
Indices: 5292195--5292297 Score: 82
Period size: 21 Copynumber: 4.9 Consensus size: 21
5292185 GTGGGAGAGA
*
5292195 CCTCTTCAACGATGACAGGGG
1 CCTCTTGAACGATGACAGGGG
* **
5292216 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGACAGGGG
* ** * *
5292237 ACTCTTGAGGGATGATAGAGG
1 CCTCTTGAACGATGACAGGGG
* **
5292258 CCTCTTGAACGAT-AGGAGATG
1 CCTCTTGAACGATGA-CAGGGG
5292279 CCTCTTGAACGATGACAGG
1 CCTCTTGAACGATGACAGG
5292298 TGAGTCGGGC
Statistics
Matches: 62, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
20 1 0.02
21 60 0.97
22 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.21
Consensus pattern (21 bp):
CCTCTTGAACGATGACAGGGG
Found at i:5292242 original size:42 final size:42
Alignment explanation
Indices: 5292175--5292297 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 42
5292165 GTGAATCGGG
* *
5292175 CTCTTGAATGGTGGGA-GAGACCTCTTCAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGAGA-CTCTTGAACGATGACAGGGGC
* ** * *
5292217 CTCTTGAACGGTGGGAGGGGACTCTTGAGGGATGATAGAGGC
1 CTCTTGAACGGTGGGAGGAGACTCTTGAACGATGACAGGGGC
* * *
5292259 CTCTTGAACGATAGGA-GATGCCTCTTGAACGATGACAGG
1 CTCTTGAACGGTGGGAGGA-GACTCTTGAACGATGACAGG
5292298 TGAGTCGGGC
Statistics
Matches: 64, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
41 1 0.02
42 60 0.94
43 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGAGACTCTTGAACGATGACAGGGGC
Found at i:5292828 original size:20 final size:20
Alignment explanation
Indices: 5292803--5292871 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
5292793 GAAACTTAAA
*
5292803 ATCGCAACGCAAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
5292823 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
**
5292843 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
5292863 ATCGCAACG
1 ATCGCAACG
5292872 GGATAATCAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:5292908 original size:19 final size:19
Alignment explanation
Indices: 5292886--5292948 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
5292876 AATCACAATA
* *
5292886 CGAAATAAAAATCGCAACG
1 CGAAACAAAAATCGAAACG
*
5292905 CGAAACCAAAATCGAAACG
1 CGAAACAAAAATCGAAACG
* *
5292924 CGAAACCAAAATCAAAACG
1 CGAAACAAAAATCGAAACG
*
5292943 CAAAAC
1 CGAAAC
5292949 TAAATTCGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.56, C:0.25, G:0.13, T:0.06
Consensus pattern (19 bp):
CGAAACAAAAATCGAAACG
Found at i:5293030 original size:20 final size:20
Alignment explanation
Indices: 5293005--5293072 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
5292995 CGATTATCCT
*
5293005 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCAATTTCGC
* *
5293025 GTTGCGTTAGT-TATTTCCGC
1 GTTGCGATAGTCAATTT-CGC
* * *
5293045 GTTGCGATAATCATTTTTGC
1 GTTGCGATAGTCAATTTCGC
5293065 GTTGCGAT
1 GTTGCGAT
5293073 TTTAAGTTTC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 3 0.08
20 32 0.84
21 3 0.08
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.40
Consensus pattern (20 bp):
GTTGCGATAGTCAATTTCGC
Found at i:5294250 original size:64 final size:64
Alignment explanation
Indices: 5294134--5294298 Score: 194
Period size: 64 Copynumber: 2.6 Consensus size: 64
5294124 TTGTTTGAAT
* ** ** *
5294134 GTGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAAAATAAAGACATCGAATGTAATTC
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAAAATAAAGACATCGAATGCAA-TC
5294198 -
64 G
* *
5294198 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAA-ACATCGAATGCAATCG
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAA-AATAAAGACATCGAATGCAATCG
5294262 GTGCATCGATGCATAAAG-AGTGCATCGATGCATCCCA
1 GTGCATCGATGCAT-AAGTAGTGCATCGATGCATCCCA
5294299 ACAATAATAC
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
63 2 0.02
64 79 0.89
65 8 0.09
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (64 bp):
GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAAAATAAAGACATCGAATGCAATCG
Found at i:5294893 original size:16 final size:16
Alignment explanation
Indices: 5294872--5294925 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
5294862 TCGAGGGTTT
5294872 ACATATGTTTAAAGGC
1 ACATATGTTTAAAGGC
**
5294888 ACATATG---AACAGTTT
1 ACATATGTTTAA-AG-GC
5294903 ACATATGTTTAAAGGC
1 ACATATGTTTAAAGGC
5294919 ACATATG
1 ACATATG
5294926 AACAATTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
13 2 0.07
14 2 0.07
15 7 0.24
16 14 0.48
17 2 0.07
18 2 0.07
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (16 bp):
ACATATGTTTAAAGGC
Found at i:5294906 original size:31 final size:31
Alignment explanation
Indices: 5294868--5295058 Score: 355
Period size: 31 Copynumber: 6.2 Consensus size: 31
5294858 AGAGTCGAGG
5294868 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
5294899 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
5294930 ATTTACATATGTTTAAATGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
5294961 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
5294992 GTTTACATATGTTTAAAGACACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
5295023 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
5295054 GTTTA
1 GTTTA
5295059 TATTGTGACC
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 154 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.34
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:5295001 original size:15 final size:15
Alignment explanation
Indices: 5294950--5295033 Score: 50
Period size: 15 Copynumber: 5.5 Consensus size: 15
5294940 GTTTAAATGC
5294950 ACATATGAACAGTTT
1 ACATATGAACAGTTT
**
5294965 ACATATGTTTAA-AG-GC
1 ACATATG---AACAGTTT
5294981 ACATATGAACAGTTT
1 ACATATGAACAGTTT
**
5294996 ACATATGTTTAA-AG-AC
1 ACATATG---AACAGTTT
5295012 ACATATGAACAGTTT
1 ACATATGAACAGTTT
5295027 ACATATG
1 ACATATG
5295034 TTTAAAGGCA
Statistics
Matches: 51, Mismatches: 8, Indels: 20
0.65 0.10 0.25
Matches are distributed among these distances:
13 4 0.08
14 4 0.08
15 21 0.41
16 14 0.27
17 4 0.08
18 4 0.08
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (15 bp):
ACATATGAACAGTTT
Found at i:5297158 original size:25 final size:26
Alignment explanation
Indices: 5297130--5297184 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
5297120 CAAAAACAAT
* *
5297130 AAACATACCCAGT-TAGATATACCAA
1 AAACATACACAGTGAAGATATACCAA
*
5297155 AAAC-TACACTGTGAAGATATACCAA
1 AAACATACACAGTGAAGATATACCAA
5297180 AAACA
1 AAACA
5297185 ATAATAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.51, C:0.22, G:0.09, T:0.18
Consensus pattern (26 bp):
AAACATACACAGTGAAGATATACCAA
Found at i:5297354 original size:20 final size:20
Alignment explanation
Indices: 5297331--5297386 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
5297321 TCTGAAACTT
5297331 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
5297351 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
5297371 ACTATCGCAACGCGAA
1 AAAATCGCAACACGAA
5297387 TTTGACTATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.50, C:0.23, G:0.16, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:5297392 original size:20 final size:20
Alignment explanation
Indices: 5297334--5297402 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
5297324 GAAACTTAAA
* **
5297334 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
5297354 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
5297374 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
5297394 ATCGCAACG
1 ATCGCAACG
5297403 ATATAATCGT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:5297434 original size:33 final size:33
Alignment explanation
Indices: 5297394--5297464 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
5297384 GAATTTGACT
* * *
5297394 ATCGCAACGATATAATCGTAACGCGAAA-TGAAA
1 ATCGCAACGAGAAAATCGCAACGCGAAACT-AAA
5297427 ATCGCAACGAGAAAATCGCAACGCGAAACTAAA
1 ATCGCAACGAGAAAATCGCAACGCGAAACTAAA
5297460 ATCGC
1 ATCGC
5297465 GTTGCGATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.45, C:0.23, G:0.18, T:0.14
Consensus pattern (33 bp):
ATCGCAACGAGAAAATCGCAACGCGAAACTAAA
Found at i:5297442 original size:14 final size:14
Alignment explanation
Indices: 5297423--5297454 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
5297413 AACGCGAAAT
5297423 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
5297437 GAAAATCGCAACGC
1 GAAAATCGCAACGA
5297451 GAAA
1 GAAA
5297455 CTAAAATCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.22, G:0.22, T:0.06
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:5299027 original size:26 final size:26
Alignment explanation
Indices: 5298995--5299056 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
5298985 TTAAAATTTT
5298995 AGTCTTGGTTCCATTGTTTAAAAAAA
1 AGTCTTGGTTCCATTGTTTAAAAAAA
5299021 AGTCTTGGTTCCATTGTTTAAAAAAA
1 AGTCTTGGTTCCATTGTTTAAAAAAA
5299047 AGTCTTGGTT
1 AGTCTTGGTT
5299057 TGAATGAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (26 bp):
AGTCTTGGTTCCATTGTTTAAAAAAA
Found at i:5301740 original size:26 final size:28
Alignment explanation
Indices: 5301689--5301751 Score: 69
Period size: 26 Copynumber: 2.3 Consensus size: 28
5301679 AAAAAGAGTT
*
5301689 TTATGTAAAATTTTATTTTAAAAATAAA-
1 TTAT-TAAAATTTTATATTAAAAATAAAC
*
5301717 TT-TTAAAATTTT-TATTAAGGAATAAAC
1 TTATTAAAATTTTATATTAA-AAATAAAC
5301744 TTATTAAA
1 TTATTAAA
5301752 TTGTAAAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 5 0.17
26 15 0.50
27 3 0.10
28 7 0.23
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (28 bp):
TTATTAAAATTTTATATTAAAAATAAAC
Found at i:5302432 original size:3 final size:3
Alignment explanation
Indices: 5302426--5302559 Score: 180
Period size: 3 Copynumber: 43.7 Consensus size: 3
5302416 TCATTTAAAT
* *
5302426 TTA TTA TTA TTA TTA -AA TTTA TTA TTA TTA TTA TTA TTAA ATA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT-A TTA TTA
* *
5302472 TTA TTA GTA TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
5302520 TTA TTA TTTA TTA TTA TTA ATA TTA TATA TTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT
5302560 TAATAAATAA
Statistics
Matches: 116, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
2 1 0.01
3 106 0.91
4 9 0.08
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:5304641 original size:20 final size:21
Alignment explanation
Indices: 5304618--5304669 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
5304608 AGAAATTAAA
5304618 AATTCATTTATTT-AATTTTT
1 AATTCATTTATTTAAATTTTT
* *
5304638 AATTCTTTTCTTTCAAATTTTT
1 AATTCATTTATTT-AAATTTTT
5304660 -ATT-ATTTATT
1 AATTCATTTATT
5304670 CTTTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.62
21 3 0.12
22 7 0.27
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTCATTTATTTAAATTTTT
Found at i:5311734 original size:92 final size:92
Alignment explanation
Indices: 5311577--5312079 Score: 936
Period size: 92 Copynumber: 5.5 Consensus size: 92
5311567 TAAGGAGACC
5311577 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAG
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAG
5311642 TTATTGAATTTGGAAGAGGAATGTGCT
66 TTATTGAATTTGGAAGAGGAATGTGCT
5311669 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAG
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAG
5311734 TTATTGAATTTGGAAGAGGAATGTGCT
66 TTATTGAATTTGGAAGAGGAATGTGCT
*
5311761 CATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAG
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAG
5311826 TTATTGAATTTGGAAGAGGAATGTGCT
66 TTATTGAATTTGGAAGAGGAATGTGCT
*
5311853 CATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAG
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAG
5311918 TTATTGAATTTGGAAGAGGAATGTGCT
66 TTATTGAATTTGGAAGAGGAATGTGCT
* *
5311945 CATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAG
* *
5312010 TCATTGAATTTGGAAGA-CAATGTGCT
66 TTATTGAATTTGGAAGAGGAATGTGCT
*
5312036 CATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
5312080 AGACAGAACC
Statistics
Matches: 405, Mismatches: 6, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
91 50 0.12
92 355 0.88
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (92 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAG
TTATTGAATTTGGAAGAGGAATGTGCT
Found at i:5314701 original size:22 final size:22
Alignment explanation
Indices: 5314672--5314726 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
5314662 ATCTACACTC
*
5314672 TTCAAAGATGATAGGTTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
5314694 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
5314716 TTCAAAAATGA
1 TTCAAAGATGA
5314727 AAGCTTTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:5315528 original size:76 final size:76
Alignment explanation
Indices: 5315402--5316044 Score: 1180
Period size: 76 Copynumber: 8.5 Consensus size: 76
5315392 CTATTTCCCA
5315402 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
5315467 ATCCTTCGTGT
66 AGCCTTCGGGT
*
5315478 CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
5315543 ATCCTTTGGGT
66 AGCCTTCGGGT
5315554 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
5315619 ATCCTTCGGGT
66 AGCCTTCGGGT
*
5315630 CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
5315695 ATCCTTCGGGT
66 AGCCTTCGGGT
5315706 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
5315771 AAGCCTTCGGGT
65 AAGCCTTCGGGT
5315783 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
5315847 AGCCTTCGGGT
66 AGCCTTCGGGT
5315858 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
5315923 AGCCTTCGGGT
66 AGCCTTCGGGT
5315934 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
5315999 AGCCTTCGGGT
66 AGCCTTCGGGT
* *
5316010 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
5316045 CATTTCCATC
Statistics
Matches: 555, Mismatches: 10, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
75 75 0.14
76 405 0.73
77 75 0.14
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:5316176 original size:3 final size:3
Alignment explanation
Indices: 5316170--5316291 Score: 156
Period size: 3 Copynumber: 39.7 Consensus size: 3
5316160 TCATTTAAAT
* *
5316170 TTA TTA TTA TTA TTA -AA TTTA TTA TTA TTA TTA TTAA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A TTA TTA TTA
* *
5316216 TTA GTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
*
5316262 TTA TTA TTA ATA TTA TATA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT
5316292 TAATAAATAA
Statistics
Matches: 104, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
2 1 0.01
3 94 0.90
4 9 0.09
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:5321195 original size:20 final size:19
Alignment explanation
Indices: 5321172--5321217 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
5321162 CGATATACCA
5321172 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
5321192 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
5321212 GGTAAA
1 GGTAAA
5321218 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:5321362 original size:20 final size:19
Alignment explanation
Indices: 5321339--5321385 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
5321329 CGATATAACA
5321339 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
5321359 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
5321379 GGTAAAA
1 GGTAAAA
5321386 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:5321387 original size:17 final size:19
Alignment explanation
Indices: 5321348--5321390 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
5321338 AGGTAAAAAT
5321348 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
5321368 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
5321385 ATGATA
1 ATGATA
5321391 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:5323666 original size:21 final size:22
Alignment explanation
Indices: 5323619--5323659 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
5323609 AAGACAATCA
*
5323619 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGATC
*
5323641 A-AGTCGTAGAGAAACTCGA
1 AGAGTCGAAGAGAAACTCGA
5323660 GAGAGTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.41, C:0.15, G:0.27, T:0.17
Consensus pattern (22 bp):
AGAGTCGAAGAGAAACTCGATC
Found at i:5323764 original size:33 final size:33
Alignment explanation
Indices: 5323717--5323782 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
5323707 AAATAGATGG
* *
5323717 AGTGGTGAATGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
5323750 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
5323783 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.48, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:5325602 original size:19 final size:19
Alignment explanation
Indices: 5325578--5325626 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
5325568 AATGTAGGGT
5325578 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
5325597 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
5325616 TATTTTTGTAT
1 TAATTTTGTAT
5325627 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:5326247 original size:198 final size:198
Alignment explanation
Indices: 5325745--5326714 Score: 1868
Period size: 198 Copynumber: 4.9 Consensus size: 198
5325735 CAATATGGCC
5325745 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAAC
5325810 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
5325875 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAA
5325940 TGGAA
194 TGGAA
5325945 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* **
5326010 CAAAAGTATAATGTAATATGTAATTTTTCAATATAACCGGTACAATTATACTTGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
5326075 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
5326140 GAA
196 GAA
5326143 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
5326208 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTATAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
5326273 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
5326338 GAA
196 GAA
5326341 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
5326406 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
5326471 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
5326536 GAA
196 GAA
5326539 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
5326604 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
5326669 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
5326715 CTAATTTAAA
Statistics
Matches: 760, Mismatches: 10, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
198 587 0.77
199 138 0.18
200 35 0.05
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (198 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
GAA
Found at i:5328195 original size:12 final size:12
Alignment explanation
Indices: 5328178--5328230 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
5328168 GGTCGCAGAA
*
5328178 GATGAAGCTGAC
1 GATGAAGATGAC
5328190 GATGAAGATGAC
1 GATGAAGATGAC
*
5328202 GATGATGATGAC
1 GATGAAGATGAC
* *
5328214 GATGATGATGAT
1 GATGAAGATGAC
5328226 GATGA
1 GATGA
5328231 TGAAGATGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.36, C:0.08, G:0.34, T:0.23
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:5328210 original size:3 final size:3
Alignment explanation
Indices: 5328190--5328243 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
5328180 TGAAGCTGAC
* * * *
5328190 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
5328238 GAT GAT
1 GAT GAT
5328244 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:5328211 original size:18 final size:18
Alignment explanation
Indices: 5328175--5328243 Score: 72
Period size: 18 Copynumber: 4.0 Consensus size: 18
5328165 AGCGGTCGCA
* *
5328175 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
5328193 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
*
5328211 GACGAT---GATGATGAT
1 GAAGATGAAGATGATGAT
*
5328226 GATGATGAAGATGATGAT
1 GAAGATGAAGATGATGAT
5328244 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
15 14 0.33
18 29 0.67
ACGTcount: A:0.38, C:0.06, G:0.33, T:0.23
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:5328231 original size:12 final size:12
Alignment explanation
Indices: 5328186--5328243 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
5328176 AAGATGAAGC
*
5328186 TGACGATGAAGA
1 TGACGATGATGA
5328198 TGACGATGATGA
1 TGACGATGATGA
5328210 TGACGATGATGA
1 TGACGATGATGA
*
5328222 TGATGATGATGA
1 TGACGATGATGA
* *
5328234 AGATGATGAT
1 TGACGATGAT
5328244 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.36, C:0.05, G:0.33, T:0.26
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:5330121 original size:183 final size:183
Alignment explanation
Indices: 5329665--5330372 Score: 1283
Period size: 183 Copynumber: 3.9 Consensus size: 183
5329655 CTTTCAACAT
** * * *
5329665 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
5329730 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
5329795 AATGTGTCGATACGATTT-AAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
5329847 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
*
5329912 GGTCTACAACCTATATCGACACTTTTTAATGTTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
5329977 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
*
5330030 ATTATAATGTAATAGATAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
5330095 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
* *
5330160 AATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
* *
5330213 TTTATAATGTAATAGATAATTTTGTAATATAACTGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
* *
5330278 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
5330343 AATGTGTCGATACCATTTAAAAAAGTGTCG
131 AATGTGTCGATACGATTTAAAAAAGTGTCG
5330373 GTAATTTTAA
Statistics
Matches: 508, Mismatches: 17, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
182 142 0.28
183 366 0.72
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (183 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
Found at i:5332874 original size:25 final size:25
Alignment explanation
Indices: 5332840--5332904 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
5332830 TTATCATTAA
5332840 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
5332865 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
5332890 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
5332905 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:5333278 original size:23 final size:23
Alignment explanation
Indices: 5333247--5333319 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
5333237 ATAGGTAAAC
*
5333247 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
5333270 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
5333293 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
5333316 ATAT
1 ATAT
5333320 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:5334593 original size:85 final size:84
Alignment explanation
Indices: 5334443--5334600 Score: 196
Period size: 85 Copynumber: 1.9 Consensus size: 84
5334433 TGCAAAAGTA
* * ** *
5334443 TCAATACTTTTTCACAAATATTGATTTTTTCAAATTTTAAAAAAATTGAAAATAAGAATACTGCA
1 TCAATACTTTTTCACAAATATTGATCTTTTCAAATTTAAAAAAAATAAAAAATAAGAATAATGC-
5334508 AAAGTATCAATACAAAATTT
65 AAAGTATCAATACAAAATTT
* *
5334528 TCAATA-TTTTTCCACAAATATTTATACTTTT-GAATTTAAAAAAAATAAAAAATAAGAA-AGAT
1 TCAATACTTTTT-CACAAATATTGAT-CTTTTCAAATTTAAAAAAAATAAAAAATAAGAATA-AT
5334590 GCAAAGTATCA
63 GCAAAGTATCA
5334601 TATTTTTTGA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
84 15 0.24
85 44 0.70
86 4 0.06
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (84 bp):
TCAATACTTTTTCACAAATATTGATCTTTTCAAATTTAAAAAAAATAAAAAATAAGAATAATGCA
AAGTATCAATACAAAATTT
Found at i:5334998 original size:100 final size:100
Alignment explanation
Indices: 5334839--5335043 Score: 248
Period size: 100 Copynumber: 2.0 Consensus size: 100
5334829 ATAGTGTAAT
* * ** * * **
5334839 AATAATTACAACTTAACCGGTTAAAATGAAATAGGCGCAACGTATTACGTTAAACTAGCTACCGG
1 AATAATTACAACCTAACCGGTTAAAATAAAATAGAAGCAACATATTACGTAAAACTAGCTACCAA
* *
5334904 TTTACTTAAATGTATAATAATAATGTAAACGATAA
66 TTTACTTAAAGGTATAATAATAATATAAACGATAA
* * * *
5334939 AATATTTACAACCTAGCCGGTTAAAATAAAATAGAAGCAACATATTATGTAAAATTAGCTACCAA
1 AATAATTACAACCTAACCGGTTAAAATAAAATAGAAGCAACATATTACGTAAAACTAGCTACCAA
** * *
5335004 TTTGTTTAAAGGTATAATGATAATATAAACGGTAA
66 TTTACTTAAAGGTATAATAATAATATAAACGATAA
5335039 AATAA
1 AATAA
5335044 AATAAGTCCT
Statistics
Matches: 86, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
100 86 1.00
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.29
Consensus pattern (100 bp):
AATAATTACAACCTAACCGGTTAAAATAAAATAGAAGCAACATATTACGTAAAACTAGCTACCAA
TTTACTTAAAGGTATAATAATAATATAAACGATAA
Found at i:5335176 original size:176 final size:174
Alignment explanation
Indices: 5334881--5335461 Score: 704
Period size: 176 Copynumber: 3.3 Consensus size: 174
5334871 AGGCGCAACG
* * * * *
5334881 TATTACGTTAAACTAGCTACCGGTTT-ACTTAAATGTATAATAATAATGTAAACGATAAAATATT
1 TATTACGTTAAACTAGCTATCGATTTGTC-TAAAGGTATAATAATAATGTAAACGGTAAAATATT
* * * * *
5334945 TACAACCTAGCCGGTTAAAATAAAATAGAAGCAACATATTATGTAAAATTAGCTACCAATTTGTT
65 TACAACTTAACCGGTTAAAATAAAATAG-AGCAACATATTACGTTAAACTAGCTACCAATTTGTT
* * *
5335010 TAAAGGTATAATGATAATATAAACGGTAAAATAAAATAAGTCCTACC
129 TAAAGGTATAATAATAATGTAAACGATAAAATAAAAT-AGTCCTACC
* *
5335057 TATTACGTTAAACTAGCTATCGGTTTGTCTAGAGGTATAATAATAATGTAAACGGTAAAATATTT
1 TATTACGTTAAACTAGCTATCGATTTGTCTAAAGGTATAATAATAATGTAAACGGTAAAATATTT
* **
5335122 ACAACTTAACCGGTTAAAATAAAATAGATGCAACTTATTACGTTAAACTAGCTACCGTTTTTGTT
66 ACAACTTAACCGGTTAAAATAAAATAGA-GCAACATATTACGTTAAACTAGCTACC-AATTTGTT
* * * *
5335187 TAAAGGTATAATAATAGTGTAACCGATTAAAATAAAATAGATGCTGCC
129 TAAAGGTATAATAATAATGTAAACGA-TAAAATAAAATAG-TCCTACC
* * *
5335235 TATTACGTTAAACT-GCCTATTGATTTGTTTAAAGGTATAATATTAATGTAAACGGTAAAATATT
1 TATTACGTTAAACTAG-CTATCGATTTGTCTAAAGGTATAATAATAATGTAAACGGTAAAATATT
* * *
5335299 TACAACTTAACCGTTTAAAATAAAATAG-GCACTACATATTACGTTAAACTATCTACCGATTTGT
65 TACAACTTAACCGGTTAAAATAAAATAGAGCA--ACATATTACGTTAAACTAGCTACCAATTTGT
* * * *
5335363 TTAAAAGTATAATAATAATGTAAACAATAAAATAAAACAGGCACTACC
128 TTAAAGGTATAATAATAATGTAAACGATAAAATAAAATAGTC-CTACC
* *
5335411 TATTACGTTAAACTACCTA-CGAATTTGT-TGAAAGATATAATAATAATGTAA
1 TATTACGTTAAACTAGCTATCG-ATTTGTCT-AAAGGTATAATAATAATGTAA
5335462 CTGATTAAAA
Statistics
Matches: 351, Mismatches: 42, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
175 3 0.01
176 167 0.48
177 59 0.17
178 122 0.35
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.33
Consensus pattern (174 bp):
TATTACGTTAAACTAGCTATCGATTTGTCTAAAGGTATAATAATAATGTAAACGGTAAAATATTT
ACAACTTAACCGGTTAAAATAAAATAGAGCAACATATTACGTTAAACTAGCTACCAATTTGTTTA
AAGGTATAATAATAATGTAAACGATAAAATAAAATAGTCCTACC
Found at i:5335326 original size:100 final size:100
Alignment explanation
Indices: 5335206--5335396 Score: 256
Period size: 100 Copynumber: 1.9 Consensus size: 100
5335196 AATAATAGTG
** * * * ** *
5335206 TAACCGATTAAAATAAAATAGATGCTGCCTATTACGTTAAACTGCCTATTGATTTGTTTAAAGGT
1 TAACCGATTAAAATAAAATAGACACTACATATTACGTTAAACTACCTACCGATTTGTTTAAAAGT
* **
5335271 ATAATATTAATGTAAACGGTAAAATATTTACAACT
66 ATAATAATAATGTAAACAATAAAATATTTACAACT
* * *
5335306 TAACCGTTTAAAATAAAATAGGCACTACATATTACGTTAAACTATCTACCGATTTGTTTAAAAGT
1 TAACCGATTAAAATAAAATAGACACTACATATTACGTTAAACTACCTACCGATTTGTTTAAAAGT
5335371 ATAATAATAATGTAAACAATAAAATA
66 ATAATAATAATGTAAACAATAAAATA
5335397 AAACAGGCAC
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
100 77 1.00
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (100 bp):
TAACCGATTAAAATAAAATAGACACTACATATTACGTTAAACTACCTACCGATTTGTTTAAAAGT
ATAATAATAATGTAAACAATAAAATATTTACAACT
Found at i:5335515 original size:77 final size:73
Alignment explanation
Indices: 5335313--5335538 Score: 249
Period size: 77 Copynumber: 3.0 Consensus size: 73
5335303 ACTTAACCGT
*
5335313 TTAAAATAAAATAGGCACTACATATTACGTTAAACTA-TCTACCGATTTGTTTAAA-AGTATAAT
1 TTAAAATAAAATAGGCACTAC-TATTACGTTAAACTACT-TACAG-TTTGTTTAAAGA-TATAAT
5335376 AATAATGTAAACA
62 AATAATGT-AACA
* * * * *
5335389 ATAAAATAAAACAGGCACTACCTATTACGTTAAACTACCTACGAATTTGTTGAAAGATATAATAA
1 TTAAAATAAAATAGGCACTA-CTATTACGTTAAACTACTTAC-AGTTTGTTTAAAGATATAATAA
5335454 TAATGTAACTGA
64 TAATGTAAC--A
* * * *
5335466 TTAAAATAAAATAGCCACTATCTATTACGTTAAATTACTTAACAGTTTGTTTAAAGGTATAATAT
1 TTAAAATAAAATAGGCACTA-CTATTACGTTAAACTACTT-ACAGTTTGTTTAAAGATATAATAA
5335531 TAATGTAA
64 TAATGTAA
5335539 AAGTAAAAAA
Statistics
Matches: 127, Mismatches: 16, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
75 3 0.02
76 59 0.46
77 63 0.50
78 2 0.02
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (73 bp):
TTAAAATAAAATAGGCACTACTATTACGTTAAACTACTTACAGTTTGTTTAAAGATATAATAATA
ATGTAACA
Found at i:5335529 original size:253 final size:253
Alignment explanation
Indices: 5335157--5335633 Score: 638
Period size: 253 Copynumber: 1.9 Consensus size: 253
5335147 AGATGCAACT
* ** * * *
5335157 TATTACGTTAAACTAGCTACCGTTTTTGTTTAAAGGTATAATAATAGTGTAACCGATTAAAATAA
1 TATTACGTTAAACTACCTACCGAATTTGTTGAAAGATATAATAATAATGTAACCGATTAAAATAA
** * * **
5335222 AATAGATGCTGCCTATTACGTTAAACTGCCTATTGATTTGTTTAAAGGTATAATATTAATGTAAA
66 AATAGACACTACCTATTACGTTAAACTACCTACAGATTTGTTTAAAGGTATAATATTAATGTAAA
* * * *
5335287 CGGTAAAATATTTACAACTTAACC-GTTTAAAATAAAATAGGCACTACATATTACGTTAAACTA-
131 -AGTAAAAAATTTACAACTTAACCTG-TTAAAATAAAATAGACACTACATATTAAGTTAAACTAC
*
5335350 TCTACCGATTTGTTTAAAAGTATAATAATAATGTAAACAATAAAATAAAACAGGCACTACC
194 T-TACCGATTTGTTTAAAAGTATAACAATAATGTAAACAATAAAATAAAACAGGCACTACC
*
5335411 TATTACGTTAAACTACCTA-CGAATTTGTTGAAAGATATAATAATAATGTAACTGATTAAAATAA
1 TATTACGTTAAACTACCTACCGAATTTGTTGAAAGATATAATAATAATGTAACCGATTAAAATAA
* * * *
5335475 AATAGCCACTATCTATTACGTTAAATTACTTAACAG-TTTGTTTAAAGGTATAATATTAATGTAA
66 AATAGACACTACCTATTACGTTAAACTACCT-ACAGATTTGTTTAAAGGTATAATATTAATGTAA
*** *
5335539 AAGTAAAAAATTTACAACTTAACCTGTTAAAATAAAATAGATGTTACCTATTAAGTTAAACTACT
130 AAGTAAAAAATTTACAACTTAACCTGTTAAAATAAAATAGACACTACATATTAAGTTAAACTACT
* *
5335604 TATCGGTTTGTTTAAAAGTATAACAATAAT
195 TACCGATTTGTTTAAAAGTATAACAATAAT
5335634 AAAAAGAGTA
Statistics
Matches: 192, Mismatches: 28, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
252 79 0.41
253 93 0.48
254 20 0.10
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (253 bp):
TATTACGTTAAACTACCTACCGAATTTGTTGAAAGATATAATAATAATGTAACCGATTAAAATAA
AATAGACACTACCTATTACGTTAAACTACCTACAGATTTGTTTAAAGGTATAATATTAATGTAAA
AGTAAAAAATTTACAACTTAACCTGTTAAAATAAAATAGACACTACATATTAAGTTAAACTACTT
ACCGATTTGTTTAAAAGTATAACAATAATGTAAACAATAAAATAAAACAGGCACTACC
Found at i:5335549 original size:77 final size:74
Alignment explanation
Indices: 5335314--5335546 Score: 256
Period size: 76 Copynumber: 3.1 Consensus size: 74
5335304 CTTAACCGTT
* *
5335314 TAAAATAAAATAGGCACTACATATTACGTTAAACTA-TCTACCGATTTGTTTAAAAGTATAATAA
1 TAAAATAAAATAGGCACTAC-TATTACGTTAAACTACT-TACAG-TTTGTTTAAAGGTATAATAA
5335378 TAATGTAAACA-A
63 TAATGTAAA-AGA
* * * * *
5335390 TAAAATAAAACAGGCACTACCTATTACGTTAAACTACCTACGAATTTGTTGAAAGATATAATAAT
1 TAAAATAAAATAGGCACTA-CTATTACGTTAAACTACTTAC-AGTTTGTTTAAAGGTATAATAAT
**
5335455 AATGTAACTGA
64 AATGTAAAAGA
* * *
5335466 TTAAAATAAAATAGCCACTATCTATTACGTTAAATTACTTAACAGTTTGTTTAAAGGTATAATAT
1 -TAAAATAAAATAGGCACTA-CTATTACGTTAAACTACTT-ACAGTTTGTTTAAAGGTATAATAA
5335531 TAATGTAAAAG-
63 TAATGTAAAAGA
5335542 TAAAA
1 TAAAA
5335547 AATTTACAAC
Statistics
Matches: 131, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
75 5 0.04
76 62 0.47
77 62 0.47
78 2 0.02
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (74 bp):
TAAAATAAAATAGGCACTACTATTACGTTAAACTACTTACAGTTTGTTTAAAGGTATAATAATAA
TGTAAAAGA
Found at i:5336495 original size:108 final size:108
Alignment explanation
Indices: 5336266--5336556 Score: 339
Period size: 108 Copynumber: 2.7 Consensus size: 108
5336256 TTATTCACAA
* * * * * *
5336266 TAACATTATTGGGCATAACCTAGTATGTTAATATTTATTTATAACAAAATAAATATTTAACCTAT
1 TAACATT-TTAGGCATAACCTAATATGTTGATA-ATATTTATAACAAAATAAGTAATTAACCTAT
** * * * * * *
5336331 TTTGTTGCCATGCGATTTTGAATGCCGCATCAGCTTAAACTTTGG
64 TTTGTTATCGTGAGATTTTGAAGGCAGCATCAACTTAAACTTTAG
* *
5336376 TAACATATTAGGCACAACCTAATATGTTGATAATATTTATAACAAAATAAGTAATTAACCTATTT
1 TAACATTTTAGGCATAACCTAATATGTTGATAATATTTATAACAAAATAAGTAATTAACCTATTT
* * * *
5336441 TGTTATCGTGAGATTTTTAAGGCATCGTCAACTTAAATTTTAG
66 TGTTATCGTGAGATTTTGAAGGCAGCATCAACTTAAACTTTAG
** * * *
5336484 TAACATTTTAGGTGTTACTTAATATGTTGATAATATTAATAACAAAATAAGTAATTAACCTATTT
1 TAACATTTTAGGCATAACCTAATATGTTGATAATATTTATAACAAAATAAGTAATTAACCTATTT
5336549 TGTTATCG
66 TGTTATCG
5336557 CCGGATTTCT
Statistics
Matches: 154, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
108 127 0.82
109 21 0.14
110 6 0.04
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (108 bp):
TAACATTTTAGGCATAACCTAATATGTTGATAATATTTATAACAAAATAAGTAATTAACCTATTT
TGTTATCGTGAGATTTTGAAGGCAGCATCAACTTAAACTTTAG
Found at i:5337301 original size:17 final size:17
Alignment explanation
Indices: 5337279--5337332 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
5337269 AATTTAATAG
5337279 TTAAATTAATATATTAT
1 TTAAATTAATATATTAT
**
5337296 TTAAATT--T-TAAGA-
1 TTAAATTAATATATTAT
*
5337309 TTAAATTAATATTTTAT
1 TTAAATTAATATATTAT
5337326 TTAAATT
1 TTAAATT
5337333 TTAAGAATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
13 7 0.25
14 3 0.11
15 2 0.07
16 2 0.07
17 14 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
TTAAATTAATATATTAT
Found at i:5337313 original size:30 final size:31
Alignment explanation
Indices: 5337245--5337338 Score: 145
Period size: 30 Copynumber: 3.1 Consensus size: 31
5337235 TCGAATTCAT
* *
5337245 GAGTTAAATTAATATTTTATCTAAAATTTAA
1 GAGTTAAATTAATATTTTATTTAAATTTTAA
* *
5337276 TAGTTAAATTAATATATTATTTAAATTTTAA
1 GAGTTAAATTAATATTTTATTTAAATTTTAA
5337307 GA-TTAAATTAATATTTTATTTAAATTTTAA
1 GAGTTAAATTAATATTTTATTTAAATTTTAA
5337337 GA
1 GA
5337339 ATCAAATTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 29 0.51
31 28 0.49
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (31 bp):
GAGTTAAATTAATATTTTATTTAAATTTTAA
Found at i:5346749 original size:21 final size:21
Alignment explanation
Indices: 5346719--5346791 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
5346709 ATTATGACTA
*
5346719 TCGCAATGCGATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
5346740 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
5346760 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
5346781 TCGCAATGCGA
1 TCGCAATGCGA
5346792 ATACGTAAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 17 0.40
21 26 0.60
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:5346751 original size:41 final size:41
Alignment explanation
Indices: 5346697--5346900 Score: 118
Period size: 41 Copynumber: 5.0 Consensus size: 41
5346687 CAGTTTCCAG
* *
5346697 ATTCGCAACGCGATTATGAC-TA-TCGCAATGCGATTTTCCTA
1 ATTCGCAATGCGATT-T-ACGTATTCGCAATGCGATTTTCATA
* **
5346738 ATTCGCATTGCGATTTACGTATTCGCGTTGCGATTTTCATA
1 ATTCGCAATGCGATTTACGTATTCGCAATGCGATTTTCATA
* * * *
5346779 ATTCGCAATGCGA-ATACGTAAATCGCAAAGCGA--TTAAGTA
1 ATTCGCAATGCGATTTACGT-ATTCGCAATGCGATTTTCA-TA
* * * * * * * *
5346819 AGTCGCAATGCGAATTAGGAAAATCGCAATGCGA-ATACGTA
1 ATTCGCAATGCGATTTACG-TATTCGCAATGCGATTTTCATA
* *
5346860 AATCGCAATGCGAATCTTAC-TA-TCGCAATGCGATTTACATA
1 ATTCGCAATGCG-AT-TTACGTATTCGCAATGCGATTTTCATA
5346901 GCGCCATTCG
Statistics
Matches: 127, Mismatches: 26, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
39 5 0.04
40 33 0.26
41 84 0.66
42 2 0.02
43 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (41 bp):
ATTCGCAATGCGATTTACGTATTCGCAATGCGATTTTCATA
Found at i:5346806 original size:20 final size:20
Alignment explanation
Indices: 5346781--5346892 Score: 127
Period size: 20 Copynumber: 5.5 Consensus size: 20
5346771 TTTTCATAAT
5346781 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * * *
5346801 TCGCAAAGCGATTAAGTAAG
1 TCGCAATGCGAATACGTAAA
* *
5346821 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
5346842 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
5346862 TCGCAATGCGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
5346882 TCGCAATGCGA
1 TCGCAATGCGA
5346893 TTTACATAGC
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
19 3 0.04
20 57 0.74
21 17 0.22
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:5347159 original size:27 final size:27
Alignment explanation
Indices: 5347102--5347159 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
5347092 CATCGCCGGC
**
5347102 GAAATCCCTCACAACCATTCACAGTCA
1 GAAATCCCTCACAACCATTCACAAACA
* * *
5347129 GAAATCCCTCACAATCATTCAGAAACG
1 GAAATCCCTCACAACCATTCACAAACA
5347156 GAAA
1 GAAA
5347160 ATCAACCTCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.31, G:0.10, T:0.17
Consensus pattern (27 bp):
GAAATCCCTCACAACCATTCACAAACA
Found at i:5347471 original size:19 final size:19
Alignment explanation
Indices: 5347447--5347491 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
5347437 GCAACGAGAG
* **
5347447 AATCGCAACGTGAAATGAA
1 AATCGCAACGCGAAACCAA
5347466 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
5347485 AATCGCA
1 AATCGCA
5347492 TTGCGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:5347509 original size:19 final size:19
Alignment explanation
Indices: 5347487--5347579 Score: 106
Period size: 19 Copynumber: 5.1 Consensus size: 19
5347477 GAAACCAAAA
*
5347487 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
5347506 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
5347520 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
5347539 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
5347558 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
5347578 TC
1 TC
5347580 AACCAAAAGA
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
14 10 0.16
16 3 0.05
17 3 0.05
19 29 0.47
20 17 0.27
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:5347579 original size:39 final size:33
Alignment explanation
Indices: 5347492--5347554 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
5347482 CAAAATCGCA
5347492 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
5347525 TTGCGATTTTCATTTCGCGTTGCGATTCTC
1 TTGCGATTTTCATTTCGCGTTGCGATTCTC
5347555 ATTATCTCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:5349403 original size:17 final size:17
Alignment explanation
Indices: 5349381--5349413 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5349371 GTTGCTGCCA
5349381 ATTCTTCTAA-ACTGTGT
1 ATTCTT-TAATACTGTGT
5349398 ATTCTTTAATACTGTG
1 ATTCTTTAATACTGTG
5349414 AAGTTAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (17 bp):
ATTCTTTAATACTGTGT
Found at i:5349443 original size:95 final size:91
Alignment explanation
Indices: 5349266--5349452 Score: 293
Period size: 95 Copynumber: 2.0 Consensus size: 91
5349256 TAGATTGCTT
5349266 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTT
5349331 GTCTTTTTGTTTTGTCTTTTGGTTGA
66 GTCTTTTTGTTTTGTCTTTTGGTTGA
* * * *
5349357 AGTAAATTTATTCGGTTGCTGCCAATTCTTCTAAACTGTGTATTCTTTAATACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
*
5349422 ATTTGTCTTTTTTTTTTGTCTTTTGGTTGA
62 ATTTGTCTTTTTGTTTTGTCTTTTGGTTGA
5349452 A
1 A
5349453 AGTTTGAAAT
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
91 34 0.39
93 3 0.03
94 2 0.02
95 48 0.55
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.49
Consensus pattern (91 bp):
AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTT
GTCTTTTTGTTTTGTCTTTTGGTTGA
Found at i:5349750 original size:21 final size:21
Alignment explanation
Indices: 5349726--5349792 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
5349716 TCATTCCTCG
5349726 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
5349747 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
5349768 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
5349789 AGAG
1 AGAG
5349793 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:5351151 original size:14 final size:14
Alignment explanation
Indices: 5351132--5351167 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
5351122 ATTGTTTAAT
5351132 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
5351146 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
5351160 TGATTTGT
1 TGATTTGT
5351168 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:5351298 original size:19 final size:19
Alignment explanation
Indices: 5351274--5351351 Score: 103
Period size: 19 Copynumber: 4.4 Consensus size: 19
5351264 AAAAAGTACT
5351274 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
5351293 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
5351307 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
5351326 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
5351345 ATCGCAA
1 ATCGCAA
5351352 CGACAAAATC
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
14 10 0.20
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 35 0.69
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:5351352 original size:52 final size:52
Alignment explanation
Indices: 5351274--5351372 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 52
5351264 AAAAAGTACT
* * * *
5351274 ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATGAAA
5351326 ATCGCAACGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAA
5351373 CTAAATTCGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.11
Consensus pattern (52 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATGAAA
Found at i:5351421 original size:33 final size:33
Alignment explanation
Indices: 5351378--5351489 Score: 156
Period size: 33 Copynumber: 3.4 Consensus size: 33
5351368 CGAAACTAAA
*
5351378 TTCGCGTTGCGATTCCCTCGTTGCGATTTTCAT
1 TTCGCATTGCGATTCCCTCGTTGCGATTTTCAT
*
5351411 TTCGCATTGCGAAATTCGCT--TTGCGATTTTCAT
1 TTCGCATTGCG--ATTCCCTCGTTGCGATTTTCAT
*
5351444 TTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTCGCATTGCGATTCCCTCGTTGCGATTTTCAT
*
5351477 TTCACATTGCGAT
1 TTCGCATTGCGAT
5351490 AGTAATTTCC
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
31 6 0.08
33 59 0.83
35 6 0.08
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (33 bp):
TTCGCATTGCGATTCCCTCGTTGCGATTTTCAT
Found at i:5351422 original size:19 final size:19
Alignment explanation
Indices: 5351398--5351489 Score: 78
Period size: 19 Copynumber: 5.4 Consensus size: 19
5351388 GATTCCCTCG
5351398 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
5351417 TTGCGA-----AATTCGCT
1 TTGCGATTTTCATTTCGCA
5351431 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
5351450 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
5351464 TTGCGATTTTCATTTCACA
1 TTGCGATTTTCATTTCGCA
5351483 TTGCGAT
1 TTGCGAT
5351490 AGTAATTTCC
Statistics
Matches: 56, Mismatches: 7, Indels: 20
0.67 0.08 0.24
Matches are distributed among these distances:
14 18 0.32
16 7 0.12
17 6 0.11
19 25 0.45
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:5353798 original size:12 final size:12
Alignment explanation
Indices: 5353781--5353817 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
5353771 TCTTCGGGGA
5353781 CTTTTTCTTCTT
1 CTTTTTCTTCTT
5353793 CTTTTTCTTCTT
1 CTTTTTCTTCTT
5353805 CTTTTTCTTCTT
1 CTTTTTCTTCTT
5353817 C
1 C
5353818 AGGATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:5354026 original size:24 final size:24
Alignment explanation
Indices: 5353992--5354045 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
5353982 CTGAAACATC
*
5353992 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
5354016 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
5354040 ATCAAA
1 ATCAAA
5354046 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:5354873 original size:21 final size:20
Alignment explanation
Indices: 5354830--5354881 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
5354820 TTTTCCTAAT
*
5354830 TCGCAATGCGAATGAGTAAA
1 TCGCAATGCGAATGAGAAAA
5354850 TCGCAATGCGAATTTG-GAAAA
1 TCGCAATGCGAA--TGAGAAAA
5354871 TCGCAATGCGA
1 TCGCAATGCGA
5354882 TACTGACTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 12 0.41
21 15 0.52
22 2 0.07
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATGAGAAAA
Found at i:5354955 original size:20 final size:20
Alignment explanation
Indices: 5354866--5354957 Score: 69
Period size: 20 Copynumber: 4.5 Consensus size: 20
5354856 TGCGAATTTG
* *
5354866 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
5354886 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
* *
5354906 ACAAAATCGCAACGAGATTCT
1 -GAAAATCGCAACGAGATACT
** *
5354927 -AACTTTCGCAACGAGATTCT
1 GAA-AATCGCAACGAGATACT
5354947 GAAAATCGCAA
1 GAAAATCGCAA
5354958 TCATCTTCAA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
19 2 0.04
20 36 0.65
21 17 0.31
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:5355266 original size:19 final size:19
Alignment explanation
Indices: 5355244--5355292 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
5355234 GAGTTTCTCG
*
5355244 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCACA
5355263 TTGCGATTTTCATTTCACA
1 TTGCGATTTTCATTTCACA
5355282 TTGCGATTTTC
1 TTGCGATTTTC
5355293 TCATTGCGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.16, C:0.20, G:0.14, T:0.49
Consensus pattern (19 bp):
TTGCGATTTTCATTTCACA
Found at i:5357275 original size:40 final size:40
Alignment explanation
Indices: 5357231--5357337 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 40
5357221 TAGTTTACTT
* * **
5357231 TCGCAACACGAAACTTACTTTCGCAACGCGAAAATGACTA
1 TCGCAACACGAAAATGACAATCGCAACGCGAAAATGACTA
* * *
5357271 TCGCAACGCGAAAATGACAATCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACAATCGCAACGCGAAAATGACTA
* * *
5357311 TCGCAATACG-AAATGAAAATCACAACG
1 TCGCAACACGAAAATGACAATCGCAACG
5357338 ACAAAATCGC
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
39 15 0.27
40 41 0.73
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.16
Consensus pattern (40 bp):
TCGCAACACGAAAATGACAATCGCAACGCGAAAATGACTA
Found at i:5357306 original size:20 final size:20
Alignment explanation
Indices: 5357231--5357316 Score: 109
Period size: 20 Copynumber: 4.3 Consensus size: 20
5357221 TAGTTTACTT
* * * *
5357231 TCGCAACACGAAACTTACTT
1 TCGCAACGCGAAAATGACTA
5357251 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
5357271 TCGCAACGCGAAAATGACAA
1 TCGCAACGCGAAAATGACTA
* *
5357291 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
5357311 TCGCAA
1 TCGCAA
5357317 TACGAAATGA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.37, C:0.27, G:0.20, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:5357382 original size:19 final size:19
Alignment explanation
Indices: 5357339--5357384 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
5357329 ATCACAACGA
*
5357339 CAAAATCGCAATGCGAAAT
1 CAAAATCGCAACGCGAAAT
*
5357358 GAAAATCGCAACGCGAAA-
1 CAAAATCGCAACGCGAAAT
5357376 CACAAATCG
1 CA-AAATCG
5357385 ATTTTCATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 1 0.04
19 22 0.96
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.11
Consensus pattern (19 bp):
CAAAATCGCAACGCGAAAT
Found at i:5357407 original size:19 final size:19
Alignment explanation
Indices: 5357383--5357491 Score: 85
Period size: 19 Copynumber: 6.2 Consensus size: 19
5357373 AAACACAAAT
5357383 CGATTTTCATTTCGCGTTG
1 CGATTTTCATTTCGCGTTG
5357402 CGATTTT-A--T--CGTTG
1 CGATTTTCATTTCGCGTTG
*
5357416 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCGTTG
*
5357435 CGA-TTT--TGT--CGTTG
1 CGATTTTCATTTCGCGTTG
*
5357449 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCGTTG
***
5357468 CGATAGCCATTTCCGCGTTG
1 CGATTTTCATTT-CGCGTTG
5357488 CGAT
1 CGAT
5357492 AGTCATTTTC
Statistics
Matches: 70, Mismatches: 9, Indels: 21
0.70 0.09 0.21
Matches are distributed among these distances:
14 19 0.27
15 4 0.06
16 3 0.04
17 3 0.04
18 4 0.06
19 27 0.39
20 10 0.14
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.44
Consensus pattern (19 bp):
CGATTTTCATTTCGCGTTG
Found at i:5357416 original size:14 final size:14
Alignment explanation
Indices: 5357397--5357455 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
5357387 TTTCATTTCG
5357397 CGTTGCGATTTTAT
1 CGTTGCGATTTTAT
5357411 CGTTGCGATTTTCATTT
1 CGTTGCGATTTT-A--T
*
5357428 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTAT
5357444 CGTTGCGATTTT
1 CGTTGCGATTTT
5357456 CATTTCGCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 22 0.56
15 1 0.03
16 3 0.08
17 3 0.08
19 10 0.26
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTAT
Found at i:5357425 original size:33 final size:33
Alignment explanation
Indices: 5357383--5357471 Score: 160
Period size: 33 Copynumber: 2.7 Consensus size: 33
5357373 AAACACAAAT
*
5357383 CGATTTTCATTTCGCGTTGCGATTTTATCGTTG
1 CGATTTTCATTTCGCATTGCGATTTTATCGTTG
*
5357416 CGATTTTCATTTCGCATTGCGATTTTGTCGTTG
1 CGATTTTCATTTCGCATTGCGATTTTATCGTTG
5357449 CGATTTTCATTTCGCATTGCGAT
1 CGATTTTCATTTCGCATTGCGAT
5357472 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.13, C:0.19, G:0.20, T:0.47
Consensus pattern (33 bp):
CGATTTTCATTTCGCATTGCGATTTTATCGTTG
Found at i:5357507 original size:20 final size:20
Alignment explanation
Indices: 5357456--5357499 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
5357446 TTGCGATTTT
*
5357456 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
5357475 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
5357495 CATTT
1 CATTT
5357500 TCGTGTTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:5359410 original size:20 final size:20
Alignment explanation
Indices: 5359362--5359420 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
5359352 AATAGTTTCT
* *
5359362 GAAAATGAAAATCGCAACAC
1 GAAAATGACAATCGCAACGC
5359382 GAAAATGACAATCGCAACGC
1 GAAAATGACAATCGCAACGC
** *
5359402 GAATTTGACTATCGCAACG
1 GAAAATGACAATCGCAACG
5359421 AGAGAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (20 bp):
GAAAATGACAATCGCAACGC
Found at i:5359701 original size:20 final size:21
Alignment explanation
Indices: 5359676--5359724 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
5359666 TCTGAGAGAT
5359676 GGAGAT-AGACGGATTTCGCC
1 GGAGATGAGACGGATTTCGCC
* *
5359696 GGAGATGGGGACGGATTTCGTC
1 GGAGAT-GAGACGGATTTCGCC
*
5359718 GAAGATG
1 GGAGATG
5359725 GGTGAGAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 1 0.04
22 17 0.71
ACGTcount: A:0.24, C:0.14, G:0.41, T:0.20
Consensus pattern (21 bp):
GGAGATGAGACGGATTTCGCC
Found at i:5359710 original size:22 final size:22
Alignment explanation
Indices: 5359683--5359726 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
5359673 GATGGAGATA
*
5359683 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGAAGATGGG
*
5359705 GACGGATTTCGTCGAAGATGGG
1 GACGGATTTCGCCGAAGATGGG
5359727 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGAAGATGGG
Found at i:5360012 original size:41 final size:41
Alignment explanation
Indices: 5359893--5360030 Score: 161
Period size: 41 Copynumber: 3.4 Consensus size: 41
5359883 CGCTTTGAAA
* * *
5359893 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
* * ** * * *
5359934 ATTGAGTTGCGAAATT-AAGTATCGAGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
*
5359974 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
*
5360015 ACCGCGTTGCGATTTT
1 ATCGCGTTGCGATTTT
5360031 CCAAATTCGC
Statistics
Matches: 77, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
40 32 0.42
41 45 0.58
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
Found at i:5360027 original size:20 final size:20
Alignment explanation
Indices: 5359913--5360026 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
5359903 GATTATGTAT
*
5359913 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* * * *
5359933 TATTGAGTTGCGAAATTAAG
1 TATCGCGTTGCGAAAGTCAG
*
5359953 TATCGAGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
** *
5359973 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
5359994 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
5360014 TACCGCGTTGCGA
1 TATCGCGTTGCGA
5360027 TTTTCCAAAT
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
19 3 0.04
20 57 0.75
21 14 0.18
22 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:5360046 original size:41 final size:41
Alignment explanation
Indices: 5359960--5360048 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
5359950 AAGTATCGAG
* * ** * *
5359960 TTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCGCG
1 TTGCGATAGTCAGTACCGCGTTGCGATTTTCAAATATCGCA
5360001 TTGCGATAGTCAGTACCGCGTTGCGATTTTCCAAAT-TCGCA
1 TTGCGATAGTCAGTACCGCGTTGCGATTTT-CAAATATCGCA
5360042 TTGCGAT
1 TTGCGAT
5360049 TTACTTATTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 39 0.95
42 2 0.05
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (41 bp):
TTGCGATAGTCAGTACCGCGTTGCGATTTTCAAATATCGCA
Found at i:5360047 original size:21 final size:20
Alignment explanation
Indices: 5360021--5360067 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
5360011 CAGTACCGCG
*
5360021 TTGCGATTTTCCAAATTCGCA
1 TTGCGA-TTTACAAATTCGCA
**
5360042 TTGCGATTTACTTATTCGCA
1 TTGCGATTTACAAATTCGCA
5360062 TTGCGA
1 TTGCGA
5360068 ATTGGGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (20 bp):
TTGCGATTTACAAATTCGCA
Found at i:5360109 original size:21 final size:22
Alignment explanation
Indices: 5360057--5360109 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
5360047 ATTTACTTAT
5360057 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
5360078 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
5360099 TCGCATTGCGA
1 TCGCATTGCGA
5360110 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:5360537 original size:43 final size:43
Alignment explanation
Indices: 5360476--5360563 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
5360466 GTGCTTCAAG
5360476 TGGTTCTTTGGATATCTCGGCGTTTTTAGGGTTAATTTTTCCA
1 TGGTTCTTTGGATATCTCGGCGTTTTTAGGGTTAATTTTTCCA
5360519 TGGTTCTTTGGATATCTCGGCGTTTTTAGGGTTAATTTTTCCA
1 TGGTTCTTTGGATATCTCGGCGTTTTTAGGGTTAATTTTTCCA
5360562 TG
1 TG
5360564 ATTGCTTTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.14, C:0.14, G:0.24, T:0.49
Consensus pattern (43 bp):
TGGTTCTTTGGATATCTCGGCGTTTTTAGGGTTAATTTTTCCA
Found at i:5360729 original size:110 final size:110
Alignment explanation
Indices: 5360598--5360817 Score: 431
Period size: 110 Copynumber: 2.0 Consensus size: 110
5360588 TTATGACACT
5360598 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGACTGTGGGATCTCTCGGCGTCTTCTGCATGCTAC
1 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGACTGTGGGATCTCTCGGCGTCTTCTGCATGCTAC
*
5360663 AAGGAATGCCAAGGTGGATCTCTTGGCGTCTTCACCTGTCGTCTG
66 AAGGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
5360708 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGACTGTGGGATCTCTCGGCGTCTTCTGCATGCTAC
1 ATGGGAATGCTCGGCGTCTTCAAGCAATTGGACTGTGGGATCTCTCGGCGTCTTCTGCATGCTAC
5360773 AAGGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
66 AAGGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
5360818 GCGGGAATCT
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 109 1.00
ACGTcount: A:0.17, C:0.25, G:0.29, T:0.29
Consensus pattern (110 bp):
ATGGGAATGCTCGGCGTCTTCAAGCAATTGGACTGTGGGATCTCTCGGCGTCTTCTGCATGCTAC
AAGGAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
Found at i:5364496 original size:14 final size:14
Alignment explanation
Indices: 5364477--5364569 Score: 84
Period size: 14 Copynumber: 6.6 Consensus size: 14
5364467 CTCGAGTACA
5364477 TATTTAATAATAAT
1 TATTTAATAATAAT
*
5364491 TATTTAA-ATTTAAT
1 TATTTAATA-ATAAT
*
5364505 TATTTAACT-TTAAT
1 TATTTAA-TAATAAT
*
5364519 GATTTAATAATAAT
1 TATTTAATAATAAT
*
5364533 TATTTAACT-TTAAT
1 TATTTAA-TAATAAT
*
5364547 GATTTAATAATAAT
1 TATTTAATAATAAT
5364561 TACTTTAAT
1 TA-TTTAAT
5364570 GATTTAACTT
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
13 3 0.05
14 54 0.84
15 7 0.11
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (14 bp):
TATTTAATAATAAT
Found at i:5364576 original size:37 final size:37
Alignment explanation
Indices: 5364529--5364904 Score: 446
Period size: 37 Copynumber: 10.0 Consensus size: 37
5364519 GATTTAATAA
* *
5364529 TAATTATTTAACTTTAATGATTTAATAATAATTACTT
1 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
*
5364566 TAATGATTTAACTTTAATGATTTAATAATAATTACTT
1 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
5364603 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
1 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
*
5364640 TAATGATTTAATTTTAATGATTTAATGAT--TTAACTT
1 TAATGATTTAATTTTAATGATTTAATAATAATT-ACTT
** * * *
5364676 TAATGATTTAATAATAATTACTTTAATGATTTAATGA-TT
1 TAATGATTTAATTTTAATGA-TTTAAT-A-ATAATTACTT
5364715 TAATGATTTAATAATAATAATTTTAATGATTTAATAATAATTACTT
1 TAATG-----AT--T--TAATTTTAATGATTTAATAATAATTACTT
* *
5364761 TAATGATTTAACTTTAATGCTTTAATAATAATTACTT
1 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
5364798 TAATGATTTAATGATTTAATGATTTAATAATAATTACTT
1 TAATGATTTAAT--TTTAATGATTTAATAATAATTACTT
*
5364837 TAATGATTTAATTTTAAT-AATT--TAATAA-T--TT
1 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
5364868 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
1 TAATGATTTAATTTTAATGATTTAATAATAATTACTT
5364905 GACTTTAATG
Statistics
Matches: 295, Mismatches: 20, Indels: 48
0.81 0.06 0.13
Matches are distributed among these distances:
31 20 0.07
32 3 0.01
33 1 0.00
34 12 0.04
35 3 0.01
36 24 0.08
37 152 0.52
39 45 0.15
40 1 0.00
41 3 0.01
44 2 0.01
45 5 0.02
46 9 0.03
47 6 0.02
48 9 0.03
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (37 bp):
TAATGATTTAATTTTAATGATTTAATAATAATTACTT
Found at i:5364702 original size:23 final size:23
Alignment explanation
Indices: 5364652--5364771 Score: 109
Period size: 23 Copynumber: 5.6 Consensus size: 23
5364642 ATGATTTAAT
*
5364652 TTTAATGATTTAATGAT--TTAAC
1 TTTAATGATTTAATAATAATT-AC
5364674 TTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATAATAATTAC
* *
5364697 TTTAATGATTTAATGATTTAATGA-
1 TTTAATGATTTAAT-A-ATAATTAC
5364721 TTT-A--A--TAATAATAA-T--
1 TTTAATGATTTAATAATAATTAC
5364736 TTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATAATAATTAC
5364759 TTTAATGATTTAA
1 TTTAATGATTTAA
5364772 CTTTAATGCT
Statistics
Matches: 81, Mismatches: 5, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
15 3 0.04
16 1 0.01
17 3 0.04
18 2 0.02
19 4 0.05
20 9 0.11
21 2 0.02
22 16 0.20
23 30 0.37
24 6 0.07
25 5 0.06
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (23 bp):
TTTAATGATTTAATAATAATTAC
Found at i:5364778 original size:23 final size:22
Alignment explanation
Indices: 5364576--5364710 Score: 71
Period size: 23 Copynumber: 5.7 Consensus size: 22
5364566 TAATGATTTA
*
5364576 ACTTTAATGATTTAATAATAATT
1 ACTTTAATGATTTAAT-TTAATT
*
5364599 ACTTTAATGATTTAATTTTAATG
1 ACTTTAATGATTTAA-TTTAATT
* * *
5364622 A-TTTAATAATAATTACTTTAATG
1 ACTTTAATGAT--TTAATTTAATT
5364645 A-TTTAAT--TTTAATGATTTAATGATTT
1 ACTTTAATGATTT-A--ATTT-A--A-TT
*
5364671 AACTTTAATGATTTAATAATAATT
1 A-CTTTAATGATTTAAT-TTAATT
5364695 ACTTTAATGATTTAAT
1 ACTTTAATGATTTAAT
5364711 GATTTAATGA
Statistics
Matches: 90, Mismatches: 7, Indels: 30
0.71 0.06 0.24
Matches are distributed among these distances:
19 2 0.02
20 1 0.01
21 1 0.01
22 11 0.12
23 50 0.56
24 7 0.08
25 2 0.02
26 2 0.02
27 3 0.03
28 7 0.08
29 1 0.01
30 3 0.03
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (22 bp):
ACTTTAATGATTTAATTTAATT
Found at i:5364880 original size:31 final size:32
Alignment explanation
Indices: 5364615--5364896 Score: 155
Period size: 31 Copynumber: 8.8 Consensus size: 32
5364605 ATGATTTAAT
* *
5364615 TTTAATGATTTAATAA--TAATTACTTTAATGA
1 TTTAATG-TTTAATAATTTAATAATTTTAATGA
* * *
5364646 TTTAAT-TTTAATGATTTAATGA-TTTAA--C
1 TTTAATGTTTAATAATTTAATAATTTTAATGA
*
5364674 TTTAATGATTTAATAATAATTACTTTAATGATTTAATGA
1 TTTAATG-TTTAATAAT--TTA--ATAAT--TTTAATGA
5364713 TTTAATGATTTAATAA--TAATAATTTTAATGA
1 TTTAATG-TTTAATAATTTAATAATTTTAATGA
** * * *
5364744 TTTAAT-AATAATTACTTTAATGA-TTTAA--C
1 TTTAATGTTTAA-TAATTTAATAATTTTAATGA
* *
5364773 TTTAATGCTTTAATAA--TAATTACTTTAATGA
1 TTTAATG-TTTAATAATTTAATAATTTTAATGA
*
5364804 TTTAATGATTTAATGATTTAATAATAATTACTTTAATGA
1 TTTAATG-TTTAATAATTT-A-A-TAA-T--TTTAATGA
5364843 TTTAAT-TTTAATAATTTAATAATTTTAATGA
1 TTTAATGTTTAATAATTTAATAATTTTAATGA
*
5364874 TTTAAT-TTTAATGATTTAATAAT
1 TTTAATGTTTAATAATTTAATAAT
5364897 AATTACTTGA
Statistics
Matches: 198, Mismatches: 24, Indels: 58
0.71 0.09 0.21
Matches are distributed among these distances:
28 11 0.06
29 21 0.11
30 17 0.09
31 77 0.39
32 8 0.04
33 6 0.03
34 6 0.03
35 4 0.02
36 3 0.02
37 15 0.08
39 30 0.15
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (32 bp):
TTTAATGTTTAATAATTTAATAATTTTAATGA
Found at i:5364925 original size:14 final size:13
Alignment explanation
Indices: 5364487--5364935 Score: 220
Period size: 14 Copynumber: 34.9 Consensus size: 13
5364477 TATTTAATAA
*
5364487 TAATTATTTAAATT
1 TAATGATTT-AATT
*
5364501 TAATTATTTAACTT
1 TAATGATTTAA-TT
*
5364515 TAATGATTTAATAA
1 TAATGATTTAAT-T
*
5364529 TAATTATTTAACTT
1 TAATGATTTAA-TT
5364543 TAATGATTTAA--
1 TAATGATTTAATT
* *
5364554 TAAT-AATTACTT
1 TAATGATTTAATT
5364566 TAATGATTTAACTT
1 TAATGATTTAA-TT
5364580 TAATGATTTAA--
1 TAATGATTTAATT
* *
5364591 TAAT-AATTACTT
1 TAATGATTTAATT
5364603 TAATGATTTAATTT
1 TAATGATTTAA-TT
5364617 TAATGATTTAA--
1 TAATGATTTAATT
* *
5364628 TAAT-AATTACTT
1 TAATGATTTAATT
5364640 TAATGATTTAATTT
1 TAATGATTTAA-TT
5364654 TAATG-----ATT
1 TAATGATTTAATT
5364662 TAATGATTTAACTT
1 TAATGATTTAA-TT
5364676 TAATGATTTAA--
1 TAATGATTTAATT
* *
5364687 TAAT-AATTACTT
1 TAATGATTTAATT
5364699 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
5364715 TAATGATTTAA--
1 TAATGATTTAATT
*
5364726 TAAT-A-ATAATTT
1 TAATGATTTAA-TT
5364738 TAATGATTTAA--
1 TAATGATTTAATT
* *
5364749 TAAT-AATTACTT
1 TAATGATTTAATT
5364761 TAATGATTTAACTT
1 TAATGATTTAA-TT
*
5364775 TAATGCTTTAA--
1 TAATGATTTAATT
* *
5364786 TAAT-AATTACTT
1 TAATGATTTAATT
5364798 TAATGATTTAATGATT
1 TAATGATTT-A--ATT
5364814 TAATGATTTAA--
1 TAATGATTTAATT
* *
5364825 TAAT-AATTACTT
1 TAATGATTTAATT
5364837 TAATGATTTAATTT
1 TAATGATTTAA-TT
*
5364851 TAATAATTTAATAATTT
1 TAATGA-TT--TAA-TT
5364868 TAATGATTTAATTT
1 TAATGATTTAA-TT
*
5364882 TAATGATTTAATAA
1 TAATGATTTAAT-T
* * *
5364896 TAATTACTTGACTT
1 TAATGA-TTTAATT
5364910 TAATGATTTATATT
1 TAATGATTTA-ATT
* *
5364924 TACTGATATAAT
1 TAATGATTTAAT
5364936 AATAGTAAAT
Statistics
Matches: 334, Mismatches: 49, Indels: 105
0.68 0.10 0.22
Matches are distributed among these distances:
8 7 0.02
9 4 0.01
10 28 0.08
11 32 0.10
12 32 0.10
13 39 0.12
14 148 0.44
15 9 0.03
16 24 0.07
17 11 0.03
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.50
Consensus pattern (13 bp):
TAATGATTTAATT
Found at i:5364939 original size:76 final size:71
Alignment explanation
Indices: 5364732--5364939 Score: 237
Period size: 76 Copynumber: 2.8 Consensus size: 71
5364722 TTAATAATAA
* *
5364732 TAATTTTAATGATTTAATAATAATTACTTTAATGATTTAACTTTAATGCTTTAATAATAATTACT
1 TAATTTTAATGATTTAATAATAATTACTTTAATGATTTAA-TTT-ATGATATAATAATAATTA-T
5364797 TTAATGATT
63 TTAATGATT
5364806 TAATGATTTAATGATTTAATAATAATTACTTTAATGATTTAATTT-T-A-ATAATTTAATAA-T-
1 TAAT--TTTAATGATTTAATAATAATTACTTTAATGATTTAATTTATGATATAA--TAATAATTA
5364866 TTTAATGATT
62 TTTAATGATT
5364876 TAATTTTAATGATTTAATAATAATTACTTGACTTTAATGATTTATATTTACTGATATAATAATA
1 TAATTTTAATGATTTAATAAT-A--A-TT-ACTTTAATGATTTA-ATTTA-TGATATAATAATA
5364940 GTAAATATAT
Statistics
Matches: 118, Mismatches: 2, Indels: 26
0.81 0.01 0.18
Matches are distributed among these distances:
68 17 0.14
69 1 0.01
70 14 0.12
71 4 0.03
72 3 0.03
73 21 0.18
74 8 0.07
75 3 0.03
76 42 0.36
77 1 0.01
78 4 0.03
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (71 bp):
TAATTTTAATGATTTAATAATAATTACTTTAATGATTTAATTTATGATATAATAATAATTATTTA
ATGATT
Found at i:5365404 original size:6 final size:6
Alignment explanation
Indices: 5365393--5365417 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5365383 GGTGAGAAGA
5365393 ACTCCC ACTCCC ACTCCC ACTCCC A
1 ACTCCC ACTCCC ACTCCC ACTCCC A
5365418 GTCCTTCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.64, G:0.00, T:0.16
Consensus pattern (6 bp):
ACTCCC
Found at i:5367456 original size:173 final size:173
Alignment explanation
Indices: 5367160--5367519 Score: 562
Period size: 173 Copynumber: 2.1 Consensus size: 173
5367150 CATCAAATAT
* *
5367160 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTTGCAATTTAATCACTAAATT
1 AAAACGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
*
5367225 TATAAATTCTTTCAAATTTAACCAATTAAGCATATTAATACTAAATTCAAGCATAGTATACCAAC
66 TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
* * *
5367290 TTTTTTATAATTTACTCTAATTTCTTAAATTCCTCAAATTTTGC
131 -TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
* *
5367334 AAAACGATCCCTAATTACTATTTGGTTCTCAACATTTTCAAAGTTAGCAATTTAATC-CATAAAT
1 AAAACGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCAC-TAAAT
* * *
5367398 TT-TAAATTCTTTCTAATTTAACCAATTAAGCATACTAATACTAAATTCTAGCATAGTATAGCAA
65 TTATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAA
* *
5367462 CTTTTAATAATTTACTCTTATTCCTTAAATTCCTTAAATTTTAC
130 CTTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
*
5367506 AAAACGGTCCCTAA
1 AAAACGATCCCTAA
5367520 AACTTTACAA
Statistics
Matches: 171, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
172 51 0.30
173 60 0.35
174 60 0.35
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (173 bp):
AAAACGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
Found at i:5368003 original size:23 final size:23
Alignment explanation
Indices: 5367977--5368020 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
5367967 AGTTGCATGC
5367977 CCCCCACATGCAGACGTGCAGGA
1 CCCCCACATGCAGACGTGCAGGA
5368000 CCCCCACATGCAGACGTGCAG
1 CCCCCACATGCAGACGTGCAG
5368021 CCCTACAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.41, G:0.25, T:0.09
Consensus pattern (23 bp):
CCCCCACATGCAGACGTGCAGGA
Done.