Multiple sequence alignment - TraesCS3D01G178100

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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 TraesCS3D01G178100 chr3D 100.000 6345 0 0 1 6345 159625250 159618906 0.000000e+00 11718.0
1 TraesCS3D01G178100 chr3D 92.818 181 5 3 2172 2351 165471229 165471402 8.160000e-64 255.0
2 TraesCS3D01G178100 chr3A 97.380 4008 82 9 2343 6345 185180652 185176663 0.000000e+00 6798.0
3 TraesCS3D01G178100 chr3A 95.488 2194 55 15 1 2178 185182813 185180648 0.000000e+00 3463.0
4 TraesCS3D01G178100 chr3A 92.233 103 8 0 5085 5187 514471 514573 5.130000e-31 147.0
5 TraesCS3D01G178100 chr3A 82.143 168 16 11 237 396 714473288 714473127 1.440000e-26 132.0
6 TraesCS3D01G178100 chr3A 90.217 92 6 1 5219 5307 80137 80228 4.020000e-22 117.0
7 TraesCS3D01G178100 chr3B 95.643 2272 49 13 2343 4613 236360136 236357914 0.000000e+00 3602.0
8 TraesCS3D01G178100 chr3B 96.999 1633 43 4 4716 6345 236357912 236356283 0.000000e+00 2739.0
9 TraesCS3D01G178100 chr3B 96.265 1553 47 3 630 2178 236361677 236360132 0.000000e+00 2536.0
10 TraesCS3D01G178100 chr3B 89.206 315 20 9 1 311 236362376 236362072 1.290000e-101 381.0
11 TraesCS3D01G178100 chr3B 95.319 235 6 3 308 540 236361950 236361719 1.000000e-97 368.0
12 TraesCS3D01G178100 chr3B 93.258 178 4 3 2175 2351 621150204 621150034 8.160000e-64 255.0
13 TraesCS3D01G178100 chr3B 93.043 115 8 0 5085 5199 2509403 2509517 1.090000e-37 169.0
14 TraesCS3D01G178100 chr2B 96.571 175 5 1 2172 2345 508242830 508243004 8.050000e-74 289.0
15 TraesCS3D01G178100 chr2B 94.167 120 6 1 4599 4717 212934664 212934783 1.410000e-41 182.0
16 TraesCS3D01G178100 chr6B 96.067 178 4 3 2173 2349 390044085 390043910 2.890000e-73 287.0
17 TraesCS3D01G178100 chr6B 87.931 58 6 1 6079 6136 59941650 59941594 4.110000e-07 67.6
18 TraesCS3D01G178100 chr7D 95.455 176 3 4 2175 2349 631843604 631843433 6.270000e-70 276.0
19 TraesCS3D01G178100 chr7D 94.783 115 6 0 4612 4726 474273736 474273622 5.050000e-41 180.0
20 TraesCS3D01G178100 chr7D 93.478 46 1 2 6072 6116 621485233 621485277 4.110000e-07 67.6
21 TraesCS3D01G178100 chr5D 91.837 196 5 7 2174 2367 333097922 333098108 4.880000e-66 263.0
22 TraesCS3D01G178100 chr5D 95.575 113 5 0 4612 4724 134808274 134808386 1.410000e-41 182.0
23 TraesCS3D01G178100 chr5D 97.500 40 1 0 6080 6119 173751542 173751503 1.140000e-07 69.4
24 TraesCS3D01G178100 chrUn 85.660 265 18 5 5085 5343 43316606 43316856 1.750000e-65 261.0
25 TraesCS3D01G178100 chr4A 93.820 178 3 3 2174 2350 357678605 357678775 1.750000e-65 261.0
26 TraesCS3D01G178100 chr4A 94.017 117 6 1 4601 4717 594217859 594217974 6.540000e-40 176.0
27 TraesCS3D01G178100 chr5B 92.147 191 4 6 2158 2346 184785167 184785348 6.310000e-65 259.0
28 TraesCS3D01G178100 chr5B 97.561 41 1 0 6079 6119 13704449 13704409 3.170000e-08 71.3
29 TraesCS3D01G178100 chr2D 90.957 188 9 3 2162 2348 508728804 508728624 4.910000e-61 246.0
30 TraesCS3D01G178100 chr1A 95.614 114 4 1 4605 4717 376145835 376145948 1.410000e-41 182.0
31 TraesCS3D01G178100 chr1A 94.783 115 6 0 4603 4717 343396811 343396697 5.050000e-41 180.0
32 TraesCS3D01G178100 chr1A 86.441 59 6 2 6079 6136 7794005 7793948 5.310000e-06 63.9
33 TraesCS3D01G178100 chr2A 94.783 115 5 1 4603 4717 35967942 35967829 1.820000e-40 178.0
34 TraesCS3D01G178100 chr2A 92.742 124 5 4 4597 4717 16796711 16796589 6.540000e-40 176.0
35 TraesCS3D01G178100 chr7B 95.556 45 2 0 6080 6124 13801898 13801942 8.820000e-09 73.1
36 TraesCS3D01G178100 chr7B 87.931 58 6 1 6079 6136 452152712 452152768 4.110000e-07 67.6


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 TraesCS3D01G178100 chr3D 159618906 159625250 6344 True 11718.0 11718 100.0000 1 6345 1 chr3D.!!$R1 6344
1 TraesCS3D01G178100 chr3A 185176663 185182813 6150 True 5130.5 6798 96.4340 1 6345 2 chr3A.!!$R2 6344
2 TraesCS3D01G178100 chr3B 236356283 236362376 6093 True 1925.2 3602 94.6864 1 6345 5 chr3B.!!$R2 6344

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
786 922 1.567357 ACCAAACAACAAAGGTGGCT 58.433 45.000 0.0 0.0 32.04 4.75 F
1081 1235 1.005037 TACAGCGGTCCAGTTGCAG 60.005 57.895 0.0 0.0 0.00 4.41 F
2185 2347 0.608640 CAGCTTTGTACTCCCTCCGT 59.391 55.000 0.0 0.0 0.00 4.69 F
2186 2348 1.002087 CAGCTTTGTACTCCCTCCGTT 59.998 52.381 0.0 0.0 0.00 4.44 F
2187 2349 1.275573 AGCTTTGTACTCCCTCCGTTC 59.724 52.381 0.0 0.0 0.00 3.95 F
2188 2350 1.675116 GCTTTGTACTCCCTCCGTTCC 60.675 57.143 0.0 0.0 0.00 3.62 F
3690 3852 1.821136 GGGAATAGCCAATATGCTGCC 59.179 52.381 0.0 0.0 42.77 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1836 1998 0.684153 ACCTTTGCACAGCTGTTGGT 60.684 50.000 18.94 16.55 0.00 3.67 R
2532 2694 1.386748 CATACAACGTCAGTGTCGCTG 59.613 52.381 9.72 10.33 46.34 5.18 R
3446 3608 0.817654 GTATTCAAGGCCAGCCAACC 59.182 55.000 12.03 0.00 38.92 3.77 R
3980 4142 2.209690 TGGTAAAACAAGGCTAGGGC 57.790 50.000 0.00 0.00 37.82 5.19 R
4092 4254 8.648698 TCTGGAGGATTTTGTTTTCATATTCA 57.351 30.769 0.00 0.00 0.00 2.57 R
4283 4445 0.722848 AAATTTGGTACGCGGCTACG 59.277 50.000 12.47 0.00 44.63 3.51 R
5492 5658 0.169009 GTAACGTAGTCGCGACCCTT 59.831 55.000 34.08 19.48 45.00 3.95 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
158 162 6.317789 TGACATGCTTTTCTTTACTCAAGG 57.682 37.500 0.00 0.00 32.64 3.61
235 242 2.297315 GCTTGCTTCTTTTTAGGTGGCT 59.703 45.455 0.00 0.00 0.00 4.75
245 252 7.448748 TCTTTTTAGGTGGCTAAATGACTTC 57.551 36.000 0.00 0.00 0.00 3.01
284 293 8.592105 AATCATCACACTTTTGTACCAAATTG 57.408 30.769 7.86 7.86 33.30 2.32
457 593 2.037772 AGCTCCTACTTGTCACAACTGG 59.962 50.000 0.00 0.00 0.00 4.00
516 652 8.936864 AGTTATGTGTTTCAAAGTAGCTCATAC 58.063 33.333 0.00 0.00 34.30 2.39
715 851 3.347216 ACCAACCAATTCTCATCCTTCG 58.653 45.455 0.00 0.00 0.00 3.79
717 853 4.009675 CCAACCAATTCTCATCCTTCGAA 58.990 43.478 0.00 0.00 0.00 3.71
781 917 2.626840 CACCCAACCAAACAACAAAGG 58.373 47.619 0.00 0.00 0.00 3.11
782 918 2.027653 CACCCAACCAAACAACAAAGGT 60.028 45.455 0.00 0.00 35.47 3.50
783 919 2.027653 ACCCAACCAAACAACAAAGGTG 60.028 45.455 0.00 0.00 33.93 4.00
784 920 2.626840 CCAACCAAACAACAAAGGTGG 58.373 47.619 0.00 0.00 33.93 4.61
785 921 2.006169 CAACCAAACAACAAAGGTGGC 58.994 47.619 0.00 0.00 33.93 5.01
786 922 1.567357 ACCAAACAACAAAGGTGGCT 58.433 45.000 0.00 0.00 32.04 4.75
787 923 2.741145 ACCAAACAACAAAGGTGGCTA 58.259 42.857 0.00 0.00 32.04 3.93
788 924 3.304829 ACCAAACAACAAAGGTGGCTAT 58.695 40.909 0.00 0.00 32.04 2.97
789 925 3.320826 ACCAAACAACAAAGGTGGCTATC 59.679 43.478 0.00 0.00 32.04 2.08
790 926 3.306019 CCAAACAACAAAGGTGGCTATCC 60.306 47.826 0.00 0.00 0.00 2.59
791 927 3.525800 AACAACAAAGGTGGCTATCCT 57.474 42.857 0.00 0.00 36.81 3.24
792 928 3.525800 ACAACAAAGGTGGCTATCCTT 57.474 42.857 4.02 4.02 45.84 3.36
798 934 3.933861 AAGGTGGCTATCCTTTACCAG 57.066 47.619 0.00 0.00 41.86 4.00
919 1073 8.999220 TTTGCATATATTTTCAGTTGCATTCA 57.001 26.923 0.00 0.00 39.56 2.57
937 1091 6.093357 TGCATTCACAGATTCGCTAAATAACA 59.907 34.615 0.00 0.00 0.00 2.41
1081 1235 1.005037 TACAGCGGTCCAGTTGCAG 60.005 57.895 0.00 0.00 0.00 4.41
1539 1693 4.762251 GTCTTGCTTTATCCTTTGTGACCT 59.238 41.667 0.00 0.00 0.00 3.85
1678 1839 7.723616 TGTCTCCTCCATTTTGTCTTAATTGAA 59.276 33.333 0.00 0.00 0.00 2.69
1836 1998 4.096231 GCATTCATATTGTGTACACTGGCA 59.904 41.667 25.60 9.63 0.00 4.92
1906 2068 4.345547 GGAATCGAGGAAGAATAGAAGGGT 59.654 45.833 0.00 0.00 0.00 4.34
1943 2105 6.729100 TCAGTTAGGAATAGAACCCAGAAGAA 59.271 38.462 0.00 0.00 0.00 2.52
2069 2231 6.201591 TGGATAGCAATGGGATAAAAAGGTT 58.798 36.000 0.00 0.00 0.00 3.50
2175 2337 4.927425 GTCGATGTTTACCTCAGCTTTGTA 59.073 41.667 0.00 0.00 0.00 2.41
2176 2338 4.927425 TCGATGTTTACCTCAGCTTTGTAC 59.073 41.667 0.00 0.00 0.00 2.90
2177 2339 4.929808 CGATGTTTACCTCAGCTTTGTACT 59.070 41.667 0.00 0.00 0.00 2.73
2178 2340 5.062308 CGATGTTTACCTCAGCTTTGTACTC 59.938 44.000 0.00 0.00 0.00 2.59
2179 2341 4.638304 TGTTTACCTCAGCTTTGTACTCC 58.362 43.478 0.00 0.00 0.00 3.85
2180 2342 3.975168 TTACCTCAGCTTTGTACTCCC 57.025 47.619 0.00 0.00 0.00 4.30
2181 2343 2.031495 ACCTCAGCTTTGTACTCCCT 57.969 50.000 0.00 0.00 0.00 4.20
2182 2344 1.903183 ACCTCAGCTTTGTACTCCCTC 59.097 52.381 0.00 0.00 0.00 4.30
2183 2345 1.208293 CCTCAGCTTTGTACTCCCTCC 59.792 57.143 0.00 0.00 0.00 4.30
2184 2346 0.895530 TCAGCTTTGTACTCCCTCCG 59.104 55.000 0.00 0.00 0.00 4.63
2185 2347 0.608640 CAGCTTTGTACTCCCTCCGT 59.391 55.000 0.00 0.00 0.00 4.69
2186 2348 1.002087 CAGCTTTGTACTCCCTCCGTT 59.998 52.381 0.00 0.00 0.00 4.44
2187 2349 1.275573 AGCTTTGTACTCCCTCCGTTC 59.724 52.381 0.00 0.00 0.00 3.95
2188 2350 1.675116 GCTTTGTACTCCCTCCGTTCC 60.675 57.143 0.00 0.00 0.00 3.62
2189 2351 1.900486 CTTTGTACTCCCTCCGTTCCT 59.100 52.381 0.00 0.00 0.00 3.36
2190 2352 2.905415 TTGTACTCCCTCCGTTCCTA 57.095 50.000 0.00 0.00 0.00 2.94
2191 2353 2.905415 TGTACTCCCTCCGTTCCTAA 57.095 50.000 0.00 0.00 0.00 2.69
2192 2354 3.173953 TGTACTCCCTCCGTTCCTAAA 57.826 47.619 0.00 0.00 0.00 1.85
2193 2355 3.716431 TGTACTCCCTCCGTTCCTAAAT 58.284 45.455 0.00 0.00 0.00 1.40
2194 2356 4.870636 TGTACTCCCTCCGTTCCTAAATA 58.129 43.478 0.00 0.00 0.00 1.40
2195 2357 5.461327 TGTACTCCCTCCGTTCCTAAATAT 58.539 41.667 0.00 0.00 0.00 1.28
2196 2358 5.901276 TGTACTCCCTCCGTTCCTAAATATT 59.099 40.000 0.00 0.00 0.00 1.28
2197 2359 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
2198 2360 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
2199 2361 5.191124 ACTCCCTCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
2200 2362 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
2201 2363 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
2202 2364 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
2203 2365 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
2204 2366 7.201705 CCCTCCGTTCCTAAATATTTGTCTTTC 60.202 40.741 11.05 0.00 0.00 2.62
2205 2367 7.553044 CCTCCGTTCCTAAATATTTGTCTTTCT 59.447 37.037 11.05 0.00 0.00 2.52
2206 2368 9.595823 CTCCGTTCCTAAATATTTGTCTTTCTA 57.404 33.333 11.05 0.00 0.00 2.10
2207 2369 9.595823 TCCGTTCCTAAATATTTGTCTTTCTAG 57.404 33.333 11.05 0.00 0.00 2.43
2208 2370 9.595823 CCGTTCCTAAATATTTGTCTTTCTAGA 57.404 33.333 11.05 0.00 0.00 2.43
2221 2383 8.964476 TTGTCTTTCTAGAGATTTCAACAAGT 57.036 30.769 0.00 0.00 0.00 3.16
2222 2384 8.370493 TGTCTTTCTAGAGATTTCAACAAGTG 57.630 34.615 0.00 0.00 0.00 3.16
2223 2385 8.204160 TGTCTTTCTAGAGATTTCAACAAGTGA 58.796 33.333 0.00 0.00 0.00 3.41
2224 2386 8.491950 GTCTTTCTAGAGATTTCAACAAGTGAC 58.508 37.037 0.00 0.00 35.39 3.67
2225 2387 8.424918 TCTTTCTAGAGATTTCAACAAGTGACT 58.575 33.333 0.00 0.00 35.39 3.41
2226 2388 9.698309 CTTTCTAGAGATTTCAACAAGTGACTA 57.302 33.333 0.00 0.00 35.39 2.59
2227 2389 9.477484 TTTCTAGAGATTTCAACAAGTGACTAC 57.523 33.333 0.00 0.00 35.39 2.73
2228 2390 8.178313 TCTAGAGATTTCAACAAGTGACTACA 57.822 34.615 0.00 0.00 35.39 2.74
2229 2391 8.807118 TCTAGAGATTTCAACAAGTGACTACAT 58.193 33.333 0.00 0.00 35.39 2.29
2231 2393 8.994429 AGAGATTTCAACAAGTGACTACATAG 57.006 34.615 0.00 0.00 35.39 2.23
2232 2394 8.589338 AGAGATTTCAACAAGTGACTACATAGT 58.411 33.333 0.00 0.00 39.71 2.12
2233 2395 9.856488 GAGATTTCAACAAGTGACTACATAGTA 57.144 33.333 0.00 0.00 36.50 1.82
2234 2396 9.640963 AGATTTCAACAAGTGACTACATAGTAC 57.359 33.333 0.00 0.00 36.50 2.73
2235 2397 9.419297 GATTTCAACAAGTGACTACATAGTACA 57.581 33.333 0.00 0.00 36.50 2.90
2236 2398 9.944376 ATTTCAACAAGTGACTACATAGTACAT 57.056 29.630 0.00 0.00 36.50 2.29
2238 2400 9.850628 TTCAACAAGTGACTACATAGTACATAC 57.149 33.333 0.00 0.00 36.50 2.39
2239 2401 8.179615 TCAACAAGTGACTACATAGTACATACG 58.820 37.037 0.00 0.00 36.50 3.06
2240 2402 7.024340 ACAAGTGACTACATAGTACATACGG 57.976 40.000 0.00 0.00 36.50 4.02
2241 2403 6.825213 ACAAGTGACTACATAGTACATACGGA 59.175 38.462 0.00 0.00 36.50 4.69
2242 2404 7.012138 ACAAGTGACTACATAGTACATACGGAG 59.988 40.741 0.00 0.00 36.50 4.63
2243 2405 5.469421 AGTGACTACATAGTACATACGGAGC 59.531 44.000 0.00 0.00 36.50 4.70
2244 2406 5.237996 GTGACTACATAGTACATACGGAGCA 59.762 44.000 0.00 0.00 36.50 4.26
2245 2407 5.824097 TGACTACATAGTACATACGGAGCAA 59.176 40.000 0.00 0.00 36.50 3.91
2246 2408 6.319405 TGACTACATAGTACATACGGAGCAAA 59.681 38.462 0.00 0.00 36.50 3.68
2247 2409 7.104043 ACTACATAGTACATACGGAGCAAAA 57.896 36.000 0.00 0.00 34.13 2.44
2248 2410 7.723324 ACTACATAGTACATACGGAGCAAAAT 58.277 34.615 0.00 0.00 34.13 1.82
2249 2411 6.844696 ACATAGTACATACGGAGCAAAATG 57.155 37.500 0.00 0.00 0.00 2.32
2250 2412 6.578944 ACATAGTACATACGGAGCAAAATGA 58.421 36.000 0.00 0.00 0.00 2.57
2251 2413 6.701841 ACATAGTACATACGGAGCAAAATGAG 59.298 38.462 0.00 0.00 0.00 2.90
2252 2414 5.086104 AGTACATACGGAGCAAAATGAGT 57.914 39.130 0.00 0.00 0.00 3.41
2253 2415 4.870426 AGTACATACGGAGCAAAATGAGTG 59.130 41.667 0.00 0.00 0.00 3.51
2254 2416 3.937814 ACATACGGAGCAAAATGAGTGA 58.062 40.909 0.00 0.00 0.00 3.41
2255 2417 4.323417 ACATACGGAGCAAAATGAGTGAA 58.677 39.130 0.00 0.00 0.00 3.18
2256 2418 4.943705 ACATACGGAGCAAAATGAGTGAAT 59.056 37.500 0.00 0.00 0.00 2.57
2257 2419 5.065218 ACATACGGAGCAAAATGAGTGAATC 59.935 40.000 0.00 0.00 0.00 2.52
2258 2420 3.679389 ACGGAGCAAAATGAGTGAATCT 58.321 40.909 0.00 0.00 0.00 2.40
2259 2421 4.832248 ACGGAGCAAAATGAGTGAATCTA 58.168 39.130 0.00 0.00 0.00 1.98
2260 2422 4.631813 ACGGAGCAAAATGAGTGAATCTAC 59.368 41.667 0.00 0.00 0.00 2.59
2261 2423 4.631377 CGGAGCAAAATGAGTGAATCTACA 59.369 41.667 0.00 0.00 0.00 2.74
2262 2424 5.446473 CGGAGCAAAATGAGTGAATCTACAC 60.446 44.000 0.00 0.00 40.60 2.90
2298 2460 9.901172 TGTCTATATACATCCGTATGTGATAGT 57.099 33.333 17.08 3.55 45.99 2.12
2300 2462 9.557061 TCTATATACATCCGTATGTGATAGTCC 57.443 37.037 17.08 0.00 45.99 3.85
2301 2463 9.338622 CTATATACATCCGTATGTGATAGTCCA 57.661 37.037 3.56 0.00 45.99 4.02
2302 2464 8.768501 ATATACATCCGTATGTGATAGTCCAT 57.231 34.615 3.56 0.00 45.99 3.41
2303 2465 5.808366 ACATCCGTATGTGATAGTCCATT 57.192 39.130 0.00 0.00 44.79 3.16
2304 2466 6.174720 ACATCCGTATGTGATAGTCCATTT 57.825 37.500 0.00 0.00 44.79 2.32
2305 2467 5.991606 ACATCCGTATGTGATAGTCCATTTG 59.008 40.000 0.00 0.00 44.79 2.32
2306 2468 5.862678 TCCGTATGTGATAGTCCATTTGA 57.137 39.130 0.00 0.00 0.00 2.69
2307 2469 6.228616 TCCGTATGTGATAGTCCATTTGAA 57.771 37.500 0.00 0.00 0.00 2.69
2308 2470 6.645306 TCCGTATGTGATAGTCCATTTGAAA 58.355 36.000 0.00 0.00 0.00 2.69
2309 2471 7.279615 TCCGTATGTGATAGTCCATTTGAAAT 58.720 34.615 0.00 0.00 0.00 2.17
2310 2472 7.441157 TCCGTATGTGATAGTCCATTTGAAATC 59.559 37.037 0.00 0.00 0.00 2.17
2311 2473 7.442364 CCGTATGTGATAGTCCATTTGAAATCT 59.558 37.037 0.00 0.00 0.00 2.40
2312 2474 8.491152 CGTATGTGATAGTCCATTTGAAATCTC 58.509 37.037 0.00 0.00 0.00 2.75
2313 2475 9.553064 GTATGTGATAGTCCATTTGAAATCTCT 57.447 33.333 0.00 0.00 0.00 3.10
2316 2478 9.958180 TGTGATAGTCCATTTGAAATCTCTAAA 57.042 29.630 0.00 0.00 0.00 1.85
2321 2483 8.924511 AGTCCATTTGAAATCTCTAAAAGACA 57.075 30.769 0.00 0.00 36.65 3.41
2322 2484 9.354673 AGTCCATTTGAAATCTCTAAAAGACAA 57.645 29.630 0.00 0.00 36.65 3.18
2323 2485 9.965824 GTCCATTTGAAATCTCTAAAAGACAAA 57.034 29.630 0.00 0.00 36.65 2.83
2337 2499 9.947433 TCTAAAAGACAAATATTTAGGAACGGA 57.053 29.630 0.00 0.00 37.29 4.69
2339 2501 7.625828 AAAGACAAATATTTAGGAACGGAGG 57.374 36.000 0.00 0.00 0.00 4.30
2340 2502 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
2341 2503 5.427481 AGACAAATATTTAGGAACGGAGGGA 59.573 40.000 0.00 0.00 0.00 4.20
2342 2504 5.681639 ACAAATATTTAGGAACGGAGGGAG 58.318 41.667 0.00 0.00 0.00 4.30
2343 2505 5.191124 ACAAATATTTAGGAACGGAGGGAGT 59.809 40.000 0.00 0.00 0.00 3.85
2532 2694 7.715265 AATGATCAACCATATCGACACTAAC 57.285 36.000 0.00 0.00 0.00 2.34
2874 3036 4.646492 GTGGGCTGTAAAATCAGAATGGAT 59.354 41.667 0.00 0.00 37.61 3.41
3156 3318 5.295292 GCATGATGATATTCCCAAGTATCCG 59.705 44.000 0.00 0.00 0.00 4.18
3213 3375 8.131100 CACACTGATCTTACAATTTGTTTGTCT 58.869 33.333 7.45 0.00 45.55 3.41
3242 3404 9.403110 GCAAATATTATGAGCCAGACATTTTAG 57.597 33.333 0.00 0.00 0.00 1.85
3265 3427 3.066621 ACAACTCGAGCAAAAGAAATGCA 59.933 39.130 13.61 0.00 46.22 3.96
3288 3450 6.262049 GCATTTGGTCCCTTTTTGTTGTTTAT 59.738 34.615 0.00 0.00 0.00 1.40
3376 3538 6.675026 CCCGAATACGATAAAGTGATGTCTA 58.325 40.000 0.00 0.00 42.66 2.59
3446 3608 7.078228 CGGTGAAAGATTTTAGACTTCTTTGG 58.922 38.462 4.89 0.00 39.22 3.28
3690 3852 1.821136 GGGAATAGCCAATATGCTGCC 59.179 52.381 0.00 0.00 42.77 4.85
3980 4142 9.093970 TGTCGGATTATTAATTCTAACACTGTG 57.906 33.333 6.19 6.19 0.00 3.66
4092 4254 4.734843 AACCACTTTACCCCAACTATGT 57.265 40.909 0.00 0.00 0.00 2.29
4288 4450 0.163146 GGAAAATATCCGCGCGTAGC 59.837 55.000 29.95 8.44 45.60 3.58
4289 4451 3.107194 GGAAAATATCCGCGCGTAGCC 62.107 57.143 29.95 13.69 46.13 3.93
4494 4658 7.639945 GTGCATATCCACCACTAGTTTTATTC 58.360 38.462 0.00 0.00 0.00 1.75
4495 4659 7.282224 GTGCATATCCACCACTAGTTTTATTCA 59.718 37.037 0.00 0.00 0.00 2.57
4589 4753 3.004734 CCAAAGGGCAAGACAACTTACAG 59.995 47.826 0.00 0.00 34.70 2.74
4620 4784 6.015265 GCGAGGACTAATAATTTACTCCCTCT 60.015 42.308 0.00 0.00 0.00 3.69
4629 4793 5.536497 AATTTACTCCCTCTGTCCCAAAT 57.464 39.130 0.00 0.00 0.00 2.32
4634 4798 3.519913 ACTCCCTCTGTCCCAAATTACTC 59.480 47.826 0.00 0.00 0.00 2.59
4638 4802 3.179830 CTCTGTCCCAAATTACTCGTCG 58.820 50.000 0.00 0.00 0.00 5.12
4662 4826 6.145209 CGCAGAAATGGATGTATCTAGAACTG 59.855 42.308 0.00 0.00 0.00 3.16
4690 4854 6.537453 ACATCTAGATACATCCATACCTGC 57.463 41.667 4.54 0.00 0.00 4.85
4772 4936 9.166173 CACACTAATTGTTCTATCTCCATTCAA 57.834 33.333 0.00 0.00 35.67 2.69
4782 4946 9.947669 GTTCTATCTCCATTCAATTCTCAAATG 57.052 33.333 0.00 0.00 0.00 2.32
4946 5110 3.560636 ACCTTGCAGTACAGTTGTCTT 57.439 42.857 0.00 0.00 0.00 3.01
5111 5275 5.418840 GCAAGGAAGTGGGATGAATTTCTTA 59.581 40.000 0.00 0.00 0.00 2.10
5484 5650 5.485620 GGTGTTCCAGGTAAGTTAGGTAAG 58.514 45.833 0.00 0.00 0.00 2.34
5492 5658 4.777366 AGGTAAGTTAGGTAAGGCGGTTAA 59.223 41.667 0.00 0.00 0.00 2.01
5849 6016 2.071778 AACTGGTTGATGTTGTGGCT 57.928 45.000 0.00 0.00 0.00 4.75
5926 6093 2.606272 GCCACACTGGTAAGCGTATAAC 59.394 50.000 0.00 0.00 40.46 1.89
6119 6288 6.258947 GTCTTACATTTAGGAACAGAGGATGC 59.741 42.308 0.00 0.00 0.00 3.91
6209 6378 5.122869 TCAGTTAGCTGTGCATCATCTTTTC 59.877 40.000 6.47 0.00 43.05 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
245 252 8.037382 AGTGTGATGATTTGTTTACATCTGAG 57.963 34.615 0.00 0.00 40.39 3.35
328 462 2.277969 CACTCCTCTGCTATGCTGTTG 58.722 52.381 0.00 0.00 0.00 3.33
413 549 7.447545 AGCTTTTCTACCTTTTCTAAACCGAAT 59.552 33.333 0.00 0.00 0.00 3.34
457 593 8.616076 ACAAATAGCTCAATTACACTTATCAGC 58.384 33.333 0.00 0.00 0.00 4.26
715 851 6.018016 CCACCTTTTGTTGTTTGATTGGATTC 60.018 38.462 0.00 0.00 0.00 2.52
717 853 5.104569 ACCACCTTTTGTTGTTTGATTGGAT 60.105 36.000 0.00 0.00 0.00 3.41
796 932 2.273449 GATGTCCCCAGCCACCTG 59.727 66.667 0.00 0.00 38.85 4.00
797 933 3.017581 GGATGTCCCCAGCCACCT 61.018 66.667 0.00 0.00 46.70 4.00
937 1091 7.256296 CCACCAAAACAGGGAAAGAGAAAATAT 60.256 37.037 0.00 0.00 0.00 1.28
1081 1235 0.379669 ATCACGCTATTTGCAGCAGC 59.620 50.000 0.00 0.00 41.88 5.25
1380 1534 4.836125 AACAAAGTGCAGTAGTCCATTG 57.164 40.909 0.00 0.00 0.00 2.82
1697 1858 6.395629 TGCAGAAGTACAAGACCATTACTAC 58.604 40.000 0.00 0.00 0.00 2.73
1802 1964 5.458779 CACAATATGAATGCTGTTGATGCAG 59.541 40.000 0.00 0.00 44.04 4.41
1836 1998 0.684153 ACCTTTGCACAGCTGTTGGT 60.684 50.000 18.94 16.55 0.00 3.67
1851 2013 1.228063 CTGTGTGGCTGCAGACCTT 60.228 57.895 19.23 0.00 34.87 3.50
1906 2068 9.529823 TCTATTCCTAACTGACTCTTGAAGTAA 57.470 33.333 0.00 0.00 38.74 2.24
2069 2231 8.483758 ACTGAGGTAAGACTTAAGAAAACAGAA 58.516 33.333 10.09 0.00 0.00 3.02
2088 2250 3.588842 TGATGAAGGGAATCAACTGAGGT 59.411 43.478 0.00 0.00 31.17 3.85
2175 2337 5.191124 ACAAATATTTAGGAACGGAGGGAGT 59.809 40.000 0.00 0.00 0.00 3.85
2176 2338 5.681639 ACAAATATTTAGGAACGGAGGGAG 58.318 41.667 0.00 0.00 0.00 4.30
2177 2339 5.427481 AGACAAATATTTAGGAACGGAGGGA 59.573 40.000 0.00 0.00 0.00 4.20
2178 2340 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
2179 2341 7.553044 AGAAAGACAAATATTTAGGAACGGAGG 59.447 37.037 0.00 0.00 0.00 4.30
2180 2342 8.494016 AGAAAGACAAATATTTAGGAACGGAG 57.506 34.615 0.00 0.00 0.00 4.63
2181 2343 9.595823 CTAGAAAGACAAATATTTAGGAACGGA 57.404 33.333 0.00 0.00 0.00 4.69
2182 2344 9.595823 TCTAGAAAGACAAATATTTAGGAACGG 57.404 33.333 0.00 0.00 0.00 4.44
2195 2357 9.396022 ACTTGTTGAAATCTCTAGAAAGACAAA 57.604 29.630 0.00 0.00 0.00 2.83
2196 2358 8.830580 CACTTGTTGAAATCTCTAGAAAGACAA 58.169 33.333 0.00 0.00 0.00 3.18
2197 2359 8.204160 TCACTTGTTGAAATCTCTAGAAAGACA 58.796 33.333 0.00 0.00 0.00 3.41
2198 2360 8.491950 GTCACTTGTTGAAATCTCTAGAAAGAC 58.508 37.037 0.00 0.00 35.39 3.01
2199 2361 8.424918 AGTCACTTGTTGAAATCTCTAGAAAGA 58.575 33.333 0.00 0.00 35.39 2.52
2200 2362 8.600449 AGTCACTTGTTGAAATCTCTAGAAAG 57.400 34.615 0.00 0.00 35.39 2.62
2201 2363 9.477484 GTAGTCACTTGTTGAAATCTCTAGAAA 57.523 33.333 0.00 0.00 35.39 2.52
2202 2364 8.638873 TGTAGTCACTTGTTGAAATCTCTAGAA 58.361 33.333 0.00 0.00 35.39 2.10
2203 2365 8.178313 TGTAGTCACTTGTTGAAATCTCTAGA 57.822 34.615 0.00 0.00 35.39 2.43
2204 2366 8.994429 ATGTAGTCACTTGTTGAAATCTCTAG 57.006 34.615 0.00 0.00 35.39 2.43
2206 2368 8.589338 ACTATGTAGTCACTTGTTGAAATCTCT 58.411 33.333 0.00 0.00 35.39 3.10
2207 2369 8.764524 ACTATGTAGTCACTTGTTGAAATCTC 57.235 34.615 0.00 0.00 35.39 2.75
2208 2370 9.640963 GTACTATGTAGTCACTTGTTGAAATCT 57.359 33.333 0.00 0.00 35.39 2.40
2209 2371 9.419297 TGTACTATGTAGTCACTTGTTGAAATC 57.581 33.333 0.00 0.00 35.39 2.17
2210 2372 9.944376 ATGTACTATGTAGTCACTTGTTGAAAT 57.056 29.630 0.00 0.00 35.39 2.17
2212 2374 9.850628 GTATGTACTATGTAGTCACTTGTTGAA 57.149 33.333 0.00 0.00 35.39 2.69
2213 2375 8.179615 CGTATGTACTATGTAGTCACTTGTTGA 58.820 37.037 0.00 0.00 37.73 3.18
2214 2376 7.431376 CCGTATGTACTATGTAGTCACTTGTTG 59.569 40.741 0.00 0.00 37.73 3.33
2215 2377 7.337689 TCCGTATGTACTATGTAGTCACTTGTT 59.662 37.037 0.00 0.00 37.73 2.83
2216 2378 6.825213 TCCGTATGTACTATGTAGTCACTTGT 59.175 38.462 0.00 0.00 37.73 3.16
2217 2379 7.255491 TCCGTATGTACTATGTAGTCACTTG 57.745 40.000 0.00 0.00 37.73 3.16
2218 2380 6.017275 GCTCCGTATGTACTATGTAGTCACTT 60.017 42.308 0.00 0.00 37.73 3.16
2219 2381 5.469421 GCTCCGTATGTACTATGTAGTCACT 59.531 44.000 0.00 0.00 37.73 3.41
2220 2382 5.237996 TGCTCCGTATGTACTATGTAGTCAC 59.762 44.000 0.00 0.00 37.73 3.67
2221 2383 5.370679 TGCTCCGTATGTACTATGTAGTCA 58.629 41.667 0.00 0.00 37.73 3.41
2222 2384 5.936686 TGCTCCGTATGTACTATGTAGTC 57.063 43.478 0.00 0.00 37.73 2.59
2223 2385 6.704289 TTTGCTCCGTATGTACTATGTAGT 57.296 37.500 0.00 0.00 40.24 2.73
2224 2386 7.865889 TCATTTTGCTCCGTATGTACTATGTAG 59.134 37.037 0.00 0.00 0.00 2.74
2225 2387 7.718525 TCATTTTGCTCCGTATGTACTATGTA 58.281 34.615 0.00 0.00 0.00 2.29
2226 2388 6.578944 TCATTTTGCTCCGTATGTACTATGT 58.421 36.000 0.00 0.00 0.00 2.29
2227 2389 6.701841 ACTCATTTTGCTCCGTATGTACTATG 59.298 38.462 0.00 0.00 0.00 2.23
2228 2390 6.701841 CACTCATTTTGCTCCGTATGTACTAT 59.298 38.462 0.00 0.00 0.00 2.12
2229 2391 6.040247 CACTCATTTTGCTCCGTATGTACTA 58.960 40.000 0.00 0.00 0.00 1.82
2230 2392 4.870426 CACTCATTTTGCTCCGTATGTACT 59.130 41.667 0.00 0.00 0.00 2.73
2231 2393 4.868171 TCACTCATTTTGCTCCGTATGTAC 59.132 41.667 0.00 0.00 0.00 2.90
2232 2394 5.079689 TCACTCATTTTGCTCCGTATGTA 57.920 39.130 0.00 0.00 0.00 2.29
2233 2395 3.937814 TCACTCATTTTGCTCCGTATGT 58.062 40.909 0.00 0.00 0.00 2.29
2234 2396 4.944962 TTCACTCATTTTGCTCCGTATG 57.055 40.909 0.00 0.00 0.00 2.39
2235 2397 5.431765 AGATTCACTCATTTTGCTCCGTAT 58.568 37.500 0.00 0.00 0.00 3.06
2236 2398 4.832248 AGATTCACTCATTTTGCTCCGTA 58.168 39.130 0.00 0.00 0.00 4.02
2237 2399 3.679389 AGATTCACTCATTTTGCTCCGT 58.321 40.909 0.00 0.00 0.00 4.69
2238 2400 4.631377 TGTAGATTCACTCATTTTGCTCCG 59.369 41.667 0.00 0.00 0.00 4.63
2239 2401 5.645497 AGTGTAGATTCACTCATTTTGCTCC 59.355 40.000 0.00 0.00 44.07 4.70
2240 2402 6.734104 AGTGTAGATTCACTCATTTTGCTC 57.266 37.500 0.00 0.00 44.07 4.26
2272 2434 9.901172 ACTATCACATACGGATGTATATAGACA 57.099 33.333 30.73 11.02 44.82 3.41
2274 2436 9.557061 GGACTATCACATACGGATGTATATAGA 57.443 37.037 30.73 19.35 44.82 1.98
2275 2437 9.338622 TGGACTATCACATACGGATGTATATAG 57.661 37.037 26.27 26.27 44.82 1.31
2276 2438 9.862149 ATGGACTATCACATACGGATGTATATA 57.138 33.333 14.23 12.96 44.82 0.86
2277 2439 8.768501 ATGGACTATCACATACGGATGTATAT 57.231 34.615 14.23 12.50 44.82 0.86
2278 2440 8.589701 AATGGACTATCACATACGGATGTATA 57.410 34.615 14.23 10.59 44.82 1.47
2279 2441 7.482169 AATGGACTATCACATACGGATGTAT 57.518 36.000 14.23 10.02 44.82 2.29
2280 2442 6.911250 AATGGACTATCACATACGGATGTA 57.089 37.500 14.23 2.61 44.82 2.29
2282 2444 6.223120 TCAAATGGACTATCACATACGGATG 58.777 40.000 5.94 5.94 39.16 3.51
2283 2445 6.419484 TCAAATGGACTATCACATACGGAT 57.581 37.500 0.00 0.00 0.00 4.18
2284 2446 5.862678 TCAAATGGACTATCACATACGGA 57.137 39.130 0.00 0.00 0.00 4.69
2285 2447 6.918892 TTTCAAATGGACTATCACATACGG 57.081 37.500 0.00 0.00 0.00 4.02
2286 2448 8.370493 AGATTTCAAATGGACTATCACATACG 57.630 34.615 0.00 0.00 0.00 3.06
2287 2449 9.553064 AGAGATTTCAAATGGACTATCACATAC 57.447 33.333 0.00 0.00 0.00 2.39
2290 2452 9.958180 TTTAGAGATTTCAAATGGACTATCACA 57.042 29.630 0.00 0.00 0.00 3.58
2296 2458 8.924511 TGTCTTTTAGAGATTTCAAATGGACT 57.075 30.769 0.00 0.00 36.61 3.85
2297 2459 9.965824 TTTGTCTTTTAGAGATTTCAAATGGAC 57.034 29.630 0.00 0.00 36.61 4.02
2311 2473 9.947433 TCCGTTCCTAAATATTTGTCTTTTAGA 57.053 29.630 11.05 0.00 35.79 2.10
2313 2475 9.169592 CCTCCGTTCCTAAATATTTGTCTTTTA 57.830 33.333 11.05 0.00 0.00 1.52
2314 2476 7.122204 CCCTCCGTTCCTAAATATTTGTCTTTT 59.878 37.037 11.05 0.00 0.00 2.27
2315 2477 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
2316 2478 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
2317 2479 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
2318 2480 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
2319 2481 5.191124 ACTCCCTCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
2320 2482 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
2321 2483 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
2322 2484 6.141790 AGTACTCCCTCCGTTCCTAAATATT 58.858 40.000 0.00 0.00 0.00 1.28
2323 2485 5.713807 AGTACTCCCTCCGTTCCTAAATAT 58.286 41.667 0.00 0.00 0.00 1.28
2324 2486 5.134725 AGTACTCCCTCCGTTCCTAAATA 57.865 43.478 0.00 0.00 0.00 1.40
2325 2487 3.991683 AGTACTCCCTCCGTTCCTAAAT 58.008 45.455 0.00 0.00 0.00 1.40
2326 2488 3.463048 AGTACTCCCTCCGTTCCTAAA 57.537 47.619 0.00 0.00 0.00 1.85
2327 2489 4.414846 AGATAGTACTCCCTCCGTTCCTAA 59.585 45.833 0.00 0.00 0.00 2.69
2328 2490 3.979347 AGATAGTACTCCCTCCGTTCCTA 59.021 47.826 0.00 0.00 0.00 2.94
2329 2491 2.784682 AGATAGTACTCCCTCCGTTCCT 59.215 50.000 0.00 0.00 0.00 3.36
2330 2492 3.226682 AGATAGTACTCCCTCCGTTCC 57.773 52.381 0.00 0.00 0.00 3.62
2331 2493 5.591877 TGTTAAGATAGTACTCCCTCCGTTC 59.408 44.000 0.00 0.00 0.00 3.95
2332 2494 5.513233 TGTTAAGATAGTACTCCCTCCGTT 58.487 41.667 0.00 0.00 0.00 4.44
2333 2495 5.121380 TGTTAAGATAGTACTCCCTCCGT 57.879 43.478 0.00 0.00 0.00 4.69
2334 2496 5.359009 TGTTGTTAAGATAGTACTCCCTCCG 59.641 44.000 0.00 0.00 0.00 4.63
2335 2497 6.786967 TGTTGTTAAGATAGTACTCCCTCC 57.213 41.667 0.00 0.00 0.00 4.30
2336 2498 7.224949 GCATTGTTGTTAAGATAGTACTCCCTC 59.775 40.741 0.00 0.00 0.00 4.30
2337 2499 7.048512 GCATTGTTGTTAAGATAGTACTCCCT 58.951 38.462 0.00 0.00 0.00 4.20
2338 2500 6.821665 TGCATTGTTGTTAAGATAGTACTCCC 59.178 38.462 0.00 0.00 0.00 4.30
2339 2501 7.843490 TGCATTGTTGTTAAGATAGTACTCC 57.157 36.000 0.00 0.00 0.00 3.85
2495 2657 5.476254 TGGTTGATCATTTGCACTAATGTGA 59.524 36.000 10.20 0.00 46.55 3.58
2532 2694 1.386748 CATACAACGTCAGTGTCGCTG 59.613 52.381 9.72 10.33 46.34 5.18
3156 3318 3.118223 CCCTACCTTGTGGAGATCCTTTC 60.118 52.174 0.00 0.00 36.82 2.62
3213 3375 4.144297 GTCTGGCTCATAATATTTGCCCA 58.856 43.478 14.52 11.10 42.62 5.36
3242 3404 3.665871 GCATTTCTTTTGCTCGAGTTGTC 59.334 43.478 15.13 0.00 37.14 3.18
3265 3427 7.569240 TGATAAACAACAAAAAGGGACCAAAT 58.431 30.769 0.00 0.00 0.00 2.32
3288 3450 4.514781 ACAAGTTACTGTAGCGTGATGA 57.485 40.909 20.34 0.00 0.00 2.92
3446 3608 0.817654 GTATTCAAGGCCAGCCAACC 59.182 55.000 12.03 0.00 38.92 3.77
3980 4142 2.209690 TGGTAAAACAAGGCTAGGGC 57.790 50.000 0.00 0.00 37.82 5.19
4092 4254 8.648698 TCTGGAGGATTTTGTTTTCATATTCA 57.351 30.769 0.00 0.00 0.00 2.57
4283 4445 0.722848 AAATTTGGTACGCGGCTACG 59.277 50.000 12.47 0.00 44.63 3.51
4284 4446 2.905959 AAAATTTGGTACGCGGCTAC 57.094 45.000 12.47 4.46 0.00 3.58
4285 4447 3.598299 AGTAAAATTTGGTACGCGGCTA 58.402 40.909 12.47 0.00 0.00 3.93
4286 4448 2.429478 AGTAAAATTTGGTACGCGGCT 58.571 42.857 12.47 0.00 0.00 5.52
4287 4449 2.905959 AGTAAAATTTGGTACGCGGC 57.094 45.000 12.47 2.06 0.00 6.53
4288 4450 3.494232 CCAAGTAAAATTTGGTACGCGG 58.506 45.455 12.47 0.00 40.15 6.46
4386 4549 6.611642 TCAGTGGGCTCATATTAACTCTACTT 59.388 38.462 0.00 0.00 0.00 2.24
4387 4550 6.136857 TCAGTGGGCTCATATTAACTCTACT 58.863 40.000 0.00 0.00 0.00 2.57
4398 4561 2.637382 TCAAACACTCAGTGGGCTCATA 59.363 45.455 10.28 0.00 37.94 2.15
4506 4670 3.945921 AGGCAAATGATGTCATGAGAGTG 59.054 43.478 0.00 0.00 35.54 3.51
4507 4671 3.945921 CAGGCAAATGATGTCATGAGAGT 59.054 43.478 0.00 0.00 35.54 3.24
4589 4753 8.421673 AGTAAATTATTAGTCCTCGCAAGTTC 57.578 34.615 0.00 0.00 39.48 3.01
4620 4784 1.001068 TGCGACGAGTAATTTGGGACA 59.999 47.619 0.00 0.00 0.00 4.02
4629 4793 3.186909 CATCCATTTCTGCGACGAGTAA 58.813 45.455 0.00 0.00 0.00 2.24
4634 4798 3.384668 AGATACATCCATTTCTGCGACG 58.615 45.455 0.00 0.00 0.00 5.12
4638 4802 7.212976 TCAGTTCTAGATACATCCATTTCTGC 58.787 38.462 0.00 0.00 0.00 4.26
4690 4854 1.135315 TCCGTCCCGAATTACTTGTCG 60.135 52.381 0.00 0.00 37.01 4.35
4754 4918 9.519191 TTTGAGAATTGAATGGAGATAGAACAA 57.481 29.630 0.00 0.00 0.00 2.83
4772 4936 9.559958 CTAGCGTTTGATTAAACATTTGAGAAT 57.440 29.630 12.93 0.00 45.06 2.40
5111 5275 6.205658 TGCTGTTGCCTTTTAAAACTTTGTTT 59.794 30.769 0.00 0.00 38.71 2.83
5173 5337 5.065235 TGTGCAGTTCTCTGATCAAAATCA 58.935 37.500 0.00 0.00 43.76 2.57
5211 5375 6.127225 TGTGTTCTTTGAATCAATTGGTGGAA 60.127 34.615 5.42 0.00 0.00 3.53
5484 5650 3.493440 CGCGACCCTTTAACCGCC 61.493 66.667 0.00 0.00 44.18 6.13
5492 5658 0.169009 GTAACGTAGTCGCGACCCTT 59.831 55.000 34.08 19.48 45.00 3.95
5926 6093 4.201485 GCAACAAAATACGAGCAAATTCCG 60.201 41.667 0.00 0.00 0.00 4.30
6209 6378 3.576982 TCCTACAAAGTGGTAGTGAGTGG 59.423 47.826 0.00 0.00 39.26 4.00


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

AutoCloner maintained by Alex Coulton.