Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 274 of 325
Found at i:88080196 original size:20 final size:19
Alignment explanation
Indices: 88080126--88080205 Score: 67
Period size: 20 Copynumber: 4.2 Consensus size: 19
88080116 TTTAAAAATA
*
88080126 TATTAAAATAAATTAA-AAT
1 TATTAAAA-AAATAAATAAT
* *
88080145 TACTAAAAATAT-AA-AAT
1 TATTAAAAAAATAAATAAT
*
88080162 GTATTAAAAATATAAATAAT
1 -TATTAAAAAAATAAATAAT
*
88080182 TATTATAAAAAATAAATAAA
1 TATTA-AAAAAATAAATAAT
88080202 TATT
1 TATT
88080206 TTATATTAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
17 5 0.10
18 14 0.27
19 14 0.27
20 19 0.37
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (19 bp):
TATTAAAAAAATAAATAAT
Found at i:88080200 original size:24 final size:25
Alignment explanation
Indices: 88080166--88080250 Score: 74
Period size: 24 Copynumber: 3.6 Consensus size: 25
88080156 TAAAATGTAT
88080166 TAAAAAT--ATAAATAATTATTATA
1 TAAAAATAAATAAATAATTATTATA
88080189 -AAAAATAAATAAAT-ATT-TTATA
1 TAAAAATAAATAAATAATTATTATA
* *
88080211 TTAATATTAAATAAA-AATTATTATA
1 -TAAAAATAAATAAATAATTATTATA
* *
88080236 TTAATATGAAATAAA
1 TAAAAAT-AAATAAA
88080251 ATAACTCTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
22 11 0.22
23 3 0.06
24 23 0.47
25 12 0.24
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (25 bp):
TAAAAATAAATAAATAATTATTATA
Found at i:88080239 original size:25 final size:25
Alignment explanation
Indices: 88080173--88080251 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
88080163 TATTAAAAAT
* *
88080173 ATAAATAATTATTATA--AAAAATAA
1 ATAAA-AATTATTATATTAATATTAA
*
88080197 ATAAATATT-TTATATTAATATTAA
1 ATAAAAATTATTATATTAATATTAA
*
88080221 ATAAAAATTATTATATTAATATGAA
1 ATAAAAATTATTATATTAATATTAA
88080246 ATAAAA
1 ATAAAA
88080252 TAACTCTCTC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.11
23 3 0.06
24 19 0.40
25 20 0.43
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (25 bp):
ATAAAAATTATTATATTAATATTAA
Found at i:88081783 original size:5 final size:5
Alignment explanation
Indices: 88081773--88081808 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
88081763 AGAGGGACGC
88081773 GGTGG GGTGG GGTGG GGTGG GGTGG GGTGG GGTGG G
1 GGTGG GGTGG GGTGG GGTGG GGTGG GGTGG GGTGG G
88081809 AGAGAGTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.81, T:0.19
Consensus pattern (5 bp):
GGTGG
Found at i:88081844 original size:20 final size:20
Alignment explanation
Indices: 88081819--88081856 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
88081809 AGAGAGTTTA
88081819 TTTTATTTTAATA-TAATAAG
1 TTTTA-TTTAATATTAATAAG
88081839 TTTTATTTAATATTAATA
1 TTTTATTTAATATTAATA
88081857 TAAAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTTATTTAATATTAATAAG
Found at i:88081846 original size:25 final size:25
Alignment explanation
Indices: 88081815--88081877 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
88081805 TGGGAGAGAG
* * *
88081815 TTTATTTTATTTTAATATAATAAGT
1 TTTATTTAATTTTAATATAAAAAAT
*
88081840 TTTATTTAATATTAATATAAAAAAT
1 TTTATTTAATTTTAATATAAAAAAT
88081865 TTTATTTAATTTT
1 TTTATTTAATTTT
88081878 TATAATTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTATTTAATTTTAATATAAAAAAT
Found at i:88081885 original size:9 final size:10
Alignment explanation
Indices: 88081871--88081924 Score: 53
Period size: 9 Copynumber: 5.7 Consensus size: 10
88081861 AAATTTTATT
88081871 TAATTTTT-A
1 TAATTTTTAA
88081880 TAATTTTTAA
1 TAATTTTTAA
88081890 TAA-TTTTAA
1 TAATTTTTAA
* *
88081899 TTTACTTTTAA
1 -TAATTTTTAA
88081910 T-ATTTTTAA
1 TAATTTTTAA
88081919 -AATTTT
1 TAATTTT
88081925 AAAATATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 26 0.67
10 7 0.18
11 6 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:88081894 original size:29 final size:27
Alignment explanation
Indices: 88081839--88081925 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 27
88081829 ATATAATAAG
* **
88081839 TTTTATTTAATATTAATA--TAAAAAA
1 TTTTATTTAATTTTAATATTTTTAAAA
*
88081864 TTTTATTTAATTTTTATAATTTTTAATAA
1 TTTTATTTAATTTTAAT-ATTTTTAA-AA
*
88081893 TTTTAATTTACTTTTAATATTTTTAAAA
1 TTTT-ATTTAATTTTAATATTTTTAAAA
88081921 TTTTA
1 TTTTA
88081926 AAATATTTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
25 15 0.29
26 1 0.02
27 1 0.02
28 9 0.18
29 14 0.27
30 11 0.22
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTATTTAATTTTAATATTTTTAAAA
Found at i:88082868 original size:34 final size:34
Alignment explanation
Indices: 88082825--88082890 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
88082815 GCGCCATATG
88082825 GGTGAAACATGTAAGATGTTCAATGATCAAAATA
1 GGTGAAACATGTAAGATGTTCAATGATCAAAATA
*
88082859 GGTGAAACATGTAAGATGTTCAATGATTAAAA
1 GGTGAAACATGTAAGATGTTCAATGATCAAAA
88082891 CATGATGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.27
Consensus pattern (34 bp):
GGTGAAACATGTAAGATGTTCAATGATCAAAATA
Found at i:88105286 original size:21 final size:21
Alignment explanation
Indices: 88105257--88105296 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
88105247 TATATAATTT
*
88105257 AAAAATAAAT-TTTTAAATCC
1 AAAAATAAATGTATTAAATCC
88105277 AAAAAGTAAATGTATTAAAT
1 AAAAA-TAAATGTATTAAAT
88105297 TCTTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 5 0.29
22 7 0.41
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
AAAAATAAATGTATTAAATCC
Found at i:88106962 original size:201 final size:199
Alignment explanation
Indices: 88106549--88107176 Score: 678
Period size: 201 Copynumber: 3.2 Consensus size: 199
88106539 AAGTTTTGGA
* * * * * *
88106549 TTTAATTTTTGAAATAATTTGGTACATTAACTTTTATAATGTCATTG-CTAGTCTAAATACTCCA
1 TTTAATTTTTGACATAATTTGGTACCTCAACTTTTATAATGTCATAGTC-A-CCTAAATACTTCA
* * * ** *
88106613 TTCTGATTAAAATGTGGACGTGCATGTACCCAAAT--AT-ACA----ACTT-TTACTTCTTTGAG
64 TTCTGATTAAAATGTTGACGTACACGTGTCCAAATACATGACATTTTACTTCTT-CTTTTTTGAG
* * * * *
88106670 ATTATATAATAATGGTCAAATTTT-AATTTTGGT-TCATAT-ATTATGCTCAAATATGGAATTTA
128 ATTACATAACAATGGTC-AATTTTCAATTTTGGTCTC-TATGA-TATGCTCAATTTTGAAATTTA
88106732 ATCTCTATAC
190 ATCTCTATAC
** * *
88106742 TTTACGTTTTGATATAATTTGGTACCTCAACTTTTATTATGTCATAGTCACACTAAATACTTCAT
1 TTTAATTTTTGACATAATTTGGTACCTCAACTTTTATAATGTCATAGTCAC-CTAAATACTTCAT
* *
88106807 TCTGATTAAAATGTTGACATACACGTGTCCAAATACATGACATTTTACTTCTTCTTTTTTTTAGA
65 TCTGATTAAAATGTTGACGTACACGTGTCCAAATACATGACATTTTACTTCTTC-TTTTTTGAGA
88106872 TTACATAACAATGGTCAATTTTCAATTTTGGTCTCTATGATATGCTCAATTTTGAAATTTAATCT
129 TTACATAACAATGGTCAATTTTCAATTTTGGTCTCTATGATATGCTCAATTTTGAAATTTAATCT
*
88106937 CTATAT
194 CTATAC
* **
88106943 TTTAATTTTTGACATAATTTGGTACCTCAACTTTTATAATGCCATAGTCATCCTAAATGA-TTTG
1 TTTAATTTTTGACATAATTTGGTACCTCAACTTTTATAATGTCATAGTCA-CCTAAAT-ACTTCA
* * * *
88107007 TTCTAATTAAAATGTTGATGTACACAG-GTCCAAATACACGACCTTTTA---CTTCTTTTTTGAG
64 TTCTGATTAAAATGTTGACGTACAC-GTGTCCAAATACATGACATTTTACTTCTTCTTTTTTGAG
* * * * *
88107068 ACTACATATAACAATGGTCAAATTTCAAATTTGGTCCCCATGATATGCTCAATTTTGAAATTTAA
128 ATTAC--ATAACAATGGTCAATTTTCAATTTTGGTCTCTATGATATGCTCAATTTTGAAATTTAA
*
88107133 TCTTTATAC
191 TCTCTATAC
*
88107142 TTTAATTTTTGACATAATTTGGTACCTTAACTTTT
1 TTTAATTTTTGACATAATTTGGTACCTCAACTTTT
88107177 TTCTTGTCAT
Statistics
Matches: 372, Mismatches: 44, Indels: 32
0.83 0.10 0.07
Matches are distributed among these distances:
193 81 0.22
194 1 0.00
195 2 0.01
196 3 0.01
197 12 0.03
198 4 0.01
199 95 0.26
200 11 0.03
201 157 0.42
202 6 0.02
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (199 bp):
TTTAATTTTTGACATAATTTGGTACCTCAACTTTTATAATGTCATAGTCACCTAAATACTTCATT
CTGATTAAAATGTTGACGTACACGTGTCCAAATACATGACATTTTACTTCTTCTTTTTTGAGATT
ACATAACAATGGTCAATTTTCAATTTTGGTCTCTATGATATGCTCAATTTTGAAATTTAATCTCT
ATAC
Found at i:88111352 original size:46 final size:46
Alignment explanation
Indices: 88111302--88111474 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
88111292 TGGTTGAGCA
*
88111302 TCCGAACTCGTTGAGTTGAGTCCGGGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
88111348 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
88111393 CATCCG-A--CGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
88111438 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88111475 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
42 2 0.02
43 7 0.07
44 21 0.20
45 6 0.06
46 58 0.56
47 7 0.07
48 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:88121855 original size:8 final size:8
Alignment explanation
Indices: 88121842--88121875 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
88121832 GAGATTTGAT
88121842 TTCAAGAA
1 TTCAAGAA
88121850 TTCAAGAA
1 TTCAAGAA
88121858 TTCAAGAA
1 TTCAAGAA
88121866 TTCAAGAA
1 TTCAAGAA
88121874 TT
1 TT
88121876 ATCTAAGCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (8 bp):
TTCAAGAA
Found at i:88123197 original size:18 final size:18
Alignment explanation
Indices: 88123174--88123208 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
88123164 ATATTTGAAA
88123174 TAATTTAATATAATATAT
1 TAATTTAATATAATATAT
*
88123192 TAATTTAATTTAATATA
1 TAATTTAATATAATATA
88123209 AAACATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTTAATATAATATAT
Found at i:88123324 original size:26 final size:24
Alignment explanation
Indices: 88123270--88123393 Score: 110
Period size: 26 Copynumber: 4.9 Consensus size: 24
88123260 TTTAAGAATG
*
88123270 TTATTAAATTATA-TAATATTACTT
1 TTATTAAATTATATTAATAATA-TT
88123294 TTATTAAATTATATTTAATAATATT
1 TTATTAAATTATA-TTAATAATATT
* *
88123319 TATATTAAAATATGATTAA-ATTATTT
1 T-TATTAAATTAT-ATTAATAATA-TT
88123345 ATTATTAAATTATATTTAATAATAATT
1 -TTATTAAATTATA-TTAATAAT-ATT
*
88123372 TTATTGAAATT-TAATAATAATA
1 TTATT-AAATTATATTAATAATA
88123394 ACAATAATCA
Statistics
Matches: 84, Mismatches: 6, Indels: 20
0.76 0.05 0.18
Matches are distributed among these distances:
24 14 0.17
25 14 0.17
26 44 0.52
27 11 0.13
28 1 0.01
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.52
Consensus pattern (24 bp):
TTATTAAATTATATTAATAATATT
Found at i:88123995 original size:15 final size:17
Alignment explanation
Indices: 88123977--88124009 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
88123967 ATTTTTTCTC
88123977 AATTTA-TT-ATATTTT
1 AATTTATTTCATATTTT
88123992 AATTTATTTCATATTTT
1 AATTTATTTCATATTTT
88124009 A
1 A
88124010 TAAAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 2 0.12
17 8 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
AATTTATTTCATATTTT
Found at i:88129775 original size:25 final size:23
Alignment explanation
Indices: 88129723--88129777 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
88129713 TATAAATAGT
88129723 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
88129746 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
88129771 AATAGTG
1 AATAGTG
88129778 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:88129897 original size:22 final size:24
Alignment explanation
Indices: 88129839--88129906 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 24
88129829 ATAGATATAA
* *
88129839 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
88129863 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
88129887 -AAAATATATACATAAGATAA
1 AAAAATATATACATAATATAA
88129907 CATGTAGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 18 0.47
24 1 0.03
25 19 0.50
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:88129958 original size:25 final size:24
Alignment explanation
Indices: 88129924--88130050 Score: 97
Period size: 23 Copynumber: 5.5 Consensus size: 24
88129914 AAAAAAATAT
*
88129924 ATATAAATAATATAGTATTAAAGA
1 ATATACATAATATAGTATTAAAGA
* *
88129948 TATATACATAAAATAGTA-TAATA-T
1 -ATATACATAATATAGTATTAA-AGA
* * *
88129972 ATATACGTAATATAGAATT-TAGA
1 ATATACATAATATAGTATTAAAGA
* *
88129995 ATATACCTAATATA-T-TAAAAGA
1 ATATACATAATATAGTATTAAAGA
* *
88130017 ATATATATAATATAATATTAAA-A
1 ATATACATAATATAGTATTAAAGA
88130040 ATATA-ATAATA
1 ATATACATAATA
88130051 ACAAAAAAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 15
0.73 0.14 0.14
Matches are distributed among these distances:
21 1 0.01
22 22 0.27
23 34 0.42
24 8 0.10
25 16 0.20
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (24 bp):
ATATACATAATATAGTATTAAAGA
Found at i:88130372 original size:16 final size:16
Alignment explanation
Indices: 88130334--88130372 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
88130324 TCTCCAAAAA
*
88130334 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
88130350 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
88130366 AATAACT
1 AAAAACT
88130373 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:88131332 original size:87 final size:86
Alignment explanation
Indices: 88131197--88131401 Score: 232
Period size: 87 Copynumber: 2.4 Consensus size: 86
88131187 TCCTGAGCTT
* * * *
88131197 AACTCATTTCTCGCAATATGAATTGACTCTTTAAAACTAAACATTAAAAACAAAAATTGAAAATA
1 AACTCACTTCTCGCAATATGAGTTGA-TTTTTAAAACAAAACATT-AAAACAAAAATTGAAAATA
* *
88131262 GCTCAGCA-GTGAGCCAAGGCTC
64 CCTCAGCATGTGACCCAAGGCTC
** * **
88131284 AACTCACTTCTCGCAATATGAGTTGATTTTTAAAACAAAATTTGTAAAACATATTTTGAAAATAC
1 AACTCACTTCTCGCAATATGAGTTGATTTTTAAAACAAAACAT-TAAAACAAAAATTGAAAATAC
* * *
88131349 CTCGGTATGTGACCCGAGGCTC
65 CTCAGCATGTGACCCAAGGCTC
* *
88131371 AACTCACCTCTCGTAATATGAGTTGATTTTT
1 AACTCACTTCTCGCAATATGAGTTGATTTTT
88131402 GCAAAGCATA
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
86 34 0.34
87 66 0.66
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.31
Consensus pattern (86 bp):
AACTCACTTCTCGCAATATGAGTTGATTTTTAAAACAAAACATTAAAACAAAAATTGAAAATACC
TCAGCATGTGACCCAAGGCTC
Found at i:88131471 original size:103 final size:104
Alignment explanation
Indices: 88131339--88131530 Score: 298
Period size: 103 Copynumber: 1.8 Consensus size: 104
88131329 AAAACATATT
* * *
88131339 TTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTG
1 TTGAAAATACCTCGGCATATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
88131403 -CAAAGCATAAATTGAAAAAAAAATAAAAATAAAAATCAA
66 ACAAA-CATAAATTGAAAAAAAAATAAAAATAAAAATCAA
* * *
88131442 TTGAAAATACCTCGGCGTATGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCGGCATATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
88131507 GACAAACATAAATTGAAAAAAAAA
65 GACAAACATAAATTGAAAAAAAAA
88131531 AAGAAATTGA
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
103 52 0.65
105 24 0.30
106 4 0.05
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (104 bp):
TTGAAAATACCTCGGCATATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
ACAAACATAAATTGAAAAAAAAATAAAAATAAAAATCAA
Found at i:88131616 original size:15 final size:15
Alignment explanation
Indices: 88131596--88131632 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
88131586 CAGTTGATTT
88131596 TTTGAAAAAACAGAA
1 TTTGAAAAAACAGAA
88131611 TTTG-AAAAACAGAA
1 TTTGAAAAAACAGAA
88131625 TTTGAAAA
1 TTTGAAAA
88131633 TACCTCAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (15 bp):
TTTGAAAAAACAGAA
Found at i:88131685 original size:91 final size:90
Alignment explanation
Indices: 88131440--88131796 Score: 346
Period size: 91 Copynumber: 3.9 Consensus size: 90
88131430 AATAAAAATC
* * *
88131440 AATTGAAAATACCTCGGCGTATGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCATGTGATC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * *
88131505 TTGACAAACATAAATTGAAAAAAAAAAAGA
65 TTGAAAAACAGAAATTG----AAAAACAGA
* ** * *
88131535 AATTGAAAATATCTCAGCATGTCCT-GAGGCTGAACTCACCTCTCGCAATATCAGTTGA-TTTTT
1 AATTGAAAATACCTCAGCATGTGATCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
88131598 TGAAAAAACAGAATTTGAAAAACAGA
66 TG-AAAAACAGAAATTGAAAAACAGA
* * * * * *
88131624 ATTTGAAAATACCTCAGCCTGTGAGTCAAGGCTCAACTCACCACTCGCAATAAGAGCTGATTTTT
1 AATTGAAAATACCTCAGCATGTGA-TCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * *
88131689 TTGAAACACAGAAATTGAAGAACATA
65 TTGAAAAACAGAAATTGAAAAACAGA
* * * * * * * *
88131715 AATGGAAAACACATCA--ACGT-CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
1 AATTGAAAATACCTCAGCATGTGATCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
88131777 TGAAAGACAGAAATTGAAAA
66 TGAAAAACAGAAATTGAAAA
88131797 TACCTCAACA
Statistics
Matches: 217, Mismatches: 41, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
87 54 0.25
89 29 0.13
90 1 0.00
91 58 0.27
92 14 0.06
93 42 0.19
95 19 0.09
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.27
Consensus pattern (90 bp):
AATTGAAAATACCTCAGCATGTGATCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAAACAGAAATTGAAAAACAGA
Found at i:88131824 original size:75 final size:74
Alignment explanation
Indices: 88131703--88132833 Score: 1321
Period size: 75 Copynumber: 15.3 Consensus size: 74
88131693 AACACAGAAA
* * * * *
88131703 TTGAAGAACATAAATGGAAAACACATCAAC--GTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
88131766 GCTGATTTTT
65 GTTGATTTTT
*
88131776 TTGAAAGACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
88131841 GTT--TATTT
65 GTTGATTTTT
* * * * *
88131849 TTGACAAACAAAAATTGAAATTACCTCAGCGT-T-TTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
88131912 GTTGATTTTT
65 GTTGATTTTT
*
88131922 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
88131987 GCTGATTTTT
65 GTTGATTTTT
*
88131997 TT-AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACCCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
88132061 GTTGA--TTT
65 GTTGATTTTT
* * * * * *
88132069 TTGACAAA-AAAAACTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
88132133 GTTGATTTTT
65 GTTGATTTTT
* * ** *
88132143 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATAT
1 TTG-AAAACAGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATAT
*
88132208 GAGCTGATTTTT
63 GAGTTGATTTTT
* *
88132220 TTG-AAACAAGAAATTGAAAACAGAAATGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCT
1 TTGAAAAC-AGAAATTG-----A-AAAT------ACCTCAACGTGTCTTGAGGCTCAACTCACCT
88132282 CTCGCAATATGAGTTGATTTTTT
53 CTCGCAATATGAGTTGA-TTTTT
88132305 TTGAAAGACAGAAATTGAAAATACCTC-A-GTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
88132368 GTTGA--TTT
65 GTTGATTTTT
* * * * *
88132376 TTGAAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
88132439 TTGATTTTT
66 TTGATTTTT
*
88132448 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
88132513 G-TGATTTTT
65 GTTGATTTTT
* *
88132522 TT-AAAGAAAAAAATT-AAAATACCTCAACGTGTCTTGAGG-TCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
88132584 GTTGA--TTT
65 GTTGATTTTT
* * * *
88132592 TTGACAAACA-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
88132656 GTTGATTTTT
65 GTTGATTTTT
*
88132666 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
88132731 GTTGA--GTT
65 GTTGATTTTT
* * * * *
88132739 TTGAAAACAAAAATTGAAATTACCTTAGCGCGTGTCTTGAGGCTCAACTCACTTCTCGCAATATG
1 TTGAAAACAGAAATTGAAAATACCTCA--ACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
88132804 AGTTGATTTTT
64 AGTTGATTTTT
* * *
88132815 TAG-AAACATAAATTAAAAA
1 TTGAAAACAGAAATTGAAAA
88132834 AACAAAAATT
Statistics
Matches: 923, Mismatches: 82, Indels: 104
0.83 0.07 0.09
Matches are distributed among these distances:
70 66 0.07
71 88 0.10
72 147 0.16
73 122 0.13
74 180 0.20
75 203 0.22
76 12 0.01
77 37 0.04
80 4 0.00
81 2 0.00
82 4 0.00
84 30 0.03
85 8 0.01
86 13 0.01
87 2 0.00
88 5 0.01
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (74 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTT
Found at i:88132087 original size:146 final size:145
Alignment explanation
Indices: 88131733--88132900 Score: 1281
Period size: 146 Copynumber: 7.8 Consensus size: 145
88131723 ACACATCAAC
* * *
88131733 GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAAT
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-A-AAAAATTGAAAAT
* * * *
88131798 ACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTTA-TTTTTGACAAACAAAA
63 ACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTA-AAACAGAA
*
88131862 ATTGAAATTACCTCAGCGT
127 ATTGAAAATACCTCAGCGT
* *
88131881 -T-TTGAGGTTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAT
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAA-A-AAATTGAAAAT
* *
88131944 ACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAAAGACAGAA
63 ACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAA-ACAGAA
*
88132009 ATTGAAAATACCTCAACGT
127 ATTGAAAATACCTCAGCGT
* * *
88132028 GTCTTGAGGCTCAACCCACCTCTCGCAATATGAGTTGA-TTTTTGACAAAAAAAACTGAAATTAC
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAAAAAAATTGAAAATAC
* * *
88132092 CTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
65 CTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT--AAAACAGAAA
88132157 TTGAAAATACCTCAGCGT
128 TTGAAAATACCTCAGCGT
* ** * * *
88132175 GTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGAAACAAGAAATTGAAAA
1 GT--CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-AAAAAATTG----
* *
88132240 CAGAAATGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTT
58 -A-AAAT------ACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
88132303 TTTTGAAAGACAGAAATTGAAAATACCTCA--GT
114 TTTT-AAA-ACAGAAATTGAAAATACCTCAGCGT
*
88132335 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAAAAATTGAAATTAC
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA-AAAAATTGAAAATAC
* * *
88132399 CTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
65 CTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT--AAAACAGAAA
*
88132462 TTGAAAATACCTCAACGT
128 TTGAAAATACCTCAGCGT
* *
88132480 GTCTTGAGGTTCAACTCACCTCTCGCAATATGAG-TGATTTTTTTAAAGAAAAAAATT-AAAATA
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAA-AAAAAAATTGAAAATA
*
88132543 CCTCAACGTGTCTTGAGG-TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACA-AAA
64 CCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTA-AAACAGAAA
*
88132605 TTGAAATTACCTCAGCGT
128 TTGAAAATACCTCAGCGT
* *
88132623 GTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAT
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAA-A-AAATTGAAAAT
* * * *
88132688 ACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-GTTTTGAAAACAAAAA
63 ACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACAGAAA
* *
88132752 TTGAAATTACCTTAGCGCGT
128 TTGAAAATACCTCA--GCGT
*
88132772 GTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTAGAAACATAAATTAAAAAAAC
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-G--------------AAAA-
* *
88132837 AAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTT
50 AAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
88132901 GAAAAGCAGA
Statistics
Matches: 889, Mismatches: 68, Indels: 111
0.83 0.06 0.10
Matches are distributed among these distances:
143 82 0.09
144 70 0.08
145 55 0.06
146 231 0.26
147 124 0.14
148 14 0.02
149 102 0.11
150 5 0.01
151 15 0.02
155 1 0.00
156 17 0.02
157 3 0.00
158 31 0.03
160 4 0.00
161 39 0.04
162 84 0.09
163 11 0.01
164 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (145 bp):
GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAAAATTGAAAATACC
TCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACAGAAATTG
AAAATACCTCAGCGT
Found at i:88133028 original size:14 final size:14
Alignment explanation
Indices: 88133005--88133051 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
88132995 GATTTTTTTG
*
88133005 AAAAACAGAAATTT
1 AAAAATAGAAATTT
* *
88133019 AAAAGTAG-AATTG
1 AAAAATAGAAATTT
88133032 AAAAATAGAAA-TT
1 AAAAATAGAAATTT
88133045 AAAAATA
1 AAAAATA
88133052 CCTCGGCGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
13 19 0.70
14 8 0.30
ACGTcount: A:0.66, C:0.02, G:0.11, T:0.21
Consensus pattern (14 bp):
AAAAATAGAAATTT
Found at i:88133070 original size:102 final size:98
Alignment explanation
Indices: 88132831--88133194 Score: 408
Period size: 102 Copynumber: 3.7 Consensus size: 98
88132821 CATAAATTAA
* * * *
88132831 AAAAACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTC
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * *
88132896 GA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
66 GATTTTTGAAAAACAGAA-TT-TAAAG-TAGAATTG
88132930 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
88132995 GATTTTTTTGAAAAACAGAAATTTAAAAGTAGAATTG
66 GA--TTTTTGAAAAACAG-AATTT-AAAGTAGAATTG
* * * * * *
88133032 AAAAATAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTTTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
88133097 GATTTTTG--AAA-AGCA--TAAA-TTGAA---
66 GATTTTTGAAAAACAGAATTTAAAGTAGAATTG
* *
88133121 AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
88133186 TTGATTTTT
64 TTGATTTTT
88133195 TTTGAAAATA
Statistics
Matches: 233, Mismatches: 24, Indels: 24
0.83 0.09 0.09
Matches are distributed among these distances:
89 24 0.10
91 40 0.17
92 4 0.02
93 3 0.01
94 1 0.00
96 1 0.00
97 2 0.01
98 3 0.01
99 63 0.27
100 6 0.03
102 68 0.29
103 16 0.07
104 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (98 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAACAGAATTTAAAGTAGAATTG
Found at i:88135300 original size:14 final size:14
Alignment explanation
Indices: 88135281--88135309 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
88135271 AGATATCATG
88135281 AACCATGGCCGTCC
1 AACCATGGCCGTCC
88135295 AACCATGGCCGTCC
1 AACCATGGCCGTCC
88135309 A
1 A
88135310 TCTGGCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.41, G:0.21, T:0.14
Consensus pattern (14 bp):
AACCATGGCCGTCC
Found at i:88145027 original size:23 final size:23
Alignment explanation
Indices: 88144977--88145028 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
88144967 TATAAATAGT
88144977 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* * *
88145000 TATAGTGTTTGAGTATATAC-ATA
1 AATAGTGTTAGA-AATATACTATA
88145023 AATAGT
1 AATAGT
88145029 AGAAATATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.38
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:88145134 original size:45 final size:47
Alignment explanation
Indices: 88145085--88145183 Score: 114
Period size: 45 Copynumber: 2.1 Consensus size: 47
88145075 TATAAAATAG
* * * *
88145085 ATATAAAAAAAATATGTACATAATAT-A-GTGTA-AAAATACATATAT
1 ATATAAAAAAAATATATACATAAGATAACATGTAGAAAA-AAATATAT
**
88145130 ATATAAGTAAAATATATACATAAGATAACATGTAGAAAAAAATATAT
1 ATATAAAAAAAATATATACATAAGATAACATGTAGAAAAAAATATAT
88145177 ATATAAA
1 ATATAAA
88145184 TAATATAGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
45 22 0.50
46 1 0.02
47 17 0.39
48 4 0.09
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (47 bp):
ATATAAAAAAAATATATACATAAGATAACATGTAGAAAAAAATATAT
Found at i:88145135 original size:28 final size:28
Alignment explanation
Indices: 88145057--88145135 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 28
88145047 GTTAAGATAT
*
88145057 ATATAATATATACATATGTATA-AAATAG
1 ATATAA-AAATACATATGTATATAAATAG
* *
88145085 ATATAAAAA-AAATATGTACATAATATAG
1 ATATAAAAATACATATGTATATAA-ATAG
* *
88145113 -TGTAAAAATACATATATATATAA
1 ATATAAAAATACATATGTATATAA
88145136 GTAAAATATA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 9 0.22
27 11 0.27
28 21 0.51
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (28 bp):
ATATAAAAATACATATGTATATAAATAG
Found at i:88145222 original size:20 final size:20
Alignment explanation
Indices: 88145168--88145225 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
88145158 CATGTAGAAA
88145168 AAAATA-TAT-ATATA-AAT
1 AAAATAGTATAATATATAAT
*
88145185 AATATAGTATTAAGATATATAAT
1 AAAATAGTA-T-A-ATATATAAT
88145208 AAAATAGTATAATATATA
1 AAAATAGTATAATATATA
88145226 TACGTAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
17 5 0.15
18 2 0.06
19 1 0.03
20 7 0.21
21 1 0.03
22 6 0.18
23 11 0.33
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAATAGTATAATATATAAT
Found at i:88145303 original size:46 final size:46
Alignment explanation
Indices: 88145170--88145304 Score: 132
Period size: 48 Copynumber: 2.8 Consensus size: 46
88145160 TGTAGAAAAA
* *
88145170 AATATATATATAAATAATATAGTATTAAG-ATATATAATAAAATAGTAT
1 AATATATATAT-AATAATA-A-TATTAAGAATATATAATAAAATAGAAG
* * *
88145218 AATATATATACGTAATAATAAAATT-AGAATATACCTAATATATTA-AAG
1 AATATATATA--TAATAATAATATTAAGAATATA--TAATAAAATAGAAG
88145266 AATATATATATAATAATAATATTAAGAAATATATAATAA
1 AATATATATATAATAATAATATTAAG-AATATATAATAA
88145305 CAAAAAAAAG
Statistics
Matches: 73, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
46 19 0.26
47 10 0.14
48 28 0.38
49 15 0.21
50 1 0.01
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (46 bp):
AATATATATATAATAATAATATTAAGAATATATAATAAAATAGAAG
Found at i:88145315 original size:23 final size:23
Alignment explanation
Indices: 88145271--88145315 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
88145261 TAAAGAATAT
* * **
88145271 ATATATAATAATAATATTAAGAA
1 ATATATAATAACAAAAAAAAGAA
88145294 ATATATAATAACAAAAAAAAGA
1 ATATATAATAACAAAAAAAAGA
88145316 GGGAGAGAGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (23 bp):
ATATATAATAACAAAAAAAAGAA
Found at i:88150620 original size:101 final size:101
Alignment explanation
Indices: 88150445--88150639 Score: 266
Period size: 101 Copynumber: 1.9 Consensus size: 101
88150435 TGGATGTCAC
* * *
88150445 GACACCAATGCCTTTGCCATCAACCGAGGAGTTGGACTTCACCAAATTGCATATTTGAGTAGACT
1 GACACCAATGCCTTTGCCATCAACCAAGGAGTTGGACTTCACCAAATTGCATATCTAAGTAGACT
* **
88150510 AGCTCTGAAGTTGCCACACCAAGGTGTTGATGTCGT
66 AGATCTGAAGTCACCACACCAAGGTGTTGATGTCGT
* * *
88150546 GACACCAATGCCTTTGCCATCAATCAAGGAGTTGGACTTTACCAAATTGTATATCTAAGT-GAAC
1 GACACCAATGCCTTTGCCATCAACCAAGGAGTTGGACTTCACCAAATTGCATATCTAAGTAG-AC
* * *
88150610 TATATTTGAAGTCACCACACTAAGGTGTTG
65 TAGATCTGAAGTCACCACACCAAGGTGTTG
88150640 GTGCCGCGAC
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
100 1 0.01
101 80 0.99
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (101 bp):
GACACCAATGCCTTTGCCATCAACCAAGGAGTTGGACTTCACCAAATTGCATATCTAAGTAGACT
AGATCTGAAGTCACCACACCAAGGTGTTGATGTCGT
Found at i:88152207 original size:19 final size:19
Alignment explanation
Indices: 88152136--88152209 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 19
88152126 TGTCACCCTA
*
88152136 TATTTTGAAAT-TAAAAAAA
1 TATTTT-AAATATAAAAAAT
* *
88152155 TATGTTAAATGTAAAAAAT
1 TATTTTAAATATAAAAAAT
**
88152174 GTGATTTTTTA-ATAAAAAAT
1 -T-ATTTTAAATATAAAAAAT
88152194 TATTTTAAATATAAAA
1 TATTTTAAATATAAAA
88152210 TGTGAAATTG
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
18 10 0.23
19 19 0.44
20 9 0.21
21 5 0.12
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.41
Consensus pattern (19 bp):
TATTTTAAATATAAAAAAT
Found at i:88155102 original size:15 final size:15
Alignment explanation
Indices: 88155084--88155119 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
88155074 TTGATTTCTT
*
88155084 TTAATTGTTATTTAA
1 TTAATTGTAATTTAA
88155099 TTAATTGTAATTTAA
1 TTAATTGTAATTTAA
88155114 -TAATTG
1 TTAATTG
88155120 AAGTTTGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (15 bp):
TTAATTGTAATTTAA
Found at i:88155269 original size:13 final size:13
Alignment explanation
Indices: 88155251--88155282 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
88155241 ATAAATTTAT
88155251 TTAAATTAATTAA
1 TTAAATTAATTAA
*
88155264 TTAAATTAATTTA
1 TTAAATTAATTAA
88155277 TTAAAT
1 TTAAAT
88155283 AAATAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAAATTAATTAA
Found at i:88155331 original size:17 final size:18
Alignment explanation
Indices: 88155309--88155345 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
88155299 AATTGAAAAT
*
88155309 AATTATTAG-GTTGGATA
1 AATTATAAGTGTTGGATA
88155326 AATTATAAGTGTTGGATA
1 AATTATAAGTGTTGGATA
88155344 AA
1 AA
88155346 AATTTGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (18 bp):
AATTATAAGTGTTGGATA
Found at i:88172201 original size:14 final size:15
Alignment explanation
Indices: 88172182--88172211 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
88172172 TATTTTTATC
88172182 AAAATAA-TACAAAA
1 AAAATAATTACAAAA
88172196 AAAATAATTACAAAA
1 AAAATAATTACAAAA
88172211 A
1 A
88172212 TGAGATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATAATTACAAAA
Found at i:88172880 original size:24 final size:24
Alignment explanation
Indices: 88172853--88172903 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
88172843 AGATTTAATG
88172853 TTTAAGATTATAT-TATTATATATA
1 TTTAAGATTATATGT-TTATATATA
***
88172877 TTTATTTTTATATGTTTATATATA
1 TTTAAGATTATATGTTTATATATA
88172901 TTT
1 TTT
88172904 TTAATAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
TTTAAGATTATATGTTTATATATA
Found at i:88174378 original size:2 final size:2
Alignment explanation
Indices: 88174371--88174403 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
88174361 GATGGATGTT
88174371 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
88174404 CCACTTGGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:88177102 original size:50 final size:49
Alignment explanation
Indices: 88177038--88177136 Score: 162
Period size: 50 Copynumber: 2.0 Consensus size: 49
88177028 CAGCCACTGC
**
88177038 TAATCAACTACTCATGGAGGGAGTTAGAGATAAAGATAACAAATAGTAAG
1 TAATCAACTACTCATGGAGACAGTTAGAGAT-AAGATAACAAATAGTAAG
*
88177088 TAATGAACTACTCATGGAGACAGTTAGAGATAAGATAACAAATAGTAAG
1 TAATCAACTACTCATGGAGACAGTTAGAGATAAGATAACAAATAGTAAG
88177137 GAAGAGGATA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 18 0.39
50 28 0.61
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.22
Consensus pattern (49 bp):
TAATCAACTACTCATGGAGACAGTTAGAGATAAGATAACAAATAGTAAG
Found at i:88177442 original size:23 final size:23
Alignment explanation
Indices: 88177416--88177472 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
88177406 AATTATTGAT
88177416 TATTTTTATTTAAATATTTTAAA
1 TATTTTTATTTAAATATTTTAAA
* * *
88177439 TATTTTGATCATCAATATTTTAAA
1 TATTTTTAT-TTAAATATTTTAAA
88177463 -ATTTTCTATT
1 TATTTT-TATT
88177473 ATAGTTATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTTTTATTTAAATATTTTAAA
Found at i:88177733 original size:20 final size:20
Alignment explanation
Indices: 88177707--88177755 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
88177697 AAAGCTTTTT
*
88177707 TTATAAAAATACATA-AAAT
1 TTATAAAAATACATACAAAA
88177726 TCTATAAAAATACATACAAAA
1 T-TATAAAAATACATACAAAA
88177747 TTATAAAAA
1 TTATAAAAA
88177756 ATACTTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 22 0.81
21 4 0.15
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (20 bp):
TTATAAAAATACATACAAAA
Found at i:88177756 original size:22 final size:20
Alignment explanation
Indices: 88177711--88177756 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
88177701 CTTTTTTTAT
* *
88177711 AAAAATACATAAAATTCTAT
1 AAAAATACATAAAATTATAA
88177731 AAAAATACATACAAAATTATAA
1 AAAAATACAT--AAAATTATAA
88177753 AAAA
1 AAAA
88177757 TACTTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAATACATAAAATTATAA
Found at i:88183374 original size:17 final size:16
Alignment explanation
Indices: 88183352--88183383 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
88183342 TAGCCCTTCC
88183352 TTATTAATATTATTATG
1 TTATTAAT-TTATTATG
88183369 TTATTAATTTATTAT
1 TTATTAATTTATTAT
88183384 TTAGCATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTATTAATTTATTATG
Found at i:88195207 original size:44 final size:44
Alignment explanation
Indices: 88194965--88195251 Score: 163
Period size: 44 Copynumber: 6.6 Consensus size: 44
88194955 AAAGCCACAG
* * * * * ***
88194965 ATCTTATTTCCCTAAAGTTACAATGGAGTAGATTGAAGATAACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TTGTAA
* ** * * *
88195010 ATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATTAAAGCTATAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTGTAA
* ** * * * * *
88195054 ACCTTATCTTTCTAAAGTTGCAGTAGAGCAGGTTGAAATTATAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTGTAA
* * * * ** *
88195098 GTCTTATCTCCCTGAAGTCT-TAGTGGAGTAGACTGAAGACAGCAA
1 ATCTTATCTCCCTGAAGT-TGCAGTGGAGCAGATTGAAG-TTGTAA
*
88195143 ATCTCATCTCCCTGAA-----AGTGGAGCAGATTGAAGTTGTAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTGTAA
* * * * *
88195182 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTCGAAGATAGTGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TTGTAA
* *
88195227 ATCTTATTTCCCTGACGTTGCAGTG
1 ATCTTATCTCCCTGAAGTTGCAGTG
88195252 TAACAAATTA
Statistics
Matches: 183, Mismatches: 51, Indels: 16
0.73 0.20 0.06
Matches are distributed among these distances:
39 17 0.09
40 15 0.08
44 79 0.43
45 72 0.39
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTGTAA
Found at i:88195247 original size:45 final size:44
Alignment explanation
Indices: 88194965--88195251 Score: 142
Period size: 45 Copynumber: 6.6 Consensus size: 44
88194955 AAAGCCACAG
* * * * * * **
88194965 ATCTTATTTCCCTAAAGTTACAATGGAGTAGATTGAAGATAACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAG-TAGTAA
* ** **
88195010 ATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATTAAAGCTA-TAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAG-TAGTAA
* ** * * * * *
88195054 ACCTTATCTTTCTAAAGTTGCAGTAGAGCAGGTTGAAATTA-TAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCG-AAGTAGTAA
* * * * *
88195098 GTCTTATCTCCCTGAAGTCT-TAGTGGAGTAGA-CTGAAGACAGCAA
1 ATCTTATCTCCCTGAAGT-TGCAGTGGAGCAGATC-GAAG-TAGTAA
* * *
88195143 ATCTCATCTCCCTGAA-----AGTGGAGCAGATTGAAGTTGTAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGTAGTAA
* * *
88195182 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTCGAAGATAGTGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAG-TAGTAA
* *
88195227 ATCTTATTTCCCTGACGTTGCAGTG
1 ATCTTATCTCCCTGAAGTTGCAGTG
88195252 TAACAAATTA
Statistics
Matches: 183, Mismatches: 47, Indels: 24
0.72 0.19 0.09
Matches are distributed among these distances:
39 17 0.09
40 14 0.08
43 2 0.01
44 74 0.40
45 76 0.42
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGTAGTAA
Found at i:88195571 original size:45 final size:44
Alignment explanation
Indices: 88195488--88195586 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 44
88195478 ACAAGTTGCG
* *
88195488 AACCTTATCTCCCTGAAGTTGTAGTGGAACAGACTAAAGATAGCA
1 AACCTTATCTCCCTGAAGTTGCAGTAGAACAGACTAAAGATA-CA
* * * * *
88195533 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTACA
1 AACCTTATCTCCCTGAAGTTGCAGTAGAACAGACTAAAGATACA
88195577 AACCTTATCT
1 AACCTTATCT
88195587 TCTTAAAGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
44 11 0.24
45 35 0.76
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (44 bp):
AACCTTATCTCCCTGAAGTTGCAGTAGAACAGACTAAAGATACA
Found at i:88195607 original size:44 final size:44
Alignment explanation
Indices: 88195488--88195619 Score: 131
Period size: 44 Copynumber: 3.0 Consensus size: 44
88195478 ACAAGTTGCG
* * * * *
88195488 AACCTTATCTCCCTGAAGTTGTAGTGGAACAGACTAAAGATAGCA
1 AACCTTATCTTCTTGAAGTTGTAGTGGAGCAGATTAAAGCTA-CA
* * *
88195533 AATCTTATC-TCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTACA
1 AACCTTATCTTCT-TGAAGTTGTAGTGGAGCAGATTAAAGCTACA
* * * *
88195577 AACCTTATCTTCTTAAAGTTGTAATGGAGCATATTGAAGCTAC
1 AACCTTATCTTCTTGAAGTTGTAGTGGAGCAGATTAAAGCTAC
88195620 TTGAAGAGAA
Statistics
Matches: 70, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
44 35 0.50
45 35 0.50
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (44 bp):
AACCTTATCTTCTTGAAGTTGTAGTGGAGCAGATTAAAGCTACA
Found at i:88197125 original size:8 final size:7
Alignment explanation
Indices: 88197112--88197177 Score: 57
Period size: 8 Copynumber: 9.3 Consensus size: 7
88197102 CTTATTAATA
88197112 TTATTAT
1 TTATTAT
88197119 GTTATTAAT
1 -TTATT-AT
88197128 TTATTAT
1 TTATTAT
**
88197135 TTAGCAT
1 TTATTAT
88197142 TTATTTAT
1 TTA-TTAT
88197150 TTATTTAT
1 TTA-TTAT
88197158 TTATT-T
1 TTATTAT
88197164 TTATT-T
1 TTATTAT
88197170 TT-TTAT
1 TTATTAT
88197176 TT
1 TT
88197178 TTCACTACAA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
5 2 0.04
6 12 0.24
7 12 0.24
8 23 0.45
9 2 0.04
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (7 bp):
TTATTAT
Found at i:88197125 original size:17 final size:16
Alignment explanation
Indices: 88197103--88197134 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
88197093 TAGCCCTTCC
88197103 TTATTAATATTATTATG
1 TTATTAAT-TTATTATG
88197120 TTATTAATTTATTAT
1 TTATTAATTTATTAT
88197135 TTAGCATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTATTAATTTATTATG
Found at i:88197149 original size:4 final size:4
Alignment explanation
Indices: 88197140--88197177 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
88197130 ATTATTTAGC
*
88197140 ATTT ATTT ATTT ATTT ATTT A-TT -TTT ATTT TTTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
88197178 TTCACTACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 4 0.13
4 26 0.87
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (4 bp):
ATTT
Found at i:88197591 original size:40 final size:38
Alignment explanation
Indices: 88197493--88197897 Score: 323
Period size: 35 Copynumber: 10.9 Consensus size: 38
88197483 CTATAGTTCT
* **
88197493 TGTCTAAGGCAACTTT-TAAAAACTGTTGGGATAGATCC
1 TGTCTAAGGCAACTTTAAAAAAAAGGTTGGGATAGA-CC
* * *
88197531 -ATCTAAGGCAACCTT---AAAAAGGTTGGCATAGACC
1 TGTCTAAGGCAACTTTAAAAAAAAGGTTGGGATAGACC
*
88197565 TTGTCTAAGACAACTTATAAAAAAAAGGTTGGGATAGAGCC
1 -TGTCTAAGGCAACTT-TAAAAAAAAGGTTGGGATAGA-CC
*
88197606 -GTCTAAGGCAACCTT---AAAAAGGTTGGGATAGACC
1 TGTCTAAGGCAACTTTAAAAAAAAGGTTGGGATAGACC
*
88197640 TTGTCTAAGACAACTTATAAAAAAAAGGTTGGGATAGAGCC
1 -TGTCTAAGGCAACTT-TAAAAAAAAGGTTGGGATAGA-CC
*
88197681 -GTCTAAGGCAACCTT---AAAAAGGTTGGGATAGACC
1 TGTCTAAGGCAACTTTAAAAAAAAGGTTGGGATAGACC
*
88197715 TTGTCTAAGACAACTTATAAAAAAAAGGTTGGGATAGACC
1 -TGTCTAAGGCAACTT-TAAAAAAAAGGTTGGGATAGACC
* * *
88197755 TATCTAAGGCAACCTT---AAATAGGTTGGGATAGACC
1 TGTCTAAGGCAACTTTAAAAAAAAGGTTGGGATAGACC
* *
88197790 ATGTCTAAGGCAACCTTTAAAAAATA--TTGGAATAGACC
1 -TGTCTAAGGCAA-CTTTAAAAAAAAGGTTGGGATAGACC
** * * *
88197828 CATCTAAGGCAACATT---AAAATGGTTGGGATGGACC
1 TGTCTAAGGCAACTTTAAAAAAAAGGTTGGGATAGACC
* * * *
88197863 TTGTCTAATGAAACTTT-TAAAAAAGGTTGGCATAG
1 -TGTCTAAGGCAACTTTAAAAAAAAGGTTGGGATAG
88197898 GTCCATTTAA
Statistics
Matches: 298, Mismatches: 39, Indels: 60
0.75 0.10 0.15
Matches are distributed among these distances:
33 3 0.01
34 6 0.02
35 76 0.26
36 60 0.20
37 29 0.10
38 27 0.09
39 36 0.12
40 57 0.19
41 4 0.01
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (38 bp):
TGTCTAAGGCAACTTTAAAAAAAAGGTTGGGATAGACC
Found at i:88197624 original size:75 final size:74
Alignment explanation
Indices: 88197471--88198082 Score: 627
Period size: 75 Copynumber: 8.3 Consensus size: 74
88197461 TACGGTAACA
** ** * * ** *
88197471 TTAAAAAGGTTGCTATAGTTCTTGTCTAAGGCAACTTT-TAAAAACTGTTGGGATAGATCCATCT
1 TTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACTTTAAAAAAAAGGTTGGGATAGAGCCATCT
88197535 AAGGCAACC
66 AAGGCAACC
* *
88197544 TTAAAAAGGTTGGCATAGACCTTGTCTAAGACAACTTATAAAAAAAAGGTTGGGATAGAGCCGTC
1 TTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACTT-TAAAAAAAAGGTTGGGATAGAGCCATC
88197609 TAAGGCAACC
65 TAAGGCAACC
*
88197619 TTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACTTATAAAAAAAAGGTTGGGATAGAGCCGTC
1 TTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACTT-TAAAAAAAAGGTTGGGATAGAGCCATC
88197684 TAAGGCAACC
65 TAAGGCAACC
88197694 TTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACTTATAAAAAAAAGGTTGGGATAGA-CCTAT
1 TTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACTT-TAAAAAAAAGGTTGGGATAGAGCC-AT
88197758 CTAAGGCAACC
64 CTAAGGCAACC
* * * * * *
88197769 TTAAATAGGTTGGGATAGACCATGTCTAAGGCAACCTTTAAAAAATA--TTGGAATAGACCCATC
1 TTAAAAAGGTTGGGATAGACCTTGTCTAAGACAA-CTTTAAAAAAAAGGTTGGGATAGAGCCATC
*
88197832 TAAGGCAACA
65 TAAGGCAACC
* * * *
88197842 TTAAAATGGTTGGGATGGACCTTGTCTAATGA-AACTTT-TAAAAAAGGTTGGCATAG-GTCCAT
1 TTAAAAAGGTTGGGATAGACCTTGTCTAA-GACAACTTTAAAAAAAAGGTTGGGATAGAG-CCAT
* *
88197904 TTAAAGCAACC
64 CTAAGGCAACC
** * ** * * *
88197915 TTGGAAAGGTTGGGATAAATATTGTCTAATGA-AACCTTT--AAAAAAGGTTGCGATAAACCCAT
1 TTAAAAAGGTTGGGATAGACCTTGTCTAA-GACAA-CTTTAAAAAAAAGGTTGGGATAGAGCCAT
*
88197977 CTAAGGTAACC
64 CTAAGGCAACC
* * * * * * * * *
88197988 TTAAAAAGGTTGAGATAAATCTCGTCTAAGGCAACTTTTAGAAAAA-GTTGGTATTGA-CCTATC
1 TTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACTTTAAAAAAAAGGTTGGGATAGAGCC-ATC
* *
88198051 TAAGACAACG
65 TAAGGCAACC
**
88198061 TTAAAAATTTTGGGATAGACCT
1 TTAAAAAGGTTGGGATAGACCT
88198083 ATTTACAGCA
Statistics
Matches: 461, Mismatches: 63, Indels: 30
0.83 0.11 0.05
Matches are distributed among these distances:
71 5 0.01
72 11 0.02
73 213 0.46
74 15 0.03
75 214 0.46
76 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (74 bp):
TTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACTTTAAAAAAAAGGTTGGGATAGAGCCATCT
AAGGCAACC
Found at i:88197699 original size:150 final size:148
Alignment explanation
Indices: 88197471--88198082 Score: 652
Period size: 146 Copynumber: 4.1 Consensus size: 148
88197461 TACGGTAACA
** ** * * ** *
88197471 TTAAAAAGGTTGCTATAGTTCTTGTCTAAGGCAA-CTTTTAAAAACTGTTGGGATAGATCCATCT
1 TTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACCTTTAAAAAAAGGTTGGGATAGACCCATCT
*
88197535 AAGGCAACCTTAAAAAGGTTGGCATAGACCTTGTCTAAGACAACTTATAAAAAAAAGGTTGGGAT
66 AAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACTT-TAAAAAAAAGGTTGGGAT
*
88197600 AGAGCC-GTCTAAGGCAACC
130 AGA-CCTATCTAAGGCAACC
* *
88197619 TTAAAAAGGTTGGGATAGACCTTGTCTAAGACAA-CTTATAAAAAAAAGGTTGGGATAGAGCCGT
1 TTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACCTT-T-AAAAAAAGGTTGGGATAGACCCAT
88197683 CTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACTTATAAAAAAAAGGTTGGG
64 CTAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACTT-TAAAAAAAAGGTTGGG
88197748 ATAGACCTATCTAAGGCAACC
128 ATAGACCTATCTAAGGCAACC
* * * *
88197769 TTAAATAGGTTGGGATAGACCATGTCTAAGGCAACCTTTAAAAAATA--TTGGAATAGACCCATC
1 TTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACCTTTAAAAAA-AGGTTGGGATAGACCCATC
* * * * *
88197832 TAAGGCAACATTAAAATGGTTGGGATGGACCTTGTCTAATGA-AACTTT-TAAAAAAGGTTGGCA
65 TAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAA-GACAACTTTAAAAAAAAGGTTGGGA
* * *
88197895 TAGGTCC-ATTTAAAGCAACC
129 TA-GACCTATCTAAGGCAACC
** * ** * *
88197915 TTGGAAAGGTTGGGATAAATATTGTCTAATGA-AACCTTT-AAAAAAGGTTGCGATAAACCCATC
1 TTAAAAAGGTTGGGATAGACCTTGTCTAA-GACAACCTTTAAAAAAAGGTTGGGATAGACCCATC
* * * * * * * * *
88197978 TAAGGTAACCTTAAAAAGGTTGAGATAAATCTCGTCTAAGGCAACTTTTAGAAAAA-GTTGGTAT
65 TAAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACTTTAAAAAAAAGGTTGGGAT
* * *
88198042 TGACCTATCTAAGACAACG
130 AGACCTATCTAAGGCAACC
**
88198061 TTAAAAATTTTGGGATAGACCT
1 TTAAAAAGGTTGGGATAGACCT
88198083 ATTTACAGCA
Statistics
Matches: 389, Mismatches: 62, Indels: 28
0.81 0.13 0.06
Matches are distributed among these distances:
144 1 0.00
145 9 0.02
146 136 0.35
147 10 0.03
148 86 0.22
149 11 0.03
150 133 0.34
151 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (148 bp):
TTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACCTTTAAAAAAAGGTTGGGATAGACCCATCT
AAGGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACTTTAAAAAAAAGGTTGGGATA
GACCTATCTAAGGCAACC
Found at i:88197886 original size:73 final size:72
Alignment explanation
Indices: 88197471--88198082 Score: 567
Period size: 73 Copynumber: 8.3 Consensus size: 72
88197461 TACGGTAACA
** ** * *** *
88197471 TTAAAAAGGTTGCTATAGTTCTTGTCTAAGGCAACTTTTAAAAACTGTTGGGATAGATCCATCTA
1 TTAAAAAGGTTGGGATAGACCTTGTCTAA-GAAACTTTTAAAAAAAATTGGGATAGACCCATCTA
88197536 AGGCAACC
65 AGGCAACC
* * * *
88197544 TTAAAAAGGTTGGCATAGACCTTGTCTAAGACAACTTATAAAAAAAAGGTTGGGATAGAGCCGTC
1 TTAAAAAGGTTGGGATAGACCTTGTCTAAGA-AACTTTTAAAAAAAA--TTGGGATAGACCCATC
88197609 TAAGGCAACC
63 TAAGGCAACC
* * *
88197619 TTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACTTATAAAAAAAAGGTTGGGATAGAGCCGTC
1 TTAAAAAGGTTGGGATAGACCTTGTCTAAGA-AACTTTTAAAAAAAA--TTGGGATAGACCCATC
88197684 TAAGGCAACC
63 TAAGGCAACC
* *
88197694 TTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACTTATAAAAAAAAGGTTGGGATAGACCTATC
1 TTAAAAAGGTTGGGATAGACCTTGTCTAAGA-AACTTTTAAAAAAAA--TTGGGATAGACCCATC
88197759 TAAGGCAACC
63 TAAGGCAACC
* * * * * *
88197769 TTAAATAGGTTGGGATAGACCATGTCTAAGGCAACCTTTAAAAAATATTGGAATAGACCCATCTA
1 TTAAAAAGGTTGGGATAGACCTTGTCTAA-GAAACTTTTAAAAAAAATTGGGATAGACCCATCTA
*
88197834 AGGCAACA
65 AGGCAACC
* * ** * ** *
88197842 TTAAAATGGTTGGGATGGACCTTGTCTAATGAAACTTTTAAAAAAGGTTGGCATAGGTCCATTTA
1 TTAAAAAGGTTGGGATAGACCTTGTCTAA-GAAACTTTTAAAAAAAATTGGGATAGACCCATCTA
*
88197907 AAGCAACC
65 AGGCAACC
** * ** * ** * *
88197915 TTGGAAAGGTTGGGATAAATATTGTCTAATGAAACCTTTAAAAAAGGTTGCGATAAACCCATCTA
1 TTAAAAAGGTTGGGATAGACCTTGTCTAA-GAAACTTTTAAAAAAAATTGGGATAGACCCATCTA
*
88197980 AGGTAACC
65 AGGCAACC
* * * * * * * * * *
88197988 TTAAAAAGGTTGAGATAAATCTCGTCTAAGGCAACTTTTAGAAAAAGTTGGTATTGACCTATCTA
1 TTAAAAAGGTTGGGATAGACCTTGTCTAA-GAAACTTTTAAAAAAAATTGGGATAGACCCATCTA
* *
88198053 AGACAACG
65 AGGCAACC
**
88198061 TTAAAAATTTTGGGATAGACCT
1 TTAAAAAGGTTGGGATAGACCT
88198083 ATTTACAGCA
Statistics
Matches: 457, Mismatches: 78, Indels: 8
0.84 0.14 0.01
Matches are distributed among these distances:
72 1 0.00
73 246 0.54
75 209 0.46
76 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (72 bp):
TTAAAAAGGTTGGGATAGACCTTGTCTAAGAAACTTTTAAAAAAAATTGGGATAGACCCATCTAA
GGCAACC
Found at i:88198463 original size:75 final size:75
Alignment explanation
Indices: 88198344--88198483 Score: 203
Period size: 75 Copynumber: 1.9 Consensus size: 75
88198334 ACAAAATCCT
88198344 AATAGTCAACAAGTTGAGAACATGTTGCCAACATATTTCACATGATATCAAAAAATTATACAACA
1 AATAGTCAACAAGTTGAGAACATGTTGCCAACATATTTCACATGATATCAAAAAATTATACAACA
88198409 TCCTAATAGA
66 TCCTAATAGA
* ** * *
88198419 AATAGTCAACACGTTGCA-AACATGTTGTTAACTTGA-TTCCCATGATATCAAAAAATTATACAA
1 AATAGTCAACAAGTTG-AGAACATGTTGCCAACAT-ATTTCACATGATATCAAAAAATTATACAA
88198482 CA
64 CA
88198484 CATTTTGTCG
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
75 56 0.97
76 2 0.03
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.28
Consensus pattern (75 bp):
AATAGTCAACAAGTTGAGAACATGTTGCCAACATATTTCACATGATATCAAAAAATTATACAACA
TCCTAATAGA
Found at i:88201807 original size:18 final size:18
Alignment explanation
Indices: 88201784--88201826 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
88201774 ACTCATAATT
*
88201784 AGAGAAAGAACAAGTACC
1 AGAGAAAGAACAAATACC
*
88201802 AGAGAAAGAATAAATACC
1 AGAGAAAGAACAAATACC
88201820 AGCAGAA
1 AG-AGAA
88201827 GGTAATAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.58, C:0.14, G:0.21, T:0.07
Consensus pattern (18 bp):
AGAGAAAGAACAAATACC
Found at i:88211007 original size:19 final size:19
Alignment explanation
Indices: 88210982--88211094 Score: 151
Period size: 19 Copynumber: 5.9 Consensus size: 19
88210972 ATAATCTTCA
88210982 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
88211001 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
88211020 ATCATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
88211037 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
88211055 ATGATATGCAACCTTAGAAGAT
1 ATGATATGCAATCTT---AGAT
88211077 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
88211095 AGATATGATT
Statistics
Matches: 82, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
17 15 0.18
18 16 0.20
19 33 0.40
22 18 0.22
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:88211079 original size:22 final size:22
Alignment explanation
Indices: 88211051--88211103 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
88211041 TTGCAATCTT
88211051 AGATATGATATGCAACCTTAGA
1 AGATATGATATGCAACCTTAGA
*
88211073 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAACCTTAGA
88211095 AGATATGAT
1 AGATATGAT
88211104 TTTGTAATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (22 bp):
AGATATGATATGCAACCTTAGA
Found at i:88211116 original size:23 final size:22
Alignment explanation
Indices: 88210982--88211117 Score: 113
Period size: 19 Copynumber: 6.8 Consensus size: 22
88210972 ATAATCTTCA
88210982 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
88211001 GTGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
88211020 ATCATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
88211037 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
88211055 ATGATATGCAACCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
88211077 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
88211099 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
88211118 CATTTAATTT
Statistics
Matches: 102, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
17 15 0.15
18 16 0.16
19 30 0.29
22 29 0.28
23 12 0.12
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:88216286 original size:14 final size:13
Alignment explanation
Indices: 88216264--88216313 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 13
88216254 CTTCTATTTC
*
88216264 AAAAAAAAAGGAA
1 AAAAAAAAAAGAA
88216277 AAAAATAAAAAGAAA
1 AAAAA-AAAAAG-AA
88216292 AAAGAGAAAAAAGAA
1 AAA-A-AAAAAAGAA
88216307 AAAAAAA
1 AAAAAAA
88216314 TGGAGAGGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
13 8 0.25
14 6 0.19
15 10 0.31
16 7 0.22
17 1 0.03
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAGAA
Found at i:88216319 original size:21 final size:20
Alignment explanation
Indices: 88216264--88216319 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
88216254 CTTCTATTTC
*
88216264 AAAAAAAAAGGA-AAAAAATA
1 AAAAAAAAAGGAGAAAAAA-G
*
88216284 AAAAGAAAAAAGAGAAAAAAG
1 AAAA-AAAAAGGAGAAAAAAG
88216305 AAAAAAAAATGGAGA
1 AAAAAAAAA-GGAGA
88216320 GGCCAAGGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 9 0.30
21 15 0.50
22 6 0.20
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAGGAGAAAAAAG
Found at i:88217460 original size:44 final size:45
Alignment explanation
Indices: 88217412--88217838 Score: 295
Period size: 44 Copynumber: 9.7 Consensus size: 45
88217402 TGATTTAGTG
88217412 TCTCTGTATT-GGTAGAGAGCAGATCGAAGATGACTGATTTGGCA
1 TCTCTGTATTCGGTAGAGAGCAGATCGAAGATGACTGATTTGGCA
** *
88217456 TCTCTGTATTCGGCGGAGAGCAGATCGAAGACAT-AGCTGATTTGGCTT
1 TCTCTGTATTCGGTAGAGAGCAGATCGAAG--ATGA-CTGATTTGGC-A
* * * *
88217504 TCATATGT-TTAC-GTTGA-AGCAAATC-TA-A-GA-TGATTTGGCA
1 TC-TCTGTATT-CGGTAGAGAGCAGATCGAAGATGACTGATTTGGCA
* * * **
88217544 TCTCTGTATT-GGCAGAGAGCAGATCGAGGATAACAAATTTGGCA
1 TCTCTGTATTCGGTAGAGAGCAGATCGAAGATGACTGATTTGGCA
* *
88217588 TCTCTGTATT-GGCAGAGAGCAGATCAAAGATGA-TAGATTTGGCA
1 TCTCTGTATTCGGTAGAGAGCAGATCGAAGATGACT-GATTTGGCA
* * *
88217632 TCTCTGTATTCGGTGGAGAGCAGATCGAAGACATAACTGATTTGGCT
1 TCTCTGTATTCGGTAGAGAGCAGATCGAAG--ATGACTGATTTGGCA
* ** * *
88217679 TCCACGTGT-TTATGTTGA-AGCA-AGTC-TA-A-GA-TGATTTGGCA
1 T-CTC-TGTATTCGGTAGAGAGCAGA-TCGAAGATGACTGATTTGGCA
* * * * *
88217720 TCTCTATATT-GGCAGAGAGTAGATCGAAGAT-AGCAGATTTGACA
1 TCTCTGTATTCGGTAGAGAGCAGATCGAAGATGA-CTGATTTGGCA
* * * *
88217764 TCTTTGTATT-GGTAGAGAGCAGATCAAACATGACAGATTTGGCA
1 TCTCTGTATTCGGTAGAGAGCAGATCGAAGATGACTGATTTGGCA
*
88217808 TCTCTGTATTCGGTGGAGAGCAGATCGAAGA
1 TCTCTGTATTCGGTAGAGAGCAGATCGAAGA
88217839 CATAGCTGAT
Statistics
Matches: 295, Mismatches: 55, Indels: 65
0.71 0.13 0.16
Matches are distributed among these distances:
39 12 0.04
40 20 0.07
41 21 0.07
42 4 0.01
43 4 0.01
44 118 0.40
45 51 0.17
46 4 0.01
47 37 0.13
48 16 0.05
49 8 0.03
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (45 bp):
TCTCTGTATTCGGTAGAGAGCAGATCGAAGATGACTGATTTGGCA
Found at i:88217522 original size:132 final size:130
Alignment explanation
Indices: 88217267--88217617 Score: 472
Period size: 132 Copynumber: 2.7 Consensus size: 130
88217257 AAGCAGATCC
* * * * *
88217267 AAGATGATTTGGCGTCTTTGTATT-GTCAGGGAGCAAACCGAAGATACCAGATTTGGCGTCTCTG
1 AAGATGATTTGGCGTCTCTGTATTGGT-AGAGAGCAGATCGAAGATA-CAGATTTGGCATCTCTG
* *
88217331 TATTGGCAGG-GAGCAGATCGAAGACATAGTTGATTTGGCTTTCACATGTTTATGTTGAAGAAAA
64 TATTGGC-GGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACATGTTTACGTTGAAGAAAA
88217395 TCT
128 TCT
* * *
88217398 AAGATGATTTAGTGTCTCTGTATTGGTAGAGAGCAGATCGAAGATGACTGATTTGGCATCTCTGT
1 AAGATGATTTGGCGTCTCTGTATTGGTAGAGAGCAGATCGAAGAT-ACAGATTTGGCATCTCTGT
* *
88217463 ATTCGGCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCATATGTTTACGTTGAAGCAAAT
65 ATT-GGCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACATGTTTACGTTGAAGAAAAT
88217528 CT
129 CT
* * * *
88217530 AAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAGGATAACAAATTTGGCATCTCTGT
1 AAGATGATTTGGCGTCTCTGTATTGGTAGAGAGCAGATCGAAGAT-ACAGATTTGGCATCTCTGT
* *
88217595 ATTGGCAGAGAGCAGATCAAAGA
65 ATTGGCGGAGAGCAGATCGAAGA
88217618 TGATAGATTT
Statistics
Matches: 194, Mismatches: 22, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
131 75 0.39
132 119 0.61
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (130 bp):
AAGATGATTTGGCGTCTCTGTATTGGTAGAGAGCAGATCGAAGATACAGATTTGGCATCTCTGTA
TTGGCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACATGTTTACGTTGAAGAAAATCT
Found at i:88217607 original size:176 final size:175
Alignment explanation
Indices: 88217412--88218144 Score: 960
Period size: 176 Copynumber: 4.2 Consensus size: 175
88217402 TGATTTAGTG
* *
88217412 TCTCTGTATTGGTAGAGAGCAGATCGAAGATGACTGATTTGGCATCTCTGTATTCGGCGGAGAGC
1 TCTCTGTATTGGCAGAGAGCAGATCAAAGATGA-TGATTTGGCATCTCTGTATTCGGCGGAGAGC
**
88217477 AGATCGAAGACATAGCTGATTTGGCTTTCATATGTTTACGTTGAAGCAAATCTAAGATGATTTGG
65 AGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGG
* *
88217542 CATCTCTGTATTGGCAGAGAGCAGATCGAGGATAACAAATTTGGCA
130 CATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCA
*
88217588 TCTCTGTATTGGCAGAGAGCAGATCAAAGATGATAGATTTGGCATCTCTGTATTCGGTGGAGAGC
1 TCTCTGTATTGGCAGAGAGCAGATCAAAGATGAT-GATTTGGCATCTCTGTATTCGGCGGAGAGC
* * * *
88217653 AGATCGAAGACATAACTGATTTGGCTTCCACGTGTTTATGTTGAAGCAAGTCTAAGATGATTTGG
65 AGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGG
* * * *
88217718 CATCTCTATATTGGCAGAGAGTAGATCGAAGATAGCAGATTTGACA
130 CATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCA
* * * * *
88217764 TCTTTGTATTGGTAGAGAGCAGATCAAACATGACAGATTTGGCATCTCTGTATTCGGTGGAGAGC
1 TCTCTGTATTGGCAGAGAGCAGATCAAAGATGA-TGATTTGGCATCTCTGTATTCGGCGGAGAGC
88217829 AGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGG
65 AGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGG
* * * * *
88217894 CGTCTCTGTATTGGCAGGGAGCAGATC-AAGGACATAGCTGATTTGG-T
130 CATCTCTGTATTGGCAGAGAGCAGATCGAA-G--ATAACAGATTTGGCA
* * ** * * * *
88217941 TTTCATGTGTTTAC-GTTGAAGCAAATC-TA-A-GATGATTTGGCGTCTCTGTATT-GGCAGG-G
1 TCTC-TGTATTGGCAG-AG-AGCAGATCAAAGATGATGATTTGGCATCTCTGTATTCGGC-GGAG
88218000 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATT
62 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATT
* *
88218065 TGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAACAGATTTGGCA
127 TGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCA
** * *
88218114 TCTCCATATTCGACAGAGAGCAGATCGAAGA
1 TCTCTGTATT-GGCAGAGAGCAGATCAAAGA
88218145 CATAGCAGAT
Statistics
Matches: 487, Mismatches: 55, Indels: 32
0.85 0.10 0.06
Matches are distributed among these distances:
172 21 0.04
173 7 0.01
174 99 0.20
175 25 0.05
176 306 0.63
177 4 0.01
178 18 0.04
179 7 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (175 bp):
TCTCTGTATTGGCAGAGAGCAGATCAAAGATGATGATTTGGCATCTCTGTATTCGGCGGAGAGCA
GATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGC
ATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCA
Found at i:88217748 original size:87 final size:87
Alignment explanation
Indices: 88217446--88218099 Score: 709
Period size: 87 Copynumber: 7.5 Consensus size: 87
88217436 CGAAGATGAC
* **
88217446 TGATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCATATG
1 TGATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTG
88217511 TTTACGTTGAAGCAAATCTAAGA
65 TTTACGTTGAAGCAAATCTAAGA
* * ** * *
88217534 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCG-AG-GATAACAAATTTGGC-ATCTC-TGT
1 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
* ** * *
88217595 ATT-GGCAGAGAGCAGATCAAAGATGA
66 -TTACGTTGA-AGCAAATC-TA-A-GA
** * *
88217621 TAGATTTGGCATCTCTGTATTCGGTGGAGAGCAGATCGAAGACATAACTGATTTGGCTTCCACGT
1 T-GATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGT
* *
88217686 GTTTATGTTGAAGCAAGTCTAAGA
64 GTTTACGTTGAAGCAAATCTAAGA
* * * * * **
88217710 TGATTTGGCATCTCTATATTGGCAGAGAGTAGATCGAAG--ATAGCAGATTTGAC-ATC-TTTGT
1 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
* * * *
88217771 ATT-GGTAGAGAGCAGATCAAACATGA
66 -TTACGTTGA-AGCAAATC-TA-A-GA
* **
88217797 CAGATTTGGCATCTCTGTATTCGGTGGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGT
1 -TGATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGT
88217862 GTTTACGTTGAAGCAAATCTAAGA
64 GTTTACGTTGAAGCAAATCTAAGA
* * * *
88217886 TGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATC-AAGGACATAGCTGATTTGGTTTTCATGTG
1 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAA-GACATAGCTGATTTGGCTTTCACGTG
88217950 TTTACGTTGAAGCAAATCTAAGA
65 TTTACGTTGAAGCAAATCTAAGA
* *
88217973 TGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
1 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
88218038 TTACGTTGAAGCAAATCTAAGA
66 TTACGTTGAAGCAAATCTAAGA
* *
88218060 TGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGA
1 TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGA
88218100 TAACAGATTT
Statistics
Matches: 472, Mismatches: 68, Indels: 53
0.80 0.11 0.09
Matches are distributed among these distances:
83 13 0.03
84 20 0.04
85 24 0.05
86 6 0.01
87 215 0.46
88 95 0.20
89 35 0.07
90 4 0.01
91 26 0.06
92 21 0.04
93 13 0.03
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (87 bp):
TGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT
TTACGTTGAAGCAAATCTAAGA
Found at i:88218431 original size:78 final size:78
Alignment explanation
Indices: 88218302--88218596 Score: 448
Period size: 78 Copynumber: 3.8 Consensus size: 78
88218292 CGAAGAAACA
** * * ** * * *
88218302 GATTTGGCATCTCCATATTCGATGGAAAGCATATCGAAGACATAGCAGATCTGAACTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
88218367 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
88218380 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
88218445 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
88218458 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCT-GACCTTCATTGA
88218522 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * *
88218536 GATTTGACATCTCTGTATTAGACGAGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCAT
88218597 GTGTTTACAT
Statistics
Matches: 199, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
77 1 0.01
78 197 0.99
79 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:88218661 original size:45 final size:45
Alignment explanation
Indices: 88218536--88218809 Score: 223
Period size: 45 Copynumber: 6.1 Consensus size: 45
88218526 GATCCAAGAT
* * *
88218536 GATTTGACATCTCTGTATTAGACGAGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * * *
88218583 GATCTGACCT-TCATGTGTTTACATC--GAAGCAAATCTAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* * * * *
88218628 GATTTGGCATCTCTATATTAGACGGGGAGCAAATCGGATATAATA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * **
88218673 GATTTGACATCTCTGTATTAGACGGGAAGCAGATTGAAGA-AGTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
88218717 GATTTGGCGTCTTTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * *
88218762 AATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
88218807 GAT
1 GAT
88218810 ATTGCCTTCC
Statistics
Matches: 179, Mismatches: 41, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
43 1 0.01
44 42 0.23
45 105 0.59
46 4 0.02
47 22 0.12
48 4 0.02
49 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:88218737 original size:89 final size:89
Alignment explanation
Indices: 88218627--88218795 Score: 239
Period size: 89 Copynumber: 1.9 Consensus size: 89
88218617 CTAAGATGAC
* * * *
88218627 AGATTTGGCATCTCTATATTAGACGGGGAGCAAATCGGATATAATAGATTTGACATCTCTGTATT
1 AGATTTGGCATCTCTATATTAGACGGGGAGCAAATCGAAGATAACAAATTTGACATCTCTGTATT
88218692 AGACGGGAAGCAGATTGAAGAAGT
66 AGACGGGAAGCAGATTGAAGAAGT
* * * * * *
88218716 AGATTTGGCGTCTTTGTATTAGACGGGGAGCAGATCGAAGATAACAAATTTGGCGTCTCTGTATT
1 AGATTTGGCATCTCTATATTAGACGGGGAGCAAATCGAAGATAACAAATTTGACATCTCTGTATT
*
88218781 AGACGGGGAGCAGAT
66 AGACGGGAAGCAGAT
88218796 CAAAGATAGC
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (89 bp):
AGATTTGGCATCTCTATATTAGACGGGGAGCAAATCGAAGATAACAAATTTGACATCTCTGTATT
AGACGGGAAGCAGATTGAAGAAGT
Found at i:88219185 original size:19 final size:19
Alignment explanation
Indices: 88219160--88219232 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
88219150 ATAATCTTCA
88219160 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
88219179 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
88219198 ATCATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
88219215 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
88219233 AGATATGATT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
17 16 0.33
19 32 0.67
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:88219258 original size:22 final size:22
Alignment explanation
Indices: 88219160--88219258 Score: 60
Period size: 19 Copynumber: 5.0 Consensus size: 22
88219150 ATAATCTTCA
88219160 ATGATATGCAATC-T--TAGAT
1 ATGATATGCAATCTTAGTAGAT
*
88219179 GTGATATGCAATC-T--TAGAT
1 ATGATATGCAATCTTAGTAGAT
*
88219198 ATCATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGTAGAT
*
88219215 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGTAGAT
* *
88219237 ATGATTTTGTAATCTTA-TAGAT
1 ATGA-TATGCAATCTTAGTAGAT
88219259 TTAATTTGTA
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
17 14 0.21
18 1 0.02
19 29 0.44
22 12 0.18
23 10 0.15
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGTAGAT
Found at i:88222130 original size:21 final size:21
Alignment explanation
Indices: 88222105--88222152 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
88222095 ACCCTAACTG
*
88222105 AACCCCACAACC-TAAACCTTA
1 AACCCCA-AACCATAAACCCTA
* *
88222126 AACCCTAAACCATACACCCTA
1 AACCCCAAACCATAAACCCTA
88222147 AACCCC
1 AACCCC
88222153 TTATATATGC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.42, C:0.46, G:0.00, T:0.12
Consensus pattern (21 bp):
AACCCCAAACCATAAACCCTA
Found at i:88222132 original size:14 final size:14
Alignment explanation
Indices: 88222115--88222150 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
88222105 AACCCCACAA
*
88222115 CCTAAACCTTAAAC
1 CCTAAACCATAAAC
*
88222129 CCTAAACCATACAC
1 CCTAAACCATAAAC
88222143 CCTAAACC
1 CCTAAACC
88222151 CCTTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.17
Consensus pattern (14 bp):
CCTAAACCATAAAC
Found at i:88222658 original size:141 final size:141
Alignment explanation
Indices: 88222383--88223063 Score: 931
Period size: 141 Copynumber: 4.9 Consensus size: 141
88222373 AATATATATA
** * * * * *
88222383 TCGTCTTAGGACTGGAC-AAATCCAACTATTATTTAAGCGTTGACTTAGGCATACATATTCCAAC
1 TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
* * * *
88222447 CCTTATACAAAGAGTTGGCTAAAACATA-AGTTGGCAAGTCTATCCCAACATTTAAGAAAGTGTC
66 CCTTATACAAAGAGTTGCCTAAAGCATATA-TTGGCATGTCTATCCCAACACTTAAGAAAGTGTC
88222511 GCCACAATAGTG
130 GCCACAATAGTG
*
88222523 TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATTCCAAC
1 TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
* *
88222588 CCTTATACAAAGAGTTGCCTAAAGCATATATTGGCATGTATATCCCAACACTTAAGAAAGTGCCG
66 CCTTATACAAAGAGTTGCCTAAAGCATATATTGGCATGTCTATCCCAACACTTAAGAAAGTGTCG
88222653 CCACAATAGTG
131 CCACAATAGTG
*
88222664 TCATCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
1 TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
* *
88222729 CCTTATACAAAGAGTTGCCTAAAGCGTATATTGGCATGTCTATCCCAACACATAAGAAAGTGTCG
66 CCTTATACAAAGAGTTGCCTAAAGCATATATTGGCATGTCTATCCCAACACTTAAGAAAGTGTCG
*
88222794 CCAAAATAGTG
131 CCACAATAGTG
* *
88222805 TCGTCTTAGGACTACACAAAAACCAACTCTTATTCAAGCGTTGCTTTAGGCATACATATCCCAAC
1 TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
* * * * * *
88222870 CCTTATACAAAGAGTTGCCGAAAGCATATCTTGGCATGTCTATCGCAACATTTAAAAAAGCGTCG
66 CCTTATACAAAGAGTTGCCTAAAGCATATATTGGCATGTCTATCCCAACACTTAAGAAAGTGTCG
*
88222935 CCATAATAGTG
131 CCACAATAGTG
* * * * * * * *
88222946 TCGTCTTAGGGCTAGAC-AACGTCAACTCTTATTTAAGCGTTGCTTTAAGCATGCATATCCCAAC
1 TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
* * * * * * *
88223010 TCTTATACAAAAAATTGGC-GAAGCGTATGTTGGCCA-GTCTATCCCAACACTTAA
66 CCTTATACAAAGAGTTGCCTAAAGCATATATTGG-CATGTCTATCCCAACACTTAA
88223064 AAAAATGTTG
Statistics
Matches: 490, Mismatches: 48, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
139 27 0.06
140 73 0.15
141 389 0.79
142 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (141 bp):
TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
CCTTATACAAAGAGTTGCCTAAAGCATATATTGGCATGTCTATCCCAACACTTAAGAAAGTGTCG
CCACAATAGTG
Found at i:88222946 original size:423 final size:410
Alignment explanation
Indices: 88222270--88223063 Score: 991
Period size: 423 Copynumber: 1.9 Consensus size: 410
88222260 AGTGTTGGAT
* * **
88222270 AAAGCCGACTCTTATTTAAGTTTTGCCTTAAGCATACATATCCCAACCCTTATACAAAAAGTTGA
1 AAAGCCAACTCTTATTCAAGCGTTGCCTTAAGCATACATATCCCAACCCTTATACAAAAAGTTGA
* * * * **
88222335 CCAAAGCGTATGTCAGAAAGTCTATCCCAACACTTAGGAATATATATATCGTCTTAGGACTGGAC
66 CCAAAGCGTATATCAGAAAGTCTATCCCAACACTAAGAAATAAATATATCGTCTTAGGACTACAC
* * * *
88222400 AAATCCAACTATTATTTAAGCGTTGACTTAGGCATACATATTCCAACCCTTATACAAAGAGTTGG
131 AAAACCAACTATTATTCAAGCGTTGACTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGC
* * * *
88222465 CTAAAACATAAGTTGGCAAGTCTATCCCAACATTTAAGAAAGTGTCGCCACAATAGTGTCGTCTT
196 CGAAAACATAACTTGGCAAGTCTATCCCAACATTTAAAAAAGCGTCGCCACAATAGTGTCGTCTT
* *
88222530 AGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATTCCAACCCTTATA
261 AGGACTACAC-AAAGCCAACTCTTATTCAAGCGTTGCCTTAAGCATACATATCCCAACCCTTATA
* *
88222595 CAAAGAGTTGCCTAAAGCATATATTGG-CATGTATATCCCAACACTTAAGAAAGTGCCGCCACAA
325 CAAAAAATTGCC-AAAGCATATATTGGCCA-GTATATCCCAACACTTAAGAAAGTGCCGCCACAA
88222659 TAGTGTCATCTTAGGACTACACA
388 TAGTGTCATCTTAGGACTACACA
* *
88222682 AAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTG-
1 AAAGCCAACTCTTATTCAAGCGTTGCCTTAAGCATACATATCCCAACCCTTATACAAAAAGTTGA
** * * *
88222746 CCTAAAGCGTATATTGGCATGTCTATCCCAACACATAAGAAAGTGTCGCCAAAATAGTGTCGTCT
66 CC-AAAGCGTATATCAGAAAGTCTATCCCAACAC-TAAGAAA---T-----AAATA-TATCGTCT
*
88222811 TAGGACTACACAAAAACCAACTCTTATTCAAGCGTTG-CTTTAGGCATACATATCCCAACCCTTA
120 TAGGACTACAC-AAAACCAACTATTATTCAAGCGTTGAC-TTAGGCATACATATCCCAACCCTTA
* * * * *
88222875 TACAAAGAGTTGCCGAAAGCATATCTTGGCATGTCTATCGCAACATTTAAAAAAGCGTCGCCATA
183 TACAAAGAGTTGCCGAAAACATAACTTGGCAAGTCTATCCCAACATTTAAAAAAGCGTCGCCACA
* * * * * * *
88222940 ATAGTGTCGTCTTAGGGCTAGACAACGTCAACTCTTATTTAAGCGTTGCTTTAAGCATGCATATC
248 ATAGTGTCGTCTTAGGACTACACAAAGCCAACTCTTATTCAAGCGTTGCCTTAAGCATACATATC
* * * * * *
88223005 CCAACTCTTATACAAAAAATTGGCGAAGCGTATGTTGGCCAGTCTATCCCAACACTTAA
313 CCAACCCTTATACAAAAAATTGCCAAAGCATATATTGGCCAGTATATCCCAACACTTAA
88223064 AAAAATGTTG
Statistics
Matches: 320, Mismatches: 48, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
411 2 0.01
412 84 0.26
413 5 0.02
416 1 0.00
421 32 0.10
422 74 0.23
423 122 0.38
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (410 bp):
AAAGCCAACTCTTATTCAAGCGTTGCCTTAAGCATACATATCCCAACCCTTATACAAAAAGTTGA
CCAAAGCGTATATCAGAAAGTCTATCCCAACACTAAGAAATAAATATATCGTCTTAGGACTACAC
AAAACCAACTATTATTCAAGCGTTGACTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGC
CGAAAACATAACTTGGCAAGTCTATCCCAACATTTAAAAAAGCGTCGCCACAATAGTGTCGTCTT
AGGACTACACAAAGCCAACTCTTATTCAAGCGTTGCCTTAAGCATACATATCCCAACCCTTATAC
AAAAAATTGCCAAAGCATATATTGGCCAGTATATCCCAACACTTAAGAAAGTGCCGCCACAATAG
TGTCATCTTAGGACTACACA
Found at i:88223272 original size:3 final size:3
Alignment explanation
Indices: 88223264--88223311 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
88223254 CAAAGTTTAG
88223264 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
88223312 GTTGTTGTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:88226930 original size:29 final size:29
Alignment explanation
Indices: 88226898--88226955 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
88226888 ATAAAATACA
* *
88226898 TTAATAGTA-ATGTATTAGATTGAACATTT
1 TTAA-AGTATATGTATCACATTGAACATTT
*
88226927 TTAAAGTATATGTATCACATTGGACATTT
1 TTAAAGTATATGTATCACATTGAACATTT
88226956 AATGAAAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (29 bp):
TTAAAGTATATGTATCACATTGAACATTT
Found at i:88227060 original size:87 final size:92
Alignment explanation
Indices: 88226923--88227086 Score: 230
Period size: 87 Copynumber: 1.8 Consensus size: 92
88226913 TAGATTGAAC
* * *
88226923 ATTTTTAAAGTATATGTATCACATTGGACATTTAATGAAAGTACATGTACCATAAT-AAACACAT
1 ATTTTTAAAGTATATGTATCACATTGGACATTTAATAAAAGTACAAGTACCATAATAAAACACAC
88226987 ATTGATAGTTCAAGTATCACATTGAGT
66 ATTGATAGTTCAAGTATCACATTGAGT
* * *
88227014 ATTTTTAAAGTATA-G-AT-A-TTTGGACATTTTATAAAAGTACAAGTACCATAATAAAATACAC
1 ATTTTTAAAGTATATGTATCACATTGGACATTTAATAAAAGTACAAGTACCATAATAAAACACAC
*
88227075 ATTGTTAGTTCA
66 ATTGATAGTTCA
88227087 TATATTACAT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
87 30 0.46
88 18 0.28
89 2 0.03
90 1 0.02
91 14 0.22
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (92 bp):
ATTTTTAAAGTATATGTATCACATTGGACATTTAATAAAAGTACAAGTACCATAATAAAACACAC
ATTGATAGTTCAAGTATCACATTGAGT
Found at i:88232013 original size:29 final size:29
Alignment explanation
Indices: 88231936--88232016 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
88231926 GCAAAGGTTA
* *
88231936 TATGACA-TTTTGAAAAGACACTTATTGT
1 TATGACATTTTTAAAAAGACACTTAATGT
* * * *
88231964 TATGACCTATCTAAAATGACACTTAATGT
1 TATGACATTTTTAAAAAGACACTTAATGT
* *
88231993 TATGACATTTTTTAAACGACACTT
1 TATGACATTTTTAAAAAGACACTT
88232017 TATCACATTT
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
28 6 0.15
29 35 0.85
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (29 bp):
TATGACATTTTTAAAAAGACACTTAATGT
Found at i:88242814 original size:30 final size:30
Alignment explanation
Indices: 88242723--88242840 Score: 83
Period size: 30 Copynumber: 4.1 Consensus size: 30
88242713 TTAAGTTGTA
* *
88242723 TATTTTTATAAGAGTTAAAATATAATTTTAT
1 TATTTTTA-AAGAATTAAATTATAATTTTAT
*
88242754 TA-TTTTAATG-A-T---TTAT-ATTTTAT
1 TATTTTTAAAGAATTAAATTATAATTTTAT
*
88242777 AATTTTTTAAAGAATTAAATTATAATTTTAT
1 TA-TTTTTAAAGAATTAAATTATAATTTTAT
* *
88242808 TATTTTT--AGAAGTTGAAAGTAAAATTTTAT
1 TATTTTTAAAGAA-TT-AAATTATAATTTTAT
88242838 TAT
1 TAT
88242841 GTACAATTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 21
0.70 0.08 0.21
Matches are distributed among these distances:
23 8 0.12
24 3 0.04
25 7 0.10
26 1 0.01
27 2 0.03
28 4 0.06
29 4 0.06
30 30 0.43
31 10 0.14
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (30 bp):
TATTTTTAAAGAATTAAATTATAATTTTAT
Found at i:88253138 original size:16 final size:18
Alignment explanation
Indices: 88253108--88253143 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
88253098 TTTTCAACTT
88253108 AAATTAAACTGAAATTAA
1 AAATTAAACTGAAATTAA
88253126 AAATTAAA-T-AAATTAA
1 AAATTAAACTGAAATTAA
88253142 AA
1 AA
88253144 GAAACATGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 1 0.06
18 8 0.44
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (18 bp):
AAATTAAACTGAAATTAA
Found at i:88260797 original size:30 final size:31
Alignment explanation
Indices: 88260757--88260822 Score: 82
Period size: 34 Copynumber: 2.1 Consensus size: 31
88260747 TTTGACATTA
88260757 TTTTTTTAAGC-A-TTAAATTGAAAATGAAT
1 TTTTTTTAAGCAACTTAAATTGAAAATGAAT
*
88260786 TTTTTTATAAGCGAAGCTTGAATTGAAAATGAAT
1 TTTTTT-TAAGC-AA-CTTAAATTGAAAATGAAT
88260820 TTT
1 TTT
88260823 ATTAAGAGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
29 6 0.19
30 5 0.16
32 1 0.03
34 19 0.61
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.44
Consensus pattern (31 bp):
TTTTTTTAAGCAACTTAAATTGAAAATGAAT
Found at i:88260962 original size:22 final size:24
Alignment explanation
Indices: 88260919--88260962 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
88260909 TGATAATATG
88260919 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
*
88260943 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
88260963 TGAACAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:88261200 original size:21 final size:21
Alignment explanation
Indices: 88261174--88261213 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
88261164 AATGATTTAC
88261174 AAAAAGTATCAATACCTTTCT
1 AAAAAGTATCAATACCTTTCT
*
88261195 AAAAAGTATCGATACCTTT
1 AAAAAGTATCAATACCTTT
88261214 TACCAGGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (21 bp):
AAAAAGTATCAATACCTTTCT
Found at i:88264064 original size:46 final size:46
Alignment explanation
Indices: 88263997--88264118 Score: 226
Period size: 46 Copynumber: 2.7 Consensus size: 46
88263987 TCATTTATGT
88263997 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGA
*
88264043 GCTAGTGTAAGACATGTCTGGGACATGCAACGGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGA
*
88264089 GCTAGTATAAGACATGTCTGGGACATGCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCAT
88264119 TAGCCTCGCG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGA
Found at i:88266078 original size:15 final size:15
Alignment explanation
Indices: 88266058--88266090 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
88266048 CAGGAGAGAG
88266058 AAACCTCCGATAAAC
1 AAACCTCCGATAAAC
*
88266073 AAACCTCCGGTAAAC
1 AAACCTCCGATAAAC
88266088 AAA
1 AAA
88266091 ATTCGTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.30, G:0.09, T:0.12
Consensus pattern (15 bp):
AAACCTCCGATAAAC
Found at i:88271684 original size:46 final size:46
Alignment explanation
Indices: 88271609--88271871 Score: 147
Period size: 46 Copynumber: 5.6 Consensus size: 46
88271599 TCATTTGTGT
* * ** *
88271609 GCTAGTGCAAGACATGTTTTAGACATGCATCAACCACAATATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCACGATATGAGA
* *** * * *
88271655 GCCAGTGTAAGACATGTCTGGGACATGCAT-TGGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCA-CGATATGAGA
* * ** * * *
88271701 GCTAGTGTAAGACATGTCTAGGACATGCTTC-GGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCA-CGATATGAGA
* * * * *
88271747 GCTAGTGTAAGACATGTATGGGACATGCATTAGCCTCGCGATAT-ACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCA-AC-CACGATATGA-GA
* * * *
88271795 GCTAGTGTAAGACCTTTCTGGGACATGGCATCGA-CACTAATGGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAACCAC-GAT--ATGAGA
*
88271844 GCCAGTGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
88271872 GCGTCGGCAT
Statistics
Matches: 167, Mismatches: 38, Indels: 21
0.74 0.17 0.09
Matches are distributed among these distances:
45 2 0.01
46 102 0.61
47 3 0.02
48 27 0.16
49 20 0.12
50 13 0.08
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAACCACGATATGAGA
Found at i:88277485 original size:33 final size:32
Alignment explanation
Indices: 88277412--88277489 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 32
88277402 CAGTATTTAT
* * * **
88277412 ATGTAAGACCATAGCTGGGCTATGGCATTGTG
1 ATGTAAGACCATAACTGGGCTATAGCACTACG
*
88277444 ATGATAAGACCATAACTGGGTTATAGCACTACG
1 ATG-TAAGACCATAACTGGGCTATAGCACTACG
88277477 AATGTAAGACCAT
1 -ATGTAAGACCAT
88277490 GGCAGAGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 3 0.08
33 32 0.84
34 3 0.08
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (32 bp):
ATGTAAGACCATAACTGGGCTATAGCACTACG
Found at i:88281904 original size:27 final size:27
Alignment explanation
Indices: 88281874--88282051 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
88281864 ATATTGAGCC
* * *
88281874 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
88281901 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
88281928 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
88281956 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
88281983 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
88282010 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
88282037 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88282052 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:88281967 original size:55 final size:55
Alignment explanation
Indices: 88281874--88282051 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
88281864 ATATTGAGCC
* * *
88281874 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
88281928 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
88281983 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
88282037 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88282052 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:88282013 original size:82 final size:81
Alignment explanation
Indices: 88281895--88282050 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
88281885 TGCTATACAA
* * *
88281895 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
88281960 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
88281977 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
88282041 CACTTAGTGC
65 CACTTAGTGC
88282051 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:88284704 original size:20 final size:19
Alignment explanation
Indices: 88284670--88284710 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
88284660 AGAATAACAG
*
88284670 ATTAAAAAATTATATCTTA
1 ATTAAAAAATCATATCTTA
*
88284689 ATTAAAAAATCCATATTTTA
1 ATTAAAAAAT-CATATCTTA
88284709 AT
1 AT
88284711 CACTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTAAAAAATCATATCTTA
Found at i:88284771 original size:19 final size:19
Alignment explanation
Indices: 88284747--88284791 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
88284737 TTTTCTTTCC
88284747 TATTTTAAATAATTTTTAT
1 TATTTTAAATAATTTTTAT
*
88284766 TATTTTTAATAATTTTTAT
1 TATTTTAAATAATTTTTAT
88284785 TACTTTT
1 TA-TTTT
88284792 CATTCACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTTTAAATAATTTTTAT
Found at i:88286488 original size:20 final size:20
Alignment explanation
Indices: 88286433--88286474 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
88286423 CCATTATTTT
*
88286433 TTAATTAAA-AGAGAAATGAA
1 TTAATCAAATAGA-AAATGAA
88286453 TTAATCAAATAGAAAATGAA
1 TTAATCAAATAGAAAATGAA
88286473 TT
1 TT
88286475 GATAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.57, C:0.02, G:0.12, T:0.29
Consensus pattern (20 bp):
TTAATCAAATAGAAAATGAA
Found at i:88287409 original size:26 final size:27
Alignment explanation
Indices: 88287380--88287441 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 27
88287370 TATCGAAACT
88287380 TATAAAATA-TATAAAAAT-ATTTAAAA
1 TATAAAATATTA-AAAAATAATTTAAAA
88287406 TATAAAATATTAAAAAATAATTTAAAA
1 TATAAAATATTAAAAAATAATTTAAAA
88287433 TATTAAAAT
1 TA-TAAAAT
88287442 CCTATATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
26 15 0.45
27 12 0.36
28 6 0.18
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (27 bp):
TATAAAATATTAAAAAATAATTTAAAA
Found at i:88287410 original size:17 final size:16
Alignment explanation
Indices: 88287388--88287425 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
88287378 CTTATAAAAT
88287388 ATATAAAAATATTTAAA
1 ATATAAAAATA-TTAAA
88287405 ATAT-AAAATATTAAA
1 ATATAAAAATATTAAA
*
88287420 AAATAA
1 ATATAA
88287426 TTTAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 7 0.37
17 4 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATATAAAAATATTAAA
Found at i:88290405 original size:27 final size:27
Alignment explanation
Indices: 88290322--88290417 Score: 86
Period size: 27 Copynumber: 3.6 Consensus size: 27
88290312 GAGTATGAAA
* *
88290322 AACTCTGAACAAATAATACGTATGGAA
1 AACTCTGAAGAAATAATACGTATGGAG
* * * * *
88290349 AAATTTGAA-AGAATAGTACGTATAGTG
1 AACTCTGAAGA-AATAATACGTATGGAG
* *
88290376 AACTCTGAAGGAATAATACGTATGGCG
1 AACTCTGAAGAAATAATACGTATGGAG
*
88290403 AACTCTAAAGAAATA
1 AACTCTGAAGAAATA
88290418 GTTCCATAGA
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
26 1 0.02
27 52 0.98
ACGTcount: A:0.46, C:0.11, G:0.19, T:0.24
Consensus pattern (27 bp):
AACTCTGAAGAAATAATACGTATGGAG
Found at i:88291894 original size:15 final size:15
Alignment explanation
Indices: 88291874--88291908 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
88291864 TACGAAACCT
88291874 AGTACATACCATTCC
1 AGTACATACCATTCC
88291889 AGTACATACCATTCC
1 AGTACATACCATTCC
88291904 AGTAC
1 AGTAC
88291909 CTGACACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.31, G:0.09, T:0.26
Consensus pattern (15 bp):
AGTACATACCATTCC
Found at i:88293872 original size:64 final size:64
Alignment explanation
Indices: 88293802--88294029 Score: 201
Period size: 64 Copynumber: 3.6 Consensus size: 64
88293792 ATGTTATGCT
* * *
88293802 TATTTTGTAATCAGTGAATTACACGACCTGGACACACGTTC-GTGTCCTTAGCCCGTATAATCCG
1 TATTTTGTAATCAGTGAGTTACACGACCTGGACACAC-TCCTGTGTCCTTAGCCCGTATAATCCA
* * * * * *
88293866 TATTTTGTAATCAGTGAGTTACATGGCCTGCACACACTCCTGTGTCCTTGGCCCGTATGATCTA
1 TATTTTGTAATCAGTGAGTTACACGACCTGGACACACTCCTGTGTCCTTAGCCCGTATAATCCA
* * * * * * ** * *
88293930 TATTTTATAATCAATGAGTTACAC-AGCCTGGACA-AATGCCAGTGTCCTTGGTCTATGTGATCC
1 TATTTTGTAATCAGTGAGTTACACGA-CCTGGACACACT-CCTGTGTCCTTAGCCCGTATAATCC
*
88293993 T
64 A
* * *
88293994 TATTTTGTAATCAGTCAGTTACATGGCCTGGACACA
1 TATTTTGTAATCAGTGAGTTACACGACCTGGACACA
88294030 TGTCCGTGTG
Statistics
Matches: 132, Mismatches: 27, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
63 4 0.03
64 127 0.96
65 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (64 bp):
TATTTTGTAATCAGTGAGTTACACGACCTGGACACACTCCTGTGTCCTTAGCCCGTATAATCCA
Found at i:88296304 original size:6 final size:6
Alignment explanation
Indices: 88296290--88296322 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
88296280 AAGTTACACA
*
88296290 GTTAAG GTTAGG GTTAGG GTTAGG GTTAGG GTT
1 GTTAGG GTTAGG GTTAGG GTTAGG GTTAGG GTT
88296323 GAAAATGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.36
Consensus pattern (6 bp):
GTTAGG
Found at i:88299539 original size:11 final size:11
Alignment explanation
Indices: 88299471--88299539 Score: 54
Period size: 11 Copynumber: 6.3 Consensus size: 11
88299461 GATAAAAGAA
*
88299471 AAAGAAATAGG
1 AAAGAAAAAGG
*
88299482 AAAAAAAAAGG
1 AAAGAAAAAGG
88299493 AAAG--AAAGTG
1 AAAGAAAAAG-G
*
88299503 AAACGAAACA-G
1 AAA-GAAAAAGG
*
88299514 AAGGAAAAAGAG
1 AAAGAAAAAG-G
88299526 AAAGAAAAAGG
1 AAAGAAAAAGG
88299537 AAA
1 AAA
88299540 AAGTTAGGGT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
9 4 0.09
10 9 0.20
11 20 0.44
12 10 0.22
13 2 0.04
ACGTcount: A:0.70, C:0.03, G:0.25, T:0.03
Consensus pattern (11 bp):
AAAGAAAAAGG
Found at i:88300448 original size:41 final size:38
Alignment explanation
Indices: 88300404--88300535 Score: 122
Period size: 40 Copynumber: 3.4 Consensus size: 38
88300394 GACTTCAAGT
*
88300404 CGATGAGACACTGGGTGACAATTTACTACTTCGGATTAATT
1 CGATGAGACACTGGGTGACAA-TTA-TACTTCGGATT-ATC
* * * * *
88300445 CGATGAGGCACTGAGTGCCAATT-TACTTCGGTTTAGC
1 CGATGAGACACTGGGTGACAATTATACTTCGGATTATC
* * *
88300482 CGATGAGACATTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGAC-AATTA-TACTTCGGATTATC
*
88300522 CGATGAGGCACTGG
1 CGATGAGACACTGG
88300536 TGCCAAACTA
Statistics
Matches: 73, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 16 0.22
38 14 0.19
40 25 0.34
41 18 0.25
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (38 bp):
CGATGAGACACTGGGTGACAATTATACTTCGGATTATC
Found at i:88303630 original size:38 final size:38
Alignment explanation
Indices: 88303582--88303687 Score: 149
Period size: 38 Copynumber: 2.8 Consensus size: 38
88303572 CTAGGATTTG
*
88303582 TTGCAAATTCTCGGGTAACATAACGAGATCTAGCCTTA
1 TTGCAAATTCTCGAGTAACATAACGAGATCTAGCCTTA
* * * *
88303620 TTGCAGATTCTCGAGTAACCTAACAAGATCTAGCCTTG
1 TTGCAAATTCTCGAGTAACATAACGAGATCTAGCCTTA
* *
88303658 TTGCAAATTCTTGAGTAATATAACGAGATC
1 TTGCAAATTCTCGAGTAACATAACGAGATC
88303688 CAACCTTTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (38 bp):
TTGCAAATTCTCGAGTAACATAACGAGATCTAGCCTTA
Found at i:88305108 original size:20 final size:19
Alignment explanation
Indices: 88305079--88305116 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
88305069 ATGTTGAATC
88305079 AAATGAATAGAAATAGATAG
1 AAATGAATAGAAAT-GATAG
*
88305099 AAATGGATAGAAATGATA
1 AAATGAATAGAAATGATA
88305117 AAGTTAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (19 bp):
AAATGAATAGAAATGATAG
Found at i:88317909 original size:19 final size:20
Alignment explanation
Indices: 88317887--88317925 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
88317877 TTTACAAAAA
* *
88317887 AAATTCTATTTTAA-TCTTT
1 AAATTATATTCTAATTCTTT
88317906 AAATTATATTCTAATTCTTT
1 AAATTATATTCTAATTCTTT
88317926 TTTAAGAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (20 bp):
AAATTATATTCTAATTCTTT
Found at i:88318917 original size:11 final size:11
Alignment explanation
Indices: 88318901--88318925 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
88318891 TCAAATGTTT
88318901 AAAAATTTTAA
1 AAAAATTTTAA
88318912 AAAAATTTTAA
1 AAAAATTTTAA
88318923 AAA
1 AAA
88318926 TTCAAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAAATTTTAA
Found at i:88319052 original size:22 final size:24
Alignment explanation
Indices: 88319027--88319072 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
88319017 GATGTATTTA
88319027 CATA-TTTAAAT-CTCTTTTTATT
1 CATATTTTAAATACTCTTTTTATT
*
88319049 CATATTTTAAATACTTTTTTTATT
1 CATATTTTAAATACTCTTTTTATT
88319073 ATGATTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.19
23 7 0.33
24 10 0.48
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (24 bp):
CATATTTTAAATACTCTTTTTATT
Found at i:88320117 original size:4 final size:4
Alignment explanation
Indices: 88320110--88320210 Score: 51
Period size: 4 Copynumber: 25.2 Consensus size: 4
88320100 TTACCAACAT
* * * * * * *
88320110 TCTC TCTC CCTC CCTC TCCC TCTC CCTC TATG TCCC TCTC TCTC TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * * * * *
88320158 CCTC CCTC CCTC TAC-C TCTC CCTC TCTC ACTC TCTC TCCC CCTT TCTC
1 TCTC TCTC TCTC T-CTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
88320206 TCTC T
1 TCTC T
88320211 TTTTAAAAAT
Statistics
Matches: 71, Mismatches: 24, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
3 1 0.01
4 69 0.97
5 1 0.01
ACGTcount: A:0.03, C:0.57, G:0.01, T:0.39
Consensus pattern (4 bp):
TCTC
Found at i:88320130 original size:6 final size:6
Alignment explanation
Indices: 88320119--88320197 Score: 54
Period size: 6 Copynumber: 12.8 Consensus size: 6
88320109 TTCTCTCTCC
* *
88320119 CTCCCT CTCCCT CTCCCT CT--AT GTCCCT CTCTCTCT CTCCCT CCCTCCCT
1 CTCCCT CTCCCT CTCCCT CTCCCT CTCCCT CTC-C-CT CTCCCT --CTCCCT
* * * *
88320169 CTACCT CTCCCT CTCTCA CTCTCT CTCCC
1 CTCCCT CTCCCT CTCCCT CTCCCT CTCCC
88320198 CCTTTCTCTC
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
4 2 0.04
6 42 0.74
7 2 0.04
8 11 0.19
ACGTcount: A:0.04, C:0.59, G:0.01, T:0.35
Consensus pattern (6 bp):
CTCCCT
Found at i:88320134 original size:16 final size:16
Alignment explanation
Indices: 88320113--88320181 Score: 65
Period size: 16 Copynumber: 4.6 Consensus size: 16
88320103 CCAACATTCT
88320113 CTCTCCCTCCCTCTCC
1 CTCTCCCTCCCTCTCC
** *
88320129 CTCTCCCTCTATGTCC
1 CTCTCCCTCCCTCTCC
*
88320145 CTCT--CTCTCTCT-C
1 CTCTCCCTCCCTCTCC
*
88320158 C-CTCCCTCCCTCTAC
1 CTCTCCCTCCCTCTCC
88320173 CTCTCCCTC
1 CTCTCCCTC
88320182 TCTCACTCTC
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
12 2 0.05
13 2 0.05
14 13 0.30
15 2 0.05
16 24 0.56
ACGTcount: A:0.03, C:0.61, G:0.01, T:0.35
Consensus pattern (16 bp):
CTCTCCCTCCCTCTCC
Found at i:88320193 original size:44 final size:44
Alignment explanation
Indices: 88320110--88320195 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
88320100 TTACCAACAT
* * **
88320110 TCTCTCTCCCTCCCTCTCCCTCTCCCTCTATGTCCCTCTCTCTC
1 TCTCCCTCCCTCCCTCTACCTCTCCCTCTATCACCCTCTCTCTC
* *
88320154 TCTCCCTCCCTCCCTCTACCTCTCCCTCTCTCACTCTCTCTC
1 TCTCCCTCCCTCCCTCTACCTCTCCCTCTATCACCCTCTCTC
88320196 CCCCTTTCTC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.03, C:0.58, G:0.01, T:0.37
Consensus pattern (44 bp):
TCTCCCTCCCTCCCTCTACCTCTCCCTCTATCACCCTCTCTCTC
Found at i:88324110 original size:31 final size:31
Alignment explanation
Indices: 88324075--88324179 Score: 124
Period size: 31 Copynumber: 3.4 Consensus size: 31
88324065 TTATTCACAT
88324075 AATATTAAATTAATAAAATACTATCAAGATA
1 AATATTAAATTAATAAAATACTATCAAGATA
* ** * * *
88324106 AATATTAAATCACATTTAATA-TCTC-ACATT
1 AATATTAAATTA-ATAAAATACTATCAAGATA
88324136 AATATTAAATTAATAAAATACTATCAAGATA
1 AATATTAAATTAATAAAATACTATCAAGATA
*
88324167 AATATTTAATTAA
1 AATATTAAATTAA
88324180 ATTTAATGTT
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
29 6 0.10
30 17 0.29
31 29 0.50
32 6 0.10
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (31 bp):
AATATTAAATTAATAAAATACTATCAAGATA
Found at i:88324169 original size:61 final size:60
Alignment explanation
Indices: 88324069--88324186 Score: 200
Period size: 61 Copynumber: 1.9 Consensus size: 60
88324059 TTGAAATTAT
*
88324069 TCACATAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATCACATTTAATATC
1 TCACATAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATCAAATTTAATATC
* *
88324129 TCACATTAATATTAAATTAATAAAATACTATCAAGATAAATATTTAATTAAATTTAAT
1 TCACA-TAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATCAAATTTAAT
88324187 GTTAAATTTG
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
60 5 0.09
61 49 0.91
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.37
Consensus pattern (60 bp):
TCACATAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATCAAATTTAATATC
Found at i:88325626 original size:21 final size:22
Alignment explanation
Indices: 88325599--88325665 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 22
88325589 AATGGGTGAA
*
88325599 TATTTGGCACTTGTGTGCATTT
1 TATTTGGCACTTGTATGCATTT
88325621 TA-TTGGCGA-TTGTATGCATTT
1 TATTTGGC-ACTTGTATGCATTT
* * *
88325642 ATATTTGGAACTTTTTTGCATTT
1 -TATTTGGCACTTGTATGCATTT
88325665 T
1 T
88325666 TGAAGAGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 16 0.43
22 7 0.19
23 14 0.38
ACGTcount: A:0.18, C:0.10, G:0.19, T:0.52
Consensus pattern (22 bp):
TATTTGGCACTTGTATGCATTT
Found at i:88330313 original size:21 final size:21
Alignment explanation
Indices: 88330288--88330389 Score: 105
Period size: 21 Copynumber: 4.9 Consensus size: 21
88330278 AAAAACCCTA
*
88330288 TTATACCATATGCGAACCATG
1 TTATACTATATGCGAACCATG
* * * *
88330309 CTATATTATATGCGAAACTTG
1 TTATACTATATGCGAACCATG
* * * *
88330330 TTATACTATATGAGATCCTTA
1 TTATACTATATGCGAACCATG
88330351 TTATACTATATGCGAACCATG
1 TTATACTATATGCGAACCATG
* *
88330372 TTATACTATGTGCAAACC
1 TTATACTATATGCGAACC
88330390 CATGCTATTA
Statistics
Matches: 64, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (21 bp):
TTATACTATATGCGAACCATG
Found at i:88330461 original size:18 final size:18
Alignment explanation
Indices: 88330438--88330479 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
88330428 TACCATGTGT
88330438 AAACTATACTGTTATGCG
1 AAACTATACTGTTATGCG
* *
88330456 AAACTAT-GTTTTATGCG
1 AAACTATACTGTTATGCG
88330473 -AACTATA
1 AAACTATA
88330480 AATTACGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 6 0.29
17 8 0.38
18 7 0.33
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (18 bp):
AAACTATACTGTTATGCG
Done.