Multiple sequence alignment - TraesCS4B01G153300

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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 TraesCS4B01G153300 chr4B 100.000 4833 0 0 1 4833 261477586 261482418 0.000000e+00 8925
1 TraesCS4B01G153300 chr4B 99.169 842 7 0 3992 4833 261488464 261489305 0.000000e+00 1517
2 TraesCS4B01G153300 chr4B 96.988 332 8 2 1 331 251999393 251999063 1.520000e-154 556
3 TraesCS4B01G153300 chr4B 96.119 335 10 3 1 332 147078055 147077721 1.180000e-150 544
4 TraesCS4B01G153300 chr2A 98.231 3674 59 4 326 3994 389203996 389207668 0.000000e+00 6420
5 TraesCS4B01G153300 chr2A 98.176 3673 62 3 326 3994 687266878 687270549 0.000000e+00 6407
6 TraesCS4B01G153300 chr2A 98.144 862 14 2 3973 4833 78869909 78870769 0.000000e+00 1502
7 TraesCS4B01G153300 chr2A 95.833 336 11 3 1 334 36007387 36007721 1.530000e-149 540
8 TraesCS4B01G153300 chr5A 98.149 3673 62 4 326 3994 9631634 9627964 0.000000e+00 6401
9 TraesCS4B01G153300 chr5A 98.094 3673 64 4 326 3994 294239710 294236040 0.000000e+00 6390
10 TraesCS4B01G153300 chr5A 98.040 3673 63 5 326 3994 17470811 17467144 0.000000e+00 6375
11 TraesCS4B01G153300 chr5A 96.951 328 10 0 1 328 219315147 219315474 7.070000e-153 551
12 TraesCS4B01G153300 chr2B 98.094 3673 64 4 326 3994 608454667 608458337 0.000000e+00 6390
13 TraesCS4B01G153300 chr3A 98.095 3674 60 6 326 3994 83036088 83032420 0.000000e+00 6388
14 TraesCS4B01G153300 chr3A 99.051 843 8 0 3991 4833 439625577 439624735 0.000000e+00 1513
15 TraesCS4B01G153300 chr1A 98.094 3673 63 5 326 3994 255476952 255473283 0.000000e+00 6388
16 TraesCS4B01G153300 chr1A 98.067 3673 65 4 326 3994 127093467 127089797 0.000000e+00 6384
17 TraesCS4B01G153300 chr1A 99.050 842 8 0 3992 4833 552806007 552806848 0.000000e+00 1511
18 TraesCS4B01G153300 chr1A 98.706 850 9 2 3985 4833 497729273 497728425 0.000000e+00 1507
19 TraesCS4B01G153300 chr7B 98.936 846 9 0 3988 4833 653572322 653573167 0.000000e+00 1513
20 TraesCS4B01G153300 chr5B 98.595 854 9 2 3983 4833 327635861 327635008 0.000000e+00 1507
21 TraesCS4B01G153300 chr6B 98.478 854 12 1 3981 4833 199946047 199946900 0.000000e+00 1504
22 TraesCS4B01G153300 chr6B 96.657 329 9 2 1 328 191972309 191971982 3.290000e-151 545
23 TraesCS4B01G153300 chr6B 96.646 328 10 1 1 327 717603734 717604061 1.180000e-150 544
24 TraesCS4B01G153300 chr3B 97.395 883 17 5 3956 4833 729956901 729957782 0.000000e+00 1498
25 TraesCS4B01G153300 chr3B 96.375 331 11 1 1 330 654428035 654427705 1.180000e-150 544
26 TraesCS4B01G153300 chr4A 96.697 333 9 2 1 332 115901591 115901260 1.970000e-153 553
27 TraesCS4B01G153300 chr1B 96.646 328 10 1 1 327 38842847 38842520 1.180000e-150 544


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 TraesCS4B01G153300 chr4B 261477586 261482418 4832 False 8925 8925 100.000 1 4833 1 chr4B.!!$F1 4832
1 TraesCS4B01G153300 chr4B 261488464 261489305 841 False 1517 1517 99.169 3992 4833 1 chr4B.!!$F2 841
2 TraesCS4B01G153300 chr2A 389203996 389207668 3672 False 6420 6420 98.231 326 3994 1 chr2A.!!$F3 3668
3 TraesCS4B01G153300 chr2A 687266878 687270549 3671 False 6407 6407 98.176 326 3994 1 chr2A.!!$F4 3668
4 TraesCS4B01G153300 chr2A 78869909 78870769 860 False 1502 1502 98.144 3973 4833 1 chr2A.!!$F2 860
5 TraesCS4B01G153300 chr5A 9627964 9631634 3670 True 6401 6401 98.149 326 3994 1 chr5A.!!$R1 3668
6 TraesCS4B01G153300 chr5A 294236040 294239710 3670 True 6390 6390 98.094 326 3994 1 chr5A.!!$R3 3668
7 TraesCS4B01G153300 chr5A 17467144 17470811 3667 True 6375 6375 98.040 326 3994 1 chr5A.!!$R2 3668
8 TraesCS4B01G153300 chr2B 608454667 608458337 3670 False 6390 6390 98.094 326 3994 1 chr2B.!!$F1 3668
9 TraesCS4B01G153300 chr3A 83032420 83036088 3668 True 6388 6388 98.095 326 3994 1 chr3A.!!$R1 3668
10 TraesCS4B01G153300 chr3A 439624735 439625577 842 True 1513 1513 99.051 3991 4833 1 chr3A.!!$R2 842
11 TraesCS4B01G153300 chr1A 255473283 255476952 3669 True 6388 6388 98.094 326 3994 1 chr1A.!!$R2 3668
12 TraesCS4B01G153300 chr1A 127089797 127093467 3670 True 6384 6384 98.067 326 3994 1 chr1A.!!$R1 3668
13 TraesCS4B01G153300 chr1A 552806007 552806848 841 False 1511 1511 99.050 3992 4833 1 chr1A.!!$F1 841
14 TraesCS4B01G153300 chr1A 497728425 497729273 848 True 1507 1507 98.706 3985 4833 1 chr1A.!!$R3 848
15 TraesCS4B01G153300 chr7B 653572322 653573167 845 False 1513 1513 98.936 3988 4833 1 chr7B.!!$F1 845
16 TraesCS4B01G153300 chr5B 327635008 327635861 853 True 1507 1507 98.595 3983 4833 1 chr5B.!!$R1 850
17 TraesCS4B01G153300 chr6B 199946047 199946900 853 False 1504 1504 98.478 3981 4833 1 chr6B.!!$F1 852
18 TraesCS4B01G153300 chr3B 729956901 729957782 881 False 1498 1498 97.395 3956 4833 1 chr3B.!!$F1 877

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
110 111 0.034186 TGCATTGATGGGAGGGTGAC 60.034 55.000 0.00 0.0 0.00 3.67 F
223 224 0.109781 CAGCGAAATGAAACGGGTGG 60.110 55.000 0.00 0.0 0.00 4.61 F
282 283 0.179012 GGGTGAGGTGGGACGAAAAA 60.179 55.000 0.00 0.0 0.00 1.94 F
312 313 1.073284 GGGAAACTACCAACTGCTCCA 59.927 52.381 0.00 0.0 0.00 3.86 F
1566 1570 1.692519 CCTTACCTGGACCCTATTCCG 59.307 57.143 0.00 0.0 38.69 4.30 F
2549 2558 0.925466 GTACAATATGCCGTTCGCGT 59.075 50.000 5.77 0.0 42.08 6.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1909 1916 0.409876 ACACTGGACTGCCTAGAGGA 59.590 55.000 0.00 0.0 37.39 3.71 R
2114 2121 6.317140 GCACAGAAGATAATCACAGGAAATGA 59.683 38.462 0.00 0.0 0.00 2.57 R
2380 2389 4.570930 AGAAGAAGTCTGGATCGGTTTTC 58.429 43.478 0.00 0.0 34.29 2.29 R
2549 2558 9.999040 GCCATGTCGGTTTATTCCTATGAAGGA 62.999 44.444 0.00 0.0 43.49 3.36 R
2739 2748 0.749818 ACAACAATGGTGCACGGTGA 60.750 50.000 13.29 0.0 0.00 4.02 R
4537 4552 0.108585 ACTCCTTGGTCACATTGCGT 59.891 50.000 0.00 0.0 0.00 5.24 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
59 60 9.847224 TTCTTTAGAGTCTGTTATTTGTTTCCT 57.153 29.630 1.86 0.00 0.00 3.36
60 61 9.847224 TCTTTAGAGTCTGTTATTTGTTTCCTT 57.153 29.630 1.86 0.00 0.00 3.36
100 101 8.937884 TGTTTCCTAAATCAAATTGCATTGATG 58.062 29.630 14.66 4.58 46.57 3.07
101 102 8.392612 GTTTCCTAAATCAAATTGCATTGATGG 58.607 33.333 14.66 12.00 46.57 3.51
102 103 6.584488 TCCTAAATCAAATTGCATTGATGGG 58.416 36.000 14.66 15.47 46.57 4.00
103 104 6.383436 TCCTAAATCAAATTGCATTGATGGGA 59.617 34.615 14.66 16.96 46.57 4.37
104 105 6.704493 CCTAAATCAAATTGCATTGATGGGAG 59.296 38.462 14.66 11.81 46.57 4.30
105 106 4.682778 ATCAAATTGCATTGATGGGAGG 57.317 40.909 13.47 0.00 45.76 4.30
106 107 2.767394 TCAAATTGCATTGATGGGAGGG 59.233 45.455 0.00 0.00 34.50 4.30
107 108 2.502538 CAAATTGCATTGATGGGAGGGT 59.497 45.455 0.00 0.00 31.84 4.34
108 109 1.784358 ATTGCATTGATGGGAGGGTG 58.216 50.000 0.00 0.00 0.00 4.61
109 110 0.703488 TTGCATTGATGGGAGGGTGA 59.297 50.000 0.00 0.00 0.00 4.02
110 111 0.034186 TGCATTGATGGGAGGGTGAC 60.034 55.000 0.00 0.00 0.00 3.67
111 112 1.097547 GCATTGATGGGAGGGTGACG 61.098 60.000 0.00 0.00 0.00 4.35
112 113 1.097547 CATTGATGGGAGGGTGACGC 61.098 60.000 0.00 0.00 0.00 5.19
113 114 1.561769 ATTGATGGGAGGGTGACGCA 61.562 55.000 1.61 0.00 34.94 5.24
114 115 1.561769 TTGATGGGAGGGTGACGCAT 61.562 55.000 1.61 0.00 42.08 4.73
115 116 1.524621 GATGGGAGGGTGACGCATG 60.525 63.158 1.61 0.00 40.12 4.06
116 117 2.947938 GATGGGAGGGTGACGCATGG 62.948 65.000 1.61 0.00 40.12 3.66
117 118 3.399181 GGGAGGGTGACGCATGGA 61.399 66.667 1.61 0.00 0.00 3.41
118 119 2.668632 GGAGGGTGACGCATGGAA 59.331 61.111 1.61 0.00 0.00 3.53
119 120 1.002624 GGAGGGTGACGCATGGAAA 60.003 57.895 1.61 0.00 0.00 3.13
120 121 1.026718 GGAGGGTGACGCATGGAAAG 61.027 60.000 1.61 0.00 0.00 2.62
121 122 0.321653 GAGGGTGACGCATGGAAAGT 60.322 55.000 1.61 0.00 0.00 2.66
122 123 0.110486 AGGGTGACGCATGGAAAGTT 59.890 50.000 1.61 0.00 0.00 2.66
123 124 1.349688 AGGGTGACGCATGGAAAGTTA 59.650 47.619 1.61 0.00 0.00 2.24
124 125 2.026262 AGGGTGACGCATGGAAAGTTAT 60.026 45.455 1.61 0.00 0.00 1.89
125 126 2.097466 GGGTGACGCATGGAAAGTTATG 59.903 50.000 0.00 0.00 0.00 1.90
126 127 3.006940 GGTGACGCATGGAAAGTTATGA 58.993 45.455 0.00 0.00 0.00 2.15
127 128 3.627577 GGTGACGCATGGAAAGTTATGAT 59.372 43.478 0.00 0.00 0.00 2.45
128 129 4.260784 GGTGACGCATGGAAAGTTATGATC 60.261 45.833 0.00 0.00 0.00 2.92
129 130 3.876914 TGACGCATGGAAAGTTATGATCC 59.123 43.478 0.00 0.00 0.00 3.36
130 131 2.872245 ACGCATGGAAAGTTATGATCCG 59.128 45.455 0.00 0.00 35.96 4.18
131 132 2.872245 CGCATGGAAAGTTATGATCCGT 59.128 45.455 0.00 0.00 35.96 4.69
132 133 3.312421 CGCATGGAAAGTTATGATCCGTT 59.688 43.478 0.00 0.00 35.96 4.44
133 134 4.509970 CGCATGGAAAGTTATGATCCGTTA 59.490 41.667 0.00 0.00 35.96 3.18
134 135 5.007234 CGCATGGAAAGTTATGATCCGTTAA 59.993 40.000 0.00 0.00 35.96 2.01
135 136 6.430451 GCATGGAAAGTTATGATCCGTTAAG 58.570 40.000 0.00 0.00 35.96 1.85
136 137 6.260050 GCATGGAAAGTTATGATCCGTTAAGA 59.740 38.462 0.00 0.00 35.96 2.10
137 138 7.041098 GCATGGAAAGTTATGATCCGTTAAGAT 60.041 37.037 0.00 0.00 35.96 2.40
138 139 8.840321 CATGGAAAGTTATGATCCGTTAAGATT 58.160 33.333 0.00 0.00 35.96 2.40
139 140 8.801882 TGGAAAGTTATGATCCGTTAAGATTT 57.198 30.769 0.00 0.00 35.96 2.17
140 141 9.238368 TGGAAAGTTATGATCCGTTAAGATTTT 57.762 29.630 0.00 0.00 35.96 1.82
159 160 2.702592 TTTTCGTTGTGTGAGAGGGT 57.297 45.000 0.00 0.00 0.00 4.34
160 161 1.948104 TTTCGTTGTGTGAGAGGGTG 58.052 50.000 0.00 0.00 0.00 4.61
161 162 1.116308 TTCGTTGTGTGAGAGGGTGA 58.884 50.000 0.00 0.00 0.00 4.02
162 163 0.387929 TCGTTGTGTGAGAGGGTGAC 59.612 55.000 0.00 0.00 0.00 3.67
163 164 0.939577 CGTTGTGTGAGAGGGTGACG 60.940 60.000 0.00 0.00 0.00 4.35
164 165 1.069090 TTGTGTGAGAGGGTGACGC 59.931 57.895 0.00 0.00 0.00 5.19
165 166 2.430921 GTGTGAGAGGGTGACGCG 60.431 66.667 3.53 3.53 0.00 6.01
166 167 2.596338 TGTGAGAGGGTGACGCGA 60.596 61.111 15.93 0.00 0.00 5.87
167 168 2.197605 TGTGAGAGGGTGACGCGAA 61.198 57.895 15.93 0.00 0.00 4.70
168 169 1.006571 GTGAGAGGGTGACGCGAAA 60.007 57.895 15.93 0.00 0.00 3.46
169 170 1.006571 TGAGAGGGTGACGCGAAAC 60.007 57.895 15.93 10.55 0.00 2.78
170 171 1.289380 GAGAGGGTGACGCGAAACT 59.711 57.895 15.93 2.80 0.00 2.66
171 172 0.524862 GAGAGGGTGACGCGAAACTA 59.475 55.000 15.93 0.00 0.00 2.24
172 173 0.963962 AGAGGGTGACGCGAAACTAA 59.036 50.000 15.93 0.00 0.00 2.24
173 174 1.342174 AGAGGGTGACGCGAAACTAAA 59.658 47.619 15.93 0.00 0.00 1.85
174 175 2.028385 AGAGGGTGACGCGAAACTAAAT 60.028 45.455 15.93 0.00 0.00 1.40
175 176 2.344025 AGGGTGACGCGAAACTAAATC 58.656 47.619 15.93 0.00 0.00 2.17
176 177 1.060122 GGGTGACGCGAAACTAAATCG 59.940 52.381 15.93 0.00 42.99 3.34
177 178 1.060122 GGTGACGCGAAACTAAATCGG 59.940 52.381 15.93 0.00 40.54 4.18
178 179 1.723003 GTGACGCGAAACTAAATCGGT 59.277 47.619 15.93 0.00 40.54 4.69
179 180 1.722464 TGACGCGAAACTAAATCGGTG 59.278 47.619 15.93 0.00 40.54 4.94
180 181 1.060122 GACGCGAAACTAAATCGGTGG 59.940 52.381 15.93 0.00 40.54 4.61
181 182 0.372334 CGCGAAACTAAATCGGTGGG 59.628 55.000 0.00 0.00 40.54 4.61
182 183 0.730840 GCGAAACTAAATCGGTGGGG 59.269 55.000 0.00 0.00 40.54 4.96
183 184 1.947212 GCGAAACTAAATCGGTGGGGT 60.947 52.381 0.00 0.00 40.54 4.95
184 185 2.677613 GCGAAACTAAATCGGTGGGGTA 60.678 50.000 0.00 0.00 40.54 3.69
185 186 3.192466 CGAAACTAAATCGGTGGGGTAG 58.808 50.000 0.00 0.00 36.68 3.18
186 187 3.538591 GAAACTAAATCGGTGGGGTAGG 58.461 50.000 0.00 0.00 0.00 3.18
187 188 1.503800 ACTAAATCGGTGGGGTAGGG 58.496 55.000 0.00 0.00 0.00 3.53
188 189 0.763035 CTAAATCGGTGGGGTAGGGG 59.237 60.000 0.00 0.00 0.00 4.79
189 190 0.342665 TAAATCGGTGGGGTAGGGGA 59.657 55.000 0.00 0.00 0.00 4.81
190 191 0.986550 AAATCGGTGGGGTAGGGGAG 60.987 60.000 0.00 0.00 0.00 4.30
191 192 2.909292 AATCGGTGGGGTAGGGGAGG 62.909 65.000 0.00 0.00 0.00 4.30
193 194 3.702623 GGTGGGGTAGGGGAGGGA 61.703 72.222 0.00 0.00 0.00 4.20
194 195 2.366569 GTGGGGTAGGGGAGGGAC 60.367 72.222 0.00 0.00 0.00 4.46
195 196 4.084147 TGGGGTAGGGGAGGGACG 62.084 72.222 0.00 0.00 0.00 4.79
196 197 3.759101 GGGGTAGGGGAGGGACGA 61.759 72.222 0.00 0.00 0.00 4.20
197 198 2.365764 GGGTAGGGGAGGGACGAA 59.634 66.667 0.00 0.00 0.00 3.85
198 199 1.306397 GGGTAGGGGAGGGACGAAA 60.306 63.158 0.00 0.00 0.00 3.46
199 200 0.911045 GGGTAGGGGAGGGACGAAAA 60.911 60.000 0.00 0.00 0.00 2.29
200 201 0.986527 GGTAGGGGAGGGACGAAAAA 59.013 55.000 0.00 0.00 0.00 1.94
220 221 2.415697 AAACAGCGAAATGAAACGGG 57.584 45.000 0.00 0.00 0.00 5.28
221 222 1.314730 AACAGCGAAATGAAACGGGT 58.685 45.000 0.00 0.00 0.00 5.28
222 223 0.591170 ACAGCGAAATGAAACGGGTG 59.409 50.000 0.00 0.00 0.00 4.61
223 224 0.109781 CAGCGAAATGAAACGGGTGG 60.110 55.000 0.00 0.00 0.00 4.61
224 225 1.211709 GCGAAATGAAACGGGTGGG 59.788 57.895 0.00 0.00 0.00 4.61
225 226 1.238625 GCGAAATGAAACGGGTGGGA 61.239 55.000 0.00 0.00 0.00 4.37
226 227 0.802494 CGAAATGAAACGGGTGGGAG 59.198 55.000 0.00 0.00 0.00 4.30
227 228 1.173913 GAAATGAAACGGGTGGGAGG 58.826 55.000 0.00 0.00 0.00 4.30
228 229 0.481128 AAATGAAACGGGTGGGAGGT 59.519 50.000 0.00 0.00 0.00 3.85
229 230 0.251165 AATGAAACGGGTGGGAGGTG 60.251 55.000 0.00 0.00 0.00 4.00
230 231 2.033602 GAAACGGGTGGGAGGTGG 59.966 66.667 0.00 0.00 0.00 4.61
231 232 3.562732 GAAACGGGTGGGAGGTGGG 62.563 68.421 0.00 0.00 0.00 4.61
232 233 4.585216 AACGGGTGGGAGGTGGGA 62.585 66.667 0.00 0.00 0.00 4.37
235 236 4.348495 GGGTGGGAGGTGGGAGGA 62.348 72.222 0.00 0.00 0.00 3.71
236 237 2.204090 GGTGGGAGGTGGGAGGAA 60.204 66.667 0.00 0.00 0.00 3.36
237 238 2.301738 GGTGGGAGGTGGGAGGAAG 61.302 68.421 0.00 0.00 0.00 3.46
238 239 1.539124 GTGGGAGGTGGGAGGAAGT 60.539 63.158 0.00 0.00 0.00 3.01
239 240 0.252558 GTGGGAGGTGGGAGGAAGTA 60.253 60.000 0.00 0.00 0.00 2.24
240 241 0.252558 TGGGAGGTGGGAGGAAGTAC 60.253 60.000 0.00 0.00 0.00 2.73
241 242 0.981801 GGGAGGTGGGAGGAAGTACC 60.982 65.000 0.00 0.00 39.35 3.34
242 243 0.252558 GGAGGTGGGAGGAAGTACCA 60.253 60.000 0.00 0.00 42.04 3.25
243 244 1.652947 GAGGTGGGAGGAAGTACCAA 58.347 55.000 0.00 0.00 42.04 3.67
244 245 1.982958 GAGGTGGGAGGAAGTACCAAA 59.017 52.381 0.00 0.00 42.04 3.28
245 246 1.985895 AGGTGGGAGGAAGTACCAAAG 59.014 52.381 0.00 0.00 42.04 2.77
246 247 1.982958 GGTGGGAGGAAGTACCAAAGA 59.017 52.381 0.00 0.00 42.04 2.52
247 248 2.374170 GGTGGGAGGAAGTACCAAAGAA 59.626 50.000 0.00 0.00 42.04 2.52
248 249 3.559384 GGTGGGAGGAAGTACCAAAGAAG 60.559 52.174 0.00 0.00 42.04 2.85
249 250 3.072622 GTGGGAGGAAGTACCAAAGAAGT 59.927 47.826 0.00 0.00 42.04 3.01
250 251 4.285260 GTGGGAGGAAGTACCAAAGAAGTA 59.715 45.833 0.00 0.00 42.04 2.24
251 252 4.285260 TGGGAGGAAGTACCAAAGAAGTAC 59.715 45.833 0.00 0.00 42.04 2.73
252 253 4.323333 GGGAGGAAGTACCAAAGAAGTACC 60.323 50.000 0.00 0.00 40.83 3.34
253 254 4.285260 GGAGGAAGTACCAAAGAAGTACCA 59.715 45.833 0.00 0.00 40.83 3.25
254 255 5.221783 GGAGGAAGTACCAAAGAAGTACCAA 60.222 44.000 0.00 0.00 40.83 3.67
255 256 6.256643 AGGAAGTACCAAAGAAGTACCAAA 57.743 37.500 0.00 0.00 40.83 3.28
256 257 6.665695 AGGAAGTACCAAAGAAGTACCAAAA 58.334 36.000 0.00 0.00 40.83 2.44
257 258 7.120716 AGGAAGTACCAAAGAAGTACCAAAAA 58.879 34.615 0.00 0.00 40.83 1.94
273 274 4.591038 AAAAACCGGGTGAGGTGG 57.409 55.556 6.32 0.00 45.21 4.61
274 275 1.152631 AAAAACCGGGTGAGGTGGG 60.153 57.895 6.32 0.00 45.21 4.61
275 276 1.647334 AAAAACCGGGTGAGGTGGGA 61.647 55.000 6.32 0.00 45.21 4.37
276 277 2.347691 AAAACCGGGTGAGGTGGGAC 62.348 60.000 6.32 0.00 45.21 4.46
279 280 3.307906 CGGGTGAGGTGGGACGAA 61.308 66.667 0.00 0.00 0.00 3.85
280 281 2.874664 CGGGTGAGGTGGGACGAAA 61.875 63.158 0.00 0.00 0.00 3.46
281 282 1.452801 GGGTGAGGTGGGACGAAAA 59.547 57.895 0.00 0.00 0.00 2.29
282 283 0.179012 GGGTGAGGTGGGACGAAAAA 60.179 55.000 0.00 0.00 0.00 1.94
304 305 7.669089 AAAAATCTGAAAGGGAAACTACCAA 57.331 32.000 0.00 0.00 0.00 3.67
305 306 6.650427 AAATCTGAAAGGGAAACTACCAAC 57.350 37.500 0.00 0.00 0.00 3.77
306 307 5.584551 ATCTGAAAGGGAAACTACCAACT 57.415 39.130 0.00 0.00 0.00 3.16
307 308 4.714632 TCTGAAAGGGAAACTACCAACTG 58.285 43.478 0.00 0.00 0.00 3.16
308 309 3.219281 TGAAAGGGAAACTACCAACTGC 58.781 45.455 0.00 0.00 0.00 4.40
309 310 3.117663 TGAAAGGGAAACTACCAACTGCT 60.118 43.478 0.00 0.00 0.00 4.24
310 311 2.861147 AGGGAAACTACCAACTGCTC 57.139 50.000 0.00 0.00 0.00 4.26
311 312 1.351350 AGGGAAACTACCAACTGCTCC 59.649 52.381 0.00 0.00 0.00 4.70
312 313 1.073284 GGGAAACTACCAACTGCTCCA 59.927 52.381 0.00 0.00 0.00 3.86
313 314 2.290960 GGGAAACTACCAACTGCTCCAT 60.291 50.000 0.00 0.00 0.00 3.41
314 315 3.421844 GGAAACTACCAACTGCTCCATT 58.578 45.455 0.00 0.00 0.00 3.16
315 316 4.566907 GGGAAACTACCAACTGCTCCATTA 60.567 45.833 0.00 0.00 0.00 1.90
316 317 4.636206 GGAAACTACCAACTGCTCCATTAG 59.364 45.833 0.00 0.00 0.00 1.73
317 318 3.914426 ACTACCAACTGCTCCATTAGG 57.086 47.619 0.00 0.00 0.00 2.69
318 319 3.450904 ACTACCAACTGCTCCATTAGGA 58.549 45.455 0.00 0.00 43.21 2.94
319 320 3.844211 ACTACCAACTGCTCCATTAGGAA 59.156 43.478 0.00 0.00 45.19 3.36
320 321 4.475016 ACTACCAACTGCTCCATTAGGAAT 59.525 41.667 0.00 0.00 45.19 3.01
321 322 5.665812 ACTACCAACTGCTCCATTAGGAATA 59.334 40.000 0.00 0.00 45.19 1.75
322 323 5.041191 ACCAACTGCTCCATTAGGAATAG 57.959 43.478 0.00 0.00 45.19 1.73
323 324 4.721776 ACCAACTGCTCCATTAGGAATAGA 59.278 41.667 0.00 0.00 45.19 1.98
324 325 5.163258 ACCAACTGCTCCATTAGGAATAGAG 60.163 44.000 0.00 0.00 45.19 2.43
400 401 5.106436 TGAGACGTCTATTCTAGCGAAAACA 60.106 40.000 20.09 3.80 31.91 2.83
402 403 6.154445 AGACGTCTATTCTAGCGAAAACAAA 58.846 36.000 18.46 0.00 31.91 2.83
403 404 6.643770 AGACGTCTATTCTAGCGAAAACAAAA 59.356 34.615 18.46 0.00 31.91 2.44
483 484 7.378461 GCCACAAACCATATTAACATATTCACG 59.622 37.037 0.00 0.00 0.00 4.35
520 521 2.288825 ACGCATATATTCTGGTCCCACG 60.289 50.000 0.00 0.00 0.00 4.94
594 595 9.227490 CATAAACGGCGATGAAAAACATATAAA 57.773 29.630 16.62 0.00 39.56 1.40
742 743 7.333921 ACAGATCATTGCAACAAAACAAAAAGA 59.666 29.630 0.00 0.00 0.00 2.52
1081 1085 2.035704 CAGCAACCCAGCATACAACAAA 59.964 45.455 0.00 0.00 36.85 2.83
1195 1199 3.642503 CCCGTGGTGCCCCTGTAA 61.643 66.667 0.00 0.00 0.00 2.41
1368 1372 2.092429 GGAACCCTATGTTGGCATGAGA 60.092 50.000 0.00 0.00 37.29 3.27
1446 1450 6.173339 GGGTTTCTCTATCAAGATGAACACA 58.827 40.000 0.00 0.00 33.39 3.72
1566 1570 1.692519 CCTTACCTGGACCCTATTCCG 59.307 57.143 0.00 0.00 38.69 4.30
1593 1597 5.700832 TCCAACATCTGTTAACAGTGATGAC 59.299 40.000 30.03 0.00 44.12 3.06
1603 1607 3.961480 ACAGTGATGACGAGATGGAAA 57.039 42.857 0.00 0.00 0.00 3.13
1612 1616 4.714632 TGACGAGATGGAAAAAGAACCTT 58.285 39.130 0.00 0.00 0.00 3.50
1707 1714 1.957177 TGCAAGGCGAAAATGTTGGTA 59.043 42.857 0.00 0.00 0.00 3.25
2114 2121 2.364972 AAAAGGTGCAGCTAGGTGTT 57.635 45.000 20.51 6.39 0.00 3.32
2380 2389 3.457234 TGCGCACTTCAAGGATATACAG 58.543 45.455 5.66 0.00 0.00 2.74
2453 2462 6.016360 CAGAGTTGTCAACATATTTTGGGTGA 60.016 38.462 17.78 0.00 0.00 4.02
2549 2558 0.925466 GTACAATATGCCGTTCGCGT 59.075 50.000 5.77 0.00 42.08 6.01
2751 2760 0.466372 TTTCCAATCACCGTGCACCA 60.466 50.000 12.15 0.00 0.00 4.17
2810 2819 1.675720 GGTTGGTTGGTTGCTGTGCT 61.676 55.000 0.00 0.00 0.00 4.40
2869 2878 7.038659 GTGTTGACTTCAGCTTCACTATAGAT 58.961 38.462 6.78 0.00 0.00 1.98
2888 2897 4.914983 AGATGAGTTTGAGCAGAATTGGA 58.085 39.130 0.00 0.00 0.00 3.53
3372 3381 1.073199 CAAGGGTGGAGGAGCGTTT 59.927 57.895 0.00 0.00 0.00 3.60
3514 3523 2.291670 ACCTACTGCTGTACCTAGTGCT 60.292 50.000 0.00 0.00 0.00 4.40
3791 3801 0.326522 TCTAGGCAGCAATCAGGGGA 60.327 55.000 0.00 0.00 0.00 4.81
3903 3913 2.513753 CATGGTAGCCACTTGGACAAA 58.486 47.619 0.00 0.00 35.80 2.83
4257 4272 4.521146 AGGAGAATGATGTGATGGACAAC 58.479 43.478 0.00 0.00 38.36 3.32
4537 4552 5.652452 CCACTCGGTAGGACATCATCATATA 59.348 44.000 0.00 0.00 0.00 0.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 9.847224 AGGAAACAAATAACAGACTCTAAAGAA 57.153 29.630 0.00 0.00 0.00 2.52
34 35 9.847224 AAGGAAACAAATAACAGACTCTAAAGA 57.153 29.630 0.00 0.00 0.00 2.52
73 74 9.675464 ATCAATGCAATTTGATTTAGGAAACAT 57.325 25.926 9.30 0.00 42.29 2.71
74 75 8.937884 CATCAATGCAATTTGATTTAGGAAACA 58.062 29.630 11.92 0.00 42.29 2.83
75 76 8.392612 CCATCAATGCAATTTGATTTAGGAAAC 58.607 33.333 11.92 0.00 42.29 2.78
76 77 7.553402 CCCATCAATGCAATTTGATTTAGGAAA 59.447 33.333 11.92 0.00 42.29 3.13
77 78 7.049133 CCCATCAATGCAATTTGATTTAGGAA 58.951 34.615 11.92 0.00 42.29 3.36
78 79 6.383436 TCCCATCAATGCAATTTGATTTAGGA 59.617 34.615 11.92 14.17 42.29 2.94
79 80 6.584488 TCCCATCAATGCAATTTGATTTAGG 58.416 36.000 11.92 12.54 42.29 2.69
80 81 6.704493 CCTCCCATCAATGCAATTTGATTTAG 59.296 38.462 11.92 9.64 42.29 1.85
81 82 6.408320 CCCTCCCATCAATGCAATTTGATTTA 60.408 38.462 11.92 2.07 42.29 1.40
82 83 5.433526 CCTCCCATCAATGCAATTTGATTT 58.566 37.500 11.92 0.00 42.29 2.17
83 84 4.141574 CCCTCCCATCAATGCAATTTGATT 60.142 41.667 11.92 0.00 42.29 2.57
84 85 3.389983 CCCTCCCATCAATGCAATTTGAT 59.610 43.478 9.30 9.30 45.03 2.57
85 86 2.767394 CCCTCCCATCAATGCAATTTGA 59.233 45.455 5.26 5.26 39.77 2.69
86 87 2.502538 ACCCTCCCATCAATGCAATTTG 59.497 45.455 0.00 0.00 31.22 2.32
87 88 2.502538 CACCCTCCCATCAATGCAATTT 59.497 45.455 0.00 0.00 31.22 1.82
88 89 2.112998 CACCCTCCCATCAATGCAATT 58.887 47.619 0.00 0.00 36.63 2.32
89 90 1.288633 TCACCCTCCCATCAATGCAAT 59.711 47.619 0.00 0.00 0.00 3.56
90 91 0.703488 TCACCCTCCCATCAATGCAA 59.297 50.000 0.00 0.00 0.00 4.08
91 92 0.034186 GTCACCCTCCCATCAATGCA 60.034 55.000 0.00 0.00 0.00 3.96
92 93 1.097547 CGTCACCCTCCCATCAATGC 61.098 60.000 0.00 0.00 0.00 3.56
93 94 1.097547 GCGTCACCCTCCCATCAATG 61.098 60.000 0.00 0.00 0.00 2.82
94 95 1.224592 GCGTCACCCTCCCATCAAT 59.775 57.895 0.00 0.00 0.00 2.57
95 96 1.561769 ATGCGTCACCCTCCCATCAA 61.562 55.000 0.00 0.00 0.00 2.57
96 97 1.995066 ATGCGTCACCCTCCCATCA 60.995 57.895 0.00 0.00 0.00 3.07
97 98 1.524621 CATGCGTCACCCTCCCATC 60.525 63.158 0.00 0.00 0.00 3.51
98 99 2.591753 CATGCGTCACCCTCCCAT 59.408 61.111 0.00 0.00 0.00 4.00
99 100 3.716195 CCATGCGTCACCCTCCCA 61.716 66.667 0.00 0.00 0.00 4.37
100 101 2.478335 TTTCCATGCGTCACCCTCCC 62.478 60.000 0.00 0.00 0.00 4.30
101 102 1.002624 TTTCCATGCGTCACCCTCC 60.003 57.895 0.00 0.00 0.00 4.30
102 103 0.321653 ACTTTCCATGCGTCACCCTC 60.322 55.000 0.00 0.00 0.00 4.30
103 104 0.110486 AACTTTCCATGCGTCACCCT 59.890 50.000 0.00 0.00 0.00 4.34
104 105 1.816074 TAACTTTCCATGCGTCACCC 58.184 50.000 0.00 0.00 0.00 4.61
105 106 3.006940 TCATAACTTTCCATGCGTCACC 58.993 45.455 0.00 0.00 0.00 4.02
106 107 4.260784 GGATCATAACTTTCCATGCGTCAC 60.261 45.833 0.00 0.00 0.00 3.67
107 108 3.876914 GGATCATAACTTTCCATGCGTCA 59.123 43.478 0.00 0.00 0.00 4.35
108 109 3.059597 CGGATCATAACTTTCCATGCGTC 60.060 47.826 0.00 0.00 0.00 5.19
109 110 2.872245 CGGATCATAACTTTCCATGCGT 59.128 45.455 0.00 0.00 0.00 5.24
110 111 2.872245 ACGGATCATAACTTTCCATGCG 59.128 45.455 0.00 0.00 34.80 4.73
111 112 4.900635 AACGGATCATAACTTTCCATGC 57.099 40.909 0.00 0.00 0.00 4.06
112 113 7.786178 TCTTAACGGATCATAACTTTCCATG 57.214 36.000 0.00 0.00 0.00 3.66
113 114 8.980481 AATCTTAACGGATCATAACTTTCCAT 57.020 30.769 0.00 0.00 0.00 3.41
114 115 8.801882 AAATCTTAACGGATCATAACTTTCCA 57.198 30.769 0.00 0.00 0.00 3.53
139 140 2.680841 CACCCTCTCACACAACGAAAAA 59.319 45.455 0.00 0.00 0.00 1.94
140 141 2.093394 TCACCCTCTCACACAACGAAAA 60.093 45.455 0.00 0.00 0.00 2.29
141 142 1.483004 TCACCCTCTCACACAACGAAA 59.517 47.619 0.00 0.00 0.00 3.46
142 143 1.116308 TCACCCTCTCACACAACGAA 58.884 50.000 0.00 0.00 0.00 3.85
143 144 0.387929 GTCACCCTCTCACACAACGA 59.612 55.000 0.00 0.00 0.00 3.85
144 145 0.939577 CGTCACCCTCTCACACAACG 60.940 60.000 0.00 0.00 0.00 4.10
145 146 1.222115 GCGTCACCCTCTCACACAAC 61.222 60.000 0.00 0.00 0.00 3.32
146 147 1.069090 GCGTCACCCTCTCACACAA 59.931 57.895 0.00 0.00 0.00 3.33
147 148 2.734591 GCGTCACCCTCTCACACA 59.265 61.111 0.00 0.00 0.00 3.72
148 149 2.416244 TTCGCGTCACCCTCTCACAC 62.416 60.000 5.77 0.00 0.00 3.82
149 150 1.740332 TTTCGCGTCACCCTCTCACA 61.740 55.000 5.77 0.00 0.00 3.58
150 151 1.006571 TTTCGCGTCACCCTCTCAC 60.007 57.895 5.77 0.00 0.00 3.51
151 152 1.006571 GTTTCGCGTCACCCTCTCA 60.007 57.895 5.77 0.00 0.00 3.27
152 153 0.524862 TAGTTTCGCGTCACCCTCTC 59.475 55.000 5.77 0.00 0.00 3.20
153 154 0.963962 TTAGTTTCGCGTCACCCTCT 59.036 50.000 5.77 0.00 0.00 3.69
154 155 1.787012 TTTAGTTTCGCGTCACCCTC 58.213 50.000 5.77 0.00 0.00 4.30
155 156 2.344025 GATTTAGTTTCGCGTCACCCT 58.656 47.619 5.77 0.00 0.00 4.34
156 157 1.060122 CGATTTAGTTTCGCGTCACCC 59.940 52.381 5.77 0.00 0.00 4.61
157 158 1.060122 CCGATTTAGTTTCGCGTCACC 59.940 52.381 5.77 0.00 35.31 4.02
158 159 1.723003 ACCGATTTAGTTTCGCGTCAC 59.277 47.619 5.77 3.91 35.31 3.67
159 160 1.722464 CACCGATTTAGTTTCGCGTCA 59.278 47.619 5.77 0.00 35.31 4.35
160 161 1.060122 CCACCGATTTAGTTTCGCGTC 59.940 52.381 5.77 0.00 35.31 5.19
161 162 1.073177 CCACCGATTTAGTTTCGCGT 58.927 50.000 5.77 0.00 35.31 6.01
162 163 0.372334 CCCACCGATTTAGTTTCGCG 59.628 55.000 0.00 0.00 35.31 5.87
163 164 0.730840 CCCCACCGATTTAGTTTCGC 59.269 55.000 0.00 0.00 35.31 4.70
164 165 2.103537 ACCCCACCGATTTAGTTTCG 57.896 50.000 0.00 0.00 36.38 3.46
165 166 3.538591 CCTACCCCACCGATTTAGTTTC 58.461 50.000 0.00 0.00 0.00 2.78
166 167 2.240414 CCCTACCCCACCGATTTAGTTT 59.760 50.000 0.00 0.00 0.00 2.66
167 168 1.841919 CCCTACCCCACCGATTTAGTT 59.158 52.381 0.00 0.00 0.00 2.24
168 169 1.503800 CCCTACCCCACCGATTTAGT 58.496 55.000 0.00 0.00 0.00 2.24
169 170 0.763035 CCCCTACCCCACCGATTTAG 59.237 60.000 0.00 0.00 0.00 1.85
170 171 0.342665 TCCCCTACCCCACCGATTTA 59.657 55.000 0.00 0.00 0.00 1.40
171 172 0.986550 CTCCCCTACCCCACCGATTT 60.987 60.000 0.00 0.00 0.00 2.17
172 173 1.384082 CTCCCCTACCCCACCGATT 60.384 63.158 0.00 0.00 0.00 3.34
173 174 2.285868 CTCCCCTACCCCACCGAT 59.714 66.667 0.00 0.00 0.00 4.18
174 175 4.084147 CCTCCCCTACCCCACCGA 62.084 72.222 0.00 0.00 0.00 4.69
176 177 3.702623 TCCCTCCCCTACCCCACC 61.703 72.222 0.00 0.00 0.00 4.61
177 178 2.366569 GTCCCTCCCCTACCCCAC 60.367 72.222 0.00 0.00 0.00 4.61
178 179 4.084147 CGTCCCTCCCCTACCCCA 62.084 72.222 0.00 0.00 0.00 4.96
179 180 2.827886 TTTCGTCCCTCCCCTACCCC 62.828 65.000 0.00 0.00 0.00 4.95
180 181 0.911045 TTTTCGTCCCTCCCCTACCC 60.911 60.000 0.00 0.00 0.00 3.69
181 182 0.986527 TTTTTCGTCCCTCCCCTACC 59.013 55.000 0.00 0.00 0.00 3.18
199 200 3.120041 CCCGTTTCATTTCGCTGTTTTT 58.880 40.909 0.00 0.00 0.00 1.94
200 201 2.100087 ACCCGTTTCATTTCGCTGTTTT 59.900 40.909 0.00 0.00 0.00 2.43
201 202 1.679153 ACCCGTTTCATTTCGCTGTTT 59.321 42.857 0.00 0.00 0.00 2.83
202 203 1.001815 CACCCGTTTCATTTCGCTGTT 60.002 47.619 0.00 0.00 0.00 3.16
203 204 0.591170 CACCCGTTTCATTTCGCTGT 59.409 50.000 0.00 0.00 0.00 4.40
204 205 0.109781 CCACCCGTTTCATTTCGCTG 60.110 55.000 0.00 0.00 0.00 5.18
205 206 1.241315 CCCACCCGTTTCATTTCGCT 61.241 55.000 0.00 0.00 0.00 4.93
206 207 1.211709 CCCACCCGTTTCATTTCGC 59.788 57.895 0.00 0.00 0.00 4.70
207 208 0.802494 CTCCCACCCGTTTCATTTCG 59.198 55.000 0.00 0.00 0.00 3.46
208 209 1.173913 CCTCCCACCCGTTTCATTTC 58.826 55.000 0.00 0.00 0.00 2.17
209 210 0.481128 ACCTCCCACCCGTTTCATTT 59.519 50.000 0.00 0.00 0.00 2.32
210 211 0.251165 CACCTCCCACCCGTTTCATT 60.251 55.000 0.00 0.00 0.00 2.57
211 212 1.378762 CACCTCCCACCCGTTTCAT 59.621 57.895 0.00 0.00 0.00 2.57
212 213 2.824880 CCACCTCCCACCCGTTTCA 61.825 63.158 0.00 0.00 0.00 2.69
213 214 2.033602 CCACCTCCCACCCGTTTC 59.966 66.667 0.00 0.00 0.00 2.78
214 215 3.576259 CCCACCTCCCACCCGTTT 61.576 66.667 0.00 0.00 0.00 3.60
215 216 4.585216 TCCCACCTCCCACCCGTT 62.585 66.667 0.00 0.00 0.00 4.44
218 219 3.883822 TTCCTCCCACCTCCCACCC 62.884 68.421 0.00 0.00 0.00 4.61
219 220 2.204090 TTCCTCCCACCTCCCACC 60.204 66.667 0.00 0.00 0.00 4.61
220 221 0.252558 TACTTCCTCCCACCTCCCAC 60.253 60.000 0.00 0.00 0.00 4.61
221 222 0.252558 GTACTTCCTCCCACCTCCCA 60.253 60.000 0.00 0.00 0.00 4.37
222 223 0.981801 GGTACTTCCTCCCACCTCCC 60.982 65.000 0.00 0.00 0.00 4.30
223 224 0.252558 TGGTACTTCCTCCCACCTCC 60.253 60.000 0.00 0.00 37.07 4.30
224 225 1.652947 TTGGTACTTCCTCCCACCTC 58.347 55.000 0.00 0.00 37.07 3.85
225 226 1.985895 CTTTGGTACTTCCTCCCACCT 59.014 52.381 0.00 0.00 37.07 4.00
226 227 1.982958 TCTTTGGTACTTCCTCCCACC 59.017 52.381 0.00 0.00 37.07 4.61
227 228 3.072622 ACTTCTTTGGTACTTCCTCCCAC 59.927 47.826 0.00 0.00 37.07 4.61
228 229 3.323775 ACTTCTTTGGTACTTCCTCCCA 58.676 45.455 0.00 0.00 37.07 4.37
229 230 4.323333 GGTACTTCTTTGGTACTTCCTCCC 60.323 50.000 0.00 0.00 39.36 4.30
230 231 4.285260 TGGTACTTCTTTGGTACTTCCTCC 59.715 45.833 0.00 0.00 39.36 4.30
231 232 5.479124 TGGTACTTCTTTGGTACTTCCTC 57.521 43.478 0.00 0.00 39.36 3.71
232 233 5.899631 TTGGTACTTCTTTGGTACTTCCT 57.100 39.130 0.00 0.00 39.36 3.36
233 234 6.947644 TTTTGGTACTTCTTTGGTACTTCC 57.052 37.500 0.00 0.00 39.36 3.46
256 257 1.152631 CCCACCTCACCCGGTTTTT 60.153 57.895 0.00 0.00 34.29 1.94
257 258 2.079911 TCCCACCTCACCCGGTTTT 61.080 57.895 0.00 0.00 34.29 2.43
258 259 2.448931 TCCCACCTCACCCGGTTT 60.449 61.111 0.00 0.00 34.29 3.27
259 260 3.246880 GTCCCACCTCACCCGGTT 61.247 66.667 0.00 0.00 34.29 4.44
262 263 2.386064 TTTTCGTCCCACCTCACCCG 62.386 60.000 0.00 0.00 0.00 5.28
263 264 0.179012 TTTTTCGTCCCACCTCACCC 60.179 55.000 0.00 0.00 0.00 4.61
264 265 3.407443 TTTTTCGTCCCACCTCACC 57.593 52.632 0.00 0.00 0.00 4.02
280 281 7.344612 AGTTGGTAGTTTCCCTTTCAGATTTTT 59.655 33.333 0.00 0.00 0.00 1.94
281 282 6.839134 AGTTGGTAGTTTCCCTTTCAGATTTT 59.161 34.615 0.00 0.00 0.00 1.82
282 283 6.265422 CAGTTGGTAGTTTCCCTTTCAGATTT 59.735 38.462 0.00 0.00 0.00 2.17
283 284 5.770162 CAGTTGGTAGTTTCCCTTTCAGATT 59.230 40.000 0.00 0.00 0.00 2.40
284 285 5.316987 CAGTTGGTAGTTTCCCTTTCAGAT 58.683 41.667 0.00 0.00 0.00 2.90
285 286 4.714632 CAGTTGGTAGTTTCCCTTTCAGA 58.285 43.478 0.00 0.00 0.00 3.27
286 287 3.253432 GCAGTTGGTAGTTTCCCTTTCAG 59.747 47.826 0.00 0.00 0.00 3.02
287 288 3.117663 AGCAGTTGGTAGTTTCCCTTTCA 60.118 43.478 0.00 0.00 0.00 2.69
288 289 3.487372 AGCAGTTGGTAGTTTCCCTTTC 58.513 45.455 0.00 0.00 0.00 2.62
289 290 3.487372 GAGCAGTTGGTAGTTTCCCTTT 58.513 45.455 0.00 0.00 0.00 3.11
290 291 2.224793 GGAGCAGTTGGTAGTTTCCCTT 60.225 50.000 0.00 0.00 0.00 3.95
291 292 1.351350 GGAGCAGTTGGTAGTTTCCCT 59.649 52.381 0.00 0.00 0.00 4.20
292 293 1.073284 TGGAGCAGTTGGTAGTTTCCC 59.927 52.381 0.00 0.00 0.00 3.97
293 294 2.561478 TGGAGCAGTTGGTAGTTTCC 57.439 50.000 0.00 0.00 0.00 3.13
294 295 4.636206 CCTAATGGAGCAGTTGGTAGTTTC 59.364 45.833 0.00 0.00 34.57 2.78
295 296 4.288626 TCCTAATGGAGCAGTTGGTAGTTT 59.711 41.667 0.00 0.00 37.46 2.66
296 297 3.844211 TCCTAATGGAGCAGTTGGTAGTT 59.156 43.478 0.00 0.00 37.46 2.24
297 298 3.450904 TCCTAATGGAGCAGTTGGTAGT 58.549 45.455 0.00 0.00 37.46 2.73
298 299 4.487714 TTCCTAATGGAGCAGTTGGTAG 57.512 45.455 0.00 0.00 44.24 3.18
299 300 5.903010 TCTATTCCTAATGGAGCAGTTGGTA 59.097 40.000 0.00 0.00 44.24 3.25
300 301 4.721776 TCTATTCCTAATGGAGCAGTTGGT 59.278 41.667 0.00 0.00 44.24 3.67
301 302 5.070981 TCTCTATTCCTAATGGAGCAGTTGG 59.929 44.000 7.84 0.00 43.74 3.77
302 303 6.166984 TCTCTATTCCTAATGGAGCAGTTG 57.833 41.667 7.84 0.00 43.74 3.16
303 304 7.071698 TCAATCTCTATTCCTAATGGAGCAGTT 59.928 37.037 7.84 2.09 43.74 3.16
304 305 6.556495 TCAATCTCTATTCCTAATGGAGCAGT 59.444 38.462 7.84 0.00 43.74 4.40
305 306 7.002250 TCAATCTCTATTCCTAATGGAGCAG 57.998 40.000 7.84 2.23 43.74 4.24
306 307 7.379059 TTCAATCTCTATTCCTAATGGAGCA 57.621 36.000 7.84 0.11 43.74 4.26
307 308 7.882271 ACATTCAATCTCTATTCCTAATGGAGC 59.118 37.037 7.84 0.00 43.74 4.70
308 309 9.434420 GACATTCAATCTCTATTCCTAATGGAG 57.566 37.037 6.66 6.66 44.97 3.86
309 310 8.378565 GGACATTCAATCTCTATTCCTAATGGA 58.621 37.037 0.00 0.00 41.36 3.41
310 311 8.159447 TGGACATTCAATCTCTATTCCTAATGG 58.841 37.037 0.00 0.00 0.00 3.16
311 312 9.565090 TTGGACATTCAATCTCTATTCCTAATG 57.435 33.333 0.00 0.00 0.00 1.90
312 313 9.566432 GTTGGACATTCAATCTCTATTCCTAAT 57.434 33.333 0.00 0.00 0.00 1.73
313 314 8.772250 AGTTGGACATTCAATCTCTATTCCTAA 58.228 33.333 0.00 0.00 0.00 2.69
314 315 8.206867 CAGTTGGACATTCAATCTCTATTCCTA 58.793 37.037 0.00 0.00 0.00 2.94
315 316 7.052873 CAGTTGGACATTCAATCTCTATTCCT 58.947 38.462 0.00 0.00 0.00 3.36
316 317 7.050377 TCAGTTGGACATTCAATCTCTATTCC 58.950 38.462 0.00 0.00 0.00 3.01
317 318 8.498054 TTCAGTTGGACATTCAATCTCTATTC 57.502 34.615 0.00 0.00 0.00 1.75
320 321 9.551734 CATATTCAGTTGGACATTCAATCTCTA 57.448 33.333 0.00 0.00 0.00 2.43
321 322 8.051535 ACATATTCAGTTGGACATTCAATCTCT 58.948 33.333 0.00 0.00 0.00 3.10
322 323 8.218338 ACATATTCAGTTGGACATTCAATCTC 57.782 34.615 0.00 0.00 0.00 2.75
323 324 9.857656 ATACATATTCAGTTGGACATTCAATCT 57.142 29.630 0.00 0.00 0.00 2.40
324 325 9.888878 CATACATATTCAGTTGGACATTCAATC 57.111 33.333 0.00 0.00 0.00 2.67
402 403 6.463995 TTTCCTGTTGCACTACAGATTTTT 57.536 33.333 18.19 0.00 46.72 1.94
403 404 6.463995 TTTTCCTGTTGCACTACAGATTTT 57.536 33.333 18.19 0.00 46.72 1.82
520 521 9.927668 AACATATTAATATGGTTTGCAATAGGC 57.072 29.630 30.00 0.00 43.38 3.93
558 559 6.741109 TCATCGCCGTTTATGTTTCTAGATA 58.259 36.000 0.00 0.00 0.00 1.98
742 743 7.773690 TGCTACAGAGTTTTTCTTACCTTTTCT 59.226 33.333 0.00 0.00 32.41 2.52
970 974 1.483827 TGTTTTTGGATGCTGCCACAA 59.516 42.857 0.00 0.00 37.75 3.33
1081 1085 3.003689 CGACCATTTTCTGTGCAGTTTCT 59.996 43.478 0.00 0.00 0.00 2.52
1195 1199 2.369860 TCTCTGACTGCAAAGACACCAT 59.630 45.455 0.00 0.00 0.00 3.55
1566 1570 5.245531 TCACTGTTAACAGATGTTGGATCC 58.754 41.667 36.14 4.20 46.59 3.36
1593 1597 5.689383 TTGAAGGTTCTTTTTCCATCTCG 57.311 39.130 0.00 0.00 0.00 4.04
1603 1607 8.181904 TCTTCAGCAAATATTGAAGGTTCTTT 57.818 30.769 12.71 0.00 46.45 2.52
1612 1616 5.298527 CAGCATCCTCTTCAGCAAATATTGA 59.701 40.000 0.00 0.00 0.00 2.57
1707 1714 2.551721 CCATCGCCCATCTATCAGCTTT 60.552 50.000 0.00 0.00 0.00 3.51
1909 1916 0.409876 ACACTGGACTGCCTAGAGGA 59.590 55.000 0.00 0.00 37.39 3.71
2114 2121 6.317140 GCACAGAAGATAATCACAGGAAATGA 59.683 38.462 0.00 0.00 0.00 2.57
2380 2389 4.570930 AGAAGAAGTCTGGATCGGTTTTC 58.429 43.478 0.00 0.00 34.29 2.29
2549 2558 9.999040 GCCATGTCGGTTTATTCCTATGAAGGA 62.999 44.444 0.00 0.00 43.49 3.36
2739 2748 0.749818 ACAACAATGGTGCACGGTGA 60.750 50.000 13.29 0.00 0.00 4.02
2751 2760 2.435422 TGATGTGCCATCGACAACAAT 58.565 42.857 9.65 0.00 0.00 2.71
2810 2819 2.928036 TCAGAGAGTCCTGGATTCCA 57.072 50.000 14.83 5.05 34.99 3.53
2869 2878 3.817084 CAGTCCAATTCTGCTCAAACTCA 59.183 43.478 0.00 0.00 0.00 3.41
2888 2897 6.595682 CCTCATACTTCATCATTAACCCAGT 58.404 40.000 0.00 0.00 0.00 4.00
3372 3381 8.349245 CCATTTTACAACACTCACACAAATAGA 58.651 33.333 0.00 0.00 0.00 1.98
3903 3913 1.737793 GCGCAACTAGGCAGTATGTTT 59.262 47.619 0.30 0.00 39.31 2.83
4257 4272 3.197766 TGTGCTAGTCTTAGGATTGGGTG 59.802 47.826 0.00 0.00 29.47 4.61
4391 4406 1.202557 TCACCCAGTTACGTTGTGACC 60.203 52.381 0.00 0.00 31.45 4.02
4537 4552 0.108585 ACTCCTTGGTCACATTGCGT 59.891 50.000 0.00 0.00 0.00 5.24


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

AutoCloner maintained by Alex Coulton.