Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 57 of 333
Found at i:16666748 original size:74 final size:73
Alignment explanation
Indices: 16666415--16667381 Score: 1296
Period size: 74 Copynumber: 13.2 Consensus size: 73
16666405 GAAATTGAAG
* * * * *
16666415 AACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
16666478 TTTTTTGAA
66 TTTTTT-AA
16666487 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
16666552 -TTTTTGACA
65 TTTTTTTA-A
* * * * *
16666561 AACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
16666624 TTTTTTGAAA
66 TTTTTT--AA
* *
16666634 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
16666699 TTTTTTAA
66 TTTTTTAA
16666707 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
16666772 -TTTTTGACA
65 TTTTTTTA-A
* * * *
16666781 AACAAAAATTGAAATTACCTCAGCGTGTC-TGAGGCTCAACTCACCTATCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
16666845 TTTTTTGAAA
66 TTTTTT--AA
16666855 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT-GCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
16666918 -TTTTGACA
66 TTTTTTA-A
* * * * *
16666926 AACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
16666989 TTTTTTGAAA
66 TTTTTT--AA
* *
16666999 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
16667064 TTTTTTAA
66 TTTTTTAA
16667072 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
16667137 -TTTTTGACA
65 TTTTTTTA-A
* * * * *
16667146 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
16667211 TTTTTGAAA
66 TTTTT-TAA
*
16667220 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* *
16667284 GTTTTGACA
66 TTTTTTA-A
* * * * *
16667293 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
16667358 TTTTTTAGA
66 TTTTTTA-A
* *
16667367 AACATAAATTAAAAA
1 AACAGAAATTGAAAA
16667382 AAGAAAATTG
Statistics
Matches: 796, Mismatches: 70, Indels: 56
0.86 0.08 0.06
Matches are distributed among these distances:
69 22 0.03
70 16 0.02
71 57 0.07
72 49 0.06
73 246 0.31
74 261 0.33
75 145 0.18
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (73 bp):
AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTAA
Found at i:16666849 original size:147 final size:148
Alignment explanation
Indices: 16666415--16667447 Score: 1362
Period size: 147 Copynumber: 7.0 Consensus size: 148
16666405 GAAATTGAAG
* * * * *
16666415 AACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
16666478 TTTTTTGA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
65 TTTTTTGACAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAA
16666542 TATGAGTTGA-TTTTTGACA
129 TATGAGTTGATTTTTTGACA
* * * * *
16666561 AACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
* *
16666624 TTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAAT
65 TTTTTTGACAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
* *
16666689 ATGAGCTGATTTTTTTA-A
130 ATGAGTTGATTTTTTGACA
16666707 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * *
16666772 -TTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTC-TGAGGCTCAACTCACCTATCGCAAT
65 TTTTTTGACAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
*
16666835 ATGAGTTGATTTTTTTGAAA
130 ATGAGTTGA-TTTTTTGACA
16666855 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT-GCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * * * *
16666918 -TTTTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATA
66 TTTTTGACAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
*
16666980 TGAGTTGATTTTTTTGAAA
131 TGAGTTGA-TTTTTTGACA
* *
16666999 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
16667064 TTTTTTA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
66 TTTTTGACAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
16667128 ATGAGTTGA-TTTTTGACA
130 ATGAGTTGATTTTTTGACA
* * * * *
16667146 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* *
16667211 TTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATA
66 TTTTTGACAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
*
16667276 TGAGTTGA-GTTTTGACA
131 TGAGTTGATTTTTTGACA
* * * * *
16667293 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
* * *
16667358 TTTTTTAGAAACATAAATTAAAAAAAGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACT
65 TTTTTT-G--AC---------AAACAG-AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACT
16667423 CACCTCTCGCAATATGAGTTGATTT
117 CACCTCTCGCAATATGAGTTGATTT
16667448 GAAAAGCAGA
Statistics
Matches: 805, Mismatches: 52, Indels: 44
0.89 0.06 0.05
Matches are distributed among these distances:
143 4 0.00
144 92 0.11
145 42 0.05
146 175 0.22
147 342 0.42
148 12 0.01
149 75 0.09
151 1 0.00
160 5 0.01
161 56 0.07
162 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (148 bp):
AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTGACAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTGACA
Found at i:16667121 original size:365 final size:366
Alignment explanation
Indices: 16666431--16667447 Score: 1716
Period size: 365 Copynumber: 2.7 Consensus size: 366
16666421 AATGGAAAAC
* * * * *
16666431 ACCTCAGCGTCT-TGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAA
1 ACCTCAGCGTGTCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGAA
*
16666495 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
66 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT-GCAATATGAGTTGAGTTTTGAC
16666560 AAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATT
130 AAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATT
16666625 TTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATA
195 TTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATA
16666690 TGAGCTGATTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
260 TGAGCTGATTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
16666755 CTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATT
325 CTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATT
16666797 ACCTCAGCGTGTCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGAA
1 ACCTCAGCGTGTCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGAA
16666862 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTGCAATATGAGTTGA-TTTTGACA
66 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTGCAATATGAGTTGAGTTTTGACA
16666926 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATTT
131 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATTT
16666991 TTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATAT
196 TTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATAT
16667056 GAGCTGATTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
261 GAGCTGATTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
16667121 TCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATT
326 TCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATT
16667162 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGA-TTTTTTGAAAAACAGA
1 ACCTCAGCGTGT-CTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGA
16667226 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAGTTTTGA
65 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC-TGCAATATGAGTTGAGTTTTGA
* * * *
16667291 CAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTG
129 CAAACAAAAATTGAAATTACCTCAGC--GTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTG
* * * *
16667356 ATTTTTTTAGAAACATAAATTAAAAAAAGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAA
192 ATTTTTTT-G-----------AAAAACAG-AAATTGAAAATACCTCAACGTGTCTTGAGGTTCAA
*
16667421 CTCACCTCTCGCAATATGAGTTGATTT
244 CTCACCTCTCGCAATATGAGCTGATTT
16667448 GAAAAGCAGA
Statistics
Matches: 618, Mismatches: 14, Indels: 22
0.94 0.02 0.03
Matches are distributed among these distances:
365 314 0.51
366 75 0.12
367 122 0.20
369 41 0.07
370 1 0.00
381 7 0.01
382 58 0.09
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (366 bp):
ACCTCAGCGTGTCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGAA
ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTGCAATATGAGTTGAGTTTTGACA
AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATTT
TTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATAT
GAGCTGATTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
TCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATT
Found at i:16667585 original size:14 final size:13
Alignment explanation
Indices: 16667550--16667594 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
16667540 TTGATTTTTG
16667550 AAAAACAGAAATT
1 AAAAACAGAAATT
*
16667563 AAAAGCAGAAATT
1 AAAAACAGAAATT
16667576 GAAAAACAGAAATT
1 -AAAAACAGAAATT
16667590 AAAAA
1 AAAAA
16667595 TACCTCGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:16667615 original size:100 final size:101
Alignment explanation
Indices: 16667372--16667738 Score: 453
Period size: 100 Copynumber: 3.8 Consensus size: 101
16667362 TTAGAAACAT
* *
16667372 AAATT-AAAAAAAGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 AAATTGAAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAAT
* * * *
16667436 ATGAGTTGA--TTTGAAAAGCAGAATTTGTAAGGCAA
65 ATGAGTTGATTTTTGAAAAGCAGAAATTGAAAAGCAG
16667471 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
1 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
*
16667536 TGAGTTGATTTTTGAAAAACAGAAATT-AAAAGCAG
66 TGAGTTGATTTTTGAAAAGCAGAAATTGAAAAGCAG
* * * *
16667571 AAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATA
1 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
*
16667636 TGAGTTGATTTTTGAAAAGCATAAATT--------G
66 TGAGTTGATTTTTGAAAAGCAGAAATTGAAAAGCAG
* * *
16667664 --A---AAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAA
1 AAATTGAAAAACAGAAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAA
16667724 TATGAGTTGATTTTT
64 TATGAGTTGATTTTT
16667739 TTGAAAGATA
Statistics
Matches: 243, Mismatches: 20, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
88 24 0.10
90 41 0.17
91 1 0.00
93 1 0.00
99 63 0.26
100 98 0.40
101 15 0.06
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (101 bp):
AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTGAAAAGCAGAAATTGAAAAGCAG
Found at i:16667731 original size:90 final size:87
Alignment explanation
Indices: 16667563--16667738 Score: 253
Period size: 90 Copynumber: 2.0 Consensus size: 87
16667553 AACAGAAATT
* * *
16667563 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTC
1 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTC
16667628 TCGCAATATGAGTTGATTTTTG
66 TCGCAATATGAGTTGATTTTTG
* * * * *
16667650 AAAAGCATAAATTGAAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCAC
1 AAAAGCAGAAATTG-AAAAACAGAAATTAAAAATACCTC-G-GCGTGACCCGAGGCCCAACTCAC
16667715 CTCTCGCAATATGAGTTGATTTTT
63 CTCTCGCAATATGAGTTGATTTTT
16667739 TTGAAAGATA
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
87 13 0.17
88 22 0.28
89 1 0.01
90 42 0.54
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (87 bp):
AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTC
TCGCAATATGAGTTGATTTTTG
Found at i:16668630 original size:12 final size:13
Alignment explanation
Indices: 16668608--16668634 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16668598 GATCCCTCTC
16668608 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
16668621 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
16668634 T
1 T
16668635 AAGATGCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:16678360 original size:58 final size:58
Alignment explanation
Indices: 16678290--16678407 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
16678280 TAACCGAACG
*
16678290 TAAATCAACACCCTTTTATGATAAAATGTCATGCGAAAATGATCAAAATACAACAAGT
1 TAAATCAACACCCTTTTATGATAAAATGTCATGAGAAAATGATCAAAATACAACAAGT
16678348 TAAATCAACACCCTTTTATGATAAAATGTCATGAGAAAATGATCAAAATACAACAAGT
1 TAAATCAACACCCTTTTATGATAAAATGTCATGAGAAAATGATCAAAATACAACAAGT
16678406 TA
1 TA
16678408 GTATTATATA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.26
Consensus pattern (58 bp):
TAAATCAACACCCTTTTATGATAAAATGTCATGAGAAAATGATCAAAATACAACAAGT
Found at i:16679849 original size:25 final size:23
Alignment explanation
Indices: 16679797--16679851 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
16679787 TATAAACAGT
16679797 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
16679820 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
16679845 AATAGTG
1 AATAGTG
16679852 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:16679930 original size:25 final size:24
Alignment explanation
Indices: 16679902--16679974 Score: 58
Period size: 25 Copynumber: 2.9 Consensus size: 24
16679892 ATATGTATGA
**
16679902 AATAGATATAAAAAAATATGTACAT
1 AATAGAT-TAAAAAAATACATACAT
*
16679927 AATATAGTGT-AAAAAATACATACAT
1 AATAGA-T-TAAAAAAATACATACAT
*
16679952 AATATGATTAAAATATATACATA
1 AATA-GATTAAAA-AAATACATA
16679975 AGATAACATG
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
24 1 0.03
25 26 0.68
26 11 0.29
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (24 bp):
AATAGATTAAAAAAATACATACAT
Found at i:16680052 original size:25 final size:26
Alignment explanation
Indices: 16679994--16680053 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 26
16679984 GTAGAAAAAA
*
16679994 AATATATATATAAATAATATAGTATT
1 AATATATATATAAATAAAATAGTATT
* *
16680020 AA-AGATATATACATAAAATAGTA-T
1 AATATATATATAAATAAAATAGTATT
16680044 AATATATATA
1 AATATATATA
16680054 CGTAATATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 3 0.10
25 24 0.83
26 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (26 bp):
AATATATATATAAATAAAATAGTATT
Found at i:16680115 original size:25 final size:23
Alignment explanation
Indices: 16680083--16680128 Score: 74
Period size: 25 Copynumber: 1.9 Consensus size: 23
16680073 TATACCTAAC
16680083 ATATTAAAAGAATATATATAATATA
1 ATATTAAAA-AATATA-ATAATATA
16680108 ATATTAAAAAATATAATAATA
1 ATATTAAAAAATATAATAATA
16680129 AAAAAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 6 0.29
24 6 0.29
25 9 0.43
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
ATATTAAAAAATATAATAATATA
Found at i:16680120 original size:15 final size:15
Alignment explanation
Indices: 16680102--16680133 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16680092 GAATATATAT
*
16680102 AATATAATATTAAAA
1 AATATAATAATAAAA
16680117 AATATAATAATAAAA
1 AATATAATAATAAAA
16680132 AA
1 AA
16680134 AAAGAGAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AATATAATAATAAAA
Found at i:16680447 original size:16 final size:16
Alignment explanation
Indices: 16680409--16680447 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16680399 ATCTCCAAAA
*
16680409 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
16680425 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
16680441 AATAACT
1 AAAAACT
16680448 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:16680646 original size:30 final size:30
Alignment explanation
Indices: 16680605--16680703 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
16680595 TAGGTACAAA
16680605 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* * * *
16680635 AGGTAGTGGAGCAAGTATGGCTAATGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
16680665 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
16680695 TGGTGGTGG
1 TGGTGGTGG
16680704 CAAAGGCTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.19, C:0.06, G:0.48, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:16684137 original size:16 final size:16
Alignment explanation
Indices: 16684113--16684143 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16684103 TTAACAGATG
16684113 ACTACCAGACTAACCA
1 ACTACCAGACTAACCA
*
16684129 ACTATCAGACTAACC
1 ACTACCAGACTAACC
16684144 GATACTTAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.35, G:0.06, T:0.16
Consensus pattern (16 bp):
ACTACCAGACTAACCA
Found at i:16686134 original size:21 final size:20
Alignment explanation
Indices: 16686110--16686174 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
16686100 AGGAAAAAAA
16686110 AGACTAGATGGATATAAAAGT
1 AGACTAGATGGA-ATAAAAGT
*
16686131 AGACT-GAAAGGAA-AGAAA--
1 AGACTAG-ATGGAATA-AAAGT
16686149 AGACTAGATGGCAATAAAAGT
1 AGACTAGATGG-AATAAAAGT
16686170 AGACT
1 AGACT
16686175 GGAAAAGGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 6 0.17
21 14 0.40
ACGTcount: A:0.51, C:0.08, G:0.25, T:0.17
Consensus pattern (20 bp):
AGACTAGATGGAATAAAAGT
Found at i:16686151 original size:39 final size:39
Alignment explanation
Indices: 16686097--16686175 Score: 133
Period size: 39 Copynumber: 2.0 Consensus size: 39
16686087 TGTGCATCAA
16686097 GAAAGGAAAAAAAAGACTAGATGG-ATATAAAAGTAGACT
1 GAAAGGAAAAAAAAGACTAGATGGCA-ATAAAAGTAGACT
*
16686136 GAAAGGAAAGAAAAGACTAGATGGCAATAAAAGTAGACT
1 GAAAGGAAAAAAAAGACTAGATGGCAATAAAAGTAGACT
16686175 G
1 G
16686176 GAAAAGGCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 37 0.97
40 1 0.03
ACGTcount: A:0.54, C:0.06, G:0.25, T:0.14
Consensus pattern (39 bp):
GAAAGGAAAAAAAAGACTAGATGGCAATAAAAGTAGACT
Found at i:16694836 original size:46 final size:46
Alignment explanation
Indices: 16694711--16694930 Score: 187
Period size: 46 Copynumber: 4.7 Consensus size: 46
16694701 TGGGTTAAGC
* * *
16694711 GCCGATGCAATGTCCCAGACATGGTCTTACATTGGCTCAT-AGCTCAA
1 GCCGATGC-ATGTCCCAGACATGGTCTTACACTAGCT-ATCATCTCAA
* * * *
16694758 GTCGATGCCATGTCCCAGCCATGGTCTTACACTAACTATCATCTCTTA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTATCATCTC-AA
* *
16694806 GCCGATGCATGTCCCAGACAT-GTCTTACACTAGCT-TACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTAT-CATCTC-AA
** * *
16694852 GCCGATGCATGTCCCAGACAT-GTCTTACACTAGCCCTCGTATCAA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCAA
* * **
16694897 TCCCAATGCCATGTCCTGGACATGGTCTTACACT
1 -GCCGATG-CATGTCCCAGACATGGTCTTACACT
16694931 GGCTTACACG
Statistics
Matches: 144, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
45 2 0.01
46 64 0.44
47 60 0.42
48 18 0.12
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCAA
Found at i:16700486 original size:19 final size:19
Alignment explanation
Indices: 16700462--16700498 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
16700452 GTGGGTGATA
16700462 GAACTCTCGTTAAATTCTG
1 GAACTCTCGTTAAATTCTG
16700481 GAACTCTCGTTAAATTCT
1 GAACTCTCGTTAAATTCT
16700499 AGAAAGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (19 bp):
GAACTCTCGTTAAATTCTG
Found at i:16705114 original size:23 final size:22
Alignment explanation
Indices: 16705081--16705135 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
16705071 ATAAAAAACA
*
16705081 TTTATTATATTTATTTTTAGTATT
1 TTTA-TATATTTATATTT-GTATT
*
16705105 TTTATATATTTATATTTGTGTT
1 TTTATATATTTATATTTGTATT
16705127 TTTAATATA
1 TTT-ATATA
16705136 AATATCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 7 0.25
23 17 0.61
24 4 0.14
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
TTTATATATTTATATTTGTATT
Found at i:16706167 original size:13 final size:13
Alignment explanation
Indices: 16706149--16706175 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16706139 TCAATGTGAC
16706149 ATCATTTATTCGT
1 ATCATTTATTCGT
16706162 ATCATTTATTCGT
1 ATCATTTATTCGT
16706175 A
1 A
16706176 CTAATCATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (13 bp):
ATCATTTATTCGT
Found at i:16706455 original size:30 final size:31
Alignment explanation
Indices: 16706419--16706477 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
16706409 AACAACCCAA
16706419 TGGCTTAAA-AAAAACTTTCGAATAGTTCGT
1 TGGCTTAAATAAAAACTTTCGAATAGTTCGT
*
16706449 TGGCTTAAATGAAAACTTTCGAATAGTTC
1 TGGCTTAAATAAAAACTTTCGAATAGTTC
16706478 AATGGACCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.34
Consensus pattern (31 bp):
TGGCTTAAATAAAAACTTTCGAATAGTTCGT
Found at i:16713243 original size:17 final size:17
Alignment explanation
Indices: 16713170--16713243 Score: 55
Period size: 17 Copynumber: 4.2 Consensus size: 17
16713160 TTGCATTATA
*
16713170 TATATTATTTATTTTGT
1 TATATTATTTATTTTGC
*
16713187 TATATT-TGTATTTTTGC
1 TATATTATTTA-TTTTGC
16713204 TATATGTTATATGTATTTT--
1 TATA--TTAT-T-TATTTTGC
*
16713223 TATATTATTTATTTTAC
1 TATATTATTTATTTTGC
16713240 TATA
1 TATA
16713244 CATTTTTAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 16
0.71 0.05 0.25
Matches are distributed among these distances:
15 6 0.13
16 4 0.09
17 23 0.50
19 6 0.13
20 1 0.02
21 4 0.09
22 2 0.04
ACGTcount: A:0.26, C:0.03, G:0.07, T:0.65
Consensus pattern (17 bp):
TATATTATTTATTTTGC
Found at i:16713348 original size:24 final size:24
Alignment explanation
Indices: 16713322--16713369 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
16713312 ATTTTTATTT
*
16713322 ATATCATTA-ATTATA-TTATAAA
1 ATATAATTATATTATATTTATAAA
*
16713344 ATATAATTATATTTTATTTATAAA
1 ATATAATTATATTATATTTATAAA
16713368 AT
1 AT
16713370 TAGTAAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 5 0.23
24 9 0.41
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
ATATAATTATATTATATTTATAAA
Found at i:16716924 original size:18 final size:18
Alignment explanation
Indices: 16716882--16716925 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
16716872 AAAATAGATG
*
16716882 GGCAAAATTATAAATTTT
1 GGCAAAGTTATAAATTTT
*
16716900 GGCAAAGTTGTAAATTTT
1 GGCAAAGTTATAAATTTT
16716918 GGCAAAGT
1 GGCAAAGT
16716926 GTGTCAATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (18 bp):
GGCAAAGTTATAAATTTT
Found at i:16724510 original size:14 final size:15
Alignment explanation
Indices: 16724476--16724518 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 15
16724466 TAAAATAAAA
16724476 ATTTTATATAGATATTTT
1 ATTTTATATA-A-A-TTT
16724494 ATTTTA-ATAAATTT
1 ATTTTATATAAATTT
16724508 ATTTTATATAA
1 ATTTTATATAA
16724519 CATATCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 9 0.38
15 5 0.21
16 1 0.04
17 3 0.12
18 6 0.25
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
ATTTTATATAAATTT
Found at i:16732858 original size:18 final size:18
Alignment explanation
Indices: 16732848--16732903 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
16732838 CTCGTCGTCG
16732848 TCGTCGTCCTCATCATCA
1 TCGTCGTCCTCATCATCA
* *
16732866 TCGTCGTCTTGATCATCA
1 TCGTCGTCCTCATCATCA
* *
16732884 TCAG-AGTCATCATCATCA
1 TC-GTCGTCCTCATCATCA
16732902 TC
1 TC
16732904 TTTACCCTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 31 0.97
19 1 0.03
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.34
Consensus pattern (18 bp):
TCGTCGTCCTCATCATCA
Found at i:16746194 original size:22 final size:22
Alignment explanation
Indices: 16746168--16746214 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
16746158 TTTAGGTAAG
*
16746168 AAAA-TAGGTGTTTTAAAGGGTT
1 AAAATTAGGTGTATT-AAGGGTT
*
16746190 AAAATTGGGTGTATTAAGGGTT
1 AAAATTAGGTGTATTAAGGGTT
16746212 AAA
1 AAA
16746215 CCACCAGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (22 bp):
AAAATTAGGTGTATTAAGGGTT
Found at i:16748345 original size:20 final size:20
Alignment explanation
Indices: 16748299--16748351 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
16748289 ATGTATTTAC
*
16748299 TTAATATTTAAGAAATAATAA
1 TTAATAATTAA-AAATAATAA
16748320 TT-ATAATTAAAAAT-ATAA
1 TTAATAATTAAAAATAATAA
16748338 TATAATAATATAAA
1 T-TAATAAT-TAAA
16748352 GTAAGGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.18
19 5 0.18
20 12 0.43
21 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TTAATAATTAAAAATAATAA
Found at i:16748349 original size:13 final size:13
Alignment explanation
Indices: 16748313--16748350 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
16748303 TATTTAAGAA
16748313 ATAATAATTATAAT
1 ATAATAA-TATAAT
*
16748327 -TAAAAATATAAT
1 ATAATAATATAAT
16748339 ATAATAATATAA
1 ATAATAATATAA
16748351 AGTAAGGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:16752064 original size:48 final size:48
Alignment explanation
Indices: 16752009--16752222 Score: 194
Period size: 46 Copynumber: 4.6 Consensus size: 48
16751999 AAGCTGACGC
* * *
16752009 CATGTCCCAAATAGGTCTTACACT-GACTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAG-CTTGTATATCTCGAGGCCGATG
* ** * * *
16752057 CATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
*
16752103 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* *
16752151 CATGT-CCAGACATGTTTTACACT-GACTCTCGTA-A--T-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAG-CT-T-GTATATCTCGAGGCCGATG
* * *
16752196 CATGTCCTAGACATGTCCTACTCTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
16752223 ACACATATCA
Statistics
Matches: 135, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
45 13 0.10
46 55 0.41
47 24 0.18
48 39 0.29
49 4 0.03
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
Found at i:16752208 original size:93 final size:93
Alignment explanation
Indices: 16752009--16752222 Score: 258
Period size: 93 Copynumber: 2.3 Consensus size: 93
16751999 AAGCTGACGC
* * *
16752009 CATGTCCCAAATAGGTCTTACACT-GACTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGT
1 CATGTCCCAGACATGTCTTACACTAG-CTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGT
16752073 CTTACACTAGCTCTCGTCTCAATGCCAATG
65 CTTACACTAGCTCTCG-CTCAATGCCAATG
* *
16752103 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGTCGATGCATGT-CCAGACATGTT
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
*
16752167 TTACACT-GACTCTCG-T-AATGTGGCCGATG
66 TTACACTAG-CTCTCGCTCAA--T-GCCAATG
* * *
16752196 CATGTCCTAGACATGTCCTACTCTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
16752223 ACACATATCA
Statistics
Matches: 106, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
90 2 0.02
91 1 0.01
92 2 0.02
93 53 0.50
94 47 0.44
95 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCGCTCAATGCCAATG
Found at i:16752582 original size:29 final size:30
Alignment explanation
Indices: 16752550--16752610 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
16752540 CAATAATTTA
* *
16752550 TAAA-TTGGAAAAAATGACCATTTTGCCCC
1 TAAACTTGCAAAAAATGACCATTTTACCCC
* *
16752579 TAAACTTTCACAAAATGACCATTTTACCCC
1 TAAACTTGCAAAAAATGACCATTTTACCCC
16752609 TA
1 TA
16752611 GGCCTGGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.30
Consensus pattern (30 bp):
TAAACTTGCAAAAAATGACCATTTTACCCC
Found at i:16758777 original size:20 final size:21
Alignment explanation
Indices: 16758745--16758824 Score: 62
Period size: 20 Copynumber: 3.9 Consensus size: 21
16758735 AGCTATGCTG
*
16758745 ACTTG-TTTAAAAACAATTTA
1 ACTTGATTTGAAAACAATTTA
*
16758765 ACTT-ATTTGAAAAAAAAGTTCTA
1 ACTTGATTTG-AAAACAA-TT-TA
* *
16758788 ACTTGA-TTGAAATCATTTTA
1 ACTTGATTTGAAAACAATTTA
16758808 ACTTGATTT-AAAA-AATT
1 ACTTGATTTGAAAACAATT
16758825 AATTTAAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 13
0.70 0.10 0.19
Matches are distributed among these distances:
19 3 0.06
20 18 0.38
21 10 0.21
22 6 0.13
23 9 0.19
24 1 0.02
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (21 bp):
ACTTGATTTGAAAACAATTTA
Found at i:16762339 original size:29 final size:29
Alignment explanation
Indices: 16762297--16762354 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
16762287 AAATCCTATA
*
16762297 TATTTTTCAGTTTACAGTTCCATGCAATC
1 TATTTTTCAATTTACAGTTCCATGCAATC
* * *
16762326 TATTTTTTAATTTATAGTTGCATGCAATC
1 TATTTTTCAATTTACAGTTCCATGCAATC
16762355 CTAGAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.16, G:0.10, T:0.48
Consensus pattern (29 bp):
TATTTTTCAATTTACAGTTCCATGCAATC
Found at i:16763945 original size:20 final size:20
Alignment explanation
Indices: 16763877--16763947 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
16763867 AAAACCTAAT
* * *
16763877 AAGTATCGATATTTTTAGACG
1 AAGTATCGATAATTTTATA-A
*
16763898 AA-TATCAATAATTTTATAA
1 AAGTATCGATAATTTTATAA
*
16763917 AAGTGTCGATAATTTTA-AA
1 AAGTATCGATAATTTTATAA
*
16763936 ATGGTATCGATA
1 A-AGTATCGATA
16763948 CCAAATTGCA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
19 5 0.12
20 33 0.82
21 2 0.05
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
AAGTATCGATAATTTTATAA
Found at i:16768040 original size:20 final size:20
Alignment explanation
Indices: 16768015--16768064 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
16768005 TTTACCCCGA
*
16768015 GTATCGATACTCGAGCAAAG
1 GTATCGATACTCGAGCAAAC
*
16768035 GTATCGATACTTGAGCAAAC
1 GTATCGATACTCGAGCAAAC
*
16768055 ATATCGATAC
1 GTATCGATAC
16768065 GAAATCTCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (20 bp):
GTATCGATACTCGAGCAAAC
Found at i:16782060 original size:48 final size:48
Alignment explanation
Indices: 16782005--16782467 Score: 567
Period size: 48 Copynumber: 9.6 Consensus size: 48
16781995 GGTGAATTAT
* *
16782005 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATAGC
* * * * *
16782053 CGATGCCATGTCCCAGACATGGTCTTCCACTAGCACACATATCAATA-C
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC-ATAGC
* *
16782101 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-TACATTGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAT-CATAGC
* * *
16782149 TGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATAGC
* * * * *
16782197 CGATGCCATGTCCCAGACATGGTCTTCCACTAGCGCACATATCAATA-C
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC-ATAGC
* *
16782245 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-TACATTGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAT-CATAGC
* * *
16782293 TGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATAGC
* * * *
16782341 CGATGCCATGTCTCAAACATGGTCTTACACTAGCACACATATCA-ATGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATA-GC
* * * *
16782389 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATAGC
*
16782437 CGATGCCATGTCTCAAACATGGTCTTACACT
1 CGATGCCATGTCCCAAACATGGTCTTACACT
16782468 AGCACACATA
Statistics
Matches: 352, Mismatches: 53, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
47 7 0.02
48 339 0.96
49 6 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATAGC
Found at i:16782266 original size:144 final size:144
Alignment explanation
Indices: 16782006--16782467 Score: 811
Period size: 144 Copynumber: 3.2 Consensus size: 144
16781996 GTGAATTATC
16782006 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCCGATGCCATGTCCCAGAC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCCGATGCCATGTCCCAGAC
16782071 ATGGTCTTCCACTAGCACACATATCAATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
66 ATGGTCTTCCACTAGCACACATATCAATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
16782136 CTCATTACATTGCT
131 CTCATTACATTGCT
16782150 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCCGATGCCATGTCCCAGAC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCCGATGCCATGTCCCAGAC
*
16782215 ATGGTCTTCCACTAGCGCACATATCAATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
66 ATGGTCTTCCACTAGCACACATATCAATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
16782280 CTCATTACATTGCT
131 CTCATTACATTGCT
* *
16782294 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCCGATGCCATGTCTCAAAC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCCGATGCCATGTCCCAGAC
* * *
16782359 ATGGTCTTACACTAGCACACATATCAATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCT
66 ATGGTCTTCCACTAGCACACATATCAATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
* * *
16782424 CTCA-TATCGTGGCC
131 CTCATTA-CATTGCT
16782438 GATGCCATG-TCTCAAACATGGTCTTACACT
1 GATGCCATGTTC-CAAACATGGTCTTACACT
16782468 AGCACACATA
Statistics
Matches: 306, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
143 4 0.01
144 302 0.99
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (144 bp):
GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTAGCCGATGCCATGTCCCAGAC
ATGGTCTTCCACTAGCACACATATCAATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
CTCATTACATTGCT
Found at i:16791404 original size:144 final size:144
Alignment explanation
Indices: 16791144--16791452 Score: 537
Period size: 144 Copynumber: 2.1 Consensus size: 144
16791134 CTTACACTGG
* *
16791144 CTTACACTAGCGCACATATCAATACCGATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCAT
1 CTTACACTAGCACACATATCAATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
* *
16791209 TACATTGTCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTTGCCAATGCCAT
66 TACATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCAATGCCAT
16791274 GTCCCAGACATGGT
131 GTCCCAGACATGGT
* **
16791288 CTTACACTAGCACACATATTAATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 CTTACACTAGCACACATATCAATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
* *
16791353 TACATTGCCGATGTCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCAT
66 TACATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCAATGCCAT
16791418 GTCCCAGACATGGT
131 GTCCCAGACATGGT
16791432 CTTACACTAGCACACATATCA
1 CTTACACTAGCACACATATCA
16791453 CCCAATTGTC
Statistics
Matches: 155, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
144 155 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (144 bp):
CTTACACTAGCACACATATCAATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
TACATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCAATGCCAT
GTCCCAGACATGGT
Found at i:16791451 original size:48 final size:48
Alignment explanation
Indices: 16791144--16791439 Score: 362
Period size: 48 Copynumber: 6.2 Consensus size: 48
16791134 CTTACACTGG
* * * * * *
16791144 CTTACACTAGCGCACATATCAATACCGATGCCATGTCCCAGATATGGT
1 CTTACACTGGCTCTCATATCATTGCCGATGCCATGTCCCAGACATGGT
* * *
16791192 CTTACACTGGCTCTCAT-TACATTGTCGATGCCATGTTCCAAACATGGT
1 CTTACACTGGCTCTCATAT-CATTGCCGATGCCATGTCCCAGACATGGT
* *
16791240 CTTACACTGGCTCTCATATCGTTGCCAATGCCATGTCCCAGACATGGT
1 CTTACACTGGCTCTCATATCATTGCCGATGCCATGTCCCAGACATGGT
* * * * * *
16791288 CTTACACTAGCACACATATTAATGTCGATGCCATGTCCCAGACATGGT
1 CTTACACTGGCTCTCATATCATTGCCGATGCCATGTCCCAGACATGGT
* * *
16791336 CTTACACTGGCTCTCAT-TACATTGCCGATGTCATGTTCCAAACATGGT
1 CTTACACTGGCTCTCATAT-CATTGCCGATGCCATGTCCCAGACATGGT
* *
16791384 CTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCCAGACATGGT
1 CTTACACTGGCTCTCATATCATTGCCGATGCCATGTCCCAGACATGGT
16791432 CTTACACT
1 CTTACACT
16791440 AGCACACATA
Statistics
Matches: 208, Mismatches: 36, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
47 2 0.01
48 204 0.98
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
CTTACACTGGCTCTCATATCATTGCCGATGCCATGTCCCAGACATGGT
Found at i:16797388 original size:39 final size:40
Alignment explanation
Indices: 16797215--16797405 Score: 242
Period size: 40 Copynumber: 4.8 Consensus size: 40
16797205 GGATATAGCT
* * * *
16797215 ACTCGCTCAAATGCCTTCGGGACATAGCTCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
16797255 ACTTGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
16797295 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** *
16797335 ACTCGTACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
16797374 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
16797406 TTATCATCCA
Statistics
Matches: 133, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 32 0.24
40 99 0.74
41 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:16806095 original size:20 final size:20
Alignment explanation
Indices: 16806066--16806115 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
16806056 TTTACCCCGA
* *
16806066 GTATCAATACTCGAGCAAAG
1 GTATCGATACTCGAGAAAAG
*
16806086 GTATCGATACTCGAGAAAAT
1 GTATCGATACTCGAGAAAAG
16806106 GTATCGATAC
1 GTATCGATAC
16806116 AAAATCTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (20 bp):
GTATCGATACTCGAGAAAAG
Found at i:16806422 original size:28 final size:28
Alignment explanation
Indices: 16806388--16806555 Score: 142
Period size: 28 Copynumber: 6.0 Consensus size: 28
16806378 TAAATCATAG
* *
16806388 AGATAGTCATGATGGACTTCCACATATA
1 AGATAGTCTTGATGAACTTCCACATATA
* * *
16806416 ATATAGTTTTGATGAACTTTCACATATA
1 AGATAGTCTTGATGAACTTCCACATATA
* * *
16806444 AGATAGTCCTAACGAACTTCCACATATA
1 AGATAGTCTTGATGAACTTCCACATATA
* * * **
16806472 AGATAAT-TCTAATAAACTTTTACATATA
1 AGATAGTCT-TGATGAACTTCCACATATA
* * *
16806500 AGATAATCTTGGTGGACTTCCACATATA
1 AGATAGTCTTGATGAACTTCCACATATA
* *
16806528 AGATAGTCCTT-ACGAACTTCTACATATA
1 AGATAGT-CTTGATGAACTTCCACATATA
16806556 TTTCATAACT
Statistics
Matches: 109, Mismatches: 28, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
28 105 0.96
29 4 0.04
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (28 bp):
AGATAGTCTTGATGAACTTCCACATATA
Found at i:16806546 original size:56 final size:55
Alignment explanation
Indices: 16806399--16806555 Score: 161
Period size: 56 Copynumber: 2.8 Consensus size: 55
16806389 GATAGTCATG
* * * *
16806399 ATGGACTTCCACATATAATATAGTTTTGATGAACTTTCACATATAAGATAGTCCTA
1 ATGGACTTCCACATATAAGATAGTCTT-ATGAACTTTTACATATAAGATAATCCTA
* * * * * * *
16806455 ACGAACTTCCACATATAAGATAATTCTAATAAACTTTTACATATAAGATAATCTTG
1 ATGGACTTCCACATATAAGAT-AGTCTTATGAACTTTTACATATAAGATAATCCTA
* * *
16806511 GTGGACTTCCACATATAAGATAGTCCTTACGAACTTCTACATATA
1 ATGGACTTCCACATATAAGATAGT-CTTATGAACTTTTACATATA
16806556 TTTCATAACT
Statistics
Matches: 80, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
55 2 0.03
56 75 0.94
57 3 0.04
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (55 bp):
ATGGACTTCCACATATAAGATAGTCTTATGAACTTTTACATATAAGATAATCCTA
Found at i:16813120 original size:45 final size:47
Alignment explanation
Indices: 16813061--16813155 Score: 126
Period size: 45 Copynumber: 2.1 Consensus size: 47
16813051 ATAAAGAGCA
*
16813061 AAATCATATCTGAATAAT-GAATAATGAAAAATAAAA-AATAAAAAACC
1 AAATCATATCTGAATAATGGAA-AATAAAAAATAAAATAA-AAAAAACC
*
16813108 AAAT-ATAT-TGAATAATGGAAACTAAAAAATAAAATAAAAAAAACC
1 AAATCATATCTGAATAATGGAAAATAAAAAATAAAATAAAAAAAACC
16813153 AAA
1 AAA
16813156 GGATAGAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
45 31 0.70
46 9 0.20
47 4 0.09
ACGTcount: A:0.66, C:0.07, G:0.06, T:0.20
Consensus pattern (47 bp):
AAATCATATCTGAATAATGGAAAATAAAAAATAAAATAAAAAAAACC
Found at i:16817217 original size:16 final size:16
Alignment explanation
Indices: 16817196--16817227 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16817186 TTTATAACTG
*
16817196 CTATGTATTTATATAT
1 CTATGTATGTATATAT
16817212 CTATGTATGTATATAT
1 CTATGTATGTATATAT
16817228 TTGAAATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.53
Consensus pattern (16 bp):
CTATGTATGTATATAT
Found at i:16818888 original size:3 final size:3
Alignment explanation
Indices: 16818880--16818956 Score: 93
Period size: 3 Copynumber: 25.7 Consensus size: 3
16818870 ACAGGGTAAA
*
16818880 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA- GTCT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G-AT
* * * *
16818925 GAT GAT GAT CAA GAC GAG GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
16818957 CAGTGAGGAC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
2 1 0.02
3 62 0.97
4 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.34, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:16824941 original size:5 final size:5
Alignment explanation
Indices: 16824931--16824959 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
16824921 CAATTTGTGA
16824931 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
16824960 ACATAGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:16829013 original size:58 final size:57
Alignment explanation
Indices: 16828924--16829038 Score: 221
Period size: 58 Copynumber: 2.0 Consensus size: 57
16828914 ACTACAAAAA
16828924 TATCATTTAGTAAAAAAAACGCCTGAAAGTTTATTCCTATCCATTAAATTGCGAGCT
1 TATCATTTAGTAAAAAAAACGCCTGAAAGTTTATTCCTATCCATTAAATTGCGAGCT
16828981 TATCATTTAGTAAAAGAAAACGCCTGAAAGTTTATTCCTATCCATTAAATTGCGAGCT
1 TATCATTTAGTAAAA-AAAACGCCTGAAAGTTTATTCCTATCCATTAAATTGCGAGCT
16829039 ATCTCGGGTG
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 15 0.26
58 42 0.74
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (57 bp):
TATCATTTAGTAAAAAAAACGCCTGAAAGTTTATTCCTATCCATTAAATTGCGAGCT
Found at i:16833130 original size:41 final size:42
Alignment explanation
Indices: 16833065--16833214 Score: 163
Period size: 41 Copynumber: 3.7 Consensus size: 42
16833055 TATTATACAT
*
16833065 TAGCGGCG--TTTGCAGT-AAAACGCCGCAAAAAACTGAGCAA
1 TAGCGGCGCTTTTG-AGTAAAAACGCCGCTAAAAACTGAGCAA
** *
16833105 TAGCGGCGCTTTTGA-TCCAAACGCCGCTAAAAA-TAGAGTAA
1 TAGCGGCGCTTTTGAGTAAAAACGCCGCTAAAAACT-GAGCAA
* * *
16833146 TAGTGGCG-TTTTCAGTAAAAACGCCGCTAAAAACTGAACAA
1 TAGCGGCGCTTTTGAGTAAAAACGCCGCTAAAAACTGAGCAA
16833187 TAGCGGCGCTTTTGA--AAAAACGCCGCTA
1 TAGCGGCGCTTTTGAGTAAAAACGCCGCTA
16833215 TAGGTCGAGC
Statistics
Matches: 92, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
40 28 0.30
41 54 0.59
42 10 0.11
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (42 bp):
TAGCGGCGCTTTTGAGTAAAAACGCCGCTAAAAACTGAGCAA
Found at i:16833240 original size:41 final size:41
Alignment explanation
Indices: 16833187--16833458 Score: 348
Period size: 41 Copynumber: 6.6 Consensus size: 41
16833177 AACTGAACAA
* *
16833187 TAGCGGCGCTTTTGAAAAAACGCCGCTATAGGTCGAGCTTT
1 TAGCGGCGCTTTTGAAAAAACGCCGCTATAGATCGAGGTTT
** * * * *
16833228 TAGCGGCGCTTTTTTTAAAAACGACGCTATTGCTC-AGTTTT
1 TAGCGGCGC-TTTTGAAAAAACGCCGCTATAGATCGAGGTTT
* * * *
16833269 TAGCAGTGCTTTTGGAAAAACGCCACTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGAAAAAACGCCGCTATAGATCGAGGTTT
**
16833310 TAGCGGCGCTTTTGGGAAAACGCCGCTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGAAAAAACGCCGCTATAGATCGAGGTTT
* *
16833351 TAGCAGCGCTTTTGAAAAAACGCCACTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGAAAAAACGCCGCTATAGATCGAGGTTT
*
16833392 TAGCGGCGCTTTTGAAAAAACGCTGCTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGAAAAAACGCCGCTATAGATCGAGGTTT
* **
16833433 TAACGGCGCTTTTGGGAAAACGCCGC
1 TAGCGGCGCTTTTGAAAAAACGCCGC
16833459 AAAAAATTAA
Statistics
Matches: 199, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
40 19 0.10
41 160 0.80
42 20 0.10
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (41 bp):
TAGCGGCGCTTTTGAAAAAACGCCGCTATAGATCGAGGTTT
Found at i:16833247 original size:82 final size:83
Alignment explanation
Indices: 16833081--16833419 Score: 253
Period size: 82 Copynumber: 4.1 Consensus size: 83
16833071 CGTTTGCAGT
* * ** * * * *
16833081 AAAACGCCGCAAAAAACTGA-GCAATAGCGGCGCTTTTGATCCAAACGCCGCTAAAAATAGA-GT
1 AAAACGCCGCTAAAAACTGAGGCAATAGCAGCGCTTTTGA-AAAAACGCCACTATAGATCGAGGT
** * *
16833144 AATAGTGGCG-TTTTCAGTA
65 TTTAGCGGCGCTTTT-TGTA
* * * * *
16833163 AAAACGCCGCTAAAAACTGA-ACAATAGCGGCGCTTTTGAAAAAACGCCGCTATAGGTCGAGCTT
1 AAAACGCCGCTAAAAACTGAGGCAATAGCAGCGCTTTTGAAAAAACGCCACTATAGATCGAGGTT
*
16833227 TTAGCGGCGCTTTTTTTA
66 TTAGCGGCGCTTTTTGTA
* *** * **** * *
16833245 AAAACGACGCT-ATTGCTCAGTTTTTAGCAGTGCTTTTGGAAAAACGCCACTATAGATCGAGGTT
1 AAAACGCCGCTAAAAACTGAGGCAATAGCAGCGCTTTTGAAAAAACGCCACTATAGATCGAGGTT
**
16833309 TTAGCGGCGC-TTTTGGG
66 TTAGCGGCGCTTTTTGTA
* * ***
16833326 AAAACGCCGCTATAGA-TCGAGGTTTTAGCAGCGCTTTTGAAAAAACGCCACTATAGATCGAGGT
1 AAAACGCCGCTAAAAACT-GAGGCAATAGCAGCGCTTTTGAAAAAACGCCACTATAGATCGAGGT
*
16833390 TTTAGCGGCGC-TTTTGAA
65 TTTAGCGGCGCTTTTTGTA
*
16833408 AAAACGCTGCTA
1 AAAACGCCGCTA
16833420 TAGATCGAGG
Statistics
Matches: 208, Mismatches: 44, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
81 34 0.16
82 170 0.82
83 4 0.02
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (83 bp):
AAAACGCCGCTAAAAACTGAGGCAATAGCAGCGCTTTTGAAAAAACGCCACTATAGATCGAGGTT
TTAGCGGCGCTTTTTGTA
Found at i:16833918 original size:22 final size:22
Alignment explanation
Indices: 16833893--16833935 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16833883 ATTTTAAGCT
*
16833893 TTATAGATTATGGGTTTAGGGA
1 TTATAGATTATGGGTTAAGGGA
* *
16833915 TTATGGTTTATGGGTTAAGGG
1 TTATAGATTATGGGTTAAGGG
16833936 TTAGGGTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (22 bp):
TTATAGATTATGGGTTAAGGGA
Found at i:16833965 original size:23 final size:23
Alignment explanation
Indices: 16833933--16833997 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
16833923 TATGGGTTAA
*
16833933 GGGTTAGGGTTTAAGTTTTAGAG
1 GGGTTAGGGTTTAAGGTTTAGAG
*
16833956 GGGTTGGGGTTTAAGGTTT--AG
1 GGGTTAGGGTTTAAGGTTTAGAG
16833977 GGGTTAAGGG-TTAAGGGTTTA
1 GGGTT-AGGGTTTAA-GGTTTA
16833998 TGTTTTATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 11 0.31
22 8 0.22
23 17 0.47
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (23 bp):
GGGTTAGGGTTTAAGGTTTAGAG
Found at i:16833980 original size:21 final size:21
Alignment explanation
Indices: 16833905--16834023 Score: 87
Period size: 21 Copynumber: 5.5 Consensus size: 21
16833895 ATAGATTATG
* * *
16833905 GGTTTAGGGATTATGGTTTAT
1 GGTTTAGGGGTTAGGGTTTAA
* *
16833926 GGGTTAAGGGTTAGGGTTTAA
1 GGTTTAGGGGTTAGGGTTTAA
* *
16833947 GTTTTAGAGGGGTTGGGGTTTAA
1 GGTTT--AGGGGTTAGGGTTTAA
16833970 GGTTTAGGGGTTAAGGG-TTAA
1 GGTTTAGGGGTT-AGGGTTTAA
* ** * *
16833991 GGGTTTATGTTTTATGATTTAA
1 -GGTTTAGGGGTTAGGGTTTAA
16834013 GGTTTAGGGGT
1 GGTTTAGGGGT
16834024 CAGAGGTCAG
Statistics
Matches: 74, Mismatches: 19, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
21 40 0.54
22 16 0.22
23 18 0.24
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (21 bp):
GGTTTAGGGGTTAGGGTTTAA
Found at i:16833985 original size:14 final size:14
Alignment explanation
Indices: 16833905--16834023 Score: 52
Period size: 14 Copynumber: 8.8 Consensus size: 14
16833895 ATAGATTATG
* *
16833905 GGTTTAGGGATTAT
1 GGTTTAGGGGTTAA
*
16833919 GGTTTATGGGTTAA
1 GGTTTAGGGGTTAA
* *
16833933 GGGTTAGGGTTTAA
1 GGTTTAGGGGTTAA
* *
16833947 GTTTTAGAGG----
1 GGTTTAGGGGTTAA
16833957 GG-TT-GGGGTTTAA
1 GGTTTAGGGG-TTAA
16833970 GGTTTAGGGGTTAA
1 GGTTTAGGGGTTAA
* * *
16833984 GGGTTAAGGGTTTAT
1 -GGTTTAGGGGTTAA
* * **
16833999 GTTTTATGATTTAA
1 GGTTTAGGGGTTAA
16834013 GGTTTAGGGGT
1 GGTTTAGGGGT
16834024 CAGAGGTCAG
Statistics
Matches: 73, Mismatches: 24, Indels: 16
0.65 0.21 0.14
Matches are distributed among these distances:
8 3 0.04
9 2 0.03
10 1 0.01
13 2 0.03
14 50 0.68
15 15 0.21
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (14 bp):
GGTTTAGGGGTTAA
Found at i:16836168 original size:23 final size:23
Alignment explanation
Indices: 16836142--16836187 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
16836132 ACTAGAGAAC
16836142 ATCTGTTAAACCGGATTAGGTGG
1 ATCTGTTAAACCGGATTAGGTGG
*
16836165 ATCTGTTAAATCGGATTAGGTGG
1 ATCTGTTAAACCGGATTAGGTGG
16836188 CATTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.11, G:0.30, T:0.33
Consensus pattern (23 bp):
ATCTGTTAAACCGGATTAGGTGG
Found at i:16839273 original size:18 final size:17
Alignment explanation
Indices: 16839237--16839279 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
16839227 TCAAATTTCA
*
16839237 AAAATTAAACATAATAT
1 AAAATTAAACATAAAAT
*
16839254 AAAATTTAACATAAAAAT
1 AAAATTAAACAT-AAAAT
16839272 AAATATTA
1 AAA-ATTA
16839280 TTTAATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 11 0.52
18 7 0.33
19 3 0.14
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATTAAACATAAAAT
Found at i:16839366 original size:43 final size:43
Alignment explanation
Indices: 16839312--16839542 Score: 299
Period size: 43 Copynumber: 5.5 Consensus size: 43
16839302 TTTTAAAGTA
* *
16839312 CATGATTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGT
1 CATGATCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGT
* * ** *
16839355 TATGATCTTTAGCGGCGTTTGCGGGAAAAGCGCCGTTAAAGGT
1 CATGATCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGT
* * *
16839398 CATGGTCTTTAGCGGCG-TT-TGAAAAAAACGTCGCTAAAGGT
1 CATGATCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGT
*
16839439 CATGGTCTTTAGCGGCG-TT-TGAAAAAAGCGCCGCTAAAGGT
1 CATGATCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGT
* * * *
16839480 CATGGTCTTTAGTGGCGTTTGTAAAAAAAGCGCCGCTAAAAGT
1 CATGATCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGT
16839523 CATGATCTTTAGCGGCGTTT
1 CATGATCTTTAGCGGCGTTT
16839543 TTTGAAATAA
Statistics
Matches: 166, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
41 71 0.43
42 4 0.02
43 91 0.55
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (43 bp):
CATGATCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGT
Found at i:16841964 original size:21 final size:21
Alignment explanation
Indices: 16841938--16841977 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
16841928 ATTAAATGAT
16841938 TAAAAT-TACTAAAATAAAAGC
1 TAAAATAT-CTAAAATAAAAGC
*
16841959 TAAAATATTTAAAATAAAA
1 TAAAATATCTAAAATAAAA
16841978 ACAAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.28
Consensus pattern (21 bp):
TAAAATATCTAAAATAAAAGC
Found at i:16844047 original size:46 final size:46
Alignment explanation
Indices: 16843989--16844656 Score: 997
Period size: 46 Copynumber: 14.6 Consensus size: 46
16843979 CCATAGTGTA
* * * *
16843989 TTTCAACTATGGTTTTACTCATTTTC-TGTCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATC
*** *
16844035 TTTCAACCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
* *
16844081 TTTCAACCATGGTCTTAGACATTTCATATCAGGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
* *
16844127 TTTCAACCATGGTCTTGCACAATTCATATCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
** * *
16844173 TTTCAACCATGGTCTTATTC-TTTCATGTCACGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
*
16844218 TTTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
* *
16844264 GTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
* ** * **
16844310 TTTCAACCATGGCCTTATTC-TTTCATGTCACATTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
16844355 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
16844401 TTTCAACCATGGTCTTACACATTTC-TAATCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCAT-ATCATGTTGCCATGGTATC
16844447 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
** * *
16844493 TTTCAACCATGGTCTTA-TTATTTCATTTCACGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
*
16844538 TTTCAACCATGGTCTTACACATTTCATATCATGCTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
16844584 TTTCAACCATGGTCTTACACATTTC-TAATCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCAT-ATCATGTTGCCATGGTATC
16844630 TTTCAACCATGGTCTTACACATTTCAT
1 TTTCAACCATGGTCTTACACATTTCAT
16844657 TTCAGAGAGC
Statistics
Matches: 565, Mismatches: 49, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
45 127 0.22
46 436 0.77
47 2 0.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATC
Found at i:16844246 original size:137 final size:138
Alignment explanation
Indices: 16843989--16844661 Score: 1016
Period size: 137 Copynumber: 4.9 Consensus size: 138
16843979 CCATAGTGTA
* * * * *
16843989 TTTCAACTATGGTTTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTGT
1 TTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTAT
*
16844053 TCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTAGACATTTCATATCAGGTTGC
65 TCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGC
16844118 CATGGTATC
130 CATGGTATC
* *
16844127 TTTCAACCATGGTCTTGCACAATTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATT
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATT
* * *
16844192 C-TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGTTGCC
66 CATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCC
16844256 ATGGTATC
131 ATGGTATC
* * *
16844264 GTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGCCTTATT
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATT
* * *
16844329 C-TTTCATGTCACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCC
66 CATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCC
16844393 ATGGTATC
131 ATGGTATC
*
16844401 TTTCAACCATGGTCTTACACATTTC-TAATCATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
1 TTTCAACCATGGTCTTACACATTTCAT-ATCATGTTGCCATGGTATCTTTCAACCATGGTCTTAT
* * ** * *
16844465 ACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTA-TTATTTCATTTCACGTTGC
65 TCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGC
16844529 CATGGTATC
130 CATGGTATC
* **
16844538 TTTCAACCATGGTCTTACACATTTCATATCATGCTGCCATGGTATCTTTCAACCATGGTCTTACA
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATT
* *
16844603 CATTTC-TAATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
66 CATTTCAT-ATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
16844662 AGAGCACACT
Statistics
Matches: 496, Mismatches: 33, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
136 2 0.00
137 388 0.78
138 106 0.21
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (138 bp):
TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATT
CATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCC
ATGGTATC
Found at i:16844393 original size:183 final size:183
Alignment explanation
Indices: 16843989--16844661 Score: 1030
Period size: 183 Copynumber: 3.7 Consensus size: 183
16843979 CCATAGTGTA
* * * * **
16843989 TTTCAACTATGGTTTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTGT
1 TTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
* * *
16844053 TCATTTC-ATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTAGACATTTCATATCAGGTTG
65 ACATTTCTA-ATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
*** * *
16844117 CCATGGTATCTTTCAACCATGGTCTTGCACAATTCATATCATGTTGCCATGGTATC
129 CCATGGTATCTTTCAACCATGGTCTTATTC-TTTCATATCACGTTGCCATGGTATC
** * * *
16844173 TTTCAACCATGGTCTTATTC-TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATA
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACA
*
16844237 CATTTC-ATATCATGTTGCCATGGTATCGTTCAACCATGGTCTTACACATTTCATATCAGGTTGC
66 CATTTCTA-ATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGC
* * *
16844301 CATGGTATCTTTCAACCATGGCCTTATTCTTTCATGTCACATTGCCATGGTATC
130 CATGGTATCTTTCAACCATGGTCTTATTCTTTCATATCACGTTGCCATGGTATC
16844355 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACA
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACA
*
16844420 CATTTCTAATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCC
66 CATTTCTAATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCC
* *
16844485 ATGGTATCTTTCAACCATGGTCTTATTATTTCATTTCACGTTGCCATGGTATC
131 ATGGTATCTTTCAACCATGGTCTTATTCTTTCATATCACGTTGCCATGGTATC
*
16844538 TTTCAACCATGGTCTTACACATTTCATATCATGCTGCCATGGTATCTTTCAACCATGGTCTTACA
1 TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACA
*
16844603 CATTTCTAATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
66 CATTTCTAATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
16844662 AGAGCACACT
Statistics
Matches: 455, Mismatches: 31, Indels: 7
0.92 0.06 0.01
Matches are distributed among these distances:
182 43 0.09
183 394 0.87
184 18 0.04
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (183 bp):
TTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACA
CATTTCTAATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCC
ATGGTATCTTTCAACCATGGTCTTATTCTTTCATATCACGTTGCCATGGTATC
Found at i:16844761 original size:54 final size:54
Alignment explanation
Indices: 16844696--16844803 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
16844686 CCTTACAGCG
16844696 GGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCA
1 GGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCA
*
16844750 GGATTACCAGTCCAGGCTATATCCCCTGTAATATAAACTCATAGAGTATTGTCA
1 GGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCA
16844804 ACGACAATTA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (54 bp):
GGATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCA
Found at i:16846835 original size:11 final size:11
Alignment explanation
Indices: 16846819--16846853 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
16846809 ACTAAATAAT
16846819 TAATAATAAAA
1 TAATAATAAAA
*
16846830 TAATAATGAAA
1 TAATAATAAAA
16846841 TAATAATAAAA
1 TAATAATAAAA
16846852 TA
1 TA
16846854 TCTCATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:16846968 original size:18 final size:18
Alignment explanation
Indices: 16846945--16846986 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
16846935 TCCAATTGAC
16846945 CATTTTACCCTTTATTAT
1 CATTTTACCCTTTATTAT
*
16846963 CATTTTGCCCTTTATTAT
1 CATTTTACCCTTTATTAT
16846981 C-TTTTA
1 CATTTTA
16846987 AAATTCCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.19, C:0.21, G:0.02, T:0.57
Consensus pattern (18 bp):
CATTTTACCCTTTATTAT
Found at i:16849084 original size:21 final size:22
Alignment explanation
Indices: 16849058--16849113 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
16849048 TAATTTTATG
16849058 TTTTCAATCTTCAAATCTT-AA
1 TTTTCAATCTTCAAATCTTCAA
* * *
16849079 TTTTCACT-TTCCAATTTTCAA
1 TTTTCAATCTTCAAATCTTCAA
*
16849100 TTTTCAATCCTCAA
1 TTTTCAATCTTCAA
16849114 TTATTTTCTA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 8 0.30
21 16 0.59
22 3 0.11
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTTCAATCTTCAAATCTTCAA
Found at i:16851519 original size:12 final size:12
Alignment explanation
Indices: 16851489--16851531 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
16851479 CATTTGTTAA
* *
16851489 TTAAAAAAAGTT
1 TTAAAATAATTT
*
16851501 TCAAAATAATTT
1 TTAAAATAATTT
*
16851513 TTGAAATAATTT
1 TTAAAATAATTT
16851525 TTAAAAT
1 TTAAAAT
16851532 TCAAAATATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (12 bp):
TTAAAATAATTT
Found at i:16854103 original size:18 final size:17
Alignment explanation
Indices: 16854080--16854124 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
16854070 TTTTTTTTTT
16854080 TATATAAAAATAATTATA
1 TATATAAAAAT-ATTATA
16854098 TATATAAATAATATTATA
1 TATATAAA-AATATTATA
*
16854116 TAGATAAAA
1 TATATAAAA
16854125 GAAGTTTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.84
19 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
TATATAAAAATATTATA
Found at i:16854115 original size:14 final size:16
Alignment explanation
Indices: 16854080--16854122 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
16854070 TTTTTTTTTT
*
16854080 TATATAAAAATAATTA
1 TATATATAAATAATTA
16854096 TATATATAAATAA-TA
1 TATATATAAATAATTA
*
16854111 T-TATATAGATAA
1 TATATATAAATAA
16854123 AAGAAGTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
16 12 0.48
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
TATATATAAATAATTA
Found at i:16859827 original size:47 final size:46
Alignment explanation
Indices: 16859630--16859989 Score: 247
Period size: 47 Copynumber: 7.7 Consensus size: 46
16859620 GATATATTGT
* * *
16859630 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCT-C-TGTGC
* * *
16859680 TGATGCATGTCCCAGACATGTCTTACACTAGCA--CAACTCT-TAGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT-GC
*** * *
16859724 CGATGTGCGTCCCAGACACGTATTACACTGG--CT-ATCTCTGTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT----GC
*
16859771 CGATGCATGTCCCAGTCATGTCTTACACTGGCACTCATCTCTGTGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGC
* * * *
16859817 CGATGCCATGTCCCTGACATGGTCTTATACTAGCTA-TCA-CAGTATG-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCATC--TCTGTGC
* * * * * *
16859865 TGATGCATGTCCCAGACATGCCTTACACTAGCCCTCGTCT-GGATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG-TGC
* **
16859911 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AATGTGTC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCTGTG-C
*
16859959 CGAAGCATGTCCCAGACATGTCTTACACTGG
1 CGATGCATGTCCCAGACATGTCTTACACTGG
16859990 TACACAAATC
Statistics
Matches: 246, Mismatches: 41, Indels: 50
0.73 0.12 0.15
Matches are distributed among these distances:
43 6 0.02
44 28 0.11
45 2 0.01
46 41 0.17
47 84 0.34
48 53 0.22
49 20 0.08
50 12 0.05
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGC
Found at i:16859876 original size:94 final size:94
Alignment explanation
Indices: 16859630--16859987 Score: 347
Period size: 94 Copynumber: 3.8 Consensus size: 94
16859620 GATATATTGT
* * * *
16859630 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGCGTGCTGATGCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCACAGTA--TG-GCCGATGCATGTCCCA
*
16859694 GACATGTCTTACACTAGCA--CAACTCT-TAGC
63 GACATGTCTTACACTAGCACTCATCTCTGT-GC
* * * * *
16859724 CGATGTGC--GTCCCAGACA-CGTATTACACTGGCTATCTCTGTCGA-GGCCGATGCATGTCCCA
1 CGATG-CCATGTCCCAGACATGGTCTTACACTGGCTATCACAGT--ATGGCCGATGCATGTCCCA
* *
16859785 GTCATGTCTTACACTGGCACTCATCTCTGTGC
63 GACATGTCTTACACTAGCACTCATCTCTGTGC
* * * *
16859817 CGATGCCATGTCCCTGACATGGTCTTATACTAGCTATCACAGTATGGCTGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCACAGTATGGCCGATGCATGTCCCAGAC
* * * *
16859882 ATGCCTTACACTAGCCCTCGTCT-GGATGC
66 ATGTCTTACACTAGCACTCATCTCTG-TGC
* * * * * *
16859911 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGTCCGAAGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCACAGTATGGCCGATGCATGTCCCAGAC
16859976 ATGTCTTACACT
66 ATGTCTTACACT
16859988 GGTACACAAA
Statistics
Matches: 215, Mismatches: 37, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
91 32 0.15
92 17 0.08
93 26 0.12
94 121 0.56
95 19 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCACAGTATGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCACTCATCTCTGTGC
Found at i:16859968 original size:141 final size:139
Alignment explanation
Indices: 16859630--16859987 Score: 386
Period size: 141 Copynumber: 2.6 Consensus size: 139
16859620 GATATATTGT
* * *
16859630 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGCTGATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTGTGCCGATGCATGTCCCAG
* ** * * *
16859695 ACATGTCTTACACTAGCACAACTCTTAGCCGATGTGCGTCCCAGACACGTATTACACTGGCTATC
65 ACATGTCTTACACTAGCACAACTCATAGCCGATGCACGTCCCAGACACGCATTACACTAGCCATC
16859760 TCTGTCGAGGC
130 TCTG-CGAGGC
* * * * *
16859771 CGATG-CATGTCCCAGTCAT-GTCTTACACTGGCACTCAT-CTCTGTGCCGATGCCATGTCCCTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGTGCCGATG-CATGTCCCAG
* * * * * * *
16859833 ACATGGTCTTATACTAGCTATCACAGT-ATGGCTGATGCATGTCCCAGACATGCCTTACACTAGC
65 ACAT-GTCTTACACTAGC-A-CA-ACTCATAGCCGATGCACGTCCCAGACACGCATTACACTAGC
* *
16859897 CCTCGTCTG-GATGC
126 CATC-TCTGCGAGGC
*
16859911 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGT-CCGAAGCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGTGCCGATGCATGTCCCAGA
16859975 CATGTCTTACACT
66 CATGTCTTACACT
16859988 GGTACACAAA
Statistics
Matches: 178, Mismatches: 30, Indels: 19
0.78 0.13 0.08
Matches are distributed among these distances:
137 8 0.04
138 13 0.07
139 30 0.17
140 32 0.18
141 62 0.35
142 29 0.16
143 4 0.02
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (139 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGTGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCACAACTCATAGCCGATGCACGTCCCAGACACGCATTACACTAGCCATCT
CTGCGAGGC
Found at i:16867710 original size:5 final size:5
Alignment explanation
Indices: 16867700--16867735 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
16867690 AATAATTAAG
16867700 TATAT TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
16867736 ATAAAAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:16869453 original size:48 final size:48
Alignment explanation
Indices: 16869331--16869497 Score: 318
Period size: 48 Copynumber: 3.5 Consensus size: 48
16869321 TAGTCCGAGC
16869331 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
*
16869379 TTT-TTAATAGAGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
16869426 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
16869474 TTTGTTAATAGGGTAAATAATTGA
1 TTTGTTAATAGGGTAAATAATTGA
16869498 TGTTTGTAAT
Statistics
Matches: 116, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
47 46 0.40
48 70 0.60
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (48 bp):
TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
Found at i:16876970 original size:48 final size:48
Alignment explanation
Indices: 16876914--16877081 Score: 318
Period size: 48 Copynumber: 3.5 Consensus size: 48
16876904 TAGTCCGAGC
*
16876914 TTTGTTAATATGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
*
16876962 TTTGTTAATAGAGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
16877010 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
1 TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
16877058 TTTGTTAATAGGGTAAATAATTGA
1 TTTGTTAATAGGGTAAATAATTGA
16877082 TGTTTGTAAT
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
48 117 1.00
ACGTcount: A:0.43, C:0.00, G:0.18, T:0.39
Consensus pattern (48 bp):
TTTGTTAATAGGGTAAATAATTGAAATGAAATTTTGAAAATGAGATTA
Found at i:16878297 original size:17 final size:17
Alignment explanation
Indices: 16878275--16878310 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
16878265 AGACATCAGG
16878275 TGACCTTGGAGGAGAGT
1 TGACCTTGGAGGAGAGT
16878292 TGACCTTGGAGGAGAGT
1 TGACCTTGGAGGAGAGT
16878309 TG
1 TG
16878311 CGATGACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.42, T:0.25
Consensus pattern (17 bp):
TGACCTTGGAGGAGAGT
Found at i:16888891 original size:26 final size:26
Alignment explanation
Indices: 16888845--16888896 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
16888835 ATTTTAATCC
*
16888845 TTTACTTTATTTTATTGTTTAATTTA
1 TTTACTTTATTTGATTGTTTAATTTA
* *
16888871 TTTATTTTATTATGATT-TTTACTTTA
1 TTTACTTTATT-TGATTGTTTAATTTA
16888897 AATTTTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (26 bp):
TTTACTTTATTTGATTGTTTAATTTA
Found at i:16889242 original size:17 final size:17
Alignment explanation
Indices: 16889220--16889258 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
16889210 TTCATGTGCA
*
16889220 TATTTTGTCATTATTAT
1 TATTTTGTCATCATTAT
* *
16889237 TATTTTTTTATCATTAT
1 TATTTTGTCATCATTAT
16889254 TATTT
1 TATTT
16889259 ACTTTATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (17 bp):
TATTTTGTCATCATTAT
Found at i:16898878 original size:3 final size:3
Alignment explanation
Indices: 16898863--16898924 Score: 72
Period size: 3 Copynumber: 21.0 Consensus size: 3
16898853 TTACAACATC
* * * * *
16898863 GAA GAA TAA GAA GAA GAA GAA GAA GAA GAA GAA AAA TAG GAA AAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
16898911 GAA GAA GAA -AA GAA
1 GAA GAA GAA GAA GAA
16898925 TGATCACCCT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:16900984 original size:44 final size:44
Alignment explanation
Indices: 16900921--16901535 Score: 303
Period size: 44 Copynumber: 13.6 Consensus size: 44
16900911 TATAATGGTG
* **
16900921 AATCTTATCTCTCTGAAGTTTTAGTGGAGCAGATTGAAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* *** *
16900965 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAGCCACT
* * * * *
16901010 AATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTA-T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * * *
16901053 AAACTTTATTTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTCAC-
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * ** *
16901097 AAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATTACA
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CCACT
* * ** * *
16901143 AATCTTCTTTCCCAAAAGTTGCAATGGAACAGATT-AAGCCAACAAATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCC-AC----T
* * * * **
16901191 ACAAATCTGATCTCCCTGAAGTTGCAATGGAGTAAATTGAAGTTAC-
1 ---AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * ** ** *
16901237 AGATCTTATCCCCCTGAAGTTACAGTGGAGTAGACCGAAGATAGCA
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CT
* * * *
16901283 AATCTTATCTCCCTAAAGTTGTAGTGGAGC-GATTAAAACCAC-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * ** *
16901325 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CT
* * * * *
16901371 AATCTTATTTCCCTAAAGCTGCAGTGGAACAGATT-AAGGCTACAAATTAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-GC--C--A--CT
* * * * ** * *
16901421 AAATTTTATTTCCCTAAAGTTACAGT-GAAAAAATTGAAGCTACT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* ** *
16901465 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCGGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* *
16901509 ATTCCTATAC-CCCTGAAGTTGCAGTGG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGG
16901536 GTTAGAATGG
Statistics
Matches: 429, Mismatches: 110, Indels: 64
0.71 0.18 0.11
Matches are distributed among these distances:
42 2 0.00
43 52 0.12
44 183 0.43
45 120 0.28
46 6 0.01
49 1 0.00
50 9 0.02
51 53 0.12
52 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
Found at i:16901040 original size:89 final size:88
Alignment explanation
Indices: 16900921--16901415 Score: 357
Period size: 89 Copynumber: 5.5 Consensus size: 88
16900911 TATAATGGTG
* ** *
16900921 AATCTTATCTCTCTGAAGTTTTAGTGGAGCAGATTGAAGCCACTAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC-AATCTTATCTCCCTGAAGTTG
16900986 CAGTGGAGCAGATTAAAAATAACA
65 CAGTGGAGCAGATTAAAAATAACA
* * * * * * *
16901010 AATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTATAAACTTTATTTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAATC-TTATCTCCCTGAAGTTG
* * * * *
16901075 TAGTGGAGCAGGTT-GAAGTCACA
65 CAGTGGAGCAGATTAAAAATAACA
* * * * * * **
16901098 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATTACAAATCTTCTTTCCCAAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CTAC-AATCTTATCTCCCTGAAGTT
* * *
16901163 GCAATGGAACAGATTAAGCCAACAAATTACA
64 GCAGTGGAGCAGATT-----AA-AAATAACA
* * * * * * *
16901194 AATCTGATCTCCCTGAAGTTGCAATGGAGTAAATTGAAGTTACAGATCTTATCCCCCTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA-ATCTTATCTCCCTGAAGTTG
* *** * *
16901259 CAGTGGAGTAGACCGAAGATAGCA
65 CAGTGGAGCAGATTAAAAATAACA
* * * * *
16901283 AATCTTATCTCCCTAAAGTTGTAGTGGAGC-GATTAAAACCACAAGTCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAA-TCTTATCTCCCTGAAGTTG
* * * * * *
16901347 CAGTGGAGCAAACTGAAGATAGCG
65 CAGTGGAGCAGATTAAAAATAACA
* * * *
16901371 AATCTTATTTCCCTAAAGCTGCAGTGGAACAGATT-AAGGCTACAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-GCTACAA
16901416 ATTATAAATT
Statistics
Matches: 314, Mismatches: 78, Indels: 28
0.75 0.19 0.07
Matches are distributed among these distances:
87 1 0.00
88 114 0.36
89 129 0.41
90 4 0.01
94 1 0.00
95 27 0.09
96 38 0.12
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAATCTTATCTCCCTGAAGTTGC
AGTGGAGCAGATTAAAAATAACA
Found at i:16901401 original size:228 final size:228
Alignment explanation
Indices: 16901058--16901497 Score: 589
Period size: 228 Copynumber: 1.9 Consensus size: 228
16901048 GCTATAAACT
* * * * **
16901058 TTATTTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTCACAAGTCTTATCTCCCTGAAGTTACAGT
1 TTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAACCACAAGTCTTATCTCCCTGAAGTTACAGT
* * *
16901123 GGAGCAGACTGAAGATTACAAATCTTCTTTCCCAAAAGTTGCAATGGAACAGATTAAGCCAACAA
66 GGAGCAAACTGAAGATTACAAATCTTATTTCCCAAAAGCTGCAATGGAACAGATTAAGCCAACAA
* * ** *
16901188 ATTACAAATCTGATCTCCCTGAAGTTGCAATGGAGTAAATTGAAGTTAC-AGATCTTATCCCCCT
131 ATTACAAATCTGATCTCCCTAAAGTTACAAT-GAAAAAATTGAAGCTACTA-ATCTTATCCCCCT
16901252 GAAGTTACAGTGGAGTAGACCGAAGATAGCAAATC
194 GAAGTTACAGTGGAGTAGACCGAAGATAGCAAATC
*
16901287 TTATCTCCCTAAAGTTGTAGTGGAGC-GATTAAAACCACAAGTCTTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAACCACAAGTCTTATCTCCCTGAAGTTACAGT
* * * * *
16901351 GGAGCAAACTGAAGA-TAGCGAATCTTATTTCCCTAAAGCTGCAGTGGAACAGATTAAGGCTACA
66 GGAGCAAACTGAAGATTA-CAAATCTTATTTCCCAAAAGCTGCAATGGAACAGATTAAGCCAACA
* * * * * *
16901415 AATTATAAATTTTATTTCCCTAAAGTTACAGTGAAAAAATTGAAGCTACTAATCTTATCTCCCTG
130 AATTACAAATCTGATCTCCCTAAAGTTACAATGAAAAAATTGAAGCTACTAATCTTATCCCCCTG
*
16901480 AAGTTGCAGTGGAGTAGA
195 AAGTTACAGTGGAGTAGA
16901498 TTGAAGCGGC
Statistics
Matches: 182, Mismatches: 27, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
227 46 0.25
228 112 0.62
229 24 0.13
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (228 bp):
TTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAACCACAAGTCTTATCTCCCTGAAGTTACAGT
GGAGCAAACTGAAGATTACAAATCTTATTTCCCAAAAGCTGCAATGGAACAGATTAAGCCAACAA
ATTACAAATCTGATCTCCCTAAAGTTACAATGAAAAAATTGAAGCTACTAATCTTATCCCCCTGA
AGTTACAGTGGAGTAGACCGAAGATAGCAAATC
Found at i:16901816 original size:27 final size:26
Alignment explanation
Indices: 16901765--16901817 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
16901755 TTACAATATG
*
16901765 ACCCAATGGCCCAAATAACTAAAAAA
1 ACCCAATGGCCCAAATAACCAAAAAA
* *
16901791 ACCCTAATGGCCCAAATGACCCAAAAA
1 ACCC-AATGGCCCAAATAACCAAAAAA
16901818 CCTAAACATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.49, C:0.30, G:0.09, T:0.11
Consensus pattern (26 bp):
ACCCAATGGCCCAAATAACCAAAAAA
Found at i:16903375 original size:17 final size:17
Alignment explanation
Indices: 16903353--16903391 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
16903343 TTCATGTGCA
*
16903353 TATTTTGTCATTATTAT
1 TATTTTGTCATCATTAT
* *
16903370 TATTTTTTTATCATTAT
1 TATTTTGTCATCATTAT
16903387 TATTT
1 TATTT
16903392 ACTTTATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (17 bp):
TATTTTGTCATCATTAT
Found at i:16905879 original size:132 final size:132
Alignment explanation
Indices: 16905621--16905879 Score: 310
Period size: 132 Copynumber: 2.0 Consensus size: 132
16905611 AATAGAAATA
* * * * *
16905621 AGAACCCATTCAAGGCCCACACACGAAAGTCCAGATAAGCTTTCTGATCTAATTGAGATTGCTTT
1 AGAACCCATTCAAGACCCACACACGAAAGCCCAGATAAGCTTTCTGACCCAATTGAAATTGCTTT
* * * * *
16905686 AAAAACTGACTTAATTTCCTCTTCTTCATAACAGGTCCACGAAGTCTTAGTGGGACTAAATCGGA
66 AAAAACTGACTTAATTTCCTCTTCTTCATAACAAGTCAACGAAGTCATAGTAGGACAAAATCGGA
16905751 TG
131 TG
* *
16905753 AGAACCCTTTCAAGACCCACACATGAAAGCCCA-AGTAAGCTTTCTGACCCAATT-AAACTTG-T
1 AGAACCCATTCAAGACCCACACACGAAAGCCCAGA-TAAGCTTTCTGACCCAATTGAAA-TTGCT
* * * *
16905815 TATAAAATCTGACTTAATTTCCTTTTCTTCACT-TCAAGTCAACGATGTCATAGTAGGACAAAAT
64 T-TAAAAACTGACTTAATTTCCTCTTCTTCA-TAACAAGTCAACGAAGTCATAGTAGGACAAAAT
16905879 C
127 C
16905880 AGACATAAAA
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
131 5 0.05
132 101 0.94
133 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (132 bp):
AGAACCCATTCAAGACCCACACACGAAAGCCCAGATAAGCTTTCTGACCCAATTGAAATTGCTTT
AAAAACTGACTTAATTTCCTCTTCTTCATAACAAGTCAACGAAGTCATAGTAGGACAAAATCGGA
TG
Found at i:16909298 original size:10 final size:10
Alignment explanation
Indices: 16909281--16909319 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
16909271 TTAAATTCTA
16909281 AAAGATAAAT
1 AAAGATAAAT
* *
16909291 ACAGATAATT
1 AAAGATAAAT
16909301 AAAGATAAAT
1 AAAGATAAAT
16909311 AAAGATAAA
1 AAAGATAAA
16909320 AGCTAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.10, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:16909306 original size:20 final size:20
Alignment explanation
Indices: 16909281--16909318 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
16909271 TTAAATTCTA
*
16909281 AAAGATAAATACAGATAATT
1 AAAGATAAATAAAGATAATT
16909301 AAAGATAAATAAAGATAA
1 AAAGATAAATAAAGATAA
16909319 AAGCTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.21
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:16914670 original size:25 final size:25
Alignment explanation
Indices: 16914630--16914686 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
16914620 TTATTTCACT
16914630 ACTTTTTTTAACTTTTGAAGCA-TTA
1 ACTTTTTTTAACTTTT-AAGCATTTA
* * *
16914655 ACTTTTTTTTAGTTTTAAGTATTTA
1 ACTTTTTTTAACTTTTAAGCATTTA
16914680 A-TTTTTT
1 ACTTTTTT
16914687 AAAGCCCTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.61
Consensus pattern (25 bp):
ACTTTTTTTAACTTTTAAGCATTTA
Found at i:16914722 original size:30 final size:30
Alignment explanation
Indices: 16914682--16914739 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
16914672 AGTATTTAAT
*
16914682 TTTTTAAAGCCCTTGTTTAACTTTTTTTTA
1 TTTTTAAAGCCCTTATTTAACTTTTTTTTA
*
16914712 TTTTTGAAGCCCTTATTTAACTTTTTTT
1 TTTTTAAAGCCCTTATTTAACTTTTTTT
16914740 GCTTTTAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.14, G:0.07, T:0.60
Consensus pattern (30 bp):
TTTTTAAAGCCCTTATTTAACTTTTTTTTA
Found at i:16914753 original size:29 final size:30
Alignment explanation
Indices: 16914683--16914747 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
16914673 GTATTTAATT
* *
16914683 TTTTAAAGCCCTTGTTTAACTTTTTTTTAT
1 TTTTAAAGCCCTTATTTAACTTTTTTTTAC
* *
16914713 TTTTGAAGCCCTTATTTAAC-TTTTTTTGC
1 TTTTAAAGCCCTTATTTAACTTTTTTTTAC
16914742 TTTTAA
1 TTTTAA
16914748 GTCCCTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 12 0.40
30 18 0.60
ACGTcount: A:0.20, C:0.14, G:0.08, T:0.58
Consensus pattern (30 bp):
TTTTAAAGCCCTTATTTAACTTTTTTTTAC
Found at i:16916603 original size:31 final size:31
Alignment explanation
Indices: 16916560--16916677 Score: 146
Period size: 31 Copynumber: 3.8 Consensus size: 31
16916550 CTTGTCACTT
* *
16916560 GTAGCCGAAGCTACCACTATTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * * * *
16916591 GTAGCCGGAGCTACTATTTTTCACAGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
16916622 GTAGTCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
16916653 GTAACCGAAACTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
16916678 TGCCATTTGT
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:16916674 original size:62 final size:62
Alignment explanation
Indices: 16916560--16916676 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 62
16916550 CTTGTCACTT
* * * * * *
16916560 GTAGCCGAAGCTACCACTATTCATTGATCAGGTAGCCGGAGCTACTATTTTTCACAGATCAA
1 GTAGCCGAAGCTACCACTATTCACTGATCAGGTAACCGAAACTACCACTTTTCACAGATCAA
* *
16916622 GTAGTCGAAGCTACCACTTTTCACTGATCAGGTAACCGAAACTACCACTTTTCAC
1 GTAGCCGAAGCTACCACTATTCACTGATCAGGTAACCGAAACTACCACTTTTCAC
16916677 TTGCCATTTG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 47 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (62 bp):
GTAGCCGAAGCTACCACTATTCACTGATCAGGTAACCGAAACTACCACTTTTCACAGATCAA
Found at i:16920170 original size:20 final size:21
Alignment explanation
Indices: 16920147--16920206 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
16920137 TTATAACTTT
*
16920147 TTTTTACTTTTTTAAAATA-A
1 TTTTTAATTTTTTAAAATAGA
* *
16920167 TTTTTAAATTTTAAAAATAG-
1 TTTTTAATTTTTTAAAATAGA
16920187 TTTTTATAGTTTTTTAAAAT
1 TTTTTA-A-TTTTTTAAAAT
16920207 TTTTAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 22 0.69
21 1 0.03
22 9 0.28
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (21 bp):
TTTTTAATTTTTTAAAATAGA
Found at i:16920839 original size:13 final size:14
Alignment explanation
Indices: 16920821--16920849 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16920811 ACATAATTGA
16920821 AATTTTTA-AAAAT
1 AATTTTTACAAAAT
16920834 AATTTTTACAAAAT
1 AATTTTTACAAAAT
16920848 AA
1 AA
16920850 AAATAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTTTTACAAAAT
Found at i:16924643 original size:18 final size:20
Alignment explanation
Indices: 16924607--16924653 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
16924597 AGTTGTAAGT
16924607 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
16924627 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
16924646 ATGATATA
1 AT-ATATA
16924654 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:16925128 original size:50 final size:50
Alignment explanation
Indices: 16925008--16925448 Score: 404
Period size: 50 Copynumber: 8.7 Consensus size: 50
16924998 TGAGAACACA
*
16925008 TGTGTAGTACTATA-TGCAGGCTACTATGTGTTTAAGACAG-TT-TTAGGTCACG
1 TGTGTAGTACTA-AGTGCAGGCTACTATGTG--T-A-CCAGATTGTTAGGTCACG
* * * *
16925060 TGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACG
* ** * * * *
16925110 TGTGTAGTACTAAATGCAGGCTACTATGCATACCCGATAGTTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG-TTAGGTCACG
* ** *
16925161 TGTGTAGTACTAAGTGCAGGCTATTATGTGTATTAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACG
* * * * * * *
16925211 TGTGTAGTACTAAGTCCAGGCTATTACGTGTACCGGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACG
* * * * * *
16925261 TGTGTAGTACTAAGTGCTGGCTACTATGCGTACCCG-TTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATT--GTTAGGTCACG
* * * * * **
16925312 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCGTG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACG
* * ***
16925362 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACG
*
16925412 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
16925449 GAGCTTCAGT
Statistics
Matches: 316, Mismatches: 66, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
48 3 0.01
49 5 0.02
50 206 0.65
51 75 0.24
52 27 0.09
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCACG
Found at i:16925284 original size:151 final size:151
Alignment explanation
Indices: 16925008--16925445 Score: 637
Period size: 151 Copynumber: 2.9 Consensus size: 151
16924998 TGAGAACACA
* * *
16925008 TGTGTAGTACTATA-TGCAGGCTACTATGTGT-TTAAGACAGTTTTAGGTCACGTGTATAGTACT
1 TGTGTAGTACTA-AGTGCAGGCTACTATGTGTATT-AGA-TG-GTTAGGTCACGTGTGTAGTACT
* *
16925071 AAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAATGCAGGCTACTA
62 AAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
* **
16925136 TGCATACCCGATAGTTTCGATCACG
127 TGCGTACCCGATAACTTCGATCACG
*
16925161 TGTGTAGTACTAAGTGCAGGCTATTATGTGTATTAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * * *
16925226 CCAGGCTATTACGTGTACCGGATTGATAGGTCGCATGTGTAGTACTAAGTGCTGGCTACTATGCG
66 GCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
*
16925291 TACCCGTTAACTTCGATCACG
131 TACCCGATAACTTCGATCACG
* * * * **
16925312 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCGTGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGATGGTTAGGTCACGTGTGTAGTACTAAGT
*
16925377 GCAGGCTACTACGTGTACCAGATTGATAGGTCGTATGTGTAGTACTAAGTGCAGGCTACTATGCG
66 GCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
16925442 TACC
131 TACC
16925446 AGAGAGCTTC
Statistics
Matches: 257, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
151 222 0.86
152 2 0.01
153 31 0.12
154 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGATGGTTAGGTCACGTGTGTAGTACTAAGT
GCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
TACCCGATAACTTCGATCACG
Found at i:16925395 original size:101 final size:103
Alignment explanation
Indices: 16925064--16925448 Score: 335
Period size: 101 Copynumber: 3.8 Consensus size: 103
16925054 GTCACGTGTA
* * * *
16925064 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCG-CA--TGTGTAGTACTAAATG
1 TAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATACGTCGTCACGTGTGTAGTACTAAGTG
* ** * * * ** * *
16925126 CAGGCTACTATGCATACCCGATAGTTTCGATCACGTGTG
66 CAGGCTACTACGTGTACCAGATGGATAAG-TCGCATGTG
* * * ** * * *
16925165 TAGTACTAAGTGCAGGCTATTATGTGTATTAGATGGTTA-G--GTCACGTGTGTAGTACTAAGTC
1 TAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATACGTCGTCACGTGTGTAGTACTAAGTG
* * * *
16925227 CAGGCTATTACGTGTACCGGATTGATAGGTCGCATGTG
66 CAGGCTACTACGTGTACCAGATGGATAAGTCGCATGTG
* * * *
16925265 TAGTACTAAGTGCTGGCTACTATGCGTACCCG-TT-A-ACTTCGATCACGTGTGTAGTACTAAGT
1 TAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATACGTCG-TCACGTGTGTAGTACTAAGT
* **
16925327 GCAGGCTACTACGTGTATCAGATGGATAAGTCGTGTGTG
65 GCAGGCTACTACGTGTACCAGATGGATAAGTCGCATGTG
* *
16925366 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGT-A--TGTGTAGTACTAAGTG
1 TAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATACGTCGTCACGTGTGTAGTACTAAGTG
* *
16925428 CAGGCTACTATGCGTACCAGA
66 CAGGCTACTACGTGTACCAGA
16925449 GAGCTTCAGT
Statistics
Matches: 230, Mismatches: 44, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
97 1 0.00
98 1 0.00
99 3 0.01
100 69 0.30
101 147 0.64
102 3 0.01
103 2 0.01
104 4 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (103 bp):
TAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATACGTCGTCACGTGTGTAGTACTAAGTG
CAGGCTACTACGTGTACCAGATGGATAAGTCGCATGTG
Found at i:16925669 original size:16 final size:16
Alignment explanation
Indices: 16925648--16925679 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16925638 AGAATGGAGC
16925648 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
16925664 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
16925680 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:16928568 original size:15 final size:15
Alignment explanation
Indices: 16928550--16928579 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16928540 AATTTTTTTG
*
16928550 ATATATTTTTTATAT
1 ATATAATTTTTATAT
16928565 ATATAATTTTTATAT
1 ATATAATTTTTATAT
16928580 GTAAAATATT
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATATAATTTTTATAT
Found at i:16929159 original size:31 final size:30
Alignment explanation
Indices: 16929096--16929159 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
16929086 TTACTTTCTT
* **
16929096 CCCAATACTTTTACTCCCTCCCACTTTCCC
1 CCCAAAACTTTTACTCCCTCCCACTCCCCC
16929126 CCCAAAACTTTTACTCCCCTCCCA-TCCCACC
1 CCCAAAACTTTTACT-CCCTCCCACTCCC-CC
16929157 CCC
1 CCC
16929160 CATCTACCCC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 16 0.55
31 13 0.45
ACGTcount: A:0.19, C:0.55, G:0.00, T:0.27
Consensus pattern (30 bp):
CCCAAAACTTTTACTCCCTCCCACTCCCCC
Found at i:16932721 original size:20 final size:19
Alignment explanation
Indices: 16932691--16932729 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
16932681 CCAACATTAG
16932691 AAAGAAAAGAACGAAAGAA
1 AAAGAAAAGAACGAAAGAA
*
16932710 AAAGAGAAAGAAGGAAAGAA
1 AAAGA-AAAGAACGAAAGAA
16932730 GTAGACGTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.72, C:0.03, G:0.26, T:0.00
Consensus pattern (19 bp):
AAAGAAAAGAACGAAAGAA
Found at i:16936702 original size:5 final size:5
Alignment explanation
Indices: 16936692--16936721 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
16936682 ATTAAGCATA
16936692 CAAAC CAAAC CAAAC CAAAC CAAAC CAAAC
1 CAAAC CAAAC CAAAC CAAAC CAAAC CAAAC
16936722 TTATTCAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.40, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAC
Found at i:16939150 original size:22 final size:24
Alignment explanation
Indices: 16939107--16939150 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
16939097 AATTCTGATT
*
16939107 GCAACTAATCAAATTTCCAATAAA
1 GCAACTAATCAAATTGCCAATAAA
*
16939131 GCAA-TAAT-AAATTGCTAATA
1 GCAACTAATCAAATTGCCAATA
16939151 TTAAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 4 0.22
24 4 0.22
ACGTcount: A:0.50, C:0.16, G:0.07, T:0.27
Consensus pattern (24 bp):
GCAACTAATCAAATTGCCAATAAA
Found at i:16939742 original size:19 final size:19
Alignment explanation
Indices: 16939718--16939761 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
16939708 GAATTATTTA
16939718 AATTTTAAAATTAAT-TAAT
1 AATTTTAAAATT-ATGTAAT
* *
16939737 AATTTTAGAATTTTGTAAT
1 AATTTTAAAATTATGTAAT
16939756 AATTTT
1 AATTTT
16939762 TTAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (19 bp):
AATTTTAAAATTATGTAAT
Found at i:16940585 original size:18 final size:18
Alignment explanation
Indices: 16940562--16940597 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16940552 AATCAAAATT
16940562 TTAAAAATCAAATTTAAA
1 TTAAAAATCAAATTTAAA
16940580 TTAAAAATCAAATTTAAA
1 TTAAAAATCAAATTTAAA
16940598 CGAATTACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (18 bp):
TTAAAAATCAAATTTAAA
Found at i:16940669 original size:29 final size:29
Alignment explanation
Indices: 16940630--16940697 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
16940620 ATAAAAATAA
* ** * *
16940630 TTTAATATTTATCTGGCCAATTTCAAATT
1 TTTAATCTTTATCCAGCCAACTTCAAATC
16940659 TTTAATCTTTATCCAGCCAACTTCAAATC
1 TTTAATCTTTATCCAGCCAACTTCAAATC
*
16940688 TTCAATCTTT
1 TTTAATCTTT
16940698 CAATCTATCC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.29, C:0.21, G:0.04, T:0.46
Consensus pattern (29 bp):
TTTAATCTTTATCCAGCCAACTTCAAATC
Found at i:16941175 original size:19 final size:20
Alignment explanation
Indices: 16941138--16941176 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
16941128 TTAATATGTA
**
16941138 TTTTTTATTTGTTGTTTAAT
1 TTTTTTATTTGTTAATTAAT
16941158 TTTTTTATTT-TTAATTAAT
1 TTTTTTATTTGTTAATTAAT
16941177 GTTTATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTTTTATTTGTTAATTAAT
Found at i:16950069 original size:28 final size:29
Alignment explanation
Indices: 16950038--16950119 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 29
16950028 AAAGCAGACC
* *
16950038 AATAAACCAAAATC-AACCTATTCCAATA
1 AATATACCAAAAACTAACCTATTCCAATA
* * *
16950066 AATATGCCAAAAACTAGCCTATTCCGATA
1 AATATACCAAAAACTAACCTATTCCAATA
**
16950095 AATATACCAAAAACTGGCCTATTCC
1 AATATACCAAAAACTAACCTATTCC
16950120 CTCAAATTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 11 0.24
29 35 0.76
ACGTcount: A:0.45, C:0.26, G:0.06, T:0.23
Consensus pattern (29 bp):
AATATACCAAAAACTAACCTATTCCAATA
Found at i:16950126 original size:29 final size:29
Alignment explanation
Indices: 16950054--16950119 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
16950044 CCAAAATCAA
* *
16950054 CCTATTCCAATAAATATGCCAAAAACTAG
1 CCTATTCCGATAAATATACCAAAAACTAG
*
16950083 CCTATTCCGATAAATATACCAAAAACTGG
1 CCTATTCCGATAAATATACCAAAAACTAG
16950112 CCTATTCC
1 CCTATTCC
16950120 CTCAAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.39, C:0.27, G:0.08, T:0.26
Consensus pattern (29 bp):
CCTATTCCGATAAATATACCAAAAACTAG
Found at i:16964618 original size:36 final size:36
Alignment explanation
Indices: 16964571--16964639 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
16964561 CTCTATAATC
*
16964571 AAAGTGAAAATTGACTCTTCAATTATTAATTAAATT
1 AAAGTAAAAATTGACTCTTCAATTATTAATTAAATT
*
16964607 AAAGTAAAAATTGACTCTTCAATTATTGATTAA
1 AAAGTAAAAATTGACTCTTCAATTATTAATTAA
16964640 GGTAGGAGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (36 bp):
AAAGTAAAAATTGACTCTTCAATTATTAATTAAATT
Found at i:16967138 original size:25 final size:25
Alignment explanation
Indices: 16967102--16967154 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
16967092 CCCCAAATCA
* * *
16967102 TTTTCCCTAAATCCCTCACTTAGTT
1 TTTTCCCCAAATCCCTAACTTAATT
16967127 TTTTCCCCAAATCCCTAACTTAATT
1 TTTTCCCCAAATCCCTAACTTAATT
16967152 TTT
1 TTT
16967155 CTTTCCCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.23, C:0.30, G:0.02, T:0.45
Consensus pattern (25 bp):
TTTTCCCCAAATCCCTAACTTAATT
Found at i:16979296 original size:42 final size:42
Alignment explanation
Indices: 16979242--16979403 Score: 164
Period size: 42 Copynumber: 3.9 Consensus size: 42
16979232 CGGCATCAGT
* * *
16979242 ATGAG-TTATCATGTAAGACCACATCTGGGATATGGCATTGAC
1 ATGAGATT-TCATGTAAGACCACATCTGGGACATGGCATCGAA
* * *
16979284 ATGAGATTTCATGTAAGACCACATTTGGGACATGGCGTCAAA
1 ATGAGATTTCATGTAAGACCACATCTGGGACATGGCATCGAA
* * * * * * *
16979326 ATTAGAATTCATATAAGACCATATCTGAGATATGGCATCGAT
1 ATGAGATTTCATGTAAGACCACATCTGGGACATGGCATCGAA
* * *
16979368 GTGAGATCTCATGTAAGACCACATCTAGGACATGGC
1 ATGAGATTTCATGTAAGACCACATCTGGGACATGGC
16979404 GTTGGCATCT
Statistics
Matches: 94, Mismatches: 25, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
42 92 0.98
43 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Consensus pattern (42 bp):
ATGAGATTTCATGTAAGACCACATCTGGGACATGGCATCGAA
Found at i:16979360 original size:84 final size:84
Alignment explanation
Indices: 16979250--16979405 Score: 231
Period size: 84 Copynumber: 1.9 Consensus size: 84
16979240 GTATGAGTTA
* * * * * *
16979250 TCATGTAAGACCACATCTGGGATATGGCATTGACATGAGATTTCATGTAAGACCACATTTGGGAC
1 TCATATAAGACCACATCTGAGATATGGCATCGACATGAGATCTCATGTAAGACCACATCTAGGAC
16979315 ATGGCGTCAAAATTAGAAT
66 ATGGCGTCAAAATTAGAAT
* **
16979334 TCATATAAGACCATATCTGAGATATGGCATCGATGTGAGATCTCATGTAAGACCACATCTAGGAC
1 TCATATAAGACCACATCTGAGATATGGCATCGACATGAGATCTCATGTAAGACCACATCTAGGAC
16979399 ATGGCGT
66 ATGGCGT
16979406 TGGCATCTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 63 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (84 bp):
TCATATAAGACCACATCTGAGATATGGCATCGACATGAGATCTCATGTAAGACCACATCTAGGAC
ATGGCGTCAAAATTAGAAT
Found at i:16984741 original size:34 final size:34
Alignment explanation
Indices: 16984698--16984765 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
16984688 CTCGTTAACT
16984698 GCCGAAAAGAGTTTAATTTGTTCCCCCACACTTA
1 GCCGAAAAGAGTTTAATTTGTTCCCCCACACTTA
16984732 GCCGAAAAGAGTTTAATTTGTTCCCCCACACTTA
1 GCCGAAAAGAGTTTAATTTGTTCCCCCACACTTA
16984766 ACTCGTTGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (34 bp):
GCCGAAAAGAGTTTAATTTGTTCCCCCACACTTA
Found at i:16986691 original size:13 final size:15
Alignment explanation
Indices: 16986660--16986692 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16986650 ATGGGTTGGA
16986660 TTAGGTTATAAAGTG
1 TTAGGTTATAAAGTG
16986675 TTAGGTTA-AAAGT-
1 TTAGGTTATAAAGTG
16986688 TTAGG
1 TTAGG
16986693 AAATACAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 5 0.28
15 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.39
Consensus pattern (15 bp):
TTAGGTTATAAAGTG
Found at i:16990177 original size:65 final size:65
Alignment explanation
Indices: 16990108--16990261 Score: 150
Period size: 65 Copynumber: 2.4 Consensus size: 65
16990098 ACGGCCGAGG
**
16990108 ACATGCCTGTGTGCCAGGCCGTGTAAAAACTGGA-GGGTATACTGACTTAT-CAACACGGCCAAG
1 ACATGCCTGTGTGCCAGGCCGTGT-AAAACTCAAGGGGTATACTGACTTATACAACACGGCC-AG
16990171 TC
64 TC
* * * * *** * *
16990173 ACATGCCCGCGTGCTAAGCCGTGTGCCACTCAAGGGGTATACTGACTTGTACCACACGGCCAGTC
1 ACATGCCTGTGTGCCAGGCCGTGTAAAACTCAAGGGGTATACTGACTTATACAACACGGCCAGTC
* **
16990238 ACAAGCCTGTGTGTGAGGCCGTGT
1 ACATGCCTGTGTGCCAGGCCGTGT
16990262 GGAGCATACT
Statistics
Matches: 70, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
64 4 0.06
65 57 0.81
66 9 0.13
ACGTcount: A:0.23, C:0.27, G:0.28, T:0.21
Consensus pattern (65 bp):
ACATGCCTGTGTGCCAGGCCGTGTAAAACTCAAGGGGTATACTGACTTATACAACACGGCCAGTC
Done.