Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 161 of 378
Found at i:46946151 original size:12 final size:12
Alignment explanation
Indices: 46946128--46946170 Score: 68
Period size: 12 Copynumber: 3.5 Consensus size: 12
46946118 TATGAGAAAG
46946128 TGAAATTATGAAT
1 TGAAA-TATGAAT
46946141 TGAAATATGAAT
1 TGAAATATGAAT
*
46946153 TGAAATGTGAAT
1 TGAAATATGAAT
46946165 TGAAAT
1 TGAAAT
46946171 TGAGATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 24 0.83
13 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.35
Consensus pattern (12 bp):
TGAAATATGAAT
Found at i:46947054 original size:21 final size:21
Alignment explanation
Indices: 46947011--46947055 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
46947001 AGTGGAGGCA
*
46947011 TGTCTCAAGACATGGCTTCAC
1 TGTCTCAAGACATGCCTTCAC
*
46947032 TGTCTTAAGACATAGCCTT-AC
1 TGTCTCAAGACAT-GCCTTCAC
46947053 TGT
1 TGT
46947056 AACAGCCCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (21 bp):
TGTCTCAAGACATGCCTTCAC
Found at i:46950776 original size:26 final size:26
Alignment explanation
Indices: 46950747--46950800 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
46950737 AAATGCCCAC
46950747 CATGGAACATTTACCTAACCCATTAT
1 CATGGAACATTTACCTAACCCATTAT
46950773 CATGGAACATTTACCTAACCCATTAT
1 CATGGAACATTTACCTAACCCATTAT
46950799 CA
1 CA
46950801 ATTTTTATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (26 bp):
CATGGAACATTTACCTAACCCATTAT
Found at i:46951370 original size:23 final size:23
Alignment explanation
Indices: 46951295--46951375 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 23
46951285 CAACTCGTAT
46951295 GAGCTTACCGATATATTAGCTCATAA
1 GAGCTTACCG-T-T-TTAGCTCATAA
** * *
46951321 GAGCTTATTGTTTTCAGCTCGTCA
1 GAGCTTACCGTTTT-AGCTCATAA
46951345 GAGCTTACCGTTTTAGCTCA-ATA
1 GAGCTTACCGTTTTAGCTCATA-A
46951368 GAGCTTAC
1 GAGCTTAC
46951376 TATCTATCAG
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
23 16 0.36
24 20 0.44
25 1 0.02
26 8 0.18
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (23 bp):
GAGCTTACCGTTTTAGCTCATAA
Found at i:46954181 original size:18 final size:16
Alignment explanation
Indices: 46954141--46954183 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
46954131 CAATTTGGGT
46954141 TGTGTGGGCCACACGG
1 TGTGTGGGCCACACGG
*
46954157 TCATGTGGGCCCACACGGG
1 T-GTGTGGG-CCACAC-GG
46954176 TGTGTGGG
1 TGTGTGGG
46954184 ACTCTGGGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.05
17 6 0.27
18 12 0.55
19 3 0.14
ACGTcount: A:0.12, C:0.23, G:0.44, T:0.21
Consensus pattern (16 bp):
TGTGTGGGCCACACGG
Found at i:46968168 original size:24 final size:24
Alignment explanation
Indices: 46968138--46968356 Score: 384
Period size: 24 Copynumber: 9.1 Consensus size: 24
46968128 GAATGTGACT
* *
46968138 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
46968162 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46968186 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46968210 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46968234 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46968258 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46968282 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46968306 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46968330 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46968354 ATA
1 ATA
46968357 TGGTCTTTGC
Statistics
Matches: 190, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 190 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:46976153 original size:24 final size:24
Alignment explanation
Indices: 46976123--46976341 Score: 384
Period size: 24 Copynumber: 9.1 Consensus size: 24
46976113 GAATGTGACT
* *
46976123 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
46976147 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46976171 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46976195 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46976219 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46976243 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46976267 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46976291 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46976315 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46976339 ATA
1 ATA
46976342 TGGTCTTTGC
Statistics
Matches: 190, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 190 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:46984699 original size:24 final size:24
Alignment explanation
Indices: 46984669--46984887 Score: 384
Period size: 24 Copynumber: 9.1 Consensus size: 24
46984659 GAATGTGACT
* *
46984669 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
46984693 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46984717 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46984741 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46984765 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46984789 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46984813 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46984837 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46984861 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46984885 ATA
1 ATA
46984888 TGGTCTTTGC
Statistics
Matches: 190, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 190 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:46998865 original size:44 final size:42
Alignment explanation
Indices: 46998739--46998898 Score: 130
Period size: 44 Copynumber: 3.7 Consensus size: 42
46998729 ATAATACCAA
* * * * *
46998739 TGTCCCGGACGTGGTCTTACATGT-AATTCAGTATCGATGCCTC
1 TGTCCCAGACATGGTCTTACACGTAAATTCAAT-TCGATGCC-G
* * *
46998782 TGTCCCAGACAGGGTCTTATACG-AAA-TCAGATACGATGCCG
1 TGTCCCAGACATGGTCTTACACGTAAATTCA-ATTCGATGCCG
* *
46998823 ATGACCCGGACATGGTCTTACACGTAAATTTCAATTCGATGCCTG
1 -TGTCCCAGACATGGTCTTACACGTAAA-TTCAATTCGATGCC-G
*
46998868 TGTCCCAGAAATGGTCTTACACG-ATAATTCA
1 TGTCCCAGACATGGTCTTACACGTA-AATTCA
46998899 GATCAATACC
Statistics
Matches: 93, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
42 29 0.31
43 29 0.31
44 31 0.33
45 4 0.04
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (42 bp):
TGTCCCAGACATGGTCTTACACGTAAATTCAATTCGATGCCG
Found at i:46998886 original size:86 final size:87
Alignment explanation
Indices: 46998742--46998901 Score: 218
Period size: 86 Copynumber: 1.9 Consensus size: 87
46998732 ATACCAATGT
* * * * *
46998742 CCCGGACGTGGTCTTACATGTAATTCAGTATCGATGCCTCTGTCCCAGACAGGGTCTTATACGA-
1 CCCGGACATGGTCTTACACGTAATTCAATATCGATGCCTCTGTCCCAGAAAGGGTCTTACACGAT
46998806 AA-TCAGATACGATGCCGATGA
66 AATTCAGATACGATGCCGATGA
* *
46998827 CCCGGACATGGTCTTACACGTAAATTTCAAT-TCGATGCCTGTGTCCCAGAAATGGTCTTACACG
1 CCCGGACATGGTCTTACACGT-AA-TTCAATATCGATGCCTCTGTCCCAGAAAGGGTCTTACACG
46998891 ATAATTCAGAT
64 ATAATTCAGAT
46998902 CAATACCAAC
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
85 19 0.30
86 32 0.50
87 7 0.11
88 6 0.09
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (87 bp):
CCCGGACATGGTCTTACACGTAATTCAATATCGATGCCTCTGTCCCAGAAAGGGTCTTACACGAT
AATTCAGATACGATGCCGATGA
Found at i:47009712 original size:61 final size:59
Alignment explanation
Indices: 47009662--47009782 Score: 158
Period size: 59 Copynumber: 2.1 Consensus size: 59
47009652 ATAATTTTCC
* * * *
47009662 AAAACT-AATATGCATTAAACTAATCAAAGCATGTATATATTATATATTTATA-CATAT
1 AAAACTAAACATGCATTAAACCAATCAAAGCATGCATATATTATATATTTATATAATAT
*
47009719 AAAACTACAACATGCATTAAACCAATCAAAGCATGCATATATTGTATATTTATAT-ATAAT
1 AAAACTA-AACATGCATTAAACCAATCAAAGCATGCATATATTATATATTTATATAAT-AT
47009779 AAAA
1 AAAA
47009783 TATATATTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
57 6 0.11
59 44 0.79
60 6 0.11
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (59 bp):
AAAACTAAACATGCATTAAACCAATCAAAGCATGCATATATTATATATTTATATAATAT
Found at i:47010327 original size:12 final size:12
Alignment explanation
Indices: 47010310--47010345 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
47010300 AACAAAACTA
*
47010310 GATGCGGAAGTG
1 GATGCGGAAGCG
47010322 GATGCGGAAGCG
1 GATGCGGAAGCG
*
47010334 GAAGCGGAAGCG
1 GATGCGGAAGCG
47010346 TACCTGAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.50, T:0.08
Consensus pattern (12 bp):
GATGCGGAAGCG
Found at i:47011583 original size:36 final size:34
Alignment explanation
Indices: 47011507--47011589 Score: 96
Period size: 36 Copynumber: 2.4 Consensus size: 34
47011497 TAATATTTAT
**
47011507 TATTTATTATATTATTAAATTTACATTTGAATCA
1 TATTTATTATATTATTAAATTTACATTTGAAAAA
* *
47011541 TTTTTATTTTATTATTAAATTTTGA-ATGTTGAAAAA
1 TATTTATTATATTATTAAA-TTT-ACAT-TTGAAAAA
47011577 TATTTATTATATT
1 TATTTATTATATT
47011590 TAGATTTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
34 17 0.43
35 5 0.12
36 18 0.45
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (34 bp):
TATTTATTATATTATTAAATTTACATTTGAAAAA
Found at i:47014426 original size:11 final size:11
Alignment explanation
Indices: 47014412--47014441 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
47014402 TTCAATTCAA
47014412 TCTCAATTTTC
1 TCTCAATTTTC
*
47014423 TCTCAAATTTC
1 TCTCAATTTTC
47014434 TCTCAATT
1 TCTCAATT
47014442 CCCTCTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (11 bp):
TCTCAATTTTC
Found at i:47014717 original size:2 final size:2
Alignment explanation
Indices: 47014710--47014741 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
47014700 TTTGTATGTT
47014710 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47014742 GGTGGAAGAT
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):
TA
Found at i:47015478 original size:29 final size:29
Alignment explanation
Indices: 47015446--47015502 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
47015436 AAACTATTGT
47015446 GTTGACATATTATTTCAATAGGTGGAACA
1 GTTGACATATTATTTCAATAGGTGGAACA
47015475 GTTGACATATTATTTCAATAGGTGGAAC
1 GTTGACATATTATTTCAATAGGTGGAAC
47015503 CATGGGCCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (29 bp):
GTTGACATATTATTTCAATAGGTGGAACA
Found at i:47022014 original size:32 final size:32
Alignment explanation
Indices: 47021973--47022065 Score: 168
Period size: 32 Copynumber: 2.9 Consensus size: 32
47021963 TTCTCACTAG
*
47021973 ATCTCAATGTTCGAAAATAATGCACTGGACCT
1 ATCTGAATGTTCGAAAATAATGCACTGGACCT
*
47022005 ATCTGAATGTTCGAAAATAATGCACTGAACCT
1 ATCTGAATGTTCGAAAATAATGCACTGGACCT
47022037 ATCTGAATGTTCGAAAATAATGCACTGGA
1 ATCTGAATGTTCGAAAATAATGCACTGGA
47022066 AATAACGATC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (32 bp):
ATCTGAATGTTCGAAAATAATGCACTGGACCT
Found at i:47025634 original size:3 final size:3
Alignment explanation
Indices: 47025626--47025653 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
47025616 GAAGTTGCAA
47025626 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
47025654 TTATTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:47025883 original size:18 final size:18
Alignment explanation
Indices: 47025862--47025911 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
47025852 ATTTTACTGT
*
47025862 TTTTTATTAATTTATATA
1 TTTTTATTAATTTATAAA
* *
47025880 TTTTTA-AAGATTTTTAAA
1 TTTTTATTA-ATTTATAAA
47025898 TTTTT-TTAATTTAT
1 TTTTTATTAATTTAT
47025912 GCTCGTCACA
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTTTATTAATTTATAAA
Found at i:47026371 original size:2 final size:2
Alignment explanation
Indices: 47026361--47026398 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
47026351 TTTTCTTGAA
47026361 AT AT CAT 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 AT AT AT A
47026399 AATTCATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:47026454 original size:2 final size:2
Alignment explanation
Indices: 47026447--47026474 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
47026437 ACTTTCTAAG
47026447 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
47026475 CATTATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47028071 original size:19 final size:20
Alignment explanation
Indices: 47028043--47028081 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
47028033 TCCCATTATT
47028043 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
47028062 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
47028082 ATGTATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:47031078 original size:9 final size:9
Alignment explanation
Indices: 47031066--47031105 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
47031056 TTTCTTTTTC
47031066 TTTTACTTTT
1 TTTTAC-TTT
47031076 TTTTACTTT
1 TTTTACTTT
*
47031085 TTTAACTTT
1 TTTTACTTT
47031094 TTTTA-TTT
1 TTTTACTTT
47031102 TTTT
1 TTTT
47031106 CTTATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 7 0.25
9 15 0.54
10 6 0.21
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTACTTT
Found at i:47031081 original size:10 final size:10
Alignment explanation
Indices: 47031052--47031105 Score: 53
Period size: 9 Copynumber: 5.6 Consensus size: 10
47031042 GCGCTACCAC
47031052 TTTTTTT-CTT
1 TTTTTTTAC-T
47031062 TTTCTTTTACT
1 TTT-TTTTACT
47031073 TTTTTTTAC-
1 TTTTTTTACT
*
47031082 TTTTTTAAC-
1 TTTTTTTACT
47031091 TTTTTTTA-T
1 TTTTTTTACT
47031100 TTTTTT
1 TTTTTT
47031106 CTTATATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
9 21 0.54
10 9 0.23
11 8 0.21
12 1 0.03
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTTACT
Found at i:47031115 original size:18 final size:17
Alignment explanation
Indices: 47031094--47031167 Score: 51
Period size: 18 Copynumber: 4.1 Consensus size: 17
47031084 TTTTAACTTT
47031094 TTTTATTTTTTTCTTATA
1 TTTTATTTTTTTCTTA-A
* * *
47031112 TTTTGTCTCTTTCTTAGA
1 TTTTATTTTTTTCTTA-A
*
47031130 TTTT-TTTTCTTTTTTAA
1 TTTTATTTT-TTTCTTAA
47031147 GTTTTATATTATTTTCTTAA
1 -TTTTAT-TT-TTTTCTTAA
47031167 T
1 T
47031168 CTATTTTATT
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
17 3 0.07
18 28 0.65
19 2 0.05
20 9 0.21
21 1 0.02
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.72
Consensus pattern (17 bp):
TTTTATTTTTTTCTTAA
Found at i:47031209 original size:23 final size:22
Alignment explanation
Indices: 47031183--47031274 Score: 66
Period size: 23 Copynumber: 4.1 Consensus size: 22
47031173 TTATTTATTT
*
47031183 AATTTATATTATTAATTTTAAAA
1 AATTTATAATATT-ATTTTAAAA
*
47031206 AATTTGTAATA-TATATTTAAAA
1 AATTTATAATATTAT-TTTAAAA
**
47031228 TGTTTTATAATATT-TTTT--AA
1 -AATTTATAATATTATTTTAAAA
*
47031248 AATTTTTAATTATTATTTTTAAAA
1 AATTTATAA-TATTA-TTTTAAAA
47031272 AAT
1 AAT
47031275 ATTTTTAACT
Statistics
Matches: 53, Mismatches: 8, Indels: 15
0.70 0.11 0.20
Matches are distributed among these distances:
19 6 0.11
20 6 0.11
21 2 0.04
22 15 0.28
23 18 0.34
24 6 0.11
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
AATTTATAATATTATTTTAAAA
Found at i:47031266 original size:22 final size:21
Alignment explanation
Indices: 47031204--47031271 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 21
47031194 TTAATTTTAA
* *
47031204 AAAATTTGTAATA-TATATTT
1 AAAATTTTTAATATTATTTTT
*
47031224 AAAATGTTTT-ATAATATTTTTT
1 AAAAT-TTTTAATATTA-TTTTT
47031246 AAAATTTTTAATTATTATTTTT
1 AAAATTTTTAA-TATTATTTTT
47031268 AAAA
1 AAAA
47031272 AATATTTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 8 0.20
21 9 0.22
22 19 0.47
23 4 0.10
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (21 bp):
AAAATTTTTAATATTATTTTT
Found at i:47031291 original size:2 final size:2
Alignment explanation
Indices: 47031286--47031310 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
47031276 TTTTTAACTT
47031286 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
47031311 TTGTGAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47032064 original size:10 final size:9
Alignment explanation
Indices: 47032046--47032144 Score: 65
Period size: 10 Copynumber: 10.4 Consensus size: 9
47032036 TAAAATTTAA
47032046 AAAATATTT
1 AAAATATTT
47032055 AAAATCATTT
1 AAAAT-ATTT
*
47032065 AAAATATTAA
1 AAAATATT-T
47032075 AAAATATTT
1 AAAATATTT
*
47032084 TAAATCATTT
1 AAAAT-ATTT
*
47032094 TAAATCATTT
1 AAAAT-ATTT
* *
47032104 TAAATGTTTT
1 AAAAT-ATTT
* *
47032114 ATAATATTA
1 AAAATATTT
47032123 AAAATATATT
1 AAAATAT-TT
*
47032133 -TAATATTT
1 AAAATATTT
47032141 AAAA
1 AAAA
47032145 AATAATTTGA
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
8 2 0.03
9 27 0.38
10 43 0.60
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (9 bp):
AAAATATTT
Found at i:47032108 original size:29 final size:29
Alignment explanation
Indices: 47032036--47032098 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
47032026 AAATTCTATG
*
47032036 TAAAAT-TTAAAAAATATTTAAAATCATT
1 TAAAATATTAAAAAATATTTTAAATCATT
47032064 TAAAATATTAAAAAATATTTTAAATCATT
1 TAAAATATTAAAAAATATTTTAAATCATT
*
47032093 TTAAAT
1 TAAAAT
47032099 CATTTTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
TAAAATATTAAAAAATATTTTAAATCATT
Found at i:47032135 original size:39 final size:39
Alignment explanation
Indices: 47032037--47032144 Score: 100
Period size: 39 Copynumber: 2.8 Consensus size: 39
47032027 AATTCTATGT
47032037 AAAAT-TTAAAAA-ATATTTAAAATCATTTAAAATATTAA
1 AAAATATTAAAAATATATTT-AAATCATTTAAAATATTAA
** * * **
47032075 AAAATATTTTAAATCAT-TTTAAATCATTTTAAATGTTTT
1 AAAATATTAAAAAT-ATATTTAAATCATTTAAAATATTAA
*
47032114 ATAATATTAAAAATATATTT-AAT-ATTTAAAA
1 AAAATATTAAAAATATATTTAAATCATTTAAAA
47032145 AATAATTTGA
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
37 7 0.12
38 10 0.18
39 34 0.61
40 3 0.05
41 2 0.04
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.44
Consensus pattern (39 bp):
AAAATATTAAAAATATATTTAAATCATTTAAAATATTAA
Found at i:47032161 original size:31 final size:34
Alignment explanation
Indices: 47032114--47032203 Score: 98
Period size: 33 Copynumber: 2.7 Consensus size: 34
47032104 TAAATGTTTT
47032114 ATAATATTAAAAATATA-TTTAATATTTA-AAAA
1 ATAATATTAAAAATATATTTTAATATTTATAAAA
*
47032146 ATAAT-TTGAAAATATATTTTTAATATTTATAAAA
1 ATAATATTAAAAATATA-TTTTAATATTTATAAAA
* *
47032180 AAATATATTATAAAACAT-TTTTAA
1 ATA-ATATTA-AAAATATATTTTAA
47032204 AAAATACATT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
31 10 0.21
32 5 0.10
33 11 0.23
34 6 0.12
35 8 0.17
36 2 0.04
37 6 0.12
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (34 bp):
ATAATATTAAAAATATATTTTAATATTTATAAAA
Found at i:47034555 original size:28 final size:28
Alignment explanation
Indices: 47034512--47034617 Score: 76
Period size: 28 Copynumber: 3.7 Consensus size: 28
47034502 GAAATCAGTG
*
47034512 TTAA-CTGGGCCTTAGCCCATATCAATA
1 TTAATCTGGGCCATAGCCCATATCAATA
*
47034539 TTAATCTGGGCCATAGCTCCTTAT-AATA
1 TTAATCTGGGCCATAGC-CCATATCAATA
* *
47034567 TCAGAGTATAT-TGAGTC-TAGCCCATATCAATA
1 T-----TA-ATCTGGGCCATAGCCCATATCAATA
*
47034599 TTAATCTAGGCCATAGCCC
1 TTAATCTGGGCCATAGCCC
47034618 TATTACAAGT
Statistics
Matches: 60, Mismatches: 8, Indels: 21
0.67 0.09 0.24
Matches are distributed among these distances:
26 2 0.03
27 9 0.15
28 22 0.37
29 5 0.08
31 5 0.08
32 9 0.15
33 6 0.10
34 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (28 bp):
TTAATCTGGGCCATAGCCCATATCAATA
Found at i:47034651 original size:60 final size:61
Alignment explanation
Indices: 47034517--47034653 Score: 169
Period size: 60 Copynumber: 2.3 Consensus size: 61
47034507 CAGTGTTAAC
*
47034517 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCTCCTTATAATATCAGAGTATAT
1 TGGGCCTTAGCCCATATCAATATTAATCTAGGCCATAGCTCCTTATAATATCAGAGTATAT
* *
47034578 TGAGTC-TAGCCCATATCAATATTAATCTAGGCCATAGC-CC-TATTACA-AGTC-GAGATATAT
1 TGGGCCTTAGCCCATATCAATATTAATCTAGGCCATAGCTCCTTA-TA-ATA-TCAGAG-TATAT
47034638 TGGGCCTTA-CCCATAT
1 TGGGCCTTAGCCCATAT
47034654 TAACACGGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 11
0.80 0.06 0.13
Matches are distributed among these distances:
58 2 0.03
59 8 0.12
60 50 0.76
61 6 0.09
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (61 bp):
TGGGCCTTAGCCCATATCAATATTAATCTAGGCCATAGCTCCTTATAATATCAGAGTATAT
Found at i:47038471 original size:24 final size:25
Alignment explanation
Indices: 47038433--47038481 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
47038423 AAGATAGCAC
47038433 TCAAAGGACTAGGTTGATGAATGTA
1 TCAAAGGACTAGGTTGATGAATGTA
47038458 TCAAAGG-CTAGGTTGATGAATGTA
1 TCAAAGGACTAGGTTGATGAATGTA
47038482 GAACTATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.29
Consensus pattern (25 bp):
TCAAAGGACTAGGTTGATGAATGTA
Found at i:47039436 original size:30 final size:30
Alignment explanation
Indices: 47039402--47039477 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 30
47039392 ACCGCCTATA
*
47039402 CCAGGTGATATGAACTTGAACCACCCATGT
1 CCAGGTGATATGAACTCGAACCACCCATGT
*
47039432 CCAGGTGATATGAACTCGAACCGCCCATGT
1 CCAGGTGATATGAACTCGAACCACCCATGT
* *
47039462 CCGGGTTATATGAACT
1 CCAGGTGATATGAACT
47039478 GTTCTGGGAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (30 bp):
CCAGGTGATATGAACTCGAACCACCCATGT
Found at i:47042552 original size:2 final size:2
Alignment explanation
Indices: 47042545--47042572 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
47042535 GTTATAATAA
47042545 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
47042573 TAATTTAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47042649 original size:21 final size:21
Alignment explanation
Indices: 47042621--47042689 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 21
47042611 TTAAAAAAAG
47042621 AATTT-AAAAATAATATT-TAA
1 AATTTAAAAAAT-ATATTATAA
47042641 AATTGTAAAAAATATATTATAAA
1 AATT-TAAAAAATATATTAT-AA
* * * *
47042664 AATTTTAAATATACATTACAA
1 AATTTAAAAAATATATTATAA
47042685 AATTT
1 AATTT
47042690 TTAAAATTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
20 4 0.10
21 13 0.32
22 18 0.44
23 6 0.15
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (21 bp):
AATTTAAAAAATATATTATAA
Found at i:47042728 original size:14 final size:15
Alignment explanation
Indices: 47042704--47042741 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
47042694 AATTAATAAT
*
47042704 AAAAT-AAATAA-AC
1 AAAATAAAATAAGAA
47042717 AAAATAAAATAAGAA
1 AAAATAAAATAAGAA
47042732 AAAATAAAAT
1 AAAATAAAAT
47042742 TTCAAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 5 0.23
14 6 0.27
15 11 0.50
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (15 bp):
AAAATAAAATAAGAA
Found at i:47042815 original size:27 final size:28
Alignment explanation
Indices: 47042785--47042848 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 28
47042775 TTTAAAAAAA
* * *
47042785 TATTTAAAATATTATGATTTCTTATAT-
1 TATTTAAAAAATTATAATTTCTTAAATG
*
47042812 TA-TTAAAAAATTATAATTTTTTAAATG
1 TATTTAAAAAATTATAATTTCTTAAATG
47042839 TATTTAAAAA
1 TATTTAAAAA
47042849 TTGTATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 20 0.65
27 4 0.13
28 7 0.23
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (28 bp):
TATTTAAAAAATTATAATTTCTTAAATG
Found at i:47042856 original size:26 final size:26
Alignment explanation
Indices: 47042785--47042850 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
47042775 TTTAAAAAAA
* *
47042785 TATTTAAAATATTATGATTTCTTATAT
1 TATTTAAAA-ATTATAATTTCTTAAAT
* *
47042812 TATTAAAAAATTATAATTTTTTAAAT
1 TATTTAAAAATTATAATTTCTTAAAT
47042838 GTATTTAAAAATT
1 -TATTTAAAAATT
47042851 GTATTTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (26 bp):
TATTTAAAAATTATAATTTCTTAAAT
Found at i:47043027 original size:23 final size:23
Alignment explanation
Indices: 47042996--47043062 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
47042986 GTCAAAAAAG
*
47042996 AAAAAAATATATTTAATATTTAT
1 AAAATAATATATTTAATATTTAT
* *
47043019 AAAATAATAT-TTAATATATTTTTT
1 AAAATAATATATTTA-ATA-TTTAT
*
47043043 AAAAT-TTATATTT-ATATTTA
1 AAAATAATATATTTAATATTTA
47043063 AATTTATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
21 3 0.09
22 6 0.17
23 15 0.43
24 11 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AAAATAATATATTTAATATTTAT
Found at i:47043299 original size:36 final size:35
Alignment explanation
Indices: 47043253--47043362 Score: 98
Period size: 36 Copynumber: 3.1 Consensus size: 35
47043243 TAATAATTTC
* * *
47043253 AAAACTAATTTGAAAAATATATTTTTAAAATTTAT
1 AAAAATAATTTCAAAAATATATATTTAAAATTTAT
* * *
47043288 AAAAATTAATTTCACAAATATATATATATAAAGTTA-
1 AAAAA-TAATTTCAAAAATATATATTTA-AAATTTAT
* * * *
47043324 AAAAATATTTTTAAAAATA-ATAATTAAAATTTTT
1 AAAAATAATTTCAAAAATATATATTTAAAATTTAT
47043358 AAAAA
1 AAAAA
47043363 ATATTATAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
33 5 0.08
34 10 0.17
35 15 0.25
36 23 0.39
37 6 0.10
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (35 bp):
AAAAATAATTTCAAAAATATATATTTAAAATTTAT
Found at i:47043358 original size:22 final size:24
Alignment explanation
Indices: 47043331--47043418 Score: 73
Period size: 22 Copynumber: 3.9 Consensus size: 24
47043321 TTAAAAAATA
47043331 TTTTTAAAAATAATAAT-TAAAA-
1 TTTTTAAAAATAATAATATAAAAC
*
47043353 TTTTT-AAAA-AATATTATAAAAC
1 TTTTTAAAAATAATAATATAAAAC
* * *
47043375 ATTTTAAATAT-AT-AT-TACAAAT
1 TTTTTAAAAATAATAATATA-AAAC
*
47043397 TTTTTAAAATTAATAATATAAA
1 TTTTTAAAAATAATAATATAAA
47043419 TTAAATAAGC
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
20 5 0.10
21 11 0.22
22 21 0.42
23 7 0.14
24 4 0.08
25 2 0.04
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTTTAAAAATAATAATATAAAAC
Found at i:47043453 original size:18 final size:18
Alignment explanation
Indices: 47043403--47043454 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
47043393 AAATTTTTTA
*
47043403 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
** *
47043421 AAATAAGCAAAATAAATT
1 AAATAAATAATATAAATT
47043439 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
47043455 ACTTAAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:47043510 original size:9 final size:9
Alignment explanation
Indices: 47043496--47043528 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
47043486 AAAATATAAG
47043496 AAAAAAAGT
1 AAAAAAAGT
47043505 -AAAAAAGT
1 AAAAAAAGT
47043513 AAAAAAAGT
1 AAAAAAAGT
47043522 AAAAAAA
1 AAAAAAA
47043529 AATATAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:47043516 original size:7 final size:8
Alignment explanation
Indices: 47043497--47043527 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
47043487 AAATATAAGA
47043497 AAAAAAGT
1 AAAAAAGT
47043505 AAAAAAGT
1 AAAAAAGT
47043513 AAAAAAAGT
1 -AAAAAAGT
47043522 AAAAAA
1 AAAAAA
47043528 AAATATAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (8 bp):
AAAAAAGT
Found at i:47043975 original size:30 final size:30
Alignment explanation
Indices: 47043941--47044002 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
47043931 CATCATATTA
47043941 TTATTTTGGACTATATCTTACTTATATTTG
1 TTATTTTGGACTATATCTTACTTATATTTG
47043971 TTATTTTGGACTATATCTTACTTATATTTG
1 TTATTTTGGACTATATCTTACTTATATTTG
47044001 TT
1 TT
47044003 TAGTTTCTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.58
Consensus pattern (30 bp):
TTATTTTGGACTATATCTTACTTATATTTG
Found at i:47047319 original size:27 final size:28
Alignment explanation
Indices: 47047289--47047387 Score: 119
Period size: 29 Copynumber: 3.5 Consensus size: 28
47047279 ATAGTGAATC
*
47047289 CGCACACTTAGTGCTATA-AAATCAGCT
1 CGCACACTTAGTGCTATATAATTCAGCT
* *
47047316 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATATAA-TTCAGCT
* *
47047345 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATATAATT-CAGCT
*
47047374 TGCACACTTAGTGC
1 CGCACACTTAGTGC
47047388 CATTCTCGTC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
27 17 0.28
28 4 0.07
29 40 0.66
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATTCAGCT
Found at i:47058563 original size:173 final size:173
Alignment explanation
Indices: 47058271--47058614 Score: 584
Period size: 173 Copynumber: 2.0 Consensus size: 173
47058261 ATTTGTAAAA
* *
47058271 TTTAAAATCTAATTTAATAAAAATAATATTTTATTAAGATATTAATTTTTTAATAATATTTTATA
1 TTTAAAATCTAATTTAATAAAAACAATATTTTATTAAGATATTAAATTTTTAATAATATTTTATA
47058336 TATTGCTAAATATAATTAAAAAATATATTTTAATATACTAAATGACACAACTATTGATGCTATAT
66 TATTGCTAAATATAATTAAAAAATATATTTTAATATACTAAATGACACAACTATTGATGCTATAT
*
47058401 CTTGTATTATAATCTAATTCATTATATAATATTATATCACACG
131 CATGTATTATAATCTAATTCATTATATAATATTATATCACACG
*
47058444 TTTAAAATCTAATTTAATAAAAACAATATTTTATTAAGATATTAAATTTTTAATAATATTTTATG
1 TTTAAAATCTAATTTAATAAAAACAATATTTTATTAAGATATTAAATTTTTAATAATATTTTATA
* * *
47058509 TATTGCTAATTATAATT-AAAAAT-TATTTTAATATGCTAAATTACACATAACTATTGATGCTAT
66 TATTGCTAAATATAATTAAAAAATATATTTTAATATACTAAATGACAC--AACTATTGATGCTAT
*
47058572 ATCATGTATTATAATCTATTTCATTATATAATATTATATCACA
129 ATCATGTATTATAATCTAATTCATTATATAATATTATATCACA
47058615 TTATAATAGT
Statistics
Matches: 161, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
171 21 0.13
172 6 0.04
173 134 0.83
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (173 bp):
TTTAAAATCTAATTTAATAAAAACAATATTTTATTAAGATATTAAATTTTTAATAATATTTTATA
TATTGCTAAATATAATTAAAAAATATATTTTAATATACTAAATGACACAACTATTGATGCTATAT
CATGTATTATAATCTAATTCATTATATAATATTATATCACACG
Found at i:47064494 original size:2 final size:2
Alignment explanation
Indices: 47064487--47064527 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
47064477 GACTTGATGG
47064487 AT AT AT AT AT 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 AT AT AT AT AT A
47064528 AAAGCCTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:47066476 original size:43 final size:43
Alignment explanation
Indices: 47066404--47066485 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
47066394 GCAAATTCCT
* **
47066404 GGTCTTTCCTATAGGTAGCAAGATGTCAGCTTTAAAATGACTG
1 GGTCTTTCCTATAGGTAACAAGAAATCAGCTTTAAAATGACTG
* *
47066447 GGTCTTTCCTATAGGTAATATGAAATCAGCTTTAAAATG
1 GGTCTTTCCTATAGGTAACAAGAAATCAGCTTTAAAATG
47066486 TAGATACAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (43 bp):
GGTCTTTCCTATAGGTAACAAGAAATCAGCTTTAAAATGACTG
Found at i:47070005 original size:28 final size:28
Alignment explanation
Indices: 47069972--47070031 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
47069962 ATTTTATAAA
*
47069972 CTATAAAAGAATCC-AATTAAAAAATTTT
1 CTATAAAA-AAACCTAATTAAAAAATTTT
47070000 CTATAAAAAAACCTAATTAAAAAATTTT
1 CTATAAAAAAACCTAATTAAAAAATTTT
47070028 CTAT
1 CTAT
47070032 TTTAAGGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 4 0.13
28 26 0.87
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (28 bp):
CTATAAAAAAACCTAATTAAAAAATTTT
Found at i:47076916 original size:21 final size:21
Alignment explanation
Indices: 47076878--47076917 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
47076868 ACGGCCTGTG
*
47076878 CATACGGGCATGTGGAGTAAT
1 CATACGGGCATGTAGAGTAAT
**
47076899 CATACGGGTGTGTAGAGTA
1 CATACGGGCATGTAGAGTA
47076918 GGCACAAAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.12, G:0.35, T:0.25
Consensus pattern (21 bp):
CATACGGGCATGTAGAGTAAT
Found at i:47084146 original size:21 final size:21
Alignment explanation
Indices: 47084120--47084210 Score: 92
Period size: 21 Copynumber: 4.2 Consensus size: 21
47084110 AGGAGAAAGA
* *
47084120 GGTGGAGGAGAATGCACTGGT
1 GGTGGAGGAGAGTGGACTGGT
* *
47084141 GGTGGAGGAGAGTGAACAGGT
1 GGTGGAGGAGAGTGGACTGGT
* *
47084162 GGAGGTGGAGAGTGGACTGGAGGT
1 GGTGGAGGAGAGTGGACT---GGT
*
47084186 GGTGGTGGAGAGTGGACTGGT
1 GGTGGAGGAGAGTGGACTGGT
47084207 GGTG
1 GGTG
47084211 TCGGGGGCTT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
21 39 0.66
24 20 0.34
ACGTcount: A:0.21, C:0.05, G:0.55, T:0.19
Consensus pattern (21 bp):
GGTGGAGGAGAGTGGACTGGT
Found at i:47084185 original size:24 final size:24
Alignment explanation
Indices: 47084158--47084210 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
47084148 GAGAGTGAAC
47084158 AGGTGGAGGTGGAGAGTGGACTGG
1 AGGTGGAGGTGGAGAGTGGACTGG
*
47084182 AGGTGGTGGTGGAGAGTGGACTGG
1 AGGTGGAGGTGGAGAGTGGACTGG
*
47084206 TGGTG
1 AGGTG
47084211 TCGGGGGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.17, C:0.04, G:0.58, T:0.21
Consensus pattern (24 bp):
AGGTGGAGGTGGAGAGTGGACTGG
Found at i:47084381 original size:78 final size:78
Alignment explanation
Indices: 47084249--47084406 Score: 271
Period size: 78 Copynumber: 2.0 Consensus size: 78
47084239 TTTTGGTGGT
**
47084249 GGAGACCGTTCCCTTGTTACAGGTGATTCCTCTTGTTTCGGTGGTTTTTCCACTGGTGGCGGGGG
1 GGAGACCGTTCCCTTGTTACAGGTGATTCCTCTTGTTTCGGTGGTTTCGCCACTGGTGGCGGGGG
47084314 CTTAATAACTGGC
66 CTTAATAACTGGC
* * *
47084327 GGAGACCGTTCCCTTGTTATAGGTGATTCCTCTTGTTTCGGTGGTTTCGGCACTGGTGTCGGGGG
1 GGAGACCGTTCCCTTGTTACAGGTGATTCCTCTTGTTTCGGTGGTTTCGCCACTGGTGGCGGGGG
47084392 CTTAATAACTGGC
66 CTTAATAACTGGC
47084405 GG
1 GG
47084407 TGGCAATTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.13, C:0.21, G:0.32, T:0.34
Consensus pattern (78 bp):
GGAGACCGTTCCCTTGTTACAGGTGATTCCTCTTGTTTCGGTGGTTTCGCCACTGGTGGCGGGGG
CTTAATAACTGGC
Found at i:47084567 original size:96 final size:96
Alignment explanation
Indices: 47084327--47084567 Score: 365
Period size: 96 Copynumber: 2.5 Consensus size: 96
47084317 AATAACTGGC
* * *
47084327 GGAGACCGTTCCCTTGTTATAGGTGATTCCTCTTGTTTCGGTGGTTTCGGCACTGGTGTCGGGGG
1 GGAGACCGTTCCCTTGTTACAGGTGATTCCTCTTGTTTCGGTGGTTTTGACACTGGTGTCGGGGG
* **
47084392 CTTAATAACTGGCGGTGGCAATTTTGGTGGT
66 CTTAACAACTGGCGGTGGCAATTTAAGTGGT
* * *
47084423 GGAGACCGTTCCCTTGTTACAGGTGATTCCTCTTGTTTCGATGATTTTGACACTGGTTTCGGGGG
1 GGAGACCGTTCCCTTGTTACAGGTGATTCCTCTTGTTTCGGTGGTTTTGACACTGGTGTCGGGGG
47084488 CTTAACAACTGGCGGTGGCAATTTAAGTGGT
66 CTTAACAACTGGCGGTGGCAATTTAAGTGGT
** * *
47084519 GGAGGTCGTTCCCTTGTTACAGCTGATTCCTCTTCTTTCGGTGGTTTTG
1 GGAGACCGTTCCCTTGTTACAGGTGATTCCTCTTGTTTCGGTGGTTTTG
47084568 GCTTAAGGGG
Statistics
Matches: 130, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 130 1.00
ACGTcount: A:0.14, C:0.19, G:0.31, T:0.37
Consensus pattern (96 bp):
GGAGACCGTTCCCTTGTTACAGGTGATTCCTCTTGTTTCGGTGGTTTTGACACTGGTGTCGGGGG
CTTAACAACTGGCGGTGGCAATTTAAGTGGT
Found at i:47088143 original size:19 final size:18
Alignment explanation
Indices: 47088115--47088157 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
47088105 TTTATCCAAT
* *
47088115 TCAA-TCTCAACTTTGTC
1 TCAATTCTCAAATTTCTC
47088132 TCACATTCTCAAATTTCTC
1 TCA-ATTCTCAAATTTCTC
47088151 TCAATTC
1 TCAATTC
47088158 CCTCTTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 5 0.23
19 14 0.64
ACGTcount: A:0.26, C:0.30, G:0.02, T:0.42
Consensus pattern (18 bp):
TCAATTCTCAAATTTCTC
Found at i:47091580 original size:40 final size:40
Alignment explanation
Indices: 47091521--47091662 Score: 117
Period size: 40 Copynumber: 3.5 Consensus size: 40
47091511 AAATTGAATG
* *
47091521 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGA-CCCGAAGACAATTATGCTAGAAACT
* * * ***
47091561 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
47091601 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
47091641 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
47091663 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.03
40 82 0.95
41 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:47091663 original size:40 final size:39
Alignment explanation
Indices: 47091560--47091688 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
47091550 TGCTGGAAAT
* * *
47091560 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
47091600 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
47091640 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
47091680 TATATCCGG
1 TATATCCGG
47091689 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:47099521 original size:40 final size:40
Alignment explanation
Indices: 47099455--47099621 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
47099445 AAATTGAATG
* * *
47099455 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
47099494 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
47099534 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
47099574 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
47099614 ATATCCGG
1 ATATCCGG
47099622 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:47102694 original size:58 final size:55
Alignment explanation
Indices: 47102596--47102714 Score: 143
Period size: 58 Copynumber: 2.1 Consensus size: 55
47102586 ATATGAAAAA
47102596 GAAAAAAAGAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAG
1 GAAAAAAAGAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAG
***
47102651 GAAAGAAAAGAAAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAG
1 GAAA-AAAAGAAAAAAA--TGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAG
*
47102709 GGAAAA
1 GAAAAA
47102715 GGGGGAGGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
55 4 0.07
56 12 0.22
57 4 0.07
58 32 0.58
59 3 0.05
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (55 bp):
GAAAAAAAGAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAG
Found at i:47103969 original size:40 final size:40
Alignment explanation
Indices: 47103903--47104069 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
47103893 AAATTGAATG
* * *
47103903 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
47103942 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
47103982 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
47104022 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
47104062 ATATCCGG
1 ATATCCGG
47104070 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:47110295 original size:16 final size:16
Alignment explanation
Indices: 47110276--47110306 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47110266 CTTCTTCACT
47110276 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
47110292 TACTTACTTACTTAA
1 TACTCACTTACTTAA
47110307 TTAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:47110296 original size:20 final size:20
Alignment explanation
Indices: 47110273--47110312 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
47110263 AAACTTCTTC
*
47110273 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATTAAAT
*
47110293 ACTTACTTACTTAATTAAAT
1 ACTTACTCACTTAATTAAAT
47110313 TTATTAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (20 bp):
ACTTACTCACTTAATTAAAT
Found at i:47110687 original size:55 final size:53
Alignment explanation
Indices: 47110544--47110750 Score: 229
Period size: 53 Copynumber: 3.8 Consensus size: 53
47110534 ATCCTTTTGA
* *
47110544 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * *
47110597 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
* *** *
47110651 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
47110704 AAACCTTACCAATTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -AA-CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT
47110751 AAACCCTAAT
Statistics
Matches: 129, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
52 2 0.02
53 47 0.36
54 38 0.29
55 40 0.31
56 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:47110742 original size:54 final size:51
Alignment explanation
Indices: 47110498--47110751 Score: 205
Period size: 54 Copynumber: 4.9 Consensus size: 51
47110488 ACGCGGGTAC
* * * *
47110498 CTTACC-ATTGCATGACTTGTCATGGTCTTACGTGGTATCCTT-TT-GAAA
1 CTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCCTTATTAGAAA
* *
47110546 CTTACC-ATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATT-CCATGCCTTGACATGGTCTTACATGGTATCCTT--ATTA-GAAA
* * * * *
47110599 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTA-TAGTAA
1 CTTACCAATTCCATGCCTTGACATGGTCTTACAT-GG---TAT-CCTTATTAGAAA
* * * * *
47110654 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTAGAAA
1 CTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCCTTA--TTAGAAA
*
47110707 CCTTACCAATTCCATGCCTTGGCATGGTCTTACATGGTATCCTTA
1 -CTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCCTTA
47110752 AACCCTAATG
Statistics
Matches: 167, Mismatches: 22, Indels: 28
0.77 0.10 0.13
Matches are distributed among these distances:
48 9 0.05
49 29 0.17
50 5 0.03
51 3 0.02
52 2 0.01
53 34 0.20
54 45 0.27
55 34 0.20
57 2 0.01
58 4 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (51 bp):
CTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCCTTATTAGAAA
Found at i:47117019 original size:28 final size:29
Alignment explanation
Indices: 47116987--47117085 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
47116977 ATAATAAGCC
*
47116987 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
47117015 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
47117043 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
47117072 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47117086 CAATTCATGA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:47123284 original size:25 final size:24
Alignment explanation
Indices: 47123247--47123311 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 24
47123237 ATAGACATAT
47123247 TTTAAACTTCTTCACTTACTCACTTA
1 TTTAAA-TTCTTCACTTACT-ACTTA
47123273 TTTAAATTCTTCAC-T--TACTTA
1 TTTAAATTCTTCACTTACTACTTA
47123294 TTTAAATTCTT-ACTTACT
1 TTTAAATTCTTCACTTACT
47123312 TAATCAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
20 2 0.06
21 17 0.47
22 1 0.03
23 1 0.03
24 1 0.03
25 8 0.22
26 6 0.17
ACGTcount: A:0.28, C:0.22, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTAAATTCTTCACTTACTACTTA
Found at i:47123321 original size:20 final size:20
Alignment explanation
Indices: 47123261--47123313 Score: 88
Period size: 21 Copynumber: 2.6 Consensus size: 20
47123251 AACTTCTTCA
*
47123261 CTTACTCACTTATTTAAATT
1 CTTACTTACTTATTTAAATT
47123281 CTTCACTTACTTATTTAAATT
1 CTT-ACTTACTTATTTAAATT
47123302 CTTACTTACTTA
1 CTTACTTACTTA
47123314 ATCAAATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 12 0.39
21 19 0.61
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.51
Consensus pattern (20 bp):
CTTACTTACTTATTTAAATT
Found at i:47123711 original size:55 final size:53
Alignment explanation
Indices: 47123556--47123763 Score: 215
Period size: 55 Copynumber: 3.8 Consensus size: 53
47123546 ATCCTTTTGA
* * *
47123556 AACTTACGATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACAT-GTATCCTTGCCTTATAG
* * *
47123609 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACAT-GTATCC-TTGCCTTATAG
** ** *
47123663 TAACTTATTAATGCCATTTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-TATCCTTGCCTTATAG
*
47123717 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACAT-GTATCCTT
47123764 AAACCCTAAT
Statistics
Matches: 127, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
52 2 0.02
53 45 0.35
54 8 0.06
55 69 0.54
56 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.37
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGTATCCTTGCCTTATAG
Found at i:47126633 original size:2 final size:2
Alignment explanation
Indices: 47126626--47126652 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
47126616 TAAATCTATT
47126626 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
47126653 TTCCTTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47126717 original size:19 final size:19
Alignment explanation
Indices: 47126693--47126732 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
47126683 AACTCTTTCA
47126693 TATATATTTTTGTTATTAT
1 TATATATTTTTGTTATTAT
47126712 TATATATTTTTGTTATTAT
1 TATATATTTTTGTTATTAT
47126731 TA
1 TA
47126733 ACTCTTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
TATATATTTTTGTTATTAT
Found at i:47130673 original size:43 final size:43
Alignment explanation
Indices: 47130626--47130791 Score: 167
Period size: 43 Copynumber: 3.9 Consensus size: 43
47130616 GTTACCGAGA
* * * *
47130626 TGTGATTACATGTAGGACCATGTCTAGGAAATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
47130669 TGTGATTACGTGTAAGACAATGTCTGGGACATTAGCATCGCTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* * * * *
47130713 T-CGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
47130754 ATGTGATAACATGTAAGACCATGTCTGGGATA-TGGCAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
47130792 TGTACGAGCT
Statistics
Matches: 101, Mismatches: 19, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
43 88 0.87
44 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:47135551 original size:20 final size:19
Alignment explanation
Indices: 47135522--47135624 Score: 76
Period size: 21 Copynumber: 5.6 Consensus size: 19
47135512 TTTTTGAAAC
*
47135522 AATATGAAAAATTATGAGA
1 AATATAAAAAATTATGAGA
47135541 TAATAT-AAAAA--A--AG-
1 -AATATAAAAAATTATGAGA
* *
47135555 AATAT-AAAAATTCTAAGA
1 AATATAAAAAATTATGAGA
*
47135573 AATATAAAAAATTATGATA
1 AATATAAAAAATTATGAGA
*
47135592 GAATACAAAAAAATTATGATGA
1 -AATA-TAAAAAATTATGA-GA
47135614 AATATAAAAAA
1 AATATAAAAAA
47135625 AATTGAAGTA
Statistics
Matches: 67, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
13 10 0.15
15 2 0.03
17 3 0.04
18 5 0.07
19 15 0.22
20 15 0.22
21 16 0.24
22 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (19 bp):
AATATAAAAAATTATGAGA
Found at i:47135579 original size:31 final size:33
Alignment explanation
Indices: 47135522--47135583 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 33
47135512 TTTTTGAAAC
*
47135522 AATATGAAAAATTATGAGATAATATAAAAAAAG
1 AATATGAAAAATTATAAGATAATATAAAAAAAG
*
47135555 AATAT-AAAAATTCTAAGA-AATATAAAAAA
1 AATATGAAAAATTATAAGATAATATAAAAAA
47135584 TTATGATAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 11 0.41
32 11 0.41
33 5 0.19
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (33 bp):
AATATGAAAAATTATAAGATAATATAAAAAAAG
Found at i:47137438 original size:6 final size:6
Alignment explanation
Indices: 47137427--47137455 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
47137417 ACTACTCCAG
47137427 CTCAGT CTCAGT CTCAGT CTCAGT CTCAG
1 CTCAGT CTCAGT CTCAGT CTCAGT CTCAG
47137456 CTCCACCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.34, G:0.17, T:0.31
Consensus pattern (6 bp):
CTCAGT
Found at i:47140309 original size:15 final size:15
Alignment explanation
Indices: 47140289--47140330 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
47140279 AAAAAAAAGG
47140289 AATTTTTTATCAAGA
1 AATTTTTTATCAAGA
* *
47140304 AATTTTTAAT-AATA
1 AATTTTTTATCAAGA
*
47140318 TATTTTTTATCAA
1 AATTTTTTATCAA
47140331 TATGATTACG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (15 bp):
AATTTTTTATCAAGA
Found at i:47140332 original size:15 final size:15
Alignment explanation
Indices: 47140290--47140333 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
47140280 AAAAAAAGGA
* *
47140290 ATTTTTTATCAAGAA
1 ATTTTTTATCAATAT
*
47140305 ATTTTTAAT-AATAT
1 ATTTTTTATCAATAT
47140319 ATTTTTTATCAATAT
1 ATTTTTTATCAATAT
47140334 GATTACGTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTTTTATCAATAT
Found at i:47147640 original size:29 final size:29
Alignment explanation
Indices: 47147598--47147728 Score: 244
Period size: 29 Copynumber: 4.5 Consensus size: 29
47147588 AAAATTGTAC
47147598 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
47147627 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
47147656 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
47147685 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
47147714 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
47147729 GATTCACTAT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 99 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:47152196 original size:35 final size:35
Alignment explanation
Indices: 47152140--47152261 Score: 154
Period size: 35 Copynumber: 3.5 Consensus size: 35
47152130 TACTCTCTGT
* *
47152140 TTGGCATGTTTCGGTTGGATTAGCTTTTATGAGCA
1 TTGGCATGTTACGGTTGGATTAGCTATTATGAGCA
** *
47152175 TTGGCATGTTTTGGTTAGATTAGCTATTATGAGCA
1 TTGGCATGTTACGGTTGGATTAGCTATTATGAGCA
** * *
47152210 TTGGCACATTACGGTTGGATTAGCTCTTATAAGCA
1 TTGGCATGTTACGGTTGGATTAGCTATTATGAGCA
*
47152245 TTGGCATGTTATGGTTG
1 TTGGCATGTTACGGTTG
47152262 AATTGACGAT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 74 1.00
ACGTcount: A:0.20, C:0.11, G:0.27, T:0.41
Consensus pattern (35 bp):
TTGGCATGTTACGGTTGGATTAGCTATTATGAGCA
Found at i:47154048 original size:8 final size:9
Alignment explanation
Indices: 47154030--47154056 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
47154020 CCCAGCTGTG
47154030 AAAAATAAA
1 AAAAATAAA
47154039 AAAAATAAA
1 AAAAATAAA
47154048 AAAAATAAA
1 AAAAATAAA
47154057 GAACAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAATAAA
Found at i:47158487 original size:7 final size:8
Alignment explanation
Indices: 47158470--47158494 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
47158460 CCAATTTGTG
47158470 AAAAATAA
1 AAAAATAA
47158478 AAAAATAA
1 AAAAATAA
47158486 AAAAATAA
1 AAAAATAA
47158494 A
1 A
47158495 GAATACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:47161232 original size:21 final size:18
Alignment explanation
Indices: 47161184--47161219 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47161174 AAAAATTAAA
47161184 AAATAATAAAATAATGTT
1 AAATAATAAAATAATGTT
* *
47161202 AACTAATAAAATATTGTT
1 AAATAATAAAATAATGTT
47161220 GTGAAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.36
Consensus pattern (18 bp):
AAATAATAAAATAATGTT
Found at i:47161454 original size:28 final size:28
Alignment explanation
Indices: 47161406--47161478 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
47161396 ACCTTTTATC
* *
47161406 TCTCAT-ATTAATGAGGTATAGGAAAAG
1 TCTCATAATTTATGGGGTATAGGAAAAG
*
47161433 TCTCATAATTTATGGGGTATAGGAAGAG
1 TCTCATAATTTATGGGGTATAGGAAAAG
* * *
47161461 TTTTATAACTTATGGGGT
1 TCTCATAATTTATGGGGT
47161479 TGATAATGAC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 6 0.15
28 33 0.85
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.36
Consensus pattern (28 bp):
TCTCATAATTTATGGGGTATAGGAAAAG
Found at i:47163640 original size:21 final size:21
Alignment explanation
Indices: 47163614--47163657 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
47163604 TATTAGAGCA
*
47163614 TTCACAGCTGGTATATGTGAC
1 TTCACAGCTAGTATATGTGAC
47163635 TTCACAGCTAGTATATGTGAC
1 TTCACAGCTAGTATATGTGAC
47163656 TT
1 TT
47163658 AGTCACTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (21 bp):
TTCACAGCTAGTATATGTGAC
Found at i:47165723 original size:18 final size:18
Alignment explanation
Indices: 47165700--47165736 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
47165690 TCTATCTCCG
47165700 CGGCCACGCCCTCGGCCA
1 CGGCCACGCCCTCGGCCA
47165718 CGGCCACGCCCTCGGCCA
1 CGGCCACGCCCTCGGCCA
47165736 C
1 C
47165737 AACCACGGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.57, G:0.27, T:0.05
Consensus pattern (18 bp):
CGGCCACGCCCTCGGCCA
Found at i:47165742 original size:18 final size:18
Alignment explanation
Indices: 47165703--47165743 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
47165693 ATCTCCGCGG
**
47165703 CCACGCCCTCGGCCACGG
1 CCACGCCCTCGGCCACAA
47165721 CCACGCCCTCGGCCACAA
1 CCACGCCCTCGGCCACAA
47165739 CCACG
1 CCACG
47165744 GCCACGCACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.56, G:0.22, T:0.05
Consensus pattern (18 bp):
CCACGCCCTCGGCCACAA
Found at i:47166825 original size:28 final size:28
Alignment explanation
Indices: 47166794--47166856 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
47166784 TCCCATATTA
47166794 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
47166822 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
47166850 ATGGGGT
1 ATGGGGT
47166857 TGATAATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:47174543 original size:17 final size:18
Alignment explanation
Indices: 47174510--47174543 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47174500 GTTTTGCAGT
*
47174510 TTAAAAGTCTGAAAATAG
1 TTAAAAATCTGAAAATAG
47174528 TTAAAAATCT-AAAATA
1 TTAAAAATCTGAAAATA
47174544 AAGGAAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (18 bp):
TTAAAAATCTGAAAATAG
Found at i:47176158 original size:28 final size:26
Alignment explanation
Indices: 47176107--47176158 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
47176097 TCTTCTTGCC
*
47176107 AGAGAGAGAAAATTTGAAAAAAAAAA
1 AGAGAGAGAAAAATTGAAAAAAAAAA
*
47176133 AGAGAGATGATAAAATT-AAAATAAAA
1 AGAGAGA-GA-AAAATTGAAAAAAAAA
47176159 TCCAGAGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 7 0.32
27 10 0.45
28 5 0.23
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.15
Consensus pattern (26 bp):
AGAGAGAGAAAAATTGAAAAAAAAAA
Found at i:47179024 original size:41 final size:41
Alignment explanation
Indices: 47178929--47179116 Score: 200
Period size: 41 Copynumber: 4.6 Consensus size: 41
47178919 CAACAAATTA
* * * * *
47178929 GCTATATGTGGCACTTAGTGTGC--GATTCAACATAGCTTTG
1 GCTATATATGGCACTTAGTGTGCAAGATT-GAGATAACTTCG
* * *
47178969 GCTATATATATGGCATTTTGTGTGCAAGATCGAGATAACTTCG
1 GC--TATATATGGCACTTAGTGTGCAAGATTGAGATAACTTCG
** *
47179012 GCTATATATGGCACTTAGTGTGTGAGATTGAGATAGCTTCG
1 GCTATATATGGCACTTAGTGTGCAAGATTGAGATAACTTCG
* * * *
47179053 ACCATATATGGAACTTAGTGTGCAAGATTGATATAACTTCG
1 GCTATATATGGCACTTAGTGTGCAAGATTGAGATAACTTCG
47179094 GCTATATATGGCACTTAGTGTGC
1 GCTATATATGGCACTTAGTGTGC
47179117 GATTTAAGAT
Statistics
Matches: 120, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
40 2 0.02
41 87 0.73
42 18 0.15
43 10 0.08
44 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (41 bp):
GCTATATATGGCACTTAGTGTGCAAGATTGAGATAACTTCG
Found at i:47179089 original size:82 final size:81
Alignment explanation
Indices: 47178929--47179133 Score: 250
Period size: 82 Copynumber: 2.5 Consensus size: 81
47178919 CAACAAATTA
* * * * * * * *
47178929 GCTATATGTGGCACTTAGTGTGCG-ATTCAACATAGCTTTGGCTATATATATGGCATTTTGTGTG
1 GCTATATATGGCACTTAGTGTGCGAATT-AAGATAGCTTCGAC--CATATATGGAACTTAGTGTG
47178993 CAAGATCGAGATAACTTCG
63 CAAGATCGAGATAACTTCG
* *
47179012 GCTATATATGGCACTTAGTGTGTGAGATTGAGATAGCTTCGACCATATATGGAACTTAGTGTGCA
1 GCTATATATGGCACTTAGTGTGCGA-ATTAAGATAGCTTCGACCATATATGGAACTTAGTGTGCA
* *
47179077 AGATTGATATAACTTCG
65 AGATCGAGATAACTTCG
*
47179094 GCTATATATGGCACTTAGTGTGCGATTTAAGATAGCTTCG
1 GCTATATATGGCACTTAGTGTGCGAATTAAGATAGCTTCG
47179134 GCAATGAACG
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
81 13 0.12
82 57 0.54
83 22 0.21
84 10 0.10
85 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (81 bp):
GCTATATATGGCACTTAGTGTGCGAATTAAGATAGCTTCGACCATATATGGAACTTAGTGTGCAA
GATCGAGATAACTTCG
Found at i:47190541 original size:46 final size:45
Alignment explanation
Indices: 47190453--47190673 Score: 216
Period size: 46 Copynumber: 4.8 Consensus size: 45
47190443 TATATCTGTA
* * * *
47190453 CCGATGCCATGCCCCAGACATTGTCTTACACTAACACATCTCGTA-G
1 CCGATG-CATGTCCCAGACA-TGTCTTACACTAGCTCGTCTCGTAGG
*
47190499 CCGATGCATGTCCCAGACATGTCTTATACTAGCTTACGTCTCG-AGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC-T-CGTCTCGTAGG
* * *
47190545 CCGATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTC-AATG
1 CCGATGCATGTCCCAGACATGTCTTACACTAG--CTCGTCTCGTAGG
* * **
47190591 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TGATAATATGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCGT-CTCGTA-GG
47190639 CCGATGCATGTCCCAGACATGTCTTACACTAGCTC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTC
47190674 ACAATAACCT
Statistics
Matches: 149, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
44 12 0.08
45 14 0.09
46 75 0.50
47 29 0.19
48 19 0.13
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTCGTCTCGTAGG
Found at i:47195493 original size:20 final size:20
Alignment explanation
Indices: 47195470--47195508 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
47195460 CTACAAATTA
*
47195470 AAAAGAAATTAAACAAAAAT
1 AAAAGAAAATAAACAAAAAT
* *
47195490 AAAATAAAATAAATAAAAA
1 AAAAGAAAATAAACAAAAA
47195509 ATATTGTATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (20 bp):
AAAAGAAAATAAACAAAAAT
Found at i:47197461 original size:29 final size:29
Alignment explanation
Indices: 47197405--47197463 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
47197395 TACACCACAC
* * *
47197405 CAAGTTGCTCATCCGAGCTAAATATATAT
1 CAAGTTACCCATCCGAGCTAAACATATAT
* *
47197434 CAAGTTACCCATCCTAGCTAAACCTATAT
1 CAAGTTACCCATCCGAGCTAAACATATAT
47197463 C
1 C
47197464 CCGACACATC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.29
Consensus pattern (29 bp):
CAAGTTACCCATCCGAGCTAAACATATAT
Found at i:47210580 original size:61 final size:63
Alignment explanation
Indices: 47210438--47210580 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 63
47210428 TCAAGCTTTA
*
47210438 CTGGGCC-TAAGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCAT-AGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
* * * *
47210500 CTGGGCCATAGCCC-CTTACAG-TATCAGAG-TATACTGGGCC-TAGCCCATATCAGTGTCAAT
1 CTGGGCCATAGCCCTATTACAGAAATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAAT
* *
47210560 CTGGGTCGTAGCCCTATTACA
1 CTGGGCCATAGCCCTATTACA
47210581 AGTCGAAATA
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
60 31 0.45
61 22 0.32
62 15 0.22
63 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (63 bp):
CTGGGCCATAGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
Found at i:47215623 original size:20 final size:20
Alignment explanation
Indices: 47215598--47215638 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
47215588 TCCTTCTTTC
47215598 TTTCCCTTCTCTGTTTTCGT
1 TTTCCCTTCTCTGTTTTCGT
47215618 TTTCCCTTCTCTGTTTTCGT
1 TTTCCCTTCTCTGTTTTCGT
47215638 T
1 T
47215639 CTTCATTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.00, C:0.29, G:0.10, T:0.61
Consensus pattern (20 bp):
TTTCCCTTCTCTGTTTTCGT
Found at i:47215647 original size:20 final size:20
Alignment explanation
Indices: 47215598--47215647 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
47215588 TCCTTCTTTC
*
47215598 TTTCCCTTCTCTGTTTTCGT
1 TTTCCATTCTCTGTTTTCGT
*
47215618 TTTCCCTTCTCTGTTTTCGT
1 TTTCCATTCTCTGTTTTCGT
47215638 TCTT-CATTCT
1 T-TTCCATTCT
47215648 GTTTCTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.02, C:0.30, G:0.08, T:0.60
Consensus pattern (20 bp):
TTTCCATTCTCTGTTTTCGT
Found at i:47215684 original size:2 final size:2
Alignment explanation
Indices: 47215677--47215732 Score: 84
Period size: 2 Copynumber: 30.0 Consensus size: 2
47215667 ACTTTCGTTT
47215677 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47215718 -A TA TA -A TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA
47215733 ACAATAATAA
Statistics
Matches: 50, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
1 4 0.08
2 46 0.92
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:47229500 original size:19 final size:20
Alignment explanation
Indices: 47229468--47229519 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
47229458 TTTTAAATAA
* * *
47229468 ATAAAATTTAAAATCTTAAG
1 ATAAATTTTGAAATATTAAG
*
47229488 -TAAATTTTGAAATATTTAG
1 ATAAATTTTGAAATATTAAG
47229507 ATAAATTTTGAAA
1 ATAAATTTTGAAA
47229520 ATTTTATGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (20 bp):
ATAAATTTTGAAATATTAAG
Found at i:47230562 original size:29 final size:28
Alignment explanation
Indices: 47230525--47230590 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 28
47230515 GGTTTATGGG
47230525 TAAGGTTTTTGAAAAAAT-AAATTAGGGTT
1 TAAGGTTTTTG-AAAAATGAAATTA-GGTT
* *
47230554 TAAGATTTTTGAAAAATGAATTTAGGTT
1 TAAGGTTTTTGAAAAATGAAATTAGGTT
47230582 TAAGGTTTT
1 TAAGGTTTT
47230591 AAGGGGTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 18 0.55
29 15 0.45
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (28 bp):
TAAGGTTTTTGAAAAATGAAATTAGGTT
Found at i:47230662 original size:28 final size:29
Alignment explanation
Indices: 47230597--47230653 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
47230587 TTTTAAGGGG
*
47230597 TTAAGG-TTAGGGTTTTTGAAAAAATAAA
1 TTAAGGTTTATGGTTTTTGAAAAAATAAA
47230625 TTAAGGTTTATGGTTTTT-AAAAAATAAA
1 TTAAGGTTTATGGTTTTTGAAAAAATAAA
47230653 T
1 T
47230654 ATGGGTTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (29 bp):
TTAAGGTTTATGGTTTTTGAAAAAATAAA
Found at i:47230669 original size:28 final size:28
Alignment explanation
Indices: 47230527--47230653 Score: 83
Period size: 28 Copynumber: 4.7 Consensus size: 28
47230517 TTTATGGGTA
*
47230527 AGGTTTTTGAAAAAATAAATTAGGGTTT
1 AGGTTTTTGAAAAAATAAATTAAGGTTT
* * *
47230555 AAGATTTTTG-AAAAATGAATTTAGGTTT
1 -AGGTTTTTGAAAAAATAAATTAAGGTTT
****
47230583 AAGG-TTTT-----AAGGGGTTAAGG-TT
1 -AGGTTTTTGAAAAAATAAATTAAGGTTT
47230605 AGGGTTTTTGAAAAAATAAATTAAGGTTT
1 A-GGTTTTTGAAAAAATAAATTAAGGTTT
47230634 ATGGTTTTT-AAAAAATAAAT
1 A-GGTTTTTGAAAAAATAAAT
47230654 ATGGGTTTAG
Statistics
Matches: 76, Mismatches: 14, Indels: 17
0.71 0.13 0.16
Matches are distributed among these distances:
21 1 0.01
22 4 0.05
23 12 0.16
27 4 0.05
28 37 0.49
29 18 0.24
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (28 bp):
AGGTTTTTGAAAAAATAAATTAAGGTTT
Found at i:47232806 original size:2 final size:2
Alignment explanation
Indices: 47232799--47232825 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
47232789 TGTGAAGTTA
47232799 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 A
47232826 AGATTATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47237167 original size:37 final size:37
Alignment explanation
Indices: 47237117--47237191 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
47237107 ACCATTAAAC
47237117 ATCAAAATGCACACATATTCAACGTGGGTAAAATTTT
1 ATCAAAATGCACACATATTCAACGTGGGTAAAATTTT
47237154 ATCAAAATGCACACATATTCAACGTGGGTAAAATTTT
1 ATCAAAATGCACACATATTCAACGTGGGTAAAATTTT
47237191 A
1 A
47237192 GACTTTAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.29
Consensus pattern (37 bp):
ATCAAAATGCACACATATTCAACGTGGGTAAAATTTT
Found at i:47238859 original size:488 final size:488
Alignment explanation
Indices: 47237938--47239295 Score: 2482
Period size: 488 Copynumber: 2.8 Consensus size: 488
47237928 CCGTATGACT
* *
47237938 TACGATTGATTAAGTATGCTCAGGAATATATTTCTACCAAAAAAATCATGTGCAAACAATTTGTT
1 TACGGTTGATTAAGTATGCTCAGGAATATATTTCTACCAAAGAAATCATGTGCAAACAATTTGTT
*
47238003 GATGGGTTGAATGAGGATATTAAACTTCTAGTCAGAATTCTAAAATTGAAAGAATTTGTTGTCCT
66 GATGGGTTGAATGAGGATATTAAACTTCTAGTCAGAATTCTAGAATTGAAAGAATTTGTTGTCCT
* * * *
47238068 GGTCGACAGAGCTTGCAAAGCCAATAAGCTTACTAAAGAAAAGAGAAAAGCATATTCAGAGGCTA
131 GGTCGACAGAGCTTGCAAAGCCAATGAGCTTAGTAAAGAAAAGAGAAAAGCACATTCAGAGGCTG
* *
47238133 GAGACTCAAGAAAAAGACCAATGAATAAGCCATATCAATCTCCGTCAAAGAAATTCAAAGATTTG
196 GAGACTCGAGAAAAAGATCAATGAATAAGCCATATCAATCTCCGTCAAAGAAATTCAAAGATTTG
*
47238198 TTCACTCATCCAAATGTTTCAATCCGGCATTCGAGCAGAGATCGTGGAAAATAATTTTCAAGTCC
261 TTCACTCATCCAAATGTTTCAATCGGGCATTCGAGCAGAGATCGTGGAAAATAATTTTCAAGTCC
* *
47238263 TAAAGCTCAAGCTACATTGGTATCGAGTGCTGATAGTGTGAGAAACTATAGACCTGATAGTGTGA
326 TAAAGCTCAAGCTACATTGGTATCGAGTGCTGACAGTGTGAGAAACTATAGACCTGACAGTGTGA
47238328 GAAATATATAAGTCAACAGTTTCTTGATCAAAAGCACAAAGAGTTTCTAGAATTGAAACAGGGCC
391 GAAATATATAAGTCAACAGTTTCTTGATCAAAAGCACAAAGAGTTTCTAGAATTGAAACAGGGCC
47238393 GTATGACGGTGACCGAGTATGAAAGAGAATTTG
456 GTATGACGGTGACCGAGTATGAAAGAGAATTTG
* * *
47238426 TACGGTTGATTAAGTATGCTCAGGAATATATTTCTACCGAAGAAATCATGTGCAAAAAATTTTTT
1 TACGGTTGATTAAGTATGCTCAGGAATATATTTCTACCAAAGAAATCATGTGCAAACAATTTGTT
47238491 GATGGGTTGAATGAGGATATTAAACTTCTAGTCAGAATTCTAGAATTGAAAGAATTTGTTGTCCT
66 GATGGGTTGAATGAGGATATTAAACTTCTAGTCAGAATTCTAGAATTGAAAGAATTTGTTGTCCT
*
47238556 GGTCGACAGAGCTTGCAAAGCCAATGAGTTTAGTAAAGAAAAGAGAAAAGCACATTCAGAGGCTG
131 GGTCGACAGAGCTTGCAAAGCCAATGAGCTTAGTAAAGAAAAGAGAAAAGCACATTCAGAGGCTG
47238621 GAGACTCGAGAAAAAGATCAATGAATAAGCCATATCAATCTCCGTCAAAGAAATTCAAAGATTTG
196 GAGACTCGAGAAAAAGATCAATGAATAAGCCATATCAATCTCCGTCAAAGAAATTCAAAGATTTG
*
47238686 TTCACTCATCCAAATGTTTCAATCGGGCATTCGAGTAGAGATCGTGGAAAATAATTTTCAAGTCC
261 TTCACTCATCCAAATGTTTCAATCGGGCATTCGAGCAGAGATCGTGGAAAATAATTTTCAAGTCC
*
47238751 TAAAGCTCAAGCTACACTGGTATCGAGTGCTGACAGTGTGAGAAACTATAGACCTGACAGTGTGA
326 TAAAGCTCAAGCTACATTGGTATCGAGTGCTGACAGTGTGAGAAACTATAGACCTGACAGTGTGA
* * *
47238816 GAAATATATAAGTCAGCAGTTTCTTGATCAAAAGCACAAAGAGTTTTTAGAATTGAAACAGGGTC
391 GAAATATATAAGTCAACAGTTTCTTGATCAAAAGCACAAAGAGTTTCTAGAATTGAAACAGGGCC
47238881 GTATGACGGTGACCGAGTATGAAAGAGAATTTG
456 GTATGACGGTGACCGAGTATGAAAGAGAATTTG
47238914 TACGGTTGATTAAGTATGCTCAGGAATATATTTCTACCAAAGAAATCATGTGCAAACAATTTGTT
1 TACGGTTGATTAAGTATGCTCAGGAATATATTTCTACCAAAGAAATCATGTGCAAACAATTTGTT
*
47238979 GATGGGTTGAATAAGGATATTAAACTTCTAGTCAGAATTCTAGAATTGAAAGAATTTGTTGTCCT
66 GATGGGTTGAATGAGGATATTAAACTTCTAGTCAGAATTCTAGAATTGAAAGAATTTGTTGTCCT
*
47239044 AGTCGACAGAGCTTGCAAAGCCAATGAGCTTAGTAAAGAAAAGAGAAAAGCACATTCAGAGGCTG
131 GGTCGACAGAGCTTGCAAAGCCAATGAGCTTAGTAAAGAAAAGAGAAAAGCACATTCAGAGGCTG
* *
47239109 GAGACTCGAGAAAAAGATCAATGAATAAGCTATATCAATCTCCGTTAAAGAAATTCAAAGATTTG
196 GAGACTCGAGAAAAAGATCAATGAATAAGCCATATCAATCTCCGTCAAAGAAATTCAAAGATTTG
*
47239174 TTCACTCATCCAAATGTTTCAATCGGGTATTCGAGCAGAGATCGTGGAAAATAATTTTCAAGTCC
261 TTCACTCATCCAAATGTTTCAATCGGGCATTCGAGCAGAGATCGTGGAAAATAATTTTCAAGTCC
47239239 TAAAGCTCAAGCTACATTGGTATCGAGTGCTGACAGTGTGAGAAACTATAGACCTGA
326 TAAAGCTCAAGCTACATTGGTATCGAGTGCTGACAGTGTGAGAAACTATAGACCTGA
47239296 ATGTTAACAA
Statistics
Matches: 838, Mismatches: 32, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
488 838 1.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (488 bp):
TACGGTTGATTAAGTATGCTCAGGAATATATTTCTACCAAAGAAATCATGTGCAAACAATTTGTT
GATGGGTTGAATGAGGATATTAAACTTCTAGTCAGAATTCTAGAATTGAAAGAATTTGTTGTCCT
GGTCGACAGAGCTTGCAAAGCCAATGAGCTTAGTAAAGAAAAGAGAAAAGCACATTCAGAGGCTG
GAGACTCGAGAAAAAGATCAATGAATAAGCCATATCAATCTCCGTCAAAGAAATTCAAAGATTTG
TTCACTCATCCAAATGTTTCAATCGGGCATTCGAGCAGAGATCGTGGAAAATAATTTTCAAGTCC
TAAAGCTCAAGCTACATTGGTATCGAGTGCTGACAGTGTGAGAAACTATAGACCTGACAGTGTGA
GAAATATATAAGTCAACAGTTTCTTGATCAAAAGCACAAAGAGTTTCTAGAATTGAAACAGGGCC
GTATGACGGTGACCGAGTATGAAAGAGAATTTG
Found at i:47243523 original size:20 final size:21
Alignment explanation
Indices: 47243500--47243539 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47243490 ATACATGAGT
47243500 ATTTTG-ATGTTTAATGATAC
1 ATTTTGAATGTTTAATGATAC
*
47243520 ATTTTGAATGTTTGATGATA
1 ATTTTGAATGTTTAATGATA
47243540 GTCATACAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.30, C:0.03, G:0.17, T:0.50
Consensus pattern (21 bp):
ATTTTGAATGTTTAATGATAC
Found at i:47245375 original size:38 final size:38
Alignment explanation
Indices: 47245324--47245400 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
47245314 GTGTTAAATT
47245324 TGAAACCAAGTCAGTATGTTTCACATGGGCGTGTGACC
1 TGAAACCAAGTCAGTATGTTTCACATGGGCGTGTGACC
47245362 TGAAACCAAGTCAGTATGTTTCACATGGGCGTGTGACC
1 TGAAACCAAGTCAGTATGTTTCACATGGGCGTGTGACC
47245400 T
1 T
47245401 AGCCGCGTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (38 bp):
TGAAACCAAGTCAGTATGTTTCACATGGGCGTGTGACC
Found at i:47246104 original size:30 final size:30
Alignment explanation
Indices: 47246065--47246121 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
47246055 TTTTATAAAT
47246065 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
47246095 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
47246122 AACAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:47247530 original size:18 final size:18
Alignment explanation
Indices: 47247507--47247543 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
47247497 TATAGTTTGA
*
47247507 TATTCAATTTATTCGAAT
1 TATTCAAGTTATTCGAAT
47247525 TATTCAAGTTATTCGAAT
1 TATTCAAGTTATTCGAAT
47247543 T
1 T
47247544 CGAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (18 bp):
TATTCAAGTTATTCGAAT
Found at i:47248703 original size:34 final size:34
Alignment explanation
Indices: 47248665--47248739 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
47248655 GTTAATAAAA
* * *
47248665 TTATATTTGTATTAA-AAATAATTATTTAAATT-TT
1 TTATATTTG-ATTAATAAA-AAATATTAAAATTAAT
*
47248699 TTATAATTGATTAATAAAAAATATTAAAATTAAT
1 TTATATTTGATTAATAAAAAATATTAAAATTAAT
47248733 TTATATT
1 TTATATT
47248740 AAACAATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
33 16 0.47
34 18 0.53
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (34 bp):
TTATATTTGATTAATAAAAAATATTAAAATTAAT
Found at i:47248712 original size:33 final size:34
Alignment explanation
Indices: 47248665--47248729 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 34
47248655 GTTAATAAAA
* * *
47248665 TTATATTTGTATTAA-AAATAATTATTTAAATTTT
1 TTATAATTGTATTAATAAA-AAATATTAAAATTTT
47248699 TTATAATTG-ATTAATAAAAAATATTAAAATT
1 TTATAATTGTATTAATAAAAAATATTAAAATT
47248730 AATTTATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 16 0.59
34 11 0.41
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (34 bp):
TTATAATTGTATTAATAAAAAATATTAAAATTTT
Found at i:47256838 original size:16 final size:16
Alignment explanation
Indices: 47256790--47256843 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
47256780 ATTTATTATT
47256790 TATAA-AAGATATTTA
1 TATAATAAGATATTTA
*
47256805 T-TAATTAAG-TAATTA
1 TATAA-TAAGATATTTA
*
47256820 TATTATAAGATATTTA
1 TATAATAAGATATTTA
47256836 TATAATAA
1 TATAATAA
47256844 ATAAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 3 0.10
15 11 0.35
16 17 0.55
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
TATAATAAGATATTTA
Found at i:47256953 original size:2 final size:2
Alignment explanation
Indices: 47256941--47256983 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
47256931 TTGATGTTAT
47256941 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47256982 TA
1 TA
47256984 GTTAAAACAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:47257083 original size:9 final size:9
Alignment explanation
Indices: 47257069--47257096 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
47257059 GGTAAGAATG
47257069 AAAGAAAGA
1 AAAGAAAGA
47257078 AAAGAAAGA
1 AAAGAAAGA
47257087 AAAGAAAGA
1 AAAGAAAGA
47257096 A
1 A
47257097 GAAAGGGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AAAGAAAGA
Found at i:47258189 original size:51 final size:53
Alignment explanation
Indices: 47258129--47258247 Score: 152
Period size: 51 Copynumber: 2.3 Consensus size: 53
47258119 AAGTGTCACT
* *
47258129 TTACTGTTACTGTTCCGGATTCGTTCCGAAGAGGTACTC-CGTACC-TTATTG
1 TTACTGTTACTGTTCCGGATTCGTTCCGAAGAGGTACTCGCGTACCGCTACTG
* * * * *
47258180 TTACTGTTACTATTCCGGATTTGTTCTGATGAGGTACTCTGTGTACCGCTACTG
1 TTACTGTTACTGTTCCGGATTCGTTCCGAAGAGGTACTC-GCGTACCGCTACTG
47258234 TTACTGTTACTGTT
1 TTACTGTTACTGTT
47258248 ACCATTATGG
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 35 0.61
53 5 0.09
54 17 0.30
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (53 bp):
TTACTGTTACTGTTCCGGATTCGTTCCGAAGAGGTACTCGCGTACCGCTACTG
Found at i:47263392 original size:44 final size:45
Alignment explanation
Indices: 47263339--47263438 Score: 130
Period size: 44 Copynumber: 2.2 Consensus size: 45
47263329 TCTTTGACAT
* * *
47263339 GACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAATATG
1 GACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAATATG
** *
47263383 GACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAATATG
1 GACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAATATG
47263429 GACTTACATG
1 GACTTACATG
47263439 GCTCATTTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
44 30 0.62
46 18 0.38
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (45 bp):
GACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAATATG
Found at i:47263440 original size:46 final size:44
Alignment explanation
Indices: 47263355--47263443 Score: 142
Period size: 46 Copynumber: 2.0 Consensus size: 44
47263345 CATGAATTAT
*
47263355 TCCTGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAA
1 TCCTGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAA
*
47263399 TCCTGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TCCTGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTCA
47263444 TTTCTGTTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 18 0.44
46 23 0.56
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (44 bp):
TCCTGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAA
Done.