Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 115 of 345
Found at i:30754511 original size:10 final size:11
Alignment explanation
Indices: 30754495--30754524 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
30754485 GGATAGATTT
30754495 AAAAAAAAAAC
1 AAAAAAAAAAC
30754506 AAAAAAAAAAC
1 AAAAAAAAAAC
*
30754517 AACAAAAA
1 AAAAAAAA
30754525 CGAAAAGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:30754514 original size:14 final size:14
Alignment explanation
Indices: 30754495--30754524 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30754485 GGATAGATTT
30754495 AAAAAAAAAACAAA
1 AAAAAAAAAACAAA
*
30754509 AAAAAAACAACAAA
1 AAAAAAAAAACAAA
30754523 AA
1 AA
30754525 CGAAAAGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAACAAA
Found at i:30755656 original size:31 final size:31
Alignment explanation
Indices: 30755618--30755681 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
30755608 ATTTATTTAA
* *
30755618 ATATATACAATTGAATCAAAATCAAAATTTT
1 ATATATACAATTAAATCAAAATCAAAAATTT
* * *
30755649 ATATATACATTTAAATCACAATTAAAAATTT
1 ATATATACAATTAAATCAAAATCAAAAATTT
30755680 AT
1 AT
30755682 GTGTATAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.38
Consensus pattern (31 bp):
ATATATACAATTAAATCAAAATCAAAAATTT
Found at i:30764168 original size:14 final size:16
Alignment explanation
Indices: 30764130--30764166 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
30764120 ATCTTTTTTA
30764130 TTAT-TATTATAAAGT
1 TTATATATTATAAAGT
*
30764145 TTATATATTATAAATT
1 TTATATATTATAAAGT
30764161 TTATAT
1 TTATAT
30764167 TACTTTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTATATATTATAAAGT
Found at i:30776564 original size:37 final size:38
Alignment explanation
Indices: 30776464--30776565 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 38
30776454 ATATATTTGG
30776464 TAATAATAATA--TAAAATAATAA-TATGTACATAAAAA
1 TAATAATAATATCTAAAATAA-AAGTATGTACATAAAAA
* *
30776500 TACATATATATATATGCATATAATAAAAGTATGTA-ATAATAA
1 TA-ATA-ATA-ATAT-C-TAAAATAAAAGTATGTACATAAAAA
*
30776542 TAATAATAATATCTACAATAAAAG
1 TAATAATAATATCTAAAATAAAAG
30776566 AAAATATTAG
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 7 0.13
40 3 0.05
41 3 0.05
42 10 0.18
43 13 0.24
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (38 bp):
TAATAATAATATCTAAAATAAAAGTATGTACATAAAAA
Found at i:30776812 original size:33 final size:33
Alignment explanation
Indices: 30776750--30776812 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
30776740 ACACAATATG
* * *
30776750 GTATTTAAAATATATATATATGTATATATAATA
1 GTATTTAAAATATATACATAAGTAAATATAATA
30776783 GTATTTAAGAATATATACATAAG-AAATATA
1 GTATTTAA-AATATATACATAAGTAAATATA
30776813 TAACTAATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 14 0.54
34 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.40
Consensus pattern (33 bp):
GTATTTAAAATATATACATAAGTAAATATAATA
Found at i:30778317 original size:72 final size:73
Alignment explanation
Indices: 30778200--30778519 Score: 374
Period size: 75 Copynumber: 4.3 Consensus size: 73
30778190 TTTTTTTTTG
* * * **
30778200 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTAAGGCTCAACTCATTTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
30778265 AGTTGA-A
66 AGTTGATT
* * *
30778272 TTTTGAAAACAGAAATTGAAATTACCTCCGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
30778337 AGTTGATTT
66 AGTTGA-TT
* * * **
30778346 TTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAT
1 TTTTGAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
30778411 GAGTTGATTTTT
65 GAGTTGA---TT
* * * * *
30778423 TTTTTACAACAGAAATTGAAATTACCTCAGCGTATCCTGAGGCTTC-ACTCACCTCTCACAATAT
1 TTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGC-TCAACTCACCTCTCGCAATAT
30778487 GAGTTGATTT
65 GAGTTGA-TT
*
30778497 TTTTGAAAGGCAGAAATTGAAAA
1 TTTTGAAA-ACAGAAATTGAAAA
30778520 ACGAAAATTG
Statistics
Matches: 210, Mismatches: 31, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
72 63 0.30
74 17 0.08
75 67 0.32
76 52 0.25
77 11 0.05
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (73 bp):
TTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATT
Found at i:30778675 original size:87 final size:88
Alignment explanation
Indices: 30778446--30778696 Score: 235
Period size: 91 Copynumber: 2.8 Consensus size: 88
30778436 AATTGAAATT
* * * * **
30778446 ACCTCAGCGTATCCTGAGGCTTC-ACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAGGCAG
1 ACCTCAGCGTCT-GTGAGG-TTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAG
* *
30778510 AAATTGAAAAACGAAAATTGAAAAT
64 AAATTGAAAAACGAAAATGGAAAAC
* * * * * * *
30778535 ACCTCGGCGTGTGAGTCAAGGCTCAACTCA-CTATTTGCAATATGAGCTGATTTTTTTGAAACAC
1 ACCTCAGCGTCT--GT-GAGGTTCAACTCACCT-CTCGCAATATGAGCTGATTTTTTTGAAAAAC
30778599 AGAAATT-AAAGAAC-AGAAATGGAAAAC
62 AGAAATTGAAA-AACGA-AAATGGAAAAC
* *
30778626 ACTTCAGCGTCT-TGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT-AAAAACAGGA
1 ACCTCAGCGTCTGTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAA
30778689 ATTGAAAA
66 ATTGAAAA
30778697 TACCTCAACG
Statistics
Matches: 131, Mismatches: 23, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
86 12 0.09
87 36 0.27
88 3 0.02
89 10 0.08
90 9 0.07
91 61 0.47
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (88 bp):
ACCTCAGCGTCTGTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAA
ATTGAAAAACGAAAATGGAAAAC
Found at i:30778968 original size:159 final size:153
Alignment explanation
Indices: 30778638--30779308 Score: 520
Period size: 159 Copynumber: 4.3 Consensus size: 153
30778628 TTCAGCGTCT
* * * *
30778638 TGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAAAAACAGGAATTG-----AAAAT
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAAAAAAAT
30778698 ACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACTTAACTT
65 ACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT-----TT---TT
** * *
30778763 GAAAAGCAGATTTTGAAAATGCCTC-GATATGTGAC
120 GAAAA-CAGAAATTGAAAATACCTCAG-CATGTGAC
* * *
30778798 TCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAAAAT
1 T-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAAAAAAT
** * * *
30778863 ACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTTTGAAAGA
65 ACCTCAACGTGT-CT-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAA-A
30778928 CAGAAATTGAAAATACCTCAGCATGTGAAC
125 CAGAAATTGAAAATACCTCAGCATGTG-AC
* *
30778958 TGAGGCTCAACTCACCTCTCGCAATATAAGTTGGTTTTTTTTTTTG-AAAACAGAAATTG-----
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTT-G-----ATTTTTGAAAAACAGAAATTGAAAAA
** *
30779017 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAA
60 AAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
* *
30779080 CAGAAATTGAAATTACCTCAGC--GTGTC
125 CAGAAATTGAAAATACCTCAGCATGTGAC
* *
30779107 TCGAGGCTCAACTCACCAT-TCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTAAAGAACA
1 T-GAGGCTCAACTCACC-TCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT---G-A-A
* * * * *
30779171 GAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGATTTTT
57 -AAA---AAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
30779234 TTGAAAAACAGAAATTGAAAATACCTCA--ACGTGTC
118 TTG-AAAACAGAAATTGAAAATACCTCAGCATGTGAC
* *
30779269 TTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTTT
1 -TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
30779309 TTTTTTGACA
Statistics
Matches: 423, Mismatches: 45, Indels: 86
0.76 0.08 0.16
Matches are distributed among these distances:
146 6 0.01
147 11 0.03
149 3 0.01
150 31 0.07
151 1 0.00
152 22 0.05
153 8 0.02
157 30 0.07
158 1 0.00
159 107 0.25
160 29 0.07
161 44 0.10
162 59 0.14
163 1 0.00
164 11 0.03
165 21 0.05
166 1 0.00
167 37 0.09
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (153 bp):
TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAAAAAATA
CCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAA
TTGAAAATACCTCAGCATGTGAC
Found at i:30778978 original size:79 final size:75
Alignment explanation
Indices: 30778801--30779386 Score: 453
Period size: 78 Copynumber: 7.5 Consensus size: 75
30778791 ATGTGACTCA
* *
30778801 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAATATAAATTGAAAAAAAAATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTG-----AAAATA
**
30778864 CCTCAGTGTGTGATCTG
60 CCTCAGCATGTG-TCTG
* *
30778881 AAGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAA-ACAGAAATTGAAAATACCT
*
30778946 CAGCATGTGAACTG
63 CAGCATGTG-TCTG
* *
30778960 AGGCTCAACTCACCTCTCGCAATATAAGTTGGTTTTTTTTTTTGAAAACAGAAATTGAAAATACC
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-G---ATTTTTTTGAAAACAGAAATTGAAAATACC
*
30779025 TCA--ACGTGTCTTG
62 TCAGCATGTGTC-TG
** * *
30779038 AGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
30779101 C--GTGTCTCG
66 CATGTGTCT-G
*
30779110 AGGCTCAACTCACCAT-TCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTAAAGAACAGAA
1 AGGCTCAACTCACC-TCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATT---G---A-AA
*** * *
30779174 ATGGAAAACA-CCTCAGCGTCTTG
57 AT--ACCTCAGCAT--GTGTC-TG
* * *
30779197 AGGTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTGAAAATACCTCA
*
30779262 --ACGTGTCTTG
65 GCATGTGTC-TG
* * * *
30779272 AGGCTCAACTCACCACTCGCAATACGAGTTGATTTTTTTTTTTGACAACAGAAATTGAAATTACC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTTGAAAACAGAAATTGAAAATACC
30779337 TCAGC--GTGTCCTG
62 TCAGCATGTGT-CTG
* * *
30779350 AGGTTCAACTCGCCTCTCGCAATATGAGTTGAATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
30779387 GAAATAAAAC
Statistics
Matches: 418, Mismatches: 48, Indels: 86
0.76 0.09 0.16
Matches are distributed among these distances:
71 1 0.00
72 61 0.15
73 1 0.00
74 12 0.03
75 43 0.10
77 2 0.00
78 93 0.22
79 56 0.13
80 56 0.13
81 13 0.03
82 3 0.01
83 4 0.01
84 18 0.04
86 1 0.00
87 50 0.12
88 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (75 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
CATGTGTCTG
Found at i:30779115 original size:396 final size:380
Alignment explanation
Indices: 30778134--30779386 Score: 1018
Period size: 396 Copynumber: 3.2 Consensus size: 380
30778124 AAATTGAAAA
* * * * *
30778134 AAAATACCACAGTGTGTGATCTGAAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTTT
1 AAAATACCTCAGCGTGTGAACTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTT
* *
30778199 GTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTAAGGCTCAACTCATTTCTCGCAATAT
63 ATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
* *
30778264 GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCCGCGTGTCCCGAGGCTCAACTCACCTCTC
128 GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTCGAGGCTCAACTCACCTCTC
**
30778329 GCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAA
193 GCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTCAAGGCTCAA
** ** * *
30778394 CTCATTTCTCGCAATATGAGTTGATTTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTATC
258 CTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTATC
*
30778459 CTGAGGCTTCACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGA
321 CTGAAGCTTCACTCACCTCTCACAATATGAGTTGATTTTTTT-----------ATTGAAAAACGA
30778524 AAATTG
375 AAATTG
* * * * * *
30778530 AAAATACCTCGGCGTGTG-AGTCAAGGCTCAACTCA-CTATTTGCAATATGAGCTGATTTTTTTG
1 AAAATACCTCAGCGTGTGAACT-GAGGCTCAACTCACCT-CTCGCAATATGAGTTGATTTTTTT-
** * * * * * * **
30778593 AAACACAGAAATTAAAGAACAGAAATGGAAAACACTTC-A-GCGTCTTGAGGTTCAACTCACCTC
63 --------ATTTTGAA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTC
* * * * * * *
30778656 TCGCAATATGAGCTGATTTTTTTAAAAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCA
119 TCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTCGAGGCTCA
* *
30778721 ACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAACTTAACTTGAAAAGCAGATTTTGAAAATG
182 ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA---GAC----AAA--A-A--TTGAAAATA
* * *
30778784 CCTC-GATATGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATAT
235 CCTCAG-CATGT--CTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAG
* **
30778847 AAATTGAAAAAAAAATACCTCAGTGTGTGAT-CTGAAGC-TCAACTCACCTCTCGTAATATGAGT
297 AAATTG-----AAAATACCTCA--GCGT-ATCCTGAAGCTTC-ACTCACCTCTCACAATATGAGT
*
30778910 TGATTTTTTT-TTGAAAGAC-AGAAATTG
353 TGATTTTTTTATTGAAAAACGA-AAATTG
* * *
30778937 AAAATACCTCAGCATGTGAACTGAGGCTCAACTCACCTCTCGCAATATAAGTTGGTTTTTTT-TT
1 AAAATACCTCAGCGTGTGAACTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTATT
30779001 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
30779066 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTCGAGGCTCAACTCACCAT-TCGC
131 TTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTCGAGGCTCAACTCACC-TCTCGC
* * *
30779130 AATATGAGCTGATTTTTTTGAAACACAGAAATTAAAGAACAGAAATGGAAAACACCTCAGC--GT
195 AATATGAGTTGATTTTTTTGAAAGACAAAAATT---G---A-AAAT-------ACCTCAGCATGT
** * * *
30779193 CTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAATAC
246 CTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAATAC
* * * * * * * * *
30779258 CTCAACGTGTCTTGAGGC-TCAACTCACCACTCGCAATACGAGTTGATTTTTTTTTTTG-ACAAC
310 CTCAGCGTATCCTGAAGCTTC-ACTCACCTCTCACAATATGAGTTGA-TTTTTTTATTGAAAAAC
30779321 -AGAAATTG
373 GA-AAATTG
* * * * *
30779329 AAATTACCTCAGCGTGT--CCTGAGGTTCAACTCGCCTCTCGCAATATGAGTTGAATTTT
1 AAAATACCTCAGCGTGTGAACTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
30779387 GAAATAAAAC
Statistics
Matches: 685, Mismatches: 106, Indels: 138
0.74 0.11 0.15
Matches are distributed among these distances:
386 2 0.00
388 1 0.00
389 2 0.00
390 36 0.05
391 34 0.05
392 34 0.05
393 25 0.04
395 5 0.01
396 151 0.22
397 6 0.01
398 64 0.09
400 4 0.01
401 44 0.06
402 5 0.01
403 82 0.12
404 2 0.00
406 1 0.00
407 61 0.09
408 7 0.01
410 1 0.00
411 1 0.00
412 16 0.02
413 16 0.02
415 32 0.05
417 10 0.01
418 2 0.00
419 39 0.06
420 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (380 bp):
AAAATACCTCAGCGTGTGAACTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTATT
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTCAAGGCTCAACTC
ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAA
GCTTCACTCACCTCTCACAATATGAGTTGATTTTTTTATTGAAAAACGAAAATTG
Found at i:30779150 original size:557 final size:546
Alignment explanation
Indices: 30778159--30779390 Score: 1522
Period size: 557 Copynumber: 2.2 Consensus size: 546
30778149 GTGATCTGAA
* *** ***
30778159 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTTTGTTTTGAAAACAGAAATTGAAAATA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAACTTAACTTGAAAACAGAAATTGAAAATA
* * **
30778224 CCTCAACGTGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
66 CCTCAACGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
* * *
30778289 GAAATTACCTCCGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
131 GAAAATACCTCAGCGTGTCCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
** *
30778354 GACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
196 GACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAT
* * *
30778419 TTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTATCCTGAGGCTTCACTCACCTCTCACAA
261 TTTTTTTTTAAAACAGAAATTGAAAATACCTCAACGTATCCTGAGGCTTCACTCACCTCTCACAA
* * *
30778484 TATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTGAAAATACCTCGGCGTGTGA
326 TATGAGTTGA-TATTTTGAAAGACAGAAATT-----A-GAAAATT----ATACCTCAGCGTGT-A
* * *
30778549 GTCAAGGCTCAACTCACTATTTGCAATATGAGCTGATTTTTTTGAAACACAGAAATTAAAGAACA
379 CTCAAGGCTCAACTCACCATTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTAAAGAACA
*
30778614 GAAATGGAAAACACTTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT
444 GAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT
*
30778679 -AAAAACAGGAATTGAAAATACCTCAACGTGTCTTGAG
509 GAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAG
**
30778716 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACTTAACTTGAAAAGCAGATTTTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--AACTTAACTTGAAAA-CAGAAATTGAAA
* * * *
30778781 ATGCCTCGATATGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATA
63 ATACCTC-A-ACGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG-AAAACA
* * * * *
30778846 TAAATTGAAAAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGTAATATGAGTT
125 GAAATTG-----AAAATACCTCAGCGTGT--CCCGAAGCTCAACTCACCTCTCGCAATATGAGTT
*
30778911 GATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAAC-TGAGGCTCAACTCACCT
183 GA--TTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGT---CTTGAGGCTCAACTCACCT
* * *
30778975 CTCGCAATATAAGTTGGTTTTTTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAG
243 CTCGCAATATAAGTT-GATTTTTTTTTT-AAAACAGAAATTGAAAATACCTCAACGTATCCTGAG
** *
30779040 GC-TCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAA-ACAGAAATT-G-AAA-T-TACCT
306 GCTTC-ACTCACCTCTCACAATATGAGTTGATATTTTGAAAGACAGAAATTAGAAAATTATACCT
*
30779098 CAGCGTGT-CTCGAGGCTCAACTCACCATTCGCAATATGAGCTGATTTTTTTGAAACACAGAAAT
370 CAGCGTGTACTCAAGGCTCAACTCACCATTCGCAATATGAGCTGATTTTTTTGAAACACAGAAAT
*
30779162 TAAAGAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCATCTCTCGCAATATGAGCT
435 TAAAGAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCT
30779227 GATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAG
500 GATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAG
* * ** * *
30779274 GCTCAACTCACCACTCGCAATACGAGTTGATTTTT---TT-TTTTGACAACAGAAATTGAAATTA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAACTTAACTTGAAAACAGAAATTGAAAATA
* * * * *
30779335 CCTCAGCGTGTC-CTGAGGTTCAACTCGCCTCTCGCAATATGAGTTGAATTTTGAAA
66 CCTCAACGTGACTC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA
30779391 TAAAACATCA
Statistics
Matches: 588, Mismatches: 64, Indels: 55
0.83 0.09 0.08
Matches are distributed among these distances:
548 4 0.01
549 39 0.07
550 1 0.00
551 15 0.03
552 6 0.01
553 2 0.00
557 158 0.27
558 69 0.12
559 21 0.04
560 16 0.03
561 1 0.00
562 42 0.07
563 11 0.02
564 1 0.00
565 3 0.01
566 1 0.00
568 14 0.02
570 32 0.05
572 38 0.06
573 8 0.01
574 37 0.06
575 14 0.02
576 55 0.09
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (546 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAACTTAACTTGAAAACAGAAATTGAAAATA
CCTCAACGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
GAAAATACCTCAGCGTGTCCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
GACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAT
TTTTTTTTTAAAACAGAAATTGAAAATACCTCAACGTATCCTGAGGCTTCACTCACCTCTCACAA
TATGAGTTGATATTTTGAAAGACAGAAATTAGAAAATTATACCTCAGCGTGTACTCAAGGCTCAA
CTCACCATTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTAAAGAACAGAAATGGAAAAC
ACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAA
TTGAAAATACCTCAACGTGTCTTGAG
Found at i:30779226 original size:87 final size:88
Alignment explanation
Indices: 30779078--30779249 Score: 249
Period size: 87 Copynumber: 2.0 Consensus size: 88
30779068 GAATTTTGAA
* **
30779078 AACAGAAATTGAAATTACCTCAGCGTGTCTCGAGGCTCAACTCACCATTCGCAATATGAGCTGAT
1 AACAGAAATGGAAAACACCTCAGCG-GTCTCGAGGCTCAACTCACCATTCGCAATATGAGCTGAT
*
30779143 TTTTTTGAAACACAGAAATTAAAG
65 TTTTTTGAAAAACAGAAATTAAAG
* * *
30779167 AACAGAAATGGAAAACACCTCAGC-GTCTTGAGGTTCAACTCATC-TCTCGCAATATGAGCTGAT
1 AACAGAAATGGAAAACACCTCAGCGGTCTCGAGGCTCAACTCACCAT-TCGCAATATGAGCTGAT
30779230 TTTTTTGAAAAACAGAAATT
65 TTTTTTGAAAAACAGAAATT
30779250 GAAAATACCT
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
86 1 0.01
87 53 0.71
89 21 0.28
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (88 bp):
AACAGAAATGGAAAACACCTCAGCGGTCTCGAGGCTCAACTCACCATTCGCAATATGAGCTGATT
TTTTTGAAAAACAGAAATTAAAG
Found at i:30779277 original size:162 final size:161
Alignment explanation
Indices: 30779006--30779310 Score: 452
Period size: 162 Copynumber: 1.9 Consensus size: 161
30778996 TTTTTTTGAA
* * * * *
30779006 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATGGAAAACACCTCAACGCGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGCTGAA
* * * *
30779071 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTCGAGGCTCAACTCACCATTCGCAATATG
66 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTCGAGGCTCAACTCACCACTCGCAATACG
30779136 AGCTGATTTTTTTGAAACACAGAAATTAAAG
131 AGCTGATTTTTTTGAAACACAGAAATTAAAG
*
30779167 AACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGAT
1 AACAGAAATGGAAAACACCTCAACGCGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGCTGA-
* *
30779230 TTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCACTCGCAAT
65 -ATTTTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTCGAGGCTCAACTCACCACTCGCAAT
*
30779295 ACGAGTTGATTTTTTT
128 ACGAGCTGATTTTTTT
30779311 TTTTGACAAC
Statistics
Matches: 128, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
159 36 0.28
160 1 0.01
161 24 0.19
162 67 0.52
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (161 bp):
AACAGAAATGGAAAACACCTCAACGCGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGCTGAA
TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTCGAGGCTCAACTCACCACTCGCAATACG
AGCTGATTTTTTTGAAACACAGAAATTAAAG
Found at i:30787631 original size:12 final size:12
Alignment explanation
Indices: 30787603--30787637 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
30787593 TGGGATATGC
*
30787603 AATGTATGAAT-
1 AATGCATGAATG
30787614 AATGCATGAATG
1 AATGCATGAATG
30787626 AATGCATGAATG
1 AATGCATGAATG
30787638 TCAAATGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.43, C:0.06, G:0.23, T:0.29
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:30789303 original size:24 final size:23
Alignment explanation
Indices: 30789253--30789303 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
30789243 ATATTTGGTA
30789253 ATAAAAATAAATAATAATATGTAC
1 ATAAAAATAAATAATAATATG-AC
*
30789277 ATAAAAATACATATATATATATG-C
1 ATAAAAATAAATA-ATA-ATATGAC
30789301 ATA
1 ATA
30789304 TAATAAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 16 0.67
25 3 0.12
26 5 0.21
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (23 bp):
ATAAAAATAAATAATAATATGAC
Found at i:30790222 original size:22 final size:23
Alignment explanation
Indices: 30790197--30790242 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
30790187 CAACCAAACC
30790197 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
30790219 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
30790242 A
1 A
30790243 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:30790248 original size:23 final size:23
Alignment explanation
Indices: 30790204--30790248 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
30790194 ACCAATTCAA
*
30790204 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
30790227 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
30790249 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:30808805 original size:41 final size:41
Alignment explanation
Indices: 30808691--30808807 Score: 121
Period size: 40 Copynumber: 2.9 Consensus size: 41
30808681 ACTATGTTTG
* ** * *
30808691 GCACTTAGTGTGCGTTTCAAGATAGCTTCAGCTAT-ATAAA
1 GCACTTAGTGAGCGAATCGAGATAGCTTCGGCTATGATAAA
* *
30808731 GCACTTAGTGAGCGAATCGAAATAGCTTCGGCTATGA-AAG
1 GCACTTAGTGAGCGAATCGAGATAGCTTCGGCTATGATAAA
* * *
30808771 GCACTTAGTGTGCGAGGTTGAGATAGCTTCGGCTATG
1 GCACTTAGTGAGCGA-ATCGAGATAGCTTCGGCTATG
30808808 CTTTAACATT
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
40 45 0.70
41 19 0.30
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (41 bp):
GCACTTAGTGAGCGAATCGAGATAGCTTCGGCTATGATAAA
Found at i:30813742 original size:18 final size:18
Alignment explanation
Indices: 30813716--30813754 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
30813706 AAGTCTCTCC
*
30813716 TTTAGAAAGTTTTGTTAT
1 TTTAAAAAGTTTTGTTAT
30813734 TTTAAAAAGTTTTGTTAT
1 TTTAAAAAGTTTTGTTAT
30813752 TTT
1 TTT
30813755 GTTCTAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (18 bp):
TTTAAAAAGTTTTGTTAT
Found at i:30813955 original size:10 final size:9
Alignment explanation
Indices: 30813940--30814047 Score: 90
Period size: 10 Copynumber: 11.0 Consensus size: 9
30813930 TTTTTCTTCA
30813940 TCTTTTTTCT
1 TCTTTTTT-T
30813950 TCTTTTTTCTT
1 TC-TTTTT-TT
30813961 TCTTTTCTTT
1 TCTTTT-TTT
*
30813971 TCTTTCTTT
1 TCTTTTTTT
30813980 TCTTTCTTTT
1 TCTTT-TTTT
* * *
30813990 ACTTCCTTGT
1 TCTT-TTTTT
30814000 TCTTTTTTT
1 TCTTTTTTT
30814009 TCTTTCTTTT
1 TCTTT-TTTT
*
30814019 ACTTTTTTGT
1 TCTTTTTT-T
30814029 TCTTTTTTT
1 TCTTTTTTT
30814038 TCTTGTTTTT
1 TCTT-TTTTT
30814048 GTATAGATAC
Statistics
Matches: 80, Mismatches: 10, Indels: 16
0.75 0.09 0.15
Matches are distributed among these distances:
9 24 0.30
10 46 0.57
11 9 0.11
12 1 0.01
ACGTcount: A:0.02, C:0.18, G:0.03, T:0.78
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:30814046 original size:9 final size:9
Alignment explanation
Indices: 30813928--30814047 Score: 91
Period size: 9 Copynumber: 13.1 Consensus size: 9
30813918 ACGTTAGTTC
*
30813928 TCTTTTTCT
1 TCTTTTTTT
*
30813937 TCATCTTTTT
1 TC-TTTTTTT
30813947 TCTTCTTTTT
1 TCTT-TTTTT
*
30813957 TCTTTCTTT
1 TCTTTTTTT
*
30813966 TCTTTTCTT
1 TCTTTTTTT
*
30813975 TCTTTTCTT
1 TCTTTTTTT
**
30813984 TCTTTTACT
1 TCTTTTTTT
* *
30813993 TC--CTTGT
1 TCTTTTTTT
30814000 TCTTTTTTT
1 TCTTTTTTT
30814009 TCTTTCTTTT
1 TCTTT-TTTT
*
30814019 ACTTTTTTGT
1 TCTTTTTT-T
30814029 TCTTTTTTT
1 TCTTTTTTT
*
30814038 TCTTGTTTT
1 TCTTTTTTT
30814047 T
1 T
30814048 GTATAGATAC
Statistics
Matches: 89, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
7 4 0.04
9 53 0.60
10 32 0.36
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.77
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:30814046 original size:20 final size:19
Alignment explanation
Indices: 30813940--30814047 Score: 103
Period size: 19 Copynumber: 5.5 Consensus size: 19
30813930 TTTTTCTTCA
*
30813940 TCTTTTTTCTTCTTTTTTCTT
1 TCTTTTTT-TTCTTTCTT-TT
30813961 TCTTTTCTTTTCTTTC-TTT
1 TCTTTT-TTTTCTTTCTTTT
* * *
30813980 TCTTTCTTTTACTTCCTTGT
1 TCTTT-TTTTTCTTTCTTTT
30814000 TCTTTTTTTTCTTTCTTTT
1 TCTTTTTTTTCTTTCTTTT
*
30814019 ACTTTTTTGTTCTTT-TTTT
1 TCTTTTTT-TTCTTTCTTTT
30814038 TCTTGTTTTT
1 TCTT-TTTTT
30814048 GTATAGATAC
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
19 40 0.55
20 19 0.26
21 12 0.16
22 2 0.03
ACGTcount: A:0.02, C:0.18, G:0.03, T:0.78
Consensus pattern (19 bp):
TCTTTTTTTTCTTTCTTTT
Found at i:30814047 original size:29 final size:29
Alignment explanation
Indices: 30813940--30814041 Score: 125
Period size: 29 Copynumber: 3.4 Consensus size: 29
30813930 TTTTTCTTCA
* *
30813940 TCTTTTTTCTTCTTTTTTCTTTCTTTTCTT-T
1 TCTTTTTT-TTCTTTCTT-TTACTTTT-TTGT
* **
30813971 TCTTTCTTTTCTTTCTTTTACTTCCTTGT
1 TCTTTTTTTTCTTTCTTTTACTTTTTTGT
30814000 TCTTTTTTTTCTTTCTTTTACTTTTTTGT
1 TCTTTTTTTTCTTTCTTTTACTTTTTTGT
30814029 TCTTTTTTTTCTT
1 TCTTTTTTTTCTT
30814042 GTTTTTGTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
28 2 0.03
29 45 0.73
30 8 0.13
31 7 0.11
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (29 bp):
TCTTTTTTTTCTTTCTTTTACTTTTTTGT
Found at i:30816140 original size:41 final size:40
Alignment explanation
Indices: 30816025--30816143 Score: 107
Period size: 41 Copynumber: 3.0 Consensus size: 40
30816015 CCTTATTCGA
* * * **
30816025 GCTTTGTGTCTAGCAGGCTTTGTGCTG-GTGATAT-TTGG
1 GCTTTGTGCCTAGCAGGCTTTGTGCAGTGTGTTATATCAG
* * * * * *
30816063 GCTCTATGCCTAGCAGGCTTTATACCGGTGTATTATATCAG
1 GCTTTGTGCCTAGCAGGCTTTGT-GCAGTGTGTTATATCAG
30816104 GCTTTGTGCCTAGCAGGCTTTGTGTCAGTGTGTTATATCA
1 GCTTTGTGCCTAGCAGGCTTTGTG-CAGTGTGTTATATCA
30816144 ACCTTTGAGC
Statistics
Matches: 61, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
38 19 0.31
39 2 0.03
40 5 0.08
41 35 0.57
ACGTcount: A:0.16, C:0.18, G:0.28, T:0.39
Consensus pattern (40 bp):
GCTTTGTGCCTAGCAGGCTTTGTGCAGTGTGTTATATCAG
Found at i:30816150 original size:41 final size:41
Alignment explanation
Indices: 30816069--30816160 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 41
30816059 TTGGGCTCTA
* **
30816069 TGCCTAGCAGGCTTTATACCGGTGTATTATATCAGGCTTTG
1 TGCCTAGCAGGCTTTATACCAGTGTATTATATCAACCTTTG
* ** *
30816110 TGCCTAGCAGGCTTTGTGTCAGTGTGTTATATCAACCTTTG
1 TGCCTAGCAGGCTTTATACCAGTGTATTATATCAACCTTTG
* *
30816151 AGCCTGGCAG
1 TGCCTAGCAG
30816161 TCTTCGTACC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (41 bp):
TGCCTAGCAGGCTTTATACCAGTGTATTATATCAACCTTTG
Found at i:30818997 original size:31 final size:31
Alignment explanation
Indices: 30818962--30819029 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
30818952 ATACACTGAC
* * *
30818962 TTAAACAAAAACTTTCGAATAATTTAATGAT
1 TTAAACAAAAAATTTCAAATAATTTAACGAT
* *
30818993 TTAAATAAAAAATTTTAAATAATTTAACGAT
1 TTAAACAAAAAATTTCAAATAATTTAACGAT
*
30819024 TAAAAC
1 TTAAAC
30819030 GTAAACTTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.35
Consensus pattern (31 bp):
TTAAACAAAAAATTTCAAATAATTTAACGAT
Found at i:30821804 original size:16 final size:18
Alignment explanation
Indices: 30821770--30821809 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
30821760 GATATAATAA
*
30821770 TAAATTTAATTTTTCGTT
1 TAAATTTAATTTTTAGTT
30821788 TAAATTT-A-TTTTAGTT
1 TAAATTTAATTTTTAGTT
30821804 TAAATT
1 TAAATT
30821810 AAAATAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.62
17 1 0.05
18 7 0.33
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (18 bp):
TAAATTTAATTTTTAGTT
Found at i:30824347 original size:30 final size:31
Alignment explanation
Indices: 30824288--30824351 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
30824278 ACTTAACAAG
30824288 CAAATGCTTCTAAAATAAAAAAAAAAATTAA
1 CAAATGCTTCTAAAATAAAAAAAAAAATTAA
* *
30824319 CAAATGCCTT-TAAAAT-AATAAGAAAATTAA
1 CAAATG-CTTCTAAAATAAAAAAAAAAATTAA
30824349 CAA
1 CAA
30824352 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 15 0.50
31 12 0.40
32 3 0.10
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.23
Consensus pattern (31 bp):
CAAATGCTTCTAAAATAAAAAAAAAAATTAA
Found at i:30828563 original size:31 final size:31
Alignment explanation
Indices: 30828491--30828564 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
30828481 CTTATGACTT
**
30828491 AAACAAAAATTTTAAAATAATTTAATAATTT
1 AAACAAAAATTTTAAAATAATTTAATAATAA
*
30828522 AAATAAAAATTTTAAAATAATTTAA-AGATAA
1 AAACAAAAATTTTAAAATAATTTAATA-ATAA
*
30828553 AAACATAAATTT
1 AAACAAAAATTT
30828565 ATATTTATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.03
31 36 0.97
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (31 bp):
AAACAAAAATTTTAAAATAATTTAATAATAA
Found at i:30832377 original size:18 final size:18
Alignment explanation
Indices: 30832321--30832380 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 18
30832311 AATAACATGT
*
30832321 AAATATATATAAT-TA-AT
1 AAATATA-ATAATATATAA
30832338 AAATAT-ATAATATAAGTGAA
1 AAATATAATAATAT-A-T-AA
30832358 AAATATAATAATATATAA
1 AAATATAATAATATATAA
30832376 AAATA
1 AAATA
30832381 GTGATAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
15 5 0.14
16 1 0.03
17 7 0.19
18 7 0.19
19 1 0.03
20 8 0.22
21 7 0.19
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
AAATATAATAATATATAA
Found at i:30834114 original size:83 final size:83
Alignment explanation
Indices: 30833973--30834231 Score: 329
Period size: 83 Copynumber: 3.1 Consensus size: 83
30833963 ATCTGTAGCG
* * ** *
30833973 AATCATCTTGAATTTGTTTGAGAACATTTGAGAGTTATATATGCTACATCCTTGATTTGTTCCTT
1 AATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTTATATATGCTATGTCCTCGATTTGTTCCTT
* *
30834038 GTAAGCATAAGGTTGCCA
66 GTAAGCACAAGGATGCCA
* * * * *
30834056 AGTCATCTTGAGTCTGTTTGAGAACATTTGAGTGTTATATTTGCAATGTTCTCGATTTGTTCCTT
1 AATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTTATATATGCTATGTCCTCGATTTGTTCCTT
30834121 GTAAGCACAAGGATGCCA
66 GTAAGCACAAGGATGCCA
* * * * * * *
30834139 AATCATCTTGAGTCTATTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTT
1 AATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTTATATATGCTATGTCCTCGATTTGTTCCTT
*
30834204 GTGAGCACAAGGATGCCA
66 GTAAGCACAAGGATGCCA
*
30834222 AATCAACTTG
1 AATCATCTTG
30834232 GATCTGCTTC
Statistics
Matches: 151, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
83 151 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (83 bp):
AATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTTATATATGCTATGTCCTCGATTTGTTCCTT
GTAAGCACAAGGATGCCA
Found at i:30834427 original size:202 final size:202
Alignment explanation
Indices: 30834101--30834552 Score: 681
Period size: 202 Copynumber: 2.2 Consensus size: 202
30834091 TATATTTGCA
* *
30834101 ATGTTCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGAGTCTATTTGAGAACGT
1 ATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGAGTCTATTTGAGAACAT
* * ** * * * *
30834166 CTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTGAGCACAAGGATGCCAAATCAACTT
66 CTAAGAGTCAAATCTACAACATCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCAACTT
* * * *
30834231 GGATCTGCTTCAATATAAACATCTGAA-GTCTAGATCTGCTGCCTTTGAGAACGTCTGAGAGTCA
131 GGATCTGCTTCAACATAAACATCTGAAGGT-TAGATCTACTACATTTGAGAACGTCTGAGAGTCA
30834295 AATCTACT
195 AATCTACT
30834303 ATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGAGTCTATTTGAGAACAT
1 ATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGAGTCTATTTGAGAACAT
* * * * *
30834368 TTAAGAGTCATATCTGCAACATCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTT
66 CTAAGAGTCAAATCTACAACATCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCAACTT
* *
30834433 GGATCTGCTTCAGCATAAACATCTGAAGGTTAGATCTACTATATTTGAGAACGTCTGAGAGTCAA
131 GGATCTGCTTCAACATAAACATCTGAAGGTTAGATCTACTACATTTGAGAACGTCTGAGAGTCAA
30834498 ATCTACT
196 ATCTACT
* *
30834505 ATGTCCTCGATTTGTTCCTTGTGAGCACAAGGATGCCAAATCAACTTG
1 ATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTG
30834553 GATCTGCTTC
Statistics
Matches: 226, Mismatches: 23, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
202 224 0.99
203 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (202 bp):
ATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGAGTCTATTTGAGAACAT
CTAAGAGTCAAATCTACAACATCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCAACTT
GGATCTGCTTCAACATAAACATCTGAAGGTTAGATCTACTACATTTGAGAACGTCTGAGAGTCAA
ATCTACT
Found at i:30834573 original size:119 final size:119
Alignment explanation
Indices: 30834389--30834671 Score: 406
Period size: 119 Copynumber: 2.4 Consensus size: 119
30834379 ATCTGCAACA
* * * * *
30834389 TCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGCATAAACA
1 TCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAACATAAACA
* *
30834454 TCTGAAGGT-TAGATCTACTATATTTGAGAACGTCTGAGAGTCAAATCTACTATG
66 TCTGAA-GTCTAGATCTACTACATTTGAGAACGTCCGAGAGTCAAATCTACTATG
* * * *
30834508 TCCTCGATTTGTTCCTTGTGAGCACAAGGATGCCAAATCAACTTGGATCTGCTTCAATATCAACA
1 TCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAACATAAACA
* * * *
30834573 TCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTCCGAGAGTCAAATCTGCTATG
66 TCTGAAGTCTAGATCTACTACATTTGAGAACGTCCGAGAGTCAAATCTACTATG
*
30834627 TCCTCGATTTGTTCCTTGTAAGCACAGGGATGCCAAATCATCTTG
1 TCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTG
30834672 AGTCTATTTG
Statistics
Matches: 145, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
118 2 0.01
119 143 0.99
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (119 bp):
TCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAACATAAACA
TCTGAAGTCTAGATCTACTACATTTGAGAACGTCCGAGAGTCAAATCTACTATG
Found at i:30846591 original size:17 final size:16
Alignment explanation
Indices: 30846571--30846618 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
30846561 ATATTAGTTT
30846571 TAAAAAAATATATATAG
1 TAAAAAAATATATA-AG
* * *
30846588 TAAATAAATAAATAAT
1 TAAAAAAATATATAAG
30846604 TAATAAAAATATATA
1 TAA-AAAAATATATA
30846619 GTGTGAGTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (16 bp):
TAAAAAAATATATAAG
Found at i:30846747 original size:20 final size:23
Alignment explanation
Indices: 30846721--30846778 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 23
30846711 CATGATATAC
30846721 ATAAATATATAAA-AAAA-TAA-
1 ATAAATATATAAATAAAAGTAAT
30846741 ATAAATATTATATAATAAAATGTAAT
1 ATAAATA-TATA-AATAAAA-GTAAT
30846767 ATAAATATATAA
1 ATAAATATATAA
30846779 GAATTATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
20 7 0.22
21 4 0.12
22 2 0.06
23 4 0.12
24 1 0.03
25 7 0.22
26 7 0.22
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
ATAAATATATAAATAAAAGTAAT
Found at i:30846800 original size:46 final size:46
Alignment explanation
Indices: 30846721--30846871 Score: 118
Period size: 46 Copynumber: 3.3 Consensus size: 46
30846711 CATGATATAC
*
30846721 ATAAATATATAAAAAAATAAATAAATATTATAT-AATAAAATGTAA
1 ATAAATATATAAAAAAATAAATAAATATAATATAAATAAAATGTAA
* * * *
30846766 TATAAATATAT-AAGAATTATAATAGATATAATATAAAATAACATGTAA
1 -ATAAATATATAAAAAAATA-AATAAATATAATAT-AAATAAAATGTAA
* ** * *
30846814 ATATATATAT-AATTAATAAAT--ATATAATATAAGTGAAAA-ATATA
1 ATAAATATATAAAAAAATAAATAAATATAATATAAAT-AAAATGTA-A
30846858 AT-AATATATAAAAA
1 ATAAATATATAAAAA
30846872 TAGTGATAAT
Statistics
Matches: 84, Mismatches: 15, Indels: 14
0.74 0.13 0.12
Matches are distributed among these distances:
43 11 0.13
44 17 0.20
45 6 0.07
46 25 0.30
47 14 0.17
48 11 0.13
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (46 bp):
ATAAATATATAAAAAAATAAATAAATATAATATAAATAAAATGTAA
Found at i:30848220 original size:65 final size:66
Alignment explanation
Indices: 30848140--30848271 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
30848130 TTGGGTCTTT
*
30848140 CTAGGTTTGGGTTAGTAGGCTATGGGT-GCAATAGTGGGCTTGCTGAGTAGGTGTTAGTTTTGTA
1 CTAGGTTTGGGTTAGTAGGCTATGGGTGGCAATAGTGGGCTTGCTGAGTAGGGGTTAGTTTTGTA
30848204 A
66 A
30848205 CTAGGTTTGGGTTAGTAGGCTATGGGTGGCAATAGTGGGCTTGCTGAGTAGGGGTTAGTTTTGTA
1 CTAGGTTTGGGTTAGTAGGCTATGGGTGGCAATAGTGGGCTTGCTGAGTAGGGGTTAGTTTTGTA
30848270 A
66 A
30848271 C
1 C
30848272 CTGGACTGTT
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
65 27 0.42
66 38 0.58
ACGTcount: A:0.18, C:0.08, G:0.38, T:0.36
Consensus pattern (66 bp):
CTAGGTTTGGGTTAGTAGGCTATGGGTGGCAATAGTGGGCTTGCTGAGTAGGGGTTAGTTTTGTA
A
Found at i:30848546 original size:2 final size:2
Alignment explanation
Indices: 30848539--30848570 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
30848529 AGAATCTCAA
30848539 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30848571 GTATTTGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30850520 original size:2 final size:2
Alignment explanation
Indices: 30850470--30850500 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
30850460 TATGCAACCG
30850470 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30850501 GTAGTCCACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30854572 original size:21 final size:21
Alignment explanation
Indices: 30854548--30854629 Score: 110
Period size: 21 Copynumber: 3.8 Consensus size: 21
30854538 GACACATAAA
* *
30854548 GTGCCTAAAATGACACACGAG
1 GTGCCTGAAACGACACACGAG
*
30854569 GTGCCTGATACGACACACGAG
1 GTGCCTGAAACGACACACGAG
*
30854590 GTGCCTGATACGACACACGAG
1 GTGCCTGAAACGACACACGAG
30854611 GTGCCTGAAATACGACACA
1 GTGCCTG-AA-ACGACACA
30854630 TAAAGTGCTT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
21 46 0.84
22 1 0.02
23 8 0.15
ACGTcount: A:0.33, C:0.27, G:0.26, T:0.15
Consensus pattern (21 bp):
GTGCCTGAAACGACACACGAG
Found at i:30854585 original size:42 final size:43
Alignment explanation
Indices: 30854534--30854637 Score: 138
Period size: 42 Copynumber: 2.4 Consensus size: 43
30854524 CCTGATCAGT
*
30854534 ATACGACACATAAAGTGCCTAAAATGACACACGAGGTGCCTG-
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
** * * *
30854576 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG-A
30854620 ATACGACACATAAAGTGC
1 ATACGACACATAAAGTGC
30854638 TTGATCGATA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 36 0.71
44 15 0.29
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (43 bp):
ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
Found at i:30854586 original size:23 final size:21
Alignment explanation
Indices: 30854559--30854629 Score: 124
Period size: 21 Copynumber: 3.3 Consensus size: 21
30854549 TGCCTAAAAT
30854559 GACACACGAGGTGCCTGATAC
1 GACACACGAGGTGCCTGATAC
30854580 GACACACGAGGTGCCTGATAC
1 GACACACGAGGTGCCTGATAC
30854601 GACACACGAGGTGCCTGAAATAC
1 GACACACGAGGTGCCTG--ATAC
30854624 GACACA
1 GACACA
30854630 TAAAGTGCTT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
21 38 0.79
23 10 0.21
ACGTcount: A:0.32, C:0.28, G:0.27, T:0.13
Consensus pattern (21 bp):
GACACACGAGGTGCCTGATAC
Found at i:30855036 original size:15 final size:15
Alignment explanation
Indices: 30855011--30855068 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
30855001 TCATATATAT
30855011 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
30855027 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
30855042 AATAATTTCAATCAA
1 TATAAATTCAATCAA
30855057 TATAAATTCAAT
1 TATAAATTCAAT
30855069 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:30856352 original size:5 final size:5
Alignment explanation
Indices: 30856339--30856375 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
30856329 TTCTTTAGTT
30856339 TATATA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA T
30856376 TAAAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:30856411 original size:8 final size:8
Alignment explanation
Indices: 30856398--30856426 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
30856388 TATCTTTATT
30856398 ATATAATA
1 ATATAATA
30856406 ATATAATA
1 ATATAATA
30856414 ATATAATA
1 ATATAATA
30856422 ATATA
1 ATATA
30856427 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:30856445 original size:52 final size:58
Alignment explanation
Indices: 30856338--30856445 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 58
30856328 CTTCTTTAGT
* *
30856338 TTATATATATAATATAATATAATATAATATAATATAATTAAAACATAAAATATCTTTA
1 TTATATATATAATATAATATAATATAATATAATATAACTAAAACATAAAAAATCTTTA
30856396 TTATATA-ATAATAT-A-ATAATAT-A-ATAATAT-ACT-AAACATAAAAAAATCTT
1 TTATATATATAATATAATATAATATAATATAATATAACTAAAACAT-AAAAAATCTT
30856446 AGATTTTCTT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
51 6 0.13
52 11 0.23
53 7 0.15
54 1 0.02
55 7 0.15
56 1 0.02
57 7 0.15
58 7 0.15
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (58 bp):
TTATATATATAATATAATATAATATAATATAATATAACTAAAACATAAAAAATCTTTA
Found at i:30858172 original size:20 final size:20
Alignment explanation
Indices: 30858149--30858187 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
30858139 TAATTTAATA
30858149 ACTTAAATGAAACTTTAAAG
1 ACTTAAATGAAACTTTAAAG
30858169 ACTTAAATGAAACTTTAAA
1 ACTTAAATGAAACTTTAAA
30858188 ATAATTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (20 bp):
ACTTAAATGAAACTTTAAAG
Found at i:30861777 original size:16 final size:16
Alignment explanation
Indices: 30861758--30861808 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
30861748 GTCGAAATTC
*
30861758 TTTTCTTTTCTTTCTT
1 TTTTCTTTTCTTTCAT
30861774 TTTTCTTCTTC-TTCAT
1 TTTTCTT-TTCTTTCAT
*
30861790 TTTTCTTCTCTTTCGAT
1 TTTTCTTTTCTTTC-AT
30861807 TT
1 TT
30861809 CCCGTTCTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 2 0.07
16 21 0.70
17 7 0.23
ACGTcount: A:0.04, C:0.22, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTTCTTTTCTTTCAT
Found at i:30862847 original size:40 final size:40
Alignment explanation
Indices: 30862792--30862868 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
30862782 ACGGTACCTT
*
30862792 TTGGTGTGTAGGGTTGGATGGGTTGATTATATCCCCATAC
1 TTGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCATAC
* *
30862832 TTGGTGTGTAGGGTTGGGTGGGTCGATTCTATCCCCA
1 TTGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCA
30862869 CATAGTATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.14, C:0.14, G:0.35, T:0.36
Consensus pattern (40 bp):
TTGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCATAC
Found at i:30864845 original size:30 final size:30
Alignment explanation
Indices: 30864809--30864872 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
30864799 ATCTAGGTGA
30864809 GTGTTGGAGATCTACTGGCGCTGGTTTAAG
1 GTGTTGGAGATCTACTGGCGCTGGTTTAAG
30864839 GTGTTGGAGATCTACTGGCGCTGGTTTAAG
1 GTGTTGGAGATCTACTGGCGCTGGTTTAAG
30864869 GTGT
1 GTGT
30864873 GGATCGACTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.16, C:0.12, G:0.38, T:0.34
Consensus pattern (30 bp):
GTGTTGGAGATCTACTGGCGCTGGTTTAAG
Found at i:30865702 original size:14 final size:14
Alignment explanation
Indices: 30865676--30865721 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
30865666 GTTATTTTAC
*
30865676 TATTTAAGT-TTAT
1 TATTTTAGTATTAT
30865689 TATTTTAGTATTAT
1 TATTTTAGTATTAT
30865703 TATTTTAGTATCTAT
1 TATTTTAGTAT-TAT
30865718 TATT
1 TATT
30865722 AATGTCATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 8 0.27
14 15 0.50
15 7 0.23
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (14 bp):
TATTTTAGTATTAT
Found at i:30865776 original size:2 final size:2
Alignment explanation
Indices: 30865769--30865882 Score: 98
Period size: 2 Copynumber: 60.0 Consensus size: 2
30865759 ATTAACATTC
*
30865769 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * *
30865811 -T TT A- AT AT A- AT AT -T A- AGT -T AT CT TT AT TT A- AC CT TT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
30865847 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30865883 TATTAGCTTC
Statistics
Matches: 93, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
1 7 0.08
2 86 0.92
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:30866220 original size:26 final size:27
Alignment explanation
Indices: 30866188--30866244 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
30866178 TTGTATATTT
30866188 TTTATAT-ATTC-TTAAATACCATTATA
1 TTTATATAATTCTTTAAATACCA-TATA
*
30866214 TTTATATAATTCTTTTTAATACCATATA
1 TTTATATAATTC-TTTAAATACCATATA
30866242 TTT
1 TTT
30866245 CCAATGCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 7 0.26
27 4 0.15
28 7 0.26
29 9 0.33
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (27 bp):
TTTATATAATTCTTTAAATACCATATA
Found at i:30866563 original size:20 final size:22
Alignment explanation
Indices: 30866519--30866563 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
30866509 TTTATCTTAG
* *
30866519 TATATATATTTTATTATATGTA
1 TATATATACTTTATTATATGAA
30866541 TATATATACTTT-TTATAT-AA
1 TATATATACTTTATTATATGAA
30866561 TAT
1 TAT
30866564 TATTTTCGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 6 0.29
22 11 0.52
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
TATATATACTTTATTATATGAA
Found at i:30866760 original size:15 final size:15
Alignment explanation
Indices: 30866740--30866768 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30866730 ATACTATGTA
30866740 TATATATTTAGTATG
1 TATATATTTAGTATG
30866755 TATATATTTAGTAT
1 TATATATTTAGTAT
30866769 TATTATGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
TATATATTTAGTATG
Found at i:30879042 original size:73 final size:73
Alignment explanation
Indices: 30878960--30879108 Score: 237
Period size: 73 Copynumber: 2.0 Consensus size: 73
30878950 CTGTTTTCAA
*
30878960 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCT-GAGGTAATTTCAATTT
1 AAAAATCAACTCATATTACGAAAGGTGAGTTGAGCCTCAGGACACG-TGGAGGTAATTTCAATTT
30879024 ATGCTTTTC
65 ATGCTTTTC
* * * *
30879033 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGGCACGTGGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTACGAAAGGTGAGTTGAGCCTCAGGACACGTGGAGGTAATTTCAATTTA
30879098 TGCTTTTC
66 TGCTTTTC
30879106 AAA
1 AAA
30879109 TTCTACTTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
72 1 0.01
73 69 0.99
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (73 bp):
AAAAATCAACTCATATTACGAAAGGTGAGTTGAGCCTCAGGACACGTGGAGGTAATTTCAATTTA
TGCTTTTC
Found at i:30879106 original size:14 final size:14
Alignment explanation
Indices: 30879087--30879122 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
30879077 CGTGGAGGTA
* *
30879087 TTTTCAATTTCTGC
1 TTTTCAAATTCTAC
30879101 TTTTCAAATTCTAC
1 TTTTCAAATTCTAC
30879115 TTTTCAAA
1 TTTTCAAA
30879123 AAAATCAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (14 bp):
TTTTCAAATTCTAC
Found at i:30879174 original size:89 final size:89
Alignment explanation
Indices: 30879015--30879517 Score: 524
Period size: 89 Copynumber: 5.6 Consensus size: 89
30879005 GCTGAGGTAA
*
30879015 TTTCAATTTATGCTTTTC--AAAAATCAACTCATATTGCGAA-AGGTGAGTTGAGCCTCAGGG-C
1 TTTCAAATTATGCTTTTCAAAAAAATCAACTCATATTGC-AAGAGGTGAGTTGAGCCTC-GGGTC
* *
30879076 ACGTGGAGGTATTTTCAATTTCTGCT
64 ACGTCGAGGTATTTTCAAATTCTGCT
* * * *
30879102 TTTCAAATTCTACTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCAGGAT-A
1 TTTCAAATTATGCTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGGTCA
* *
30879166 CG-CTGAGGTATTTTCAATTTCTGTT
65 CGTC-GAGGTATTTTCAAATTCTGCT
** * *
30879191 TTTCAGTTTATGCTTTTCAAAAAAATCAACTCATATTGTAAGAGATGAGTTGAGCCTCGGGTCAC
1 TTTCAAATTATGCTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCAC
* *
30879256 ATGTCGAGGTATTTTCAAAATCTTCT
66 --GTCGAGGTATTTTCAAATTCTGCT
* * * * * *
30879282 TTGT-AAATTCTGC-TTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTCAGCCTTGGCTCA
1 TT-TCAAATTATGCTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCA
* * *
30879345 CGTTTTGAGCTATTTTCAAATTCTGTT
65 CG--TCGAGGTATTTTCAAATTCTGCT
* * *
30879372 TTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTCAAATTATGCTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCAC
* *
30879437 ATGTCGAGGTACTTTCAAAATC-GACT
66 --GTCGAGGTATTTTCAAATTCTG-CT
* * * *
30879463 TTTCAAATTAAG--TTTCAAAAAAACCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 TTTCAAATTATGCTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
30879518 TGGCTCACCT
Statistics
Matches: 349, Mismatches: 50, Indels: 32
0.81 0.12 0.07
Matches are distributed among these distances:
87 15 0.04
88 6 0.02
89 155 0.44
90 71 0.20
91 99 0.28
92 2 0.01
93 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (89 bp):
TTTCAAATTATGCTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCAC
GTCGAGGTATTTTCAAATTCTGCT
Found at i:30879376 original size:14 final size:14
Alignment explanation
Indices: 30879357--30879392 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
30879347 TTTTGAGCTA
*
30879357 TTTTCAAATTCTGT
1 TTTTCAAATTATGT
*
30879371 TTTTCAATTTATGT
1 TTTTCAAATTATGT
30879385 TTTTCAAA
1 TTTTCAAA
30879393 AAAATCAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.58
Consensus pattern (14 bp):
TTTTCAAATTATGT
Found at i:30879398 original size:181 final size:177
Alignment explanation
Indices: 30879015--30879759 Score: 733
Period size: 181 Copynumber: 4.3 Consensus size: 177
30879005 GCTGAGGTAA
*
30879015 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAA-AGGTGAGTTGAGCCTCAGGGCAC-
1 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGC-AAGAGATGAGTTGAGCCTC-GGGCACA
* ** * * *
30879078 -GTGGAGGTATTTTCAATTTCTGCTTTTCAAATTCTACTTTTCAAAAAAATCAACTCATATTGCA
64 TGTCGAGGTATTTTCAAAATCTTCTTTTCAAATTCT--GTTTCAAAAAAATCAACTCATATTGCG
* * * *
30879142 AGAGGTGAGTTAAGCCTCAGGAT-AC--GCTGAGGTATTTTCAATTTCTGTT
127 AGAGGTGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATTTTCAATTTCTGTT
* *
30879191 TTTCAGTTTATGCTTTTCAAAAAAATCAACTCATATTGTAAGAGATGAGTTGAGCCTCGGGTCAC
1 TTTCAATTTATGCTTTTC--AAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGG-CAC
*
30879256 ATGTCGAGGTATTTTCAAAATCTTCTTTGT-AAATTCTGCTTTCAAAAAAATCAACTTATATTGC
63 ATGTCGAGGTATTTTCAAAATCTTCTTT-TCAAATTCTG-TTTCAAAAAAATCAACTCATATTGC
* ** *
30879320 GAGAGGTGAGTTCAGCCTTGGCTCACGTTTTGAGCTATTTTCAAATTCTGTT
126 GAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTT
* * *
30879372 TTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTCAATTTATGCTTTTC--AAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGG-CAC
* ** ** *
30879437 ATGTCGAGGTACTTTCAAAATCGACTTTTCAAATTAAGTTTCAAAAAAACCAACTCATATTGCGA
63 ATGTCGAGGTATTTTCAAAATCTTCTTTTCAAATTCTGTTTCAAAAAAATCAACTCATATTGCGA
* * * *
30879502 GAAGTGAGTTGAGCCTTGGCTCACCTGCTGAGCTACTTTCAATTTCTATT
128 GAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTT
* * * * *
30879552 TTT-AATGTCTG-TTTT---TAA-CAACTCATATTGCGAGAGATGAGTTGAGCCTCAGG-ACATG
1 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGGCACATG
*
30879610 -CTGAGGTATTTT--AAAT-TTC---T---GTT-TG--TC--AAAAATCAACTCATATTGCGAGA
66 TC-GAGGTATTTTCAAAATCTTCTTTTCAAATTCTGTTTCAAAAAAATCAACTCATATTGCGAGA
* *
30879660 GGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTTTGTT
130 GGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTT
* * * * * *
30879708 TTT-AATGTCTGCTTTT-AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 TTTCAATTTATGCTTTTCAAA-AATCAACTCATATTGCAAGAGATGAGTTGAGC
30879760 TCAGGATCAC
Statistics
Matches: 493, Mismatches: 58, Indels: 51
0.82 0.10 0.08
Matches are distributed among these distances:
156 75 0.15
157 4 0.01
158 2 0.00
160 2 0.00
161 29 0.06
164 1 0.00
167 1 0.00
168 4 0.01
169 1 0.00
170 14 0.03
172 33 0.07
173 2 0.00
176 17 0.03
177 5 0.01
178 43 0.09
179 48 0.10
180 100 0.20
181 112 0.23
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (177 bp):
TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGGCACATG
TCGAGGTATTTTCAAAATCTTCTTTTCAAATTCTGTTTCAAAAAAATCAACTCATATTGCGAGAG
GTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTT
Found at i:30879512 original size:270 final size:267
Alignment explanation
Indices: 30879033--30879517 Score: 604
Period size: 270 Copynumber: 1.8 Consensus size: 267
30879023 TATGCTTTTC
* * *
30879033 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGGCACGTGGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTCAGCCTCAGGGCACGTGGAGCTATTTTCAAATTC
*
30879098 TGCTTTTCAAATTCTACTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCAGG
66 TGCTTTTCAAATTATACTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCAGG
* ** * ** * *
30879163 ATACGCTGAGGTATTTTCAATTTCTGTTTTTCAGTTTATGCTTTTCAAAAAAATCAACTCATATT
131 ATACGCTGAGGTACTTTCAAAATCTGCTTTTCAAATTAAGC-TTTCAAAAAAACCAACTCATATT
*
30879228 GTAAGAGATGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTTCTTTGTAAATTCT
195 GCAAGAGATGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTTCTTTGTAAATTCT
30879293 GCTTTCAA
260 GCTTTCAA
* * * * *
30879301 AAAAATCAACTTATATTGCGAGAGGTGAGTTCAGCCT-TGGCTCACGTTTTGAGCTATTTTCAAA
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTCAGCCTCAGG-GCACG--TGGAGCTATTTTCAAA
* * ** * *
30879365 TTCTGTTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
63 TTCTGCTTTTCAAATTATACTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTC
*
30879430 -GGGTCACATG-TCGAGGTACTTTCAAAATC-GACTTTTCAAATTAAG-TTTCAAAAAAACCAAC
128 AGGAT-AC--GCT-GAGGTACTTTCAAAATCTG-CTTTTCAAATTAAGCTTTCAAAAAAACCAAC
*
30879491 TCATATTGCGAGA-AGTGAGTTGAGCCT
188 TCATATTGCAAGAGA-TGAGTTGAGCCT
30879518 TGGCTCACCT
Statistics
Matches: 182, Mismatches: 26, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
267 2 0.01
268 38 0.21
269 4 0.02
270 111 0.61
271 2 0.01
272 25 0.14
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (267 bp):
AAAAATCAACTCATATTGCGAAAGGTGAGTTCAGCCTCAGGGCACGTGGAGCTATTTTCAAATTC
TGCTTTTCAAATTATACTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCAGG
ATACGCTGAGGTACTTTCAAAATCTGCTTTTCAAATTAAGCTTTCAAAAAAACCAACTCATATTG
CAAGAGATGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTTCTTTGTAAATTCTG
CTTTCAA
Found at i:30879593 original size:83 final size:83
Alignment explanation
Indices: 30879213--30879759 Score: 257
Period size: 90 Copynumber: 6.4 Consensus size: 83
30879203 CTTTTCAAAA
** * * * *
30879213 AAATCAACTCATATTGTAAGAGATGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCAAAAT
1 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGCTCACCTGCT-GAGCTATTTTC--AAT
* * *
30879277 CTTCTTTGTAAAT-TCTGCTTTCAAAA
63 -TTCTTTTTTAATGTCTG-TTT----T
* * * * ** *
30879303 AAATCAACTTATATTGCGAGAGGTGAGTTCAGCCTTGGCTCACGTTTTGAGCTATTTTCAAATTC
1 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGCTCACCTGCTGAGCTATTTTCAATTTC
* *
30879368 TGTTTTTCAATTTATGTTTTT
66 T-TTTTT-AATGTCTG-TTTT
* * * * * *
30879389 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTACTTTC
1 -----AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGCTCACCTGCT-GAGCTATTTTC
** ** ** *
30879453 AAAATCGACTTTTCAAAT-TAAGTTTCAAAA
60 --AAT-TTCTTTTTTAATGTCTGTTT----T
* *
30879483 AAACCAACTCATATTGCGAGA-AGTGAGTTGAGCCTTGGCTCACCTGCTGAGCTACTTTCAATTT
1 AAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTTGGCTCACCTGCTGAGCTATTTTCAATTT
30879547 CTATTTTTAATGTCTGTTTT
65 CT-TTTTTAATGTCTGTTTT
* * * * *
30879567 TAA-CAACTCATATTGCGAGAGATGAGTTGAGCCTCAGG---ACATGCTGAGGTATTTTAAATTT
1 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCT-TGGCTCACCTGCTGAGCTATTTTCAATTT
* **
30879628 C--TGTT--TGTC----AA
65 CTTTTTTAATGTCTGTTTT
*
30879639 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC-GCTGAGCTATTTTCAATTT
1 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGCTCAC-CTGCTGAGCTATTTTCAATTT
*
30879703 TTGTTTTTAATGTCTGCTTTT
65 CT-TTTTTAATGTCTG-TTTT
* *
30879724 AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 -AA-A-TCAACTCATATTGCGAGAGATGAGTTGAGC
30879760 TCAGGATCAC
Statistics
Matches: 350, Mismatches: 66, Indels: 84
0.70 0.13 0.17
Matches are distributed among these distances:
72 4 0.01
73 30 0.09
75 19 0.05
76 4 0.01
78 6 0.02
80 4 0.01
81 20 0.06
83 29 0.08
84 5 0.01
86 4 0.01
87 14 0.04
88 37 0.11
89 53 0.15
90 58 0.17
91 53 0.15
92 3 0.01
93 5 0.01
94 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (83 bp):
AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGCTCACCTGCTGAGCTATTTTCAATTTC
TTTTTTAATGTCTGTTTT
Found at i:30881602 original size:14 final size:15
Alignment explanation
Indices: 30881585--30881619 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
30881575 ATTTAAGATA
*
30881585 ATTATTTTAGTAT-T
1 ATTATTTTAATATCT
30881599 ATTATTTTAATATCT
1 ATTATTTTAATATCT
30881614 ATTATT
1 ATTATT
30881620 AATGTCATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
ATTATTTTAATATCT
Found at i:30881674 original size:2 final size:2
Alignment explanation
Indices: 30881667--30881702 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
30881657 ATTAACATTC
30881667 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30881703 GTTTTAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30882190 original size:25 final size:27
Alignment explanation
Indices: 30882139--30882190 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 27
30882129 ATTTCCAATG
* * *
30882139 TTATGTGTACAATTTGTAATGTTATTA
1 TTATGTATACAATTTGTAATATCATTA
30882166 TTATGTATAC-ATTT-TAATATCATTA
1 TTATGTATACAATTTGTAATATCATTA
30882191 GTTACACATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 9 0.41
26 4 0.18
27 9 0.41
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.52
Consensus pattern (27 bp):
TTATGTATACAATTTGTAATATCATTA
Found at i:30882467 original size:24 final size:24
Alignment explanation
Indices: 30882421--30882467 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
30882411 TTAATCTTAG
*
30882421 TATATATATTTTATTATATGTATA
1 TATATATACTTTATTATATGTATA
30882445 TATATATACTTT-TTATATAGTAT
1 TATATATACTTTATTATAT-GTAT
30882468 TATTTTCGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (24 bp):
TATATATACTTTATTATATGTATA
Found at i:30882557 original size:3 final size:3
Alignment explanation
Indices: 30882549--30882599 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
30882539 TACATACATC
30882549 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30882597 TTA
1 TTA
30882600 GTATATAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:30882690 original size:15 final size:15
Alignment explanation
Indices: 30882670--30882698 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30882660 ATACTATGTA
30882670 TATATATTTAGTATG
1 TATATATTTAGTATG
30882685 TATATATTTAGTAT
1 TATATATTTAGTAT
30882699 TATTATGCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
TATATATTTAGTATG
Found at i:30892137 original size:30 final size:30
Alignment explanation
Indices: 30892101--30892160 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
30892091 TTTTTGAAAA
30892101 ACAGAAATT-AAAAGACTCAACTCAACTCTC
1 ACAGAAATTAAAAAG-CTCAACTCAACTCTC
*
30892131 ACAGAAATTAAAAAGCTCAACTCACCTCTC
1 ACAGAAATTAAAAAGCTCAACTCAACTCTC
30892161 GCAATATGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.45, C:0.28, G:0.07, T:0.20
Consensus pattern (30 bp):
ACAGAAATTAAAAAGCTCAACTCAACTCTC
Found at i:30892438 original size:79 final size:75
Alignment explanation
Indices: 30892306--30892866 Score: 377
Period size: 79 Copynumber: 7.2 Consensus size: 75
30892296 CATGTGACCC
* * * *
30892306 GAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG--AAAATACC
* *
30892371 TCAGTGTGTGATT
64 TCAGCGTGT-CTT
* * *
30892384 GAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATAGCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAACAGAAATTGAAAATACCT
* *
30892449 CAGCGCGTGAGC-C
65 CA--GCGTG-TCTT
* **
30892462 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGGCAGAAATTGAAAA-ACG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAAACAGAAATTGAAAATAC-
* * * * *
30892526 GAAATTGAAAATACCTCGGCGTGT
63 ----CT---CA-GCGT-GTC-T-T
* * * * * * * * * * *
30892550 GA-CCTGAGGCTCA--ACTCGC-CTCTCACATACGAGTTGATTTTTTTG-ACAACAGAAATTGAA
1 GAGGCTCA-ACTCACCTCTCGCAATATGA-GT-TGA-TT-TTTTT---GAAAAACAGAAATTGAA
* *
30892610 ATTACCTCAGCGTGTCCT
58 AATACCTCAGCGTGTCTT
30892628 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTC
*
30892693 AGCATGTCTT
66 AGCGTGTCTT
** *
30892703 GAGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTTTTTTTGAAAAACAGAAATTGAAAATA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTTGAAAAACAGAAATTGAAAATA
*
30892768 CCTCAGCATGTCTT
62 CCTCAGCGTGTCTT
* ** * *
30892782 GAGGCTCAACTAATTTCTCGCAATATGAGTTGA--ATTTTG-AAAACAGAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTC
30892844 AGCGTGTCTT
66 AGCGTGTCTT
30892854 GAGGCTCAACTCA
1 GAGGCTCAACTCA
30892867 TTTTGAACAG
Statistics
Matches: 383, Mismatches: 66, Indels: 74
0.73 0.13 0.14
Matches are distributed among these distances:
72 43 0.11
73 5 0.01
74 1 0.00
75 59 0.15
77 14 0.04
78 71 0.19
79 127 0.33
80 8 0.02
81 5 0.01
82 1 0.00
83 1 0.00
85 8 0.02
86 10 0.03
87 9 0.02
88 5 0.01
89 13 0.03
90 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (75 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTC
AGCGTGTCTT
Found at i:30892496 original size:244 final size:241
Alignment explanation
Indices: 30891937--30892741 Score: 870
Period size: 246 Copynumber: 3.3 Consensus size: 241
30891927 ACAGACATTA
30891937 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
** * *
30892002 TGATTTTTTG-AAACTTAA-CTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGAAGG
66 TGATTTTTTGAAAACAGAATC-TGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTG-AGG
* * * *
30892064 TTCAACTCAC-CTCTCAATATGAATTGA--TTTTTGAAAAACAGAAATTAAAAGACTCAACTCAA
129 CTCAACTCACTCTCACAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAA-A---AA-T--A
** ** * *
30892126 CTCTCACAG-AAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTAAATTTTTTTG
187 C-CTCAGTGTGTATT--GAAGCTCAACTCACCTCTCGCAATATGAGTT-GATTTTTTTG
* * *
30892184 AAAA-AAAAATTGAAAATAGCTCAGCACGTGAGCTAAGGCTCAACTCACTTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
*
30892248 TGA-TTTTTGAAAACAGAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCT
66 TGATTTTTTGAAAACAGAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTGAGGCT
* * * *
30892312 CAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCAGTG
131 CAACTCAC-TCTCACAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATACCTCAGTG
30892377 TGTGATTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTG
195 TGT-ATTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG
*
30892426 AAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAA-ACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* * ** * *
30892491 TTGATTTTTTTTTGAAAGGCAGAAAT-TGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCT
65 TTGA---TTTTTTGAAA-ACAG-AATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCT
* * * *
30892555 GAGGCTCAACTCGCCTCTCAC-ATACGAGTTGATTTTTTTG-ACAACAGAAATTG--AAATTACC
125 GAGGCTCAACTC-ACTCTCACAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATACC
* ** *
30892616 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
189 TCAGTGTGTATTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * ** ** *
30892669 AAAAACAGAAATTGAAAATACCTCAGCA--TG-TCTTGAGGCTCAACTCATTTCTCACAATATGA
1 -AAAACAGAAATTGAAAATAGCTCAGCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
30892731 GTTGATTTTTT
64 GTTGATTTTTT
30892742 TTTTTGAAAA
Statistics
Matches: 485, Mismatches: 52, Indels: 51
0.82 0.09 0.09
Matches are distributed among these distances:
238 6 0.01
240 1 0.00
241 32 0.07
242 46 0.09
243 33 0.07
244 98 0.20
245 22 0.05
246 113 0.23
247 17 0.04
248 40 0.08
249 53 0.11
250 24 0.05
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (241 bp):
AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAACAGAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCTGAGGCT
CAACTCACTCTCACAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAAATACCTCAGTGT
GTATTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:30892592 original size:93 final size:93
Alignment explanation
Indices: 30892423--30892593 Score: 238
Period size: 93 Copynumber: 1.8 Consensus size: 93
30892413 TTGATTTTTT
* * * *
30892423 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
30892488 GAGTTGATTTTTTTTTGAAAGGCAGAAA
66 GAGTTGATTTTTTTTTGAAAGGCAGAAA
* * * * *
30892516 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCGCCTCTCAC-ATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCACAATA
30892579 CGAGTTGATTTTTTT
65 CGAGTTGATTTTTTT
30892594 GACAACAGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
92 19 0.28
93 49 0.72
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (93 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
GAGTTGATTTTTTTTTGAAAGGCAGAAA
Found at i:30892652 original size:166 final size:167
Alignment explanation
Indices: 30892363--30892686 Score: 442
Period size: 166 Copynumber: 1.9 Consensus size: 167
30892353 ATAAATTGAA
* * * *
30892363 AAAATACCTCAGTGTGTGATTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAA
1 AAAATACCTCAGCGTGTGACTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTTGAA
*
30892428 AGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
66 AGACAGAAATTGAAAATACCTCA-CGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
**
30892493 GATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
130 GA--TTTTTTTGAAAAACAGAAATTGAAAAACGGAAATTG
* * *
30892533 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCAC-ATACGAGTTGA-TTTTTTTGA
1 AAAATACCTCAGCGTGTGA-CTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTTGA
* * * *
30892596 CA-ACAGAAATTGAAATTACCTCA-GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
65 AAGACAGAAATTGAAAATACCTCACGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGT
30892658 TGATTTTTTTGAAAAACAGAAATTGAAAA
129 TGATTTTTTTGAAAAACAGAAATTGAAAA
30892687 TACCTCAGCA
Statistics
Matches: 138, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
164 24 0.17
165 2 0.01
166 37 0.27
168 19 0.14
169 10 0.07
170 27 0.20
171 19 0.14
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (167 bp):
AAAATACCTCAGCGTGTGACTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTTGAA
AGACAGAAATTGAAAATACCTCACGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTGAAAAACAGAAATTGAAAAACGGAAATTG
Found at i:30892666 original size:75 final size:75
Alignment explanation
Indices: 30892516--30892866 Score: 442
Period size: 75 Copynumber: 4.7 Consensus size: 75
30892506 AAGGCAGAAA
* * * * *
30892516 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCAC-ATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCACCTCTCACAATAT
30892580 GAGTTGATTTTT
64 GAGTTGATTTTT
* * * *
30892592 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCACAATATGA
30892656 GTTGATTTTT
66 GTTGATTTTT
* **
30892666 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCACAATATGA
30892731 GTTGATTTTTTTTT
66 GTTGA----TTTTT
* * ** *
30892745 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCACAATATGA
*
30892810 GTTGA--ATT
66 GTTGATTTTT
*
30892818 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA
30892867 TTTTGAACAG
Statistics
Matches: 249, Mismatches: 20, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
72 43 0.17
73 27 0.11
74 18 0.07
75 85 0.34
76 3 0.01
79 73 0.29
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCACAATATGA
GTTGATTTTT
Found at i:30892792 original size:154 final size:146
Alignment explanation
Indices: 30892516--30892869 Score: 458
Period size: 154 Copynumber: 2.4 Consensus size: 146
30892506 AAGGCAGAAA
* * * ***
30892516 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACATACG
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTCACATACG
* * * *
30892581 AGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
64 AGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACCTCT
*
30892646 CGCAATATGAGTTGATTTTT
129 CGCAATATGAGTTGA--ATT
* *
30892666 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCAC-ATACGA
* *
30892731 GTTGATTTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAAT
65 GTTGA----TTTTTTTG-AAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAAC
*
30892796 TTCTCGCAATATGAGTTGAATT
125 CTCTCGCAATATGAGTTGAATT
*
30892818 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTT
30892870 TGAACAGAAA
Statistics
Matches: 180, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
148 20 0.11
149 10 0.06
150 31 0.17
151 47 0.26
152 5 0.03
153 8 0.04
154 59 0.33
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (146 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACATACGAG
TTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACCTCTCG
CAATATGAGTTGAATT
Found at i:30892889 original size:49 final size:49
Alignment explanation
Indices: 30892823--30892918 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
30892813 GAATTTTGAA
*
30892823 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
30892872 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
30892919 CTCACAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (49 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:30892952 original size:72 final size:72
Alignment explanation
Indices: 30892872--30893012 Score: 273
Period size: 72 Copynumber: 2.0 Consensus size: 72
30892862 ACTCATTTTG
30892872 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAA
30892937 TTTTGAA
66 TTTTGAA
*
30892944 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAA
30893009 TTTT
66 TTTT
30893013 TTTTTTGAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAA
TTTTGAA
Found at i:30892965 original size:121 final size:121
Alignment explanation
Indices: 30892751--30892990 Score: 426
Period size: 121 Copynumber: 2.0 Consensus size: 121
30892741 TTTTTTGAAA
* *
30892751 AACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCACAATATGAGTTGAA
*
30892816 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
* * *
30892872 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCACAATATGAGTTGAA
30892937 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
30892991 CTCGCAATAT
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 113 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (121 bp):
AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCACAATATGAGTTGAA
TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:30893077 original size:81 final size:77
Alignment explanation
Indices: 30892872--30893092 Score: 220
Period size: 72 Copynumber: 2.9 Consensus size: 77
30892862 ACTCATTTTG
* * * ** * *
30892872 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
*
30892936 ----ATTTTGAA
66 TTTTTTTTTGAA
* * * ** *
30892944 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGCTG-A
30893009 TTTTTTTTTTGAA
65 TTTTTTTTTTGAA
*
30893022 AGACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGC
1 A-ACAGAAATTGAAAATACCTCA--ACGTG-ACTCGAGGCTCAACTCACCTCTCGCAATATGAGC
30893086 TGATTTT
62 TGATTTT
30893093 GAAAAAGTAG
Statistics
Matches: 130, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
72 62 0.48
73 1 0.01
78 8 0.06
79 20 0.15
80 5 0.04
81 33 0.25
82 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (77 bp):
AACAGAAATTGAAAATACCTCAACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTTTTTTTGAA
Found at i:30893161 original size:54 final size:55
Alignment explanation
Indices: 30893061--30893166 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
30893051 GAACCGAGGC
* * *
30893061 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATAAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * *
30893115 TCAACCCACCTCTCGCAATATAAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATAAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
30893167 CAGAAATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 33 0.75
55 11 0.25
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATAAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:30893173 original size:13 final size:13
Alignment explanation
Indices: 30893146--30893179 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
30893136 AAGTTGATTC
*
30893146 TTGAACAACATAAA
1 TTGAA-AACAGAAA
30893160 TTGAAAACAGAAA
1 TTGAAAACAGAAA
30893173 TTGAAAA
1 TTGAAAA
30893180 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:30893227 original size:140 final size:140
Alignment explanation
Indices: 30893017--30893372 Score: 624
Period size: 140 Copynumber: 2.5 Consensus size: 140
30893007 AATTTTTTTT
30893017 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
30893081 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATAAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATAAGTTGATTC
30893146 TTGAACAACATAAA
127 TTGAACAACATAAA
30893160 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
30893225 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGTAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATAAGTTGATTCTTGA
*
30893290 ACAACGTAAA
131 ACAACATAAA
30893300 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
30893365 TTGATTTT
66 CTGATTTT
30893373 TTTGAAAGAC
Statistics
Matches: 207, Mismatches: 5, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
139 3 0.01
140 175 0.85
142 23 0.11
143 6 0.03
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATAAGTTGATTCTTGA
ACAACATAAA
Found at i:30893301 original size:54 final size:54
Alignment explanation
Indices: 30893201--30893306 Score: 126
Period size: 54 Copynumber: 1.9 Consensus size: 54
30893191 GACCTGAGGC
*
30893201 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * * *
30893255 TCAACCCACTTCTCGTAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
30893307 CAGAAATTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
54 31 0.70
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:30893393 original size:14 final size:14
Alignment explanation
Indices: 30893374--30893408 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
30893364 GTTGATTTTT
*
30893374 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
30893388 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
30893402 TTGAAAA
1 TTGAAAA
30893409 TACCTCGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:30893420 original size:89 final size:90
Alignment explanation
Indices: 30893255--30893485 Score: 339
Period size: 91 Copynumber: 2.6 Consensus size: 90
30893245 ATTAAAAGGT
* * * *
30893255 TCAACCCACTTCTCGTAATATGAGTTGA--TTCTTGAACA-AC-GTAAATTG-AAAACAGAAATT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA-AGACAG-AAATTGAAAAACAGAAATT
30893315 GAAAATACCTCAGC-GTGACCTGAGGC
64 GAAAATACCTCAGCGGTGACCTGAGGC
*
30893341 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAAACAGAAATTGA
*
30893406 AAATACCTCGGCGTGTGACCTGAGGC
66 AAATACCTCAGCG-GTGACCTGAGGC
30893432 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAA
30893486 TAGCTCAGCG
Statistics
Matches: 132, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
86 25 0.19
87 1 0.01
88 15 0.11
89 25 0.19
91 66 0.50
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (90 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAAACAGAAATTGA
AAATACCTCAGCGGTGACCTGAGGC
Found at i:30893515 original size:77 final size:77
Alignment explanation
Indices: 30893388--30893540 Score: 227
Period size: 77 Copynumber: 2.0 Consensus size: 77
30893378 AAGACAGAAA
* * * *
30893388 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGACCTAAGGCTCAACTCACCTCTCGCAATAT
*
30893453 GAGTTGATTTTT
66 GAGCTGATTTTT
* *
30893465 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGA-CCTAAGGCTCAACTCACCTCTCGCAATA
30893529 TGAGCTGATTTT
65 TGAGCTGATTTT
30893541 GAAAAAGTAG
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
77 66 0.97
78 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (77 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGACCTAAGGCTCAACTCACCTCTCGCAATAT
GAGCTGATTTTT
Found at i:30893607 original size:54 final size:54
Alignment explanation
Indices: 30893504--30893607 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
30893494 CGCGTGAGCC
* *
30893504 AAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAACTAA
1 AAGGCTCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAACTAA
* * *
30893558 AAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAA-CAGAAA
1 AAGGCTCAACCCACCTCTCGCAATATGAGCTGATT-TTGAAAAAGCAGAAA
30893608 TTGAGATTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
54 37 0.84
55 7 0.16
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (54 bp):
AAGGCTCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAACTAA
Found at i:30893713 original size:72 final size:72
Alignment explanation
Indices: 30893563--30893757 Score: 241
Period size: 72 Copynumber: 2.7 Consensus size: 72
30893553 ACTAAAAGGT
* * * * * * * * *
30893563 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAGATTACCTCATCGTGT
1 TCAACTCACCTCTAGCAATATGAGTTGA-TATTGAAAAACAAAAATTGAAAATACCTCAACGTGC
*
30893628 CCTGAGGC
65 CCCGAGGC
* *
30893636 TCAACTCACCTCTTGCAATATGAGTTGAAATT-AAAACACAAAAATTGAAAATACCTCAACGTGC
1 TCAACTCACCTCTAGCAATATGAGTTGATATTGAAAA-ACAAAAATTGAAAATACCTCAACGTGC
30893700 CCCGAGGC
65 CCCGAGGC
*
30893708 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAA
1 TCAACTCACCTCTAGCAATATGAGTTGATATTGAAAAACAAAAATTGAAAA
30893758 GGCTTAACTC
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
71 7 0.07
72 69 0.65
73 30 0.28
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (72 bp):
TCAACTCACCTCTAGCAATATGAGTTGATATTGAAAAACAAAAATTGAAAATACCTCAACGTGCC
CCGAGGC
Found at i:30902684 original size:39 final size:39
Alignment explanation
Indices: 30902557--30902684 Score: 120
Period size: 39 Copynumber: 3.3 Consensus size: 39
30902547 ATAATTTGTA
* * *
30902557 ATAATA-ATATATACACAATATGGTATTTAAAATATATAT
1 ATAATATATATATACACTA-ATGGTATTAAAAATATATAC
* * * *
30902596 AT-ATATATATGTATA-TAATAGTATTTAAGAATATATAC
1 ATAATATATATATACACTAATGGTA-TTAAAAATATATAC
* *
30902634 ATAAGAAATATATA-ACTAATGGTATTAAAAAATATATAC
1 ATAATATATATATACACTAATGGTATT-AAAAATATATAC
30902673 ATAATATATATA
1 ATAATATATATA
30902685 AAATACCTAA
Statistics
Matches: 70, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
37 5 0.07
38 20 0.29
39 45 0.64
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (39 bp):
ATAATATATATATACACTAATGGTATTAAAAATATATAC
Found at i:30902686 original size:24 final size:24
Alignment explanation
Indices: 30902628--30902687 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
30902618 ATTTAAGAAT
* *
30902628 ATATACATAAGAAATATATAACTA
1 ATATATATAAAAAATATATAACTA
*
30902652 ATGGTAT-TAAAAAATATAT-ACATA
1 AT-ATATATAAAAAATATATAAC-TA
30902676 ATATATATAAAA
1 ATATATATAAAA
30902688 TACCTAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
23 5 0.17
24 22 0.76
25 2 0.07
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (24 bp):
ATATATATAAAAAATATATAACTA
Found at i:30915284 original size:3 final size:3
Alignment explanation
Indices: 30915276--30915357 Score: 155
Period size: 3 Copynumber: 27.3 Consensus size: 3
30915266 TTAATGTTAA
*
30915276 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT CAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
30915324 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
30915358 GTTAAAACAT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:30916269 original size:22 final size:22
Alignment explanation
Indices: 30916220--30916294 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 22
30916210 TGCAGTACAA
30916220 TGCCTACTGATTTGCA-TTACGG
1 TGCCTACTGATTTGCACTT-CGG
*
30916242 TGCCTACTGATTTGCACTTCGT
1 TGCCTACTGATTTGCACTTCGG
* * * * *
30916264 TTCCTATTGCTTAGCACTTCAG
1 TGCCTACTGATTTGCACTTCGG
30916286 TGCCTACTG
1 TGCCTACTG
30916295 GTGTGGAGTA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
22 41 0.95
23 2 0.05
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.39
Consensus pattern (22 bp):
TGCCTACTGATTTGCACTTCGG
Found at i:30916684 original size:6 final size:6
Alignment explanation
Indices: 30916675--30916708 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
30916665 TCCATTTCAT
*
30916675 TTTCTA TTTCTG TTTCTG TTTCTG TTTCTG TTTC
1 TTTCTG TTTCTG TTTCTG TTTCTG TTTCTG TTTC
30916709 AATTTTTCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.03, C:0.18, G:0.12, T:0.68
Consensus pattern (6 bp):
TTTCTG
Found at i:30916777 original size:3 final size:3
Alignment explanation
Indices: 30916769--30916820 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
30916759 CATGAAAATT
30916769 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
30916817 TAA T
1 TAA T
30916821 TGGCAGCATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:30917575 original size:32 final size:32
Alignment explanation
Indices: 30917538--30917600 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
30917528 AAATAATAAT
30917538 AATAATAATAATTACATCAAAGTGAAACAATA
1 AATAATAATAATTACATCAAAGTGAAACAATA
30917570 AATAATAATAATTACATCAAAGTGAAACAAT
1 AATAATAATAATTACATCAAAGTGAAACAAT
30917601 CTTGTCTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.59, C:0.10, G:0.06, T:0.25
Consensus pattern (32 bp):
AATAATAATAATTACATCAAAGTGAAACAATA
Found at i:30917816 original size:22 final size:21
Alignment explanation
Indices: 30917789--30917857 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 21
30917779 TATTAAAATA
30917789 ATAAAATTACATTTCAACTCTT
1 ATAAAATT-CATTTCAACTCTT
* *
30917811 ATAAAATT-A-TACAACT-TCC
1 ATAAAATTCATTTCAACTCT-T
*
30917830 A-AAAATTCTTTTCAACTCTT
1 ATAAAATTCATTTCAACTCTT
30917850 ATAAAATT
1 ATAAAATT
30917858 ATACAACTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 11
0.70 0.09 0.21
Matches are distributed among these distances:
18 7 0.19
19 7 0.19
20 8 0.22
21 7 0.19
22 8 0.22
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.39
Consensus pattern (21 bp):
ATAAAATTCATTTCAACTCTT
Found at i:30917818 original size:39 final size:40
Alignment explanation
Indices: 30917775--30917876 Score: 106
Period size: 39 Copynumber: 2.6 Consensus size: 40
30917765 ATAAAAATTT
30917775 AAATTATTA-AA-AT-AATAAAATTACATTTCAACTCTTATA
1 AAATTATTACAACATCAA-AAAATT-CATTTCAACTCTTATA
* * *
30917814 AAATTA-TACAACTTCCAAAAATTCTTTTCAACTCTTATA
1 AAATTATTACAACATCAAAAAATTCATTTCAACTCTTATA
* *
30917853 AAATTA-TACAACTTCCAAAAATTC
1 AAATTATTACAACATCAAAAAATTC
30917877 TTACTTTTCC
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.04
39 47 0.82
40 7 0.12
41 1 0.02
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (40 bp):
AAATTATTACAACATCAAAAAATTCATTTCAACTCTTATA
Found at i:30917836 original size:18 final size:18
Alignment explanation
Indices: 30917813--30917875 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
30917803 CAACTCTTAT
30917813 AAAATTATACAACTTCCA
1 AAAATTATACAACTTCCA
* * *
30917831 AAAATTCTTTTCAAC-TCTTA
1 AAAA-T-TATACAACTTC-CA
30917851 TAAAATTATACAACTTCCA
1 -AAAATTATACAACTTCCA
30917870 AAAATT
1 AAAATT
30917876 CTTACTTTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
18 10 0.29
19 10 0.29
20 10 0.29
21 4 0.12
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATTATACAACTTCCA
Found at i:30917877 original size:39 final size:39
Alignment explanation
Indices: 30917791--30917878 Score: 158
Period size: 39 Copynumber: 2.2 Consensus size: 39
30917781 TTAAAATAAT
*
30917791 AAAATTACATTTCAACTCTTATAAAATTATACAACTTCCA
1 AAAATT-CTTTTCAACTCTTATAAAATTATACAACTTCCA
30917831 AAAATTCTTTTCAACTCTTATAAAATTATACAACTTCCA
1 AAAATTCTTTTCAACTCTTATAAAATTATACAACTTCCA
30917870 AAAATTCTT
1 AAAATTCTT
30917879 ACTTTTCCCT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 41 0.87
40 6 0.13
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (39 bp):
AAAATTCTTTTCAACTCTTATAAAATTATACAACTTCCA
Found at i:30919993 original size:14 final size:12
Alignment explanation
Indices: 30919957--30919995 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 12
30919947 TGCACCTATG
30919957 AAAAATAATATT
1 AAAAATAATATT
30919969 AGAAAATAATATAT
1 A-AAAATAATAT-T
30919983 AAAAATAAATATT
1 AAAAAT-AATATT
30919996 TTTCAATACA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.04
13 16 0.67
14 7 0.29
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (12 bp):
AAAAATAATATT
Found at i:30921329 original size:18 final size:18
Alignment explanation
Indices: 30921289--30921331 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
30921279 GTTCAAGGTG
30921289 TAATTAATTTAAAATTTT
1 TAATTAATTTAAAATTTT
* *
30921307 CAATTAA-TTAAATTTATT
1 TAATTAATTTAAAATT-TT
30921325 TAATTAA
1 TAATTAA
30921332 AATTTTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTTAAAATTTT
Found at i:30922981 original size:42 final size:42
Alignment explanation
Indices: 30922935--30923112 Score: 239
Period size: 42 Copynumber: 4.2 Consensus size: 42
30922925 ACATAAATGG
* ** * *
30922935 TAAACAGAAACCCATAAGGGTTGAATGGAAGCTTGTAAAAGC
1 TAAACAGAAACCCATAAGGGTTAAACAGAAGCTCGTAAGAGC
30922977 TAAACAGAAACCCATAAGGGTTAAACAGAAGCTCGTAAGAGC
1 TAAACAGAAACCCATAAGGGTTAAACAGAAGCTCGTAAGAGC
* * *
30923019 TGAATAGAAATCCATAAGGGTTAAACAGAAGCTCGTAAGAGC
1 TAAACAGAAACCCATAAGGGTTAAACAGAAGCTCGTAAGAGC
* * * *
30923061 TGAACAGAAACTCATAAGGGTTAAACAAAAGCTCGTGAGAGC
1 TAAACAGAAACCCATAAGGGTTAAACAGAAGCTCGTAAGAGC
*
30923103 TAAACGGAAA
1 TAAACAGAAA
30923113 GTAAACACGA
Statistics
Matches: 121, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 121 1.00
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.17
Consensus pattern (42 bp):
TAAACAGAAACCCATAAGGGTTAAACAGAAGCTCGTAAGAGC
Found at i:30923003 original size:21 final size:21
Alignment explanation
Indices: 30922977--30923087 Score: 98
Period size: 21 Copynumber: 5.3 Consensus size: 21
30922967 TTGTAAAAGC
*
30922977 TAAACAGAAACCCATAAGGGT
1 TAAACAGAAACTCATAAGGGT
* * * *
30922998 TAAACAGAAGCTCGTAAGAGC
1 TAAACAGAAACTCATAAGGGT
* *
30923019 TGAATAGAAA-TCCATAAGGGT
1 TAAACAGAAACT-CATAAGGGT
* * * *
30923040 TAAACAGAAGCTCGTAAGAGC
1 TAAACAGAAACTCATAAGGGT
*
30923061 TGAACAGAAACTCATAAGGGT
1 TAAACAGAAACTCATAAGGGT
30923082 TAAACA
1 TAAACA
30923088 AAAGCTCGTG
Statistics
Matches: 65, Mismatches: 23, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
20 1 0.02
21 63 0.97
22 1 0.02
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.17
Consensus pattern (21 bp):
TAAACAGAAACTCATAAGGGT
Found at i:30923106 original size:21 final size:21
Alignment explanation
Indices: 30922963--30923107 Score: 71
Period size: 21 Copynumber: 6.9 Consensus size: 21
30922953 GGTTGAATGG
* *
30922963 AAGCTTGTAAAAGCTAAACAGA
1 AAGCTCGTAAGAGCTAAACA-A
* * * * *
30922985 AA-CCCATAAGGGTTAAACAG
1 AAGCTCGTAAGAGCTAAACAA
* *
30923005 AAGCTCGTAAGAGCTGAATAGA
1 AAGCTCGTAAGAGCTAAACA-A
* * * * *
30923027 AATC-CATAAGGGTTAAACAG
1 AAGCTCGTAAGAGCTAAACAA
*
30923047 AAGCTCGTAAGAGCTGAACAGA
1 AAGCTCGTAAGAGCTAAACA-A
* * *
30923069 AA-CTCATAAGGGTTAAACAA
1 AAGCTCGTAAGAGCTAAACAA
*
30923089 AAGCTCGTGAGAGCTAAAC
1 AAGCTCGTAAGAGCTAAAC
30923108 GGAAAGTAAA
Statistics
Matches: 83, Mismatches: 35, Indels: 11
0.64 0.27 0.09
Matches are distributed among these distances:
20 8 0.10
21 68 0.82
22 7 0.08
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (21 bp):
AAGCTCGTAAGAGCTAAACAA
Found at i:30923783 original size:26 final size:24
Alignment explanation
Indices: 30923743--30923802 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
30923733 TTATTTTATT
* * *
30923743 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
30923767 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
30923793 AAATAAATAT
1 AAATAAATAT
30923803 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:30923814 original size:22 final size:22
Alignment explanation
Indices: 30923773--30923831 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
30923763 ATAATAAATC
* *
30923773 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
30923793 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
30923815 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
30923832 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:30925810 original size:7 final size:7
Alignment explanation
Indices: 30925798--30925828 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
30925788 GATTAGATTA
30925798 AAATTTT
1 AAATTTT
30925805 AAATTTT
1 AAATTTT
30925812 AAATTTT
1 AAATTTT
30925819 AAATTTT
1 AAATTTT
30925826 AAA
1 AAA
30925829 ATACAAAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AAATTTT
Found at i:30926090 original size:2 final size:2
Alignment explanation
Indices: 30926078--30926108 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
30926068 GTTTTCTTCT
*
30926078 TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
30926109 TTGCTCTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:30930001 original size:21 final size:22
Alignment explanation
Indices: 30929972--30930012 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
30929962 ATTTTGACAT
30929972 GGATCAAATTAT-TCAAAATAA
1 GGATCAAATTATGTCAAAATAA
*
30929993 GGATGAAATTATGTCAAAAT
1 GGATCAAATTATGTCAAAAT
30930013 GAAGTACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.29
Consensus pattern (22 bp):
GGATCAAATTATGTCAAAATAA
Found at i:30934137 original size:63 final size:63
Alignment explanation
Indices: 30934038--30934168 Score: 253
Period size: 63 Copynumber: 2.1 Consensus size: 63
30934028 GATCAAGCCG
30934038 ATAGCCAGTATGTTAGGTTCATGACTTGTGTATGACATGACTTTACTAGCAACAATATAATTC
1 ATAGCCAGTATGTTAGGTTCATGACTTGTGTATGACATGACTTTACTAGCAACAATATAATTC
*
30934101 ATAGCCAGTATGTTGGGTTCATGACTTGTGTATGACATGACTTTACTAGCAACAATATAATTC
1 ATAGCCAGTATGTTAGGTTCATGACTTGTGTATGACATGACTTTACTAGCAACAATATAATTC
30934164 ATAGC
1 ATAGC
30934169 TCGATTAAAG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (63 bp):
ATAGCCAGTATGTTAGGTTCATGACTTGTGTATGACATGACTTTACTAGCAACAATATAATTC
Found at i:30938835 original size:37 final size:36
Alignment explanation
Indices: 30938782--30938871 Score: 144
Period size: 37 Copynumber: 2.4 Consensus size: 36
30938772 TATAAAAGAA
30938782 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATC-G
*
30938819 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCG
*
30938855 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
30938872 TTCCAAGTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
36 11 0.22
37 38 0.78
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.24
Consensus pattern (36 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCG
Found at i:30939022 original size:49 final size:49
Alignment explanation
Indices: 30938967--30939181 Score: 376
Period size: 49 Copynumber: 4.4 Consensus size: 49
30938957 TTTTACATTA
30938967 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
30939016 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
30939065 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
30939114 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
30939163 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
30939182 CATATATGTA
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 160 1.00
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:30942036 original size:19 final size:18
Alignment explanation
Indices: 30942012--30942076 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 18
30942002 ACTAGATTTT
30942012 ATTTCACAATTCATATCTC
1 ATTTCACAATTCATAT-TC
*
30942031 ATTTCATCATTTCATATTTC
1 ATTTCA-CAATTCATA-TTC
* *
30942051 ATTTCTC-GTCTCATATTC
1 ATTTCACAAT-TCATATTC
30942069 ATTTCACA
1 ATTTCACA
30942077 TTTTTTTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 10 0.26
19 12 0.32
20 15 0.39
21 1 0.03
ACGTcount: A:0.26, C:0.25, G:0.02, T:0.48
Consensus pattern (18 bp):
ATTTCACAATTCATATTC
Found at i:30944333 original size:19 final size:19
Alignment explanation
Indices: 30944309--30944363 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
30944299 ACAAGCATGA
30944309 TAAAAACTAAGGTTTTTCC
1 TAAAAACTAAGGTTTTTCC
*
30944328 TAAAAACTAAGATTTTTCC
1 TAAAAACTAAGGTTTTTCC
30944347 TAAAAACTAAGGTTTTT
1 TAAAAACTAAGGTTTTT
30944364 GGAGATGGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (19 bp):
TAAAAACTAAGGTTTTTCC
Found at i:30944799 original size:15 final size:17
Alignment explanation
Indices: 30944767--30944799 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
30944757 CCTCAAATGC
30944767 TTATCATATGCAAACAA
1 TTATCATATGCAAACAA
30944784 TTAT-ATATGC-AACAA
1 TTATCATATGCAAACAA
30944799 T
1 T
30944800 CTAATATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 6 0.38
17 4 0.25
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.33
Consensus pattern (17 bp):
TTATCATATGCAAACAA
Found at i:30945427 original size:16 final size:16
Alignment explanation
Indices: 30945396--30945430 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
30945386 TCTTTCTCTC
**
30945396 TTTCTTTTCTTTTTTG
1 TTTCTTTTCTAATTTG
30945412 TTTCTTTTCTAATTTG
1 TTTCTTTTCTAATTTG
30945428 TTT
1 TTT
30945431 GCATGTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.11, G:0.06, T:0.77
Consensus pattern (16 bp):
TTTCTTTTCTAATTTG
Found at i:30946175 original size:20 final size:20
Alignment explanation
Indices: 30946129--30946177 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
30946119 TATTTATAAA
** *
30946129 TATTTTTATAATTTTGTATG
1 TATTTTTATAAAATTATATG
* *
30946149 TACTTTTATAAAATTATATT
1 TATTTTTATAAAATTATATG
30946169 TATTTTTAT
1 TATTTTTAT
30946178 CGAAAAATCT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (20 bp):
TATTTTTATAAAATTATATG
Found at i:30954113 original size:3 final size:3
Alignment explanation
Indices: 30954105--30954492 Score: 210
Period size: 3 Copynumber: 132.0 Consensus size: 3
30954095 ACAAAATGAC
* * * * *
30954105 AAT AAT AAT AAT ATT AAT AGT AA- AA- AAT AAT AGT AAT AAC AAT TAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
30954151 TAT AAT AAT AAGG AAA AAT AAT AAT AGT AAA AAT AAT AAT AAT AGT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** * *
30954197 AGT AAT AAT AAT AAT AAT GGT AAT AGT AAT AAA AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
30954245 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAC AGAG
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * * * * * * * *
30954293 AAA AAC AA- CAT AAT AAT AAT AGT AAT AAT TAT TAT TAT TAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
30954340 AAT AAT -AT AA- AATT AAC GAT -AT AAT AAT -GT AAT AGT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
30954382 AAG CA- AAT AAGT -AT AAA AAG AA- AAT -AT AAT CAT AAT AAT AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** * ** * * *
30954424 AAT AGT TGT AGT AAT AAT AAT AAT AGC AAG AAT AAT AAT GAT AGT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
30954471 AAT CAATT AAT -TT AAT AAT AAT
1 AAT -AA-T AAT AAT AAT AAT AAT
30954493 GTAGCTAAAA
Statistics
Matches: 299, Mismatches: 67, Indels: 38
0.74 0.17 0.09
Matches are distributed among these distances:
2 23 0.08
3 264 0.88
4 11 0.04
5 1 0.00
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:30955966 original size:44 final size:43
Alignment explanation
Indices: 30955888--30956046 Score: 117
Period size: 44 Copynumber: 3.6 Consensus size: 43
30955878 TGGTTTTAGG
* *
30955888 TTTAATCCGAC-CTACTGCAACTTCA-GAGGCATAGGACTT-GTTGC
1 TTTAATCCG-CTCCACTGCAACTTCAGGA-G-ATAGGA-TTAGTAGC
30955932 TTTAATCCGCTCCACTGCAACTTCATGGAGATAGGATTAGTAGC
1 TTTAATCCGCTCCACTGCAACTTCA-GGAGATAGGATTAGTAGC
* ** * * * *
30955976 TTCAATCTACTCCGCTGCAACTTCAGGAAGATAAGATTGGTATC
1 TTTAATCCGCTCCACTGCAACTTCAGG-AGATAGGATTAGTAGC
* * * * *
30956020 TTCAGTCTGCTCCACTGTATCTTCAGG
1 TTTAATCCGCTCCACTGCAACTTCAGG
30956047 GACATAAGAC
Statistics
Matches: 96, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
43 5 0.05
44 88 0.92
45 1 0.01
46 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (43 bp):
TTTAATCCGCTCCACTGCAACTTCAGGAGATAGGATTAGTAGC
Done.