Multiple sequence alignment - TraesCS1B01G423700

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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 TraesCS1B01G423700 chr1B 100.000 2387 0 0 1 2387 646461178 646463564 0.000000e+00 4409
1 TraesCS1B01G423700 chr1B 92.565 269 18 2 1 268 115956223 115956490 3.720000e-103 385
2 TraesCS1B01G423700 chr4D 96.696 908 23 1 1480 2387 507406660 507407560 0.000000e+00 1504
3 TraesCS1B01G423700 chr4D 89.968 618 48 12 1774 2387 105235655 105236262 0.000000e+00 785
4 TraesCS1B01G423700 chr7D 95.930 909 23 8 1480 2387 554433392 554434287 0.000000e+00 1461
5 TraesCS1B01G423700 chr7D 95.154 908 36 3 1480 2387 238780341 238781240 0.000000e+00 1426
6 TraesCS1B01G423700 chr7D 93.059 778 44 7 708 1477 366729352 366730127 0.000000e+00 1129
7 TraesCS1B01G423700 chr7D 89.951 617 48 12 1774 2387 116814863 116814258 0.000000e+00 784
8 TraesCS1B01G423700 chr7D 86.387 382 44 3 1482 1856 39786166 39786546 6.140000e-111 411
9 TraesCS1B01G423700 chr3A 95.374 908 34 2 1480 2387 198350094 198350993 0.000000e+00 1437
10 TraesCS1B01G423700 chr3A 95.922 613 25 0 1480 2092 261418534 261417922 0.000000e+00 994
11 TraesCS1B01G423700 chr3A 96.160 599 23 0 1480 2078 261404335 261403737 0.000000e+00 979
12 TraesCS1B01G423700 chr7A 93.275 803 43 6 685 1479 299510145 299509346 0.000000e+00 1173
13 TraesCS1B01G423700 chr1D 93.308 777 43 6 708 1477 7094387 7093613 0.000000e+00 1138
14 TraesCS1B01G423700 chr1D 91.086 617 43 6 1774 2387 394549299 394549906 0.000000e+00 824
15 TraesCS1B01G423700 chr1D 88.350 618 58 11 1774 2387 46921898 46921291 0.000000e+00 730
16 TraesCS1B01G423700 chr1D 84.005 744 79 14 743 1478 368491519 368492230 0.000000e+00 678
17 TraesCS1B01G423700 chr1D 90.299 268 24 2 2 268 1531725 1531991 1.360000e-92 350
18 TraesCS1B01G423700 chr4B 89.767 772 58 6 685 1448 226856220 226856978 0.000000e+00 968
19 TraesCS1B01G423700 chr4B 90.809 272 20 5 2 271 633785518 633785250 2.260000e-95 359
20 TraesCS1B01G423700 chr4B 90.299 268 24 2 2 268 427489811 427490077 1.360000e-92 350
21 TraesCS1B01G423700 chr6D 90.438 617 46 6 1774 2387 58059109 58059715 0.000000e+00 800
22 TraesCS1B01G423700 chr6D 85.329 334 35 4 1481 1801 58058769 58059101 1.370000e-87 333
23 TraesCS1B01G423700 chr3D 90.113 617 48 11 1774 2387 91310736 91311342 0.000000e+00 789
24 TraesCS1B01G423700 chr3D 90.809 272 22 3 2 272 492119617 492119886 6.270000e-96 361
25 TraesCS1B01G423700 chr4A 85.622 619 52 15 1774 2387 241034957 241034371 1.210000e-172 616
26 TraesCS1B01G423700 chr4A 89.925 268 25 2 2 268 549920455 549920721 6.320000e-91 344
27 TraesCS1B01G423700 chr4A 96.154 78 3 0 347 424 13441276 13441353 6.930000e-26 128
28 TraesCS1B01G423700 chr2A 83.939 660 85 17 827 1478 345162631 345163277 1.570000e-171 612
29 TraesCS1B01G423700 chr2A 83.891 658 86 16 827 1477 344891034 344891678 5.640000e-171 610
30 TraesCS1B01G423700 chr2A 83.079 656 83 18 842 1478 348236249 348236895 2.660000e-159 571
31 TraesCS1B01G423700 chr2A 93.043 345 15 4 267 611 344890346 344890681 1.650000e-136 496
32 TraesCS1B01G423700 chr2A 93.043 345 15 4 267 611 345161942 345162277 1.650000e-136 496
33 TraesCS1B01G423700 chr2A 92.000 350 14 5 267 611 348235548 348235888 1.660000e-131 479
34 TraesCS1B01G423700 chr2A 89.017 346 29 4 1519 1856 773069819 773069475 1.020000e-113 420
35 TraesCS1B01G423700 chr6B 83.359 661 86 14 827 1478 25749963 25750608 7.350000e-165 590
36 TraesCS1B01G423700 chr6B 91.450 269 21 2 1 268 544403953 544404220 3.750000e-98 368
37 TraesCS1B01G423700 chr2D 81.435 641 85 12 863 1478 267295830 267296461 5.930000e-136 494
38 TraesCS1B01G423700 chr5D 91.045 268 22 2 2 268 57846243 57845977 6.270000e-96 361
39 TraesCS1B01G423700 chr1A 90.637 267 23 2 2 267 308950480 308950745 1.050000e-93 353
40 TraesCS1B01G423700 chr2B 96.154 78 3 0 347 424 784696387 784696464 6.930000e-26 128
41 TraesCS1B01G423700 chr6A 90.909 55 5 0 743 797 149043845 149043899 9.150000e-10 75
42 TraesCS1B01G423700 chr6A 90.909 55 5 0 743 797 312700457 312700511 9.150000e-10 75


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 TraesCS1B01G423700 chr1B 646461178 646463564 2386 False 4409.0 4409 100.0000 1 2387 1 chr1B.!!$F2 2386
1 TraesCS1B01G423700 chr4D 507406660 507407560 900 False 1504.0 1504 96.6960 1480 2387 1 chr4D.!!$F2 907
2 TraesCS1B01G423700 chr4D 105235655 105236262 607 False 785.0 785 89.9680 1774 2387 1 chr4D.!!$F1 613
3 TraesCS1B01G423700 chr7D 554433392 554434287 895 False 1461.0 1461 95.9300 1480 2387 1 chr7D.!!$F4 907
4 TraesCS1B01G423700 chr7D 238780341 238781240 899 False 1426.0 1426 95.1540 1480 2387 1 chr7D.!!$F2 907
5 TraesCS1B01G423700 chr7D 366729352 366730127 775 False 1129.0 1129 93.0590 708 1477 1 chr7D.!!$F3 769
6 TraesCS1B01G423700 chr7D 116814258 116814863 605 True 784.0 784 89.9510 1774 2387 1 chr7D.!!$R1 613
7 TraesCS1B01G423700 chr3A 198350094 198350993 899 False 1437.0 1437 95.3740 1480 2387 1 chr3A.!!$F1 907
8 TraesCS1B01G423700 chr3A 261417922 261418534 612 True 994.0 994 95.9220 1480 2092 1 chr3A.!!$R2 612
9 TraesCS1B01G423700 chr3A 261403737 261404335 598 True 979.0 979 96.1600 1480 2078 1 chr3A.!!$R1 598
10 TraesCS1B01G423700 chr7A 299509346 299510145 799 True 1173.0 1173 93.2750 685 1479 1 chr7A.!!$R1 794
11 TraesCS1B01G423700 chr1D 7093613 7094387 774 True 1138.0 1138 93.3080 708 1477 1 chr1D.!!$R1 769
12 TraesCS1B01G423700 chr1D 394549299 394549906 607 False 824.0 824 91.0860 1774 2387 1 chr1D.!!$F3 613
13 TraesCS1B01G423700 chr1D 46921291 46921898 607 True 730.0 730 88.3500 1774 2387 1 chr1D.!!$R2 613
14 TraesCS1B01G423700 chr1D 368491519 368492230 711 False 678.0 678 84.0050 743 1478 1 chr1D.!!$F2 735
15 TraesCS1B01G423700 chr4B 226856220 226856978 758 False 968.0 968 89.7670 685 1448 1 chr4B.!!$F1 763
16 TraesCS1B01G423700 chr6D 58058769 58059715 946 False 566.5 800 87.8835 1481 2387 2 chr6D.!!$F1 906
17 TraesCS1B01G423700 chr3D 91310736 91311342 606 False 789.0 789 90.1130 1774 2387 1 chr3D.!!$F1 613
18 TraesCS1B01G423700 chr4A 241034371 241034957 586 True 616.0 616 85.6220 1774 2387 1 chr4A.!!$R1 613
19 TraesCS1B01G423700 chr2A 345161942 345163277 1335 False 554.0 612 88.4910 267 1478 2 chr2A.!!$F2 1211
20 TraesCS1B01G423700 chr2A 344890346 344891678 1332 False 553.0 610 88.4670 267 1477 2 chr2A.!!$F1 1210
21 TraesCS1B01G423700 chr2A 348235548 348236895 1347 False 525.0 571 87.5395 267 1478 2 chr2A.!!$F3 1211
22 TraesCS1B01G423700 chr6B 25749963 25750608 645 False 590.0 590 83.3590 827 1478 1 chr6B.!!$F1 651
23 TraesCS1B01G423700 chr2D 267295830 267296461 631 False 494.0 494 81.4350 863 1478 1 chr2D.!!$F1 615

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
432 438 0.109226 GGACTCGGTCGTGGAAGAAG 60.109 60.0 0.0 0.0 32.65 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1617 1905 0.257039 GATGCCTGGGAGGAACATGT 59.743 55.0 0.0 0.0 37.67 3.21 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
52 53 3.736213 CGTTGATCGTTTGATTCACAGG 58.264 45.455 0.00 0.00 34.09 4.00
53 54 3.431912 CGTTGATCGTTTGATTCACAGGA 59.568 43.478 0.00 0.00 34.09 3.86
54 55 4.093408 CGTTGATCGTTTGATTCACAGGAT 59.907 41.667 7.52 7.52 34.09 3.24
55 56 5.390885 CGTTGATCGTTTGATTCACAGGATT 60.391 40.000 8.84 0.00 34.09 3.01
56 57 5.550232 TGATCGTTTGATTCACAGGATTG 57.450 39.130 8.84 0.00 34.09 2.67
57 58 5.244755 TGATCGTTTGATTCACAGGATTGA 58.755 37.500 8.84 0.00 34.09 2.57
58 59 5.704978 TGATCGTTTGATTCACAGGATTGAA 59.295 36.000 8.84 0.00 39.79 2.69
59 60 6.375174 TGATCGTTTGATTCACAGGATTGAAT 59.625 34.615 8.84 0.00 46.73 2.57
122 123 7.992754 ATTTCATAGGAATTCTAGCATCCAC 57.007 36.000 5.23 0.00 35.62 4.02
123 124 6.753913 TTCATAGGAATTCTAGCATCCACT 57.246 37.500 5.23 0.00 35.62 4.00
124 125 6.352016 TCATAGGAATTCTAGCATCCACTC 57.648 41.667 5.23 0.00 35.62 3.51
125 126 5.247110 TCATAGGAATTCTAGCATCCACTCC 59.753 44.000 5.23 0.00 35.62 3.85
126 127 3.387962 AGGAATTCTAGCATCCACTCCA 58.612 45.455 5.23 0.00 35.62 3.86
127 128 3.782523 AGGAATTCTAGCATCCACTCCAA 59.217 43.478 5.23 0.00 35.62 3.53
128 129 3.879892 GGAATTCTAGCATCCACTCCAAC 59.120 47.826 5.23 0.00 33.30 3.77
129 130 3.567478 ATTCTAGCATCCACTCCAACC 57.433 47.619 0.00 0.00 0.00 3.77
130 131 2.254152 TCTAGCATCCACTCCAACCT 57.746 50.000 0.00 0.00 0.00 3.50
131 132 2.111384 TCTAGCATCCACTCCAACCTC 58.889 52.381 0.00 0.00 0.00 3.85
132 133 2.114616 CTAGCATCCACTCCAACCTCT 58.885 52.381 0.00 0.00 0.00 3.69
133 134 1.366319 AGCATCCACTCCAACCTCTT 58.634 50.000 0.00 0.00 0.00 2.85
134 135 1.004044 AGCATCCACTCCAACCTCTTG 59.996 52.381 0.00 0.00 0.00 3.02
135 136 1.003580 GCATCCACTCCAACCTCTTGA 59.996 52.381 0.00 0.00 0.00 3.02
136 137 2.553028 GCATCCACTCCAACCTCTTGAA 60.553 50.000 0.00 0.00 0.00 2.69
137 138 3.754965 CATCCACTCCAACCTCTTGAAA 58.245 45.455 0.00 0.00 0.00 2.69
138 139 3.492102 TCCACTCCAACCTCTTGAAAG 57.508 47.619 0.00 0.00 0.00 2.62
139 140 3.045634 TCCACTCCAACCTCTTGAAAGA 58.954 45.455 0.00 0.00 0.00 2.52
140 141 3.458118 TCCACTCCAACCTCTTGAAAGAA 59.542 43.478 0.00 0.00 34.03 2.52
141 142 4.080015 TCCACTCCAACCTCTTGAAAGAAA 60.080 41.667 0.00 0.00 34.03 2.52
142 143 4.829492 CCACTCCAACCTCTTGAAAGAAAT 59.171 41.667 0.00 0.00 34.03 2.17
143 144 5.048434 CCACTCCAACCTCTTGAAAGAAATC 60.048 44.000 0.00 0.00 34.03 2.17
144 145 5.048434 CACTCCAACCTCTTGAAAGAAATCC 60.048 44.000 0.00 0.00 34.03 3.01
145 146 5.163045 ACTCCAACCTCTTGAAAGAAATCCT 60.163 40.000 0.00 0.00 34.03 3.24
146 147 5.705400 TCCAACCTCTTGAAAGAAATCCTT 58.295 37.500 0.00 0.00 34.03 3.36
148 149 6.040842 TCCAACCTCTTGAAAGAAATCCTTTG 59.959 38.462 0.00 0.00 44.63 2.77
149 150 6.183360 CCAACCTCTTGAAAGAAATCCTTTGT 60.183 38.462 0.00 0.00 44.63 2.83
150 151 7.267857 CAACCTCTTGAAAGAAATCCTTTGTT 58.732 34.615 0.00 0.00 44.63 2.83
151 152 7.423844 ACCTCTTGAAAGAAATCCTTTGTTT 57.576 32.000 0.00 0.00 44.63 2.83
152 153 7.851228 ACCTCTTGAAAGAAATCCTTTGTTTT 58.149 30.769 0.00 0.00 44.63 2.43
153 154 8.321353 ACCTCTTGAAAGAAATCCTTTGTTTTT 58.679 29.630 0.00 0.00 44.63 1.94
154 155 8.820933 CCTCTTGAAAGAAATCCTTTGTTTTTC 58.179 33.333 0.00 0.00 44.63 2.29
155 156 9.369904 CTCTTGAAAGAAATCCTTTGTTTTTCA 57.630 29.630 0.00 0.00 44.63 2.69
156 157 9.889128 TCTTGAAAGAAATCCTTTGTTTTTCAT 57.111 25.926 0.00 0.00 44.63 2.57
157 158 9.925268 CTTGAAAGAAATCCTTTGTTTTTCATG 57.075 29.630 0.00 0.00 44.63 3.07
158 159 9.447157 TTGAAAGAAATCCTTTGTTTTTCATGT 57.553 25.926 0.00 0.00 44.63 3.21
159 160 8.881743 TGAAAGAAATCCTTTGTTTTTCATGTG 58.118 29.630 0.00 0.00 44.63 3.21
160 161 9.097257 GAAAGAAATCCTTTGTTTTTCATGTGA 57.903 29.630 0.00 0.00 44.63 3.58
161 162 9.617523 AAAGAAATCCTTTGTTTTTCATGTGAT 57.382 25.926 0.00 0.00 43.10 3.06
163 164 9.696917 AGAAATCCTTTGTTTTTCATGTGATAC 57.303 29.630 0.00 0.00 32.94 2.24
164 165 9.474920 GAAATCCTTTGTTTTTCATGTGATACA 57.525 29.630 0.00 0.00 31.29 2.29
165 166 9.829507 AAATCCTTTGTTTTTCATGTGATACAA 57.170 25.926 0.00 0.00 0.00 2.41
167 168 9.643693 ATCCTTTGTTTTTCATGTGATACAATC 57.356 29.630 0.00 0.00 0.00 2.67
168 169 8.637099 TCCTTTGTTTTTCATGTGATACAATCA 58.363 29.630 0.00 0.00 36.84 2.57
169 170 9.258826 CCTTTGTTTTTCATGTGATACAATCAA 57.741 29.630 0.00 0.00 41.69 2.57
172 173 9.591792 TTGTTTTTCATGTGATACAATCAAACA 57.408 25.926 0.00 0.00 41.69 2.83
173 174 9.591792 TGTTTTTCATGTGATACAATCAAACAA 57.408 25.926 0.00 0.00 41.69 2.83
178 179 9.978044 TTCATGTGATACAATCAAACAAAATCA 57.022 25.926 0.00 0.00 41.69 2.57
179 180 9.978044 TCATGTGATACAATCAAACAAAATCAA 57.022 25.926 0.00 0.00 41.69 2.57
201 202 3.290039 TCCTATAGGATCCAATGGGCA 57.710 47.619 18.00 0.00 39.78 5.36
202 203 3.819187 TCCTATAGGATCCAATGGGCAT 58.181 45.455 18.00 0.00 39.78 4.40
203 204 4.186320 TCCTATAGGATCCAATGGGCATT 58.814 43.478 18.00 0.00 39.78 3.56
204 205 4.607584 TCCTATAGGATCCAATGGGCATTT 59.392 41.667 18.00 0.00 39.78 2.32
205 206 4.952335 CCTATAGGATCCAATGGGCATTTC 59.048 45.833 14.11 0.00 37.39 2.17
206 207 2.852714 AGGATCCAATGGGCATTTCA 57.147 45.000 15.82 0.00 0.00 2.69
207 208 3.339713 AGGATCCAATGGGCATTTCAT 57.660 42.857 15.82 0.00 0.00 2.57
208 209 3.660959 AGGATCCAATGGGCATTTCATT 58.339 40.909 15.82 0.00 35.45 2.57
209 210 4.042174 AGGATCCAATGGGCATTTCATTT 58.958 39.130 15.82 0.00 33.08 2.32
210 211 4.102054 AGGATCCAATGGGCATTTCATTTC 59.898 41.667 15.82 0.00 33.08 2.17
211 212 4.141665 GGATCCAATGGGCATTTCATTTCA 60.142 41.667 6.95 0.00 33.08 2.69
212 213 4.904895 TCCAATGGGCATTTCATTTCAA 57.095 36.364 0.00 0.00 33.08 2.69
213 214 5.438698 TCCAATGGGCATTTCATTTCAAT 57.561 34.783 0.00 0.00 33.08 2.57
214 215 5.430007 TCCAATGGGCATTTCATTTCAATC 58.570 37.500 0.00 0.00 33.08 2.67
215 216 4.577283 CCAATGGGCATTTCATTTCAATCC 59.423 41.667 0.00 0.00 33.08 3.01
216 217 5.433526 CAATGGGCATTTCATTTCAATCCT 58.566 37.500 0.00 0.00 33.08 3.24
217 218 6.408320 CCAATGGGCATTTCATTTCAATCCTA 60.408 38.462 0.00 0.00 33.08 2.94
218 219 5.596836 TGGGCATTTCATTTCAATCCTAC 57.403 39.130 0.00 0.00 0.00 3.18
219 220 5.022122 TGGGCATTTCATTTCAATCCTACA 58.978 37.500 0.00 0.00 0.00 2.74
220 221 5.662208 TGGGCATTTCATTTCAATCCTACAT 59.338 36.000 0.00 0.00 0.00 2.29
221 222 6.156602 TGGGCATTTCATTTCAATCCTACATT 59.843 34.615 0.00 0.00 0.00 2.71
222 223 7.049754 GGGCATTTCATTTCAATCCTACATTT 58.950 34.615 0.00 0.00 0.00 2.32
223 224 7.553760 GGGCATTTCATTTCAATCCTACATTTT 59.446 33.333 0.00 0.00 0.00 1.82
224 225 8.949177 GGCATTTCATTTCAATCCTACATTTTT 58.051 29.630 0.00 0.00 0.00 1.94
225 226 9.977762 GCATTTCATTTCAATCCTACATTTTTC 57.022 29.630 0.00 0.00 0.00 2.29
235 236 9.753674 TCAATCCTACATTTTTCTTATTCCTGT 57.246 29.630 0.00 0.00 0.00 4.00
236 237 9.793252 CAATCCTACATTTTTCTTATTCCTGTG 57.207 33.333 0.00 0.00 0.00 3.66
237 238 9.533831 AATCCTACATTTTTCTTATTCCTGTGT 57.466 29.630 0.00 0.00 0.00 3.72
243 244 9.423061 ACATTTTTCTTATTCCTGTGTATTTGC 57.577 29.630 0.00 0.00 0.00 3.68
244 245 9.421806 CATTTTTCTTATTCCTGTGTATTTGCA 57.578 29.630 0.00 0.00 0.00 4.08
245 246 9.995003 ATTTTTCTTATTCCTGTGTATTTGCAA 57.005 25.926 0.00 0.00 0.00 4.08
246 247 9.995003 TTTTTCTTATTCCTGTGTATTTGCAAT 57.005 25.926 0.00 0.00 0.00 3.56
247 248 9.638239 TTTTCTTATTCCTGTGTATTTGCAATC 57.362 29.630 0.00 0.00 0.00 2.67
248 249 7.333528 TCTTATTCCTGTGTATTTGCAATCC 57.666 36.000 0.00 0.00 0.00 3.01
249 250 7.118723 TCTTATTCCTGTGTATTTGCAATCCT 58.881 34.615 0.00 0.00 0.00 3.24
250 251 5.587388 ATTCCTGTGTATTTGCAATCCTG 57.413 39.130 0.00 0.00 0.00 3.86
262 263 3.062323 GCAATCCTGCGAATCAAAGAG 57.938 47.619 0.00 0.00 39.20 2.85
263 264 2.223433 GCAATCCTGCGAATCAAAGAGG 60.223 50.000 0.00 0.00 39.20 3.69
264 265 1.673168 ATCCTGCGAATCAAAGAGGC 58.327 50.000 0.00 0.00 0.00 4.70
265 266 0.392998 TCCTGCGAATCAAAGAGGCC 60.393 55.000 0.00 0.00 0.00 5.19
287 288 0.817634 CAGTTTGGACGCCCAGACAA 60.818 55.000 13.85 0.00 46.76 3.18
348 354 1.134788 CCTACTGGATTGGACGTGGAC 60.135 57.143 0.00 0.00 34.57 4.02
371 377 6.603095 ACGAGAAAAATACAATCAGAAGCAC 58.397 36.000 0.00 0.00 0.00 4.40
421 427 1.416243 TACACCAACTTGGACTCGGT 58.584 50.000 15.14 6.88 40.96 4.69
423 429 0.944311 CACCAACTTGGACTCGGTCG 60.944 60.000 15.14 0.00 40.96 4.79
427 433 1.111116 AACTTGGACTCGGTCGTGGA 61.111 55.000 0.00 0.00 32.65 4.02
428 434 1.111116 ACTTGGACTCGGTCGTGGAA 61.111 55.000 0.00 0.00 32.65 3.53
429 435 0.388649 CTTGGACTCGGTCGTGGAAG 60.389 60.000 0.00 0.00 32.65 3.46
430 436 0.824595 TTGGACTCGGTCGTGGAAGA 60.825 55.000 0.00 0.00 32.65 2.87
431 437 0.824595 TGGACTCGGTCGTGGAAGAA 60.825 55.000 0.00 0.00 32.65 2.52
432 438 0.109226 GGACTCGGTCGTGGAAGAAG 60.109 60.000 0.00 0.00 32.65 2.85
433 439 0.879765 GACTCGGTCGTGGAAGAAGA 59.120 55.000 0.00 0.00 0.00 2.87
434 440 1.268899 GACTCGGTCGTGGAAGAAGAA 59.731 52.381 0.00 0.00 0.00 2.52
438 444 2.101917 TCGGTCGTGGAAGAAGAAAACT 59.898 45.455 0.00 0.00 0.00 2.66
448 454 5.938125 TGGAAGAAGAAAACTAATCGGGAAG 59.062 40.000 0.00 0.00 0.00 3.46
456 462 3.093717 ACTAATCGGGAAGCATACACG 57.906 47.619 0.00 0.00 35.35 4.49
468 474 1.269166 CATACACGAACTCGGACTGC 58.731 55.000 3.88 0.00 44.95 4.40
471 477 1.079819 CACGAACTCGGACTGCCAT 60.080 57.895 3.88 0.00 44.95 4.40
611 617 3.335579 GAGCCGTCAAGTATGTTCCTTT 58.664 45.455 0.00 0.00 0.00 3.11
612 618 3.074412 AGCCGTCAAGTATGTTCCTTTG 58.926 45.455 0.00 0.00 0.00 2.77
613 619 3.071479 GCCGTCAAGTATGTTCCTTTGA 58.929 45.455 0.00 0.00 0.00 2.69
615 621 4.437390 GCCGTCAAGTATGTTCCTTTGATG 60.437 45.833 0.00 0.00 36.69 3.07
616 622 4.695455 CCGTCAAGTATGTTCCTTTGATGT 59.305 41.667 5.03 0.00 35.70 3.06
619 625 6.811665 CGTCAAGTATGTTCCTTTGATGTAGA 59.188 38.462 0.00 0.00 33.83 2.59
621 627 8.607459 GTCAAGTATGTTCCTTTGATGTAGATG 58.393 37.037 0.00 0.00 32.76 2.90
622 628 8.539544 TCAAGTATGTTCCTTTGATGTAGATGA 58.460 33.333 0.00 0.00 0.00 2.92
623 629 9.334947 CAAGTATGTTCCTTTGATGTAGATGAT 57.665 33.333 0.00 0.00 0.00 2.45
625 631 6.630444 ATGTTCCTTTGATGTAGATGATGC 57.370 37.500 0.00 0.00 0.00 3.91
626 632 4.883585 TGTTCCTTTGATGTAGATGATGCC 59.116 41.667 0.00 0.00 0.00 4.40
628 634 2.810274 CCTTTGATGTAGATGATGCCCG 59.190 50.000 0.00 0.00 0.00 6.13
630 636 2.531522 TGATGTAGATGATGCCCGTG 57.468 50.000 0.00 0.00 0.00 4.94
633 639 1.598130 GTAGATGATGCCCGTGCCC 60.598 63.158 0.00 0.00 36.33 5.36
634 640 2.818169 TAGATGATGCCCGTGCCCC 61.818 63.158 0.00 0.00 36.33 5.80
647 653 3.996361 TGCCCCTGCATATTGTTCA 57.004 47.368 0.00 0.00 44.23 3.18
648 654 2.457813 TGCCCCTGCATATTGTTCAT 57.542 45.000 0.00 0.00 44.23 2.57
649 655 3.591695 TGCCCCTGCATATTGTTCATA 57.408 42.857 0.00 0.00 44.23 2.15
650 656 3.908476 TGCCCCTGCATATTGTTCATAA 58.092 40.909 0.00 0.00 44.23 1.90
652 658 4.713814 TGCCCCTGCATATTGTTCATAAAA 59.286 37.500 0.00 0.00 44.23 1.52
653 659 5.366186 TGCCCCTGCATATTGTTCATAAAAT 59.634 36.000 0.00 0.00 44.23 1.82
654 660 5.697633 GCCCCTGCATATTGTTCATAAAATG 59.302 40.000 0.00 0.00 37.47 2.32
657 663 8.805175 CCCCTGCATATTGTTCATAAAATGATA 58.195 33.333 0.00 0.00 39.39 2.15
667 673 9.703892 TTGTTCATAAAATGATAAAACAGGTGG 57.296 29.630 0.00 0.00 39.39 4.61
668 674 8.865090 TGTTCATAAAATGATAAAACAGGTGGT 58.135 29.630 0.00 0.00 39.39 4.16
671 677 9.921637 TCATAAAATGATAAAACAGGTGGTTTC 57.078 29.630 0.00 0.00 40.58 2.78
683 689 7.682787 AACAGGTGGTTTCTATCATCTAGAT 57.317 36.000 0.00 0.00 35.82 1.98
720 953 4.339247 CCCTATACAAACTTTGATGCAGGG 59.661 45.833 8.55 12.60 34.94 4.45
733 966 1.076485 GCAGGGAAGCCATGGATGT 60.076 57.895 18.40 0.00 35.67 3.06
735 968 1.076485 AGGGAAGCCATGGATGTGC 60.076 57.895 18.40 5.52 0.00 4.57
858 1093 5.830991 AGAGATCAAGAGCGGTATAAAGAGT 59.169 40.000 0.00 0.00 0.00 3.24
861 1096 4.021229 TCAAGAGCGGTATAAAGAGTGGA 58.979 43.478 0.00 0.00 0.00 4.02
945 1181 7.838079 TCATCAAAAGAAAGATTCAGGGAAA 57.162 32.000 0.00 0.00 0.00 3.13
1025 1275 4.183101 CAGCCAGAACAAAAGAAAGCAAA 58.817 39.130 0.00 0.00 0.00 3.68
1037 1287 9.267084 ACAAAAGAAAGCAAAAGTAGAACAAAA 57.733 25.926 0.00 0.00 0.00 2.44
1059 1309 1.021390 AAGCTCGCCGTCAAATGGAG 61.021 55.000 0.00 0.00 0.00 3.86
1071 1321 2.128853 AAATGGAGCGCAACACACCG 62.129 55.000 11.47 0.00 0.00 4.94
1249 1529 6.129194 GCAAACTGTTTCCGTATCATCAAAAC 60.129 38.462 2.13 0.00 0.00 2.43
1405 1686 6.187727 ACTAACCATCTTTTCTGGACAGAA 57.812 37.500 10.52 10.52 44.94 3.02
1533 1814 1.293924 CATCGGCAGACCAAGATGAC 58.706 55.000 0.00 0.00 42.04 3.06
1617 1905 3.056465 ACAAAACTTCCGTTTCTTGGCAA 60.056 39.130 0.00 0.00 42.28 4.52
1886 2218 2.078849 TGTGTACAAGCTGATCCGTG 57.921 50.000 0.00 0.00 0.00 4.94
2045 2379 5.984725 AGACACGGGTTGTTTCATATATCA 58.015 37.500 0.00 0.00 39.17 2.15
2181 2516 4.023792 TCACAACATTCACATTCTCAGTGC 60.024 41.667 0.00 0.00 36.93 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 5.551760 ATCCTGTGAATCAAACGATCAAC 57.448 39.130 0.00 0.00 0.00 3.18
33 34 5.704978 TCAATCCTGTGAATCAAACGATCAA 59.295 36.000 0.00 0.00 0.00 2.57
34 35 5.244755 TCAATCCTGTGAATCAAACGATCA 58.755 37.500 0.00 0.00 0.00 2.92
35 36 5.801350 TCAATCCTGTGAATCAAACGATC 57.199 39.130 0.00 0.00 0.00 3.69
36 37 6.764308 ATTCAATCCTGTGAATCAAACGAT 57.236 33.333 0.00 0.00 43.24 3.73
96 97 9.678260 GTGGATGCTAGAATTCCTATGAAATAT 57.322 33.333 0.65 0.00 33.32 1.28
97 98 8.884323 AGTGGATGCTAGAATTCCTATGAAATA 58.116 33.333 0.65 0.00 33.32 1.40
98 99 7.753630 AGTGGATGCTAGAATTCCTATGAAAT 58.246 34.615 0.65 0.00 33.32 2.17
99 100 7.141758 AGTGGATGCTAGAATTCCTATGAAA 57.858 36.000 0.65 0.00 33.32 2.69
100 101 6.239714 GGAGTGGATGCTAGAATTCCTATGAA 60.240 42.308 0.65 0.00 34.33 2.57
101 102 5.247110 GGAGTGGATGCTAGAATTCCTATGA 59.753 44.000 0.65 0.00 0.00 2.15
102 103 5.012458 TGGAGTGGATGCTAGAATTCCTATG 59.988 44.000 0.65 0.00 0.00 2.23
103 104 5.158141 TGGAGTGGATGCTAGAATTCCTAT 58.842 41.667 0.65 0.00 0.00 2.57
104 105 4.556697 TGGAGTGGATGCTAGAATTCCTA 58.443 43.478 0.65 0.00 0.00 2.94
105 106 3.387962 TGGAGTGGATGCTAGAATTCCT 58.612 45.455 0.65 0.00 0.00 3.36
106 107 3.845781 TGGAGTGGATGCTAGAATTCC 57.154 47.619 0.65 0.00 0.00 3.01
107 108 3.879892 GGTTGGAGTGGATGCTAGAATTC 59.120 47.826 0.00 0.00 0.00 2.17
108 109 3.525199 AGGTTGGAGTGGATGCTAGAATT 59.475 43.478 0.00 0.00 0.00 2.17
109 110 3.118531 AGGTTGGAGTGGATGCTAGAAT 58.881 45.455 0.00 0.00 0.00 2.40
110 111 2.501723 GAGGTTGGAGTGGATGCTAGAA 59.498 50.000 0.00 0.00 0.00 2.10
111 112 2.111384 GAGGTTGGAGTGGATGCTAGA 58.889 52.381 0.00 0.00 0.00 2.43
112 113 2.114616 AGAGGTTGGAGTGGATGCTAG 58.885 52.381 0.00 0.00 0.00 3.42
113 114 2.237143 CAAGAGGTTGGAGTGGATGCTA 59.763 50.000 0.00 0.00 0.00 3.49
114 115 1.004044 CAAGAGGTTGGAGTGGATGCT 59.996 52.381 0.00 0.00 0.00 3.79
115 116 1.003580 TCAAGAGGTTGGAGTGGATGC 59.996 52.381 0.00 0.00 34.09 3.91
116 117 3.423539 TTCAAGAGGTTGGAGTGGATG 57.576 47.619 0.00 0.00 34.09 3.51
117 118 3.652869 TCTTTCAAGAGGTTGGAGTGGAT 59.347 43.478 0.00 0.00 34.09 3.41
118 119 3.045634 TCTTTCAAGAGGTTGGAGTGGA 58.954 45.455 0.00 0.00 34.09 4.02
119 120 3.492102 TCTTTCAAGAGGTTGGAGTGG 57.508 47.619 0.00 0.00 34.09 4.00
120 121 5.048434 GGATTTCTTTCAAGAGGTTGGAGTG 60.048 44.000 0.00 0.00 36.22 3.51
121 122 5.073428 GGATTTCTTTCAAGAGGTTGGAGT 58.927 41.667 0.00 0.00 36.22 3.85
122 123 5.320277 AGGATTTCTTTCAAGAGGTTGGAG 58.680 41.667 0.00 0.00 36.22 3.86
123 124 5.324832 AGGATTTCTTTCAAGAGGTTGGA 57.675 39.130 0.00 0.00 36.22 3.53
124 125 6.183360 ACAAAGGATTTCTTTCAAGAGGTTGG 60.183 38.462 0.00 0.00 43.32 3.77
125 126 6.809869 ACAAAGGATTTCTTTCAAGAGGTTG 58.190 36.000 0.00 0.00 43.32 3.77
126 127 7.423844 AACAAAGGATTTCTTTCAAGAGGTT 57.576 32.000 0.00 0.00 43.32 3.50
127 128 7.423844 AAACAAAGGATTTCTTTCAAGAGGT 57.576 32.000 0.00 0.00 43.32 3.85
128 129 8.722480 AAAAACAAAGGATTTCTTTCAAGAGG 57.278 30.769 0.00 0.00 43.32 3.69
129 130 9.369904 TGAAAAACAAAGGATTTCTTTCAAGAG 57.630 29.630 0.00 0.00 43.32 2.85
130 131 9.889128 ATGAAAAACAAAGGATTTCTTTCAAGA 57.111 25.926 0.00 0.00 43.32 3.02
131 132 9.925268 CATGAAAAACAAAGGATTTCTTTCAAG 57.075 29.630 0.00 0.00 43.32 3.02
132 133 9.447157 ACATGAAAAACAAAGGATTTCTTTCAA 57.553 25.926 0.00 0.00 43.32 2.69
133 134 8.881743 CACATGAAAAACAAAGGATTTCTTTCA 58.118 29.630 0.00 0.00 43.32 2.69
134 135 9.097257 TCACATGAAAAACAAAGGATTTCTTTC 57.903 29.630 0.00 0.00 43.32 2.62
135 136 9.617523 ATCACATGAAAAACAAAGGATTTCTTT 57.382 25.926 0.00 0.00 45.85 2.52
137 138 9.696917 GTATCACATGAAAAACAAAGGATTTCT 57.303 29.630 0.00 0.00 35.03 2.52
138 139 9.474920 TGTATCACATGAAAAACAAAGGATTTC 57.525 29.630 0.00 0.00 35.03 2.17
139 140 9.829507 TTGTATCACATGAAAAACAAAGGATTT 57.170 25.926 0.00 0.00 40.26 2.17
141 142 9.643693 GATTGTATCACATGAAAAACAAAGGAT 57.356 29.630 0.00 0.00 32.75 3.24
142 143 8.637099 TGATTGTATCACATGAAAAACAAAGGA 58.363 29.630 0.00 0.00 33.59 3.36
143 144 8.815141 TGATTGTATCACATGAAAAACAAAGG 57.185 30.769 0.00 0.00 33.59 3.11
146 147 9.591792 TGTTTGATTGTATCACATGAAAAACAA 57.408 25.926 0.00 5.36 39.39 2.83
147 148 9.591792 TTGTTTGATTGTATCACATGAAAAACA 57.408 25.926 0.00 0.00 39.39 2.83
152 153 9.978044 TGATTTTGTTTGATTGTATCACATGAA 57.022 25.926 0.00 0.00 39.39 2.57
153 154 9.978044 TTGATTTTGTTTGATTGTATCACATGA 57.022 25.926 0.00 0.00 39.39 3.07
182 183 4.598036 AATGCCCATTGGATCCTATAGG 57.402 45.455 14.66 14.66 0.00 2.57
183 184 5.573219 TGAAATGCCCATTGGATCCTATAG 58.427 41.667 14.23 3.82 0.00 1.31
184 185 5.597430 TGAAATGCCCATTGGATCCTATA 57.403 39.130 14.23 0.00 0.00 1.31
185 186 4.474303 TGAAATGCCCATTGGATCCTAT 57.526 40.909 14.23 8.26 0.00 2.57
186 187 3.969466 TGAAATGCCCATTGGATCCTA 57.031 42.857 14.23 5.68 0.00 2.94
187 188 2.852714 TGAAATGCCCATTGGATCCT 57.147 45.000 14.23 0.00 0.00 3.24
188 189 4.141665 TGAAATGAAATGCCCATTGGATCC 60.142 41.667 4.20 4.20 34.75 3.36
189 190 5.026038 TGAAATGAAATGCCCATTGGATC 57.974 39.130 3.62 0.00 34.75 3.36
190 191 5.438698 TTGAAATGAAATGCCCATTGGAT 57.561 34.783 3.62 0.00 34.75 3.41
191 192 4.904895 TTGAAATGAAATGCCCATTGGA 57.095 36.364 3.62 0.00 34.75 3.53
192 193 4.577283 GGATTGAAATGAAATGCCCATTGG 59.423 41.667 0.00 0.00 34.75 3.16
193 194 5.433526 AGGATTGAAATGAAATGCCCATTG 58.566 37.500 0.00 0.00 34.75 2.82
194 195 5.703730 AGGATTGAAATGAAATGCCCATT 57.296 34.783 0.00 0.00 35.92 3.16
195 196 5.662208 TGTAGGATTGAAATGAAATGCCCAT 59.338 36.000 0.00 0.00 0.00 4.00
196 197 5.022122 TGTAGGATTGAAATGAAATGCCCA 58.978 37.500 0.00 0.00 0.00 5.36
197 198 5.596836 TGTAGGATTGAAATGAAATGCCC 57.403 39.130 0.00 0.00 0.00 5.36
198 199 8.496707 AAAATGTAGGATTGAAATGAAATGCC 57.503 30.769 0.00 0.00 0.00 4.40
199 200 9.977762 GAAAAATGTAGGATTGAAATGAAATGC 57.022 29.630 0.00 0.00 0.00 3.56
209 210 9.753674 ACAGGAATAAGAAAAATGTAGGATTGA 57.246 29.630 0.00 0.00 0.00 2.57
210 211 9.793252 CACAGGAATAAGAAAAATGTAGGATTG 57.207 33.333 0.00 0.00 0.00 2.67
211 212 9.533831 ACACAGGAATAAGAAAAATGTAGGATT 57.466 29.630 0.00 0.00 0.00 3.01
217 218 9.423061 GCAAATACACAGGAATAAGAAAAATGT 57.577 29.630 0.00 0.00 0.00 2.71
218 219 9.421806 TGCAAATACACAGGAATAAGAAAAATG 57.578 29.630 0.00 0.00 0.00 2.32
219 220 9.995003 TTGCAAATACACAGGAATAAGAAAAAT 57.005 25.926 0.00 0.00 0.00 1.82
220 221 9.995003 ATTGCAAATACACAGGAATAAGAAAAA 57.005 25.926 1.71 0.00 0.00 1.94
221 222 9.638239 GATTGCAAATACACAGGAATAAGAAAA 57.362 29.630 1.71 0.00 0.00 2.29
222 223 8.250332 GGATTGCAAATACACAGGAATAAGAAA 58.750 33.333 1.71 0.00 0.00 2.52
223 224 7.615365 AGGATTGCAAATACACAGGAATAAGAA 59.385 33.333 1.71 0.00 0.00 2.52
224 225 7.067372 CAGGATTGCAAATACACAGGAATAAGA 59.933 37.037 1.71 0.00 0.00 2.10
225 226 7.198390 CAGGATTGCAAATACACAGGAATAAG 58.802 38.462 1.71 0.00 0.00 1.73
226 227 7.099266 CAGGATTGCAAATACACAGGAATAA 57.901 36.000 1.71 0.00 0.00 1.40
227 228 6.698008 CAGGATTGCAAATACACAGGAATA 57.302 37.500 1.71 0.00 0.00 1.75
228 229 5.587388 CAGGATTGCAAATACACAGGAAT 57.413 39.130 1.71 0.00 0.00 3.01
243 244 2.223433 GCCTCTTTGATTCGCAGGATTG 60.223 50.000 0.00 0.00 0.00 2.67
244 245 2.019984 GCCTCTTTGATTCGCAGGATT 58.980 47.619 0.00 0.00 0.00 3.01
245 246 1.673168 GCCTCTTTGATTCGCAGGAT 58.327 50.000 0.00 0.00 0.00 3.24
246 247 0.392998 GGCCTCTTTGATTCGCAGGA 60.393 55.000 0.00 0.00 0.00 3.86
247 248 1.379642 GGGCCTCTTTGATTCGCAGG 61.380 60.000 0.84 0.00 0.00 4.85
248 249 0.393537 AGGGCCTCTTTGATTCGCAG 60.394 55.000 0.00 0.00 0.00 5.18
249 250 0.392998 GAGGGCCTCTTTGATTCGCA 60.393 55.000 26.44 0.00 0.00 5.10
250 251 0.392998 TGAGGGCCTCTTTGATTCGC 60.393 55.000 32.28 4.82 0.00 4.70
251 252 1.065854 ACTGAGGGCCTCTTTGATTCG 60.066 52.381 32.28 13.28 0.00 3.34
252 253 2.797177 ACTGAGGGCCTCTTTGATTC 57.203 50.000 32.28 6.65 0.00 2.52
253 254 3.160269 CAAACTGAGGGCCTCTTTGATT 58.840 45.455 30.32 20.20 31.57 2.57
254 255 2.556114 CCAAACTGAGGGCCTCTTTGAT 60.556 50.000 33.34 18.77 31.57 2.57
255 256 1.202927 CCAAACTGAGGGCCTCTTTGA 60.203 52.381 33.34 17.41 31.57 2.69
256 257 1.202927 TCCAAACTGAGGGCCTCTTTG 60.203 52.381 32.28 30.06 30.51 2.77
257 258 1.149101 TCCAAACTGAGGGCCTCTTT 58.851 50.000 32.28 22.41 0.00 2.52
258 259 0.402121 GTCCAAACTGAGGGCCTCTT 59.598 55.000 32.28 17.89 0.00 2.85
259 260 1.831652 CGTCCAAACTGAGGGCCTCT 61.832 60.000 32.28 12.46 0.00 3.69
260 261 1.376037 CGTCCAAACTGAGGGCCTC 60.376 63.158 26.95 26.95 0.00 4.70
261 262 2.750350 CGTCCAAACTGAGGGCCT 59.250 61.111 5.25 5.25 0.00 5.19
262 263 3.056328 GCGTCCAAACTGAGGGCC 61.056 66.667 0.00 0.00 0.00 5.80
263 264 3.056328 GGCGTCCAAACTGAGGGC 61.056 66.667 0.00 0.00 38.29 5.19
264 265 2.359975 GGGCGTCCAAACTGAGGG 60.360 66.667 0.00 0.00 0.00 4.30
265 266 1.672356 CTGGGCGTCCAAACTGAGG 60.672 63.158 11.40 0.00 43.51 3.86
303 304 7.595130 GGTTGGAGTATGTTTTGAGATTTGTTC 59.405 37.037 0.00 0.00 0.00 3.18
348 354 6.521133 GTGTGCTTCTGATTGTATTTTTCTCG 59.479 38.462 0.00 0.00 0.00 4.04
371 377 0.105964 TCCGAGTCCAAGTTGGTGTG 59.894 55.000 21.35 9.91 39.03 3.82
421 427 4.927425 CCGATTAGTTTTCTTCTTCCACGA 59.073 41.667 0.00 0.00 0.00 4.35
423 429 5.243207 TCCCGATTAGTTTTCTTCTTCCAC 58.757 41.667 0.00 0.00 0.00 4.02
427 433 5.313712 TGCTTCCCGATTAGTTTTCTTCTT 58.686 37.500 0.00 0.00 0.00 2.52
428 434 4.906618 TGCTTCCCGATTAGTTTTCTTCT 58.093 39.130 0.00 0.00 0.00 2.85
429 435 5.819825 ATGCTTCCCGATTAGTTTTCTTC 57.180 39.130 0.00 0.00 0.00 2.87
430 436 6.093633 GTGTATGCTTCCCGATTAGTTTTCTT 59.906 38.462 0.00 0.00 0.00 2.52
431 437 5.585047 GTGTATGCTTCCCGATTAGTTTTCT 59.415 40.000 0.00 0.00 0.00 2.52
432 438 5.501897 CGTGTATGCTTCCCGATTAGTTTTC 60.502 44.000 0.00 0.00 0.00 2.29
433 439 4.331717 CGTGTATGCTTCCCGATTAGTTTT 59.668 41.667 0.00 0.00 0.00 2.43
434 440 3.869246 CGTGTATGCTTCCCGATTAGTTT 59.131 43.478 0.00 0.00 0.00 2.66
438 444 3.131577 AGTTCGTGTATGCTTCCCGATTA 59.868 43.478 0.00 0.00 0.00 1.75
448 454 1.269166 CAGTCCGAGTTCGTGTATGC 58.731 55.000 0.48 0.00 37.74 3.14
456 462 0.824759 ACCTATGGCAGTCCGAGTTC 59.175 55.000 0.00 0.00 34.14 3.01
492 498 3.713003 TCAATCTCTGAGAGCTGGGTAA 58.287 45.455 13.50 0.00 0.00 2.85
611 617 1.541015 GCACGGGCATCATCTACATCA 60.541 52.381 3.77 0.00 40.72 3.07
612 618 1.151668 GCACGGGCATCATCTACATC 58.848 55.000 3.77 0.00 40.72 3.06
613 619 0.250467 GGCACGGGCATCATCTACAT 60.250 55.000 13.89 0.00 43.71 2.29
615 621 1.598130 GGGCACGGGCATCATCTAC 60.598 63.158 13.89 0.00 43.71 2.59
616 622 2.818169 GGGGCACGGGCATCATCTA 61.818 63.158 13.89 0.00 43.71 1.98
619 625 4.511246 CAGGGGCACGGGCATCAT 62.511 66.667 13.89 0.00 43.71 2.45
630 636 4.935352 TTTATGAACAATATGCAGGGGC 57.065 40.909 0.00 0.00 41.68 5.80
641 647 9.703892 CCACCTGTTTTATCATTTTATGAACAA 57.296 29.630 0.00 0.00 43.50 2.83
643 649 9.705290 AACCACCTGTTTTATCATTTTATGAAC 57.295 29.630 0.00 0.00 36.97 3.18
657 663 8.552296 ATCTAGATGATAGAAACCACCTGTTTT 58.448 33.333 3.89 0.00 39.32 2.43
658 664 8.095452 ATCTAGATGATAGAAACCACCTGTTT 57.905 34.615 3.89 0.00 40.73 2.83
659 665 7.682787 ATCTAGATGATAGAAACCACCTGTT 57.317 36.000 3.89 0.00 34.12 3.16
661 667 8.428063 AGAAATCTAGATGATAGAAACCACCTG 58.572 37.037 5.86 0.00 34.45 4.00
662 668 8.560124 AGAAATCTAGATGATAGAAACCACCT 57.440 34.615 5.86 0.00 34.45 4.00
674 680 9.661954 AGGGTAGTTCATTAGAAATCTAGATGA 57.338 33.333 5.86 0.00 35.08 2.92
720 953 0.394762 TCCTGCACATCCATGGCTTC 60.395 55.000 6.96 0.00 0.00 3.86
733 966 6.122277 TCTCTTTTTCTTCTTTTCTCCTGCA 58.878 36.000 0.00 0.00 0.00 4.41
735 968 9.717942 TCTATCTCTTTTTCTTCTTTTCTCCTG 57.282 33.333 0.00 0.00 0.00 3.86
858 1093 0.801872 CGGTCATGCGTTCATTTCCA 59.198 50.000 0.00 0.00 0.00 3.53
861 1096 2.355197 TCATCGGTCATGCGTTCATTT 58.645 42.857 0.00 0.00 31.70 2.32
945 1181 1.602311 CTGCCTTCTGTTCTGCTGTT 58.398 50.000 0.00 0.00 0.00 3.16
1025 1275 5.390567 CGGCGAGCTTTATTTTGTTCTACTT 60.391 40.000 0.00 0.00 0.00 2.24
1037 1287 1.670811 CCATTTGACGGCGAGCTTTAT 59.329 47.619 16.62 0.00 0.00 1.40
1059 1309 2.982038 CTTTGGACGGTGTGTTGCGC 62.982 60.000 0.00 0.00 0.00 6.09
1071 1321 4.022068 TCCATTGCAAGTGAATCTTTGGAC 60.022 41.667 4.94 0.00 35.59 4.02
1156 1436 1.345415 CCTTTTTCCTGCTGGCACATT 59.655 47.619 4.42 0.00 38.20 2.71
1162 1442 1.138661 TGTTTGCCTTTTTCCTGCTGG 59.861 47.619 2.58 2.58 0.00 4.85
1249 1529 4.359971 TTTTCGTCATGGATGCATCTTG 57.640 40.909 25.28 21.33 0.00 3.02
1332 1612 9.772973 TGGAGTGCGAGTATTATATAAAATTGT 57.227 29.630 0.00 0.00 0.00 2.71
1405 1686 4.934797 TGGAAACATTGAGGAGAGGATT 57.065 40.909 0.00 0.00 33.40 3.01
1410 1691 3.507162 TGCTTGGAAACATTGAGGAGA 57.493 42.857 0.00 0.00 42.32 3.71
1502 1783 2.202987 CCGATGTGCTCTGCTCCC 60.203 66.667 0.00 0.00 0.00 4.30
1533 1814 1.374252 GGTGCGGTATGGGCTATCG 60.374 63.158 0.00 0.00 37.00 2.92
1617 1905 0.257039 GATGCCTGGGAGGAACATGT 59.743 55.000 0.00 0.00 37.67 3.21
1688 1982 3.806625 ATGCCTCGGGAAAATCAAATG 57.193 42.857 0.00 0.00 0.00 2.32
1886 2218 7.039270 ACTAAAAACCTGATGTCACCAAAAAC 58.961 34.615 0.00 0.00 0.00 2.43
2001 2333 6.183360 TGTCTCGGTAGGCATATTTGTAATCA 60.183 38.462 0.00 0.00 30.57 2.57
2045 2379 4.159135 GTGAGCAGATCCAAATCAACCAAT 59.841 41.667 0.00 0.00 34.07 3.16
2181 2516 6.493115 ACTGGAGATACAGGATATGAGAACAG 59.507 42.308 0.00 0.00 42.75 3.16
2283 2620 1.753141 GCACATCCTGCAGAATGGGAT 60.753 52.381 20.70 9.10 46.29 3.85
2308 2645 8.461249 AGAGATCAACATGCTAATTGCTAAAT 57.539 30.769 0.00 0.00 43.37 1.40
2311 2648 7.870509 AAAGAGATCAACATGCTAATTGCTA 57.129 32.000 0.00 0.00 43.37 3.49
2312 2649 6.770746 AAAGAGATCAACATGCTAATTGCT 57.229 33.333 0.00 0.00 43.37 3.91
2313 2650 7.823149 AAAAAGAGATCAACATGCTAATTGC 57.177 32.000 0.00 0.00 43.25 3.56


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

AutoCloner maintained by Alex Coulton.