Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold242
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: 756895
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 4
Found at i:200578 original size:88 final size:88
Alignment explanation
Indices: 200423--200606 Score: 343
Period size: 88 Copynumber: 2.1 Consensus size: 88
200413 TTAAGAAGCC
* *
200423 TTTGAT-AAGGTCAAATGTTATCTATCAAGCCCACTAGTATTGGTACCACCGATGCTTGGTTGAC
1 TTTGATAAAGGTCAAACGTTATCTATCAAGCCCACTAGTATTGGTACCACCGATGCTTGGTCGAC
200487 CTTTAATCCTTTATTTGGCAGTA
66 CTTTAATCCTTTATTTGGCAGTA
200510 TTTGATAAAGGTCAAACGTTATCTATCAAGCCCACTAGTATTGGTACCACCGATGCTTGGTCGAC
1 TTTGATAAAGGTCAAACGTTATCTATCAAGCCCACTAGTATTGGTACCACCGATGCTTGGTCGAC
200575 CTTTAATCCTTTATTTGGCAGTA
66 CTTTAATCCTTTATTTGGCAGTA
200598 TTTGATAAA
1 TTTGATAAA
200607 TCCATAGGTT
Statistics
Matches: 94, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
87 6 0.06
88 88 0.94
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (88 bp):
TTTGATAAAGGTCAAACGTTATCTATCAAGCCCACTAGTATTGGTACCACCGATGCTTGGTCGAC
CTTTAATCCTTTATTTGGCAGTA
Found at i:204414 original size:63 final size:61
Alignment explanation
Indices: 204308--204439 Score: 169
Period size: 63 Copynumber: 2.1 Consensus size: 61
204298 AATGGCATCC
* * *
204308 TTTCTTT-CAAAGCCCACAACTTCGTGGCACCTTTTTAAATCCACCACTTCGTGGCACCTT
1 TTTCTTTCCAAAGCCCACAACTTCGTGGCACCTTTTTAAATCCACAACTCCATGGCACCTT
* *
204368 TTTCTTTCCAAAAGCCTACAA-TTCTGTGGCACCCTTTTTAAGTCCACAACTCCATGGCACCTT
1 TTTCTTTCC-AAAGCCCACAACTTC-GTGGCA-CCTTTTTAAATCCACAACTCCATGGCACCTT
*
204431 TTTTTTTCC
1 TTTCTTTCC
204440 CCAAAAACCC
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
60 7 0.11
61 4 0.06
62 16 0.26
63 35 0.56
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.36
Consensus pattern (61 bp):
TTTCTTTCCAAAGCCCACAACTTCGTGGCACCTTTTTAAATCCACAACTCCATGGCACCTT
Found at i:204626 original size:18 final size:18
Alignment explanation
Indices: 204603--204638 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
204593 CCAGAACTCT
*
204603 GTGGCACCTTTTTAAGTC
1 GTGGCACCCTTTTAAGTC
204621 GTGGCACCCTTTTAAGTC
1 GTGGCACCCTTTTAAGTC
204639 TAGAACTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (18 bp):
GTGGCACCCTTTTAAGTC
Found at i:204694 original size:31 final size:31
Alignment explanation
Indices: 204659--204740 Score: 137
Period size: 31 Copynumber: 2.6 Consensus size: 31
204649 TGGCACTTTC
204659 TCCTTCTAAAGCCCACACAAGTCGATGGCAA
1 TCCTTCTAAAGCCCACACAAGTCGATGGCAA
204690 TCCTTCTAAAGCCCACACAAGTCGATGGCAA
1 TCCTTCTAAAGCCCACACAAGTCGATGGCAA
* *
204721 TCCTCTCAAAAGCCTACACA
1 TCCT-TCTAAAGCCCACACA
204741 CAGTGGCATC
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
31 35 0.73
32 13 0.27
ACGTcount: A:0.33, C:0.34, G:0.13, T:0.20
Consensus pattern (31 bp):
TCCTTCTAAAGCCCACACAAGTCGATGGCAA
Found at i:204895 original size:52 final size:51
Alignment explanation
Indices: 204834--205128 Score: 261
Period size: 52 Copynumber: 5.5 Consensus size: 51
204824 ATGGTGTTGG
*
204834 CCTTGAATCAGCACATTGGCACCTTTTTCTTTTGTAAGTCCAATATCGCTGA
1 CCTTGAATCAGCATATTGGCACCTTTTTCTTTT-TAAGTCCAATATCGCTGA
* * * * * *
204886 CCTTCAATCAACGTATTGGCACCTTTGTTATTTTTAAGTCTAATATCGCTGG
1 CCTTGAATCAGCATATTGGCACCTTT-TTCTTTTTAAGTCCAATATCGCTGA
* * * * *
204938 CCTTGAATCAGCATATTGGCA-TTTTTATCACTCTTAAGCCCAATATCGTTGA
1 CCTTGAATCAGCATATTGGCACCTTTT-TC-TTTTTAAGTCCAATATCGCTGA
* * * * *
204990 CCTAGAATTAGCATATTGGCACCTTTCTTATTCTTCTCATCTTTAAGTCCAATGTCACTGG
1 CCTTGAATCAGCATATTGGCA-C---C-T-TT-TTCT--T-TTTAAGTCCAATATCGCTGA
* * *
205051 CCTTGAATCAGCACATTAGCACCTTTTTCTTTCTTAAGTCTAATATCGCTGA
1 CCTTGAATCAGCATATTGGCACCTTTTTCTTT-TTAAGTCCAATATCGCTGA
205103 CCTTGAATCAGCATATTGGCA-CTTTT
1 CCTTGAATCAGCATATTGGCACCTTTT
205129 CTCATTCTTC
Statistics
Matches: 190, Mismatches: 38, Indels: 31
0.73 0.15 0.12
Matches are distributed among these distances:
50 1 0.01
51 10 0.05
52 126 0.66
53 6 0.03
54 4 0.02
55 2 0.01
56 1 0.01
57 1 0.01
58 1 0.01
59 4 0.02
60 3 0.02
61 31 0.16
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (51 bp):
CCTTGAATCAGCATATTGGCACCTTTTTCTTTTTAAGTCCAATATCGCTGA
Found at i:205085 original size:61 final size:60
Alignment explanation
Indices: 204971--205191 Score: 199
Period size: 61 Copynumber: 3.8 Consensus size: 60
204961 TTTATCACTC
* * * * * *
204971 TTAAGCCCAATATCGTTGACCTAGAATTAGCATATTGGCACCTTTCTTATTCTTCTCATCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TTATTCTTCTCATCT
* * *
205032 TTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTAGCACC--TTT-TTC-T-T--TC-
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTATTCTTCTCATCT
* * *
205084 TTAAGTCTAATATCGCTGACCTTGAATCAGCATATTGGCA-CTTTTCTCATTCTTCTCATCT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTT-T-ATTCTTCTCATCT
* * * * *
205145 TTAAGTCCAATGTTGCTGGCCTTGAGTTAACATATTGGCATCTTTTT
1 TTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTT
205192 TTGTCTTAAG
Statistics
Matches: 127, Mismatches: 22, Indels: 22
0.74 0.13 0.13
Matches are distributed among these distances:
51 1 0.01
52 34 0.27
53 4 0.03
54 1 0.01
55 1 0.01
56 4 0.03
57 4 0.03
58 3 0.02
59 1 0.01
60 2 0.02
61 67 0.53
62 5 0.04
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.40
Consensus pattern (60 bp):
TTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTATTCTTCTCATCT
Found at i:205116 original size:113 final size:112
Alignment explanation
Indices: 204918--205221 Score: 376
Period size: 113 Copynumber: 2.7 Consensus size: 112
204908 CTTTGTTATT
* * * ** * *
204918 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCATTTTTATCACTCTTAAGCCCAATA
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTT-TCTTTCTTAAGTCTAATA
* * * *
204983 TCGTTGACCTAGAATTAGCATATTGGCACCTTTCTTATTCTTCTCATC
65 TCGCTGACCTTGAATCAGCATATTGGCACCTTTCTCATTCTTCTCATC
* * *
205031 TTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTAGCACCTTTTTCTTTCTTAAGTCTAATA
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CTTTTTCTTTCTTAAGTCTAATA
*
205096 TCGCTGACCTTGAATCAGCATATTGGCACTTTTCTCATTCTTCTCATC
65 TCGCTGACCTTGAATCAGCATATTGGCACCTTTCTCATTCTTCTCATC
* * * * *
205144 TTTAAGTCCAATGTTGCTGGCCTTGAGTTAACATATTGGCATCTTTTT-TTGTCTTAAGTCTACT
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CTTTTTCTT-TCTTAAGTCTAAT
*
205208 ATCGCTGGCCTTGA
64 ATCGCTGACCTTGA
205222 GGCGCATTGG
Statistics
Matches: 164, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
112 2 0.01
113 158 0.96
114 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (112 bp):
TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTTTTTCTTTCTTAAGTCTAATAT
CGCTGACCTTGAATCAGCATATTGGCACCTTTCTCATTCTTCTCATC
Found at i:211640 original size:13 final size:13
Alignment explanation
Indices: 211622--211660 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
211612 ACATTTTTTT
211622 TTGTATCGATACA
1 TTGTATCGATACA
211635 TTGTATCGATACA
1 TTGTATCGATACA
*
211648 CTGTATCGATACA
1 TTGTATCGATACA
211661 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:211806 original size:21 final size:20
Alignment explanation
Indices: 211782--211828 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
211772 AAATCTTTTG
211782 CAAAATAC-TTGTTTTTCACTT
1 CAAAATACTTTGTTTTTCA--T
*
211803 CAAATTACTTTGTTTTTCAT
1 CAAAATACTTTGTTTTTCAT
211823 CAAAAT
1 CAAAAT
211829 CAGCTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 7 0.30
22 10 0.43
ACGTcount: A:0.32, C:0.17, G:0.04, T:0.47
Consensus pattern (20 bp):
CAAAATACTTTGTTTTTCAT
Found at i:214255 original size:13 final size:13
Alignment explanation
Indices: 214237--214262 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
214227 TACACCAAGT
214237 ATGTATCGATACA
1 ATGTATCGATACA
214250 ATGTATCGATACA
1 ATGTATCGATACA
214263 TCAAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:215105 original size:52 final size:51
Alignment explanation
Indices: 215034--215527 Score: 343
Period size: 52 Copynumber: 9.5 Consensus size: 51
215024 TAAGCTTTCA
* ** * * *
215034 AAGTCCAATTTCGTTGGCCTTGAATTAGTACATTGGCGCCTTCTTCTTTCTT
1 AAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCACCTT-TTCTTTCTT
* * *
215086 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTTCTCATCTTT
1 AAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTTTCT-TTC-TT
* * ** * * *
215138 GAGTCCAATGTTGCTAGCTTTGAATCTA-TACATTGGCACCTTTTTCTTTCTT
1 AAGTCCAATATCACTGGCCTTGAATC-AGCACATTGGCACC-TTTTCTTTCTT
** * * ** **
215190 AAGTCCAATATTGCTGGCCTTGAATCAGCATATTGG-AGCATTGGCCATCTTT
1 AAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCA-CCTTTTCTTTC-TT
* *
215242 AAGTCCAATGTCACTGGCCTTGAATTAGCACATTGGCACCTTCTTCTTTCTT
1 AAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCACCTT-TTCTTTCTT
* * * **
215294 AAGTCCAATATCATTGGCTTTGAATCAGCATATTGG-TGCTTTTCTTATCTTT
1 AAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTTTCTT-TC-TT
* * * * *
215346 GAGTCCAATGTCACTAGCCTTAAATCAGCACATTGGCACTTTTTTCTTTCTT
1 AAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCAC-CTTTTCTTTCTT
* * * * * *
215398 AAGTCCAATATCACTGGCCTTAAATCAACATATTGGCGCTTTTTC-ATCTTT
1 AAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTTTCTTTC-TT
* * * ** * *
215449 GAGTCTAATGTCGTTGGCCTTGAATCAGCACATTAGCACCTTTGTC-ATCTTT
1 AAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTT-TCTTTC-TT
** * *
215501 AAACCCAATATCGCTAGCCTTGAATCA
1 AAGTCCAATATCACTGGCCTTGAATCA
215528 ATATATTGGC
Statistics
Matches: 348, Mismatches: 78, Indels: 32
0.76 0.17 0.07
Matches are distributed among these distances:
50 11 0.03
51 55 0.16
52 261 0.75
53 9 0.03
54 12 0.03
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (51 bp):
AAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTTTCTTTCTT
Found at i:215185 original size:104 final size:105
Alignment explanation
Indices: 215050--215538 Score: 537
Period size: 104 Copynumber: 4.7 Consensus size: 105
215040 AATTTCGTTG
* * *
215050 GCCTTGAAT-TAGTACATTGGCGCCTTCTTCTTTCTTAAGTCCAATATCGCTGGCCTTGAATCAG
1 GCCTTGAATCTAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAATATCGCTGGCCTTGAATCAG
**
215114 CATATTGGCACCTTTCTCATCTTTGAGTCCAATGTTGCTA
66 CATATTGGCACCTTTCTCATCTTTGAGTCCAATGTCACTA
* * *
215154 GCTTTGAATCTA-TACATTGGCACCTTTTTCTTTCTTAAGTCCAATATTGCTGGCCTTGAATCAG
1 GCCTTGAATCTAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAATATCGCTGGCCTTGAATCAG
* * * *
215218 CATATTGG-AGCATTGGC-CATCTTTAAGTCCAATGTCACTG
66 CATATTGGCA-CCTT-TCTCATCTTTGAGTCCAATGTCACTA
* ** *
215258 GCCTTGAAT-TAGCACATTGGCACCTTCTTCTTTCTTAAGTCCAATATCATTGGCTTTGAATCAG
1 GCCTTGAATCTAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAATATCGCTGGCCTTGAATCAG
** * *
215322 CATATTGGTGCTTTTCTTATCTTTGAGTCCAATGTCACTA
66 CATATTGGCACCTTTCTCATCTTTGAGTCCAATGTCACTA
* * * * *
215362 GCCTTAAATC-AGCACATTGGCACTTTTTTCTTTCTTAAGTCCAATATCACTGGCCTTAAATCAA
1 GCCTTGAATCTAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAATATCGCTGGCCTTGAATCAG
* * * ** *
215426 CATATTGGC-GCTTTTTCATCTTTGAGTCTAATGTCGTTG
66 CATATTGGCACCTTTCTCATCTTTGAGTCCAATGTCACTA
* * * ** *
215465 GCCTTGAATC-AGCACATTAGCACCTTTGTC-ATCTTTAAACCCAATATCGCTAGCCTTGAATCA
1 GCCTTGAATCTAGCACATTGGCACCTTTTTCTTTC-TTAAGTCCAATATCGCTGGCCTTGAATCA
**
215528 ATATATTGGCA
65 GCATATTGGCA
215539 TCTCTATCAT
Statistics
Matches: 326, Mismatches: 50, Indels: 18
0.83 0.13 0.05
Matches are distributed among these distances:
102 2 0.01
103 85 0.26
104 236 0.72
105 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (105 bp):
GCCTTGAATCTAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAATATCGCTGGCCTTGAATCAG
CATATTGGCACCTTTCTCATCTTTGAGTCCAATGTCACTA
Found at i:215392 original size:208 final size:207
Alignment explanation
Indices: 215034--215538 Score: 620
Period size: 208 Copynumber: 2.4 Consensus size: 207
215024 TAAGCTTTCA
* * * *
215034 AAGTCCAATTTCGTTGGCCTTGAATTAGTACATTGGCGCCTTCTTCTTTCTTAAGTCCAATATCG
1 AAGTCCAATGTCGTTGGCCTTGAATTAGCACATTGGCACCTTCTTCTTTCTTAAGTCCAATATCA
** * *
215099 CTGGCCTTGAATCAGCATATTGGCACCTTTCTCATCTTTGAGTCCAATGTTGCTAGCTTTGAATC
66 CTGGCCTTGAATCAGCATATTGGCACCTTTCTCATCTTTGAGTCCAATGTCACTAGCCTTAAATC
* ** * *
215164 TATACATTGGCACCTTTTTCTTTCTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGAGC
131 TACACATTGGCACCTTTTTCTTTCTTAAGTCCAATATCACTGGCCTTAAATCAACATATTGGAGC
215229 ATTGGCCATCTTT
196 -TTGGCCATCTTT
**
215242 AAGTCCAATGTCACTGGCCTTGAATTAGCACATTGGCACCTTCTTCTTTCTTAAGTCCAATATCA
1 AAGTCCAATGTCGTTGGCCTTGAATTAGCACATTGGCACCTTCTTCTTTCTTAAGTCCAATATCA
* * ** * *
215307 TTGGCTTTGAATCAGCATATTGGTGCTTTTCTTATCTTTGAGTCCAATGTCACTAGCCTTAAATC
66 CTGGCCTTGAATCAGCATATTGGCACCTTTCTCATCTTTGAGTCCAATGTCACTAGCCTTAAATC
* *
215372 -AGCACATTGGCACTTTTTTCTTTCTTAAGTCCAATATCACTGGCCTTAAATCAACATATTGGCG
131 TA-CACATTGGCACCTTTTTCTTTCTTAAGTCCAATATCACTGGCCTTAAATCAACATATTGGAG
***
215436 CTTTTTCATCTTT
195 CTTGGCCATCTTT
* * * * * **
215449 GAGTCTAATGTCGTTGGCCTTGAATCAGCACATTAGCACCTT-TGTC-ATCTTTAAACCCAATAT
1 AAGTCCAATGTCGTTGGCCTTGAATTAGCACATTGGCACCTTCT-TCTTTC-TTAAGTCCAATAT
* * **
215512 CGCTAGCCTTGAATCAATATATTGGCA
64 CACTGGCCTTGAATCAGCATATTGGCA
215539 TCTCTATCAT
Statistics
Matches: 251, Mismatches: 43, Indels: 7
0.83 0.14 0.02
Matches are distributed among these distances:
206 3 0.01
207 78 0.31
208 170 0.68
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (207 bp):
AAGTCCAATGTCGTTGGCCTTGAATTAGCACATTGGCACCTTCTTCTTTCTTAAGTCCAATATCA
CTGGCCTTGAATCAGCATATTGGCACCTTTCTCATCTTTGAGTCCAATGTCACTAGCCTTAAATC
TACACATTGGCACCTTTTTCTTTCTTAAGTCCAATATCACTGGCCTTAAATCAACATATTGGAGC
TTGGCCATCTTT
Found at i:216110 original size:20 final size:21
Alignment explanation
Indices: 216085--216143 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
216075 ACTACAAAGA
216085 AAATGTATCGATACATTAAT-
1 AAATGTATCGATACATTAATC
* ***
216105 AAATGTATGGATACATGCTTC
1 AAATGTATCGATACATTAATC
216126 AAATTGTATCGATACATT
1 AAA-TGTATCGATACATT
216144 TTCATTCTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 16 0.52
21 3 0.10
22 12 0.39
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.36
Consensus pattern (21 bp):
AAATGTATCGATACATTAATC
Found at i:216924 original size:21 final size:21
Alignment explanation
Indices: 216899--216964 Score: 75
Period size: 20 Copynumber: 3.2 Consensus size: 21
216889 TGTCATGTTT
216899 TCATGACCCTTCTAAGGTTCA
1 TCATGACCCTTCTAAGGTTCA
** *
216920 TCATG-CATTTTTAAGGCTT--
1 TCATGACCCTTCTAAGG-TTCA
216939 TCATGACCCTTCTAAGGTTCA
1 TCATGACCCTTCTAAGGTTCA
216960 TCATG
1 TCATG
216965 CATTTTTAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 7 0.20
20 16 0.46
21 12 0.34
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (21 bp):
TCATGACCCTTCTAAGGTTCA
Found at i:216952 original size:40 final size:40
Alignment explanation
Indices: 216897--216979 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
216887 CTTGTCATGT
216897 TTTCATGACCCTTCTAAGGTTCATCATGCATTTTTAAGGC
1 TTTCATGACCCTTCTAAGGTTCATCATGCATTTTTAAGGC
216937 TTTCATGACCCTTCTAAGGTTCATCATGCATTTTTAAGGC
1 TTTCATGACCCTTCTAAGGTTCATCATGCATTTTTAAGGC
216977 TTT
1 TTT
216980 GGATGTAGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (40 bp):
TTTCATGACCCTTCTAAGGTTCATCATGCATTTTTAAGGC
Found at i:216974 original size:20 final size:20
Alignment explanation
Indices: 216911--216975 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
216901 ATGACCCTTC
216911 TAAGGTTCATCATGCATTTT
1 TAAGGTTCATCATGCATTTT
** *
216931 TAAGGCTT--TCATGACCCTTC
1 TAAGG-TTCATCATG-CATTTT
216951 TAAGGTTCATCATGCATTTT
1 TAAGGTTCATCATGCATTTT
216971 TAAGG
1 TAAGG
216976 CTTTGGATGT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 7 0.20
20 21 0.60
21 7 0.20
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (20 bp):
TAAGGTTCATCATGCATTTT
Found at i:217101 original size:18 final size:17
Alignment explanation
Indices: 217069--217116 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 17
217059 TGACAACCTT
*
217069 TGTTCATGCATTTTTCTA
1 TGTTCATGCA-TTTTCCA
217087 TGTTCCATGCATTTTCCA
1 TGTT-CATGCATTTTCCA
217105 TGCTTCATGCAT
1 TG-TTCATGCAT
217117 GCATAAATCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.17, C:0.23, G:0.12, T:0.48
Consensus pattern (17 bp):
TGTTCATGCATTTTCCA
Found at i:218708 original size:18 final size:19
Alignment explanation
Indices: 218673--218714 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
218663 TTTCTTTCTC
218673 TTCCAAATTTTGAAGTCAT
1 TTCCAAATTTTGAAGTCAT
218692 TTCCAAATTTT-AAGTCAT
1 TTCCAAATTTTGAAGTCAT
*
218710 ATCCA
1 TTCCA
218715 CTTTTGGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.40
Consensus pattern (19 bp):
TTCCAAATTTTGAAGTCAT
Found at i:225089 original size:3 final size:3
Alignment explanation
Indices: 225081--225110 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
225071 AGTCAACCTT
*
225081 ATC ATC ATC ATC ATC ATT ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
225111 TTTGATGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:227020 original size:13 final size:13
Alignment explanation
Indices: 227002--227027 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
226992 AATTTTTTGG
227002 TGTATCGATACAT
1 TGTATCGATACAT
227015 TGTATCGATACAT
1 TGTATCGATACAT
227028 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:229459 original size:21 final size:21
Alignment explanation
Indices: 229435--229481 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
229425 TTTGAAGCTG
229435 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
*
229455 AATTTGAAGTGAAAAACAAGT
1 ATTTTGAAGTGAAAAACAAGT
229476 ATTTTG
1 ATTTTG
229482 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:235692 original size:13 final size:13
Alignment explanation
Indices: 235674--235699 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
235664 AATTTTTTGG
235674 TGTATCGATACAT
1 TGTATCGATACAT
235687 TGTATCGATACAT
1 TGTATCGATACAT
235700 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:236152 original size:34 final size:33
Alignment explanation
Indices: 236093--236205 Score: 115
Period size: 34 Copynumber: 3.4 Consensus size: 33
236083 GATCCTAACA
236093 CTAAGATAG-A-A-CTTCCCTATCTTTTCACAAG
1 CTAAGATAGAACATCTTCCCTATCTTTTCA-AAG
* *
236124 CTAAGATAGAACATCTTCACTATCTTTTCATAGG
1 CTAAGATAGAACATCTTCCCTATCTTTTCA-AAG
* * *
236158 CTAAGATAGAACCTTTCTCCCAATCTTTTTCAAAGG
1 CTAAGATAGAACATCT-TCCCTATC-TTTTCAAA-G
236194 CTAAGATAGAAC
1 CTAAGATAGAAC
236206 CTTTCAATTA
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
31 9 0.13
32 1 0.01
33 1 0.01
34 31 0.46
35 7 0.10
36 19 0.28
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.32
Consensus pattern (33 bp):
CTAAGATAGAACATCTTCCCTATCTTTTCAAAG
Found at i:236195 original size:36 final size:35
Alignment explanation
Indices: 236106--236210 Score: 133
Period size: 34 Copynumber: 3.0 Consensus size: 35
236096 AGATAGAACT
* *
236106 TCCCTATCTTTTCACAA-GCTAAGATAGAACATCT-
1 TCCCTATCTTTTCA-AAGGCTAAGATAGAACCTTTC
* *
236140 TCACTATCTTTTCATAGGCTAAGATAGAACCTTTC
1 TCCCTATCTTTTCAAAGGCTAAGATAGAACCTTTC
*
236175 TCCCAATCTTTTTCAAAGGCTAAGATAGAACCTTTC
1 TCCCTATC-TTTTCAAAGGCTAAGATAGAACCTTTC
236211 AATTACTTCA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
33 1 0.02
34 28 0.46
35 6 0.10
36 26 0.43
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.34
Consensus pattern (35 bp):
TCCCTATCTTTTCAAAGGCTAAGATAGAACCTTTC
Found at i:236655 original size:20 final size:20
Alignment explanation
Indices: 236630--236667 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
236620 TCATTGGCCT
*
236630 TAATGTATCGATAGAATTCA
1 TAATGTATCGATACAATTCA
236650 TAATGTATCGATACAATT
1 TAATGTATCGATACAATT
236668 ATAGCCGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (20 bp):
TAATGTATCGATACAATTCA
Found at i:238005 original size:14 final size:15
Alignment explanation
Indices: 237986--238026 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
237976 TTTTATCATC
237986 GATTAAATATATTT-
1 GATTAAATATATTTG
238000 GATTAAATAT-TTTG
1 GATTAAATATATTTG
*
238014 GATTTAAT-TATTT
1 GATTAAATATATTT
238027 TTTTCAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.54
Consensus pattern (15 bp):
GATTAAATATATTTG
Found at i:243772 original size:32 final size:33
Alignment explanation
Indices: 243711--243773 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
243701 ACTCTAGAAA
* *
243711 GTATCGATACATATTGCTTAGTATGGATACATT
1 GTATCAATACATATTGCTTAGTATCGATACATT
*
243744 GTATCAATACATGTT-CTTAGTATCGATACA
1 GTATCAATACATATTGCTTAGTATCGATACA
243774 CACTTAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (33 bp):
GTATCAATACATATTGCTTAGTATCGATACATT
Found at i:246461 original size:13 final size:13
Alignment explanation
Indices: 246443--246468 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
246433 TACACCAAGT
246443 ATGTATCGATACA
1 ATGTATCGATACA
246456 ATGTATCGATACA
1 ATGTATCGATACA
246469 CCAAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:246487 original size:34 final size:32
Alignment explanation
Indices: 246425--246489 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
246415 TAGCCAAACT
**
246425 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
246457 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
246490 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:249587 original size:20 final size:20
Alignment explanation
Indices: 249515--249593 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 20
249505 AATTTCCAAA
*
249515 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATCTTTCT
* *
249535 GTGTATCGATACATCTGGAAAATTCA
1 ATGTATCGATACATCT------TTCT
249561 ATGTATCGATACATCTTTCT
1 ATGTATCGATACATCTTTCT
*
249581 TTGTATCGATACA
1 ATGTATCGATACA
249594 CTGTATCGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
20 29 0.62
26 18 0.38
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATCTTTCT
Found at i:249600 original size:13 final size:13
Alignment explanation
Indices: 249582--249606 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
249572 CATCTTTCTT
249582 TGTATCGATACAC
1 TGTATCGATACAC
249595 TGTATCGATACA
1 TGTATCGATACA
249607 GGGGGATTAT
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:249772 original size:20 final size:20
Alignment explanation
Indices: 249729--249775 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
249719 AAATCTTTTG
249729 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
249750 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
249770 CAAAAT
1 CAAAAT
249776 CAGCTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:250088 original size:21 final size:20
Alignment explanation
Indices: 250051--250093 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
250041 GCAGCACCCA
* *
250051 CCAGGTCGCGACCGGCACTC
1 CCAGGTCGCAACCGGCAATC
250071 CCAGGTCGCAACCGGGCAATC
1 CCAGGTCGCAACC-GGCAATC
250092 CC
1 CC
250094 CACACTAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.19, C:0.44, G:0.28, T:0.09
Consensus pattern (20 bp):
CCAGGTCGCAACCGGCAATC
Found at i:252201 original size:13 final size:13
Alignment explanation
Indices: 252183--252208 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
252173 TACACCAAGT
252183 ATGTATCGATACA
1 ATGTATCGATACA
252196 ATGTATCGATACA
1 ATGTATCGATACA
252209 TTAGCTTGTA
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:262658 original size:127 final size:128
Alignment explanation
Indices: 262380--262704 Score: 415
Period size: 127 Copynumber: 2.5 Consensus size: 128
262370 ATCTATTATT
* * *
262380 TTTTTAATCTTTTATATTCCTATGGGTATCTGTAGGGGTATAAACGATTTTGAAAAACTTTTTGT
1 TTTTTAATCTTTTATATTCCTATGGGTATCCGTAGGGGTATAAAAGA-TTTCAAAAACTTTTTGT
* * * *
262445 ATCTTTTCAGGTATCCATTAAGGCATGAAATGATTTTTTTCCAAACATAAACAAATATTAATCA
65 ATCTTTTCAGGTATCCATAAAGGCACGAAATGATTTTTTTCCAAAAATAAACAAATACTAATCA
* * * *
262509 TTTTTAATTTTTTATATTCCTATGGTTTTCCGTAGAGGTATAAAAGATTTCAAAAACTTTTTGTA
1 TTTTTAATCTTTTATATTCCTATGGGTATCCGTAGGGGTATAAAAGATTTCAAAAACTTTTTGTA
* * * * * * *
262574 TCTTTTCGGGCT-TTCATAAAGGTACGAACTTATTTTTTT-CAAAAATAAATAAATACTAATCG
66 TCTTTTCAGG-TATCCATAAAGGCACGAAATGATTTTTTTCCAAAAATAAACAAATACTAATCA
*
262636 TTTTCAATCTTTTATATTCCTATGGGTATCCGTAGGGGTATTAAAAGATTTC-AAAA-TTTTTCG
1 TTTTTAATCTTTTATATTCCTATGGGTATCCGTAGGGGTA-TAAAAGATTTCAAAAACTTTTT-G
262699 TATCTT
64 TATCTT
262705 GACGGATTTC
Statistics
Matches: 170, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
126 5 0.03
127 65 0.38
128 58 0.34
129 42 0.25
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (128 bp):
TTTTTAATCTTTTATATTCCTATGGGTATCCGTAGGGGTATAAAAGATTTCAAAAACTTTTTGTA
TCTTTTCAGGTATCCATAAAGGCACGAAATGATTTTTTTCCAAAAATAAACAAATACTAATCA
Found at i:262754 original size:127 final size:126
Alignment explanation
Indices: 262380--262741 Score: 385
Period size: 127 Copynumber: 2.8 Consensus size: 126
262370 ATCTATTATT
* * *
262380 TTTTTAATCTTTTATATTCCTATGGGTATCTGTAGGGGTATAAACGATTTTGAAAAACTTTTTGT
1 TTTTTAATCTTTTATATTCCTATGGGTATCCGTAGGGGTATAAAAGA-TTT-CAAAACTTTTTGT
* * * * * * *
262445 ATCTTTTCAGGTATCCATTAAGGCATGAAATGAT-TTTTTTCCAAACATAAACAAATATTAATCA
64 ATCTTTTCAGGTTTCCATAAAGGTACGGAATGATATTTTTT-CAAA-ATAAATAAATACTAATCA
* * * *
262509 TTTTTAATTTTTTATATTCCTATGGTTTTCCGTAGAGGTATAAAAGATTTCAAAAACTTTTTGTA
1 TTTTTAATCTTTTATATTCCTATGGGTATCCGTAGGGGTATAAAAGATTTC-AAAACTTTTTGTA
* * *
262574 TCTTTTCGGGCTTT-CATAAAGGTAC-GAACTTAT-TTTTTTCAAAAATAAATAAATACTAATCG
65 TCTTTTCAGG-TTTCCATAAAGGTACGGAA-TGATATTTTTTC-AAAATAAATAAATACTAATCA
*
262636 TTTTCAATCTTTTATATTCCTATGGGTATCCGTAGGGGTATTAAAAGATTTCAAAA-TTTTTCGT
1 TTTTTAATCTTTTATATTCCTATGGGTATCCGTAGGGGTA-TAAAAGATTTCAAAACTTTTT-GT
** *
262700 ATCTTGAC-GGATTTCCATCAAGGTACGGAATGATACTTTTTT
64 ATCTTTTCAGG-TTTCCATAAAGGTACGGAATGATA-TTTTTT
262742 AGAAAAATTA
Statistics
Matches: 196, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
126 10 0.05
127 78 0.40
128 59 0.30
129 49 0.25
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.43
Consensus pattern (126 bp):
TTTTTAATCTTTTATATTCCTATGGGTATCCGTAGGGGTATAAAAGATTTCAAAACTTTTTGTAT
CTTTTCAGGTTTCCATAAAGGTACGGAATGATATTTTTTCAAAATAAATAAATACTAATCA
Found at i:263575 original size:32 final size:33
Alignment explanation
Indices: 263513--263575 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
263503 ACTCTAGAAA
*
263513 GTATCGATACATATTGCTTAGTATCAATACATT
1 GTATCGATAAATATTGCTTAGTATCAATACATT
* * *
263546 GTATCGATAAATGTT-CTTCGTATCGATACA
1 GTATCGATAAATATTGCTTAGTATCAATACA
263576 CACTTAATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (33 bp):
GTATCGATAAATATTGCTTAGTATCAATACATT
Found at i:265290 original size:3 final size:3
Alignment explanation
Indices: 265269--265314 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
265259 TCAACCATCA
* * *
265269 ATG ATG ATA AAG ATA ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
265315 AGTTGACTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:272891 original size:13 final size:13
Alignment explanation
Indices: 272873--272902 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
272863 GATGCATGGG
272873 ACATTGTATCGAT
1 ACATTGTATCGAT
272886 ACATTGTATCGAT
1 ACATTGTATCGAT
272899 ACAT
1 ACAT
272903 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:274533 original size:15 final size:15
Alignment explanation
Indices: 274513--274544 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
274503 AACCGTCAAA
274513 GATGATGAAAATGAT
1 GATGATGAAAATGAT
*
274528 GATGATGATAATGAT
1 GATGATGAAAATGAT
274543 GA
1 GA
274545 GGTTGACTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (15 bp):
GATGATGAAAATGAT
Found at i:277233 original size:25 final size:26
Alignment explanation
Indices: 277183--277233 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
277173 GCATAGACGA
*
277183 GGCTATACAAGATGAAAATTGGATTAT
1 GGCTATACAAGA-GAAAATTGAATTAT
*
277210 GGCTATGCAAGA-AAAATTGAATTA
1 GGCTATACAAGAGAAAATTGAATTA
277234 ATTTGAGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 11 0.50
27 11 0.50
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (26 bp):
GGCTATACAAGAGAAAATTGAATTAT
Found at i:281286 original size:13 final size:13
Alignment explanation
Indices: 281268--281292 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
281258 ACACATAGTA
281268 TGTATCGATACAT
1 TGTATCGATACAT
281281 TGTATCGATACA
1 TGTATCGATACA
281293 CCATAAAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:281289 original size:32 final size:33
Alignment explanation
Indices: 281248--281315 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
281238 GTAGCTAAAC
**
281248 TTGTATCGATACA-CATAGTATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
281280 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
281313 TTG
1 TTG
281316 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:290029 original size:13 final size:13
Alignment explanation
Indices: 290011--290035 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
290001 ACACATAGTA
290011 TGTATCGATACAT
1 TGTATCGATACAT
290024 TGTATCGATACA
1 TGTATCGATACA
290036 CCATAAAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:290032 original size:32 final size:33
Alignment explanation
Indices: 289991--290058 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
289981 GTAGCTAAAC
**
289991 TTGTATCGATACA-CATAGTATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
290023 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
290056 TTG
1 TTG
290059 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:291453 original size:13 final size:13
Alignment explanation
Indices: 291435--291460 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
291425 ACATTATGCT
291435 TTGTATCGATACA
1 TTGTATCGATACA
291448 TTGTATCGATACA
1 TTGTATCGATACA
291461 CGCTTATTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:291471 original size:19 final size:20
Alignment explanation
Indices: 291447--291499 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
291437 GTATCGATAC
* *
291447 ATTGTATCGATACACGCT-T
1 ATTGTATCGATACACACTCA
* *
291466 ATTGTATTGATACATACTCA
1 ATTGTATCGATACACACTCA
291486 ATTGTATCGATACA
1 ATTGTATCGATACA
291500 TGAAACTAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (20 bp):
ATTGTATCGATACACACTCA
Found at i:295612 original size:24 final size:23
Alignment explanation
Indices: 295569--295614 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
295559 TTTTCTTCCC
295569 ATTGCAATAATATAAATAAAAAG
1 ATTGCAATAATATAAATAAAAAG
*
295592 ATTGCAACTAATA-AAATTAAAAG
1 ATTGCAA-TAATATAAATAAAAAG
295615 TACATCAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.59, C:0.07, G:0.09, T:0.26
Consensus pattern (23 bp):
ATTGCAATAATATAAATAAAAAG
Found at i:298982 original size:15 final size:15
Alignment explanation
Indices: 298958--298991 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
298948 CTTTGTAGAT
*
298958 TCTTTATAGATAATC
1 TCTTTATAGATAATA
*
298973 TCTTTGTAGATAATA
1 TCTTTATAGATAATA
298988 TCTT
1 TCTT
298992 AACTATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (15 bp):
TCTTTATAGATAATA
Found at i:301332 original size:30 final size:30
Alignment explanation
Indices: 301296--301355 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
301286 TTAATTGATT
301296 TTGGTTTCATAAGTTGCCATAAAATACATA
1 TTGGTTTCATAAGTTGCCATAAAATACATA
301326 TTGGTTTCATAAGTTGCCATAAAATACATA
1 TTGGTTTCATAAGTTGCCATAAAATACATA
301356 CTATAATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (30 bp):
TTGGTTTCATAAGTTGCCATAAAATACATA
Found at i:302744 original size:27 final size:27
Alignment explanation
Indices: 302697--302749 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
302687 ACGAGATAAC
*
302697 TTCCATATGCTAAAAGCATATCTATAT
1 TTCCATATGCTAAAAGAATATCTATAT
302724 TTCCATATGCT-AAAGAAATATCTATA
1 TTCCATATGCTAAAAG-AATATCTATA
302750 GACTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.36
Consensus pattern (27 bp):
TTCCATATGCTAAAAGAATATCTATAT
Found at i:303804 original size:22 final size:22
Alignment explanation
Indices: 303779--303821 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
303769 CGAGGGGGAG
*
303779 AAATTCTTTTAGGGAGAACTTT
1 AAATTCTTTTAAGGAGAACTTT
303801 AAATTCTTTTAAGGAGAACTT
1 AAATTCTTTTAAGGAGAACTT
303822 GAAAACGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (22 bp):
AAATTCTTTTAAGGAGAACTTT
Found at i:304496 original size:13 final size:13
Alignment explanation
Indices: 304478--304502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
304468 CATAGCATAT
304478 TGTATCGATACAA
1 TGTATCGATACAA
304491 TGTATCGATACA
1 TGTATCGATACA
304503 TGAGGAATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:304500 original size:33 final size:33
Alignment explanation
Indices: 304458--304522 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
304448 TACCACTGTT
304458 TGTATCGATACAT-AGCATATTGTATCGATACAA
1 TGTATCGATACATGAGCA-ATTGTATCGATACAA
*
304491 TGTATCGATACATGAGGAATTGTATCGATACA
1 TGTATCGATACATGAGCAATTGTATCGATACA
304523 TTGTTTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGAGCAATTGTATCGATACAA
Found at i:307273 original size:13 final size:13
Alignment explanation
Indices: 307255--307280 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
307245 CAATTTTTTG
307255 TGTATCGATACAT
1 TGTATCGATACAT
307268 TGTATCGATACAT
1 TGTATCGATACAT
307281 ACTTTGGTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:307277 original size:33 final size:33
Alignment explanation
Indices: 307235--307299 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
307225 TACAAGCCAA
* *
307235 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
307268 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
307300 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:307404 original size:20 final size:20
Alignment explanation
Indices: 307352--307406 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
307342 CATGTTTTTG
*
307352 ATGTATCGATACATTGCAAC
1 ATGTATCGATACTTTGCAAC
*
307372 ATGTATCGATACTTTG-AATT
1 ATGTATCGATACTTTGCAA-C
307392 ATGTATCGATACTTT
1 ATGTATCGATACTTT
307407 TAAGGGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACTTTGCAAC
Found at i:307963 original size:40 final size:41
Alignment explanation
Indices: 307917--308007 Score: 107
Period size: 39 Copynumber: 2.3 Consensus size: 41
307907 TTTTCTTTTT
*
307917 CCCTTAACTAAAG-TAATTTTAACAAATTCGTACATTCTCC
1 CCCTTAACTAAAGATAATTTTAACAAATTCATACATTCTCC
* * *
307957 CCCTTAA-T-AAGATAATTTTAGCAAATTTATTCATTCTCC
1 CCCTTAACTAAAGATAATTTTAACAAATTCATACATTCTCC
* *
307996 CCTTTTACTAAA
1 CCCTTAACTAAA
308008 AAAAAATCTC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
38 3 0.07
39 29 0.69
40 8 0.19
41 2 0.05
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.38
Consensus pattern (41 bp):
CCCTTAACTAAAGATAATTTTAACAAATTCATACATTCTCC
Found at i:309398 original size:13 final size:13
Alignment explanation
Indices: 309382--309419 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
309372 ATAATCCCCC
309382 TGTATCGATACAG
1 TGTATCGATACAG
*
309395 TGTATCGATACAT
1 TGTATCGATACAG
309408 TGTATCGATACA
1 TGTATCGATACA
309420 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:313363 original size:21 final size:21
Alignment explanation
Indices: 313334--313378 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
313324 AAGTTTTTAT
*
313334 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
313354 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
313376 TTT
1 TTT
313379 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:315598 original size:13 final size:13
Alignment explanation
Indices: 315580--315605 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
315570 CAATTTTTTG
315580 TGTATCGATACAT
1 TGTATCGATACAT
315593 TGTATCGATACAT
1 TGTATCGATACAT
315606 ACTTTGGTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:315602 original size:33 final size:33
Alignment explanation
Indices: 315560--315624 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
315550 TACAAGCCAA
* *
315560 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
315593 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
315625 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:315729 original size:20 final size:20
Alignment explanation
Indices: 315677--315731 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
315667 CATATTTTTG
*
315677 ATGTATCGATACATTGCAAC
1 ATGTATCGATACTTTGCAAC
*
315697 ATGTATCGATACTTTG-AATT
1 ATGTATCGATACTTTGCAA-C
315717 ATGTATCGATACTTT
1 ATGTATCGATACTTT
315732 TAAGGGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACTTTGCAAC
Found at i:317262 original size:81 final size:80
Alignment explanation
Indices: 316941--317443 Score: 338
Period size: 81 Copynumber: 6.3 Consensus size: 80
316931 AAAGTTTTTG
* *
316941 AGGGAATACTCCAACCCCATTTTTACCTCT-AAAAAATCAAAATTTTCATTTTTAGGGATATTCC
1 AGGGGATACTCCAACCCCATTTTTACCTCTAAAAAAATCAAAATTTTCATTTTTAGGGATACTCC
*
317005 AACCCCACCATTT-TT
66 AACCCCA-TATTTCTT
* * * * * * * ** **
317020 GAGGGAAAAC-CCTAGCCCATTTTTACTTCT------ATC-TAATTGTCCATCGTCGGGGATACT
1 -AGGGGATACTCCAACCCCATTTTTACCTCTAAAAAAATCAAAATT-TTCATTTTTAGGGATACT
* * *
317077 CCAACCCTGCGT-TCTCTA
64 CCAACCC--CATATTTCTT
** *
317095 AAAGGATACTCCAACCCCATTTTTACCTCTAAAAAAATTAAAATTTTCATTTTT-GGGATACTCC
1 AGGGGATACTCCAACCCCATTTTTACCTCTAAAAAAATCAAAATTTTCATTTTTAGGGATACTCC
* *
317159 AACCCTACCATTTCTT
66 AACCCCA-TATTTCTT
* * **
317175 AAGGGATACTCCAACCCTATTTTTACCTCTAAAAAAATCAAAATTTTCATTTTTAAAGATACTCC
1 AGGGGATACTCCAACCCCATTTTTACCTCTAAAAAAATCAAAATTTTCATTTTTAGGGATACTCC
317240 AACCCCATAATTTCTT
66 AACCCCAT-ATTTCTT
*** * * * * * *
317256 AGGGGATACTCCAACCTTGTTTTTACTTCTAAAAATATC-CAATTTTCCATCTTTAGGGATATTT
1 AGGGGATACTCCAACCCCATTTTTACCTCTAAAAAAATCAAAATTTT-CATTTTTAGGGATACTC
* *
317320 CAACCTCGC-TATCTCTG
65 CAACC-C-CATATTTCTT
* * ** *
317337 AGGAGATACTCCAACCCCGTTTTTACCTCT-AAAAAATCAAAAACAATTCATTTTCCA-GGATAC
1 AGGGGATACTCCAACCCCATTTTTACCTCTAAAAAAATC-AAAA-TTTTCATTTT-TAGGGATAC
*
317400 TCCAACCCCAGCT-TTTCTG
63 TCCAACCCCA--TATTTCTT
* * *
317419 AGGGGACACTCTAACCCCGTTTTTA
1 AGGGGATACTCCAACCCCATTTTTA
317444 TGTCCAAAAA
Statistics
Matches: 328, Mismatches: 69, Indels: 50
0.73 0.15 0.11
Matches are distributed among these distances:
73 4 0.01
74 29 0.09
75 18 0.05
76 1 0.00
79 17 0.05
80 92 0.28
81 111 0.34
82 51 0.16
83 5 0.02
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (80 bp):
AGGGGATACTCCAACCCCATTTTTACCTCTAAAAAAATCAAAATTTTCATTTTTAGGGATACTCC
AACCCCATATTTCTT
Found at i:319982 original size:21 final size:20
Alignment explanation
Indices: 319956--319995 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
319946 AAAGCTCAAA
319956 ACCCAGAAAGTATCGATACAC
1 ACCCAG-AAGTATCGATACAC
*
319977 ACCCAGATGTATCGATACA
1 ACCCAGAAGTATCGATACA
319996 TTATACTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.40, C:0.28, G:0.15, T:0.17
Consensus pattern (20 bp):
ACCCAGAAGTATCGATACAC
Found at i:320007 original size:20 final size:19
Alignment explanation
Indices: 319984--320035 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
319974 CACACCCAGA
* *
319984 TGTATCGATACATTATACTT
1 TGTATCGATACATGAT-CAT
*
320004 TGTATCGATACATGCTCAT
1 TGTATCGATACATGATCAT
320023 TGTATCGATACAT
1 TGTATCGATACAT
320036 ACTCAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATGATCAT
Found at i:320027 original size:19 final size:19
Alignment explanation
Indices: 319965--320056 Score: 78
Period size: 20 Copynumber: 4.7 Consensus size: 19
319955 AACCCAGAAA
* * *
319965 GTATCGATACACACCCAGAT
1 GTATCGATACATACTCA-TT
*
319985 GTATCGATACATTA-TACTTT
1 GTATCGATACA-TACT-CATT
*
320005 GTATCGATACATGCTCATT
1 GTATCGATACATACTCATT
320024 GTATCGATACATACTCAATT
1 GTATCGATACATACTC-ATT
* *
320044 ATATCGAAACATA
1 GTATCGATACATA
320057 AAACAGGCAG
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
19 19 0.32
20 38 0.64
21 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (19 bp):
GTATCGATACATACTCATT
Found at i:320050 original size:20 final size:19
Alignment explanation
Indices: 320006--320056 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
319996 TTATACTTTG
* *
320006 TATCGATACATGCTCATTG
1 TATCGATACATACTCATTA
320025 TATCGATACATACTCAATTA
1 TATCGATACATACTC-ATTA
*
320045 TATCGAAACATA
1 TATCGATACATA
320057 AAACAGGCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (19 bp):
TATCGATACATACTCATTA
Found at i:320142 original size:33 final size:33
Alignment explanation
Indices: 320087--320151 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
320077 AAGTGAAATA
* *
320087 TATCGATAAATGGAATAATGTATTGATACATTG
1 TATCGATAAATGGAAGAATGTATCGATACATTG
*
320120 TATCGATACAT-GAAGAATTGTATCGATACATT
1 TATCGATAAATGGAAGAA-TGTATCGATACATT
320152 ATGCCCAACG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 5 0.18
33 23 0.82
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.35
Consensus pattern (33 bp):
TATCGATAAATGGAAGAATGTATCGATACATTG
Found at i:326339 original size:13 final size:13
Alignment explanation
Indices: 326321--326354 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
326311 AGGTTCTTTG
*
326321 TATCGATACATTA
1 TATCGATACAATA
*
326334 TATCGATACAATG
1 TATCGATACAATA
326347 TATCGATA
1 TATCGATA
326355 TAAGAGTCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:328938 original size:20 final size:19
Alignment explanation
Indices: 328893--328944 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
328883 TGTATCGATA
*
328893 CATTATATTGATACATGCT
1 CATTATATTGATACATACT
*
328912 CATTATATCGATACATACT
1 CATTATATTGATACATACT
328931 CAATTATATTGATA
1 C-ATTATATTGATA
328945 TATGAAACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (19 bp):
CATTATATTGATACATACT
Found at i:330163 original size:13 final size:13
Alignment explanation
Indices: 330141--330179 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
330131 TAAAAAAATA
330141 TTTA-TTTATTAT
1 TTTATTTTATTAT
330153 TTTATTTTATTAT
1 TTTATTTTATTAT
330166 TATT-TTTTATTAT
1 T-TTATTTTATTAT
330179 T
1 T
330180 GAAAATTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 4 0.16
13 19 0.76
14 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:331215 original size:12 final size:11
Alignment explanation
Indices: 331198--331237 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
331188 AATTTTCCCA
331198 TTTTTTCTTGCT
1 TTTTTTCTT-CT
331210 TTTTTTC-TCT
1 TTTTTTCTTCT
331220 TTTTTTCTCTCT
1 TTTTTTCT-TCT
331232 TTTTTT
1 TTTTTT
331238 GGTGAGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.35
11 1 0.04
12 16 0.62
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (11 bp):
TTTTTTCTTCT
Found at i:331215 original size:22 final size:22
Alignment explanation
Indices: 331190--331237 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
331180 TGCTAACAAA
331190 TTTTCCCATTTTTTCT-TGCTTT
1 TTTTCCCATTTTTTCTCT-CTTT
* *
331212 TTTTCTCTTTTTTTCTCTCTTT
1 TTTTCCCATTTTTTCTCTCTTT
331234 TTTT
1 TTTT
331238 GGTGAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTCCCATTTTTTCTCTCTTT
Found at i:331221 original size:10 final size:10
Alignment explanation
Indices: 331198--331236 Score: 51
Period size: 10 Copynumber: 3.6 Consensus size: 10
331188 AATTTTCCCA
331198 TTTTTTCTTGCT
1 TTTTTTC-T-CT
331210 TTTTTTCTCT
1 TTTTTTCTCT
331220 TTTTTTCTCT
1 TTTTTTCTCT
331230 CTTTTTT
1 -TTTTTT
331237 TGGTGAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 12 0.46
11 7 0.27
12 7 0.27
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (10 bp):
TTTTTTCTCT
Found at i:334704 original size:2 final size:2
Alignment explanation
Indices: 334693--334769 Score: 68
Period size: 2 Copynumber: 39.5 Consensus size: 2
334683 TTTTATGTTG
* *
334693 AT AT -T AT AT AT AT AT AT AT AT AT CT AT AT AT -T CT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
334733 AT AT AT AC AT AC AT AT GT TT AT AT GT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
334770 CAACTACTAA
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
1 2 0.03
2 57 0.97
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:334939 original size:19 final size:18
Alignment explanation
Indices: 334912--334951 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
334902 TTCTTTTCAT
334912 TTTAATTAATTTTAATTA
1 TTTAATTAATTTTAATTA
*
334930 TTTAATTTAATTTTTATTA
1 TTTAA-TTAATTTTAATTA
334949 TTT
1 TTT
334952 TGTTATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTAATTAATTTTAATTA
Found at i:335482 original size:19 final size:20
Alignment explanation
Indices: 335432--335482 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
335422 CACACCCAAA
335432 TGTATCGATACATATTGCTT
1 TGTATCGATACATATTGCTT
* * *
335452 GGTATCGGTACATGTT-CTT
1 TGTATCGATACATATTGCTT
*
335471 TGTATTGATACA
1 TGTATCGATACA
335483 CCATAAAATG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATATTGCTT
Found at i:335565 original size:20 final size:20
Alignment explanation
Indices: 335540--335577 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
335530 TATTCATGAT
335540 TGAATTGTATCAATACATGG
1 TGAATTGTATCAATACATGG
*
335560 TGAATTGTATCGATACAT
1 TGAATTGTATCAATACAT
335578 TGAGCCTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (20 bp):
TGAATTGTATCAATACATGG
Found at i:335635 original size:20 final size:20
Alignment explanation
Indices: 335606--335660 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
335596 TTTCAAATGC
*
335606 ATTGTATCGATACGTTATGA
1 ATTGTATCGATACATTATGA
335626 ACTT-TATCGATACATTATGA
1 A-TTGTATCGATACATTATGA
335646 ATTGTATCGATACAT
1 ATTGTATCGATACAT
335661 AGGAACGTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.40
Consensus pattern (20 bp):
ATTGTATCGATACATTATGA
Found at i:335671 original size:20 final size:19
Alignment explanation
Indices: 335608--335672 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
335598 TCAAATGCAT
*
335608 TGTATCGATACGTTATGAAC
1 TGTATCGATAC-ATATGAAC
* *
335628 TTTATCGATACATTATGAAT
1 TGTATCGATACA-TATGAAC
*
335648 TGTATCGATACATAGGAAC
1 TGTATCGATACATATGAAC
335667 GTGTAT
1 -TGTAT
335673 GCGCGGAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
19 5 0.14
20 32 0.86
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATATGAAC
Found at i:339147 original size:19 final size:19
Alignment explanation
Indices: 339102--339158 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
339092 CTACGAGTTT
**
339102 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
339123 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
339142 CATGTATCGATACAATG
1 CATGTATCGATACAATG
339159 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:339161 original size:13 final size:13
Alignment explanation
Indices: 339143--339169 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
339133 TACAATGAAC
339143 ATGTATCGATACA
1 ATGTATCGATACA
339156 ATGTATCGATACA
1 ATGTATCGATACA
339169 A
1 A
339170 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:339165 original size:32 final size:33
Alignment explanation
Indices: 339124--339188 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
339114 CAATTTGTCC
*
339124 ATGTATCGATACAATG-AACATGTATCGATACA
1 ATGTATCGATACAAAGCAACATGTATCGATACA
* *
339156 ATGTATCGATACAAAGCAGCATGTATTGATACA
1 ATGTATCGATACAAAGCAACATGTATCGATACA
339189 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAACATGTATCGATACA
Found at i:344650 original size:26 final size:24
Alignment explanation
Indices: 344621--344678 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
344611 TGAATGAAAG
* *
344621 ATTTTATCATATGCTCTTATTGCTAT
1 ATTTTATCA-ATGC-ATGATTGCTAT
*
344647 ATTTTCATGAATGCATGATTGCTAT
1 ATTTT-ATCAATGCATGATTGCTAT
344672 ATTTTAT
1 ATTTTAT
344679 TGCGTTCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 2 0.07
25 14 0.50
26 9 0.32
27 3 0.11
ACGTcount: A:0.26, C:0.12, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTTATCAATGCATGATTGCTAT
Found at i:345513 original size:32 final size:33
Alignment explanation
Indices: 345451--345514 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
345441 AACCCTTGAA
*
345451 TGTATCGATACATATTGCTTGGTATCGATACAT
1 TGTATCAATACATATTGCTTGGTATCGATACAT
* *
345484 TGTATCAATACATGTT-CTTTGTATCGATACA
1 TGTATCAATACATATTGCTTGGTATCGATACA
345515 CCATAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (33 bp):
TGTATCAATACATATTGCTTGGTATCGATACAT
Found at i:345663 original size:20 final size:20
Alignment explanation
Indices: 345620--345664 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
345610 TCAAATGCAT
* *
345620 TGTATCGATACATTATGAAT
1 TGTATCGATACATTAGGAAG
345640 TGTATCGATACA-TAGGAACG
1 TGTATCGATACATTAGGAA-G
345660 TGTAT
1 TGTAT
345665 GCATGGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTAGGAAG
Found at i:347480 original size:14 final size:14
Alignment explanation
Indices: 347461--347494 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
347451 CTATAGTTTT
347461 TTAAAAAAATTGAG
1 TTAAAAAAATTGAG
**
347475 TTAAAATCATTGAG
1 TTAAAAAAATTGAG
347489 TTAAAA
1 TTAAAA
347495 TACTTCCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.32
Consensus pattern (14 bp):
TTAAAAAAATTGAG
Found at i:347495 original size:14 final size:14
Alignment explanation
Indices: 347469--347495 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
347459 TTTTAAAAAA
347469 ATTGAGTTAAAATC
1 ATTGAGTTAAAATC
347483 ATTGAGTTAAAAT
1 ATTGAGTTAAAAT
347496 ACTTCCAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.37
Consensus pattern (14 bp):
ATTGAGTTAAAATC
Found at i:348343 original size:46 final size:47
Alignment explanation
Indices: 348285--348376 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 47
348275 TTTTTTTCTT
348285 TCATCTTATGTTGA-TTTTATTTTCATTTTTTAACATGTCTATGTTC
1 TCATCTTATGTTGATTTTTATTTTCATTTTTTAACATGTCTATGTTC
* * *
348331 TCATTTTATGTTGATTTTTTTTTTCATTTTTTAGCATGTCTATGTT
1 TCATCTTATGTTGATTTTTATTTTCATTTTTTAACATGTCTATGTT
348377 TTCTTTGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 13 0.31
47 29 0.69
ACGTcount: A:0.17, C:0.11, G:0.10, T:0.62
Consensus pattern (47 bp):
TCATCTTATGTTGATTTTTATTTTCATTTTTTAACATGTCTATGTTC
Found at i:348720 original size:20 final size:19
Alignment explanation
Indices: 348697--348770 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
348687 CACATCTAGA
* *
348697 TGTATCGATACATTATGCTT
1 TGTATCGATACATGAT-CAT
348717 TGTATCGATACATGATCAT
1 TGTATCGATACATGATCAT
*
348736 TGTATCGATACAT-ACACAAT
1 TGTATCGATACATGA-TC-AT
348756 TGTATCGATACATGA
1 TGTATCGATACATGA
348771 AACTAGCAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.02
19 16 0.33
20 30 0.62
21 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATGATCAT
Found at i:350578 original size:904 final size:904
Alignment explanation
Indices: 348831--350637 Score: 3490
Period size: 904 Copynumber: 2.0 Consensus size: 904
348821 TATCGATACA
*
348831 ATGTATCAATACATGAAGAATTGTATCAATGCATTGTCTCAAACGACTATAAACAGTTATAATTT
1 ATGTATCAATACATGAAGAATTGTATCAATGCATTGTCTCAAACGACTATAAACAGCTATAATTT
348896 TAAATGCATGTATCGATACATTATGAATTGTATCGATACATAGCAACGGGAATGCATGGAAACAA
66 TAAATGCATGTATCGATACATTATGAATTGTATCGATACATAGCAACGGGAATGCATGGAAACAA
348961 GCACCAAACAAGTCAACAACGACTACAAACACAATCATTTAACCTCAAACGAGTTTGTCAACATT
131 GCACCAAACAAGTCAACAACGACTACAAACACAATCATTTAACCTCAAACGAGTTTGTCAACATT
349026 CAAGCCTATAAATTTGAGTCTTCAACAGCTAAACAAAAAGAGAATCCATCAAGAAACACTAAGAG
196 CAAGCCTATAAATTTGAGTCTTCAACAGCTAAACAAAAAGAGAATCCATCAAGAAACACTAAGAG
349091 ATCAAAGCATTCAAAGTTTTATTCATTTTCTCATTTTAAGAGCTTTCACATTTATTTTTGTTATT
261 ATCAAAGCATTCAAAGTTTTATTCATTTTCTCATTTTAAGAGCTTTCACATTTATTTTTGTTATT
349156 TTTTGAAAGCTCTTTGTATTTGATTTGTGTTTATTTTTTCACAAATATCAGCCTATTTAAAGGCA
326 TTTTGAAAGCTCTTTGTATTTGATTTGTGTTTATTTTTTCACAAATATCAGCCTATTTAAAGGCA
*
349221 ATTTTCGTTTGTATAATTTCCTTGAATTTTGTAAGGTTGTATTCAACCTTGGGTTACGATTTCTC
391 ATTTTCGTTTATATAATTTCCTTGAATTTTGTAAGGTTGTATTCAACCTTGGGTTACGATTTCTC
*
349286 AAGAATTTGAGGTATAATTCTTAGAGAGATTTTGAGGTTTTTATCTTAGCCTAGAAAAGATAAAG
456 AAGAATTTGAGGTATAATTCTTAGAGAGATTTTAAGGTTTTTATCTTAGCCTAGAAAAGATAAAG
*
349351 TGTTGTAGGGTTATACCTTTCCTAAAAGGTAAAACAATTCGTGTATTGAATTGTGGTAACACTCG
521 TGTTGTAAGGTTATACCTTTCCTAAAAGGTAAAACAATTCGTGTATTGAATTGTGGTAACACTCG
*
349416 ACAAGAAAGTGTCAAGGAGAGTGGACGTAGGTGCCGTGTTTGGACTGAACCTCTATAAATATTCG
586 ACAAGAAAGTGTCAAGGAGAGAGGACGTAGGTGCCGTGTTTGGACTGAACCTCTATAAATATTCG
349481 TGTCAAGCCTTCTCATCCCTACTCTCTTTACTTTCAAGTTGTTTTCAAAACAATTATTTCAAAAC
651 TGTCAAGCCTTCTCATCCCTACTCTCTTTACTTTCAAGTTGTTTTCAAAACAATTATTTCAAAAC
*
349546 CTTTGAATTTCGGAAAGAACCAATTCTCCCCCTCTTAGTTCATCCATTCCTAAAGCTTACAATTG
716 CTTTGAATTTCAGAAAGAACCAATTCTCCCCCTCTTAGTTCATCCATTCCTAAAGCTTACAATTG
349611 GTATCAGAGCCTAAACTCCTTCAACGGATTCACACCCGGAGAGATGATCTTCTTCAGCACAAAAA
781 GTATCAGAGCCTAAACTCCTTCAACGGATTCACACCCGGAGAGATGATCTTCTTCAGCACAAAAA
349676 TGGAAAATACAGCAATAGTTAAAGTTTCTCAATCGTTGAACTAAGAAAATATGTGTCTC
846 TGGAAAATACAGCAATAGTTAAAGTTTCTCAATCGTTGAACTAAGAAAATATGTGTCTC
*
349735 ATGTATCGATACATGAAGAATTGTATCAATGCATTGTCTCAAACGACTATAAACAGCTATAATTT
1 ATGTATCAATACATGAAGAATTGTATCAATGCATTGTCTCAAACGACTATAAACAGCTATAATTT
*
349800 TAAATGCATGTATCGATACATTATGAATTGTATCGATACATAGCAATGGGAATGCATGGAAACAA
66 TAAATGCATGTATCGATACATTATGAATTGTATCGATACATAGCAACGGGAATGCATGGAAACAA
349865 GCACCAAACAAGTCAACAACGACTACAAACACAATCATTTAACCTCAAACGAGTTTGTCAACATT
131 GCACCAAACAAGTCAACAACGACTACAAACACAATCATTTAACCTCAAACGAGTTTGTCAACATT
*
349930 CAAGCCTATAAATTTGAGTCTTCAGCAGCTAAACAAAAAGAGAATCCATCAAGAAACACTAAGAG
196 CAAGCCTATAAATTTGAGTCTTCAACAGCTAAACAAAAAGAGAATCCATCAAGAAACACTAAGAG
349995 ATCAAAGCATTCAAAGTTTTATTCATTTTCTCATTTTAAGAGCTTTCACATTTATTTTTGTTATT
261 ATCAAAGCATTCAAAGTTTTATTCATTTTCTCATTTTAAGAGCTTTCACATTTATTTTTGTTATT
350060 TTTTGAAAGCTCTTTGTATTTGATTTGTGTTTATTTTTTCACAAATATCAGCCTATTTAAAGGCA
326 TTTTGAAAGCTCTTTGTATTTGATTTGTGTTTATTTTTTCACAAATATCAGCCTATTTAAAGGCA
*
350125 ATTTTCGTTTATATAATTTCCTTGAATTTTGTAAGTTTGTATTCAACCTTGGGTTACGATTTCTC
391 ATTTTCGTTTATATAATTTCCTTGAATTTTGTAAGGTTGTATTCAACCTTGGGTTACGATTTCTC
350190 AAGAATTTGAGGTATAATTCTT-GAAGAGATTTTAAGGTTTTTATCTTAGCCTAGAAAAGATAAA
456 AAGAATTTGAGGTATAATTCTTAG-AGAGATTTTAAGGTTTTTATCTTAGCCTAGAAAAGATAAA
350254 GTGTTGTAAGGTTATACCTTTCCTAAAAGGTAAAACAATTCGTGTATTGAATTGTGGTAACACTC
520 GTGTTGTAAGGTTATACCTTTCCTAAAAGGTAAAACAATTCGTGTATTGAATTGTGGTAACACTC
*
350319 GACAAGAAAGTGTCAAGGAGAGAGGACGTAGGTGCTGTGTTTGGACTGAACCTCTATAAATATTC
585 GACAAGAAAGTGTCAAGGAGAGAGGACGTAGGTGCCGTGTTTGGACTGAACCTCTATAAATATTC
350384 GTGTCAAGCCTTCTCATCCCTACTCTCTTTACTTTCAAGTTGTTTTCAAAACAATTATTTCAAAA
650 GTGTCAAGCCTTCTCATCCCTACTCTCTTTACTTTCAAGTTGTTTTCAAAACAATTATTTCAAAA
350449 CCTTTGAATTTCAGAAAGAACCAATTCTCCCCCTCTTAGTTCATCCATTCCTAAAGCTTACAATT
715 CCTTTGAATTTCAGAAAGAACCAATTCTCCCCCTCTTAGTTCATCCATTCCTAAAGCTTACAATT
350514 GGTATCAGAGCCTAAACTCCTTCAACGGATTCACACCCGGAGAGATGATCTTCTTCAGCACAAAA
780 GGTATCAGAGCCTAAACTCCTTCAACGGATTCACACCCGGAGAGATGATCTTCTTCAGCACAAAA
*
350579 ATGGAAAATGCAGCAATAGTTAAAGTTTCTCAATCGTTGAACTAAGAAAATATGTGTCT
845 ATGGAAAATACAGCAATAGTTAAAGTTTCTCAATCGTTGAACTAAGAAAATATGTGTCT
350638 TATGGCGTTG
Statistics
Matches: 890, Mismatches: 12, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
903 1 0.00
904 889 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.33
Consensus pattern (904 bp):
ATGTATCAATACATGAAGAATTGTATCAATGCATTGTCTCAAACGACTATAAACAGCTATAATTT
TAAATGCATGTATCGATACATTATGAATTGTATCGATACATAGCAACGGGAATGCATGGAAACAA
GCACCAAACAAGTCAACAACGACTACAAACACAATCATTTAACCTCAAACGAGTTTGTCAACATT
CAAGCCTATAAATTTGAGTCTTCAACAGCTAAACAAAAAGAGAATCCATCAAGAAACACTAAGAG
ATCAAAGCATTCAAAGTTTTATTCATTTTCTCATTTTAAGAGCTTTCACATTTATTTTTGTTATT
TTTTGAAAGCTCTTTGTATTTGATTTGTGTTTATTTTTTCACAAATATCAGCCTATTTAAAGGCA
ATTTTCGTTTATATAATTTCCTTGAATTTTGTAAGGTTGTATTCAACCTTGGGTTACGATTTCTC
AAGAATTTGAGGTATAATTCTTAGAGAGATTTTAAGGTTTTTATCTTAGCCTAGAAAAGATAAAG
TGTTGTAAGGTTATACCTTTCCTAAAAGGTAAAACAATTCGTGTATTGAATTGTGGTAACACTCG
ACAAGAAAGTGTCAAGGAGAGAGGACGTAGGTGCCGTGTTTGGACTGAACCTCTATAAATATTCG
TGTCAAGCCTTCTCATCCCTACTCTCTTTACTTTCAAGTTGTTTTCAAAACAATTATTTCAAAAC
CTTTGAATTTCAGAAAGAACCAATTCTCCCCCTCTTAGTTCATCCATTCCTAAAGCTTACAATTG
GTATCAGAGCCTAAACTCCTTCAACGGATTCACACCCGGAGAGATGATCTTCTTCAGCACAAAAA
TGGAAAATACAGCAATAGTTAAAGTTTCTCAATCGTTGAACTAAGAAAATATGTGTCTC
Found at i:355875 original size:13 final size:12
Alignment explanation
Indices: 355857--355892 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
355847 TGTTCTTTGC
355857 ATCGATACATTGT
1 ATCGATACATT-T
355870 ATCGATACAATTT
1 ATCGATAC-ATTT
355883 ATCGATACAT
1 ATCGATACAT
355893 GGGTTACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 2 0.09
13 17 0.77
14 3 0.14
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (12 bp):
ATCGATACATTT
Found at i:358451 original size:13 final size:13
Alignment explanation
Indices: 358433--358492 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 13
358423 ACACTATGCT
358433 TTGTATCGATACA
1 TTGTATCGATACA
*
358446 TTGTATTGATACA
1 TTGTATCGATACA
*
358459 -T-TAT-G---CT
1 TTGTATCGATACA
*
358466 TTGTATTGATACA
1 TTGTATCGATACA
358479 TTGTATCGATACA
1 TTGTATCGATACA
358492 T
1 T
358493 ACACAATTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.08
10 2 0.05
11 3 0.08
12 1 0.03
13 26 0.70
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:358492 original size:33 final size:33
Alignment explanation
Indices: 358414--358492 Score: 131
Period size: 33 Copynumber: 2.4 Consensus size: 33
358404 CATGTCCAGA
*
358414 TGTATCGATACACTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
* *
358447 TGTATTGATACATTATGCTTTGTATTGATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
358480 TGTATCGATACAT
1 TGTATCGATACAT
358493 ACACAATTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATTATGCTTTGTATCGATACAT
Found at i:358503 original size:33 final size:33
Alignment explanation
Indices: 358414--358512 Score: 101
Period size: 33 Copynumber: 3.0 Consensus size: 33
358404 CATGTCCAGA
* ** *
358414 TGTATCGATACACTATGCTTTGTATCGATACAT
1 TGTATCGATACATTACACATTGTATCGATACAT
* ** * *
358447 TGTATTGATACATTATGCTTTGTATTGATACAT
1 TGTATCGATACATTACACATTGTATCGATACAT
358480 TGTATCGATACA-TACACAATTGTATCGATACAT
1 TGTATCGATACATTACAC-ATTGTATCGATACAT
358513 GAAACTAGTA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
32 3 0.05
33 54 0.95
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATTACACATTGTATCGATACAT
Found at i:358581 original size:13 final size:13
Alignment explanation
Indices: 358563--358587 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
358553 CATGGCACAG
358563 TGTATCGATACAA
1 TGTATCGATACAA
358576 TGTATCGATACA
1 TGTATCGATACA
358588 TGAAGAATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:360307 original size:20 final size:20
Alignment explanation
Indices: 360265--360308 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
360255 CGAACTAAGA
* *
360265 TATTCAGATATCTCTATGAG
1 TATTCAGATATCCCCATGAG
* *
360285 TATTCGGATATCCCCATGGG
1 TATTCAGATATCCCCATGAG
360305 TATT
1 TATT
360309 TTGGTACTAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (20 bp):
TATTCAGATATCCCCATGAG
Found at i:363144 original size:9 final size:9
Alignment explanation
Indices: 363130--363180 Score: 66
Period size: 9 Copynumber: 5.4 Consensus size: 9
363120 GATAGGGAAA
363130 AAAAAAGAG
1 AAAAAAGAG
*
363139 AAAAAAAGAA
1 -AAAAAAGAG
363149 AAAAAAGAG
1 AAAAAAGAG
363158 AAAAAAGAG
1 AAAAAAGAG
*
363167 AGAAAAAAAG
1 A-AAAAAGAG
363177 AAAA
1 AAAA
363181 TCCAAAGCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
9 21 0.57
10 16 0.43
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAAAAAGAG
Found at i:363144 original size:11 final size:10
Alignment explanation
Indices: 363126--363180 Score: 67
Period size: 10 Copynumber: 5.5 Consensus size: 10
363116 GGCTGATAGG
363126 GAAAAAAAAA
1 GAAAAAAAAA
*
363136 GAGAAAAAAA
1 GAAAAAAAAA
363146 G-AAAAAAAA
1 GAAAAAAAAA
*
363155 GAGAAAAAAGA
1 GA-AAAAAAAA
*
363166 GAGAAAAAAA
1 GAAAAAAAAA
363176 GAAAA
1 GAAAA
363181 TCCAAAGCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
9 8 0.22
10 20 0.54
11 9 0.24
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:363152 original size:19 final size:20
Alignment explanation
Indices: 363128--363177 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
363118 CTGATAGGGA
363128 AAAAAAAAGAGAAAAAA-AG
1 AAAAAAAAGAGAAAAAAGAG
363147 AAAAAAAAGAGAAAAAAGAG
1 AAAAAAAAGAGAAAAAAGAG
363167 AGAAAAAAAGA
1 A-AAAAAAAGA
363178 AAATCCAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 17 0.59
20 3 0.10
21 9 0.31
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAAAAAAGAGAAAAAAGAG
Found at i:363178 original size:19 final size:19
Alignment explanation
Indices: 363126--363180 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
363116 GGCTGATAGG
363126 GAAAAAAAAAGAGAAAAAAA
1 GAAAAAAAAAGA-AAAAAAA
*
363146 GAAAAAAAAGAGAAAAAAGA
1 GAAAAAAAA-AGAAAAAAAA
*
363166 GAGAAAAAAAGAAAA
1 GAAAAAAAAAGAAAA
363181 TCCAAAGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 6 0.19
20 23 0.72
21 3 0.09
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (19 bp):
GAAAAAAAAAGAAAAAAAA
Found at i:364060 original size:7 final size:8
Alignment explanation
Indices: 364043--364072 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
364033 AAAATTTTGG
364043 AAATAAAA
1 AAATAAAA
364051 AAATAAAA
1 AAATAAAA
364059 AAAT-AAA
1 AAATAAAA
364066 AAATAAA
1 AAATAAA
364073 TTCTTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAATAAAA
Found at i:364066 original size:15 final size:16
Alignment explanation
Indices: 364043--364072 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
364033 AAAATTTTGG
364043 AAATAAAAAAATAAAA
1 AAATAAAAAAATAAAA
364059 AAAT-AAAAAATAAA
1 AAATAAAAAAATAAA
364073 TTCTTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (16 bp):
AAATAAAAAAATAAAA
Found at i:364994 original size:20 final size:19
Alignment explanation
Indices: 364969--365022 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
364959 GGGCATATTT
*
364969 TATCGATACATTTCTTCATG
1 TATCGATACATTTC-CCATG
*
364989 TATCGATACAATATCCCATG
1 TATCGATAC-ATTTCCCATG
365009 TATCGATACATTTC
1 TATCGATACATTTC
365023 ACTTAGGGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.13
20 22 0.73
21 4 0.13
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (19 bp):
TATCGATACATTTCCCATG
Found at i:367896 original size:13 final size:13
Alignment explanation
Indices: 367878--367902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
367868 CATTTTATGG
367878 TGTATCGATACAA
1 TGTATCGATACAA
367891 TGTATCGATACA
1 TGTATCGATACA
367903 TACTATGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:367918 original size:32 final size:33
Alignment explanation
Indices: 367855--367922 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
367845 CGTTACAAGC
**
367855 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
367888 CAATGTATCGATACATACTAT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
367920 CAA
1 CAA
367923 GTTTAGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:368655 original size:43 final size:43
Alignment explanation
Indices: 368586--368677 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 43
368576 CATTCTCCCC
*
368586 TTTAATCATAAGCACTTATCTCTTTCTCCCCCTTAATCAAAAA
1 TTTATTCATAAGCACTTATCTCTTTCTCCCCCTTAATCAAAAA
*
368629 TTTATTCATAAGCACTTATCTTTTTCTCCCCCTTAATCAAAAA
1 TTTATTCATAAGCACTTATCTCTTTCTCCCCCTTAATCAAAAA
368672 TTTATT
1 TTTATT
368678 TGCACATATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.30, C:0.25, G:0.02, T:0.42
Consensus pattern (43 bp):
TTTATTCATAAGCACTTATCTCTTTCTCCCCCTTAATCAAAAA
Found at i:370481 original size:13 final size:13
Alignment explanation
Indices: 370463--370501 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
370453 ATAATCCCCC
370463 TGTATCGATACAG
1 TGTATCGATACAG
*
370476 TGTATCGATACAA
1 TGTATCGATACAG
370489 TGTATCGATACAG
1 TGTATCGATACAG
370502 AGAATGATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:376696 original size:19 final size:20
Alignment explanation
Indices: 376653--376703 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
376643 TACAAGCCAA
**
376653 TGTATCGATACATTTTATGG
1 TGTATCGATACATACTATGG
376673 TGTATCGATACATACTAT-G
1 TGTATCGATACATACTATGG
376692 TGTATCGATACA
1 TGTATCGATACA
376704 AGTTTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATACTATGG
Found at i:380556 original size:20 final size:20
Alignment explanation
Indices: 380527--380565 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
380517 CAGAAATGCC
380527 TGAATATATCAATACATTTA
1 TGAATATATCAATACATTTA
* *
380547 TGAATGTATCGATACATTT
1 TGAATATATCAATACATTT
380566 TAGTGTGTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
TGAATATATCAATACATTTA
Found at i:384496 original size:17 final size:17
Alignment explanation
Indices: 384474--384506 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
384464 TATGAAAATA
*
384474 TTTTATTTTAATTTAAT
1 TTTTATTTAAATTTAAT
384491 TTTTATTTAAATTTAA
1 TTTTATTTAAATTTAA
384507 ATATTCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTATTTAAATTTAAT
Found at i:393035 original size:19 final size:19
Alignment explanation
Indices: 393013--393057 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
393003 AAATGTATTA
* *
393013 ATACAATTTTAATGTATCG
1 ATACAATTTCAATATATCG
*
393032 ATACAAATTTCATTATATCG
1 ATAC-AATTTCAATATATCG
393052 ATACAA
1 ATACAA
393058 ACTGAAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (19 bp):
ATACAATTTCAATATATCG
Found at i:394244 original size:8 final size:8
Alignment explanation
Indices: 394222--394261 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
394212 CAAAAAAATT
394222 AAAAATCCA
1 AAAAAT-CA
*
394231 AGAAATCA
1 AAAAATCA
394239 AAAAATCAA
1 AAAAATC-A
394248 AAAAATCA
1 AAAAATCA
394256 AAAAAT
1 AAAAAT
394262 AATAATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 15 0.54
9 13 0.46
ACGTcount: A:0.72, C:0.12, G:0.03, T:0.12
Consensus pattern (8 bp):
AAAAATCA
Found at i:394244 original size:17 final size:17
Alignment explanation
Indices: 394212--394261 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
394202 ATTTTCGACA
*
394212 CAAAAAAAT-TAAAAAT
1 CAAAAAAATCAAAAAAT
* *
394228 CCAAGAAATCAAAAAAT
1 CAAAAAAATCAAAAAAT
394245 CAAAAAAATCAAAAAAT
1 CAAAAAAATCAAAAAAT
394262 AATAATAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 7 0.25
17 21 0.75
ACGTcount: A:0.72, C:0.12, G:0.02, T:0.14
Consensus pattern (17 bp):
CAAAAAAATCAAAAAAT
Found at i:394250 original size:9 final size:9
Alignment explanation
Indices: 394222--394260 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
394212 CAAAAAAATT
*
394222 AAAAATCCA
1 AAAAATCAA
*
394231 AGAAATC-A
1 AAAAATCAA
394239 AAAAATCAA
1 AAAAATCAA
394248 AAAAATCAA
1 AAAAATCAA
394257 AAAA
1 AAAA
394261 TAATAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.74, C:0.13, G:0.03, T:0.10
Consensus pattern (9 bp):
AAAAATCAA
Found at i:395859 original size:79 final size:79
Alignment explanation
Indices: 395755--396025 Score: 265
Period size: 79 Copynumber: 3.4 Consensus size: 79
395745 CAAAATATCG
* ** * *
395755 ATTTTTCACAATCGAAGATATTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTC
1 ATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTA
* * *
395820 CTTCTAAAACATTG
66 ATTCCAAAACATTA
* * * * *
395834 ATTTTCCACCATCGGGGATACTCCAACCTCGTAATTTTTGAGGAGATACTCCAACCCCGATTTTA
1 ATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTA
* * *
395899 TTTCCATAACATCA
66 ATTCCAAAACATTA
** * * * * * *
395913 ATTTTCCACAATTAGAGATACTCCAATCCCGTTA-TTTCTGAGTGGATACTTCAATCCCAGTTTT
1 ATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAA-CCCCGATTT
* *
395977 TGATTCCAAAATATTA
64 TAATTCCAAAACATTA
* *
395993 ATTTTTCACAATCGTGGATACTCCAACCCCGTT
1 ATTTTCCACAATCGGGGATACTCCAACCCCGTT
396026 TTTCAACCAA
Statistics
Matches: 151, Mismatches: 39, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
78 3 0.02
79 103 0.68
80 45 0.30
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (79 bp):
ATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTA
ATTCCAAAACATTA
Found at i:405804 original size:13 final size:13
Alignment explanation
Indices: 405786--405811 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
405776 CATTATTCAA
405786 TGTATCGATACAT
1 TGTATCGATACAT
405799 TGTATCGATACAT
1 TGTATCGATACAT
405812 CGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:405879 original size:20 final size:20
Alignment explanation
Indices: 405850--405936 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
405840 TTTACCCAGA
*
405850 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGCT-CAT
*
405870 TGTATTGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
405890 TGTATCGAT--A-----CAT
1 TGTATCGATACATTGCTCAT
405903 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
405923 TGTATCGATACATT
1 TGTATCGATACATT
405937 TTACAATTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
13 12 0.21
15 1 0.02
18 1 0.02
20 41 0.73
21 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Done.