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 18 of 378
Found at i:4877596 original size:24 final size:24
Alignment explanation
Indices: 4877569--4877630 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
4877559 ATTAAATGAA
4877569 TTAATATTTAAAAATGAAATTATT
1 TTAATATTTAAAAATGAAATTATT
* *
4877593 TTAAGTATTT-AATATTAAATTATT
1 TTAA-TATTTAAAAATGAAATTATT
4877617 TTATATATTATAAA
1 TTA-ATATT-TAAA
4877631 TCATGTACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 23 0.72
25 7 0.22
26 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (24 bp):
TTAATATTTAAAAATGAAATTATT
Found at i:4881026 original size:21 final size:21
Alignment explanation
Indices: 4881002--4881084 Score: 73
Period size: 21 Copynumber: 4.0 Consensus size: 21
4880992 TGGGTTTAAA
* *
4881002 GTTTAGGG-TTATAGGTTTTGT
1 GTTTAGGGTTTA-AGGTTTAGG
4881023 GTTT-GTGGTTTAAGGTTTAGG
1 GTTTAG-GGTTTAAGGTTTAGG
* *
4881044 GTTTAGGGTTCAGGGTCTTA-G
1 GTTTAGGGTTTAAGGT-TTAGG
*
4881065 GTTTAGGGTTTCAGGTTTAG
1 GTTTAGGGTTTAAGGTTTAG
4881085 AGTATAATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
20 4 0.08
21 39 0.78
22 7 0.14
ACGTcount: A:0.14, C:0.04, G:0.36, T:0.46
Consensus pattern (21 bp):
GTTTAGGGTTTAAGGTTTAGG
Found at i:4881039 original size:7 final size:7
Alignment explanation
Indices: 4881029--4881084 Score: 62
Period size: 7 Copynumber: 8.0 Consensus size: 7
4881019 TTGTGTTTGT
*
4881029 GGTTTAA
1 GGTTTAG
4881036 GGTTTAG
1 GGTTTAG
4881043 GGTTTAG
1 GGTTTAG
*
4881050 GGTTCAG
1 GGTTTAG
4881057 GGTCTTA-
1 GGT-TTAG
4881064 GGTTTAG
1 GGTTTAG
4881071 GGTTTCA-
1 GGTTT-AG
4881078 GGTTTAG
1 GGTTTAG
4881085 AGTATAATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
6 4 0.10
7 35 0.83
8 3 0.07
ACGTcount: A:0.16, C:0.05, G:0.38, T:0.41
Consensus pattern (7 bp):
GGTTTAG
Found at i:4881040 original size:14 final size:14
Alignment explanation
Indices: 4881029--4881084 Score: 69
Period size: 14 Copynumber: 4.0 Consensus size: 14
4881019 TTGTGTTTGT
4881029 GGTTTAAGGTTTAG
1 GGTTTAAGGTTTAG
* *
4881043 GGTTTAGGGTTCAG
1 GGTTTAAGGTTTAG
4881057 GGTCTT-AGGTTTAG
1 GGT-TTAAGGTTTAG
*
4881071 GGTTTCAGGTTTAG
1 GGTTTAAGGTTTAG
4881085 AGTATAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.06
14 32 0.89
15 2 0.06
ACGTcount: A:0.16, C:0.05, G:0.38, T:0.41
Consensus pattern (14 bp):
GGTTTAAGGTTTAG
Found at i:4881165 original size:37 final size:37
Alignment explanation
Indices: 4881115--4881195 Score: 144
Period size: 37 Copynumber: 2.2 Consensus size: 37
4881105 TTAGAAGATA
4881115 AATATAAATAAGATAAATATATAGAAATTATTATTTT
1 AATATAAATAAGATAAATATATAGAAATTATTATTTT
*
4881152 AATATAAATAAGATAAATATATATAAATTATTATTTT
1 AATATAAATAAGATAAATATATAGAAATTATTATTTT
*
4881189 AAAATAA
1 AATATAA
4881196 TATATATCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (37 bp):
AATATAAATAAGATAAATATATAGAAATTATTATTTT
Found at i:4883162 original size:39 final size:39
Alignment explanation
Indices: 4883108--4883186 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
4883098 GATATGACTG
*
4883108 TCTTAAATTTGTTATTTTGCATGATTATTTGAGATCTGC
1 TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
4883147 TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
1 TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
4883186 T
1 T
4883187 TCTGTCAATG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.51
Consensus pattern (39 bp):
TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
Found at i:4883176 original size:20 final size:20
Alignment explanation
Indices: 4883114--4883177 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
4883104 ACTGTCTTAA
*
4883114 ATTTGTTATTTTGCATGATT
1 ATTTGTTATTCTGCATGATT
** *
4883134 ATTTGAGA-TCTGC-T-CTT
1 ATTTGTTATTCTGCATGATT
4883151 AAATTTGTTATTCTGCATGATT
1 --ATTTGTTATTCTGCATGATT
4883173 ATTTG
1 ATTTG
4883178 AGATCTGCTT
Statistics
Matches: 32, Mismatches: 7, Indels: 10
0.65 0.14 0.20
Matches are distributed among these distances:
17 2 0.06
18 1 0.03
19 10 0.31
20 16 0.50
21 1 0.03
22 2 0.06
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (20 bp):
ATTTGTTATTCTGCATGATT
Found at i:4884760 original size:60 final size:60
Alignment explanation
Indices: 4884667--4884792 Score: 243
Period size: 60 Copynumber: 2.1 Consensus size: 60
4884657 TGGGCCTAAT
*
4884667 TTTATTTCCATGTTCTTTTGTAGAAATTAGTTATGAACAAGGTAATATATATAGATATAG
1 TTTATTTCCATGTTCTTTTGTACAAATTAGTTATGAACAAGGTAATATATATAGATATAG
4884727 TTTATTTCCATGTTCTTTTGTACAAATTAGTTATGAACAAGGTAATATATATAGATATAG
1 TTTATTTCCATGTTCTTTTGTACAAATTAGTTATGAACAAGGTAATATATATAGATATAG
4884787 TTTATT
1 TTTATT
4884793 AATGAACAAG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.45
Consensus pattern (60 bp):
TTTATTTCCATGTTCTTTTGTACAAATTAGTTATGAACAAGGTAATATATATAGATATAG
Found at i:4885383 original size:24 final size:23
Alignment explanation
Indices: 4885351--4885406 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
4885341 AATTACCTAA
*
4885351 TTAAATTAAAT-TGTATTTAAAGTT
1 TTAATTTAAATAT-TATTTAAA-TT
* *
4885375 TTATTTTAAATATTTTTTAAATT
1 TTAATTTAAATATTATTTAAATT
4885398 TTAATTTAA
1 TTAATTTAA
4885407 TTACAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 10 0.37
24 16 0.59
25 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
TTAATTTAAATATTATTTAAATT
Found at i:4885558 original size:106 final size:106
Alignment explanation
Indices: 4885119--4885654 Score: 769
Period size: 105 Copynumber: 5.2 Consensus size: 106
4885109 ATTTTAAAAT
* * * * *
4885119 TTTTATTTTA-TTTTGAAATTACCGAATTAAATTAAAATGTATTTAAAGTTTTA-TTTGAATATT
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATT
* **
4885182 TTATTTGATTTTAATTTAATCACGGAAAATATTTTGTCTAC
66 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
*
4885223 TTTTA---T-TTTTTTAAATTACCTAATTAAATTAAATTATCTTTAAA-TTTTATTTTAAATATT
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATT
* *
4885283 TTACTTGATTTGAATTTAATCACTAAAAATATTTTGTATAC
66 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
* *
4885324 TTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATT
* * *
4885389 TT--TTAAATTTTAATTTAATTACAAAAAATATTTT-TCTAC
66 TTACTT-GATTTTAATTTAATCACTAAAAATATTTTGTCTAC
* * *
4885428 TTTTATGTTATTTTTTAAATTACCTAACTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATT
4885493 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
66 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
* *
4885534 TTTTATTTTATTTTTTAAATTACCTAATTAAATT-ATTTTTCTTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATT
4885598 TTACTTGATTTTAATTTAATCACTAAAAATA--TTGTCTAC
66 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
4885637 -TTTATTTTA-TTTTTAAAT
1 TTTTATTTTATTTTTTAAAT
4885655 ATTTTATTTT
Statistics
Matches: 389, Mismatches: 32, Indels: 25
0.87 0.07 0.06
Matches are distributed among these distances:
100 5 0.01
101 92 0.24
102 9 0.02
103 8 0.02
104 74 0.19
105 144 0.37
106 57 0.15
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (106 bp):
TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATT
TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
Found at i:4885771 original size:9 final size:9
Alignment explanation
Indices: 4885757--4886040 Score: 72
Period size: 9 Copynumber: 30.7 Consensus size: 9
4885747 TCCCATCAAC
4885757 AACTTACAT
1 AACTTACAT
4885766 AACTTACAT
1 AACTTACAT
4885775 AA--TACAT
1 AACTTACAT
*
4885782 AAATATATATCAT
1 -AA-CT-TA-CAT
4885795 ATA-TTACAT
1 A-ACTTACAT
*
4885804 AAATTACAT
1 AACTTACAT
** * *
4885813 AAGATAAAC
1 AACTTACAT
4885822 AACTTACAT
1 AACTTACAT
*
4885831 AATTTACAT
1 AACTTACAT
*
4885840 AACTTACGT
1 AACTTACAT
4885849 AAC--ACAT
1 AACTTACAT
* *
4885856 AAGTATATATT
1 AACT-TACA-T
*
4885867 ATATCGTACAT
1 A-A-CTTACAT
*
4885878 AATTTACAT
1 AACTTACAT
4885887 AA-TT-CGGAT
1 AACTTAC--AT
4885896 AACTTACAT
1 AACTTACAT
* *
4885905 AATTTTCAT
1 AACTTACAT
4885914 AACTTACAT
1 AACTTACAT
4885923 ATA-TAATACAT
1 A-ACT--TACAT
*
4885934 AAATATATATCAT
1 -AA-CT-TA-CAT
* *
4885947 ATCGTACAT
1 AACTTACAT
*
4885956 AATTTACAT
1 AACTTACAT
4885965 AA-TT-CGGAT
1 AACTTAC--AT
*
4885974 AACTTACAC
1 AACTTACAT
*
4885983 AATTTACAT
1 AACTTACAT
4885992 AACTTACAT
1 AACTTACAT
4886001 AA--TACAT
1 AACTTACAT
* *
4886008 AA-ATATAT
1 AACTTACAT
* *
4886016 ATCATATCAT
1 AACTTA-CAT
4886026 AACTTACAT
1 AACTTACAT
4886035 AACTTA
1 AACTTA
4886041 ATTATACTTA
Statistics
Matches: 205, Mismatches: 38, Indels: 64
0.67 0.12 0.21
Matches are distributed among these distances:
7 19 0.09
8 12 0.06
9 123 0.60
10 18 0.09
11 13 0.06
12 12 0.06
13 8 0.04
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (9 bp):
AACTTACAT
Found at i:4885954 original size:78 final size:74
Alignment explanation
Indices: 4885760--4886023 Score: 359
Period size: 74 Copynumber: 3.5 Consensus size: 74
4885750 CATCAACAAC
** * * ** *
4885760 TTACATAACTTACATAATACATAAATATATATCATATATTACATAAATTACATAAGAT-AAACAA
1 TTACATAACTTACATAATACATAAATATATATCATATCGTACATAATTTACATAA-TTCGGATAA
4885824 CTTACATAAT
65 CTTACATAAT
* * * *
4885834 TTACATAACTTACGTAACACATAAGTATATATTATATCGTACATAATTTACATAATTCGGATAAC
1 TTACATAACTTACATAATACATAAATATATATCATATCGTACATAATTTACATAATTCGGATAAC
4885899 TTACATAAT
66 TTACATAAT
*
4885908 TTTCATAACTTACATATATAATACATAAATATATATCATATCGTACATAATTTACATAATTCGGA
1 TTACATAACTTAC----ATAATACATAAATATATATCATATCGTACATAATTTACATAATTCGGA
*
4885973 TAACTTACACAAT
62 TAACTTACATAAT
4885986 TTACATAACTTACATAATACATAAATATATATCATATC
1 TTACATAACTTACATAATACATAAATATATATCATATC
4886024 ATAACTTACA
Statistics
Matches: 167, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
73 1 0.01
74 98 0.59
78 68 0.41
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (74 bp):
TTACATAACTTACATAATACATAAATATATATCATATCGTACATAATTTACATAATTCGGATAAC
TTACATAAT
Found at i:4887596 original size:41 final size:41
Alignment explanation
Indices: 4887550--4887881 Score: 542
Period size: 41 Copynumber: 8.1 Consensus size: 41
4887540 TTTTTATGCG
4887550 AAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCT
1 AAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCT
*
4887591 AAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCG
1 AAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCT
* *
4887632 AAAAACCAGAGCATTAGCGGCGCTTTTGGTTAAACGCCGCT
1 AAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCT
** *
4887673 AAAAACCAGAGCATTAGTTGCGCTTTCTGTAAAACGCCGCT
1 AAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCT
* *
4887714 AAAAACCAGAGCATTAGCGGCGCTTTCTGTAAAACGCCGTT
1 AAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCT
* *
4887755 AAAAACCAGAGCATTAGCAGCGCTTTTGGTAAAACG-CGCT
1 AAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCT
*
4887795 AAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACACCGCT
1 AAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCT
4887836 AAAAACCA-ACGCATTAGCGGCGCTTTCGGTAAAACGCCGCT
1 AAAAACCAGA-GCATTAGCGGCGCTTTCGGTAAAACGCCGCT
4887877 AAAAA
1 AAAAA
4887882 TCTCATAACC
Statistics
Matches: 269, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
40 37 0.14
41 232 0.86
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (41 bp):
AAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCT
Found at i:4888064 original size:14 final size:14
Alignment explanation
Indices: 4888042--4888080 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
4888032 TTAATTATCA
* *
4888042 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
4888056 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
4888070 ATATGGTTTAA
1 TTATGGTTTAA
4888081 AGCAGGTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:4889004 original size:24 final size:24
Alignment explanation
Indices: 4888939--4889004 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
4888929 TTTAGAAGAA
* *
4888939 AAATGTATATAAGATAAATATATAT
1 AAATATATATATGA-AAATATATAT
* *
4888964 AAA-ATATTATTTTAAAATATATAT
1 AAATATA-TATATGAAAATATATAT
4888988 AAATATATATATGAAAA
1 AAATATATATATGAAAA
4889005 GTGGTTTAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
24 23 0.70
25 10 0.30
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.38
Consensus pattern (24 bp):
AAATATATATATGAAAATATATAT
Found at i:4891911 original size:46 final size:44
Alignment explanation
Indices: 4891807--4891914 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
4891797 TGTCTTTGAC
** * * *
4891807 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
4891851 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
4891897 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
4891915 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:4897844 original size:46 final size:44
Alignment explanation
Indices: 4897740--4897847 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
4897730 TGTCTTTGAC
** * * *
4897740 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
4897784 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
4897830 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
4897848 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:4899638 original size:63 final size:63
Alignment explanation
Indices: 4899532--4899657 Score: 189
Period size: 63 Copynumber: 2.0 Consensus size: 63
4899522 TCCCTTTGGT
*** *
4899532 TATGCACTAGTTGATGGTCTGAGAGTCAATCGATTGTAGAAGTTGGGTACAATCCGTCTAAAA
1 TATGCACTAGTTGATGGTCTGAGAGTCAATCGACCATAGAAGTTGGGTACAATCCGACTAAAA
* * *
4899595 TATGCACTAGTTGATGGTCTGAGAGTCAATCGACCATATAAGTTGGGTAGAATCTGACTAAAA
1 TATGCACTAGTTGATGGTCTGAGAGTCAATCGACCATAGAAGTTGGGTACAATCCGACTAAAA
4899658 CAGAAAGGAC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (63 bp):
TATGCACTAGTTGATGGTCTGAGAGTCAATCGACCATAGAAGTTGGGTACAATCCGACTAAAA
Found at i:4901874 original size:472 final size:474
Alignment explanation
Indices: 4900989--4902239 Score: 2382
Period size: 472 Copynumber: 2.6 Consensus size: 474
4900979 TCTCTCCAAC
*
4900989 CTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGTTGGAAACCTGACGGGTTGCCTTATATC
1 CTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATC
* * *
4901054 GAGCTGCAAGATATATTGGATCCTCCCTAAGAGTAACAACGCCACGTATGATGAATCTTAAAAAA
66 GAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAA
*
4901119 TTCAAAAAGAATTGAAAAAAGTTATATCGCTATTGAATATTTATATAACCTTAATTTATTTCCAA
131 TTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCAA
4901184 TTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTGTT
196 TTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTGTT
4901249 ATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATTT
261 ATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATTT
*
4901314 TTATCAAAACAGTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTTGG
326 TTATCAAAACAATATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTTGG
4901379 TTCAACTTAATTATTATTTGATTCAACTTAAGTATGAATAAGTATGAATTAATTTTATTACC-AT
391 TTCAACTTAATTATTATTTGATTCAACTTAAGTATGAATAAGTATGAATTAATTTTATTACCAAT
*
4901443 GTAGCTTGCTTGTCCATTT
456 GTAGCTTGCTTGTCAATTT
4901462 CTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATC
1 CTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATC
4901527 GAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAA
66 GAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAA
*
4901592 TTCAAAAAGAATT-AAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCTAA
131 TTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCAA
4901656 TTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTGTT
196 TTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTGTT
4901721 ATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATTT
261 ATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATTT
4901786 TTATCAAAACAATATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTTGG
326 TTATCAAAACAATATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTTGG
4901851 TTCAACTTAATTATTATTTGATTCAACTTAAGTATGAATAAGTATGAATTAATTTTATTACCATA
391 TTCAACTTAATTATTATTTGATTCAACTTAAGTATGAATAAGTATGAATTAATTTTATTACC--A
4901916 TATGTAGCTTGCTTGTCAATTT
454 -ATGTAGCTTGCTTGTCAATTT
4901938 CTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATC
1 CTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATC
4902003 GAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAA
66 GAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAA
4902068 TTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCAA
131 TTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCAA
4902133 TTTACTTATAAAAATTAAACTACGATTC-TTTTTGATATTATTATATTCAAATTACTATTTTGTT
196 TTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTGTT
4902197 ATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGT
261 ATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGT
4902240 ATTTGTATAA
Statistics
Matches: 764, Mismatches: 9, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
472 305 0.40
473 139 0.18
476 242 0.32
477 78 0.10
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (474 bp):
CTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATC
GAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAA
TTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCAA
TTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTGTT
ATATTAATAATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATTT
TTATCAAAACAATATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTTGG
TTCAACTTAATTATTATTTGATTCAACTTAAGTATGAATAAGTATGAATTAATTTTATTACCAAT
GTAGCTTGCTTGTCAATTT
Found at i:4909335 original size:44 final size:45
Alignment explanation
Indices: 4909245--4909373 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
4909235 GACAGAACGA
*
4909245 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
4909291 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
4909335 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
4909374 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:4916718 original size:44 final size:45
Alignment explanation
Indices: 4916628--4916756 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
4916618 GACAGAACGA
*
4916628 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
4916674 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
4916718 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
4916757 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:4918591 original size:86 final size:84
Alignment explanation
Indices: 4918375--4918624 Score: 347
Period size: 85 Copynumber: 2.9 Consensus size: 84
4918365 TTTTTTTTTA
* * * * * * *
4918375 TAAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTCTTAAAAAAGTGCCGCTAAAAGTAT
1 TAAAAAGCGCCGCTAAAAGTACAGGTCTTTCGCGGCGTTTCTTATAGAAGCGCCGCTAAAAGTCT
* *
4918440 AGGTCTTTCGCGGTGTTTCT
66 -GGTCTTTAGCGGCGTTTCT
*
4918460 TAAAAAGCGCCGCTAAAAGTACAGGTCTTTCGCGGCGTTTCTTATAGAAGCGCCGCTAAAGGTCC
1 TAAAAAGCGCCGCTAAAAGTACAGGTCTTTCGCGGCGTTTCTTATAGAAGCGCCGCTAAAAGT-C
4918525 TGGTCTTTAGCGGCGTTTCT
65 TGGTCTTTAGCGGCGTTTCT
* *
4918545 TAAAAAAGCGCTGCTAAAAGTACAGGTCTTTCGCGGCGTTTTTTATAGAAGCGCCGCTAAAAGTA
1 T-AAAAAGCGCCGCTAAAAGTACAGGTCTTTCGCGGCGTTTCTTATAGAAGCGCCGCTAAAAGT-
*
4918610 CAGGTCTTTAGCGGC
64 CTGGTCTTTAGCGGC
4918625 TTTTTTTGCG
Statistics
Matches: 148, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
85 74 0.50
86 74 0.50
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (84 bp):
TAAAAAGCGCCGCTAAAAGTACAGGTCTTTCGCGGCGTTTCTTATAGAAGCGCCGCTAAAAGTCT
GGTCTTTAGCGGCGTTTCT
Found at i:4918631 original size:43 final size:43
Alignment explanation
Indices: 4918314--4918624 Score: 367
Period size: 43 Copynumber: 7.2 Consensus size: 43
4918304 ACTGGGCAAA
* *
4918314 TTAGCGGCGTTT-TTCA-AAAAGCGCCGCTAAAAGCACAGGTCC
1 TTAGCGGCGTTTCTT-ATAAAAGCGCCGCTAAAAGTACAGGTCT
* * * *
4918356 CTAGCGGCGTTTTTTTTTATAAAAAGCGCCGCTAAAAGTCCTGGTCT
1 TTAGCGGCG---TTTCTTAT-AAAAGCGCCGCTAAAAGTACAGGTCT
* * *
4918403 TTAGCGGCGTTTCTTAAAAAAGTGCCGCTAAAAGTATAGGTCT
1 TTAGCGGCGTTTCTTATAAAAGCGCCGCTAAAAGTACAGGTCT
* *
4918446 TTCGCGGTGTTTCTTA-AAAAGCGCCGCTAAAAGTACAGGTCT
1 TTAGCGGCGTTTCTTATAAAAGCGCCGCTAAAAGTACAGGTCT
* * * * *
4918488 TTCGCGGCGTTTCTTATAGAAGCGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTCTTATAAAAGCGCCGCTAAAAGTACAGGTCT
* *
4918531 TTAGCGGCGTTTCTTAAAAAAGCGCTGCTAAAAGTACAGGTCT
1 TTAGCGGCGTTTCTTATAAAAGCGCCGCTAAAAGTACAGGTCT
* * *
4918574 TTCGCGGCGTTTTTTATAGAAGCGCCGCTAAAAGTACAGGTCT
1 TTAGCGGCGTTTCTTATAAAAGCGCCGCTAAAAGTACAGGTCT
4918617 TTAGCGGC
1 TTAGCGGC
4918625 TTTTTTTGCG
Statistics
Matches: 228, Mismatches: 34, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
42 47 0.21
43 139 0.61
44 6 0.03
45 4 0.02
46 2 0.01
47 30 0.13
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (43 bp):
TTAGCGGCGTTTCTTATAAAAGCGCCGCTAAAAGTACAGGTCT
Found at i:4923980 original size:21 final size:21
Alignment explanation
Indices: 4923933--4923980 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
4923923 ACTTAGAGCG
*
4923933 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGAGAGAGAGGCA
* *
4923954 -ACGGCAGCAGCGAGAGAGGTA
1 GA-GGCAGCAGAGAGAGAGGCA
4923975 GAGGCA
1 GAGGCA
4923981 CTAGCAATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
20 1 0.05
21 20 0.91
22 1 0.05
ACGTcount: A:0.33, C:0.17, G:0.48, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGAGAGAGAGGCA
Found at i:4924281 original size:31 final size:31
Alignment explanation
Indices: 4924219--4924301 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
4924209 TTAGAATTAA
*
4924219 TGTTTTTGGTTGTATTTTTTATGCTAAATTTGC
1 TGTTTTTGGTTGTA--TTTTATACTAAATTTGC
* * *
4924252 TGTTTTTGGCTGTATTTTATACTATATTTGT
1 TGTTTTTGGTTGTATTTTATACTAAATTTGC
* *
4924283 TGTATTTGGTTGGATTTTA
1 TGTTTTTGGTTGTATTTTA
4924302 ATGCAGGAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 30 0.70
33 13 0.30
ACGTcount: A:0.16, C:0.05, G:0.19, T:0.60
Consensus pattern (31 bp):
TGTTTTTGGTTGTATTTTATACTAAATTTGC
Found at i:4924414 original size:43 final size:43
Alignment explanation
Indices: 4924353--4924452 Score: 164
Period size: 43 Copynumber: 2.3 Consensus size: 43
4924343 TCTGCTAAAA
*
4924353 TTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCGTCACTT
1 TTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCATCACTT
* *
4924396 TTAGCGGTGCTTTTCCCACAAACGCCGCTAAAATCCATCACTT
1 TTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCATCACTT
*
4924439 TTAGCGGCGTTTTT
1 TTAGCGGCGCTTTT
4924453 TTCAATAAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (43 bp):
TTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCATCACTT
Found at i:4924949 original size:12 final size:12
Alignment explanation
Indices: 4924934--4924968 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
4924924 TAATGAGGCA
4924934 AGAAGGAAGCAT
1 AGAAGGAAGCAT
*
4924946 AGAAAGAAGCAT
1 AGAAGGAAGCAT
4924958 AGAAGG-AGCAT
1 AGAAGGAAGCAT
4924969 TAAAGGCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.51, C:0.09, G:0.31, T:0.09
Consensus pattern (12 bp):
AGAAGGAAGCAT
Found at i:4937365 original size:24 final size:23
Alignment explanation
Indices: 4937317--4937367 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
4937307 TCAGGTACTG
* *
4937317 AATTAGACAAAAAAAAGGTACCA
1 AATTAGAAAAAAAAAAAGTACCA
*
4937340 AATTAGAAAAAAAATAAAGTATCA
1 AATTAGAAAAAAAA-AAAGTACCA
4937364 AATT
1 AATT
4937368 GGACCCCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.63, C:0.08, G:0.10, T:0.20
Consensus pattern (23 bp):
AATTAGAAAAAAAAAAAGTACCA
Found at i:4938630 original size:49 final size:49
Alignment explanation
Indices: 4938575--4938671 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
4938565 GATTTAAGTA
* *
4938575 TGACTATTTAAAACCATGACTAACAATGGCATGTCTACGATTGCCAATC
1 TGACTATTTAAAACCATGACTAACAATGACATCTCTACGATTGCCAATC
* *
4938624 TGACTATTTAAAACCATGATTGACAATGACATCTCTACGATTGCCAAT
1 TGACTATTTAAAACCATGACTAACAATGACATCTCTACGATTGCCAAT
4938672 ATTATATGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (49 bp):
TGACTATTTAAAACCATGACTAACAATGACATCTCTACGATTGCCAATC
Found at i:4942438 original size:14 final size:14
Alignment explanation
Indices: 4942383--4942444 Score: 53
Period size: 13 Copynumber: 4.7 Consensus size: 14
4942373 TTTAGTATTG
*
4942383 AAATAATTTTGTAT
1 AAATAATTTTTTAT
4942397 -AA-AATTTTTTAT
1 AAATAATTTTTTAT
*
4942409 --TTGAATTTTTTA-
1 AAAT-AATTTTTTAT
4942421 AAATAATTTTTTAT
1 AAATAATTTTTTAT
*
4942435 AAATTATTTT
1 AAATAATTTT
4942445 CAGTGAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
12 9 0.23
13 20 0.51
14 10 0.26
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
AAATAATTTTTTAT
Found at i:4942551 original size:17 final size:17
Alignment explanation
Indices: 4942521--4942554 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4942511 ATCAAAAATC
4942521 ATTTTTAATAAAATAAT
1 ATTTTTAATAAAATAAT
4942538 ATTTTGTAAT-AAATAAT
1 ATTTT-TAATAAAATAAT
4942555 GTATTATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTTTTAATAAAATAAT
Found at i:4944530 original size:2 final size:2
Alignment explanation
Indices: 4944523--4944559 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4944513 TTACTTAGAT
4944523 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4944560 GTATTATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4946501 original size:2 final size:2
Alignment explanation
Indices: 4946488--4946520 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4946478 TAATGAAATA
*
4946488 AT AT AT AA 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 A
4946521 ATTTTTACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4949709 original size:2 final size:2
Alignment explanation
Indices: 4949702--4949757 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
4949692 TTACTATGTC
4949702 TA TA TA 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
*
4949744 TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA
4949758 GTTCATGTGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4951499 original size:268 final size:268
Alignment explanation
Indices: 4951021--4951555 Score: 939
Period size: 268 Copynumber: 2.0 Consensus size: 268
4951011 GTGAAAAATC
*
4951021 AAGAAAAAGAATTTGGTATCTTGATAATTGCGCCAACAATCACATGTGTGGCCGAAAAGACTTAT
1 AAGAAAAAGAATTTGGTATCTTGATAATTGCACCAACAATCACATGTGTGGCCGAAAAGACTTAT
*
4951086 TTTCAGAGTTGGATGAGAATATTCATGGACAAGTAACGTTTGGAGATGAATCGCATACCACGGTC
66 TTTCAAAGTTGGATGAGAATATTCATGGACAAGTAACGTTTGGAGATGAATCGCATACCACGGTC
* *
4951151 AAAAGTAACGGCAAAGTCACTATTACAAAAAAGAATGGAAAAAAGAAGTTAATTTCAAATGTTTA
131 AAAAGCAAAGGCAAAGTCACTATTACAAAAAAGAATGGAAAAAAGAAGTTAATTTCAAATGTTTA
* *
4951216 TTACGTACTAGCTTTGAAAAGCAACATTATCAGCTTTAGACAGCTTCTAAAAAAAAGATATGAAG
196 TTACGTACCAGCTTTGAAAAGCAACATTATCAGCTTTAGACAGCTTCTAAAAAAAAGATATAAAG
4951281 TACATATG
261 TACATATG
*
4951289 AAGAAAAA-ATATTTGGTATCTTGATAATTGCACCAGCAATCACATGTGTGGCCGAAAAGACTTA
1 AAGAAAAAGA-ATTTGGTATCTTGATAATTGCACCAACAATCACATGTGTGGCCGAAAAGACTTA
*
4951353 TTTTCAAAGTTGGATGAGAATATTCATGGACAAGTAACGTTTGGAGATGAATCGCATGCCACGGT
65 TTTTCAAAGTTGGATGAGAATATTCATGGACAAGTAACGTTTGGAGATGAATCGCATACCACGGT
* *
4951418 CAAAGGCAAAGGCAAAGTCACTATTACAAAAAAGAATGGAAAAAAGAAGTTCATTT-AAGATGTT
130 CAAAAGCAAAGGCAAAGTCACTATTACAAAAAAGAATGGAAAAAAGAAGTTAATTTCAA-ATGTT
*
4951482 TATTACGTACCAGCTTTGAAAAGCAACATTATCAGCTTTAGACAGCTTCTAAAAAAAGGATATAA
194 TATTACGTACCAGCTTTGAAAAGCAACATTATCAGCTTTAGACAGCTTCTAAAAAAAAGATATAA
4951547 AGTACATAT
259 AGTACATAT
4951556 AAAGGATTCC
Statistics
Matches: 254, Mismatches: 11, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
267 3 0.01
268 251 0.99
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (268 bp):
AAGAAAAAGAATTTGGTATCTTGATAATTGCACCAACAATCACATGTGTGGCCGAAAAGACTTAT
TTTCAAAGTTGGATGAGAATATTCATGGACAAGTAACGTTTGGAGATGAATCGCATACCACGGTC
AAAAGCAAAGGCAAAGTCACTATTACAAAAAAGAATGGAAAAAAGAAGTTAATTTCAAATGTTTA
TTACGTACCAGCTTTGAAAAGCAACATTATCAGCTTTAGACAGCTTCTAAAAAAAAGATATAAAG
TACATATG
Found at i:4956718 original size:17 final size:16
Alignment explanation
Indices: 4956696--4956740 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
4956686 ACATATTTTA
4956696 AAAATAATTAATTACAT
1 AAAATAATTAATTA-AT
*
4956713 AAAATAATTAATTATT
1 AAAATAATTAATTAAT
*
4956729 TAAATAATTAAT
1 AAAATAATTAAT
4956741 ATTAAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATAATTAATTAAT
Found at i:4960039 original size:16 final size:17
Alignment explanation
Indices: 4960008--4960040 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4959998 TTCATAAGTA
*
4960008 TATATCAGTCATTTCAT
1 TATATCAATCATTTCAT
4960025 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
4960041 GCTCCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:4960546 original size:46 final size:46
Alignment explanation
Indices: 4960326--4960553 Score: 296
Period size: 46 Copynumber: 5.0 Consensus size: 46
4960316 TTTGACATGA
* * * *
4960326 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCAGGT
* * *
4960372 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* ** * *
4960418 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGCCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* *
4960464 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* *
4960510 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAG
4960554 AGAGCACACT
Statistics
Matches: 163, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 4 0.02
46 159 0.98
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
Found at i:4966007 original size:63 final size:63
Alignment explanation
Indices: 4965908--4966029 Score: 235
Period size: 63 Copynumber: 1.9 Consensus size: 63
4965898 GGAAGGCCAG
4965908 CCAAGATAACACTGATCTGTTCTTGCTTCGTAACCAGGCTACCAGCGGCAGTCAGACTACCCA
1 CCAAGATAACACTGATCTGTTCTTGCTTCGTAACCAGGCTACCAGCGGCAGTCAGACTACCCA
*
4965971 CCAAGATAACGCTGATCTGTTCTTGCTTCGTAACCAGGCTACCAGCGGCAGTCAGACTA
1 CCAAGATAACACTGATCTGTTCTTGCTTCGTAACCAGGCTACCAGCGGCAGTCAGACTA
4966030 TCACTTAAAC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.23
Consensus pattern (63 bp):
CCAAGATAACACTGATCTGTTCTTGCTTCGTAACCAGGCTACCAGCGGCAGTCAGACTACCCA
Found at i:4971924 original size:75 final size:73
Alignment explanation
Indices: 4971836--4972007 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
4971826 GGTTTTCCTC
*** * * **
4971836 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
4971900 TCAGTATGG
65 TCAGTATGG
*
4971909 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
4971974 CTCAGTATGG
64 CTCAGTATGG
4971984 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
4972008 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:4972005 original size:35 final size:35
Alignment explanation
Indices: 4971841--4972007 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
4971831 TCCTCATTGA
*** *
4971841 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
4971876 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
4971916 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
4971951 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
4971986 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
4972008 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:4979406 original size:35 final size:35
Alignment explanation
Indices: 4979339--4979506 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
4979329 TCCTCATTGA
*** *
4979339 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
4979375 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
4979415 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
4979450 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
4979485 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
4979507 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:4979465 original size:75 final size:73
Alignment explanation
Indices: 4979334--4979506 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
4979324 GGTTTTCCTC
*** * * **
4979334 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
4979399 TCAGTATGG
65 TCAGTATGG
*
4979408 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
4979472 ACTCAGTATGG
63 ACTCAGTATGG
4979483 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
4979507 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:4985230 original size:21 final size:21
Alignment explanation
Indices: 4985204--4985246 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
4985194 AATAACATTA
4985204 GGGGGAAAGCTTGAGAAAACT
1 GGGGGAAAGCTTGAGAAAACT
*
4985225 GGGGGAAAGCTTGAGGAAACT
1 GGGGGAAAGCTTGAGAAAACT
4985246 G
1 G
4985247 CAAAATCGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.42, T:0.14
Consensus pattern (21 bp):
GGGGGAAAGCTTGAGAAAACT
Found at i:4988852 original size:22 final size:22
Alignment explanation
Indices: 4988824--4988867 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4988814 TCAAGAAGAA
*
4988824 TGAAGCTGAAATACAGCTTATT
1 TGAAGCTAAAATACAGCTTATT
4988846 TGAAGCTAAAATACAGCTTATT
1 TGAAGCTAAAATACAGCTTATT
4988868 GTATCCCTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (22 bp):
TGAAGCTAAAATACAGCTTATT
Found at i:4991035 original size:7 final size:7
Alignment explanation
Indices: 4991023--4991048 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4991013 AATAAGAAAA
4991023 AAAATCT
1 AAAATCT
4991030 AAAATCT
1 AAAATCT
4991037 AAAATCT
1 AAAATCT
4991044 AAAAT
1 AAAAT
4991049 ATTAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATCT
Found at i:4994446 original size:3 final size:3
Alignment explanation
Indices: 4994438--4994484 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
4994428 AATACTTTTT
4994438 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4994485 GTCTTTGTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4996411 original size:23 final size:21
Alignment explanation
Indices: 4996364--4996411 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 21
4996354 TATGGTACTT
* *
4996364 GTACTTTAAATATCTAATTTG
1 GTACTTTAAATATCTAATATA
*
4996385 GTACTTTAGAAATATTTAATATA
1 GTACTTT--AAATATCTAATATA
4996408 GTAC
1 GTAC
4996412 CTAATATATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 7 0.32
23 15 0.68
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (21 bp):
GTACTTTAAATATCTAATATA
Found at i:4998054 original size:3 final size:3
Alignment explanation
Indices: 4998046--4998134 Score: 85
Period size: 3 Copynumber: 30.3 Consensus size: 3
4998036 ATTTTAACTG
*
4998046 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA -TA TTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
** * * * *
4998091 TTA ACA -TA TTA TTA TTA TTT TTG CTA -TA TTA TTG TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4998135 ATATATATAT
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
2 4 0.06
3 64 0.90
4 3 0.04
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:4998432 original size:2 final size:2
Alignment explanation
Indices: 4998427--4998451 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4998417 TATGTAGTTT
4998427 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
4998452 TATTACTTTA
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:5003046 original size:23 final size:22
Alignment explanation
Indices: 5003027--5003089 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
5003017 TAAAAAATGC
5003027 TAATACAATTACATATAAAATTT
1 TAATACAATTACATATAAAA-TT
*
5003050 TAATA-AATATAAAT-TAAAAATT
1 TAATACAAT-TACATAT-AAAATT
5003072 TAAATACAATTACATATA
1 T-AATACAATTACATATA
5003090 TAGGATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
22 7 0.21
23 22 0.67
24 4 0.12
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (22 bp):
TAATACAATTACATATAAAATT
Found at i:5003584 original size:21 final size:21
Alignment explanation
Indices: 5003558--5003615 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
5003548 TCTAAACTCT
5003558 AAACCCTTAACCCTTAACCCC
1 AAACCCTTAACCCTTAACCCC
*
5003579 AAACCCTT-ACACCTTAAACTCC
1 AAACCCTTAAC-CCTT-AACCCC
5003601 -AACCC-TAACCCTTAA
1 AAACCCTTAACCCTTAA
5003616 ACCCTAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 2 0.06
20 7 0.21
21 19 0.58
22 5 0.15
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.21
Consensus pattern (21 bp):
AAACCCTTAACCCTTAACCCC
Found at i:5003620 original size:14 final size:14
Alignment explanation
Indices: 5003557--5003622 Score: 53
Period size: 14 Copynumber: 4.7 Consensus size: 14
5003547 TTCTAAACTC
5003557 TAAACCCTTAACCCT
1 TAAACCC-TAACCCT
* *
5003572 TAACCCCAAACCCT
1 TAAACCCTAACCCT
* * *
5003586 TACACCTTAA-ACT
1 TAAACCCTAACCCT
**
5003599 CCAACCCTAACCCT
1 TAAACCCTAACCCT
5003613 TAAACCCTAA
1 TAAACCCTAA
5003623 ATTATAATCC
Statistics
Matches: 36, Mismatches: 14, Indels: 3
0.68 0.26 0.06
Matches are distributed among these distances:
13 8 0.22
14 22 0.61
15 6 0.17
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCCTAACCCT
Found at i:5003707 original size:21 final size:21
Alignment explanation
Indices: 5003683--5003767 Score: 73
Period size: 21 Copynumber: 3.9 Consensus size: 21
5003673 ACTCATAAAC
*
5003683 CTTAAACCCTAAATCATATAT
1 CTTAAACCATAAATCATATAT
* *
5003704 CTTAAACCATAGTTAACTCAAAAAT
1 CTTAAACCATA---AA-TCATATAT
*
5003729 CTTAAACCCTAAA-CTATATAT
1 CTTAAACCATAAATC-ATATAT
*
5003750 CTTAAACCATAAACCATA
1 CTTAAACCATAAATCATA
5003768 AACTATAATG
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
20 1 0.02
21 29 0.57
22 3 0.06
24 2 0.04
25 16 0.31
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.29
Consensus pattern (21 bp):
CTTAAACCATAAATCATATAT
Found at i:5003718 original size:46 final size:46
Alignment explanation
Indices: 5003667--5003760 Score: 154
Period size: 46 Copynumber: 2.0 Consensus size: 46
5003657 CTTCAAATAC
*
5003667 TAGTTAACTCATAAACCTTAAACCCTAAA-TCATATATCTTAAACCA
1 TAGTTAACTCAAAAACCTTAAACCCTAAACT-ATATATCTTAAACCA
*
5003713 TAGTTAACTCAAAAATCTTAAACCCTAAACTATATATCTTAAACCA
1 TAGTTAACTCAAAAACCTTAAACCCTAAACTATATATCTTAAACCA
5003759 TA
1 TA
5003761 AACCATAAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 44 0.98
47 1 0.02
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (46 bp):
TAGTTAACTCAAAAACCTTAAACCCTAAACTATATATCTTAAACCA
Found at i:5003988 original size:43 final size:40
Alignment explanation
Indices: 5003884--5004012 Score: 127
Period size: 43 Copynumber: 3.1 Consensus size: 40
5003874 TGTTTTAGAC
* * * *
5003884 TTTTAGCGGCGTTTT-GCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTAG-TAAAAACGCCGCTATTGCTAT-GT
5003925 TTTTAGCGGCGTTTTAGTAAAAAAACGCCGCTATTGCTATGT
1 TTTTAGCGGCGTTTTAGT--AAAAACGCCGCTATTGCTATGT
* * *
5003967 TTTTAGTGGCGTTTTTGGT-AAAACGCTGCTATTGCTATGT
1 TTTTAGCGGCG-TTTTAGTAAAAACGCCGCTATTGCTATGT
5004007 GTTTTA
1 -TTTTA
5004013 CAATTTTTGC
Statistics
Matches: 76, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
40 20 0.26
41 20 0.26
42 13 0.17
43 23 0.30
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTAGTAAAAACGCCGCTATTGCTATGT
Found at i:5004410 original size:12 final size:12
Alignment explanation
Indices: 5004393--5004418 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5004383 AAAATAGGGC
5004393 TTTAGCGGCGTT
1 TTTAGCGGCGTT
5004405 TTTAGCGGCGTT
1 TTTAGCGGCGTT
5004417 TT
1 TT
5004419 ATCAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:5004497 original size:40 final size:40
Alignment explanation
Indices: 5004444--5004651 Score: 181
Period size: 41 Copynumber: 5.1 Consensus size: 40
5004434 TAAAAATTGT
* *
5004444 AAAACACATAGCAATAGCGGCG-TTTTACAAAAAACGCCAC-A
1 AAAAC-CAGAGCAATAGCGGCGCTTTT-C-AAAAACGCCGCTA
* * *
5004485 AAAACCAGAGCAATAGCGGCGTTTTTTCCTAAAACGCCGCGA
1 AAAACCAGAGCAATAGCGGCG-CTTTT-CAAAAACGCCGCTA
*
5004527 AAAA-CAGAGCATTAGCGGCGCTTTTGGC-AAAACGCCGCTA
1 AAAACCAGAGCAATAGCGGCGCTTTT--CAAAAACGCCGCTA
* * *
5004567 AAAACCAAAGCATTAGCGGCGCTTTTGGAAAAACGCCGCTA
1 AAAACCAGAGCAATAGCGGCGCTTTT-CAAAAACGCCGCTA
* * * **
5004608 AAAACCAGAGCATTAGAGGTGCTTTTGGGAAAACGCCGCTA
1 AAAACCAGAGCAATAGCGGCGCTTTT-CAAAAACGCCGCTA
5004649 AAA
1 AAA
5004652 GTCATATAAC
Statistics
Matches: 147, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
40 35 0.24
41 102 0.69
42 10 0.07
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.17
Consensus pattern (40 bp):
AAAACCAGAGCAATAGCGGCGCTTTTCAAAAACGCCGCTA
Found at i:5004600 original size:81 final size:83
Alignment explanation
Indices: 5004474--5004651 Score: 236
Period size: 82 Copynumber: 2.2 Consensus size: 83
5004464 CGTTTTACAA
* * * *
5004474 AAAACGCCAC-AAAAACCAGAGCAATAGCGGCGTTTTTTCCTAAAACGCCGCGAAAAA-CAGAGC
1 AAAACGCCGCTAAAAACCAAAGCAATAGCGGCGTCTTTTCCAAAAACGCCGCGAAAAACCAGAGC
*
5004537 ATTAGCGGCGCTTTTGGC
66 ATTAGAGGCGCTTTTGGC
* ** *
5004555 AAAACGCCGCTAAAAACCAAAGCATTAGCGGCG-CTTTTGGAAAAACGCCGCTAAAAACCAGAGC
1 AAAACGCCGCTAAAAACCAAAGCAATAGCGGCGTCTTTTCCAAAAACGCCGCGAAAAACCAGAGC
* *
5004619 ATTAGAGGTGCTTTTGGG
66 ATTAGAGGCGCTTTTGGC
5004637 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
5004652 GTCATATAAC
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
81 28 0.33
82 56 0.67
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (83 bp):
AAAACGCCGCTAAAAACCAAAGCAATAGCGGCGTCTTTTCCAAAAACGCCGCGAAAAACCAGAGC
ATTAGAGGCGCTTTTGGC
Found at i:5004824 original size:7 final size:7
Alignment explanation
Indices: 5004809--5004906 Score: 61
Period size: 7 Copynumber: 13.4 Consensus size: 7
5004799 TTAATTATCA
*
5004809 TTATAGT
1 TTATGGT
5004816 TTATGGT
1 TTATGGT
5004823 TTATGGT
1 TTATGGT
* *
5004830 TTAAGAT
1 TTATGGT
*
5004837 ATATGGT
1 TTATGGT
*
5004844 TTAGGGT
1 TTATGGT
*
5004851 TTAAGGT
1 TTATGGT
5004858 TTATGAGT
1 TTATG-GT
5004866 TAACTATGGT
1 T---TATGGT
* *
5004876 TTAAGAT
1 TTATGGT
*
5004883 ATATGGT
1 TTATGGT
*
5004890 TTAGGGT
1 TTATGGT
*
5004897 TTAAGGT
1 TTATGGT
5004904 TTA
1 TTA
5004907 GGAGTTAACT
Statistics
Matches: 69, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
7 59 0.86
8 3 0.04
10 3 0.04
11 4 0.06
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.47
Consensus pattern (7 bp):
TTATGGT
Found at i:5004841 original size:21 final size:21
Alignment explanation
Indices: 5004817--5004901 Score: 98
Period size: 21 Copynumber: 3.9 Consensus size: 21
5004807 CATTATAGTT
*
5004817 TATGGTTTATGGTTTAAGATA
1 TATGGTTTAGGGTTTAAGATA
* *
5004838 TATGGTTTAGGGTTTAAGGTT
1 TATGGTTTAGGGTTTAAGATA
*
5004859 TATGAGTTAACTATGGTTTAAGATA
1 TATG-GTT---TAGGGTTTAAGATA
5004884 TATGGTTTAGGGTTTAAG
1 TATGGTTTAGGGTTTAAG
5004902 GTTTAGGAGT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
21 32 0.60
22 3 0.06
24 3 0.06
25 15 0.28
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (21 bp):
TATGGTTTAGGGTTTAAGATA
Found at i:5004876 original size:46 final size:46
Alignment explanation
Indices: 5004824--5004917 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
5004814 GTTTATGGTT
*
5004824 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
5004870 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
5004916 TA
1 TA
5004918 GTATTTGAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.43
Consensus pattern (46 bp):
TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
Found at i:5005081 original size:7 final size:7
Alignment explanation
Indices: 5004965--5005081 Score: 51
Period size: 7 Copynumber: 16.4 Consensus size: 7
5004955 TTATGATTAA
5004965 TTAGGGT
1 TTAGGGT
*
5004972 TTAATGG-
1 TT-AGGGT
5004979 TTAGGG-
1 TTAGGGT
*
5004985 TTAGAGT
1 TTAGGGT
*
5004992 TTAAGGT
1 TTAGGGT
* *
5004999 GTAAAGGT
1 -TTAGGGT
*
5005007 TTAGCGT
1 TTAGGGT
*
5005014 TAAGGGT
1 TTAGGGT
*
5005021 TAAGGGT
1 TTAGGGT
*
5005028 TAAGGGT
1 TTAGGGT
*
5005035 TTAGAGT
1 TTAGGGT
*
5005042 TTAGTGT
1 TTAGGGT
5005049 TTATGGG-
1 TTA-GGGT
*
5005056 ATAGGGGT
1 TTA-GGGT
*
5005064 TAAGAGGT
1 TTAG-GGT
5005072 TTAGGGT
1 TTAGGGT
5005079 TTA
1 TTA
5005082 AATTAATTAG
Statistics
Matches: 84, Mismatches: 20, Indels: 12
0.72 0.17 0.10
Matches are distributed among these distances:
6 8 0.10
7 58 0.69
8 18 0.21
ACGTcount: A:0.25, C:0.01, G:0.37, T:0.38
Consensus pattern (7 bp):
TTAGGGT
Found at i:5005191 original size:22 final size:22
Alignment explanation
Indices: 5005163--5005216 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
5005153 AAAACAGGTT
*
5005163 TTAAGGGGATACGGGCTAGGCG
1 TTAAGGGGATAAGGGCTAGGCG
*
5005185 TTAAGGGGATAAGGGTTAGGCG
1 TTAAGGGGATAAGGGCTAGGCG
*
5005207 TTAAAGGGAT
1 TTAAGGGGAT
5005217 TGGGGTTAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.43, T:0.22
Consensus pattern (22 bp):
TTAAGGGGATAAGGGCTAGGCG
Found at i:5005222 original size:22 final size:22
Alignment explanation
Indices: 5005163--5005226 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
5005153 AAAACAGGTT
* * *
5005163 TTAAGGGGATACGGGCTAGGCG
1 TTAAAGGGATAAGGGTTAGGCG
*
5005185 TTAAGGGGATAAGGGTTAGGCG
1 TTAAAGGGATAAGGGTTAGGCG
**
5005207 TTAAAGGGATTGGGGTTAGG
1 TTAAAGGGATAAGGGTTAGG
5005227 GGTTTATGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.25, C:0.06, G:0.45, T:0.23
Consensus pattern (22 bp):
TTAAAGGGATAAGGGTTAGGCG
Found at i:5005275 original size:14 final size:14
Alignment explanation
Indices: 5005256--5005312 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
5005246 AATATTTTAA
*
5005256 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
5005270 GGTTTAGGGATTAT
1 GGTTTAGGGATTAT
* *
5005284 -GTGTTAGGGTTTAA
1 GGT-TTAGGGATTAT
*
5005298 GGTTTAGGGGTTAT
1 GGTTTAGGGATTAT
5005312 G
1 G
5005313 TGTTAATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
13 2 0.06
14 32 0.89
15 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:5005310 original size:21 final size:21
Alignment explanation
Indices: 5005251--5005415 Score: 70
Period size: 21 Copynumber: 7.9 Consensus size: 21
5005241 GAGTTAATAT
* * *
5005251 TTTAAGGTTTATGGATTATGG
1 TTTAAGGTTTAGGGGTTAGGG
* * * *
5005272 TTTAGGGATTATGTGTTAGGG
1 TTTAAGGTTTAGGGGTTAGGG
*
5005293 TTTAAGGTTTAGGGGTTA-TG
1 TTTAAGGTTTAGGGGTTAGGG
* * *
5005313 TGTTAA--TTAAGGGTTTAGGT
1 T-TTAAGGTTTAGGGGTTAGGG
* * *
5005333 TTTAAGGGTTAAGGGATATGGG
1 TTTAAGGTTTAGGGGTTA-GGG
* * *
5005355 -TTATGGGTTTAGGGTTTAGGA
1 TTTA-AGGTTTAGGGGTTAGGG
* * *
5005376 TTTAAGATTTAGGGGTAAAGG
1 TTTAAGGTTTAGGGGTTAGGG
*
5005397 -TTAGAGGTTTAGGGTTTAG
1 TTTA-AGGTTTAGGGGTTAG
5005416 ATTAATTAGT
Statistics
Matches: 100, Mismatches: 36, Indels: 16
0.66 0.24 0.11
Matches are distributed among these distances:
19 13 0.13
20 6 0.06
21 67 0.67
22 14 0.14
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (21 bp):
TTTAAGGTTTAGGGGTTAGGG
Found at i:5005371 original size:7 final size:7
Alignment explanation
Indices: 5005322--5005415 Score: 50
Period size: 7 Copynumber: 13.3 Consensus size: 7
5005312 GTGTTAATTA
5005322 AGGGTTT
1 AGGGTTT
*
5005329 AGGTTTT
1 AGGGTTT
*
5005336 AAGGGTTA
1 -AGGGTTT
*
5005344 AGGG-AT
1 AGGGTTT
5005350 ATGGG-TT
1 A-GGGTTT
5005357 ATGGGTTT
1 A-GGGTTT
5005365 AGGGTTT
1 AGGGTTT
*
5005372 AGGATTT
1 AGGGTTT
* *
5005379 AAGATTT
1 AGGGTTT
* *
5005386 AGGGGTA
1 AGGGTTT
*
5005393 AAGG-TT
1 AGGGTTT
5005399 AGAGGTTT
1 AG-GGTTT
5005407 AGGGTTT
1 AGGGTTT
5005414 AG
1 AG
5005416 ATTAATTAGT
Statistics
Matches: 67, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
6 3 0.04
7 52 0.78
8 12 0.18
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.37
Consensus pattern (7 bp):
AGGGTTT
Found at i:5005686 original size:74 final size:72
Alignment explanation
Indices: 5005598--5005811 Score: 293
Period size: 63 Copynumber: 3.0 Consensus size: 72
5005588 TGGCTTCCAA
5005598 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTAAAAAAACGCCACA
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGT-GCGTTTTT-AAAAAACGCCACA
5005663 AAAAACACT
64 AAAAACACT
*
5005672 ATTATAACAAATAAAAATAAATATGAAAATTAAAAGATTA----G-----AAAAAACGCCACAAA
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGCGTTTTTAAAAAACGCCACAAA
5005728 AAACACT
66 AAACACT
* *
5005735 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGCCATTTTTTTTAAAAACGCCAC
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTG-C--GTTTTTAAAAAACGCCAC
5005800 AAAAAACACT
63 AAAAAACACT
5005810 AT
1 AT
5005812 GAAAACGACA
Statistics
Matches: 124, Mismatches: 4, Indels: 23
0.82 0.03 0.15
Matches are distributed among these distances:
63 61 0.49
69 1 0.01
74 39 0.31
75 23 0.19
ACGTcount: A:0.56, C:0.11, G:0.08, T:0.24
Consensus pattern (72 bp):
ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGCGTTTTTAAAAAACGCCACAAA
AAACACT
Found at i:5006786 original size:27 final size:27
Alignment explanation
Indices: 5006756--5006810 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
5006746 ATTTCCACAG
5006756 ATGTAACTGTTTTCCTATACTAAGGCT
1 ATGTAACTGTTTTCCTATACTAAGGCT
5006783 ATGTAACTGTTTTCCTATACTAAGGCT
1 ATGTAACTGTTTTCCTATACTAAGGCT
5006810 A
1 A
5006811 CGATCTTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (27 bp):
ATGTAACTGTTTTCCTATACTAAGGCT
Found at i:5022975 original size:254 final size:254
Alignment explanation
Indices: 5022526--5022996 Score: 703
Period size: 254 Copynumber: 1.9 Consensus size: 254
5022516 TGCAGTGGAC
* *
5022526 ATTAAGATTCTCTTGTTTCGAAGAAATAAAATATCACATCCAGCACGTAGGACATAACATTTCAA
1 ATTAAGATTCTCTTGTTTCGAAGAAATAAAATATCACATCCAACACGTAGGACACAACATTTCAA
*
5022591 ACCTTCGATACCAAAATCATCTCATGATTTCCAAACTTTATGCATTGAAAATTTAAAAAAGATAT
66 ACCTTCGATACCAAAATCATCTCATGATTTCCAAACTTCATGCATTGAAAATTTAAAAAAGATAT
** * * *
5022656 TCGGTAGTTTGGTCAAATGATAAATCGAAACCCAGCACGTAGGGCACAATTTCTCAAAATTTCCA
131 TCGGTAGTTCAGTCAAACGATAAATCGAAACCCAACACGTAGGGCACAATCTCTCAAAATTTCCA
*
5022721 AACACGAAATATTGCCTTGCTTAAAAAAGTCTTGAATAAAAATGCAATAGTATGAAACG
196 AACACGAAATATTACCTTGCTTAAAAAAGTCTTGAATAAAAATGCAATAGTATGAAACG
* * * *
5022780 ATTAAGATTCTCTTGTTTCGAGGAAATAAAATATCACATCCAACACGTAGGGCACGATATTTCAA
1 ATTAAGATTCTCTTGTTTCGAAGAAATAAAATATCACATCCAACACGTAGGACACAACATTTCAA
* ** * *
5022845 ACCTTCGATACGAAAATCATCTCAT-AGTTTCCGAAAC-TCATGTTTTGAAATTTTAAAAAGGAT
66 ACCTTCGATACCAAAATCATCTCATGA-TTTCC-AAACTTCATGCATTGAAAATTTAAAAAAGAT
* * * *
5022908 ATTTGGTTGTTCAGTCAAACGATAAATCGAAACTCAACACGTAGGGCACAATCTCTCGAAATTTC
129 ATTCGGTAGTTCAGTCAAACGATAAATCGAAACCCAACACGTAGGGCACAATCTCTCAAAATTTC
*
5022973 CAAACACGAAATATTACTTTGCTT
194 CAAACACGAAATATTACCTTGCTT
5022997 TGAATAAAAT
Statistics
Matches: 192, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
253 1 0.01
254 187 0.97
255 4 0.02
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (254 bp):
ATTAAGATTCTCTTGTTTCGAAGAAATAAAATATCACATCCAACACGTAGGACACAACATTTCAA
ACCTTCGATACCAAAATCATCTCATGATTTCCAAACTTCATGCATTGAAAATTTAAAAAAGATAT
TCGGTAGTTCAGTCAAACGATAAATCGAAACCCAACACGTAGGGCACAATCTCTCAAAATTTCCA
AACACGAAATATTACCTTGCTTAAAAAAGTCTTGAATAAAAATGCAATAGTATGAAACG
Found at i:5023459 original size:29 final size:29
Alignment explanation
Indices: 5023421--5023502 Score: 121
Period size: 29 Copynumber: 2.9 Consensus size: 29
5023411 CATGAAAGAG
* *
5023421 TTTAACGTAAATAATGTATGAAAAGTAAA
1 TTTAAAGTAAATAATATATGAAAAGTAAA
*
5023450 TTTAAAGTAAGTAATATATGAAAAGTAAA
1 TTTAAAGTAAATAATATATGAAAAGTAAA
*
5023479 TTTAAAATAAATAATATAT-AAAAG
1 TTTAAAGTAAATAATATATGAAAAG
5023503 ATGTATATGT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 5 0.10
29 43 0.90
ACGTcount: A:0.56, C:0.01, G:0.11, T:0.32
Consensus pattern (29 bp):
TTTAAAGTAAATAATATATGAAAAGTAAA
Found at i:5023540 original size:31 final size:30
Alignment explanation
Indices: 5023484--5023550 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
5023474 GTAAATTTAA
* *
5023484 AATAAATA-ATATATAAAAGATGTATATGT
1 AATATATATATATATAAAAGATGTATAGGT
*
5023513 ATATATATATATATATAAAA-TTAGTATAGGT
1 A-ATATATATATATATAAAAGAT-GTATAGGT
5023544 AATATAT
1 AATATAT
5023551 GAACTCTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 1 0.03
30 13 0.41
31 18 0.56
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (30 bp):
AATATATATATATATAAAAGATGTATAGGT
Found at i:5024347 original size:9 final size:9
Alignment explanation
Indices: 5024333--5024366 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
5024323 TAAGCTGAAA
5024333 TTTTTTATT
1 TTTTTTATT
5024342 TTTTTTATT
1 TTTTTTATT
*
5024351 TTTCTTTCTT
1 TTT-TTTATT
5024361 TTTTTT
1 TTTTTT
5024367 TTTACAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTATT
Found at i:5024922 original size:31 final size:31
Alignment explanation
Indices: 5024873--5024933 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
5024863 CTATGCCTTT
*
5024873 TGTTTTCTTGATTCGTTTCTGTTTTTTGCTC
1 TGTTGTCTTGATTCGTTTCTGTTTTTTGCTC
* * *
5024904 TGTTGTCTTGTTTTGTTTCTTTTTTTTGCT
1 TGTTGTCTTGATTCGTTTCTGTTTTTTGCT
5024934 TTCTTTTGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.02, C:0.13, G:0.16, T:0.69
Consensus pattern (31 bp):
TGTTGTCTTGATTCGTTTCTGTTTTTTGCTC
Found at i:5025721 original size:89 final size:89
Alignment explanation
Indices: 5025623--5025870 Score: 288
Period size: 88 Copynumber: 2.8 Consensus size: 89
5025613 CCTTAATTTG
** * * *
5025623 CTCTACTGCAAT-TTCAGAGAGATAAGATCTGTTATTTTCGGTTTGCTCCACTGCAACTTCAGGG
1 CTCTACTGCAATCTTCAGAGAGATAAGATCTG-TAGCTTCGATCTGCTCCACTGCAACTTCAGGA
*
5025687 GGATAAGACTTGTAACTTCAACCTA
65 AGATAAGACTTGTAACTTCAACCTA
* * * * * *
5025712 CTCTACTGC-ATCTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTTCACTGCAACTTTAGGAA
1 CTCTACTGCAATCTTCAGAGAGATAAGATCTGTAGCTTCGATCTGCTCCACTGCAACTTCAGGAA
5025776 GATAAGACTTGTAACTTCAACCTA
66 GATAAGACTTGTAACTTCAACCTA
* * * * * *
5025800 CTCCACTGC-ATCTTTAGGGAGATAAGGT-TAGTGGCTTCGATCTGCTCCACTGCATCTTCAGGA
1 CTCTACTGCAATCTTCAGAGAGATAAGATCT-GTAGCTTCGATCTGCTCCACTGCAACTTCAGGA
5025863 AGATAAGA
65 AGATAAGA
5025871 TTCGCCATCT
Statistics
Matches: 140, Mismatches: 17, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
87 1 0.01
88 114 0.81
89 25 0.18
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (89 bp):
CTCTACTGCAATCTTCAGAGAGATAAGATCTGTAGCTTCGATCTGCTCCACTGCAACTTCAGGAA
GATAAGACTTGTAACTTCAACCTA
Found at i:5025728 original size:44 final size:44
Alignment explanation
Indices: 5025668--5025958 Score: 253
Period size: 44 Copynumber: 6.6 Consensus size: 44
5025658 TTTCGGTTTG
* *
5025668 CTCCACTGCAACTTCAGGGGGATAAGACTTGTAACTTCAACCTA
1 CTCCACTGCATCTTCAGGGAGATAAGACTTGTAACTTCAACCTA
* ** ** * * *
5025712 CTCTACTGCATCTTCAGGGAGATAAGGTTTGTGGCTTCGATCTG
1 CTCCACTGCATCTTCAGGGAGATAAGACTTGTAACTTCAACCTA
* * * *
5025756 CTTCACTGCAACTTTAGGAAGATAAGACTTGTAACTTCAACCTA
1 CTCCACTGCATCTTCAGGGAGATAAGACTTGTAACTTCAACCTA
* * ** * * *
5025800 CTCCACTGCATCTTTAGGGAGATAAG-GTTAGTGGCTTCGATCTG
1 CTCCACTGCATCTTCAGGGAGATAAGACTT-GTAACTTCAACCTA
* * * *** *
5025844 CTCCACTGCATCTTCAGGAAGATAAGA-TTCGCCATCTTCGGTCTG
1 CTCCACTGCATCTTCAGGGAGATAAGACTT-G-TAACTTCAACCTA
* *
5025889 CTCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTCAACCTA
1 CTCCACTGCATCTTCAGGGAGATAAGACTTGTAACTTCAACCTA
* *
5025933 CTCAACTGCATCTTCAGAGAGATAAG
1 CTCCACTGCATCTTCAGGGAGATAAG
5025959 GTCAGTGGCT
Statistics
Matches: 192, Mismatches: 51, Indels: 8
0.76 0.20 0.03
Matches are distributed among these distances:
43 2 0.01
44 154 0.80
45 34 0.18
46 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTGCATCTTCAGGGAGATAAGACTTGTAACTTCAACCTA
Found at i:5025787 original size:88 final size:88
Alignment explanation
Indices: 5025666--5025870 Score: 338
Period size: 88 Copynumber: 2.3 Consensus size: 88
5025656 ATTTTCGGTT
** *
5025666 TGCTCCACTGCAACTTCAGGGGGATAAGACTTGTAACTTCAACCTACTCTACTGCATCTTCAGGG
1 TGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAACCTACTCCACTGCATCTTCAGGG
*
5025731 AGATAAGGTTTGTGGCTTCGATC
66 AGATAAGGTTAGTGGCTTCGATC
* * *
5025754 TGCTTCACTGCAACTTTAGGAAGATAAGACTTGTAACTTCAACCTACTCCACTGCATCTTTAGGG
1 TGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAACCTACTCCACTGCATCTTCAGGG
5025819 AGATAAGGTTAGTGGCTTCGATC
66 AGATAAGGTTAGTGGCTTCGATC
*
5025842 TGCTCCACTGCATCTTCAGGAAGATAAGA
1 TGCTCCACTGCAACTTCAGGAAGATAAGA
5025871 TTCGCCATCT
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 107 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (88 bp):
TGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAACCTACTCCACTGCATCTTCAGGG
AGATAAGGTTAGTGGCTTCGATC
Found at i:5025923 original size:133 final size:133
Alignment explanation
Indices: 5025746--5026016 Score: 416
Period size: 133 Copynumber: 2.0 Consensus size: 133
5025736 AGGTTTGTGG
* * *
5025746 CTTCGATCTGCTTCACTGCAACTTTAGGAAGATAAGACTTGTAACTTCAACCTACTCCACTGCAT
1 CTTCGATCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAACCTACTCAACTGCAT
* * * * * *
5025811 CTTTAGGGAGATAAGGTTAGTGGCTTCGATCTGCTCCACTGCATCTTCAGGAAGATAAGATTCGC
66 CTTCAGAGAGATAAGGTCAGTGGCTTCGATCTACTCCACTGCAACTTCAGGAAGATAAGACTCGC
5025876 CAT
131 CAT
* * *
5025879 CTTCGGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTCAACCTACTCAACTGCAT
1 CTTCGATCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAACCTACTCAACTGCAT
*
5025944 CTTCAGAGAGATAAGGTCAGTGGCTTCGATCTACTTCACTGCAACTTCAGGAAGATAAGACTCGC
66 CTTCAGAGAGATAAGGTCAGTGGCTTCGATCTACTCCACTGCAACTTCAGGAAGATAAGACTCGC
*
5026009 TAT
131 CAT
5026012 CTTCG
1 CTTCG
5026017 TAGTTACAAT
Statistics
Matches: 124, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 124 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (133 bp):
CTTCGATCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAACCTACTCAACTGCAT
CTTCAGAGAGATAAGGTCAGTGGCTTCGATCTACTCCACTGCAACTTCAGGAAGATAAGACTCGC
CAT
Found at i:5025978 original size:44 final size:43
Alignment explanation
Indices: 5025668--5026002 Score: 185
Period size: 44 Copynumber: 7.6 Consensus size: 43
5025658 TTTCGGTTTG
* * * * * *
5025668 CTCCACTGCAACTTCAGGGGGATAA-GACTTGTAACTTCAACCTA
1 CTCCACTGCATCTTCA-GGAGATAAGGTC-TGTAGCTTCGATCTA
* * * *
5025712 CTCTACTGCATCTTCAGGGAGATAAGGTTTGTGGCTTCGATCTG
1 CTCCACTGCATCTTCA-GGAGATAAGGTCTGTAGCTTCGATCTA
* * * * * * *
5025756 CTTCACTGCAACTTTAGGAAGATAA-GACTTGTAACTTCAACCTA
1 CTCCACTGCATCTTCAGG-AGATAAGGTC-TGTAGCTTCGATCTA
* * *
5025800 CTCCACTGCATCTTTAGGGAGATAAGGT-TAGTGGCTTCGATCTG
1 CTCCACTGCATCTTCA-GGAGATAAGGTCT-GTAGCTTCGATCTA
* * * * *
5025844 CTCCACTGCATCTTCAGGAAGATAAGAT-TCGCCATCTTCGGTCTG
1 CTCCACTGCATCTTCAGG-AGATAAGGTCT-G-TAGCTTCGATCTA
* * * * * *
5025889 CTCCACTGTAACTTCAGGGAGATAA-GACTTGTAACTTCAACCTA
1 CTCCACTGCATCTTCA-GGAGATAAGGTC-TGTAGCTTCGATCTA
* * *
5025933 CTCAACTGCATCTTCAGAGAGATAAGGTCAGTGGCTTCGATCTA
1 CTCCACTGCATCTTCAG-GAGATAAGGTCTGTAGCTTCGATCTA
* *
5025977 CTTCACTGCAACTTCAGGAAGATAAG
1 CTCCACTGCATCTTCAGG-AGATAAG
5026003 ACTCGCTATC
Statistics
Matches: 219, Mismatches: 58, Indels: 28
0.72 0.19 0.09
Matches are distributed among these distances:
43 8 0.04
44 172 0.79
45 36 0.16
46 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (43 bp):
CTCCACTGCATCTTCAGGAGATAAGGTCTGTAGCTTCGATCTA
Found at i:5028945 original size:17 final size:17
Alignment explanation
Indices: 5028923--5028956 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
5028913 CATTCAGTGA
5028923 ATTTCTTGCTAAGATAG
1 ATTTCTTGCTAAGATAG
5028940 ATTTCTTGCTAAGATAG
1 ATTTCTTGCTAAGATAG
5028957 TATATCGCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (17 bp):
ATTTCTTGCTAAGATAG
Found at i:5038313 original size:29 final size:29
Alignment explanation
Indices: 5038275--5038356 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
5038265 CATGAAAGAG
* *
5038275 TTTAACGTAAATAATATATGAAAAGTAAA
1 TTTAAAGTAAGTAATATATGAAAAGTAAA
5038304 TTTAAAGTAAGTAATATATGAAAAGTAAA
1 TTTAAAGTAAGTAATATATGAAAAGTAAA
5038333 TTTAAAGTAAGTAATATAT-AAAAG
1 TTTAAAGTAAGTAATATATGAAAAG
5038357 ATGTATATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 5 0.10
29 46 0.90
ACGTcount: A:0.55, C:0.01, G:0.12, T:0.32
Consensus pattern (29 bp):
TTTAAAGTAAGTAATATATGAAAAGTAAA
Found at i:5038317 original size:15 final size:15
Alignment explanation
Indices: 5038297--5038346 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
5038287 AATATATGAA
5038297 AAGTAAATTTAAAGT
1 AAGTAAATTTAAAGT
* *
5038312 AAGTAATATATGAA--
1 AAGTAA-ATTTAAAGT
5038326 AAGTAAATTTAAAGT
1 AAGTAAATTTAAAGT
5038341 AAGTAA
1 AAGTAA
5038347 TATATAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 5 0.18
14 6 0.21
15 12 0.43
16 5 0.18
ACGTcount: A:0.56, C:0.00, G:0.14, T:0.30
Consensus pattern (15 bp):
AAGTAAATTTAAAGT
Found at i:5038606 original size:3 final size:3
Alignment explanation
Indices: 5038598--5038636 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
5038588 ATATATGTAC
5038598 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5038637 GAAAGAATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:5039491 original size:18 final size:18
Alignment explanation
Indices: 5039458--5039493 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
5039448 GGTAAGTTTC
5039458 CTTTTCCCTTTCTTTTTT
1 CTTTTCCCTTTCTTTTTT
5039476 CTTTGTCCCTTT-TTTTTT
1 CTTT-TCCCTTTCTTTTTT
5039494 ATTTAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.00, C:0.25, G:0.03, T:0.72
Consensus pattern (18 bp):
CTTTTCCCTTTCTTTTTT
Found at i:5039767 original size:31 final size:31
Alignment explanation
Indices: 5039718--5039778 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
5039708 CTATGCCTTT
*
5039718 TGTTTTCTTGCTTCGTTTCTGCTTTTTGCTC
1 TGTTGTCTTGCTTCGTTTCTGCTTTTTGCTC
* * **
5039749 TGTTGTCTTGTTTTGTTTCTTTTTTTTGCT
1 TGTTGTCTTGCTTCGTTTCTGCTTTTTGCT
5039779 TTCTTTTGCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.16, T:0.67
Consensus pattern (31 bp):
TGTTGTCTTGCTTCGTTTCTGCTTTTTGCTC
Found at i:5047607 original size:55 final size:57
Alignment explanation
Indices: 5047546--5047653 Score: 130
Period size: 57 Copynumber: 1.9 Consensus size: 57
5047536 TGGCATCAAT
* *
5047546 ATATGTG-T-GCGAGTAAGACCACGTTTAATACATTGGCACCGATATGTGATTTTCA
1 ATATGTGTTCGCGAGTAAGACCACGTCTAAGACATTGGCACCGATATGTGATTTTCA
* * * ** *
5047601 ATATGTGTTCTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATT
1 ATATGTGTTCGCGAGTAAGACCACGTCTAAGACATTGGCACCGATATGTGATT
5047654 ACGTGTAAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
55 7 0.16
56 1 0.02
57 35 0.81
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (57 bp):
ATATGTGTTCGCGAGTAAGACCACGTCTAAGACATTGGCACCGATATGTGATTTTCA
Found at i:5047662 original size:43 final size:43
Alignment explanation
Indices: 5047612--5047768 Score: 210
Period size: 43 Copynumber: 3.7 Consensus size: 43
5047602 TATGTGTTCT
5047612 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTA
* * *
5047655 CGTGTAAGACCATATCTGGGACATTGACATCG-TATTTGATT-
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTA
* * * *
5047696 CGTGTAAGACCCTGTCTGGGATAGTGGGATCGATATGTGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTA
* * *
5047739 CATGTAAGACCATGCCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
5047769 TGTACGATAT
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
41 26 0.27
42 16 0.17
43 53 0.56
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTA
Found at i:5047940 original size:16 final size:16
Alignment explanation
Indices: 5047921--5047951 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5047911 TGGCTATTTG
5047921 GTATATGATACAAATT
1 GTATATGATACAAATT
*
5047937 GTATATGATGCAAAT
1 GTATATGATACAAAT
5047952 GAATATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (16 bp):
GTATATGATACAAATT
Found at i:5053243 original size:6 final size:6
Alignment explanation
Indices: 5053232--5053318 Score: 60
Period size: 6 Copynumber: 15.0 Consensus size: 6
5053222 AGACAACCTA
* *
5053232 ATTTTT ATTTTT ATTTATT -TTATT ATTTTT A--TTT A-TTTT ATTATT
1 ATTTTT ATTTTT ATTT-TT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
* * *
5053277 ATTCTATT -TTTTT ATTATT ATTTTT -CTTTT ATTATT ATTTTT
1 ATT-T-TT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
5053319 TGGATATTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
4 4 0.06
5 12 0.19
6 41 0.65
7 4 0.06
8 2 0.03
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:5053275 original size:3 final size:3
Alignment explanation
Indices: 5053236--5053315 Score: 53
Period size: 3 Copynumber: 27.7 Consensus size: 3
5053226 AACCTAATTT
* *
5053236 TTA TTT TTA TTTA TT- TTA TTA TTT TTA TTTA TT- TTA TTA TTA TT-
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * * *
5053280 CTA TT- TTT TTA TTA TTA TTT TTC TT- TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5053316 TTTTGGATAT
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
2 9 0.15
3 46 0.75
4 6 0.10
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (3 bp):
TTA
Found at i:5053319 original size:18 final size:19
Alignment explanation
Indices: 5053236--5053316 Score: 109
Period size: 18 Copynumber: 4.5 Consensus size: 19
5053226 AACCTAATTT
5053236 TTATT-TTTATTTATTTTA
1 TTATTATTTATTTATTTTA
5053254 TTATT-TTTATTTATTTTA
1 TTATTATTTATTTATTTTA
5053272 TTATTATTCTATTT-TTTTA
1 TTATTATT-TATTTATTTTA
*
5053291 TTATTA-TT-TTTCTTTTA
1 TTATTATTTATTTATTTTA
5053308 TTATTATTT
1 TTATTATTT
5053317 TTTGGATATT
Statistics
Matches: 59, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.05
17 12 0.20
18 26 0.44
19 13 0.22
20 5 0.08
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (19 bp):
TTATTATTTATTTATTTTA
Found at i:5054564 original size:99 final size:98
Alignment explanation
Indices: 5054402--5054581 Score: 274
Period size: 99 Copynumber: 1.8 Consensus size: 98
5054392 TGTGTTGAGT
* * *
5054402 TGAGTAACGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGTTCGAAATATTCTTA
1 TGAGTAACGAGGTGAGGTGCTTGGCTGTAATCTCTCATCACGTCAAAAGGTTCGAAATATTCTTA
5054467 AG-AAAAATATAATAAATTAGAAGTATGTTGGGC
66 AGCAAAAATA-AATAAATTAGAAGTATGTTGGGC
* *
5054500 TGAGTAACTGAGGTGGGGTGCTTGGCTGTAATCTCTCATCGCGTCAAAAGGTTC-AATATATTCT
1 TGAGTAAC-GAGGTGAGGTGCTTGGCTGTAATCTCTCATCACGTCAAAAGGTTCGAA-ATATTCT
5054564 TAAGCAAAAATAAATAAA
64 TAAGCAAAAATAAATAAA
5054582 AAAATTTAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
98 10 0.14
99 57 0.77
100 7 0.09
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (98 bp):
TGAGTAACGAGGTGAGGTGCTTGGCTGTAATCTCTCATCACGTCAAAAGGTTCGAAATATTCTTA
AGCAAAAATAAATAAATTAGAAGTATGTTGGGC
Found at i:5055993 original size:18 final size:18
Alignment explanation
Indices: 5055970--5056004 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5055960 TATTCTCTAT
5055970 TTTAATTTTCGCAATTTA
1 TTTAATTTTCGCAATTTA
*
5055988 TTTAATTTTTGCAATTT
1 TTTAATTTTCGCAATTT
5056005 CAATCAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.60
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:5060710 original size:2 final size:2
Alignment explanation
Indices: 5060703--5060730 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5060693 TTAAAACACA
5060703 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
5060731 CAATTAGAGT
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:5063060 original size:30 final size:30
Alignment explanation
Indices: 5063026--5063084 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
5063016 ATAAATTTGT
*
5063026 ACCACATGCTATTTATATTAAAATATGTTC
1 ACCACATGCTATTTACATTAAAATATGTTC
*
5063056 ACCACATTCTATTTACATTAAAATATGTT
1 ACCACATGCTATTTACATTAAAATATGTT
5063085 GAACTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (30 bp):
ACCACATGCTATTTACATTAAAATATGTTC
Found at i:5075981 original size:13 final size:13
Alignment explanation
Indices: 5075965--5075995 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
5075955 TATCTAAATA
*
5075965 TATTTAAAATCTT
1 TATTAAAAATCTT
5075978 TATTAAAAATCTT
1 TATTAAAAATCTT
5075991 TATTA
1 TATTA
5075996 TAATGATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (13 bp):
TATTAAAAATCTT
Found at i:5077221 original size:18 final size:18
Alignment explanation
Indices: 5077195--5077235 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
5077185 AAGACACCGT
*
5077195 TATTATTATCATTGTCAC
1 TATTATTATCATTATCAC
* *
5077213 TATTTTTATTATTATCAC
1 TATTATTATCATTATCAC
5077231 TATTA
1 TATTA
5077236 CCATTATATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTATTATCATTATCAC
Found at i:5079092 original size:13 final size:13
Alignment explanation
Indices: 5079074--5079098 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5079064 TTTTTTTTTT
5079074 AAAAAATGGTTAA
1 AAAAAATGGTTAA
5079087 AAAAAATGGTTA
1 AAAAAATGGTTA
5079099 CGACAGCTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (13 bp):
AAAAAATGGTTAA
Found at i:5090286 original size:87 final size:87
Alignment explanation
Indices: 5090195--5090448 Score: 327
Period size: 87 Copynumber: 2.9 Consensus size: 87
5090185 CAGATTGAAG
5090195 ATTTATAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGACGAGTCTTAAACCCCT
1 ATTTATAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGACGAGTCTTAAACCCCT
5090260 AAGCAGTAGGGTAACAGGCTAA
66 AAGCAGTAGGGTAACAGGCTAA
* * * * * *
5090282 ATTTACAGATCTTAACCTCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGAGCCTTAAACCCCT
1 ATTTATAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGACGAGTCTTAAACCCCT
5090347 AAGCAGTAGGGTAACAGGCTAA
66 AAGCAGTAGGGTAACAGGCTAA
* * * * ** *
5090369 ATTT-TCAGATCTTAAACCCCTAAGAAGTAGGGTAACGGGCT-AA-ATTTAC-AGATCTTAAACC
1 ATTTAT-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATTGAAGA-TGACGAG-TCTTAAACC
*
5090430 CCTAAGCAGTAGGGAAACA
63 CCTAAGCAGTAGGGTAACA
5090449 AATCAATGAT
Statistics
Matches: 144, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
85 2 0.01
86 30 0.21
87 112 0.78
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (87 bp):
ATTTATAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGACGAGTCTTAAACCCCT
AAGCAGTAGGGTAACAGGCTAA
Found at i:5090309 original size:43 final size:43
Alignment explanation
Indices: 5090195--5090448 Score: 264
Period size: 43 Copynumber: 5.9 Consensus size: 43
5090185 CAGATTGAAG
* * **
5090195 ATTTATAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATTGAA
1 ATTTACAGATCTTAAACCCCTAAGCAGTAGGGAAACAGGCT-AA
* *
5090239 GA-TGAC-GAGTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAA
1 -ATTTACAGA-TCTTAAACCCCTAAGCAGTAGGGAAACAGGCTAA
* *
5090282 ATTTACAGATCTT-AACCTCCTAAGCAGTAGGGAAACAGATCGAA
1 ATTTACAGATCTTAAACC-CCTAAGCAGTAGGGAAACAG-GCTAA
** * * * *
5090326 GGTGA-TGAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAA
1 ATTTACAGA-TCTTAAACCCCTAAGCAGTAGGGAAACAGGCTAA
* * * *
5090369 ATTTTCAGATCTTAAACCCCTAAGAAGTAGGGTAACGGGCTAA
1 ATTTACAGATCTTAAACCCCTAAGCAGTAGGGAAACAGGCTAA
5090412 ATTTACAGATCTTAAACCCCTAAGCAGTAGGGAAACA
1 ATTTACAGATCTTAAACCCCTAAGCAGTAGGGAAACA
5090449 AATCAATGAT
Statistics
Matches: 171, Mismatches: 30, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
42 5 0.03
43 100 0.58
44 61 0.36
45 5 0.03
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (43 bp):
ATTTACAGATCTTAAACCCCTAAGCAGTAGGGAAACAGGCTAA
Found at i:5090439 original size:130 final size:130
Alignment explanation
Indices: 5090248--5090494 Score: 399
Period size: 130 Copynumber: 1.9 Consensus size: 130
5090238 AGATGACGAG
*
5090248 TCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCTCCTAAGCAGTAGG
1 TCTTAAACCCCTAAGAAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCTCCTAAGCAGTAGG
* * **
5090313 GAAACAGATCGAA-GGTGATGAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTTCAG
66 GAAACAAATC-AATGATGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTTCAG
5090377 A
130 A
*
5090378 TCTTAAACCCCTAAGAAGTAGGGTAACGGGCTAAATTTACAGATCTTAAACC-CCTAAGCAGTAG
1 TCTTAAACCCCTAAGAAGTAGGGTAACAGGCTAAATTTACAGATCTT-AACCTCCTAAGCAGTAG
*
5090442 GGAAACAAATCAATGATGACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGG
65 GGAAACAAATCAATGATGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGG
5090495 TTGAAAATCA
Statistics
Matches: 108, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
129 2 0.02
130 102 0.94
131 4 0.04
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (130 bp):
TCTTAAACCCCTAAGAAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCTCCTAAGCAGTAGG
GAAACAAATCAATGATGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTTCAGA
Found at i:5091960 original size:18 final size:18
Alignment explanation
Indices: 5091934--5091974 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
5091924 AAGACACCGT
*
5091934 TATTATTATCATTGTCAC
1 TATTATTATCATTATCAC
* *
5091952 TATTTTTATTATTATCAC
1 TATTATTATCATTATCAC
5091970 TATTA
1 TATTA
5091975 CCATTATATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTATTATCATTATCAC
Found at i:5093832 original size:13 final size:13
Alignment explanation
Indices: 5093814--5093839 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5093804 TTTTTTTTTT
5093814 AAAAAAATGGTTA
1 AAAAAAATGGTTA
5093827 AAAAAAATGGTTA
1 AAAAAAATGGTTA
5093840 CGACAATAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (13 bp):
AAAAAAATGGTTA
Found at i:5094918 original size:36 final size:37
Alignment explanation
Indices: 5094869--5094943 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 37
5094859 TAGTCAAACC
5094869 TAAAAAAATATATTTAATATAAAATTAAACTTAAAAT
1 TAAAAAAATATATTTAATATAAAATTAAACTTAAAAT
*
5094906 TAAAAAAA-ATATTTAATATAAATTTAAACTTAAAAT
1 TAAAAAAATATATTTAATATAAAATTAAACTTAAAAT
5094942 TA
1 TA
5094944 GAAATATGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 29 0.78
37 8 0.22
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (37 bp):
TAAAAAAATATATTTAATATAAAATTAAACTTAAAAT
Found at i:5102403 original size:3 final size:3
Alignment explanation
Indices: 5102395--5102541 Score: 161
Period size: 3 Copynumber: 48.0 Consensus size: 3
5102385 TAATTTAACA
* *
5102395 TAT TAT TAT TAT TCT TAT TAAT GTAT TAT TAT TAC TAT TCAT TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT TAT TAT T-AT TAT TAT
* * * * *
5102443 TAC CAT TAT TAT TAC TAT TAT CAT TAC TA- TATT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* * *
5102488 TAT TAT TAT TAT TAT TAT TAT TAT TCT TAT TCT TAT TAT TCT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5102536 TAT TAT
1 TAT TAT
5102542 ATTTTTCTTT
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
2 2 0.02
3 108 0.90
4 9 0.08
5 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:5102659 original size:18 final size:20
Alignment explanation
Indices: 5102631--5102677 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
5102621 CTCACTGGTT
5102631 ATTATTATTA-TACTAATT-TG
1 ATTA-TATTATTACT-ATTATG
5102651 A-TATATTATTACTATTATG
1 ATTATATTATTACTATTATG
5102670 ATTATATT
1 ATTATATT
5102678 CCTATTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 8 0.33
19 9 0.38
20 7 0.29
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (20 bp):
ATTATATTATTACTATTATG
Found at i:5108961 original size:21 final size:21
Alignment explanation
Indices: 5108935--5108975 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5108925 ATCTGCTCAA
* *
5108935 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
5108956 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
5108976 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:5112672 original size:2 final size:2
Alignment explanation
Indices: 5112665--5112689 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5112655 AACAAAATTT
5112665 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
5112690 CAATTAGAAT
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:5114187 original size:35 final size:35
Alignment explanation
Indices: 5114141--5114211 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
5114131 AGAAGGTACC
5114141 TCAAGATATAGTCTCGTTAATCTGGTCAAAAAATT
1 TCAAGATATAGTCTCGTTAATCTGGTCAAAAAATT
5114176 TCAAGATATAGTCTCGTTAATCTGGTCAAAAAATT
1 TCAAGATATAGTCTCGTTAATCTGGTCAAAAAATT
5114211 T
1 T
5114212 ATCTGGAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (35 bp):
TCAAGATATAGTCTCGTTAATCTGGTCAAAAAATT
Found at i:5115165 original size:17 final size:17
Alignment explanation
Indices: 5115131--5115165 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5115121 TGAACATCTC
*
5115131 TAATAATAAAGATTTAA
1 TAATAATAAAGATCTAA
*
5115148 TAATAATAAATATCTAA
1 TAATAATAAAGATCTAA
5115165 T
1 T
5115166 TAAAACTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (17 bp):
TAATAATAAAGATCTAA
Found at i:5115703 original size:30 final size:30
Alignment explanation
Indices: 5115669--5115726 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5115659 AATTTGTACC
* * *
5115669 ACATGCTATTTGTATTAAAATGTGTTGACA
1 ACATGCTATTTATATAAAAATATGTTGACA
5115699 ACATGCTATTTATATAAAAATATGTTGA
1 ACATGCTATTTATATAAAAATATGTTGA
5115727 ACTAATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.40
Consensus pattern (30 bp):
ACATGCTATTTATATAAAAATATGTTGACA
Found at i:5115969 original size:55 final size:55
Alignment explanation
Indices: 5115903--5116023 Score: 172
Period size: 55 Copynumber: 2.2 Consensus size: 55
5115893 TATAGATAAA
* * *
5115903 ATATTATTAATTTATAATTATTCATCATAAAAATTAATAAATTTATTAATATGTT
1 ATATTATTAATTTATAAATATTCATCATAAAAACTAATAAATTTATTAATATATT
* * *
5115958 ATATTATTAATTTATAAATATTTATCTTTAAAACTAATAAATTTATTAATATATT
1 ATATTATTAATTTATAAATATTCATCATAAAAACTAATAAATTTATTAATATATT
5116013 ATGA-TATTAAT
1 AT-ATTATTAAT
5116024 GAAGTTTTCA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 58 0.98
56 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (55 bp):
ATATTATTAATTTATAAATATTCATCATAAAAACTAATAAATTTATTAATATATT
Found at i:5121512 original size:30 final size:31
Alignment explanation
Indices: 5121442--5121512 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
5121432 ATTTATAAAA
*
5121442 TTTTAAATTAATAATAAAAATTATATTTTAACC
1 TTTTAAA--AATAATAAAAATTATAATTTAACC
* *
5121475 TTCTAAAAATAATAAAAATT-TAATTTAATC
1 TTTTAAAAATAATAAAAATTATAATTTAACC
5121505 TTTTAAAA
1 TTTTAAAA
5121513 TTATAAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 15 0.44
31 13 0.38
33 6 0.18
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.44
Consensus pattern (31 bp):
TTTTAAAAATAATAAAAATTATAATTTAACC
Found at i:5122618 original size:35 final size:35
Alignment explanation
Indices: 5122578--5122652 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
5122568 TCGGTTCTGA
5122578 ATTATTGAAGTCTCTCTACTTCCTTTCATTGCTTC
1 ATTATTGAAGTCTCTCTACTTCCTTTCATTGCTTC
*
5122613 ATTATTGAAGTCTTTCTACTTCCTTTCATTGCTTC
1 ATTATTGAAGTCTCTCTACTTCCTTTCATTGCTTC
5122648 ATTAT
1 ATTAT
5122653 CATTTCTACT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.19, C:0.23, G:0.08, T:0.51
Consensus pattern (35 bp):
ATTATTGAAGTCTCTCTACTTCCTTTCATTGCTTC
Found at i:5124793 original size:3 final size:3
Alignment explanation
Indices: 5124785--5124880 Score: 88
Period size: 3 Copynumber: 32.0 Consensus size: 3
5124775 AGGTAAAAAT
* * *
5124785 ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA GTA ATA ATG ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
5124833 A-A GTA ATAA ATC ATA ATG ATA ATA ATG ACA ATA AT- ATA AGTA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
5124878 ATA
1 ATA
5124881 TAAGTAAATA
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
2 3 0.04
3 66 0.88
4 6 0.08
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:5124881 original size:12 final size:12
Alignment explanation
Indices: 5124777--5124887 Score: 65
Period size: 12 Copynumber: 9.3 Consensus size: 12
5124767 AGATTAATAG
*
5124777 GTAAAAATATAA
1 GTAATAATATAA
5124789 -TAATAATAATAA
1 GTAATAAT-ATAA
5124801 -TAATAATA-ATA
1 GTAATAATATA-A
* *
5124812 GTAGTAATA-AT
1 GTAATAATATAA
5124823 GATAATAATA-AA
1 G-TAATAATATAA
5124835 GTAATAAATCATAA
1 GTAAT-AAT-ATAA
* *
5124849 -TGATAATA-AT
1 GTAATAATATAA
*
5124859 GACAATAATATAA
1 G-TAATAATATAA
5124872 GTAATAATATAA
1 GTAATAATATAA
5124884 GTAA
1 GTAA
5124888 ATACAGAGAG
Statistics
Matches: 78, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
10 2 0.03
11 14 0.18
12 54 0.69
13 6 0.08
14 2 0.03
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (12 bp):
GTAATAATATAA
Found at i:5124998 original size:3 final size:3
Alignment explanation
Indices: 5124990--5125081 Score: 84
Period size: 3 Copynumber: 31.7 Consensus size: 3
5124980 TGGAAAACAG
* * * * *
5124990 TAA TAA TAA T-A TAT TAA TAA GAA CAA -AA -AA TAA T-A TAT TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
5125034 TAA CGA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5125080 TA
1 TA
5125082 GTAGTAGTAG
Statistics
Matches: 73, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
2 8 0.11
3 63 0.86
4 2 0.03
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:5125125 original size:27 final size:28
Alignment explanation
Indices: 5125095--5125151 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
5125085 GTAGTAGTAG
* * *
5125095 AAATATACAATATATA-GTATTAGAGAT
1 AAATACACAATATATACATATTAGAAAT
*
5125122 AAATACATAATATATACATATTAGAAAT
1 AAATACACAATATATACATATTAGAAAT
5125150 AA
1 AA
5125152 TCATAATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (28 bp):
AAATACACAATATATACATATTAGAAAT
Found at i:5125127 original size:25 final size:27
Alignment explanation
Indices: 5125092--5125151 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
5125082 GTAGTAGTAG
*
5125092 TAGAAAT--ATAC-AATATATA-GTAT
1 TAGAAATAAATACAAATATATACATAT
*
5125115 TAGAGATAAATACATAATATATACATAT
1 TAGAAATAAATACA-AATATATACATAT
5125143 TAGAAATAA
1 TAGAAATAA
5125152 TCATAATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 6 0.21
25 4 0.14
27 8 0.28
28 11 0.38
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (27 bp):
TAGAAATAAATACAAATATATACATAT
Done.