Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 56 of 126
Found at i:16448062 original size:58 final size:58
Alignment explanation
Indices: 16447923--16448067 Score: 204
Period size: 58 Copynumber: 2.5 Consensus size: 58
16447913 TTATTCATAT
* *
16447923 TTTAATAATAATTATATTAAAAATATTATTAAATTATATATATTTTTTATTAAATTGTA
1 TTTAATAATAATTATATT-AAAATATAATTAAATTATATATATTTTTTATTAAATTATA
* *
16447982 TTTAATAATAATTATGTTAAAATATAATTAAATTATTTAT-TATTTTTATTAAATTATA
1 TTTAATAATAATTATATTAAAATATAATTAAATTATATATAT-TTTTTATTAAATTATA
*
16448040 TTTAATAATAATCT-TATTAAAATTTAAT
1 TTTAATAATAAT-TATATTAAAATATAAT
16448068 AACAATAATC
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
57 1 0.01
58 59 0.76
59 18 0.23
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (58 bp):
TTTAATAATAATTATATTAAAATATAATTAAATTATATATATTTTTTATTAAATTATA
Found at i:16448270 original size:18 final size:17
Alignment explanation
Indices: 16448216--16448271 Score: 71
Period size: 16 Copynumber: 3.4 Consensus size: 17
16448206 TGAATTACTG
*
16448216 ATTACAATCCTA-TTCC
1 ATTACAACCCTATTTCC
16448232 ATTACAACCCTATTT-C
1 ATTACAACCCTATTTCC
*
16448248 ATTACAACTCTATTTTCC
1 ATTACAACCCTA-TTTCC
16448266 ATTACA
1 ATTACA
16448272 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 23 0.66
17 5 0.14
18 7 0.20
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTACAACCCTATTTCC
Found at i:16452322 original size:41 final size:41
Alignment explanation
Indices: 16452260--16452342 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
16452250 ACCAGAAGAC
*
16452260 TCGAGTGTGAGCCTTATGCGTCGTCACAAGGTTCTGCCTAT
1 TCGAGTGTGAGCCTTACGCGTCGTCACAAGGTTCTGCCTAT
*
16452301 TCGAGTGTGGGCCTTACGCGTCGTCACAAGGTTCTGCCTAT
1 TCGAGTGTGAGCCTTACGCGTCGTCACAAGGTTCTGCCTAT
16452342 T
1 T
16452343 TGTTTCACGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (41 bp):
TCGAGTGTGAGCCTTACGCGTCGTCACAAGGTTCTGCCTAT
Found at i:16455287 original size:43 final size:42
Alignment explanation
Indices: 16455190--16455296 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 42
16455180 GGATGACATC
* * * *
16455190 TTTTATTGATTGTGGTTGCTTTCATGTTGCTTCTTTTTTGTT
1 TTTTATTGGTTGTGGTTGCTTTCATGTCGCTTCTTTTTTATA
* * *
16455232 TTTTTTTTGTTGTGATTGCTTTC-TGGTCGCTTCCTTTTTTATA
1 TTTTATTGGTTGTGGTTGCTTTCAT-GTCGCTT-CTTTTTTATA
16455275 TTTTATTGGTTGTGGTT-CTTTC
1 TTTTATTGGTTGTGGTTGCTTTC
16455297 CACTTTTTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 1 0.02
42 30 0.57
43 22 0.42
ACGTcount: A:0.07, C:0.11, G:0.19, T:0.64
Consensus pattern (42 bp):
TTTTATTGGTTGTGGTTGCTTTCATGTCGCTTCTTTTTTATA
Found at i:16464845 original size:158 final size:158
Alignment explanation
Indices: 16464554--16464845 Score: 381
Period size: 158 Copynumber: 1.8 Consensus size: 158
16464544 ATGAAATGGG
* * * *
16464554 TCTGCTCACACGAGCTGTGGGTCGAGATGTTAAGCTACACGATACTGCTCACAGTAGCTGTGGAG
1 TCTGCTCACACGACCTGTGGGTCAAGATGTTAAGCTACACGATACTGCTCACAGTAGCTATGAAG
* ** *
16464619 GATCCACAACATATGCCGGATTTCAACCATCGGTAGGTTATCTAAGACCAGCACCCATATATCAT
66 AATCCACAACATATGCCGGATTTCAACCATCGGTAGGAAATCTAAGACCAGCACCCATATAACAT
16464684 GTAATACTCACACGAGCTGTAAAGTCGA
131 GTAATACTCACACGAGCTGTAAAGTCGA
* * * *
16464712 TCTGCTGACACGACCTGTGGGTCAAGATGTTAGGTTACACGATGCTGCTCACACG-AGCTATGAA
1 TCTGCTCACACGACCTGTGGGTCAAGATGTTAAGCTACACGATACTGCTCACA-GTAGCTATGAA
** * ** *
16464776 GAATCCGTAACATATGTCGGATCTT-AGTCATCGGTAGGAAATCTAAGACCAGCACTCATATAAC
65 GAATCCACAACATATGCCGGAT-TTCAACCATCGGTAGGAAATCTAAGACCAGCACCCATATAAC
*
16464840 TTGTAA
129 ATGTAA
16464846 ATCTCGAAAT
Statistics
Matches: 113, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
158 110 0.97
159 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.25
Consensus pattern (158 bp):
TCTGCTCACACGACCTGTGGGTCAAGATGTTAAGCTACACGATACTGCTCACAGTAGCTATGAAG
AATCCACAACATATGCCGGATTTCAACCATCGGTAGGAAATCTAAGACCAGCACCCATATAACAT
GTAATACTCACACGAGCTGTAAAGTCGA
Found at i:16473396 original size:20 final size:20
Alignment explanation
Indices: 16473373--16473440 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
16473363 TATAAAATAA
16473373 ATAAAAAATATATTATATGT
1 ATAAAAAATATATTATATGT
* **
16473393 ATAAAAACAT-TAATACCT-T
1 ATAAAAA-ATATATTATATGT
16473412 CATAGAAAAATATATTATATGT
1 -ATA-AAAAATATATTATATGT
16473434 ATAAAAA
1 ATAAAAA
16473441 CATTGATATT
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
19 1 0.03
20 21 0.57
21 14 0.38
22 1 0.03
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (20 bp):
ATAAAAAATATATTATATGT
Found at i:16474392 original size:93 final size:91
Alignment explanation
Indices: 16474278--16474592 Score: 258
Period size: 93 Copynumber: 3.4 Consensus size: 91
16474268 GATCTGGTAC
* * * * *
16474278 TTCACTCTATTCCATTATAACCTTAGGGACATTGAGATCTACCACCTGTTTTGACCCACTTCACT
1 TTCACTCCACTCCACTATAACCTCAGGGACATTGAGATCT-CCACCTGTTTTAACCCACTTCACT
*
16474343 GTAATCTTAAGAAGATAGGCTTTGAAGT
65 GTAA-CTTAAGAAGATAGGATTTGAAGT
* * * * * * * * *
16474371 TTCACTCCACTCTACTGTAACCTCAAGGACGTTGAGATCTGCCTCATTATTTTAATCCGAC-CCA
1 TTCACTCCACTCCACTATAACCTCAGGGACATTGAGATCT-CCAC-CTGTTTTAA-CCCACTTCA
** * ** * *
16474435 CTACAAC-TCAGGGGTATAGGATTTGATGC
63 CTGTAACTTAAGAAG-ATAGGATTTGAAGT
* * * *
16474464 TTCACTTCACTCCACTATAACCTCAGGGACATTGAGAT-TCGTTACCTGTTCTAATCCACTTCAC
1 TTCACTCCACTCCACTATAACCTCAGGGACATTGAGATCTC--CACCTGTTTTAACCCACTTCAC
* *
16474528 TGTAACCTCAAGAAGATAGGGTTTGAAGT
64 TGTAA-CTTAAGAAGATAGGATTTGAAGT
* *
16474557 TTCACTCCACTCCACTATAACCTCAGGAACGTTGAG
1 TTCACTCCACTCCACTATAACCTCAGGGACATTGAG
16474593 CTCTGCTTCA
Statistics
Matches: 166, Mismatches: 48, Indels: 16
0.72 0.21 0.07
Matches are distributed among these distances:
91 4 0.02
92 17 0.10
93 126 0.76
94 15 0.09
95 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (91 bp):
TTCACTCCACTCCACTATAACCTCAGGGACATTGAGATCTCCACCTGTTTTAACCCACTTCACTG
TAACTTAAGAAGATAGGATTTGAAGT
Found at i:16474513 original size:186 final size:186
Alignment explanation
Indices: 16474232--16474825 Score: 606
Period size: 186 Copynumber: 3.2 Consensus size: 186
16474222 GATTCGTTAC
* * * * * *
16474232 ATTTTTATCCGATCCACTACAACTTCAAGGATATAGGATCTGGTACTTCACTCTATTCCATTATA
1 ATTTTAATCCGACCCACTACAAC-TCAAGGGTATAGGATTTGATACTTCACTCTATTCCACTATA
* * *
16474297 ACCTTAGGGACATTGAGA-TC-TACCACCTGTTTTGACCCACTTCACTGTAATCTTAAGAAGATA
65 ACCTCAGGGACATTGAGATTCGT--TACCTGTTTTGACCCACTTCACTGTAATCTCAAGAAGATA
*
16474360 GGCTTTGAAGTTTCACTCCACTCTACTGTAACCTCAAGGACGTTGAGATCTGCCTCATT
128 GGATTTGAAGTTTCACTCCACTCTACTGTAACCTCAAGGACGTTGAGATCTGCCTCATT
* * *
16474419 ATTTTAATCCGACCCACTACAACTCAGGGGTATAGGATTTGATGCTTCACT-TCACTCCACTATA
1 ATTTTAATCCGACCCACTACAACTCAAGGGTATAGGATTTGATACTTCACTCT-ATTCCACTATA
* * * *
16474483 ACCTCAGGGACATTGAGATTCGTTACCTGTTCTAATCCACTTCACTGTAACCTCAAGAAGATAGG
65 ACCTCAGGGACATTGAGATTCGTTACCTGTTTTGACCCACTTCACTGTAATCTCAAGAAGATAGG
* * * * *
16474548 GTTTGAAGTTTCACTCCACTCCACTATAACCTC-AGGAACGTTGAGCTCTGCTTCATT
130 ATTTGAAGTTTCACTCCACTCTACTGTAACCTCAAGG-ACGTTGAGATCTGCCTCATT
* * *
16474605 ATTTTAATCTGACCCAC-AGCAACTCAAGGGTAT----TGT-A-ACTTCTCTCTATTCCACTATA
1 ATTTTAATCCGACCCACTA-CAACTCAAGGGTATAGGATTTGATACTTCACTCTATTCCACTATA
* * * ** * * * * *
16474663 ACCTCAGGGACATTGAGATCCGTTA-CTCATCTTGATCTGA-TCCACTGTAAAT-TGAGGGATAT
65 ACCTCAGGGACATTGAGATTCGTTACCT-GTTTTGA-CCCACTTCACTGT-AATCTCAAGAAGAT
* ** * *
16474725 AGGATCTGGTGCTTCACTCCACTCTACTGTAACCTCAGGGACGTTGAGATCTGCCTCATT
127 AGGATTTGAAGTTTCACTCCACTCTACTGTAACCTCAAGGACGTTGAGATCTGCCTCATT
* * *
16474785 ATTGTAATCC-AGCCCACTACAACTCAAAGGTATAAGATTTG
1 ATTTTAATCCGA-CCCACTACAACTCAAGGGTATAGGATTTG
16474826 GTGCTTCTTG
Statistics
Matches: 335, Mismatches: 55, Indels: 36
0.79 0.13 0.08
Matches are distributed among these distances:
179 3 0.01
180 129 0.39
181 8 0.02
182 2 0.01
184 2 0.01
185 5 0.01
186 162 0.48
187 23 0.07
188 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (186 bp):
ATTTTAATCCGACCCACTACAACTCAAGGGTATAGGATTTGATACTTCACTCTATTCCACTATAA
CCTCAGGGACATTGAGATTCGTTACCTGTTTTGACCCACTTCACTGTAATCTCAAGAAGATAGGA
TTTGAAGTTTCACTCCACTCTACTGTAACCTCAAGGACGTTGAGATCTGCCTCATT
Found at i:16474760 original size:180 final size:182
Alignment explanation
Indices: 16474333--16474818 Score: 502
Period size: 180 Copynumber: 2.7 Consensus size: 182
16474323 CTGTTTTGAC
* * * * * *
16474333 CCACTTCACTGTAATCTTAAGAAGATAGGCTTTGAAGTTTCACTCCACTCTACTGTAACCTCAAG
1 CCACTCCACTGTAAACTCAAGAAGATAGGATCTGAAGCTTCACTCCACTCTACTGTAACCTC-AG
* * *
16474398 GACGTTGAGATCTGCCTCATTATTTTAATCCGACCCACTACAACTCAGGGGTATAGGATTTGATG
65 GACGTTGAGATCTGCCTCATTATTTTAATCCGACCCACTACAACTCAAGGGTAT---ATGTGATA
* **
16474463 CTTCACTTCACTCCACTATAACCTCAGGGACATTGAGATTCGTTACCTGTTCTAAT
127 CTTCACTTCACTCCACTATAACCTCAGGGACATTGAGATCCGTTACCTCATCTAAT
* * * * * * *
16474519 CCACTTCACTGTAACCTCAAGAAGATAGGGTTTGAAGTTTCACTCCACTCCACTATAACCTCAGG
1 CCACTCCACTGTAAACTCAAGAAGATAGGATCTGAAGCTTCACTCCACTCTACTGTAACCTCAGG
* * *
16474584 AACGTTGAGCTCTGCTTCATTATTTTAATCTGACCCAC-AGCAACTCAAGGGTAT-TGT-A-ACT
66 -ACGTTGAGATCTGCCTCATTATTTTAATCCGACCCACTA-CAACTCAAGGGTATATGTGATACT
* * *
16474645 TCTC-TCTATTCCACTATAACCTCAGGGACATTGAGATCCGTTA-CTCATCTTGAT
129 TCACTTC-ACTCCACTATAACCTCAGGGACATTGAGATCCGTTACCTCATC-TAAT
* * * * * * **
16474699 CTGA-TCCACTGTAAATTGAGGGATATAGGATCTGGTGCTTCACTCCACTCTACTGTAACCTCAG
1 C-CACTCCACTGTAAACTCAAGAAGATAGGATCTGAAGCTTCACTCCACTCTACTGTAACCTCA-
* *
16474763 GGACGTTGAGATCTGCCTCATTATTGTAATCC-AGCCCACTACAACTCAAAGGTATA
64 GGACGTTGAGATCTGCCTCATTATTTTAATCCGA-CCCACTACAACTCAAGGGTATA
16474819 AGATTTGGTG
Statistics
Matches: 254, Mismatches: 37, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
179 7 0.03
180 132 0.52
181 5 0.02
182 2 0.01
185 4 0.02
186 104 0.41
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (182 bp):
CCACTCCACTGTAAACTCAAGAAGATAGGATCTGAAGCTTCACTCCACTCTACTGTAACCTCAGG
ACGTTGAGATCTGCCTCATTATTTTAATCCGACCCACTACAACTCAAGGGTATATGTGATACTTC
ACTTCACTCCACTATAACCTCAGGGACATTGAGATCCGTTACCTCATCTAAT
Found at i:16474828 original size:93 final size:94
Alignment explanation
Indices: 16474371--16474832 Score: 271
Period size: 93 Copynumber: 5.0 Consensus size: 94
16474361 GCTTTGAAGT
* * * *
16474371 TTCACTCCACTCTACTGTAACCTCAAGGACGTTGAGATCTGCCTCATTATTTTAATCC-GACCCA
1 TTCACTCCACTCCACTATAACCTCAGGGACGTTGAGATCTGCCTCATTATTGTAATCCAGACCCA
** *
16474435 CTACAACTCAGGGGTATAGGATTTGATGC
66 CTACAACTCAAAGGTATAGGATTTGGTGC
* * * * * * * *
16474464 TTCACTTCACTCCACTATAACCTCAGGGACATTGAGAT-T-CGTTACCTGTTCTAATCC--ACTT
1 TTCACTCCACTCCACTATAACCTCAGGGACGTTGAGATCTGCCTCA-TTATTGTAATCCAGAC-C
** * * ** *
16474525 CACTGTAACCTCAAGAAG-ATAGGGTTTGAAGT
64 CACTACAA-CTCAA-AGGTATAGGATTTGGTGC
* * * * *
16474557 TTCACTCCACTCCACTATAACCTCAGGAACGTTGAGCTCTGCTTCATTATTTTAAT-CTGACCCA
1 TTCACTCCACTCCACTATAACCTCAGGGACGTTGAGATCTGCCTCATTATTGTAATCCAGACCCA
* *
16474621 C-AGCAACTC-AAGG----GTA-TT-GTAAC
66 CTA-CAACTCAAAGGTATAGGATTTGGT-GC
* * * * ** * * *
16474644 TTCTCTCTATTCCACTATAACCTCAGGGACATTGAGATCCGTTACTCA-TCTTG--AT-CTGATC
1 TTCACTCCACTCCACTATAACCTCAGGGACGTTGAGAT-C-TGCCTCATTATTGTAATCCAGACC
** * ** * *
16474705 CACTGTAAATTGAGGGATATAGGATCTGGTGC
64 CACTACAACTCAAAGG-TATAGGATTTGGTGC
* *
16474737 TTCACTCCACTCTACTGTAACCTCAGGGACGTTGAGATCTGCCTCATTATTGTAATCCAG-CCCA
1 TTCACTCCACTCCACTATAACCTCAGGGACGTTGAGATCTGCCTCATTATTGTAATCCAGACCCA
*
16474801 CTACAACTCAAAGGTATAAGATTTGGTGC
66 CTACAACTCAAAGGTATAGGATTTGGTGC
16474830 TTC
1 TTC
16474833 TTGGTCCATT
Statistics
Matches: 267, Mismatches: 77, Indels: 50
0.68 0.20 0.13
Matches are distributed among these distances:
86 13 0.05
87 37 0.14
88 5 0.02
89 4 0.01
91 12 0.04
92 24 0.09
93 136 0.51
94 29 0.11
95 7 0.03
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (94 bp):
TTCACTCCACTCCACTATAACCTCAGGGACGTTGAGATCTGCCTCATTATTGTAATCCAGACCCA
CTACAACTCAAAGGTATAGGATTTGGTGC
Found at i:16487840 original size:38 final size:39
Alignment explanation
Indices: 16487795--16487959 Score: 212
Period size: 39 Copynumber: 4.2 Consensus size: 39
16487785 TTGTATAAAT
*
16487795 GGAAGACTCA-TCTTGAGATGAGAATGAGATTATGATAA
1 GGAAGACTCAGTCTCGAGATGAGAATGAGATTATGATAA
*
16487833 GGAAGACTCATATCTCGAGATGAGAATGAGATTATGATAA
1 GGAAGACTCA-GTCTCGAGATGAGAATGAGATTATGATAA
*
16487873 GG-AGACTCATGTCTTGAGATGAGAATGAGATTATGATAA
1 GGAAGACTCA-GTCTCGAGATGAGAATGAGATTATGATAA
* *
16487912 GG-A-ACTCATGTCTCGAGATGAGAATGAGAATATGGTTAAA
1 GGAAGACTCA-GTCTCGAGATGAGAATGAGATTAT-GAT-AA
16487952 GGAAGACT
1 GGAAGACT
16487960 TATGACTCGA
Statistics
Matches: 115, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
38 38 0.33
39 40 0.35
40 33 0.29
41 1 0.01
42 3 0.03
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.25
Consensus pattern (39 bp):
GGAAGACTCAGTCTCGAGATGAGAATGAGATTATGATAA
Found at i:16487892 original size:39 final size:39
Alignment explanation
Indices: 16487809--16487945 Score: 231
Period size: 39 Copynumber: 3.5 Consensus size: 39
16487799 GACTCATCTT
*
16487809 GAGATGAGAATGAGATTATGATAAGGAAGACTCATATCTC
1 GAGATGAGAATGAGATTATGATAAGG-AGACTCATGTCTC
*
16487849 GAGATGAGAATGAGATTATGATAAGGAGACTCATGTCTT
1 GAGATGAGAATGAGATTATGATAAGGAGACTCATGTCTC
16487888 GAGATGAGAATGAGATTATGATAAGGA-ACTCATGTCTC
1 GAGATGAGAATGAGATTATGATAAGGAGACTCATGTCTC
*
16487926 GAGATGAGAATGAGAATATG
1 GAGATGAGAATGAGATTATG
16487946 GTTAAAGGAA
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 29 0.31
39 38 0.41
40 26 0.28
ACGTcount: A:0.39, C:0.08, G:0.28, T:0.26
Consensus pattern (39 bp):
GAGATGAGAATGAGATTATGATAAGGAGACTCATGTCTC
Found at i:16487934 original size:77 final size:77
Alignment explanation
Indices: 16487798--16487945 Score: 246
Period size: 77 Copynumber: 1.9 Consensus size: 77
16487788 TATAAATGGA
16487798 AGACTCATCTTGAGATGAGAATGAGATTATGATAAGGAAGACTCATATCTCGAGATGAGAATGAG
1 AGACTCATCTTGAGATGAGAATGAGATTATGATAAGGAAGACTCATATCTCGAGATGAGAATGAG
*
16487863 ATTATGATAAGG
66 AATATGATAAGG
*
16487875 AGACTCATGTCTTGAGATGAGAATGAGATTATGATAAGG-A-ACTCATGTCTCGAGATGAGAATG
1 AGACTCA--TCTTGAGATGAGAATGAGATTATGATAAGGAAGACTCATATCTCGAGATGAGAATG
16487938 AGAATATG
64 AGAATATG
16487946 GTTAAAGGAA
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
77 36 0.54
78 1 0.01
79 30 0.45
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.26
Consensus pattern (77 bp):
AGACTCATCTTGAGATGAGAATGAGATTATGATAAGGAAGACTCATATCTCGAGATGAGAATGAG
AATATGATAAGG
Found at i:16487954 original size:79 final size:79
Alignment explanation
Indices: 16487772--16487959 Score: 258
Period size: 79 Copynumber: 2.4 Consensus size: 79
16487762 TGTGTCGGGT
* *
16487772 TGAGCATGAGAATTTGTATAAATGGAAGACTCATCTTGAGATGAGAATGAGATTATGATAAGGAA
1 TGAGAATGAGAATATGT-TAAA-GGAAGACTCATCTTGAGATGAGAATGAGATTATGATAAGGAA
16487837 GACTCATATCTCGAGA
64 GACTCATATCTCGAGA
* *
16487853 TGAGAATGAGATTATGAT-AAGG-AGACTCATGTCTTGAGATGAGAATGAGATTATGATAAGG-A
1 TGAGAATGAGAATATGTTAAAGGAAGACTCA--TCTTGAGATGAGAATGAGATTATGATAAGGAA
*
16487915 -ACTCATGTCTCGAGA
64 GACTCATATCTCGAGA
16487930 TGAGAATGAGAATATGGTTAAAGGAAGACT
1 TGAGAATGAGAATAT-GTTAAAGGAAGACT
16487960 TATGACTCGA
Statistics
Matches: 95, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
77 35 0.37
78 5 0.05
79 36 0.38
80 6 0.06
81 13 0.14
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.27
Consensus pattern (79 bp):
TGAGAATGAGAATATGTTAAAGGAAGACTCATCTTGAGATGAGAATGAGATTATGATAAGGAAGA
CTCATATCTCGAGA
Found at i:16493131 original size:21 final size:20
Alignment explanation
Indices: 16493098--16493136 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
16493088 ACAATAAATA
16493098 CAATTGTATAAGCCCAATGT
1 CAATTGTATAAGCCCAATGT
*
16493118 CAATTTTATTAAGCCCAAT
1 CAATTGTA-TAAGCCCAAT
16493137 TTTTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (20 bp):
CAATTGTATAAGCCCAATGT
Found at i:16494526 original size:30 final size:30
Alignment explanation
Indices: 16494487--16494548 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
16494477 TATTTTTTGA
* *
16494487 CCCCGAACTTTCTAAAAATTCAAATTTAAC
1 CCCCAAACTTTCCAAAAATTCAAATTTAAC
*
16494517 CCCCAAACTTTCCAAAAATTCAAATTTGAC
1 CCCCAAACTTTCCAAAAATTCAAATTTAAC
16494547 CC
1 CC
16494549 GATTTTAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.31, G:0.03, T:0.27
Consensus pattern (30 bp):
CCCCAAACTTTCCAAAAATTCAAATTTAAC
Found at i:16504269 original size:55 final size:55
Alignment explanation
Indices: 16504182--16504525 Score: 435
Period size: 55 Copynumber: 6.3 Consensus size: 55
16504172 CCAAAGATAG
**
16504182 AAAATGGTCCGATGACTCTGTGTCATTGTGAGTTATATGAAATCCTATTACGGATT
1 AAAA-GGTCCGATGACTCTGTGTCATCATGAGTTATATGAAATCCTATTACGGATT
* * *
16504238 AAAATGTTCGATGACTCTATGTCATCATGAGTTATATGAAATCCTATTACGGATT
1 AAAAGGTCCGATGACTCTGTGTCATCATGAGTTATATGAAATCCTATTACGGATT
* *
16504293 AAAAGGTCCGATGACTCTGTGTCATCGTGAGTTATTATATGAAATCCTATTATGGATT
1 AAAAGGTCCGATGACTCTGTGTCATCATGAG---TTATATGAAATCCTATTACGGATT
* *
16504351 AAAAGGTCCAATGACTCTGTGTCATTATGAGTTATATGAAATCCTATTACGGATT
1 AAAAGGTCCGATGACTCTGTGTCATCATGAGTTATATGAAATCCTATTACGGATT
* * * * ** *
16504406 -AAAGGTCCAATGACTGTGTTTCATCATGAGTTACATGAAATCCTATTACAAAAT
1 AAAAGGTCCGATGACTCTGTGTCATCATGAGTTATATGAAATCCTATTACGGATT
* * * **
16504460 AAAAGGTTCGATGACTCTGTGTCATCGTGAGTTACA--AAATCCTATTACAAATT
1 AAAAGGTCCGATGACTCTGTGTCATCATGAGTTATATGAAATCCTATTACGGATT
16504513 -AAAGGTCCGATGA
1 AAAAGGTCCGATGA
16504526 TTGAGATCCT
Statistics
Matches: 256, Mismatches: 28, Indels: 12
0.86 0.09 0.04
Matches are distributed among these distances:
52 12 0.05
53 16 0.06
54 47 0.18
55 126 0.49
56 4 0.02
58 51 0.20
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (55 bp):
AAAAGGTCCGATGACTCTGTGTCATCATGAGTTATATGAAATCCTATTACGGATT
Found at i:16504478 original size:167 final size:169
Alignment explanation
Indices: 16504182--16504493 Score: 493
Period size: 167 Copynumber: 1.9 Consensus size: 169
16504172 CCAAAGATAG
* * * *
16504182 AAAATGGTCCGATGACTCTGTGTCATTGTGAGTTATATGAAATCCTATTACGGATTAAAATGTTC
1 AAAATGGTCCAATGACTCTGTGTCATTATGAGTTATATGAAATCCTATTACGGATTAAAAGGTCC
* * ** *
16504247 GATGACTCTATGTCATCATGAGTTATATGAAATCCTATTACGGATTAAAAGGTCCGATGACTCTG
66 AATGACTCTATGTCATCATGAGTTACATGAAATCCTATTACAAAATAAAAGGTCCGATGACTCTG
16504312 TGTCATCGTGAGTTATTATATGAAATCCTATTATGGATT
131 TGTCATCGTGAGTTATTATATGAAATCCTATTATGGATT
16504351 AAAA-GGTCCAATGACTCTGTGTCATTATGAGTTATATGAAATCCTATTACGGATT-AAAGGTCC
1 AAAATGGTCCAATGACTCTGTGTCATTATGAGTTATATGAAATCCTATTACGGATTAAAAGGTCC
* * * *
16504414 AATGACTGTGTTTCATCATGAGTTACATGAAATCCTATTACAAAATAAAAGGTTCGATGACTCTG
66 AATGACTCTATGTCATCATGAGTTACATGAAATCCTATTACAAAATAAAAGGTCCGATGACTCTG
16504479 TGTCATCGTGAGTTA
131 TGTCATCGTGAGTTA
16504494 CAAAATCCTA
Statistics
Matches: 130, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
167 77 0.59
168 49 0.38
169 4 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (169 bp):
AAAATGGTCCAATGACTCTGTGTCATTATGAGTTATATGAAATCCTATTACGGATTAAAAGGTCC
AATGACTCTATGTCATCATGAGTTACATGAAATCCTATTACAAAATAAAAGGTCCGATGACTCTG
TGTCATCGTGAGTTATTATATGAAATCCTATTATGGATT
Found at i:16505579 original size:16 final size:16
Alignment explanation
Indices: 16505554--16505602 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
16505544 AAAGATATTG
16505554 AGAT-AAGATTTGAAT
1 AGATAAAGATTTGAAT
16505569 AGATAAAGATTTGAAT
1 AGATAAAGATTTGAAT
* *
16505585 AGGTAACGATTTGAAT
1 AGATAAAGATTTGAAT
16505601 AG
1 AG
16505603 GTAACGAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 4 0.13
16 27 0.87
ACGTcount: A:0.45, C:0.02, G:0.22, T:0.31
Consensus pattern (16 bp):
AGATAAAGATTTGAAT
Found at i:16505603 original size:16 final size:16
Alignment explanation
Indices: 16505560--16505609 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
16505550 ATTGAGATAA
* *
16505560 GATTTGAATAGATAAA
1 GATTTGAATAGGTAAC
16505576 GATTTGAATAGGTAAC
1 GATTTGAATAGGTAAC
16505592 GATTTGAATAGGTAAC
1 GATTTGAATAGGTAAC
16505608 GA
1 GA
16505610 ATTATAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.42, C:0.04, G:0.24, T:0.30
Consensus pattern (16 bp):
GATTTGAATAGGTAAC
Found at i:16507386 original size:50 final size:50
Alignment explanation
Indices: 16507329--16507477 Score: 192
Period size: 50 Copynumber: 3.0 Consensus size: 50
16507319 AAGATCAACG
* *
16507329 GATTGAAGCCGCAATGGTAAATCTCATACACCTAAAGCTGTAGAGGGGCA
1 GATTGAAGCCGCAATGGCAAATCTCATACACCTAAAGCTGTAAAGGGGCA
* *
16507379 GATTGAAGCTGCAATGGCAAATCTCATACACCTAAAGCTTTAAAGGGGCA
1 GATTGAAGCCGCAATGGCAAATCTCATACACCTAAAGCTGTAAAGGGGCA
* * * ** *
16507429 AATT-AAGGCCACAATGGCAAATCTTATTTACCTAAAGTTGTAAAGGGGC
1 GATTGAA-GCCGCAATGGCAAATCTCATACACCTAAAGCTGTAAAGGGGC
16507478 GAATTAAAGT
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 2 0.02
50 84 0.98
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (50 bp):
GATTGAAGCCGCAATGGCAAATCTCATACACCTAAAGCTGTAAAGGGGCA
Found at i:16507730 original size:40 final size:39
Alignment explanation
Indices: 16507623--16507752 Score: 147
Period size: 39 Copynumber: 3.3 Consensus size: 39
16507613 AAAACACCAG
* *
16507623 CCAATCTCTTACCCCGAACATGAGGCAAATTGAAGCAAT
1 CCAATCTCTTACCCCGACCATGAGGCAGATTGAAGCAAT
** *
16507662 CCAATCT-TTCACCCTAACCA-GAAGGCAGATTGAAGACCAT
1 CCAATCTCTT-ACCCCGACCATG-AGGCAGATTGAAG-CAAT
* *
16507702 CCGATCTCTTACCCCGACCATGAGGCAGATTAAAGCAAT
1 CCAATCTCTTACCCCGACCATGAGGCAGATTGAAGCAAT
*
16507741 CCAATCTTTTAC
1 CCAATCTCTTAC
16507753 TCCTAAAGCT
Statistics
Matches: 74, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
38 3 0.04
39 39 0.53
40 29 0.39
41 3 0.04
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (39 bp):
CCAATCTCTTACCCCGACCATGAGGCAGATTGAAGCAAT
Found at i:16508571 original size:19 final size:19
Alignment explanation
Indices: 16508532--16508572 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
16508522 CCCAATTTCG
*
16508532 TTTTAATTTTATTAATTTA
1 TTTTAATTTTATTAATCTA
* *
16508551 TTTTTATTTTATTTATCTA
1 TTTTAATTTTATTAATCTA
16508570 TTT
1 TTT
16508573 ATAAATATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTAATTTTATTAATCTA
Found at i:16508604 original size:21 final size:20
Alignment explanation
Indices: 16508573--16508631 Score: 70
Period size: 17 Copynumber: 3.0 Consensus size: 20
16508563 TTATCTATTT
*
16508573 ATAAATATAAATAAATACAA
1 ATAAAAATAAATAAATACAA
16508593 ATGAAAAATAAATAAAT---A
1 AT-AAAAATAAATAAATACAA
*
16508611 ATAAAATTAAATAAATACAA
1 ATAAAAATAAATAAATACAA
16508631 A
1 A
16508632 CCAAATACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
17 13 0.39
18 3 0.09
20 4 0.12
21 13 0.39
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (20 bp):
ATAAAAATAAATAAATACAA
Found at i:16509850 original size:30 final size:30
Alignment explanation
Indices: 16509737--16509909 Score: 160
Period size: 30 Copynumber: 5.9 Consensus size: 30
16509727 AAAATTATGT
*
16509737 TTTGACCC-CGAACTTTTCAAAAATTCCAA
1 TTTGACCCTCGAACTTTTCAAAAATTTCAA
* * * *
16509766 TTTTA-CCTCGAACTTTCCAAAAATCTAAA
1 TTTGACCCTCGAACTTTTCAAAAATTTCAA
* * *
16509795 TTTTACCCTC-AAATTTTCCAAAAATTTGAA
1 TTTGACCCTCGAACTTTT-CAAAAATTTCAA
*
16509825 TTTGACCCTCGAACTTTTCAAAAATTCCAA
1 TTTGACCCTCGAACTTTTCAAAAATTTCAA
* *
16509855 TTTAACCCTCGAAC-TTTCTGAAAATTT-AGA
1 TTTGACCCTCGAACTTTTC-AAAAATTTCA-A
* *
16509885 TTTGATCCTTGAAC-TTTCAAAAATT
1 TTTGACCCTCGAACTTTTCAAAAATT
16509910 CAAAATTGAC
Statistics
Matches: 118, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
28 2 0.02
29 42 0.36
30 68 0.58
31 6 0.05
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.36
Consensus pattern (30 bp):
TTTGACCCTCGAACTTTTCAAAAATTTCAA
Found at i:16510821 original size:12 final size:12
Alignment explanation
Indices: 16510806--16510835 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
16510796 CACAATTTAA
16510806 AATAATAATAGT
1 AATAATAATAGT
16510818 AATAATAATAGT
1 AATAATAATAGT
*
16510830 GATAAT
1 AATAAT
16510836 GGCAATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (12 bp):
AATAATAATAGT
Found at i:16511066 original size:3 final size:3
Alignment explanation
Indices: 16511053--16511086 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
16511043 CAAAATAAAT
16511053 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16511087 AGACTAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:16511271 original size:17 final size:17
Alignment explanation
Indices: 16511249--16511335 Score: 111
Period size: 17 Copynumber: 5.1 Consensus size: 17
16511239 CCAATTTTAA
*
16511249 ATTTTAAATTTTAATTT
1 ATTTTAAATTTAAATTT
*
16511266 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTT
*
16511283 ATTTATAAATTTAAATCT
1 ATTT-TAAATTTAAATTT
* *
16511301 ATTTTGAGTTTAAATTT
1 ATTTTAAATTTAAATTT
*
16511318 ATTTTAAATTTGAATTT
1 ATTTTAAATTTAAATTT
16511335 A
1 A
16511336 ATTAAAAAGT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
17 44 0.75
18 15 0.25
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:16511277 original size:6 final size:6
Alignment explanation
Indices: 16511244--16511336 Score: 50
Period size: 6 Copynumber: 15.8 Consensus size: 6
16511234 CAAACCCAAT
* * * *
16511244 TTTAAA TTTTAAA TTTTAA TTT-AT TTTAAG TTTAAA TTT-AT TTATAAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA
* * * * * *
16511292 TTTAAA TCT-AT TTTGAG TTTAAA TTT-AT TTTAAA TTTGAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
16511337 TTAAAAAGTC
Statistics
Matches: 65, Mismatches: 16, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
5 14 0.22
6 42 0.65
7 9 0.14
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:16511292 original size:35 final size:34
Alignment explanation
Indices: 16511249--16511335 Score: 129
Period size: 35 Copynumber: 2.5 Consensus size: 34
16511239 CCAATTTTAA
*
16511249 ATTTTAAATTTTAATTTATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTTATTTTAAGTTTAAATTT
* *
16511283 ATTTATAAATTTAAATCTATTTTGAGTTTAAATTT
1 ATTT-TAAATTTAAATTTATTTTAAGTTTAAATTT
*
16511318 ATTTTAAATTTGAATTTA
1 ATTTTAAATTTAAATTTA
16511336 ATTAAAAAGT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 16 0.34
35 31 0.66
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (34 bp):
ATTTTAAATTTAAATTTATTTTAAGTTTAAATTT
Found at i:16511867 original size:11 final size:11
Alignment explanation
Indices: 16511848--16511892 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
16511838 AATATAATAG
16511848 TATATATTTAT
1 TATATATTTAT
16511859 T-TGATATTTAT
1 TAT-ATATTTAT
16511870 TATATATTTA-
1 TATATATTTAT
*
16511880 -ATACATTTAT
1 TATATATTTAT
16511890 TAT
1 TAT
16511893 TTCCTTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
9 8 0.28
10 1 0.03
11 19 0.66
12 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (11 bp):
TATATATTTAT
Found at i:16512974 original size:30 final size:30
Alignment explanation
Indices: 16512940--16513042 Score: 136
Period size: 30 Copynumber: 3.4 Consensus size: 30
16512930 AAATTTTTTT
* *
16512940 AAAATTATATTTTAACCCCCAAACTTC-CAA
1 AAAATTACATTTTAACCCCCTAACTTCTC-A
* * *
16512970 AAAATTATATTTTCACCCCTTAACTTCTCA
1 AAAATTACATTTTAACCCCCTAACTTCTCA
*
16513000 AAAATTACATTTTGACCCCCTAACTTCTCA
1 AAAATTACATTTTAACCCCCTAACTTCTCA
16513030 AAAATTACATTTT
1 AAAATTACATTTT
16513043 TATCCTCGAA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
30 65 0.98
31 1 0.02
ACGTcount: A:0.38, C:0.25, G:0.01, T:0.36
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCCTAACTTCTCA
Found at i:16513070 original size:29 final size:30
Alignment explanation
Indices: 16513028--16513091 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
16513018 CCTAACTTCT
*
16513028 CAAAAATTACATTTTTAT-CC-TCGAACATC
1 CAAAAATCACATTTTT-TGCCTTCGAACATC
*
16513057 CAAAAATCACATTTTTTGCCTTTGAACATC
1 CAAAAATCACATTTTTTGCCTTCGAACATC
16513087 CAAAA
1 CAAAA
16513092 TTACCATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 1 0.03
29 17 0.55
30 13 0.42
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.33
Consensus pattern (30 bp):
CAAAAATCACATTTTTTGCCTTCGAACATC
Found at i:16513100 original size:30 final size:29
Alignment explanation
Indices: 16513030--16513101 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
16513020 TAACTTCTCA
16513030 AAAATTA-CATTTTTATCCTCGAACATCC
1 AAAATTACCATTTTTATCCTCGAACATCC
* *
16513058 AAAAAT-CACATTTTT-TGCCTTTGAACATCC
1 AAAATTAC-CATTTTTAT-CC-TCGAACATCC
16513088 AAAATTACCATTTT
1 AAAATTACCATTTT
16513102 GACTTCGAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
28 6 0.17
29 9 0.25
30 20 0.56
31 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (29 bp):
AAAATTACCATTTTTATCCTCGAACATCC
Found at i:16518434 original size:6 final size:6
Alignment explanation
Indices: 16518416--16518482 Score: 73
Period size: 6 Copynumber: 10.8 Consensus size: 6
16518406 AACTCAATGA
* * *
16518416 AAAAAA AAAAAG AAGAAG AAGAAG AAAAA- AGAAAAG AAAAAGG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A-AAAAG AAAAA-G AAAAAG
16518465 AAAAAG AAAATAG AAAAA
1 AAAAAG AAAA-AG AAAAA
16518483 ACAGAAAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
5 1 0.02
6 40 0.74
7 13 0.24
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (6 bp):
AAAAAG
Found at i:16518445 original size:19 final size:18
Alignment explanation
Indices: 16518414--16518483 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 18
16518404 CAAACTCAAT
*
16518414 GAAAAAAAAAAAAGAAGAA
1 GAAAAAGAAAAAAGAA-AA
*
16518433 GAAGAAGAAAAAAGAAAA
1 GAAAAAGAAAAAAGAAAA
*
16518451 GAAAAAGGAAAAAGAAAAA
1 GAAAAAGAAAAAAG-AAAA
16518470 GAAAATAGAAAAAA
1 GAAAA-AGAAAAAA
16518484 CAGAAAAAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
18 14 0.32
19 23 0.52
20 7 0.16
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (18 bp):
GAAAAAGAAAAAAGAAAA
Found at i:16518449 original size:7 final size:7
Alignment explanation
Indices: 16518414--16518497 Score: 68
Period size: 7 Copynumber: 11.7 Consensus size: 7
16518404 CAAACTCAAT
16518414 GAAAAAA
1 GAAAAAA
16518421 -AAAAAA
1 GAAAAAA
16518427 GAAGAAGAA
1 GAA-AA-AA
16518436 GAAGAAAA
1 GAA-AAAA
16518444 -AAGAAAA
1 GAA-AAAA
16518451 G-AAAAA
1 GAAAAAA
*
16518457 GGAAAAA
1 GAAAAAA
16518464 G-AAAAA
1 GAAAAAA
*
16518470 GAAAATA
1 GAAAAAA
16518477 GAAAAAACA
1 G-AAAAA-A
16518486 GAAAAAA
1 GAAAAAA
16518493 GAAAA
1 GAAAA
16518498 GGAGAGATCG
Statistics
Matches: 67, Mismatches: 2, Indels: 16
0.79 0.02 0.19
Matches are distributed among these distances:
6 17 0.25
7 27 0.40
8 13 0.19
9 10 0.15
ACGTcount: A:0.80, C:0.01, G:0.18, T:0.01
Consensus pattern (7 bp):
GAAAAAA
Found at i:16518466 original size:31 final size:31
Alignment explanation
Indices: 16518416--16518483 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
16518406 AACTCAATGA
* *
16518416 AAAAAAAAAAAGAAGAAGAAGAAGAAAAAAG
1 AAAAAAAAAAAGAAAAAGAAAAAGAAAAAAG
* * *
16518447 AAAAGAAAAAGGAAAAAGAAAAAGAAAATAG
1 AAAAAAAAAAAGAAAAAGAAAAAGAAAAAAG
16518478 AAAAAA
1 AAAAAA
16518484 CAGAAAAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (31 bp):
AAAAAAAAAAAGAAAAAGAAAAAGAAAAAAG
Found at i:16518490 original size:16 final size:15
Alignment explanation
Indices: 16518414--16518497 Score: 64
Period size: 16 Copynumber: 5.3 Consensus size: 15
16518404 CAAACTCAAT
*
16518414 GAAAAAAAAAAAAGAA
1 GAAAAAAAGAAAA-AA
*
16518430 GAAGAAGAAGAAAAAA
1 GAA-AAAAAGAAAAAA
16518446 GAAAAGAAA-AAGGAAAA
1 GAAAA-AAAGAA--AAAA
* *
16518463 -AGAAAAAGAAAATA
1 GAAAAAAAGAAAAAA
16518477 GAAAAAACAGAAAAAA
1 GAAAAAA-AGAAAAAA
16518493 GAAAA
1 GAAAA
16518498 GGAGAGATCG
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
14 3 0.06
15 12 0.22
16 27 0.50
17 12 0.22
ACGTcount: A:0.80, C:0.01, G:0.18, T:0.01
Consensus pattern (15 bp):
GAAAAAAAGAAAAAA
Found at i:16519514 original size:50 final size:50
Alignment explanation
Indices: 16519427--16519921 Score: 504
Period size: 50 Copynumber: 9.9 Consensus size: 50
16519417 GATGAATCCG
16519427 GTACCTTAA-AAGAT-TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCA
1 GTACC-TAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCA
* * * * ***
16519476 GTACCTAAGAAGATGTGATGAGAAAGGTTGAGGTCGCAACAGCGAACTTG
1 GTACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCA
* * *
16519526 GTACCTAAAAAGATGTGATGGGAAAGGTTGAGGCTGCAACGGCGAACCC-
1 GTACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCA
* * * * ** *
16519575 GATACC-ATGAAGATGTAAAGGGAAAGGTTGAGACCGCAACAGCGAAGTCG
1 G-TACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCA
* *
16519625 GTACCTAAGAAGATGTGAAGGGAAAGGTTAAGGCCGCAACGGTGAACCCA
1 GTACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCA
* * **
16519675 GTACCTAAAAAGATGTGATGGGAAAGGTTGAGGCCATAACGGCGAACCCA
1 GTACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCA
* ** * *
16519725 GTATCATGAAG-AGATGACAAGGG--AGGATTGAGGCCGCAACGGCGAA-TCT
1 GTA-CCT-AAGAAGATGTGAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCCA
* * * * * *
16519774 GATACCTTAAAAAGATGTAAAAGGAAAGGTTAAGGCCGCAACGGTGAACCTA
1 G-TACC-TAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCA
* *
16519826 GTACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACCCG
1 GTACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCA
* * *
16519876 GTACCTAAGAAGATGCGATGGG-AAGGATTGAGGTCGCAACGGCGAA
1 GTACCTAAGAAGATGTGAAGGGAAAGG-TTGAGGCCGCAACGGCGAA
16519922 TCCAACACCA
Statistics
Matches: 362, Mismatches: 69, Indels: 29
0.79 0.15 0.06
Matches are distributed among these distances:
48 3 0.01
49 61 0.17
50 260 0.72
51 32 0.09
52 6 0.02
ACGTcount: A:0.35, C:0.17, G:0.32, T:0.16
Consensus pattern (50 bp):
GTACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCA
Found at i:16519679 original size:149 final size:151
Alignment explanation
Indices: 16519443--16519923 Score: 570
Period size: 149 Copynumber: 3.2 Consensus size: 151
16519433 TAAAAGATTG
* * * * *
16519443 AAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATGTGATGAGAAAGGTTGAG
1 AAGGGAAAGGTTGAGGCCGCAACGGCGAA-TCGGTACCTAAGAAGATGTGAAGGGAAAGGTTAAG
* * * * * **
16519508 GTCGCAACAGCGAACTTGGTACCTAAAAAGATGTGATGGGAAAGGTTGAGGCTGCAACGGCGAAC
65 GCCGCAACGGTGAACCTAGTACCTAAAAAGATGTGATGGGAAAGGTTGAGGCCACAACGGCGAAC
16519573 CCGATACCATGAAGATG-T-A-
130 CCGATACCATGAAGATGATGAC
* *
16519592 AAGGGAAAGGTTGAGACCGCAACAGCGAAGTCGGTACCTAAGAAGATGTGAAGGGAAAGGTTAAG
1 AAGGGAAAGGTTGAGGCCGCAACGGCGAA-TCGGTACCTAAGAAGATGTGAAGGGAAAGGTTAAG
* *
16519657 GCCGCAACGGTGAACCCAGTACCTAAAAAGATGTGATGGGAAAGGTTGAGGCCATAACGGCGAAC
65 GCCGCAACGGTGAACCTAGTACCTAAAAAGATGTGATGGGAAAGGTTGAGGCCACAACGGCGAAC
*
16519722 CC-AGTATCATGAAGA-GATGAC
130 CCGA-TACCATGAAGATGATGAC
* * * *
16519743 AAGGG--AGGATTGAGGCCGCAACGGCGAATCTGATACCTTAAAAAGATGTAAAAGGAAAGGTTA
1 AAGGGAAAGG-TTGAGGCCGCAACGGCGAATC-GGTACC-TAAGAAGATGTGAAGGGAAAGGTTA
* *
16519806 AGGCCGCAACGGTGAACCTAGTACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGA
63 AGGCCGCAACGGTGAACCTAGTACCTAAAAAGATGTGATGGGAAAGGTTGAGGCCACAACGGCGA
* *
16519871 ACCCGGTACC-T-AAGAAGATG-C
128 ACCCGATACCATGAAGATGATGAC
* *
16519892 GATGGG-AAGGATTGAGGTCGCAACGGCGAATC
1 -AAGGGAAAGG-TTGAGGCCGCAACGGCGAATC
16519924 CAACACCATG
Statistics
Matches: 289, Mismatches: 32, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
148 2 0.01
149 136 0.47
150 32 0.11
151 119 0.41
ACGTcount: A:0.35, C:0.17, G:0.32, T:0.15
Consensus pattern (151 bp):
AAGGGAAAGGTTGAGGCCGCAACGGCGAATCGGTACCTAAGAAGATGTGAAGGGAAAGGTTAAGG
CCGCAACGGTGAACCTAGTACCTAAAAAGATGTGATGGGAAAGGTTGAGGCCACAACGGCGAACC
CGATACCATGAAGATGATGAC
Found at i:16520350 original size:39 final size:38
Alignment explanation
Indices: 16520283--16520392 Score: 105
Period size: 39 Copynumber: 2.8 Consensus size: 38
16520273 CACCATCAGC
* *
16520283 CAATCTCTTACCCTGAGCC-TGCGACAGATTGCAACCATT
1 CAATCTCTTACCC-GA-CCATGGGGCAGATTGCAACCATT
* * ** *
16520322 CGATCTTTTACCCCGACCATGGGGCAGATCACAGCCATT
1 CAATCTCTTA-CCCGACCATGGGGCAGATTGCAACCATT
* *
16520361 CAATCTCTTACCCGATCATGGGGCAAATTGCA
1 CAATCTCTTACCCGACCATGGGGCAGATTGCA
16520393 GTTATCCAAA
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
38 20 0.36
39 33 0.59
40 3 0.05
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (38 bp):
CAATCTCTTACCCGACCATGGGGCAGATTGCAACCATT
Found at i:16520732 original size:85 final size:85
Alignment explanation
Indices: 16520576--16520744 Score: 196
Period size: 85 Copynumber: 2.0 Consensus size: 85
16520566 CTTCAAACCT
* * * * * * * *
16520576 ATCTTCCTGATGAGATACTGAGAAGTGGGTCGAAGCAATAAAGTGTTCATCTTCTTGACGAGATG
1 ATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAACAAAGTGGTCATCTTCCTGACGAGATA
16520641 CAGAGAAGT-GAACCAAATCC
66 CAGAGAAGTAG-ACCAAATCC
* * * *
16520661 ATCTTCTTGATGAGATACAGAGAAGTGGATCAAAACAACGAGGTGGTCATCTTCCTGATGAGATA
1 ATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAACAAAGTGGTCATCTTCCTGACGAGATA
**
16520726 TTGAGAAGTAGACCAAATC
66 CAGAGAAGTAGACCAAATC
16520745 AATGAAACCA
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
85 68 0.99
86 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (85 bp):
ATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAACAAAGTGGTCATCTTCCTGACGAGATA
CAGAGAAGTAGACCAAATCC
Found at i:16520836 original size:208 final size:207
Alignment explanation
Indices: 16520405--16521296 Score: 995
Period size: 208 Copynumber: 4.3 Consensus size: 207
16520395 TATCCAAAAT
* * * * * * * *
16520405 AATAAAATGGTCACCTTCCTAATAAGATACAGAGAAGTGGACCAAATCCGTCTTTCTGATGACAT
1 AATAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCATCTTCCTGATGAGAT
* ** * * * * **
16520470 ACAGAGAAGCGGATTGAAA-AA-GTAATGCGGCCATCTT-TCTAATGAGATACAGAGAAAAAGAC
66 ACAGAGAAGTGGATCAAAATAACG--AGGCGGTCATCTTCT-TGATGAGATACTGAGAAGTAGAC
* * * * * * * * *
16520532 CACATCAGTGAAGCAAAGCTCAATA-TGAGTGAAA-CTTCAAACCTATCTTCCTGATGAGATACT
128 CAAATCAATGAAACCAGGCTCAA-AGTGAG-AAAATCTTCGAACCCAGCTTCCTGATGAGATACT
**
16520595 GAGAAGTGGGTCGAAGC
191 GAGAAGCAGGTCGAAGC
* * * * *
16520612 AATAAAGTGTTCATCTTCTTGACGAGATGCAGAGAAGTGAACCAAATCCATCTTCTTGATGAGAT
1 AATAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCATCTTCCTGATGAGAT
* * * *
16520677 ACAGAGAAGTGGATCAAAACAACGAGGTGGTCATCTTCCTGATGAGATATTGAGAAGTAGACCAA
66 ACAGAGAAGTGGATCAAAATAACGAGGCGGTCATCTTCTTGATGAGATACTGAGAAGTAGACCAA
* *
16520742 ATCAATGAAACCAGGTTCAAAGTGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGA
131 ATCAATGAAACCAGGCTCAAAGTGAGAAAATCTTCGAACC-CAGCTTCCTGATGAGATACTGAGA
*
16520807 AGCAGGTCAAAGC
195 AGCAGGTCGAAGC
* * * **
16520820 AATAAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTGAACTAGATCTGTCTTCCTGATGAGAT
1 AATAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCATCTTCCTGATGAGAT
* * *
16520885 ACAGAGAAGTGGATCAAAATAACGAGGCAGTCATCTTCTTGATCAGATACTGAGAAGTGGACCAA
66 ACAGAGAAGTGGATCAAAATAACGAGGCGGTCATCTTCTTGATGAGATACTGAGAAGTAGACCAA
* * * *
16520950 ATCAATAAAACCAGGCTCAAAGTGAGAAAATCTTTGAACCCCAGCTTCTTGATGAGGTACTGAGA
131 ATCAATGAAACCAGGCTCAAAGTGAGAAAATCTTCGAA-CCCAGCTTCCTGATGAGATACTGAGA
*
16521015 AGCGGGTCGAAGC
195 AGCAGGTCGAAGC
* *
16521028 AATAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGAT
1 AATAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCATCTTCCTGATGAGAT
* * * * *
16521093 ACAGAGAAGTGAATTAAAATAAGTGAGGCGGTCATCTTCTTGATGAGATACAGAGAAGTATACCA
66 ACAGAGAAGTGGATCAAAATAA-CGAGGCGGTCATCTTCTTGATGAGATACTGAGAAGTAGACCA
* * * * *
16521158 AATCAATGAAACAAAGCTCAATGTGAGTGAAA-CTTCGAATCCCAGTTTCCTGATGAGATACTGA
130 AATCAATGAAACCAGGCTCAAAGTGAG-AAAATCTTCGAA-CCCAGCTTCCTGATGAGATACTGA
*
16521222 GAAGCAGGTCGAAGT
193 GAAGCAGGTCGAAGC
* * * * * * *
16521237 AATAAAATGGTCGTCTCCCTGATGAGATATAAAGAAGTGGACCAAATTCATCTTCCTGAT
1 AATAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCATCTTCCTGAT
16521297 ACAGAGAAGT
Statistics
Matches: 581, Mismatches: 95, Indels: 16
0.84 0.14 0.02
Matches are distributed among these distances:
206 4 0.01
207 125 0.22
208 294 0.51
209 155 0.27
210 3 0.01
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (207 bp):
AATAAAGTGGTCATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCATCTTCCTGATGAGAT
ACAGAGAAGTGGATCAAAATAACGAGGCGGTCATCTTCTTGATGAGATACTGAGAAGTAGACCAA
ATCAATGAAACCAGGCTCAAAGTGAGAAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAA
GCAGGTCGAAGC
Found at i:16521315 original size:80 final size:80
Alignment explanation
Indices: 16521214--16521371 Score: 190
Period size: 80 Copynumber: 2.0 Consensus size: 80
16521204 TTCCTGATGA
* * * * * * * *
16521214 GATACTGAGAAGCAGGTCGAAGTAATAAAATGGTCGTCTCCCTGATGAGATATAAAGAAGTGGAC
1 GATACAGAGAAGCAGGGCGAAGCAATAAAATGGTCATCTCCCTAACGAGATACAAAGAAGTGAAC
16521279 CAAATTCATCTTCCT
66 CAAATTCATCTTCCT
* * * * *
16521294 GATACAGAGAAGTAGGGCGAAGCAATAAAGTGGTCATCTTCCTAACGAGATGCAGAGAAGTGAAC
1 GATACAGAGAAGCAGGGCGAAGCAATAAAATGGTCATCTCCCTAACGAGATACAAAGAAGTGAAC
*
16521359 CAAATTCGTCTTC
66 CAAATTCATCTTC
16521372 TTAGTGAAAT
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (80 bp):
GATACAGAGAAGCAGGGCGAAGCAATAAAATGGTCATCTCCCTAACGAGATACAAAGAAGTGAAC
CAAATTCATCTTCCT
Found at i:16521774 original size:17 final size:17
Alignment explanation
Indices: 16521715--16521776 Score: 79
Period size: 17 Copynumber: 3.6 Consensus size: 17
16521705 CAAACCCAAT
16521715 TTTAAATTTATTTATAAA
1 TTTAAATTTATTT-TAAA
* * *
16521733 TTTAAATCTATTTTGAG
1 TTTAAATTTATTTTAAA
16521750 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
16521767 TTTGAATTTA
1 TTTAAATTTA
16521777 ATTGAAAAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
17 25 0.68
18 12 0.32
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:16523335 original size:30 final size:30
Alignment explanation
Indices: 16523301--16523508 Score: 196
Period size: 30 Copynumber: 7.0 Consensus size: 30
16523291 TTTTTTATTA
* *
16523301 GACCCCTAATCTTTTCCATAATTATATTTT
1 GACCCCTAAACTTTTCCAAAATTATATTTT
*
16523331 GACCCCTAAACTTTTTCAAAATTATATTTT
1 GACCCCTAAACTTTTCCAAAATTATATTTT
*
16523361 AACCTCC-AAAC--TTCCAAACAATTATATTTT
1 GACC-CCTAAACTTTTCC-AA-AATTATATTTT
* * * * *
16523391 AACCCCTTAACTTCTCAAAAATTACATTTT
1 GACCCCTAAACTTTTCCAAAATTATATTTT
* *
16523421 GACCCTCT-AACTTCTCAAAAATTATATTTT
1 GACCC-CTAAACTTTTCCAAAATTATATTTT
16523451 GA-CCCTAAAC-TTTCCAAAAATTATATTTT
1 GACCCCTAAACTTTTCC-AAAATTATATTTT
* * *
16523480 AACCCCTAAACTTCTCAAAAATTA-ATTTT
1 GACCCCTAAACTTTTCCAAAATTATATTTT
16523509 TTATCCTCGA
Statistics
Matches: 151, Mismatches: 16, Indels: 23
0.79 0.08 0.12
Matches are distributed among these distances:
28 8 0.05
29 28 0.19
30 104 0.69
31 9 0.06
32 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.39
Consensus pattern (30 bp):
GACCCCTAAACTTTTCCAAAATTATATTTT
Found at i:16523388 original size:60 final size:59
Alignment explanation
Indices: 16523320--16523508 Score: 242
Period size: 60 Copynumber: 3.2 Consensus size: 59
16523310 TCTTTTCCAT
16523320 AATTATATTTTGACCCCTAAACTTTTTC-AAAATTATATTTTAACCTCCAAACTTC-CAAA
1 AATTATATTTTGACCCCTAAAC-TTTTCAAAAATTATATTTTAACC-CCAAACTTCTCAAA
* * * * * *
16523379 CAATTATATTTTAACCCCTTAACTTCTCAAAAATTACATTTTGACCCTCTAACTTCTCAAA
1 -AATTATATTTTGACCCCTAAACTTTTCAAAAATTATATTTTAACCC-CAAACTTCTCAAA
*
16523440 AATTATATTTTGA-CCCTAAACTTTCCAAAAATTATATTTTAACCCCTAAACTTCTCAAA
1 AATTATATTTTGACCCCTAAACTTTTCAAAAATTATATTTTAACCCC-AAACTTCTCAAA
16523499 AATTA-ATTTT
1 AATTATATTTT
16523509 TTATCCTCGA
Statistics
Matches: 112, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
58 6 0.05
59 48 0.43
60 54 0.48
61 4 0.04
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.39
Consensus pattern (59 bp):
AATTATATTTTGACCCCTAAACTTTTCAAAAATTATATTTTAACCCCAAACTTCTCAAA
Found at i:16523497 original size:89 final size:89
Alignment explanation
Indices: 16523302--16523508 Score: 269
Period size: 90 Copynumber: 2.3 Consensus size: 89
16523292 TTTTTATTAG
* * * * *
16523302 ACCCCTAATCTTTTCCATAATTATATTTTGACCCCTAAACTTTTTCAAAATTATATTTTAACCTC
1 ACCCCTAAACTTCTCAAAAATTA-ATTTTGACCCCTAAACTTTCTCAAAATTATATTTTAACCTC
16523367 CAAACTTCCAAACAATTATATTTTA
65 CAAACTTCCAAACAATTATATTTTA
* *
16523392 ACCCCTTAACTTCTCAAAAATTACATTTTGACCCTCT-AAC-TTCTCAAAAATTATATTTTGACC
1 ACCCCTAAACTTCTCAAAAATTA-ATTTTGACCC-CTAAACTTTCTC-AAAATTATATTTTAACC
*
16523455 -CTAAACTTTCCAAA-AATTATATTTTA
63 TCCAAAC-TTCCAAACAATTATATTTTA
16523481 ACCCCTAAACTTCTCAAAAATTAATTTT
1 ACCCCTAAACTTCTCAAAAATTAATTTT
16523509 TTATCCTCGA
Statistics
Matches: 104, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
88 5 0.05
89 43 0.41
90 54 0.52
91 2 0.02
ACGTcount: A:0.36, C:0.24, G:0.01, T:0.39
Consensus pattern (89 bp):
ACCCCTAAACTTCTCAAAAATTAATTTTGACCCCTAAACTTTCTCAAAATTATATTTTAACCTCC
AAACTTCCAAACAATTATATTTTA
Found at i:16523526 original size:59 final size:58
Alignment explanation
Indices: 16523348--16523589 Score: 179
Period size: 59 Copynumber: 4.1 Consensus size: 58
16523338 AAACTTTTTC
* * *
16523348 AAAATTATATTTTAACCTCC-AAACTTC-CAAACAATTATATTTTAACCCCTTAACTTCTCA
1 AAAATTATATTTTAACC-CCTAAACTTCTCAAA-AATTATTTTTTAACCTC-AAACTTC-CA
* * * *
16523408 AAAATTACATTTTGACCCTCT-AACTTCTCAAAAATTATATTTTGACC-CTAAACTTTCCA
1 AAAATTATATTTTAACCC-CTAAACTTCTCAAAAATTATTTTTTAACCTC-AAAC-TTCCA
* * *
16523467 AAAATTATATTTTAACCCCTAAACTTCTCAAAAATTAATTTTTTATCCTCGAACATCCA
1 AAAATTATATTTTAACCCCTAAACTTCTCAAAAATT-ATTTTTTAACCTCAAACTTCCA
* * ** * * * ** *
16523526 AAAATCACATTTTTTGCCCTTAAGCATC-CAAAAATTACCATTTTACCCTCAAACTTCCA
1 AAAATTATA-TTTTAACCCCTAAACTTCTCAAAAATTA-TTTTTTAACCTCAAACTTCCA
16523585 AAAAT
1 AAAAT
16523590 CACATTTTTT
Statistics
Matches: 150, Mismatches: 23, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
58 3 0.02
59 79 0.53
60 63 0.42
61 5 0.03
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (58 bp):
AAAATTATATTTTAACCCCTAAACTTCTCAAAAATTATTTTTTAACCTCAAACTTCCA
Found at i:16523527 original size:29 final size:30
Alignment explanation
Indices: 16523406--16523628 Score: 122
Period size: 30 Copynumber: 7.5 Consensus size: 30
16523396 CTTAACTTCT
* * *
16523406 CAAAAATTACA-TTTTGACCCTCTAACTTC
1 CAAAAATTACATTTTTTACCCTCGAACATC
* * * *
16523435 TCAAAAATTATA-TTTTGACCCT-AAACTTTC
1 -CAAAAATTACATTTTTTACCCTCGAAC-ATC
* * * *
16523465 CAAAAATTATA-TTTTAACCC-CTAAACTTC
1 CAAAAATTACATTTTTTACCCTC-GAACATC
*
16523494 TCAAAAATTA-ATTTTTTATCCTCGAACATC
1 -CAAAAATTACATTTTTTACCCTCGAACATC
* * *
16523524 CAAAAATCACATTTTTTGCCCT-TAAGCATC
1 CAAAAATTACATTTTTTACCCTCGAA-CATC
* *
16523554 CAAAAATTACCA--TTTTACCCTCAAACTTC
1 CAAAAATTA-CATTTTTTACCCTCGAACATC
* * * *
16523583 CAAAAATCACATTTTTTGCTCTCGAGCATC
1 CAAAAATTACATTTTTTACCCTCGAACATC
*
16523613 TAAAAATTACCATTTT
1 CAAAAATTA-CATTTT
16523629 GACCTCAAAC
Statistics
Matches: 157, Mismatches: 23, Indels: 25
0.77 0.11 0.12
Matches are distributed among these distances:
28 2 0.01
29 55 0.35
30 91 0.58
31 9 0.06
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (30 bp):
CAAAAATTACATTTTTTACCCTCGAACATC
Found at i:16523540 original size:30 final size:30
Alignment explanation
Indices: 16523495--16523599 Score: 108
Period size: 29 Copynumber: 3.6 Consensus size: 30
16523485 CTAAACTTCT
* * *
16523495 CAAAAATTA-ATTTTTTATCCTCGAACATC
1 CAAAAATCACATTTTTTACCCTCAAACATC
* * *
16523524 CAAAAATCACATTTTTTGCCCTTAAGCATC
1 CAAAAATCACATTTTTTACCCTCAAACATC
* *
16523554 CAAAAATTACCA--TTTTACCCTCAAACTTC
1 CAAAAATCA-CATTTTTTACCCTCAAACATC
16523583 CAAAAATCACATTTTTT
1 CAAAAATCACATTTTTT
16523600 GCTCTCGAGC
Statistics
Matches: 60, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
28 2 0.03
29 29 0.48
30 27 0.45
31 2 0.03
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (30 bp):
CAAAAATCACATTTTTTACCCTCAAACATC
Found at i:16523556 original size:89 final size:90
Alignment explanation
Indices: 16523348--16523619 Score: 258
Period size: 89 Copynumber: 3.1 Consensus size: 90
16523338 AAACTTTTTC
* * * *
16523348 AAAATTATATTTTAACCTCCAAACT-TCCAAACAATTATATTTTAACCCCTTAACTTCTCAAAAA
1 AAAATCATATTTTGACC-CTAAACTATCCAAA-AATTATATTTTAACCCCTAAACTTCTCAAAAA
* * *
16523412 TTACA-TTTTGACCCTCTAACTTCTCA
64 TTACATTTTTTACCCTCGAACATCTCA
* *
16523438 AAAATTATATTTTGACCCTAAACTTTCCAAAAATTATATTTTAACCCCTAAACTTCTCAAAAATT
1 AAAATCATATTTTGACCCTAAACTATCCAAAAATTATATTTTAACCCCTAAACTTCTCAAAAATT
*
16523503 A-ATTTTTTATCCTCGAACATC-CA
66 ACATTTTTTACCCTCGAACATCTCA
* * *
16523526 AAAATCACATTTTTTG-CCCTTAAGC-ATCCAAAAATTACCATTTT-A-CCCTCAAACTTC-CAA
1 AAAAT--CATATTTTGACCC-TAAACTATCCAAAAATTA-TATTTTAACCCCT-AAACTTCTCAA
* * * *
16523586 AAATCACATTTTTTGCTCTCGAGCATCT-A
61 AAATTACATTTTTTACCCTCGAACATCTCA
16523615 AAAAT
1 AAAAT
16523620 TACCATTTTG
Statistics
Matches: 156, Mismatches: 17, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
88 20 0.13
89 98 0.63
90 38 0.24
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (90 bp):
AAAATCATATTTTGACCCTAAACTATCCAAAAATTATATTTTAACCCCTAAACTTCTCAAAAATT
ACATTTTTTACCCTCGAACATCTCA
Found at i:16523590 original size:59 final size:58
Alignment explanation
Indices: 16523507--16523687 Score: 188
Period size: 59 Copynumber: 3.1 Consensus size: 58
16523497 AAAATTAATT
* * *
16523507 TTTTATCCTCGAACATCCAAAAATCACATTTTTTGCCCTTAAGCATCCAAAAATTACCA
1 TTTTA-CCTCAAACTTCCAAAAATCACATTTTTTGCCCTCAAGCATCCAAAAATTACCA
* * *
16523566 TTTTACCCTCAAACTTCCAAAAATCACATTTTTTGCTCTCGAGCATCTAAAAATTACCA
1 TTTTA-CCTCAAACTTCCAAAAATCACATTTTTTGCCCTCAAGCATCCAAAAATTACCA
* * ** *
16523625 TTTTGACCTCAAACTTTTCC-AAAATTACCA-TTTTT-CCCCCAAGCATAAAAAAATTACCG
1 TTTT-ACCTCAAAC--TTCCAAAAATCA-CATTTTTTGCCCTCAAGCATCCAAAAATTACCA
16523684 TTTT
1 TTTT
16523688 GCCCTCGAGC
Statistics
Matches: 104, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
59 86 0.83
60 12 0.12
61 6 0.06
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (58 bp):
TTTTACCTCAAACTTCCAAAAATCACATTTTTTGCCCTCAAGCATCCAAAAATTACCA
Found at i:16523629 original size:29 final size:29
Alignment explanation
Indices: 16523537--16523721 Score: 129
Period size: 29 Copynumber: 6.3 Consensus size: 29
16523527 AAATCACATT
* *
16523537 TTTTGCCCTTAAGCATCCAAAAATTACCA
1 TTTTGCCCTCAAGCATCTAAAAATTACCA
* * * * *
16523566 TTTTACCCTCAAACTTCCAAAAATCA-CA
1 TTTTGCCCTCAAGCATCTAAAAATTACCA
* *
16523594 TTTTTTGCTCTCGAGCATCTAAAAATTACCA
1 --TTTTGCCCTCAAGCATCTAAAAATTACCA
* * * * *
16523625 TTTTGACCTCAAACTTTTCCAAAATTACCA
1 TTTTGCCCTCAAGCATCT-AAAAATTACCA
* * ** *
16523655 TTTTTCCCCCAAGCATAAAAAAATTACCG
1 TTTTGCCCTCAAGCATCTAAAAATTACCA
* **
16523684 TTTTGCCCTCGAGCATCCCAAAATTACCA
1 TTTTGCCCTCAAGCATCTAAAAATTACCA
*
16523713 TTTTACCCT
1 TTTTGCCCT
16523722 TAAATTTCCT
Statistics
Matches: 116, Mismatches: 36, Indels: 8
0.73 0.22 0.05
Matches are distributed among these distances:
28 2 0.02
29 72 0.62
30 40 0.34
31 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (29 bp):
TTTTGCCCTCAAGCATCTAAAAATTACCA
Found at i:16523766 original size:30 final size:29
Alignment explanation
Indices: 16523726--16523793 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
16523716 TACCCTTAAA
*
16523726 TTTCCTAAAG-TCACATTTTCAACTTCGAAT
1 TTTCCAAAAGTTC-CATTTTCAAC-TCGAAT
* * *
16523756 TTTCCAAAAGTTCGATTTTGATCTCGAAT
1 TTTCCAAAAGTTCCATTTTCAACTCGAAT
16523785 TTTCCAAAA
1 TTTCCAAAA
16523794 ATTTCAACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 15 0.45
30 16 0.48
31 2 0.06
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.40
Consensus pattern (29 bp):
TTTCCAAAAGTTCCATTTTCAACTCGAAT
Found at i:16523808 original size:30 final size:30
Alignment explanation
Indices: 16523750--16523827 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
16523740 ATTTTCAACT
* * *
16523750 TCGAATTTTCC-AAAAGTTCGATTTTGATC
1 TCGAATTTTCCAAAAATTTCAACTTTGATC
16523779 TCGAATTTTCCAAAAATTTCAACTTTGATC
1 TCGAATTTTCCAAAAATTTCAACTTTGATC
* * *
16523809 CCCAAATTTCTCAAAAATT
1 TCGAATTTTC-CAAAAATT
16523828 ATGTTTTCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 11 0.27
30 22 0.54
31 8 0.20
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (30 bp):
TCGAATTTTCCAAAAATTTCAACTTTGATC
Found at i:16529767 original size:15 final size:15
Alignment explanation
Indices: 16529749--16529786 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
16529739 TTCCTTCACT
16529749 AGGTTTTGTCCCA-TA
1 AGGTTTT-TCCCAGTA
*
16529764 AGGTTTTTCCTAGTA
1 AGGTTTTTCCCAGTA
16529779 AGGTTTTT
1 AGGTTTTT
16529787 AATGAGGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.18, C:0.13, G:0.21, T:0.47
Consensus pattern (15 bp):
AGGTTTTTCCCAGTA
Found at i:16529915 original size:17 final size:17
Alignment explanation
Indices: 16529875--16529915 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
16529865 CTCTCTTGAC
*
16529875 CTTTAACCTTCAATCTT
1 CTTTAACCTTCAATATT
16529892 CTTTAACCTTC-ATATT
1 CTTTAACCTTCAATATT
16529908 CTTGTAAC
1 CTT-TAAC
16529916 TATGTTTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.24, C:0.27, G:0.02, T:0.46
Consensus pattern (17 bp):
CTTTAACCTTCAATATT
Found at i:16529969 original size:2 final size:2
Alignment explanation
Indices: 16529962--16529994 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
16529952 TGAATCTCCC
16529962 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
16529995 GAGTATGCTA
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:16530213 original size:20 final size:21
Alignment explanation
Indices: 16530170--16530213 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
16530160 AAACAAAAAT
*
16530170 AAATAAAGTTAAATAATTAAA
1 AAATAAAGATAAATAATTAAA
*
16530191 AAATAAAGATAAA-AATTACA
1 AAATAAAGATAAATAATTAAA
16530211 AAA
1 AAA
16530214 GACCAATCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (21 bp):
AAATAAAGATAAATAATTAAA
Found at i:16532377 original size:17 final size:17
Alignment explanation
Indices: 16532346--16532395 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
16532336 TTGAATTTAT
* * *
16532346 TTTAAATTCATTTTAAG
1 TTTAAATTTACTTTAAA
*
16532363 TTTGAATTTACTTTAAA
1 TTTAAATTTACTTTAAA
*
16532380 TTTAAATTTATTTTAA
1 TTTAAATTTACTTTAA
16532396 TTAAAATTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (17 bp):
TTTAAATTTACTTTAAA
Found at i:16534141 original size:30 final size:30
Alignment explanation
Indices: 16534094--16534229 Score: 127
Period size: 30 Copynumber: 4.5 Consensus size: 30
16534084 CCCAGAAGGT
* *
16534094 CCCTAAAT-TTTCCAAAAATCACATTTTGAC
1 CCCT-AATCTTTCTAAAAATTACATTTTGAC
*
16534124 CCCTAATCTTTCTAAAAATTACATTTT-AA
1 CCCTAATCTTTCTAAAAATTACATTTTGAC
* * *
16534153 CCCTCAATCTTTCCAAAAATTATATTTTAAC
1 CCCT-AATCTTTCTAAAAATTACATTTTGAC
* *
16534184 CCTCGAA-CTTTCTAAAAATTATATTTTGAC
1 CC-CTAATCTTTCTAAAAATTACATTTTGAC
*
16534214 CCTCGAA-CTTTCTAAA
1 CC-CTAATCTTTCTAAA
16534230 TTTTGATAAT
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
29 8 0.09
30 79 0.85
31 5 0.05
32 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (30 bp):
CCCTAATCTTTCTAAAAATTACATTTTGAC
Found at i:16534169 original size:60 final size:60
Alignment explanation
Indices: 16534094--16534225 Score: 162
Period size: 60 Copynumber: 2.2 Consensus size: 60
16534084 CCCAGAAGGT
* * *
16534094 CCCTAAAT-TTTCCAAAAATCACATTTTGACCC-CTAATCTTTCTAAAAATTACATTTTAA
1 CCCTCAATCTTTCCAAAAATCACATTTTAACCCTCGAA-CTTTCTAAAAATTACATTTTAA
* * * *
16534153 CCCTCAATCTTTCCAAAAATTATATTTTAACCCTCGAACTTTCTAAAAATTATATTTTGA
1 CCCTCAATCTTTCCAAAAATCACATTTTAACCCTCGAACTTTCTAAAAATTACATTTTAA
16534213 CCCTCGAA-CTTTC
1 CCCTC-AATCTTTC
16534226 TAAATTTTGA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
59 7 0.11
60 51 0.81
61 5 0.08
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (60 bp):
CCCTCAATCTTTCCAAAAATCACATTTTAACCCTCGAACTTTCTAAAAATTACATTTTAA
Found at i:16538213 original size:13 final size:13
Alignment explanation
Indices: 16538192--16538230 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
16538182 TAAATAAACA
16538192 AAAAGAAAGAAAGG
1 AAAA-AAAGAAAGG
16538206 AAAAAAAGGAAAGG
1 AAAAAAA-GAAAGG
*
16538220 AAAAATAGAAA
1 AAAAAAAGAAA
16538231 AAAAGGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 7 0.30
14 16 0.70
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (13 bp):
AAAAAAAGAAAGG
Found at i:16538230 original size:31 final size:30
Alignment explanation
Indices: 16538191--16538251 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
16538181 ATAAATAAAC
* *
16538191 AAAAAGAAAGAAAGGAAAAAAAGGAAAGGA
1 AAAAAGAAAAAAAGGAAAAAAAGAAAAGGA
*
16538221 AAAATAGAAAAAAAGGAGAAAAAGAAAAGGA
1 AAAA-AGAAAAAAAGGAAAAAAAGAAAAGGA
16538252 GAGGTCGAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.02
Consensus pattern (30 bp):
AAAAAGAAAAAAAGGAAAAAAAGAAAAGGA
Found at i:16538248 original size:17 final size:17
Alignment explanation
Indices: 16538215--16538248 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
16538205 GAAAAAAAGG
16538215 AAAGGAAAAATAGAAAA
1 AAAGGAAAAATAGAAAA
16538232 AAAGGAGAAAA-AGAAAA
1 AAAGGA-AAAATAGAAAA
16538249 GGAGAGGTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (17 bp):
AAAGGAAAAATAGAAAA
Found at i:16539619 original size:41 final size:41
Alignment explanation
Indices: 16539540--16539619 Score: 92
Period size: 41 Copynumber: 2.0 Consensus size: 41
16539530 CATCATTCAA
* * *
16539540 TCTTTTACCCTTTAATCAAAATGGTAGATTAAAGATTCCAG
1 TCTTTTACCCTTTAATCAAAAGGGCAGATGAAAGATTCCAG
*
16539581 TCTTTTACCC-TTAATCAAGAGGGGCAGAATGAAA-ATTCC
1 TCTTTTACCCTTTAATCAA-AAGGGCAG-ATGAAAGATTCC
16539620 GATCTCTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
40 8 0.24
41 20 0.61
42 5 0.15
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.33
Consensus pattern (41 bp):
TCTTTTACCCTTTAATCAAAAGGGCAGATGAAAGATTCCAG
Found at i:16539672 original size:39 final size:39
Alignment explanation
Indices: 16539621--16539747 Score: 121
Period size: 39 Copynumber: 3.3 Consensus size: 39
16539611 GAAAATTCCG
* *
16539621 ATCTCTTGCCCCGAGCTTGGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCATCCA
** ** * * * *
16539660 ATCTCTTACCCCGAGCTTGGGATAGATTGCAACCATTCG
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCATCCA
* * *
16539699 ATCTTTTACCCCGACCATGGGGCAGATCA-CAGTCATCCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCACCA-TCATCCA
16539738 ATCTCTTACC
1 ATCTCTTACC
16539748 AGATCATGGG
Statistics
Matches: 65, Mismatches: 22, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
38 1 0.02
39 64 0.98
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCATCCA
Found at i:16540062 original size:160 final size:159
Alignment explanation
Indices: 16539878--16540221 Score: 566
Period size: 160 Copynumber: 2.2 Consensus size: 159
16539868 GAGGCTGTCA
* *
16539878 TCTTCATGATGAGATACTGAGAAGTAGACCAAATCAATAAAACCAGGCTCAAAGTGAGCGAAA-C
1 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATAAAACCAGGCTCAAAGTGAGC-AAATC
*
16539942 TTCGAACCCCAGCTT-CTTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAGCGGTTACCTTC
65 TTCAAACCCCAGCTTCCTT-ATGAGATACTGAGAAGCAGGTCAAAGCAATAAAGCGGTTACCTTC
16540006 CTGATGAGATATAGAGAAGTGAACCAGATCCG
129 CTGATGAGATATAGAGAAGTG-ACCAGATCCG
*
16540038 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCT
1 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATAAAACCAGGCTCAAAGTGAGCAAATCT
* * *
16540103 TCAAACCCTAGCTTCCTTATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTTACCTTCCT
66 TCAAACCCCAGCTTCCTTATGAGATACTGAGAAGCAGGTCAAAGCAATAAAGCGGTTACCTTCCT
*
16540168 GATGAGATATAGAGAAGTGACCAGATTCG
131 GATGAGATATAGAGAAGTGACCAGATCCG
*
16540197 TCTTCCTGATGAGGTACAGAGAAGT
1 TCTTCCTGATGAGATACAGAGAAGT
16540222 GGATCAAAAT
Statistics
Matches: 173, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
159 36 0.21
160 134 0.77
161 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (159 bp):
TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATAAAACCAGGCTCAAAGTGAGCAAATCT
TCAAACCCCAGCTTCCTTATGAGATACTGAGAAGCAGGTCAAAGCAATAAAGCGGTTACCTTCCT
GATGAGATATAGAGAAGTGACCAGATCCG
Found at i:16540407 original size:37 final size:37
Alignment explanation
Indices: 16540366--16540436 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
16540356 TAAAGCGGTC
* *
16540366 GTCTTCTTGATGAGATA-AAGAGAAGTGGACCAAATCT
1 GTCTTCCTGATGAGATACAA-AGAAGCGGACCAAATCT
*
16540403 GTCTTCCTGATGAGATACAAAGAAGCGGATCAAA
1 GTCTTCCTGATGAGATACAAAGAAGCGGACCAAA
16540437 ATAAGTGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
37 28 0.93
38 2 0.07
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (37 bp):
GTCTTCCTGATGAGATACAAAGAAGCGGACCAAATCT
Found at i:16540622 original size:209 final size:210
Alignment explanation
Indices: 16540038--16541237 Score: 1463
Period size: 209 Copynumber: 5.8 Consensus size: 210
16540028 ACCAGATCCG
* * *
16540038 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAACC-AGGCTCAAAGTGAGC-AAAT
1 TCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCAATGTGAGCGAAA-
* * * * *
16540101 CTTCAAACCCTAGCTTCCTTATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTTACCTTC
65 CTTCAAACCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAGTGGTCATCTTC
* * * *
16540166 CTGATGAGATA-TAGAGAAGT-GACCAGATTCGTCTTCCTGATGAGGTACAGAGAAGTGGATCAA
130 CTGATGAGATACT-GAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTAA
* *
16540229 AATAA-CGAGGCGGTCA
194 AACAAGTGAGGCGGTCA
* *
16540245 TCTTCTTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCGATGTGAGCGAAAC
1 TCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCAATGTGAGCGAAAC
* * * * * *
16540310 TTCGAA-CCTAGCTTCCTGATGAGGTATTGAGAAGCA-GTCGAAGCAATAAAGCGGTCGTCTTCT
66 TTCAAACCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAGTGGTCATCTTCC
** * *
16540373 TGATGAGATAAAGAGAAGTGGACCAAA-TCTGTCTTCCTGATGAGATACAAAGAAGCGGATCAAA
131 TGATGAGATACTGAGAAGTGGACCAAATTC-GTCTTCCTGATGAGATACAGAGAAGCGGATTAAA
* * *
16540437 ATAAGTGATGTGGTCA
195 ACAAGTGAGGCGGTCA
* * * * *
16540453 TCTTTCTGATGAGACACTGAGAAGTAGACCAAGTTAATGAAACCAAAGCTCGATGTGAGCGAAAC
1 TCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCAATGTGAGCGAAAC
* * * * *
16540518 TTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCA-GTCGAAGCAATAAAATGGTCAACTTCC
66 TTCAAACCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAGTGGTCATCTTCC
*
16540582 TGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAA
131 TGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTAAAA
* *
16540647 CAAATAAGGCGGTCA
196 CAAGTGAGGCGGTCA
* * * * *
16540662 TCTTCTTGATTAGATACAGAGAAGTATACCAACTCAATGAAA-CAAAGCTCAATGTGAGCGAAAC
1 TCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCAATGTGAGCGAAAC
* ** * * * *
16540726 TTCAAACCCCAGTTTTTTGATGAGGTATTGAGAAGCAGGTCGAAACAATAAAGCGGTCGTCTTCC
66 TTCAAACCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAGTGGTCATCTTCC
*
16540791 TGATGAG--A-T----AGTGGACCAAAATT-GTCTTCCTGATGAGATATAGAGAAGCGGATTAAA
131 TGATGAGATACTGAGAAGTGGACC-AAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTAAA
*
16540848 ACAAGTGAGGCCGTCA
195 ACAAGTGAGGCGGTCA
* * * *
16540864 TCTTCCTGATGAGATA-TAGAGAAGTATACCAACTCAATGAAA-CAAAGCTCAATGCGAGCAAAA
1 TCTTCCTGATGAGATACT-GAGAAGTAGACCAAATCAATGAAACCAAAGCTCAATGTGAGCGAAA
* * * * *
16540927 CTTCAAACTCCAACTTCTTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTC
65 CTTCAAACCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAGTGGTCATCTTC
16540992 CTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTAAA
130 CTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTAAA
*
16541057 ACAAGTGAGGCGGCCA
195 ACAAGTGAGGCGGTCA
* * * *
16541073 TCTTCCTAATGAGATA-TAGAGAAGTATACCAAATCAAT-AAAACAAAGTTCAATGTGAGCGAAA
1 TCTTCCTGATGAGATACT-GAGAAGTAGACCAAATCAATGAAACCAAAGCTCAATGTGAGCGAAA
* * * * *
16541136 CTTCAAACACCATCTTCTTAATGAGATATTGAGAAGCAGGTCGAAGCAATAAAGTGGTCATTTTC
65 CTTCAAACCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAGTGGTCATCTTC
* * * * * *
16541201 CTGACGAAATGCGGAGAAGTGAACCAAATCCGTCTTC
130 CTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTC
16541238 TTAGTGAAAT
Statistics
Matches: 866, Mismatches: 107, Indels: 38
0.86 0.11 0.04
Matches are distributed among these distances:
202 173 0.20
203 5 0.01
204 1 0.00
205 1 0.00
206 42 0.05
207 111 0.13
208 151 0.17
209 380 0.44
210 2 0.00
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (210 bp):
TCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGCTCAATGTGAGCGAAAC
TTCAAACCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAGTGGTCATCTTCC
TGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTAAAA
CAAGTGAGGCGGTCA
Found at i:16540972 original size:411 final size:411
Alignment explanation
Indices: 16540038--16541204 Score: 1546
Period size: 411 Copynumber: 2.8 Consensus size: 411
16540028 ACCAGATCCG
* * * * *
16540038 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCT
1 TCTTCCTGATGAGATATAGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACT
* * *
16540103 TCAAACCCTAGCTTCCTT-ATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTTACCTTCC
66 TCAAACCC-AGCTT-CTTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAACTTCC
* * * *
16540167 TGATGAGATA-TAGAGAAGT-GACCAGATTCGTCTTCCTGATGAGGTACAGAGAAGTGGATCAAA
129 TGATGAGATACT-GAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTAAA
* * * *
16540230 A-TAACGAGGCGGTCATCTTCTTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAAGC
193 ACAAATGAGGCGGTCATCTTCTTGATGAGATACAGAGAAGTATACCAAATCAATGAAA-CAAAGC
* * * * *
16540294 TCGATGTGAGCGAAACTTCGAA-CCTAGCTTCCTGATGAGGTATTGAGAAGCA-GTCGAAGCAAT
257 TCAATGTGAGCGAAACTTCAAACCCCAGTTTCTTGATGAGGTATTGAGAAGCAGGTCGAAGCAAT
*
16540357 AAAGCGGTCGTCTTCTTGATGAGATAAAGAGAAGTGGACCAAATCTGTCTTCCTGATGAGATACA
322 AAAGCGGTCGTCTTCCTGATGAGAT------AAGTGGACCAAATCTGTCTTCCTGATGAGATACA
* * **
16540422 AAGAAGCGGATCAAAATAAGTGATGTGGTCA
381 AAGAAGCGGATCAAAACAAGTGAGGCCGTCA
* * * * * *
16540453 TCTTTCTGATGAGACACT-GAGAAGTAGACCAAGTTAATGAAACCAAAGCTCGATGTGAGCGAAA
1 TCTTCCTGATGAGATA-TAGAGAAGTAGACCAAATCAATGAAA-CAAAGCTCAATGTGAGCAAAA
* * *
16540517 CTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCA-GTCGAAGCAATAAAATGGTCAACTTC
64 CTTC-AAACCCAGCTTCTTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAACTTC
*
16540581 CTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAA
128 CTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTAAA
* * *
16540646 ACAAATAAGGCGGTCATCTTCTTGATTAGATACAGAGAAGTATACCAACTCAATGAAACAAAGCT
193 ACAAATGAGGCGGTCATCTTCTTGATGAGATACAGAGAAGTATACCAAATCAATGAAACAAAGCT
* *
16540711 CAATGTGAGCGAAACTTCAAACCCCAGTTTTTTGATGAGGTATTGAGAAGCAGGTCGAAACAATA
258 CAATGTGAGCGAAACTTCAAACCCCAGTTTCTTGATGAGGTATTGAGAAGCAGGTCGAAGCAATA
* *
16540776 AAGCGGTCGTCTTCCTGATGAGAT-AGTGGACCAAAAT-TGTCTTCCTGATGAGATATAGAGAAG
323 AAGCGGTCGTCTTCCTGATGAGATAAGTGGACC-AAATCTGTCTTCCTGATGAGATACAAAGAAG
*
16540839 CGGATTAAAACAAGTGAGGCCGTCA
387 CGGATCAAAACAAGTGAGGCCGTCA
* * *
16540864 TCTTCCTGATGAGATATAGAGAAGTATACCAACTCAATGAAACAAAGCTCAATGCGAGCAAAACT
1 TCTTCCTGATGAGATATAGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACT
* * *
16540929 TCAAACTCCAACTTCTTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCT
66 TCAAAC-CCAGCTTCTTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAACTTCCT
16540994 GATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTAAAAC
130 GATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTAAAAC
* * * * * * *
16541059 AAGTGAGGCGGCCATCTTCCTAATGAGATATAGAGAAGTATACCAAATCAATAAAACAAAGTTCA
195 AAATGAGGCGGTCATCTTCTTGATGAGATACAGAGAAGTATACCAAATCAATGAAACAAAGCTCA
* * *
16541124 ATGTGAGCGAAACTTCAAACACCA-TCTTCTTAATGAGATATTGAGAAGCAGGTCGAAGCAATAA
260 ATGTGAGCGAAACTTCAAACCCCAGT-TTCTTGATGAGGTATTGAGAAGCAGGTCGAAGCAATAA
* * *
16541188 AGTGGTCATTTTCCTGA
324 AGCGGTCGTCTTCCTGA
16541205 CGAAATGCGG
Statistics
Matches: 661, Mismatches: 77, Indels: 32
0.86 0.10 0.04
Matches are distributed among these distances:
409 3 0.00
410 49 0.07
411 304 0.46
412 4 0.01
415 79 0.12
416 108 0.16
417 80 0.12
418 34 0.05
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (411 bp):
TCTTCCTGATGAGATATAGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACT
TCAAACCCAGCTTCTTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAACTTCCTG
ATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTAAAACA
AATGAGGCGGTCATCTTCTTGATGAGATACAGAGAAGTATACCAAATCAATGAAACAAAGCTCAA
TGTGAGCGAAACTTCAAACCCCAGTTTCTTGATGAGGTATTGAGAAGCAGGTCGAAGCAATAAAG
CGGTCGTCTTCCTGATGAGATAAGTGGACCAAATCTGTCTTCCTGATGAGATACAAAGAAGCGGA
TCAAAACAAGTGAGGCCGTCA
Found at i:16543418 original size:30 final size:29
Alignment explanation
Indices: 16543382--16543607 Score: 187
Period size: 30 Copynumber: 7.7 Consensus size: 29
16543372 GTCCCTGAAT
*
16543382 TTTCCAAAAATCACATTTTGACTCCCAAAC
1 TTTCCAAAAATTACATTTTGAC-CCCAAAC
*
16543412 TTTCCAAAAATTACATTTTAACCCTCAAAC
1 TTTCCAAAAATTACATTTTGACCC-CAAAC
* *
16543442 -TTCACAAAAATTACATTTTTACCCCCTGAAC
1 TTTC-CAAAAATTACATTTTGA-CCCC-AAAC
*
16543473 -TTCACAAAAATTACATTTT-ACCCTAAAC
1 TTTC-CAAAAATTACATTTTGACCCCAAAC
* *
16543501 TTTCTAAAAATTACATTTTGGCCCCTAAAC
1 TTTCCAAAAATTACATTTTGACCCC-AAAC
* *
16543531 -TTCC-AAAATTACCATTTTTGACCCCGAAT
1 TTTCCAAAAATTA-CA-TTTTGACCCCAAAC
* *
16543560 TTTCCAAAAATTATCGTTTT-ACCCTC-AAG
1 TTTCCAAAAATTA-CATTTTGACCC-CAAAC
* *
16543589 GTTCCAAAAATTGCATTTT
1 TTTCCAAAAATTACATTTT
16543608 CTCCCTCGAG
Statistics
Matches: 165, Mismatches: 19, Indels: 26
0.79 0.09 0.12
Matches are distributed among these distances:
28 29 0.18
29 38 0.23
30 65 0.39
31 33 0.20
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (29 bp):
TTTCCAAAAATTACATTTTGACCCCAAAC
Found at i:16543569 original size:59 final size:57
Alignment explanation
Indices: 16543378--16543607 Score: 191
Period size: 59 Copynumber: 3.9 Consensus size: 57
16543368 AAAGGTCCCT
*
16543378 GAATTTTCCAAAAATCACATTTTGACTCCC-AAACTTTCCAAAAATTACATTTTAACCCTC
1 GAATTTTCCAAAAATTACATTTTGAC-CCCTAAAC-TTCCAAAAATTACATTTT-ACCC-C
** * * *
16543438 -AAACTTCACAAAAATTACATTTTTACCCCCTGAACTTCACAAAAATTACATTTTACCCT
1 GAATTTTC-CAAAAATTACATTTTGA-CCCCTAAACTTC-CAAAAATTACATTTTACCCC
* * * *
16543497 AAACTTTCTAAAAATTACATTTTGGCCCCTAAACTTCC-AAAATTACCATTTTTGACCCC
1 GAATTTTCCAAAAATTACATTTTGACCCCTAAACTTCCAAAAATTA-CA-TTTT-ACCCC
* ** *
16543556 GAATTTTCCAAAAATTATCGTTTT-A-CCCTCAAGGTTCCAAAAATTGCATTTT
1 GAATTTTCCAAAAATTA-CATTTTGACCCCT-AAACTTCCAAAAATTACATTTT
16543608 CTCCCTCGAG
Statistics
Matches: 138, Mismatches: 21, Indels: 24
0.75 0.11 0.13
Matches are distributed among these distances:
56 7 0.05
57 3 0.02
58 23 0.17
59 45 0.33
60 41 0.30
61 19 0.14
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (57 bp):
GAATTTTCCAAAAATTACATTTTGACCCCTAAACTTCCAAAAATTACATTTTACCCC
Found at i:16543637 original size:29 final size:30
Alignment explanation
Indices: 16543561--16543637 Score: 74
Period size: 29 Copynumber: 2.6 Consensus size: 30
16543551 ACCCCGAATT
16543561 TTCCAAAAATTA-TCGTTT-TACCCTCAAGG
1 TTCCAAAAATTACT-GTTTCTACCCTCAAGG
* *
16543590 TTCCAAAAATTGCAT-TTTCT-CCCTCGA-G
1 TTCCAAAAATTAC-TGTTTCTACCCTCAAGG
16543618 TGTCCAAAAATTACTGTTTC
1 T-TCCAAAAATTACTGTTTC
16543638 GCTTTTCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
28 3 0.08
29 35 0.88
30 1 0.03
31 1 0.03
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (30 bp):
TTCCAAAAATTACTGTTTCTACCCTCAAGG
Found at i:16543952 original size:97 final size:97
Alignment explanation
Indices: 16543843--16544036 Score: 284
Period size: 97 Copynumber: 2.0 Consensus size: 97
16543833 TAAACCTTTA
* *
16543843 AAATCGAGGCAATATTCCTTTATTTC-GAATTTCGAAAA-TTTGTGTCTTAACTTACTAGGCGCA
1 AAATCGAGGCAATATTCCTTTATCTCTG-ATTT-GAAAATTTTGTGCCTTAACTTACTAGGCGCA
*
16543906 ATTTTTCTTCAAATCGGGATAATCGAATACCCTT
64 ACTTTTCTTCAAATCGGGATAATCGAATACCCTT
* * * *
16543940 AAATCGAGGCAATGTTTCTTTATCTCTGATTTTAAAATTTTGTGCCTTAACTTACTAGGCGCGAC
1 AAATCGAGGCAATATTCCTTTATCTCTGATTTGAAAATTTTGTGCCTTAACTTACTAGGCGCAAC
*
16544005 TTTTCTTCAAATCGGGATAATCGAATATCCTT
66 TTTTCTTCAAATCGGGATAATCGAATACCCTT
16544037 TTTCCAAGGT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
96 4 0.05
97 82 0.94
98 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (97 bp):
AAATCGAGGCAATATTCCTTTATCTCTGATTTGAAAATTTTGTGCCTTAACTTACTAGGCGCAAC
TTTTCTTCAAATCGGGATAATCGAATACCCTT
Found at i:16550983 original size:19 final size:19
Alignment explanation
Indices: 16550959--16550995 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
16550949 AGATTAGTAG
16550959 AAAATAG-TTATAAATAAAA
1 AAAATAGATT-TAAATAAAA
16550978 AAAATAGATTTAAATAAA
1 AAAATAGATTTAAATAAA
16550996 TATGTTAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (19 bp):
AAAATAGATTTAAATAAAA
Found at i:16553459 original size:31 final size:31
Alignment explanation
Indices: 16553408--16553469 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
16553398 AGCCAATGAT
* *
16553408 TTAAATAAAAACTTTTGAATAGTTTTGTGAC
1 TTAAATAAAAACTTTTGAATAATTTTCTGAC
*
16553439 TTAAATGAAAA-TTTTCGAATAATTTTCTGAC
1 TTAAATAAAAACTTTT-GAATAATTTTCTGAC
16553470 CAAATTGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (31 bp):
TTAAATAAAAACTTTTGAATAATTTTCTGAC
Found at i:16556094 original size:18 final size:20
Alignment explanation
Indices: 16556055--16556096 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
16556045 TTAACTAATT
*
16556055 AATA-ATATAAGAAACAATA
1 AATATATATAAGAAACAACA
16556074 AATATATATAA-AAAC-ACA
1 AATATATATAAGAAACAACA
16556092 AATAT
1 AATAT
16556097 GGAAAACTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 8 0.38
20 6 0.29
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (20 bp):
AATATATATAAGAAACAACA
Found at i:16556400 original size:15 final size:13
Alignment explanation
Indices: 16556379--16556417 Score: 60
Period size: 15 Copynumber: 2.8 Consensus size: 13
16556369 AAATGGCATG
16556379 AAAATAAATAACA
1 AAAATAAATAACA
16556392 ACAATATAAATAACA
1 A-AA-ATAAATAACA
16556407 AAAATAAATAA
1 AAAATAAATAA
16556418 AAATTAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAATAAATAACA
Found at i:16559193 original size:21 final size:19
Alignment explanation
Indices: 16559167--16559207 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
16559157 TCATGTTGGT
16559167 TTTCTTTCACGTTTTCTATAC
1 TTTCTTTCAC-TTTTCT-TAC
*
16559188 TTTCTTTCTCTTTTCTTAC
1 TTTCTTTCACTTTTCTTAC
16559207 T
1 T
16559208 CATGTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 9 0.47
ACGTcount: A:0.10, C:0.24, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTCTTTCACTTTTCTTAC
Found at i:16559871 original size:31 final size:31
Alignment explanation
Indices: 16559836--16559914 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
16559826 TCAGGTAGAC
*
16559836 TGTGTGGCCCACACGGGTTAGCTATTTGGGG
1 TGTGTGGGCCACACGGGTTAGCTATTTGGGG
* *
16559867 TGTGTGGGCTACACGGGTTAGCTATTTGGGT
1 TGTGTGGGCCACACGGGTTAGCTATTTGGGG
16559898 TGTGTGGGCCACACGGG
1 TGTGTGGGCCACACGGG
16559915 CGTGTGAGCC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.13, C:0.18, G:0.41, T:0.29
Consensus pattern (31 bp):
TGTGTGGGCCACACGGGTTAGCTATTTGGGG
Found at i:16569827 original size:12 final size:12
Alignment explanation
Indices: 16569810--16569836 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
16569800 ATTTTTGTTC
16569810 TTTAATTTTAAT
1 TTTAATTTTAAT
16569822 TTTAATTTTAAT
1 TTTAATTTTAAT
16569834 TTT
1 TTT
16569837 TTGTTTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTAATTTTAAT
Found at i:16570699 original size:24 final size:24
Alignment explanation
Indices: 16570667--16570740 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
16570657 GTATATTGGT
* *
16570667 TAACTATTCTGGGCTCGTAAGAGC
1 TAACCATTCTAGGCTCGTAAGAGC
16570691 TAACCATTCTAGGCTCGTAAGAGC
1 TAACCATTCTAGGCTCGTAAGAGC
* * *
16570715 GAA-CATTTTAGGCTCGTGAGAGC
1 TAACCATTCTAGGCTCGTAAGAGC
16570738 TAA
1 TAA
16570741 TGTTGTCTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 20 0.45
24 24 0.55
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (24 bp):
TAACCATTCTAGGCTCGTAAGAGC
Found at i:16571159 original size:134 final size:133
Alignment explanation
Indices: 16570961--16571220 Score: 484
Period size: 134 Copynumber: 1.9 Consensus size: 133
16570951 GATCATCTCA
* * *
16570961 AAGAAATCACACTATTGCGGAGCTCGTTTGGTAGTTTTACATCACTTGGTTTTATGGCATGTACT
1 AAGAAATCACACTATTACGGAGCTCATTTGATAGTTTTACATCACTTGGTTTTATGGCATGTACT
16571026 AGGATGTTGTTGTTATATAACTCTTGATTTTGGATGGTGGTTCATTGTTGTAACCTTGGTTGGAT
66 AGGATGTTGTTGTTATATAACTCTTGATTTTGGATGGTGGTTCATTGTTGTAACCTTGGTTGGAT
16571091 AGT
131 AGT
16571094 AAGAAATCACACTATTACGGAGCTCATTTGATAGTTTTTACATCACTTGGTTTTATGGCATGTAC
1 AAGAAATCACACTATTACGGAGCTCATTTGATAG-TTTTACATCACTTGGTTTTATGGCATGTAC
16571159 TAGGATGTTGTTGTTATATAACTCTTGATTTTGGATGGTGGTTCATTGTTGTAACCTTGGTT
65 TAGGATGTTGTTGTTATATAACTCTTGATTTTGGATGGTGGTTCATTGTTGTAACCTTGGTT
16571221 AGGTAGTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
133 31 0.25
134 92 0.75
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (133 bp):
AAGAAATCACACTATTACGGAGCTCATTTGATAGTTTTACATCACTTGGTTTTATGGCATGTACT
AGGATGTTGTTGTTATATAACTCTTGATTTTGGATGGTGGTTCATTGTTGTAACCTTGGTTGGAT
AGT
Found at i:16576707 original size:15 final size:15
Alignment explanation
Indices: 16576683--16576712 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16576673 TTGCATCAGG
16576683 GATCAATTGCATTTA
1 GATCAATTGCATTTA
*
16576698 GATCATTTGCATTTA
1 GATCAATTGCATTTA
16576713 ATTTTAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (15 bp):
GATCAATTGCATTTA
Found at i:16577488 original size:21 final size:20
Alignment explanation
Indices: 16577456--16577555 Score: 110
Period size: 22 Copynumber: 4.8 Consensus size: 20
16577446 TATATTGTTA
16577456 TTTTGGTGTTGTTTTTACTG
1 TTTTGGTGTTGTTTTTACTG
**
16577476 TTTTGGTTGTTGTTCTTTGTTG
1 TTTTGG-TGTTGTT-TTTACTG
*
16577498 CTTTGGTGTTGTTTCTTTACTG
1 TTTTGGTGTTG-TT-TTTACTG
* *
16577520 TTTTGGTGCTTTTTTTTACTA
1 TTTTGGTG-TTGTTTTTACTG
16577541 TTTTGGTGTTGTTTT
1 TTTTGGTGTTGTTTT
16577556 GCTATTATTT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
20 12 0.18
21 26 0.39
22 27 0.40
23 2 0.03
ACGTcount: A:0.04, C:0.07, G:0.23, T:0.66
Consensus pattern (20 bp):
TTTTGGTGTTGTTTTTACTG
Found at i:16577524 original size:22 final size:21
Alignment explanation
Indices: 16577456--16577555 Score: 114
Period size: 21 Copynumber: 4.7 Consensus size: 21
16577446 TATATTGTTA
16577456 TTTTGGTGTTG-TTTTTACTG
1 TTTTGGTGTTGTTTTTTACTG
* **
16577476 TTTTGGTTGTTGTTCTTTGTTG
1 TTTTGG-TGTTGTTTTTTACTG
*
16577498 CTTTGGTGTTGTTTCTTTACTG
1 TTTTGGTGTTGTTT-TTTACTG
*
16577520 TTTTGGTGCTT-TTTTTTACTA
1 TTTTGGTG-TTGTTTTTTACTG
16577541 TTTTGGTGTTGTTTT
1 TTTTGGTGTTGTTTT
16577556 GCTATTATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
20 8 0.12
21 30 0.45
22 26 0.39
23 2 0.03
ACGTcount: A:0.04, C:0.07, G:0.23, T:0.66
Consensus pattern (21 bp):
TTTTGGTGTTGTTTTTTACTG
Found at i:16577746 original size:12 final size:12
Alignment explanation
Indices: 16577729--16577753 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16577719 ATTTTTTATT
16577729 TTTTAATGTTTG
1 TTTTAATGTTTG
16577741 TTTTAATGTTTG
1 TTTTAATGTTTG
16577753 T
1 T
16577754 AAGTGTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (12 bp):
TTTTAATGTTTG
Found at i:16578720 original size:28 final size:28
Alignment explanation
Indices: 16578662--16578721 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
16578652 TTGAGCGGTG
***
16578662 AAATATTAAATATATTTTATTTAATATA
1 AAATATTAAATATATTTTAGGAAATATA
* *
16578690 AAATATTAAAATTTATTTTAGGAAATAAA
1 AAATATT-AAATATATTTTAGGAAATATA
16578719 AAA
1 AAA
16578722 ACATAATCGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (28 bp):
AAATATTAAATATATTTTAGGAAATATA
Found at i:16590935 original size:36 final size:36
Alignment explanation
Indices: 16590862--16590938 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
16590852 ATGGGCCACC
* *
16590862 CACACAATCTACAAAAATTCACACGGCCATGTGCTA
1 CACACAATCTACAAAAATTAACACGACCATGTGCTA
* * * * *
16590898 CACACAGTCTACAAAACTTAACACGATCGTGTTCTA
1 CACACAATCTACAAAAATTAACACGACCATGTGCTA
16590934 CACAC
1 CACAC
16590939 GGCCAGCACA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.38, C:0.31, G:0.10, T:0.21
Consensus pattern (36 bp):
CACACAATCTACAAAAATTAACACGACCATGTGCTA
Found at i:16595565 original size:3 final size:3
Alignment explanation
Indices: 16595559--16595602 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
16595549 ATTATTATTA
*
16595559 TTG TTG TTG TTG TTG TTG TTG TTG CTG TTG TTG TTG TTG -TG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
16595603 CTGCTGTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.00, C:0.02, G:0.34, T:0.64
Consensus pattern (3 bp):
TTG
Found at i:16605661 original size:24 final size:23
Alignment explanation
Indices: 16605612--16605668 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
16605602 AATGTTCACA
*
16605612 AACATGTTCATTTAACTTAATCG
1 AACATGTTCATTGAACTTAATCG
*
16605635 AACATGTTCA-TGAACATATAATTG
1 AACATGTTCATTGAAC-T-TAATCG
16605659 AACATGTTCA
1 AACATGTTCA
16605669 CGAAAAATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 4 0.13
23 11 0.37
24 15 0.50
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.35
Consensus pattern (23 bp):
AACATGTTCATTGAACTTAATCG
Found at i:16605779 original size:11 final size:12
Alignment explanation
Indices: 16605762--16605794 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
16605752 ATCATTAATA
16605762 AATAAACAAGCC
1 AATAAACAAGCC
16605774 -ATAAAC-AGCC
1 AATAAACAAGCC
16605784 AATAAACAAGC
1 AATAAACAAGC
16605795 TTGTTCGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 4 0.21
11 12 0.63
12 3 0.16
ACGTcount: A:0.58, C:0.24, G:0.09, T:0.09
Consensus pattern (12 bp):
AATAAACAAGCC
Found at i:16606297 original size:29 final size:30
Alignment explanation
Indices: 16606258--16606321 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
16606248 ACTTAAGTAT
*
16606258 AAATTGAAAAT-TAGAGATTTATTTGGATA-
1 AAATTGAAAATAAAG-GATTTATTTGGATAC
*
16606287 AAATTTAAAATAAAGGATTTATTTGGATAC
1 AAATTGAAAATAAAGGATTTATTTGGATAC
16606317 AAATT
1 AAATT
16606322 AAGCTTAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.47, C:0.02, G:0.14, T:0.38
Consensus pattern (30 bp):
AAATTGAAAATAAAGGATTTATTTGGATAC
Found at i:16617944 original size:18 final size:18
Alignment explanation
Indices: 16617923--16617961 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
16617913 TAACACAACC
* *
16617923 AAAAATGAAGATTTAAAT
1 AAAAAGGAAGAATTAAAT
*
16617941 AAAAAGGGAGAATTAAAT
1 AAAAAGGAAGAATTAAAT
16617959 AAA
1 AAA
16617962 CAAAAAAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21
Consensus pattern (18 bp):
AAAAAGGAAGAATTAAAT
Found at i:16618303 original size:145 final size:145
Alignment explanation
Indices: 16618023--16618303 Score: 343
Period size: 145 Copynumber: 1.9 Consensus size: 145
16618013 GGAGAAATAA
* * *
16618023 CTAGCATGATAGAGATCAAGAGATGGAATTTTCAATGTGAGAACACGGAGGTTGATGGTAATGAC
1 CTAGCATGATAGAGATCAAGAGATGGAATTTTCAATGTGAGAACACGGAGGTTGATAGCAACGAC
*** * * *
16618088 CATGATGGCTGGCGGTGACAGTTATTAGAAATGAAAAAGCAGTGCTTCTTCAACTTTTTTCTGGA
66 CATGATGGCTGGCAAAGACAGCTATCAGAAATGAAAAAGCAGTGCTTCTTCAACATTTTTCTGGA
16618153 TTTTTTTGCACTCTT
131 TTTTTTTGCACTCTT
* * * * * *
16618168 CTAGCATGATGGAGA-CTAAGAGATGGAATTTTTAGTGTGAGGACACGGCGGTTGATAGCGACGA
1 CTAGCATGATAGAGATC-AAGAGATGGAATTTTCAATGTGAGAACACGGAGGTTGATAGCAACGA
* * *
16618232 CCATGATGGCTGGCAAAGACAGCTATCA-AAATTGAAATCA-CAGTGTTTGTTCCAACATTTTTC
65 CCATGATGGCTGGCAAAGACAGCTATCAGAAA-TGAAA-AAGCAGTGCTTCTT-CAACATTTTTC
16618295 TGGATTTTT
127 TGGATTTTT
16618304 GTTATTACAT
Statistics
Matches: 114, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
144 4 0.04
145 90 0.79
146 20 0.18
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (145 bp):
CTAGCATGATAGAGATCAAGAGATGGAATTTTCAATGTGAGAACACGGAGGTTGATAGCAACGAC
CATGATGGCTGGCAAAGACAGCTATCAGAAATGAAAAAGCAGTGCTTCTTCAACATTTTTCTGGA
TTTTTTTGCACTCTT
Found at i:16619299 original size:72 final size:73
Alignment explanation
Indices: 16619182--16619327 Score: 267
Period size: 72 Copynumber: 2.0 Consensus size: 73
16619172 TTAATGTGAC
*
16619182 TATTACATAATATTCCAAGAAGCATTTTCATGGAGGGTTAATCTATTGCATTGTTCTTCTAA-AT
1 TATTACATAATATTCCAAGAAGCATTTTCATGGAGGGTTAATCTATTACATTGTTCTTCTAACAT
16619246 TTACCCAT
66 TTACCCAT
*
16619254 TATTACATAATATTCCAAGAAGCATTTTCATGGAGGGTTAATCTATTATATTGTTCTTCTAACAT
1 TATTACATAATATTCCAAGAAGCATTTTCATGGAGGGTTAATCTATTACATTGTTCTTCTAACAT
16619319 TTACCCAT
66 TTACCCAT
16619327 T
1 T
16619328 CAGTGACTCA
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
72 60 0.85
73 11 0.15
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (73 bp):
TATTACATAATATTCCAAGAAGCATTTTCATGGAGGGTTAATCTATTACATTGTTCTTCTAACAT
TTACCCAT
Found at i:16621851 original size:2 final size:2
Alignment explanation
Indices: 16621844--16621885 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
16621834 TGTGTTTTAA
16621844 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16621886 GTAAATATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16622379 original size:427 final size:427
Alignment explanation
Indices: 16621912--16622736 Score: 1533
Period size: 427 Copynumber: 1.9 Consensus size: 427
16621902 TGTGTGTATA
* *
16621912 TATATATATACACTTAATGAATCTTGAAGGATATGACATTGATATAAAAGTTGAGTTTGGACTTA
1 TATATATATACACTTAATGAATCTTGAAAGAAATGACATTGATATAAAAGTTGAGTTTGGACTTA
* *
16621977 AATGAAAGGTATTTATATTTTTATGGGATAATTAAACTATGTGTAGAGTATTGCACGATATTGAG
66 AATAAAAGGTATTTATATTTTTATGGGATAATTAAACTATGTGAAGAGTATTGCACGATATTGAG
*
16622042 ATGAATTTAATATATGCTTTAGTATTGGAACTGTTGTGACAACATGAATATCCAAAATCTTGAAT
131 ATGAATTTAATACATGCTTTAGTATTGGAACTGTTGTGACAACATGAATATCCAAAATCTTGAAT
16622107 AAGTGCTCTTAATAGTACTTTCGTACTCTTGTTAGCACTACGATGCTCCTGATAACACTACAGTG
196 AAGTGCTCTTAATAGTACTTTCGTACTCTTGTTAGCACTACGATGCTCCTGATAACACTACAGTG
* *
16622172 CTCTTGATAGCATATTCGTGCTTCTGTTAGCACTGTGGTGCTCCTAATAGCACATTAGTTTTCCT
261 CTCTTGATAGCACATTCGTGCTTCTGTTAGCACTGTGGTGCTCCTAATAGCACATTAGTTCTCCT
*
16622237 GTTAGCACACTTCGGTGCTCCAATATGCACTTCCGTGCCCTATTTACCACCCCTAGTGTATCTTG
326 GTTAGCACACTTCGGTGCTCCAATATGCACTTCCGTACCCTATTTACCACCCCTAGTGTATCTTG
16622302 ATACGGTATATATATATATAAATGTTGATTAAGTGTG
391 ATACGGTATATATATATATAAATGTTGATTAAGTGTG
16622339 TATATATATACACTTAATGAATCTTGAAAGAAATGACATTGATATAAAAGTTGAGTTTGGACTTA
1 TATATATATACACTTAATGAATCTTGAAAGAAATGACATTGATATAAAAGTTGAGTTTGGACTTA
16622404 AATAAAAGGTATTTATATTTTTATGGGATAATTAAACTATGTGAAGAGTATTGCACGATATTGAG
66 AATAAAAGGTATTTATATTTTTATGGGATAATTAAACTATGTGAAGAGTATTGCACGATATTGAG
* * *
16622469 ATGAGTTTAATACATGCTTTAGTATTGGAAGTGTTGTGACAACATGAATGTCCAAAATCTTGAAT
131 ATGAATTTAATACATGCTTTAGTATTGGAACTGTTGTGACAACATGAATATCCAAAATCTTGAAT
16622534 AAGTGCTCTTAATAGTACTTTCGTACTCTTGTTAGCACTACGATGCTCCTGATAACACTACAGTG
196 AAGTGCTCTTAATAGTACTTTCGTACTCTTGTTAGCACTACGATGCTCCTGATAACACTACAGTG
16622599 CTCTTGATAGCACATTCGTGCTTCTGTTAGCACTGTGGTGCTCCTAATAGCACATTAGTTCTCCT
261 CTCTTGATAGCACATTCGTGCTTCTGTTAGCACTGTGGTGCTCCTAATAGCACATTAGTTCTCCT
* *
16622664 GTTAGCACACTTCGGTGCTCCAGTGTGCACTTCCGTACCCTATTTACCACCCCTAGTGTATCTTG
326 GTTAGCACACTTCGGTGCTCCAATATGCACTTCCGTACCCTATTTACCACCCCTAGTGTATCTTG
16622729 ATACGGTA
391 ATACGGTA
16622737 GCCCGTATAT
Statistics
Matches: 385, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
427 385 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (427 bp):
TATATATATACACTTAATGAATCTTGAAAGAAATGACATTGATATAAAAGTTGAGTTTGGACTTA
AATAAAAGGTATTTATATTTTTATGGGATAATTAAACTATGTGAAGAGTATTGCACGATATTGAG
ATGAATTTAATACATGCTTTAGTATTGGAACTGTTGTGACAACATGAATATCCAAAATCTTGAAT
AAGTGCTCTTAATAGTACTTTCGTACTCTTGTTAGCACTACGATGCTCCTGATAACACTACAGTG
CTCTTGATAGCACATTCGTGCTTCTGTTAGCACTGTGGTGCTCCTAATAGCACATTAGTTCTCCT
GTTAGCACACTTCGGTGCTCCAATATGCACTTCCGTACCCTATTTACCACCCCTAGTGTATCTTG
ATACGGTATATATATATATAAATGTTGATTAAGTGTG
Found at i:16622619 original size:20 final size:19
Alignment explanation
Indices: 16622536--16622651 Score: 63
Period size: 20 Copynumber: 5.8 Consensus size: 19
16622526 TCTTGAATAA
* *
16622536 GTGCTCTTAATAGTACTTTC
1 GTGCTCTTGATAGCAC-TTC
* * *
16622556 GTACTCTTGTTAGCACTAC
1 GTGCTCTTGATAGCACTTC
* * *
16622575 GATGCTCCTGATAACACTAC
1 G-TGCTCTTGATAGCACTTC
16622595 AGTGCTCTTGATAGCACATTC
1 -GTGCTCTTGATAGCAC-TTC
* *
16622616 GTGCT-TCTGTTAGCACTGTG
1 GTGCTCT-TGATAGCACT-TC
* *
16622636 GTGCTCCTAATAGCAC
1 GTGCTCTTGATAGCAC
16622652 ATTAGTTCTC
Statistics
Matches: 73, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
19 5 0.07
20 65 0.89
21 3 0.04
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (19 bp):
GTGCTCTTGATAGCACTTC
Found at i:16622640 original size:40 final size:40
Alignment explanation
Indices: 16622596--16622671 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
16622586 TAACACTACA
* * * *
16622596 GTGCTCTTGATAGCACATTCGTGCTTCTGTTAGCACTGTG
1 GTGCTCCTAATAGCACATTAGTGCTCCTGTTAGCACTGTG
*
16622636 GTGCTCCTAATAGCACATTAGTTCTCCTGTTAGCAC
1 GTGCTCCTAATAGCACATTAGTGCTCCTGTTAGCAC
16622672 ACTTCGGTGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (40 bp):
GTGCTCCTAATAGCACATTAGTGCTCCTGTTAGCACTGTG
Found at i:16622669 original size:20 final size:20
Alignment explanation
Indices: 16622595--16622672 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
16622585 ATAACACTAC
* *
16622595 AGTGCTCTTGATAGCACATT
1 AGTGCTCCTGTTAGCACATT
* *
16622615 CGTGCTTCTGTTAGCAC-TGT
1 AGTGCTCCTGTTAGCACAT-T
* **
16622635 GGTGCTCCTAATAGCACATT
1 AGTGCTCCTGTTAGCACATT
*
16622655 AGTTCTCCTGTTAGCACA
1 AGTGCTCCTGTTAGCACA
16622673 CTTCGGTGCT
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.95
21 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (20 bp):
AGTGCTCCTGTTAGCACATT
Found at i:16630757 original size:19 final size:20
Alignment explanation
Indices: 16630720--16630757 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16630710 TGAAAAAAAT
16630720 AAAATATATAAACTTTAAAC
1 AAAATATATAAACTTTAAAC
16630740 AAAATATATAAA-TTTAAA
1 AAAATATATAAACTTTAAA
16630758 AATAGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATATATAAACTTTAAAC
Found at i:16632219 original size:15 final size:15
Alignment explanation
Indices: 16632199--16632229 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16632189 GAATTACTAG
16632199 TATAAGAAATGATAT
1 TATAAGAAATGATAT
*
16632214 TATAAGAAATGTTAT
1 TATAAGAAATGATAT
16632229 T
1 T
16632230 TAGTCACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (15 bp):
TATAAGAAATGATAT
Found at i:16634631 original size:32 final size:32
Alignment explanation
Indices: 16634577--16634657 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 32
16634567 AAACTTTTAG
**
16634577 CTTTTAAGGG-CCCAAAATTTTTTTTTGCCAA
1 CTTTTAAGGGACTTAAAATTTTTTTTTGCCAA
* *
16634608 CTTTTAAGGGACTTAAAATTTTTTTTTTCTAA
1 CTTTTAAGGGACTTAAAATTTTTTTTTGCCAA
**
16634640 CTTTTAAGCAACTTAAAA
1 CTTTTAAGGGACTTAAAA
16634658 CCCCATTGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 10 0.23
32 33 0.77
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (32 bp):
CTTTTAAGGGACTTAAAATTTTTTTTTGCCAA
Found at i:16635763 original size:27 final size:27
Alignment explanation
Indices: 16635733--16635788 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
16635723 TGCCAAAATG
* *
16635733 TTTACAAATTATAGGAAT-GACAAACTA
1 TTTACAAAATAAAGGAATGGA-AAACTA
16635760 TTTACAAAATAAAGGAATGGAAAACTA
1 TTTACAAAATAAAGGAATGGAAAACTA
16635787 TT
1 TT
16635789 GCCAAATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (27 bp):
TTTACAAAATAAAGGAATGGAAAACTA
Found at i:16637306 original size:33 final size:33
Alignment explanation
Indices: 16637261--16637350 Score: 117
Period size: 33 Copynumber: 2.7 Consensus size: 33
16637251 TTAAACCTAC
* *
16637261 CAGACCACAAACAAACATTTAATACGTCATTAA
1 CAGACCACAAACAAACATTTAATACATCACTAA
* * * *
16637294 CAGACCATAAACAAACTTTTAATACATTACTAT
1 CAGACCACAAACAAACATTTAATACATCACTAA
*
16637327 CAGACCAGAAACAAACATTTAATA
1 CAGACCACAAACAAACATTTAATA
16637351 TAACACAGGC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.49, C:0.22, G:0.06, T:0.23
Consensus pattern (33 bp):
CAGACCACAAACAAACATTTAATACATCACTAA
Found at i:16637793 original size:41 final size:42
Alignment explanation
Indices: 16637744--16637843 Score: 120
Period size: 41 Copynumber: 2.4 Consensus size: 42
16637734 ATATATATAT
16637744 ATATATATATCTGTCAAAC-AGTACTTGAATATATATG-GAGC
1 ATATATATATCTGTCAAACTAGTACTTGAATATATA-GAGAGC
**
16637785 ATATATATA---AACAAACTATAGTACTTGAATATATAGAGAGC
1 ATATATATATCTGTCAAAC--TAGTACTTGAATATATAGAGAGC
16637826 ATATATATATCTGTCAAA
1 ATATATATATCTGTCAAA
16637844 TATAAAATGA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
38 5 0.10
40 1 0.02
41 38 0.79
44 4 0.08
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (42 bp):
ATATATATATCTGTCAAACTAGTACTTGAATATATAGAGAGC
Found at i:16642469 original size:152 final size:151
Alignment explanation
Indices: 16641959--16642469 Score: 548
Period size: 143 Copynumber: 3.4 Consensus size: 151
16641949 TGATTAAAAC
* *
16641959 AAAATCATTACTTTACTTCAAAAT-CAAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAATT
1 AAAATCACTACTTTACTTAAAAATCCAAAA-TTTTATTTCGAAATAGTTAAAAAAAATCAAAATT
* * * *
16642023 TTTTCAAAATTTTAAAATTTAAATTTTTTTTTCTTTAAAATCACT-AAAAACATA-ATTTTATTT
65 TTGT-----TTTAAAAATTT-AA--TCTTTTTCTTTAAAATAACTAAAAAACATATA-TTTATTT
* *
16642086 TTTAAAAATCTAATCTTTCTTTCTTTTTTTAATG
121 TTT-AAAATCTAAAC-TT-TTTCTTTTTTTAAAG
* * * *
16642120 AAAATCACTACTTTACTTAAAAATCCAAATTTTTATTTTGAAATAGTT--AAAAACTCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCCAAAATTTTATTTCGAAATAGTTAAAAAAAATCAAAATTT
* * * * *
16642183 TG-TTTAAAAATTTAAACTTTTTCCTTAAAATTACTAAAAAACAGATTTTTATTTTTTTAAAATC
66 TGTTTTAAAAATTTAATCTTTTTCTTTAAAATAACTAAAAAACATATATTTA-TTTTTTAAAATC
16642247 TAAA------CTTTTTTTAATA-
130 TAAACTTTTTCTTTTTTTAA-AG
* *
16642263 AAAATCACTACTTTACTTAAAAATCCAAATTTTTATTTCGAAATAATTAAAAAAAAATCAAAATT
1 AAAATCACTACTTTACTTAAAAATCCAAAATTTTATTTCGAAATAGTT-AAAAAAAATCAAAATT
16642328 TTGTTTTAAAAATTTAATCTTTTTCTTTAAAATAACTAAAAAACATATATTTA-TTTTTAAAGAT
65 TTGTTTTAAAAATTTAATCTTTTTCTTTAAAATAACTAAAAAACATATATTTATTTTTTAAA-AT
*
16642392 ATAAACTTTTTCTTTTTTTAAAG
129 CTAAACTTTTTCTTTTTTTAAAG
* * *
16642415 AAAATCATTATTTTACTTAAAAAT-CAAAATTTTATTTCGAAATTATTTAAAAAAA
1 AAAATCACTACTTTACTTAAAAATCCAAAATTTTATTTCGAAA-TAGTTAAAAAAA
16642470 CAAAACTTTT
Statistics
Matches: 302, Mismatches: 30, Indels: 46
0.80 0.08 0.12
Matches are distributed among these distances:
143 56 0.19
145 8 0.03
146 21 0.07
147 44 0.15
150 16 0.05
151 46 0.15
152 44 0.15
153 10 0.03
159 14 0.05
161 39 0.13
162 4 0.01
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (151 bp):
AAAATCACTACTTTACTTAAAAATCCAAAATTTTATTTCGAAATAGTTAAAAAAAATCAAAATTT
TGTTTTAAAAATTTAATCTTTTTCTTTAAAATAACTAAAAAACATATATTTATTTTTTAAAATCT
AAACTTTTTCTTTTTTTAAAG
Found at i:16642900 original size:3 final size:3
Alignment explanation
Indices: 16642892--16642925 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
16642882 CATGAAACCT
16642892 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
16642926 GATGATGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:16642930 original size:3 final size:3
Alignment explanation
Indices: 16642924--16642952 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
16642914 AATAATAATA
16642924 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
16642953 TTGGGCTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:16643558 original size:126 final size:126
Alignment explanation
Indices: 16643370--16643749 Score: 331
Period size: 126 Copynumber: 3.1 Consensus size: 126
16643360 GCATCTGGGA
* * *
16643370 CTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGTCTTTAAATGCTATGAAAAGTAAA
1 CTCTAAATGCAATGGAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCTATGAAAAGTAAA
* * * *
16643435 TGGACCTCCACACATAGGCCTCTAAATGCGAGGAAAAACAAATGGATCTCCATACCTGAGC
66 TGGACCTCCACACATAGGCCTCTAAATACGAGGAAAAACAAATGGACCGCCACACCTGAGC
* * * *
16643496 CTCTAAATGCAATGGATAGTAAATGGGCCTCCATA-CTCGGGCCTCTAATTGC-ACTGAAAAGTA
1 CTCTAAATGCAATGGAAAGTAAATGGACCTCCACACCT-GGGCCTCTAAATGCTA-TGAAAAGTA
* * ** * ** * *
16643559 AATGGACCTCCACACTTGGGTTTCTAAATACGATGAAAAGTAAATGGACCGCCACACTTGGGC
64 AATGGACCTCCACACATAGGCCTCTAAATACGAGGAAAAACAAATGGACCGCCACACCTGAGC
* *
16643622 CTCTAAATGC--------G---ATGGACCTCCACACATGGGCCTCTAAATGCGATGAAAAGTAAA
1 CTCTAAATGCAATGGAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCTATGAAAAGTAAA
* * * * * * ** * *
16643676 TGGACCTCCACCCCT-GGGCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACTTG-GAC
66 TGGACCTCCACACATAGGCCTCTAAATACGAGGAAAAACAAATGGACCGCCACACCTGAG-C
*
16643736 CTCTAAATGTAATG
1 CTCTAAATGCAATG
16643750 AATGCTTTGC
Statistics
Matches: 213, Mismatches: 32, Indels: 26
0.79 0.12 0.10
Matches are distributed among these distances:
113 1 0.00
114 47 0.22
115 48 0.23
116 2 0.01
118 1 0.00
125 3 0.01
126 111 0.52
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (126 bp):
CTCTAAATGCAATGGAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCTATGAAAAGTAAA
TGGACCTCCACACATAGGCCTCTAAATACGAGGAAAAACAAATGGACCGCCACACCTGAGC
Found at i:16643635 original size:42 final size:42
Alignment explanation
Indices: 16643365--16643635 Score: 292
Period size: 42 Copynumber: 6.5 Consensus size: 42
16643355 ACTTCGCATC
* * *
16643365 TGGGACTCTAAATGCAATGAAAAGTAAATGGACCTCCACACC
1 TGGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACT
* * * *
16643407 TGGGTCTTTAAATGCTATGAAAAGTAAATGGACCTCCACACA
1 TGGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACT
* * ** * * *
16643449 TAGGCCTCTAAATGCGAGGAAAAACAAATGGATCTCCATACC
1 TGGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACT
* * * * * *
16643491 TGAGCCTCTAAATGCAATGGATAGTAAATGGGCCTCCATACT
1 TGGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACT
* *
16643533 CGGGCCTCTAATTGC-ACTGAAAAGTAAATGGACCTCCACACT
1 TGGGCCTCTAAATGCGA-TGAAAAGTAAATGGACCTCCACACT
** * *
16643575 TGGGTTTCTAAATACGATGAAAAGTAAATGGACCGCCACACT
1 TGGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACT
16643617 TGGGCCTCTAAATGCGATG
1 TGGGCCTCTAAATGCGATG
16643636 GACCTCCACA
Statistics
Matches: 186, Mismatches: 41, Indels: 4
0.81 0.18 0.02
Matches are distributed among these distances:
41 1 0.01
42 184 0.99
43 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (42 bp):
TGGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACT
Found at i:16643645 original size:31 final size:31
Alignment explanation
Indices: 16643602--16643666 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
16643592 TGAAAAGTAA
*
16643602 ATGGACCGCCACACTTGGGCCTCTAAATGCG
1 ATGGACCGCCACACATGGGCCTCTAAATGCG
*
16643633 ATGGACCTCCACACATGGGCCTCTAAATGCG
1 ATGGACCGCCACACATGGGCCTCTAAATGCG
16643664 ATG
1 ATG
16643667 AAAAGTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.20
Consensus pattern (31 bp):
ATGGACCGCCACACATGGGCCTCTAAATGCG
Found at i:16643646 original size:73 final size:72
Alignment explanation
Indices: 16643560--16643703 Score: 216
Period size: 73 Copynumber: 2.0 Consensus size: 72
16643550 TGAAAAGTAA
* ** *
16643560 ATGGACCTCCACACTTGGGTTTCTAAATACGATGAAAAGTAAATGGACCGCCACACTTGGGCCTC
1 ATGGACCTCCACACATGGGCCTCTAAATACGATGAAAAGTAAATGGACCGCCACACCTGGG-CTC
16643625 TAAATGCG
65 TAAATGCG
* * *
16643633 ATGGACCTCCACACATGGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACCCCTGGGCTCT
1 ATGGACCTCCACACATGGGCCTCTAAATACGATGAAAAGTAAATGGACCGCCACACCTGGGCTCT
16643698 AAATGC
66 AAATGC
16643704 AATGAAAAGT
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
72 10 0.16
73 54 0.84
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (72 bp):
ATGGACCTCCACACATGGGCCTCTAAATACGATGAAAAGTAAATGGACCGCCACACCTGGGCTCT
AAATGCG
Found at i:16643694 original size:42 final size:42
Alignment explanation
Indices: 16643633--16643751 Score: 177
Period size: 41 Copynumber: 2.9 Consensus size: 42
16643623 TCTAAATGCG
*
16643633 ATGGACCTCCACACATGGGCCTCTAAATGCGATGAAAAGTAA
1 ATGGACCTCCACACATGGGCCTCTAAATGCAATGAAAAGTAA
* *
16643675 ATGGACCTCCACCCCTGGG-CTCTAAATGCAATGAAAAGTAA
1 ATGGACCTCCACACATGGGCCTCTAAATGCAATGAAAAGTAA
* * *
16643716 ATGGACCTCCACACTTGGACCTCTAAATGTAATGAA
1 ATGGACCTCCACACATGGGCCTCTAAATGCAATGAA
16643752 TGCTTTGCTT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 37 0.54
42 32 0.46
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.21
Consensus pattern (42 bp):
ATGGACCTCCACACATGGGCCTCTAAATGCAATGAAAAGTAA
Found at i:16643739 original size:114 final size:115
Alignment explanation
Indices: 16643534--16643744 Score: 327
Period size: 114 Copynumber: 1.8 Consensus size: 115
16643524 CTCCATACTC
* * * *
16643534 GGGCCTCTAATTGCACTGAAAAGTAAATGGACCTCCACACTTGGGTTTCTAAATACGATGAAAAG
1 GGGCCTCTAAATGCACTGAAAAGTAAATGGACCTCCACACCTGGGTCTCTAAATACAATGAAAAG
*
16643599 TAAATGGACCGCCACACTTGGGCCTCTAAATGCGATGGACCTCCACACAT
66 TAAATGGACCGCCACACTTGGACCTCTAAATGCGATGGACCTCCACACAT
* *
16643649 GGGCCTCTAAATGCGA-TGAAAAGTAAATGGACCTCCACCCCTGGG-CTCTAAATGCAATGAAAA
1 GGGCCTCTAAATGC-ACTGAAAAGTAAATGGACCTCCACACCTGGGTCTCTAAATACAATGAAAA
*
16643712 GTAAATGGACCTCCACACTTGGACCTCTAAATG
65 GTAAATGGACCGCCACACTTGGACCTCTAAATG
16643745 TAATGAATGC
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
114 46 0.53
115 40 0.46
116 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (115 bp):
GGGCCTCTAAATGCACTGAAAAGTAAATGGACCTCCACACCTGGGTCTCTAAATACAATGAAAAG
TAAATGGACCGCCACACTTGGACCTCTAAATGCGATGGACCTCCACACAT
Found at i:16644208 original size:33 final size:34
Alignment explanation
Indices: 16644141--16644207 Score: 102
Period size: 32 Copynumber: 2.0 Consensus size: 34
16644131 CTTTCTCTTG
*
16644141 CTCTCTTTATTTTTTCTTCTTTTTTGTTGTTTTTT
1 CTCTCTTTATTTTTTC-TCTATTTTGTTGTTTTTT
16644176 CTCTCTTT-TTTTTTC-CTATTTTGTTGTTTTTT
1 CTCTCTTTATTTTTTCTCTATTTTGTTGTTTTTT
16644208 TTATTGAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
32 16 0.52
34 7 0.23
35 8 0.26
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (34 bp):
CTCTCTTTATTTTTTCTCTATTTTGTTGTTTTTT
Done.