Multiple sequence alignment - TraesCS2D01G298300

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS2D01G298300 chr2D 100.000 2977 0 0 1 2977 380677708 380680684 0.000000e+00 5498
1 TraesCS2D01G298300 chr4D 97.327 2581 46 9 408 2977 108842224 108844792 0.000000e+00 4362
2 TraesCS2D01G298300 chr3D 96.792 2587 54 8 408 2977 594954919 594952345 0.000000e+00 4290
3 TraesCS2D01G298300 chr3D 97.825 2253 39 4 730 2977 590153646 590155893 0.000000e+00 3880
4 TraesCS2D01G298300 chr1D 94.207 2624 90 14 408 2977 42897256 42894641 0.000000e+00 3947
5 TraesCS2D01G298300 chr1D 97.699 2260 43 2 727 2977 7180817 7183076 0.000000e+00 3877
6 TraesCS2D01G298300 chr1D 97.190 1388 30 4 741 2123 4307997 4306614 0.000000e+00 2338
7 TraesCS2D01G298300 chr1D 84.651 215 19 6 186 398 190104980 190105182 5.030000e-48 202
8 TraesCS2D01G298300 chr1A 92.314 2641 100 38 408 2977 572001396 571998788 0.000000e+00 3657
9 TraesCS2D01G298300 chr5D 97.322 2054 50 2 929 2977 449488326 449490379 0.000000e+00 3483
10 TraesCS2D01G298300 chr5D 91.795 1950 98 16 405 2315 388593170 388595096 0.000000e+00 2658
11 TraesCS2D01G298300 chr5D 96.187 1390 40 5 408 1790 406899477 406900860 0.000000e+00 2261
12 TraesCS2D01G298300 chr5D 83.562 219 30 4 189 402 12581556 12581339 1.810000e-47 200
13 TraesCS2D01G298300 chr2A 91.967 2328 127 26 409 2708 38507331 38505036 0.000000e+00 3208
14 TraesCS2D01G298300 chr5A 96.803 1658 51 1 1322 2977 573011283 573009626 0.000000e+00 2767
15 TraesCS2D01G298300 chr5A 93.932 791 30 8 2205 2977 552242117 552241327 0.000000e+00 1179
16 TraesCS2D01G298300 chr2B 91.780 1837 94 15 408 2206 80552660 80550843 0.000000e+00 2503
17 TraesCS2D01G298300 chr7D 97.085 892 11 4 750 1638 123498449 123497570 0.000000e+00 1489
18 TraesCS2D01G298300 chr7D 83.105 219 23 6 187 403 185303158 185302952 1.410000e-43 187
19 TraesCS2D01G298300 chr6A 95.864 411 13 2 1 407 578606640 578607050 0.000000e+00 662
20 TraesCS2D01G298300 chr4B 88.372 215 22 2 187 399 22804778 22804991 3.810000e-64 255
21 TraesCS2D01G298300 chr4B 87.383 214 23 3 187 398 22754077 22754288 2.960000e-60 243
22 TraesCS2D01G298300 chr7A 85.047 214 17 7 187 398 373859412 373859212 1.400000e-48 204
23 TraesCS2D01G298300 chr5B 86.413 184 19 2 187 368 24638469 24638648 2.340000e-46 196
24 TraesCS2D01G298300 chr5B 85.326 184 21 2 187 368 24633176 24633355 5.070000e-43 185


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G298300 chr2D 380677708 380680684 2976 False 5498 5498 100.000 1 2977 1 chr2D.!!$F1 2976
1 TraesCS2D01G298300 chr4D 108842224 108844792 2568 False 4362 4362 97.327 408 2977 1 chr4D.!!$F1 2569
2 TraesCS2D01G298300 chr3D 594952345 594954919 2574 True 4290 4290 96.792 408 2977 1 chr3D.!!$R1 2569
3 TraesCS2D01G298300 chr3D 590153646 590155893 2247 False 3880 3880 97.825 730 2977 1 chr3D.!!$F1 2247
4 TraesCS2D01G298300 chr1D 42894641 42897256 2615 True 3947 3947 94.207 408 2977 1 chr1D.!!$R2 2569
5 TraesCS2D01G298300 chr1D 7180817 7183076 2259 False 3877 3877 97.699 727 2977 1 chr1D.!!$F1 2250
6 TraesCS2D01G298300 chr1D 4306614 4307997 1383 True 2338 2338 97.190 741 2123 1 chr1D.!!$R1 1382
7 TraesCS2D01G298300 chr1A 571998788 572001396 2608 True 3657 3657 92.314 408 2977 1 chr1A.!!$R1 2569
8 TraesCS2D01G298300 chr5D 449488326 449490379 2053 False 3483 3483 97.322 929 2977 1 chr5D.!!$F3 2048
9 TraesCS2D01G298300 chr5D 388593170 388595096 1926 False 2658 2658 91.795 405 2315 1 chr5D.!!$F1 1910
10 TraesCS2D01G298300 chr5D 406899477 406900860 1383 False 2261 2261 96.187 408 1790 1 chr5D.!!$F2 1382
11 TraesCS2D01G298300 chr2A 38505036 38507331 2295 True 3208 3208 91.967 409 2708 1 chr2A.!!$R1 2299
12 TraesCS2D01G298300 chr5A 573009626 573011283 1657 True 2767 2767 96.803 1322 2977 1 chr5A.!!$R2 1655
13 TraesCS2D01G298300 chr5A 552241327 552242117 790 True 1179 1179 93.932 2205 2977 1 chr5A.!!$R1 772
14 TraesCS2D01G298300 chr2B 80550843 80552660 1817 True 2503 2503 91.780 408 2206 1 chr2B.!!$R1 1798
15 TraesCS2D01G298300 chr7D 123497570 123498449 879 True 1489 1489 97.085 750 1638 1 chr7D.!!$R1 888

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
836 860 0.034059 AACAGCAACGAGACCTCTGG 59.966 55.0 0.0 0.0 0.0 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2816 2962 0.316204 GCATGGACCAGCAATATGGC 59.684 55.0 0.0 0.0 44.8 4.4 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 3.503363 GCACAGCGGCATCCAGTC 61.503 66.667 1.45 0.00 0.00 3.51
25 26 2.821366 CACAGCGGCATCCAGTCC 60.821 66.667 1.45 0.00 0.00 3.85
26 27 4.101448 ACAGCGGCATCCAGTCCC 62.101 66.667 1.45 0.00 0.00 4.46
27 28 3.790437 CAGCGGCATCCAGTCCCT 61.790 66.667 1.45 0.00 0.00 4.20
28 29 3.474570 AGCGGCATCCAGTCCCTC 61.475 66.667 1.45 0.00 0.00 4.30
29 30 4.899239 GCGGCATCCAGTCCCTCG 62.899 72.222 0.00 0.00 0.00 4.63
30 31 3.461773 CGGCATCCAGTCCCTCGT 61.462 66.667 0.00 0.00 0.00 4.18
31 32 2.501610 GGCATCCAGTCCCTCGTC 59.498 66.667 0.00 0.00 0.00 4.20
32 33 2.105128 GCATCCAGTCCCTCGTCG 59.895 66.667 0.00 0.00 0.00 5.12
33 34 2.808315 CATCCAGTCCCTCGTCGG 59.192 66.667 0.00 0.00 0.00 4.79
42 43 3.147595 CCTCGTCGGGATCTGCCA 61.148 66.667 0.00 0.00 38.95 4.92
43 44 2.721167 CCTCGTCGGGATCTGCCAA 61.721 63.158 0.00 0.00 38.95 4.52
44 45 1.218047 CTCGTCGGGATCTGCCAAA 59.782 57.895 0.00 0.00 38.95 3.28
45 46 1.079405 TCGTCGGGATCTGCCAAAC 60.079 57.895 0.00 0.00 38.95 2.93
46 47 1.375396 CGTCGGGATCTGCCAAACA 60.375 57.895 0.00 0.00 38.95 2.83
54 55 4.404691 CTGCCAAACAGGGGACTC 57.595 61.111 0.00 0.00 43.19 3.36
55 56 1.763770 CTGCCAAACAGGGGACTCT 59.236 57.895 0.00 0.00 43.19 3.24
56 57 0.111253 CTGCCAAACAGGGGACTCTT 59.889 55.000 0.00 0.00 43.19 2.85
57 58 0.110486 TGCCAAACAGGGGACTCTTC 59.890 55.000 0.00 0.00 40.21 2.87
58 59 0.955919 GCCAAACAGGGGACTCTTCG 60.956 60.000 0.00 0.00 40.21 3.79
59 60 0.396811 CCAAACAGGGGACTCTTCGT 59.603 55.000 0.00 0.00 40.21 3.85
60 61 1.608283 CCAAACAGGGGACTCTTCGTC 60.608 57.143 0.00 0.00 40.21 4.20
68 69 2.654802 GACTCTTCGTCCCAGTCCA 58.345 57.895 0.00 0.00 36.62 4.02
69 70 0.244178 GACTCTTCGTCCCAGTCCAC 59.756 60.000 0.00 0.00 36.62 4.02
70 71 1.213013 CTCTTCGTCCCAGTCCACG 59.787 63.158 0.00 0.00 37.36 4.94
71 72 2.214181 CTCTTCGTCCCAGTCCACGG 62.214 65.000 0.00 0.00 36.64 4.94
72 73 3.934391 CTTCGTCCCAGTCCACGGC 62.934 68.421 0.00 0.00 36.64 5.68
74 75 4.742201 CGTCCCAGTCCACGGCAG 62.742 72.222 0.00 0.00 32.19 4.85
75 76 3.311110 GTCCCAGTCCACGGCAGA 61.311 66.667 0.00 0.00 0.00 4.26
76 77 3.311110 TCCCAGTCCACGGCAGAC 61.311 66.667 0.00 0.00 34.31 3.51
77 78 3.625897 CCCAGTCCACGGCAGACA 61.626 66.667 0.00 0.00 36.68 3.41
78 79 2.665000 CCAGTCCACGGCAGACAT 59.335 61.111 0.00 0.00 36.68 3.06
79 80 1.448540 CCAGTCCACGGCAGACATC 60.449 63.158 0.00 0.00 36.68 3.06
80 81 1.293179 CAGTCCACGGCAGACATCA 59.707 57.895 0.00 0.00 36.68 3.07
81 82 1.016130 CAGTCCACGGCAGACATCAC 61.016 60.000 0.00 0.00 36.68 3.06
82 83 2.094659 GTCCACGGCAGACATCACG 61.095 63.158 0.00 0.00 34.27 4.35
83 84 3.490759 CCACGGCAGACATCACGC 61.491 66.667 0.00 0.00 0.00 5.34
84 85 2.433145 CACGGCAGACATCACGCT 60.433 61.111 0.00 0.00 0.00 5.07
85 86 2.125912 ACGGCAGACATCACGCTC 60.126 61.111 0.00 0.00 0.00 5.03
86 87 2.125952 CGGCAGACATCACGCTCA 60.126 61.111 0.00 0.00 0.00 4.26
87 88 2.447887 CGGCAGACATCACGCTCAC 61.448 63.158 0.00 0.00 0.00 3.51
88 89 1.374631 GGCAGACATCACGCTCACA 60.375 57.895 0.00 0.00 0.00 3.58
89 90 0.950555 GGCAGACATCACGCTCACAA 60.951 55.000 0.00 0.00 0.00 3.33
90 91 0.867746 GCAGACATCACGCTCACAAA 59.132 50.000 0.00 0.00 0.00 2.83
91 92 1.136141 GCAGACATCACGCTCACAAAG 60.136 52.381 0.00 0.00 0.00 2.77
100 101 3.468007 CTCACAAAGCTCTCCGCG 58.532 61.111 0.00 0.00 45.59 6.46
101 102 2.048222 TCACAAAGCTCTCCGCGG 60.048 61.111 22.12 22.12 45.59 6.46
102 103 2.048222 CACAAAGCTCTCCGCGGA 60.048 61.111 29.03 29.03 45.59 5.54
103 104 2.097038 CACAAAGCTCTCCGCGGAG 61.097 63.158 42.89 42.89 45.59 4.63
133 134 2.887568 CACGTGCTGGCCGAGATC 60.888 66.667 0.82 0.00 0.00 2.75
134 135 4.498520 ACGTGCTGGCCGAGATCG 62.499 66.667 0.00 7.85 39.44 3.69
135 136 4.498520 CGTGCTGGCCGAGATCGT 62.499 66.667 0.00 0.00 37.74 3.73
136 137 2.583593 GTGCTGGCCGAGATCGTC 60.584 66.667 0.00 0.00 37.74 4.20
137 138 3.838271 TGCTGGCCGAGATCGTCC 61.838 66.667 0.00 0.00 37.97 4.79
138 139 4.933064 GCTGGCCGAGATCGTCCG 62.933 72.222 0.00 0.00 40.77 4.79
139 140 4.933064 CTGGCCGAGATCGTCCGC 62.933 72.222 0.00 0.00 40.77 5.54
144 145 4.630785 CGAGATCGTCCGCGCCAT 62.631 66.667 0.00 0.00 38.14 4.40
145 146 3.032609 GAGATCGTCCGCGCCATG 61.033 66.667 0.00 0.00 38.14 3.66
146 147 4.592192 AGATCGTCCGCGCCATGG 62.592 66.667 7.63 7.63 38.14 3.66
157 158 3.766691 GCCATGGCCAACCTGCTG 61.767 66.667 27.24 1.10 36.63 4.41
158 159 3.072468 CCATGGCCAACCTGCTGG 61.072 66.667 10.96 8.22 39.71 4.85
159 160 2.036098 CATGGCCAACCTGCTGGA 59.964 61.111 10.96 0.00 38.96 3.86
160 161 2.036256 ATGGCCAACCTGCTGGAC 59.964 61.111 10.96 1.93 45.82 4.02
161 162 2.541907 ATGGCCAACCTGCTGGACT 61.542 57.895 10.96 0.00 45.80 3.85
162 163 2.674380 GGCCAACCTGCTGGACTG 60.674 66.667 17.64 12.30 41.84 3.51
163 164 3.368571 GCCAACCTGCTGGACTGC 61.369 66.667 17.64 10.94 38.96 4.40
164 165 3.052082 CCAACCTGCTGGACTGCG 61.052 66.667 17.64 4.15 38.96 5.18
165 166 3.052082 CAACCTGCTGGACTGCGG 61.052 66.667 17.64 3.33 38.94 5.69
172 173 4.415150 CTGGACTGCGGCACCCAT 62.415 66.667 16.69 0.00 0.00 4.00
173 174 4.720902 TGGACTGCGGCACCCATG 62.721 66.667 13.49 0.43 0.00 3.66
183 184 4.100084 CACCCATGCTCGGCTCCA 62.100 66.667 0.00 0.00 0.00 3.86
184 185 3.329889 ACCCATGCTCGGCTCCAA 61.330 61.111 0.00 0.00 0.00 3.53
185 186 2.825836 CCCATGCTCGGCTCCAAC 60.826 66.667 0.00 0.00 0.00 3.77
186 187 2.270205 CCATGCTCGGCTCCAACT 59.730 61.111 0.00 0.00 0.00 3.16
187 188 2.110967 CCATGCTCGGCTCCAACTG 61.111 63.158 0.00 0.00 0.00 3.16
188 189 1.376424 CATGCTCGGCTCCAACTGT 60.376 57.895 0.00 0.00 0.00 3.55
189 190 0.957395 CATGCTCGGCTCCAACTGTT 60.957 55.000 0.00 0.00 0.00 3.16
190 191 0.250901 ATGCTCGGCTCCAACTGTTT 60.251 50.000 0.00 0.00 0.00 2.83
191 192 1.165907 TGCTCGGCTCCAACTGTTTG 61.166 55.000 0.00 0.00 0.00 2.93
192 193 0.884704 GCTCGGCTCCAACTGTTTGA 60.885 55.000 0.00 0.00 34.24 2.69
193 194 1.151668 CTCGGCTCCAACTGTTTGAG 58.848 55.000 15.22 15.22 34.24 3.02
194 195 0.250295 TCGGCTCCAACTGTTTGAGG 60.250 55.000 19.49 6.43 34.24 3.86
195 196 0.535102 CGGCTCCAACTGTTTGAGGT 60.535 55.000 19.49 0.00 34.24 3.85
196 197 1.270625 CGGCTCCAACTGTTTGAGGTA 60.271 52.381 19.49 0.00 34.24 3.08
197 198 2.427506 GGCTCCAACTGTTTGAGGTAG 58.572 52.381 19.49 6.97 34.24 3.18
198 199 2.038557 GGCTCCAACTGTTTGAGGTAGA 59.961 50.000 19.49 0.00 34.24 2.59
199 200 3.330267 GCTCCAACTGTTTGAGGTAGAG 58.670 50.000 19.49 6.54 34.24 2.43
200 201 3.006967 GCTCCAACTGTTTGAGGTAGAGA 59.993 47.826 19.49 0.00 34.24 3.10
201 202 4.503296 GCTCCAACTGTTTGAGGTAGAGAA 60.503 45.833 19.49 0.00 34.24 2.87
202 203 5.215252 TCCAACTGTTTGAGGTAGAGAAG 57.785 43.478 0.00 0.00 34.24 2.85
203 204 4.899457 TCCAACTGTTTGAGGTAGAGAAGA 59.101 41.667 0.00 0.00 34.24 2.87
204 205 5.544176 TCCAACTGTTTGAGGTAGAGAAGAT 59.456 40.000 0.00 0.00 34.24 2.40
205 206 5.872070 CCAACTGTTTGAGGTAGAGAAGATC 59.128 44.000 0.00 0.00 34.24 2.75
206 207 5.317733 ACTGTTTGAGGTAGAGAAGATCG 57.682 43.478 0.00 0.00 0.00 3.69
207 208 5.010933 ACTGTTTGAGGTAGAGAAGATCGA 58.989 41.667 0.00 0.00 0.00 3.59
208 209 5.477291 ACTGTTTGAGGTAGAGAAGATCGAA 59.523 40.000 0.00 0.00 0.00 3.71
209 210 5.710984 TGTTTGAGGTAGAGAAGATCGAAC 58.289 41.667 0.00 0.00 35.66 3.95
210 211 5.243060 TGTTTGAGGTAGAGAAGATCGAACA 59.757 40.000 0.00 2.90 40.33 3.18
211 212 4.966965 TGAGGTAGAGAAGATCGAACAC 57.033 45.455 0.00 0.00 0.00 3.32
212 213 4.332828 TGAGGTAGAGAAGATCGAACACA 58.667 43.478 0.00 0.00 0.00 3.72
213 214 4.156190 TGAGGTAGAGAAGATCGAACACAC 59.844 45.833 0.00 0.00 0.00 3.82
214 215 4.337145 AGGTAGAGAAGATCGAACACACT 58.663 43.478 0.00 0.00 0.00 3.55
215 216 4.767928 AGGTAGAGAAGATCGAACACACTT 59.232 41.667 0.00 0.00 0.00 3.16
216 217 5.244178 AGGTAGAGAAGATCGAACACACTTT 59.756 40.000 0.00 0.00 0.00 2.66
217 218 5.346281 GGTAGAGAAGATCGAACACACTTTG 59.654 44.000 0.00 0.00 0.00 2.77
218 219 3.743396 AGAGAAGATCGAACACACTTTGC 59.257 43.478 0.00 0.00 0.00 3.68
219 220 3.466836 AGAAGATCGAACACACTTTGCA 58.533 40.909 0.00 0.00 0.00 4.08
220 221 4.067896 AGAAGATCGAACACACTTTGCAT 58.932 39.130 0.00 0.00 0.00 3.96
221 222 4.516698 AGAAGATCGAACACACTTTGCATT 59.483 37.500 0.00 0.00 0.00 3.56
222 223 4.151258 AGATCGAACACACTTTGCATTG 57.849 40.909 0.00 0.00 0.00 2.82
223 224 3.814842 AGATCGAACACACTTTGCATTGA 59.185 39.130 0.00 0.00 0.00 2.57
224 225 4.456911 AGATCGAACACACTTTGCATTGAT 59.543 37.500 0.00 0.00 0.00 2.57
225 226 4.145876 TCGAACACACTTTGCATTGATC 57.854 40.909 0.00 0.00 0.00 2.92
226 227 3.563390 TCGAACACACTTTGCATTGATCA 59.437 39.130 0.00 0.00 0.00 2.92
227 228 3.910170 CGAACACACTTTGCATTGATCAG 59.090 43.478 0.00 0.00 0.00 2.90
228 229 4.319694 CGAACACACTTTGCATTGATCAGA 60.320 41.667 0.00 0.00 0.00 3.27
229 230 5.518848 AACACACTTTGCATTGATCAGAA 57.481 34.783 0.00 0.00 0.00 3.02
230 231 5.518848 ACACACTTTGCATTGATCAGAAA 57.481 34.783 0.00 0.00 0.00 2.52
231 232 5.904941 ACACACTTTGCATTGATCAGAAAA 58.095 33.333 0.00 0.00 0.00 2.29
232 233 5.981315 ACACACTTTGCATTGATCAGAAAAG 59.019 36.000 11.99 11.99 0.00 2.27
233 234 5.981315 CACACTTTGCATTGATCAGAAAAGT 59.019 36.000 13.03 13.03 38.13 2.66
234 235 6.477688 CACACTTTGCATTGATCAGAAAAGTT 59.522 34.615 15.26 7.46 36.10 2.66
235 236 7.648908 CACACTTTGCATTGATCAGAAAAGTTA 59.351 33.333 15.26 0.00 36.10 2.24
236 237 7.649306 ACACTTTGCATTGATCAGAAAAGTTAC 59.351 33.333 15.26 0.00 36.10 2.50
237 238 7.648908 CACTTTGCATTGATCAGAAAAGTTACA 59.351 33.333 15.26 0.00 36.10 2.41
238 239 7.649306 ACTTTGCATTGATCAGAAAAGTTACAC 59.351 33.333 13.03 0.00 35.00 2.90
239 240 6.882610 TGCATTGATCAGAAAAGTTACACT 57.117 33.333 0.00 0.00 0.00 3.55
240 241 7.275888 TGCATTGATCAGAAAAGTTACACTT 57.724 32.000 0.00 0.00 40.80 3.16
241 242 8.389779 TGCATTGATCAGAAAAGTTACACTTA 57.610 30.769 0.00 0.00 37.47 2.24
242 243 9.013229 TGCATTGATCAGAAAAGTTACACTTAT 57.987 29.630 0.00 0.00 37.47 1.73
249 250 9.877178 ATCAGAAAAGTTACACTTATACAGAGG 57.123 33.333 0.00 0.00 37.47 3.69
250 251 8.311836 TCAGAAAAGTTACACTTATACAGAGGG 58.688 37.037 0.00 0.00 37.47 4.30
251 252 7.549488 CAGAAAAGTTACACTTATACAGAGGGG 59.451 40.741 0.00 0.00 37.47 4.79
252 253 5.952347 AAGTTACACTTATACAGAGGGGG 57.048 43.478 0.00 0.00 36.52 5.40
269 270 4.500116 GGACAGAGGGCGCGAGAC 62.500 72.222 12.10 0.00 39.70 3.36
289 290 2.961721 CGATGGTGATCGTGGCCG 60.962 66.667 0.00 0.00 45.43 6.13
290 291 2.588877 GATGGTGATCGTGGCCGG 60.589 66.667 0.00 0.00 33.95 6.13
291 292 4.175337 ATGGTGATCGTGGCCGGG 62.175 66.667 2.18 0.00 33.95 5.73
307 308 4.201122 GGCCATGCCCAGAGGAGG 62.201 72.222 0.00 0.00 44.06 4.30
308 309 3.415087 GCCATGCCCAGAGGAGGT 61.415 66.667 0.00 0.00 33.47 3.85
309 310 2.593978 CCATGCCCAGAGGAGGTG 59.406 66.667 0.00 0.00 33.47 4.00
310 311 1.997311 CCATGCCCAGAGGAGGTGA 60.997 63.158 0.00 0.00 33.47 4.02
311 312 1.351080 CCATGCCCAGAGGAGGTGAT 61.351 60.000 0.00 0.00 33.47 3.06
312 313 0.179026 CATGCCCAGAGGAGGTGATG 60.179 60.000 0.00 0.00 33.47 3.07
313 314 1.351080 ATGCCCAGAGGAGGTGATGG 61.351 60.000 0.00 0.00 33.47 3.51
314 315 1.997874 GCCCAGAGGAGGTGATGGT 60.998 63.158 0.00 0.00 33.47 3.55
315 316 1.910722 CCCAGAGGAGGTGATGGTG 59.089 63.158 0.00 0.00 33.47 4.17
316 317 0.911525 CCCAGAGGAGGTGATGGTGT 60.912 60.000 0.00 0.00 33.47 4.16
317 318 0.251354 CCAGAGGAGGTGATGGTGTG 59.749 60.000 0.00 0.00 0.00 3.82
318 319 0.392193 CAGAGGAGGTGATGGTGTGC 60.392 60.000 0.00 0.00 0.00 4.57
319 320 1.448540 GAGGAGGTGATGGTGTGCG 60.449 63.158 0.00 0.00 0.00 5.34
320 321 3.127533 GGAGGTGATGGTGTGCGC 61.128 66.667 0.00 0.00 0.00 6.09
321 322 2.046892 GAGGTGATGGTGTGCGCT 60.047 61.111 9.73 0.00 0.00 5.92
322 323 2.359107 AGGTGATGGTGTGCGCTG 60.359 61.111 9.73 0.00 0.00 5.18
323 324 2.358615 GGTGATGGTGTGCGCTGA 60.359 61.111 9.73 0.00 0.00 4.26
324 325 2.680913 GGTGATGGTGTGCGCTGAC 61.681 63.158 9.73 4.72 0.00 3.51
325 326 1.669115 GTGATGGTGTGCGCTGACT 60.669 57.895 9.73 0.00 0.00 3.41
326 327 1.374631 TGATGGTGTGCGCTGACTC 60.375 57.895 9.73 0.00 0.00 3.36
327 328 1.374631 GATGGTGTGCGCTGACTCA 60.375 57.895 9.73 6.04 0.00 3.41
328 329 0.950555 GATGGTGTGCGCTGACTCAA 60.951 55.000 9.73 0.00 0.00 3.02
329 330 0.534877 ATGGTGTGCGCTGACTCAAA 60.535 50.000 9.73 0.00 0.00 2.69
330 331 0.746204 TGGTGTGCGCTGACTCAAAA 60.746 50.000 9.73 0.00 0.00 2.44
331 332 0.317020 GGTGTGCGCTGACTCAAAAC 60.317 55.000 9.73 0.00 0.00 2.43
332 333 0.657840 GTGTGCGCTGACTCAAAACT 59.342 50.000 9.73 0.00 0.00 2.66
333 334 0.657312 TGTGCGCTGACTCAAAACTG 59.343 50.000 9.73 0.00 0.00 3.16
334 335 0.658536 GTGCGCTGACTCAAAACTGC 60.659 55.000 9.73 0.00 0.00 4.40
335 336 1.094650 TGCGCTGACTCAAAACTGCA 61.095 50.000 9.73 0.00 0.00 4.41
336 337 0.658536 GCGCTGACTCAAAACTGCAC 60.659 55.000 0.00 0.00 0.00 4.57
337 338 0.657312 CGCTGACTCAAAACTGCACA 59.343 50.000 0.00 0.00 0.00 4.57
338 339 1.595489 CGCTGACTCAAAACTGCACAC 60.595 52.381 0.00 0.00 0.00 3.82
339 340 1.401552 GCTGACTCAAAACTGCACACA 59.598 47.619 0.00 0.00 0.00 3.72
340 341 2.792542 GCTGACTCAAAACTGCACACAC 60.793 50.000 0.00 0.00 0.00 3.82
341 342 1.396648 TGACTCAAAACTGCACACACG 59.603 47.619 0.00 0.00 0.00 4.49
342 343 0.098728 ACTCAAAACTGCACACACGC 59.901 50.000 0.00 0.00 0.00 5.34
343 344 0.098552 CTCAAAACTGCACACACGCA 59.901 50.000 0.00 0.00 40.32 5.24
344 345 0.179176 TCAAAACTGCACACACGCAC 60.179 50.000 0.00 0.00 36.86 5.34
345 346 0.455802 CAAAACTGCACACACGCACA 60.456 50.000 0.00 0.00 36.86 4.57
346 347 0.455972 AAAACTGCACACACGCACAC 60.456 50.000 0.00 0.00 36.86 3.82
347 348 1.305219 AAACTGCACACACGCACACT 61.305 50.000 0.00 0.00 36.86 3.55
348 349 1.705337 AACTGCACACACGCACACTC 61.705 55.000 0.00 0.00 36.86 3.51
349 350 1.884464 CTGCACACACGCACACTCT 60.884 57.895 0.00 0.00 36.86 3.24
350 351 2.097661 CTGCACACACGCACACTCTG 62.098 60.000 0.00 0.00 36.86 3.35
351 352 2.628106 CACACACGCACACTCTGC 59.372 61.111 0.00 0.00 43.21 4.26
352 353 2.588877 ACACACGCACACTCTGCC 60.589 61.111 0.00 0.00 43.84 4.85
353 354 3.705638 CACACGCACACTCTGCCG 61.706 66.667 0.00 0.00 43.84 5.69
358 359 4.724602 GCACACTCTGCCGCTCGA 62.725 66.667 0.00 0.00 40.42 4.04
359 360 2.182791 CACACTCTGCCGCTCGAT 59.817 61.111 0.00 0.00 0.00 3.59
360 361 1.446792 CACACTCTGCCGCTCGATT 60.447 57.895 0.00 0.00 0.00 3.34
361 362 1.446792 ACACTCTGCCGCTCGATTG 60.447 57.895 0.00 0.00 0.00 2.67
362 363 1.446792 CACTCTGCCGCTCGATTGT 60.447 57.895 0.00 0.00 0.00 2.71
363 364 0.179137 CACTCTGCCGCTCGATTGTA 60.179 55.000 0.00 0.00 0.00 2.41
364 365 0.179134 ACTCTGCCGCTCGATTGTAC 60.179 55.000 0.00 0.00 0.00 2.90
365 366 0.179137 CTCTGCCGCTCGATTGTACA 60.179 55.000 0.00 0.00 0.00 2.90
366 367 0.179137 TCTGCCGCTCGATTGTACAG 60.179 55.000 0.00 0.00 0.00 2.74
367 368 1.148157 CTGCCGCTCGATTGTACAGG 61.148 60.000 0.00 0.00 0.00 4.00
368 369 1.141019 GCCGCTCGATTGTACAGGA 59.859 57.895 0.00 0.00 0.00 3.86
369 370 0.459585 GCCGCTCGATTGTACAGGAA 60.460 55.000 0.00 0.00 0.00 3.36
370 371 1.806623 GCCGCTCGATTGTACAGGAAT 60.807 52.381 0.00 0.00 0.00 3.01
371 372 2.545113 GCCGCTCGATTGTACAGGAATA 60.545 50.000 0.00 0.00 0.00 1.75
372 373 3.050619 CCGCTCGATTGTACAGGAATAC 58.949 50.000 0.00 0.00 0.00 1.89
373 374 2.719556 CGCTCGATTGTACAGGAATACG 59.280 50.000 0.00 0.00 0.00 3.06
374 375 3.547413 CGCTCGATTGTACAGGAATACGA 60.547 47.826 0.00 2.43 0.00 3.43
375 376 4.357142 GCTCGATTGTACAGGAATACGAA 58.643 43.478 0.00 0.00 0.00 3.85
376 377 4.982916 GCTCGATTGTACAGGAATACGAAT 59.017 41.667 0.00 0.00 0.00 3.34
377 378 6.147581 GCTCGATTGTACAGGAATACGAATA 58.852 40.000 0.00 0.00 0.00 1.75
378 379 6.087820 GCTCGATTGTACAGGAATACGAATAC 59.912 42.308 0.00 0.00 0.00 1.89
379 380 7.030075 TCGATTGTACAGGAATACGAATACA 57.970 36.000 0.00 0.00 0.00 2.29
380 381 7.482474 TCGATTGTACAGGAATACGAATACAA 58.518 34.615 0.00 0.00 37.05 2.41
381 382 7.975058 TCGATTGTACAGGAATACGAATACAAA 59.025 33.333 0.00 0.00 36.44 2.83
382 383 8.761497 CGATTGTACAGGAATACGAATACAAAT 58.239 33.333 0.00 0.00 36.44 2.32
385 386 9.872721 TTGTACAGGAATACGAATACAAATACA 57.127 29.630 0.00 0.00 31.45 2.29
389 390 9.261180 ACAGGAATACGAATACAAATACATGAG 57.739 33.333 0.00 0.00 0.00 2.90
390 391 8.712363 CAGGAATACGAATACAAATACATGAGG 58.288 37.037 0.00 0.00 0.00 3.86
391 392 8.429641 AGGAATACGAATACAAATACATGAGGT 58.570 33.333 0.00 0.00 0.00 3.85
392 393 9.052759 GGAATACGAATACAAATACATGAGGTT 57.947 33.333 0.00 0.00 0.00 3.50
397 398 9.221933 ACGAATACAAATACATGAGGTTTAACA 57.778 29.630 0.00 0.00 0.00 2.41
402 403 8.865590 ACAAATACATGAGGTTTAACAACAAC 57.134 30.769 0.00 0.00 34.15 3.32
403 404 7.646130 ACAAATACATGAGGTTTAACAACAACG 59.354 33.333 0.00 0.00 34.15 4.10
404 405 7.499321 AATACATGAGGTTTAACAACAACGA 57.501 32.000 0.00 0.00 34.15 3.85
405 406 5.418310 ACATGAGGTTTAACAACAACGAG 57.582 39.130 0.00 0.00 34.15 4.18
406 407 3.955771 TGAGGTTTAACAACAACGAGC 57.044 42.857 0.00 0.00 34.15 5.03
836 860 0.034059 AACAGCAACGAGACCTCTGG 59.966 55.000 0.00 0.00 0.00 3.86
1014 1045 8.839310 AGTTGATATATATGTGTTTCCTGCTC 57.161 34.615 0.00 0.00 0.00 4.26
1148 1181 0.901124 ACTGACACTGGCAGGAGATC 59.099 55.000 20.34 10.61 37.69 2.75
1534 1605 8.370940 GGATATGTATCATGAAGAGAACCTTGA 58.629 37.037 0.00 0.00 33.10 3.02
2028 2107 9.843704 ATATGAGGCCTATATATATAACTGGCA 57.156 33.333 23.11 12.17 40.51 4.92
2245 2325 4.610605 TGTTGCTGCTAGGTAGTTGTTA 57.389 40.909 0.00 0.00 0.00 2.41
2439 2561 5.705441 TGAAACTAGCCAACACTGAATAAGG 59.295 40.000 0.00 0.00 0.00 2.69
2660 2806 0.035343 TCTGGATGTCGTCGTCCTCT 60.035 55.000 19.50 0.00 46.74 3.69
2816 2962 0.468648 GGATCCCCTTACCTCGGTTG 59.531 60.000 0.00 0.00 0.00 3.77
2922 3068 1.670083 GTGTACCTTGTGGCGACCC 60.670 63.158 0.00 0.00 36.63 4.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 3.503363 GACTGGATGCCGCTGTGC 61.503 66.667 0.00 0.00 0.00 4.57
8 9 2.821366 GGACTGGATGCCGCTGTG 60.821 66.667 0.00 0.00 0.00 3.66
9 10 4.101448 GGGACTGGATGCCGCTGT 62.101 66.667 0.00 0.00 0.00 4.40
10 11 3.746949 GAGGGACTGGATGCCGCTG 62.747 68.421 0.00 0.00 45.61 5.18
11 12 3.474570 GAGGGACTGGATGCCGCT 61.475 66.667 0.00 0.00 45.61 5.52
12 13 4.899239 CGAGGGACTGGATGCCGC 62.899 72.222 0.00 0.00 45.61 6.53
13 14 3.432051 GACGAGGGACTGGATGCCG 62.432 68.421 0.00 0.00 45.61 5.69
14 15 2.501610 GACGAGGGACTGGATGCC 59.498 66.667 0.00 0.00 41.55 4.40
15 16 2.105128 CGACGAGGGACTGGATGC 59.895 66.667 0.00 0.00 41.55 3.91
16 17 2.808315 CCGACGAGGGACTGGATG 59.192 66.667 0.00 0.00 41.55 3.51
25 26 2.238847 TTTGGCAGATCCCGACGAGG 62.239 60.000 0.00 0.00 40.63 4.63
26 27 1.084370 GTTTGGCAGATCCCGACGAG 61.084 60.000 0.00 0.00 0.00 4.18
27 28 1.079405 GTTTGGCAGATCCCGACGA 60.079 57.895 0.00 0.00 0.00 4.20
28 29 1.375396 TGTTTGGCAGATCCCGACG 60.375 57.895 0.00 0.00 0.00 5.12
29 30 4.713946 TGTTTGGCAGATCCCGAC 57.286 55.556 0.00 0.00 0.00 4.79
37 38 0.111253 AAGAGTCCCCTGTTTGGCAG 59.889 55.000 0.00 0.00 44.63 4.85
38 39 0.110486 GAAGAGTCCCCTGTTTGGCA 59.890 55.000 0.00 0.00 0.00 4.92
39 40 0.955919 CGAAGAGTCCCCTGTTTGGC 60.956 60.000 0.00 0.00 0.00 4.52
40 41 0.396811 ACGAAGAGTCCCCTGTTTGG 59.603 55.000 0.00 0.00 31.15 3.28
41 42 1.797025 GACGAAGAGTCCCCTGTTTG 58.203 55.000 0.00 0.00 43.95 2.93
51 52 1.524863 CGTGGACTGGGACGAAGAGT 61.525 60.000 0.00 0.00 37.81 3.24
52 53 1.213013 CGTGGACTGGGACGAAGAG 59.787 63.158 0.00 0.00 37.81 2.85
53 54 2.273179 CCGTGGACTGGGACGAAGA 61.273 63.158 0.00 0.00 37.81 2.87
54 55 2.261671 CCGTGGACTGGGACGAAG 59.738 66.667 0.00 0.00 37.81 3.79
55 56 3.998672 GCCGTGGACTGGGACGAA 61.999 66.667 0.00 0.00 37.81 3.85
57 58 4.742201 CTGCCGTGGACTGGGACG 62.742 72.222 0.00 0.00 35.31 4.79
58 59 3.311110 TCTGCCGTGGACTGGGAC 61.311 66.667 0.00 0.00 0.00 4.46
59 60 3.311110 GTCTGCCGTGGACTGGGA 61.311 66.667 0.00 0.00 0.00 4.37
60 61 2.859273 GATGTCTGCCGTGGACTGGG 62.859 65.000 0.00 0.00 35.04 4.45
61 62 1.448540 GATGTCTGCCGTGGACTGG 60.449 63.158 0.00 0.00 35.04 4.00
62 63 1.016130 GTGATGTCTGCCGTGGACTG 61.016 60.000 0.00 0.00 35.04 3.51
63 64 1.293498 GTGATGTCTGCCGTGGACT 59.707 57.895 0.00 0.00 35.04 3.85
64 65 2.094659 CGTGATGTCTGCCGTGGAC 61.095 63.158 0.00 0.00 0.00 4.02
65 66 2.261361 CGTGATGTCTGCCGTGGA 59.739 61.111 0.00 0.00 0.00 4.02
66 67 3.490759 GCGTGATGTCTGCCGTGG 61.491 66.667 0.00 0.00 0.00 4.94
67 68 2.433145 AGCGTGATGTCTGCCGTG 60.433 61.111 0.00 0.00 0.00 4.94
68 69 2.125912 GAGCGTGATGTCTGCCGT 60.126 61.111 0.00 0.00 0.00 5.68
69 70 2.125952 TGAGCGTGATGTCTGCCG 60.126 61.111 0.00 0.00 0.00 5.69
70 71 0.950555 TTGTGAGCGTGATGTCTGCC 60.951 55.000 0.00 0.00 0.00 4.85
71 72 0.867746 TTTGTGAGCGTGATGTCTGC 59.132 50.000 0.00 0.00 0.00 4.26
72 73 1.136141 GCTTTGTGAGCGTGATGTCTG 60.136 52.381 0.00 0.00 42.46 3.51
73 74 1.151668 GCTTTGTGAGCGTGATGTCT 58.848 50.000 0.00 0.00 42.46 3.41
74 75 3.664930 GCTTTGTGAGCGTGATGTC 57.335 52.632 0.00 0.00 42.46 3.06
83 84 2.097038 CCGCGGAGAGCTTTGTGAG 61.097 63.158 24.07 0.00 45.59 3.51
84 85 2.048222 CCGCGGAGAGCTTTGTGA 60.048 61.111 24.07 0.00 45.59 3.58
85 86 2.048222 TCCGCGGAGAGCTTTGTG 60.048 61.111 27.28 0.00 45.59 3.33
86 87 2.262915 CTCCGCGGAGAGCTTTGT 59.737 61.111 45.28 0.00 44.53 2.83
116 117 2.887568 GATCTCGGCCAGCACGTG 60.888 66.667 12.28 12.28 0.00 4.49
117 118 4.498520 CGATCTCGGCCAGCACGT 62.499 66.667 2.24 0.00 35.37 4.49
118 119 4.498520 ACGATCTCGGCCAGCACG 62.499 66.667 2.24 10.57 44.95 5.34
119 120 2.583593 GACGATCTCGGCCAGCAC 60.584 66.667 2.24 0.00 42.67 4.40
127 128 4.630785 ATGGCGCGGACGATCTCG 62.631 66.667 8.83 0.00 43.93 4.04
128 129 3.032609 CATGGCGCGGACGATCTC 61.033 66.667 8.83 0.00 43.93 2.75
129 130 4.592192 CCATGGCGCGGACGATCT 62.592 66.667 8.83 0.00 43.93 2.75
140 141 3.766691 CAGCAGGTTGGCCATGGC 61.767 66.667 29.47 29.47 41.06 4.40
141 142 3.072468 CCAGCAGGTTGGCCATGG 61.072 66.667 6.09 7.63 37.19 3.66
142 143 2.036098 TCCAGCAGGTTGGCCATG 59.964 61.111 6.09 2.55 38.16 3.66
143 144 2.036256 GTCCAGCAGGTTGGCCAT 59.964 61.111 6.09 0.00 38.16 4.40
144 145 3.177884 AGTCCAGCAGGTTGGCCA 61.178 61.111 0.00 0.00 38.16 5.36
145 146 2.674380 CAGTCCAGCAGGTTGGCC 60.674 66.667 0.00 0.00 38.16 5.36
146 147 3.368571 GCAGTCCAGCAGGTTGGC 61.369 66.667 0.00 0.00 38.16 4.52
147 148 3.052082 CGCAGTCCAGCAGGTTGG 61.052 66.667 0.00 0.00 39.70 3.77
148 149 3.052082 CCGCAGTCCAGCAGGTTG 61.052 66.667 0.00 0.00 35.89 3.77
155 156 4.415150 ATGGGTGCCGCAGTCCAG 62.415 66.667 17.30 0.00 32.30 3.86
156 157 4.720902 CATGGGTGCCGCAGTCCA 62.721 66.667 15.36 15.36 0.00 4.02
166 167 3.626996 TTGGAGCCGAGCATGGGTG 62.627 63.158 3.47 0.00 40.53 4.61
167 168 3.329889 TTGGAGCCGAGCATGGGT 61.330 61.111 0.00 0.00 43.87 4.51
168 169 2.825836 GTTGGAGCCGAGCATGGG 60.826 66.667 0.00 0.00 36.85 4.00
169 170 2.110967 CAGTTGGAGCCGAGCATGG 61.111 63.158 0.00 0.00 0.00 3.66
170 171 0.957395 AACAGTTGGAGCCGAGCATG 60.957 55.000 0.00 0.00 0.00 4.06
171 172 0.250901 AAACAGTTGGAGCCGAGCAT 60.251 50.000 0.00 0.00 0.00 3.79
172 173 1.148273 AAACAGTTGGAGCCGAGCA 59.852 52.632 0.00 0.00 0.00 4.26
173 174 0.884704 TCAAACAGTTGGAGCCGAGC 60.885 55.000 0.00 0.00 35.29 5.03
174 175 1.151668 CTCAAACAGTTGGAGCCGAG 58.848 55.000 4.65 0.00 35.29 4.63
175 176 0.250295 CCTCAAACAGTTGGAGCCGA 60.250 55.000 11.89 0.00 35.29 5.54
176 177 0.535102 ACCTCAAACAGTTGGAGCCG 60.535 55.000 11.89 2.73 35.29 5.52
177 178 2.038557 TCTACCTCAAACAGTTGGAGCC 59.961 50.000 11.89 0.00 35.29 4.70
178 179 3.006967 TCTCTACCTCAAACAGTTGGAGC 59.993 47.826 11.89 0.00 35.29 4.70
179 180 4.873746 TCTCTACCTCAAACAGTTGGAG 57.126 45.455 10.51 10.51 35.29 3.86
180 181 4.899457 TCTTCTCTACCTCAAACAGTTGGA 59.101 41.667 0.00 0.00 35.29 3.53
181 182 5.215252 TCTTCTCTACCTCAAACAGTTGG 57.785 43.478 0.00 0.00 35.29 3.77
182 183 5.574830 CGATCTTCTCTACCTCAAACAGTTG 59.425 44.000 0.00 0.00 35.95 3.16
183 184 5.477291 TCGATCTTCTCTACCTCAAACAGTT 59.523 40.000 0.00 0.00 0.00 3.16
184 185 5.010933 TCGATCTTCTCTACCTCAAACAGT 58.989 41.667 0.00 0.00 0.00 3.55
185 186 5.568685 TCGATCTTCTCTACCTCAAACAG 57.431 43.478 0.00 0.00 0.00 3.16
186 187 5.243060 TGTTCGATCTTCTCTACCTCAAACA 59.757 40.000 0.00 0.00 0.00 2.83
187 188 5.573669 GTGTTCGATCTTCTCTACCTCAAAC 59.426 44.000 0.00 0.00 0.00 2.93
188 189 5.243060 TGTGTTCGATCTTCTCTACCTCAAA 59.757 40.000 0.00 0.00 0.00 2.69
189 190 4.765339 TGTGTTCGATCTTCTCTACCTCAA 59.235 41.667 0.00 0.00 0.00 3.02
190 191 4.156190 GTGTGTTCGATCTTCTCTACCTCA 59.844 45.833 0.00 0.00 0.00 3.86
191 192 4.396790 AGTGTGTTCGATCTTCTCTACCTC 59.603 45.833 0.00 0.00 0.00 3.85
192 193 4.337145 AGTGTGTTCGATCTTCTCTACCT 58.663 43.478 0.00 0.00 0.00 3.08
193 194 4.705337 AGTGTGTTCGATCTTCTCTACC 57.295 45.455 0.00 0.00 0.00 3.18
194 195 5.164041 GCAAAGTGTGTTCGATCTTCTCTAC 60.164 44.000 0.00 0.00 0.00 2.59
195 196 4.923871 GCAAAGTGTGTTCGATCTTCTCTA 59.076 41.667 0.00 0.00 0.00 2.43
196 197 3.743396 GCAAAGTGTGTTCGATCTTCTCT 59.257 43.478 0.00 0.00 0.00 3.10
197 198 3.494626 TGCAAAGTGTGTTCGATCTTCTC 59.505 43.478 0.00 0.00 0.00 2.87
198 199 3.466836 TGCAAAGTGTGTTCGATCTTCT 58.533 40.909 0.00 0.00 0.00 2.85
199 200 3.878086 TGCAAAGTGTGTTCGATCTTC 57.122 42.857 0.00 0.00 0.00 2.87
200 201 4.275689 TCAATGCAAAGTGTGTTCGATCTT 59.724 37.500 0.00 0.00 0.00 2.40
201 202 3.814842 TCAATGCAAAGTGTGTTCGATCT 59.185 39.130 0.00 0.00 0.00 2.75
202 203 4.145876 TCAATGCAAAGTGTGTTCGATC 57.854 40.909 0.00 0.00 0.00 3.69
203 204 4.216042 TGATCAATGCAAAGTGTGTTCGAT 59.784 37.500 0.00 0.00 0.00 3.59
204 205 3.563390 TGATCAATGCAAAGTGTGTTCGA 59.437 39.130 0.00 0.00 0.00 3.71
205 206 3.887741 TGATCAATGCAAAGTGTGTTCG 58.112 40.909 0.00 0.00 0.00 3.95
206 207 5.112220 TCTGATCAATGCAAAGTGTGTTC 57.888 39.130 0.00 0.00 0.00 3.18
207 208 5.518848 TTCTGATCAATGCAAAGTGTGTT 57.481 34.783 0.00 0.00 0.00 3.32
208 209 5.518848 TTTCTGATCAATGCAAAGTGTGT 57.481 34.783 0.00 0.00 0.00 3.72
209 210 5.981315 ACTTTTCTGATCAATGCAAAGTGTG 59.019 36.000 15.34 0.00 34.08 3.82
210 211 6.152932 ACTTTTCTGATCAATGCAAAGTGT 57.847 33.333 15.34 6.06 34.08 3.55
211 212 7.648908 TGTAACTTTTCTGATCAATGCAAAGTG 59.351 33.333 16.21 0.00 35.24 3.16
212 213 7.649306 GTGTAACTTTTCTGATCAATGCAAAGT 59.351 33.333 12.27 12.27 36.30 2.66
213 214 8.000285 GTGTAACTTTTCTGATCAATGCAAAG 58.000 34.615 0.00 5.59 0.00 2.77
214 215 7.928908 GTGTAACTTTTCTGATCAATGCAAA 57.071 32.000 0.00 0.00 0.00 3.68
252 253 4.500116 GTCTCGCGCCCTCTGTCC 62.500 72.222 0.00 0.00 0.00 4.02
253 254 4.500116 GGTCTCGCGCCCTCTGTC 62.500 72.222 0.00 0.00 0.00 3.51
255 256 4.803426 GTGGTCTCGCGCCCTCTG 62.803 72.222 0.00 0.00 0.00 3.35
273 274 2.588877 CCGGCCACGATCACCATC 60.589 66.667 2.24 0.00 44.60 3.51
274 275 4.175337 CCCGGCCACGATCACCAT 62.175 66.667 2.24 0.00 44.60 3.55
291 292 3.415087 ACCTCCTCTGGGCATGGC 61.415 66.667 11.56 11.56 0.00 4.40
292 293 1.351080 ATCACCTCCTCTGGGCATGG 61.351 60.000 0.00 0.00 0.00 3.66
293 294 0.179026 CATCACCTCCTCTGGGCATG 60.179 60.000 0.00 0.00 0.00 4.06
294 295 1.351080 CCATCACCTCCTCTGGGCAT 61.351 60.000 0.00 0.00 0.00 4.40
295 296 1.997311 CCATCACCTCCTCTGGGCA 60.997 63.158 0.00 0.00 0.00 5.36
296 297 1.997874 ACCATCACCTCCTCTGGGC 60.998 63.158 0.00 0.00 32.89 5.36
297 298 0.911525 ACACCATCACCTCCTCTGGG 60.912 60.000 0.00 0.00 32.89 4.45
298 299 0.251354 CACACCATCACCTCCTCTGG 59.749 60.000 0.00 0.00 34.84 3.86
299 300 0.392193 GCACACCATCACCTCCTCTG 60.392 60.000 0.00 0.00 0.00 3.35
300 301 1.892819 CGCACACCATCACCTCCTCT 61.893 60.000 0.00 0.00 0.00 3.69
301 302 1.448540 CGCACACCATCACCTCCTC 60.449 63.158 0.00 0.00 0.00 3.71
302 303 2.665000 CGCACACCATCACCTCCT 59.335 61.111 0.00 0.00 0.00 3.69
303 304 3.127533 GCGCACACCATCACCTCC 61.128 66.667 0.30 0.00 0.00 4.30
304 305 2.046892 AGCGCACACCATCACCTC 60.047 61.111 11.47 0.00 0.00 3.85
305 306 2.359107 CAGCGCACACCATCACCT 60.359 61.111 11.47 0.00 0.00 4.00
306 307 2.358615 TCAGCGCACACCATCACC 60.359 61.111 11.47 0.00 0.00 4.02
307 308 1.630244 GAGTCAGCGCACACCATCAC 61.630 60.000 11.47 0.00 0.00 3.06
308 309 1.374631 GAGTCAGCGCACACCATCA 60.375 57.895 11.47 0.00 0.00 3.07
309 310 0.950555 TTGAGTCAGCGCACACCATC 60.951 55.000 11.47 0.54 0.00 3.51
310 311 0.534877 TTTGAGTCAGCGCACACCAT 60.535 50.000 11.47 0.00 0.00 3.55
311 312 0.746204 TTTTGAGTCAGCGCACACCA 60.746 50.000 11.47 3.11 0.00 4.17
312 313 0.317020 GTTTTGAGTCAGCGCACACC 60.317 55.000 11.47 0.36 0.00 4.16
313 314 0.657840 AGTTTTGAGTCAGCGCACAC 59.342 50.000 11.47 5.21 0.00 3.82
314 315 0.657312 CAGTTTTGAGTCAGCGCACA 59.343 50.000 11.47 0.00 0.00 4.57
315 316 0.658536 GCAGTTTTGAGTCAGCGCAC 60.659 55.000 11.47 0.00 0.00 5.34
316 317 1.094650 TGCAGTTTTGAGTCAGCGCA 61.095 50.000 11.47 0.00 0.00 6.09
317 318 0.658536 GTGCAGTTTTGAGTCAGCGC 60.659 55.000 0.00 0.00 0.00 5.92
318 319 0.657312 TGTGCAGTTTTGAGTCAGCG 59.343 50.000 0.00 0.00 0.00 5.18
319 320 1.401552 TGTGTGCAGTTTTGAGTCAGC 59.598 47.619 0.00 0.00 0.00 4.26
320 321 2.537529 CGTGTGTGCAGTTTTGAGTCAG 60.538 50.000 0.00 0.00 0.00 3.51
321 322 1.396648 CGTGTGTGCAGTTTTGAGTCA 59.603 47.619 0.00 0.00 0.00 3.41
322 323 1.856014 GCGTGTGTGCAGTTTTGAGTC 60.856 52.381 0.00 0.00 34.15 3.36
323 324 0.098728 GCGTGTGTGCAGTTTTGAGT 59.901 50.000 0.00 0.00 34.15 3.41
324 325 0.098552 TGCGTGTGTGCAGTTTTGAG 59.901 50.000 0.00 0.00 40.62 3.02
325 326 2.175236 TGCGTGTGTGCAGTTTTGA 58.825 47.368 0.00 0.00 40.62 2.69
326 327 4.781860 TGCGTGTGTGCAGTTTTG 57.218 50.000 0.00 0.00 40.62 2.44
332 333 2.173020 CAGAGTGTGCGTGTGTGCA 61.173 57.895 0.00 0.00 43.95 4.57
333 334 2.628106 CAGAGTGTGCGTGTGTGC 59.372 61.111 0.00 0.00 0.00 4.57
334 335 2.628106 GCAGAGTGTGCGTGTGTG 59.372 61.111 0.00 0.00 43.99 3.82
342 343 1.446792 AATCGAGCGGCAGAGTGTG 60.447 57.895 1.45 0.00 0.00 3.82
343 344 1.446792 CAATCGAGCGGCAGAGTGT 60.447 57.895 14.62 0.00 0.00 3.55
344 345 0.179137 TACAATCGAGCGGCAGAGTG 60.179 55.000 19.06 19.06 38.29 3.51
345 346 0.179134 GTACAATCGAGCGGCAGAGT 60.179 55.000 1.45 0.00 0.00 3.24
346 347 0.179137 TGTACAATCGAGCGGCAGAG 60.179 55.000 1.45 0.00 0.00 3.35
347 348 0.179137 CTGTACAATCGAGCGGCAGA 60.179 55.000 1.45 1.12 0.00 4.26
348 349 1.148157 CCTGTACAATCGAGCGGCAG 61.148 60.000 1.45 0.00 0.00 4.85
349 350 1.153647 CCTGTACAATCGAGCGGCA 60.154 57.895 1.45 0.00 0.00 5.69
350 351 0.459585 TTCCTGTACAATCGAGCGGC 60.460 55.000 0.00 0.00 0.00 6.53
351 352 2.225068 ATTCCTGTACAATCGAGCGG 57.775 50.000 0.00 0.00 0.00 5.52
352 353 2.719556 CGTATTCCTGTACAATCGAGCG 59.280 50.000 0.00 0.00 0.00 5.03
353 354 3.961182 TCGTATTCCTGTACAATCGAGC 58.039 45.455 0.00 0.00 0.00 5.03
354 355 7.136772 TGTATTCGTATTCCTGTACAATCGAG 58.863 38.462 0.00 0.00 0.00 4.04
355 356 7.030075 TGTATTCGTATTCCTGTACAATCGA 57.970 36.000 0.00 0.00 0.00 3.59
356 357 7.688478 TTGTATTCGTATTCCTGTACAATCG 57.312 36.000 0.00 0.00 29.90 3.34
359 360 9.872721 TGTATTTGTATTCGTATTCCTGTACAA 57.127 29.630 0.00 0.00 32.18 2.41
363 364 9.261180 CTCATGTATTTGTATTCGTATTCCTGT 57.739 33.333 0.00 0.00 0.00 4.00
364 365 8.712363 CCTCATGTATTTGTATTCGTATTCCTG 58.288 37.037 0.00 0.00 0.00 3.86
365 366 8.429641 ACCTCATGTATTTGTATTCGTATTCCT 58.570 33.333 0.00 0.00 0.00 3.36
366 367 8.603242 ACCTCATGTATTTGTATTCGTATTCC 57.397 34.615 0.00 0.00 0.00 3.01
371 372 9.221933 TGTTAAACCTCATGTATTTGTATTCGT 57.778 29.630 0.00 0.00 0.00 3.85
376 377 9.953697 GTTGTTGTTAAACCTCATGTATTTGTA 57.046 29.630 0.00 0.00 35.25 2.41
377 378 7.646130 CGTTGTTGTTAAACCTCATGTATTTGT 59.354 33.333 0.00 0.00 35.25 2.83
378 379 7.858382 TCGTTGTTGTTAAACCTCATGTATTTG 59.142 33.333 0.00 0.00 35.25 2.32
379 380 7.932335 TCGTTGTTGTTAAACCTCATGTATTT 58.068 30.769 0.00 0.00 35.25 1.40
380 381 7.499321 TCGTTGTTGTTAAACCTCATGTATT 57.501 32.000 0.00 0.00 35.25 1.89
381 382 6.348213 GCTCGTTGTTGTTAAACCTCATGTAT 60.348 38.462 0.00 0.00 35.25 2.29
382 383 5.049954 GCTCGTTGTTGTTAAACCTCATGTA 60.050 40.000 0.00 0.00 35.25 2.29
383 384 4.261031 GCTCGTTGTTGTTAAACCTCATGT 60.261 41.667 0.00 0.00 35.25 3.21
384 385 4.219033 GCTCGTTGTTGTTAAACCTCATG 58.781 43.478 0.00 0.00 35.25 3.07
385 386 3.059188 CGCTCGTTGTTGTTAAACCTCAT 60.059 43.478 0.00 0.00 35.25 2.90
386 387 2.285756 CGCTCGTTGTTGTTAAACCTCA 59.714 45.455 0.00 0.00 35.25 3.86
387 388 2.540931 TCGCTCGTTGTTGTTAAACCTC 59.459 45.455 0.00 0.00 35.25 3.85
388 389 2.542595 CTCGCTCGTTGTTGTTAAACCT 59.457 45.455 0.00 0.00 35.25 3.50
389 390 2.286025 ACTCGCTCGTTGTTGTTAAACC 59.714 45.455 0.00 0.00 35.25 3.27
390 391 3.580794 ACTCGCTCGTTGTTGTTAAAC 57.419 42.857 0.00 0.00 36.78 2.01
391 392 5.910637 ATTACTCGCTCGTTGTTGTTAAA 57.089 34.783 0.00 0.00 0.00 1.52
392 393 5.462729 TCAATTACTCGCTCGTTGTTGTTAA 59.537 36.000 0.00 0.00 0.00 2.01
393 394 4.983538 TCAATTACTCGCTCGTTGTTGTTA 59.016 37.500 0.00 0.00 0.00 2.41
394 395 3.805422 TCAATTACTCGCTCGTTGTTGTT 59.195 39.130 0.00 0.00 0.00 2.83
395 396 3.183775 GTCAATTACTCGCTCGTTGTTGT 59.816 43.478 0.00 0.00 0.00 3.32
396 397 3.183574 TGTCAATTACTCGCTCGTTGTTG 59.816 43.478 0.00 0.00 0.00 3.33
397 398 3.386486 TGTCAATTACTCGCTCGTTGTT 58.614 40.909 0.00 0.00 0.00 2.83
398 399 3.021269 TGTCAATTACTCGCTCGTTGT 57.979 42.857 0.00 0.00 0.00 3.32
399 400 4.383774 TTTGTCAATTACTCGCTCGTTG 57.616 40.909 0.00 0.00 0.00 4.10
400 401 5.412526 TTTTTGTCAATTACTCGCTCGTT 57.587 34.783 0.00 0.00 0.00 3.85
442 443 1.640917 ATGGTAGTTCTGTGGGACGT 58.359 50.000 0.00 0.00 0.00 4.34
836 860 1.124462 GCTCATGTACTCGTCATCGC 58.876 55.000 0.00 0.00 36.96 4.58
1014 1045 1.233019 CAGTGTCTGGAGTTTGCTGG 58.767 55.000 0.00 0.00 0.00 4.85
1148 1181 1.645034 CTCAGTTGCACATCCTACGG 58.355 55.000 0.00 0.00 0.00 4.02
1183 1216 4.913335 ATGAATCAATCACAGCCATGAC 57.087 40.909 0.00 0.00 41.93 3.06
1534 1605 4.100373 AGCCTCTTTGTCTTGGACTCTAT 58.900 43.478 0.00 0.00 33.15 1.98
2439 2561 3.878086 TTCACATTCAGTTTCGTCAGC 57.122 42.857 0.00 0.00 0.00 4.26
2660 2806 0.814457 ACGCAAACAAGCACCAAGAA 59.186 45.000 0.00 0.00 0.00 2.52
2816 2962 0.316204 GCATGGACCAGCAATATGGC 59.684 55.000 0.00 0.00 44.80 4.40
2922 3068 2.755655 ACCTCTTCGTGGACTACATGAG 59.244 50.000 0.00 0.00 45.35 2.90


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.