Multiple sequence alignment - TraesCS5D01G145000

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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 TraesCS5D01G145000 chr5D 100.000 7898 0 0 1 7898 231734579 231742476 0.000000e+00 14585
1 TraesCS5D01G145000 chr5B 95.474 5634 156 40 2326 7898 273727470 273721875 0.000000e+00 8900
2 TraesCS5D01G145000 chr5B 93.659 2208 86 30 1 2196 273729637 273727472 0.000000e+00 3253
3 TraesCS5D01G145000 chr5B 95.588 136 5 1 2194 2328 13357092 13356957 4.800000e-52 217
4 TraesCS5D01G145000 chr5A 98.644 4351 52 6 2326 6673 325384349 325380003 0.000000e+00 7701
5 TraesCS5D01G145000 chr5A 93.968 2205 97 19 1 2203 325386517 325384347 0.000000e+00 3302
6 TraesCS5D01G145000 chr5A 96.840 1234 31 5 6671 7898 325379943 325378712 0.000000e+00 2056
7 TraesCS5D01G145000 chr4A 82.031 768 112 19 3544 4306 476748780 476749526 1.450000e-176 630
8 TraesCS5D01G145000 chr4A 81.783 258 42 4 2404 2657 476747549 476747805 2.230000e-50 211
9 TraesCS5D01G145000 chr4D 81.723 766 118 15 3544 4306 99662379 99661633 3.130000e-173 619
10 TraesCS5D01G145000 chr4D 78.723 329 57 10 2333 2657 99663615 99663296 2.890000e-49 207
11 TraesCS5D01G145000 chr4B 81.641 768 115 19 3544 4306 142056346 142055600 1.460000e-171 614
12 TraesCS5D01G145000 chr4B 81.008 258 44 4 2404 2657 142057847 142057591 4.830000e-47 200
13 TraesCS5D01G145000 chr3A 97.826 138 3 0 2198 2335 741679787 741679924 1.020000e-58 239
14 TraesCS5D01G145000 chr1A 98.507 134 1 1 2201 2333 486045772 486045905 1.330000e-57 235
15 TraesCS5D01G145000 chr1B 99.219 128 1 0 2201 2328 543038775 543038902 1.710000e-56 231
16 TraesCS5D01G145000 chr1B 97.037 135 4 0 2198 2332 308586795 308586661 2.220000e-55 228
17 TraesCS5D01G145000 chr1B 94.000 150 6 3 2186 2333 409879952 409879804 2.870000e-54 224
18 TraesCS5D01G145000 chr6A 97.727 132 3 0 2197 2328 365472002 365471871 2.220000e-55 228
19 TraesCS5D01G145000 chr7A 95.714 140 4 2 2194 2333 252196674 252196537 2.870000e-54 224
20 TraesCS5D01G145000 chr2B 94.521 146 4 3 2202 2347 104014048 104014189 1.030000e-53 222


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 TraesCS5D01G145000 chr5D 231734579 231742476 7897 False 14585.0 14585 100.0000 1 7898 1 chr5D.!!$F1 7897
1 TraesCS5D01G145000 chr5B 273721875 273729637 7762 True 6076.5 8900 94.5665 1 7898 2 chr5B.!!$R2 7897
2 TraesCS5D01G145000 chr5A 325378712 325386517 7805 True 4353.0 7701 96.4840 1 7898 3 chr5A.!!$R1 7897
3 TraesCS5D01G145000 chr4A 476747549 476749526 1977 False 420.5 630 81.9070 2404 4306 2 chr4A.!!$F1 1902
4 TraesCS5D01G145000 chr4D 99661633 99663615 1982 True 413.0 619 80.2230 2333 4306 2 chr4D.!!$R1 1973
5 TraesCS5D01G145000 chr4B 142055600 142057847 2247 True 407.0 614 81.3245 2404 4306 2 chr4B.!!$R1 1902

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
479 482 0.323725 GCCACACAATCACCAGGGAT 60.324 55.000 0.00 0.0 0.00 3.85 F
1300 1315 1.010125 CCCGTTGCACGACAAACTG 60.010 57.895 9.75 0.0 46.05 3.16 F
1301 1316 1.654137 CCGTTGCACGACAAACTGC 60.654 57.895 9.75 0.0 46.05 4.40 F
2220 2241 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.0 44.66 2.17 F
2221 2242 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.0 44.66 1.40 F
2223 2244 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.0 44.66 2.12 F
2224 2245 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.0 44.66 2.24 F
4083 5044 0.035317 TTCTTGCACAGCCGACTCAT 59.965 50.000 0.00 0.0 0.00 2.90 F
4821 5782 1.356624 GGCTGTCTGTTGTGTGTGC 59.643 57.895 0.00 0.0 0.00 4.57 F
5332 6294 0.605319 TGGGATGTCAACGAAGGTGC 60.605 55.000 0.00 0.0 0.00 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2201 2222 0.032813 ATTTCCGGACGGAGGGAGTA 60.033 55.000 13.64 0.00 46.06 2.59 R
2204 2225 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20 R
2313 2334 0.822164 ACAATTACTCCCTCCGTCCG 59.178 55.000 0.00 0.00 0.00 4.79 R
3489 3894 3.267031 TCAGAAGGAAGGGAAAGGGAATC 59.733 47.826 0.00 0.00 0.00 2.52 R
3887 4848 5.892686 GTCCAGAAACCTATAGAGTACCTGT 59.107 44.000 0.00 0.00 0.00 4.00 R
4083 5044 5.925506 AAACAATCATCATGAATGCCTGA 57.074 34.783 2.32 0.00 30.64 3.86 R
4244 5205 1.153168 ACCTTTGCTGACACTGCGT 60.153 52.632 0.00 0.00 0.00 5.24 R
5325 6287 0.954452 CCACCTCTTTGTGCACCTTC 59.046 55.000 15.69 0.00 34.85 3.46 R
6390 7353 1.332375 GTCCAGGAGAGTTCGATCTCG 59.668 57.143 15.92 3.99 45.60 4.04 R
6954 7982 3.549412 TGCGCCACACATCAGTATT 57.451 47.368 4.18 0.00 0.00 1.89 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
40 42 3.392616 TCTTGCCTCCTCACTTCTTCTTT 59.607 43.478 0.00 0.00 0.00 2.52
45 47 2.909662 CTCCTCACTTCTTCTTTCCCCT 59.090 50.000 0.00 0.00 0.00 4.79
102 105 3.812865 TTGCGCTGCTGCTCAGTCA 62.813 57.895 9.73 0.00 44.66 3.41
115 118 2.352814 GCTCAGTCACACCACTACGATT 60.353 50.000 0.00 0.00 0.00 3.34
116 119 3.861131 GCTCAGTCACACCACTACGATTT 60.861 47.826 0.00 0.00 0.00 2.17
175 178 2.548875 CTAGCAGAGAAAAGCGAGCAT 58.451 47.619 0.00 0.00 35.48 3.79
201 204 3.885724 TCGTTGCATCTAGTTCCATCA 57.114 42.857 0.00 0.00 0.00 3.07
211 214 0.965866 AGTTCCATCAGGTCGCGAGA 60.966 55.000 10.24 3.42 35.89 4.04
246 249 6.294342 GGTTACCTATTTCGCACCTTCTTTTT 60.294 38.462 0.00 0.00 0.00 1.94
251 254 6.371825 CCTATTTCGCACCTTCTTTTTACTCT 59.628 38.462 0.00 0.00 0.00 3.24
252 255 5.668558 TTTCGCACCTTCTTTTTACTCTC 57.331 39.130 0.00 0.00 0.00 3.20
253 256 4.602340 TCGCACCTTCTTTTTACTCTCT 57.398 40.909 0.00 0.00 0.00 3.10
254 257 4.557205 TCGCACCTTCTTTTTACTCTCTC 58.443 43.478 0.00 0.00 0.00 3.20
255 258 3.680458 CGCACCTTCTTTTTACTCTCTCC 59.320 47.826 0.00 0.00 0.00 3.71
256 259 4.004314 GCACCTTCTTTTTACTCTCTCCC 58.996 47.826 0.00 0.00 0.00 4.30
257 260 4.580868 CACCTTCTTTTTACTCTCTCCCC 58.419 47.826 0.00 0.00 0.00 4.81
258 261 4.287326 CACCTTCTTTTTACTCTCTCCCCT 59.713 45.833 0.00 0.00 0.00 4.79
259 262 4.914581 ACCTTCTTTTTACTCTCTCCCCTT 59.085 41.667 0.00 0.00 0.00 3.95
260 263 5.372959 ACCTTCTTTTTACTCTCTCCCCTTT 59.627 40.000 0.00 0.00 0.00 3.11
261 264 6.126156 ACCTTCTTTTTACTCTCTCCCCTTTT 60.126 38.462 0.00 0.00 0.00 2.27
262 265 6.431543 CCTTCTTTTTACTCTCTCCCCTTTTC 59.568 42.308 0.00 0.00 0.00 2.29
263 266 6.765355 TCTTTTTACTCTCTCCCCTTTTCT 57.235 37.500 0.00 0.00 0.00 2.52
264 267 7.150447 TCTTTTTACTCTCTCCCCTTTTCTT 57.850 36.000 0.00 0.00 0.00 2.52
265 268 6.998673 TCTTTTTACTCTCTCCCCTTTTCTTG 59.001 38.462 0.00 0.00 0.00 3.02
266 269 6.509523 TTTTACTCTCTCCCCTTTTCTTGA 57.490 37.500 0.00 0.00 0.00 3.02
267 270 6.509523 TTTACTCTCTCCCCTTTTCTTGAA 57.490 37.500 0.00 0.00 0.00 2.69
268 271 4.359434 ACTCTCTCCCCTTTTCTTGAAC 57.641 45.455 0.00 0.00 0.00 3.18
269 272 3.716872 ACTCTCTCCCCTTTTCTTGAACA 59.283 43.478 0.00 0.00 0.00 3.18
270 273 4.068599 CTCTCTCCCCTTTTCTTGAACAC 58.931 47.826 0.00 0.00 0.00 3.32
271 274 3.716872 TCTCTCCCCTTTTCTTGAACACT 59.283 43.478 0.00 0.00 0.00 3.55
272 275 4.905456 TCTCTCCCCTTTTCTTGAACACTA 59.095 41.667 0.00 0.00 0.00 2.74
273 276 4.969484 TCTCCCCTTTTCTTGAACACTAC 58.031 43.478 0.00 0.00 0.00 2.73
274 277 4.658901 TCTCCCCTTTTCTTGAACACTACT 59.341 41.667 0.00 0.00 0.00 2.57
275 278 4.969484 TCCCCTTTTCTTGAACACTACTC 58.031 43.478 0.00 0.00 0.00 2.59
316 319 9.828039 CCTAGTACTTTTATAAGACCCGATTTT 57.172 33.333 0.00 0.00 35.30 1.82
321 324 7.179966 ACTTTTATAAGACCCGATTTTTCCCT 58.820 34.615 0.00 0.00 35.30 4.20
324 327 0.624254 AGACCCGATTTTTCCCTCCC 59.376 55.000 0.00 0.00 0.00 4.30
325 328 0.395311 GACCCGATTTTTCCCTCCCC 60.395 60.000 0.00 0.00 0.00 4.81
330 333 1.285078 CGATTTTTCCCTCCCCCTCTT 59.715 52.381 0.00 0.00 0.00 2.85
365 368 5.660460 AGACATTGAATCATGTAGCGTGTA 58.340 37.500 0.00 0.00 0.00 2.90
458 461 1.077663 ACTTCCTTGACATTGCCCCAT 59.922 47.619 0.00 0.00 0.00 4.00
479 482 0.323725 GCCACACAATCACCAGGGAT 60.324 55.000 0.00 0.00 0.00 3.85
486 489 4.476846 ACACAATCACCAGGGATAATACCA 59.523 41.667 0.00 0.00 0.00 3.25
506 509 1.451927 CATAGGGCAAGGCTTCGCA 60.452 57.895 18.66 4.17 0.00 5.10
535 538 3.064900 AGATTTGAAAGAGCGAGGCTT 57.935 42.857 0.00 0.00 39.88 4.35
561 564 1.832167 TGCCCTTGGAAGGTTGTGC 60.832 57.895 4.72 1.67 44.98 4.57
573 576 3.081710 AGGTTGTGCCATAAACCCTAC 57.918 47.619 8.24 0.00 45.87 3.18
596 599 7.264373 ACACTAAATCTCAACAAGGTCTTTG 57.736 36.000 0.00 0.00 42.68 2.77
607 610 4.091549 ACAAGGTCTTTGGATGATGCAAT 58.908 39.130 0.00 0.00 41.25 3.56
625 628 2.551032 CAATGAGAGCTCAAAGCACACA 59.449 45.455 17.77 0.54 45.56 3.72
876 891 2.616842 CCACTTTAAGTTGCTTGTCGGT 59.383 45.455 0.00 0.00 0.00 4.69
1081 1096 1.228925 CCGGACCCCTCCTCTATCC 60.229 68.421 0.00 0.00 33.79 2.59
1300 1315 1.010125 CCCGTTGCACGACAAACTG 60.010 57.895 9.75 0.00 46.05 3.16
1301 1316 1.654137 CCGTTGCACGACAAACTGC 60.654 57.895 9.75 0.00 46.05 4.40
1734 1750 7.903452 TTACTATCTATTTACGACAAGTGCG 57.097 36.000 0.00 0.00 0.00 5.34
1971 1988 7.690256 AGTTAGTTAGGTGTCTTGGATCATTT 58.310 34.615 0.00 0.00 0.00 2.32
2187 2208 7.814107 GCATTAGAGAAAAACCATGAAATCACA 59.186 33.333 0.00 0.00 0.00 3.58
2212 2233 3.564053 TTTTGTTTGTACTCCCTCCGT 57.436 42.857 0.00 0.00 0.00 4.69
2213 2234 2.825861 TTGTTTGTACTCCCTCCGTC 57.174 50.000 0.00 0.00 0.00 4.79
2214 2235 0.971386 TGTTTGTACTCCCTCCGTCC 59.029 55.000 0.00 0.00 0.00 4.79
2215 2236 0.108945 GTTTGTACTCCCTCCGTCCG 60.109 60.000 0.00 0.00 0.00 4.79
2216 2237 1.252904 TTTGTACTCCCTCCGTCCGG 61.253 60.000 0.00 0.00 0.00 5.14
2217 2238 2.141011 TTGTACTCCCTCCGTCCGGA 62.141 60.000 0.00 0.00 42.90 5.14
2218 2239 1.379044 GTACTCCCTCCGTCCGGAA 60.379 63.158 5.23 0.00 44.66 4.30
2219 2240 0.967380 GTACTCCCTCCGTCCGGAAA 60.967 60.000 5.23 0.00 44.66 3.13
2220 2241 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
2221 2242 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
2222 2243 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
2223 2244 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
2224 2245 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
2225 2246 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
2226 2247 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
2227 2248 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
2228 2249 1.894466 TCCGTCCGGAAATACTTGTCA 59.106 47.619 5.23 0.00 42.05 3.58
2229 2250 2.498481 TCCGTCCGGAAATACTTGTCAT 59.502 45.455 5.23 0.00 42.05 3.06
2230 2251 2.864343 CCGTCCGGAAATACTTGTCATC 59.136 50.000 5.23 0.00 37.50 2.92
2231 2252 3.517602 CGTCCGGAAATACTTGTCATCA 58.482 45.455 5.23 0.00 0.00 3.07
2232 2253 3.930229 CGTCCGGAAATACTTGTCATCAA 59.070 43.478 5.23 0.00 0.00 2.57
2233 2254 4.390603 CGTCCGGAAATACTTGTCATCAAA 59.609 41.667 5.23 0.00 32.87 2.69
2234 2255 5.106869 CGTCCGGAAATACTTGTCATCAAAA 60.107 40.000 5.23 0.00 32.87 2.44
2235 2256 6.403200 CGTCCGGAAATACTTGTCATCAAAAT 60.403 38.462 5.23 0.00 32.87 1.82
2236 2257 6.747280 GTCCGGAAATACTTGTCATCAAAATG 59.253 38.462 5.23 0.00 32.87 2.32
2237 2258 6.035843 CCGGAAATACTTGTCATCAAAATGG 58.964 40.000 0.00 0.00 33.42 3.16
2238 2259 6.127758 CCGGAAATACTTGTCATCAAAATGGA 60.128 38.462 0.00 0.00 33.42 3.41
2239 2260 7.416664 CCGGAAATACTTGTCATCAAAATGGAT 60.417 37.037 0.00 0.00 33.42 3.41
2240 2261 8.620416 CGGAAATACTTGTCATCAAAATGGATA 58.380 33.333 0.00 0.00 33.42 2.59
2246 2267 7.614494 ACTTGTCATCAAAATGGATAAAAGGG 58.386 34.615 0.00 0.00 33.42 3.95
2247 2268 6.543430 TGTCATCAAAATGGATAAAAGGGG 57.457 37.500 0.00 0.00 33.42 4.79
2248 2269 6.259893 TGTCATCAAAATGGATAAAAGGGGA 58.740 36.000 0.00 0.00 33.42 4.81
2249 2270 6.902416 TGTCATCAAAATGGATAAAAGGGGAT 59.098 34.615 0.00 0.00 33.42 3.85
2250 2271 7.147689 TGTCATCAAAATGGATAAAAGGGGATG 60.148 37.037 0.00 0.00 33.42 3.51
2251 2272 6.902416 TCATCAAAATGGATAAAAGGGGATGT 59.098 34.615 0.00 0.00 33.42 3.06
2252 2273 8.064389 TCATCAAAATGGATAAAAGGGGATGTA 58.936 33.333 0.00 0.00 33.42 2.29
2253 2274 8.873144 CATCAAAATGGATAAAAGGGGATGTAT 58.127 33.333 0.00 0.00 0.00 2.29
2254 2275 8.477419 TCAAAATGGATAAAAGGGGATGTATC 57.523 34.615 0.00 0.00 0.00 2.24
2255 2276 8.288812 TCAAAATGGATAAAAGGGGATGTATCT 58.711 33.333 0.00 0.00 0.00 1.98
2256 2277 9.586732 CAAAATGGATAAAAGGGGATGTATCTA 57.413 33.333 0.00 0.00 0.00 1.98
2257 2278 9.813826 AAAATGGATAAAAGGGGATGTATCTAG 57.186 33.333 0.00 0.00 0.00 2.43
2258 2279 8.757307 AATGGATAAAAGGGGATGTATCTAGA 57.243 34.615 0.00 0.00 0.00 2.43
2259 2280 7.554959 TGGATAAAAGGGGATGTATCTAGAC 57.445 40.000 0.00 0.00 0.00 2.59
2260 2281 6.210784 TGGATAAAAGGGGATGTATCTAGACG 59.789 42.308 0.00 0.00 0.00 4.18
2261 2282 6.210984 GGATAAAAGGGGATGTATCTAGACGT 59.789 42.308 0.00 0.00 0.00 4.34
2262 2283 7.395489 GGATAAAAGGGGATGTATCTAGACGTA 59.605 40.741 0.00 0.00 0.00 3.57
2263 2284 8.896722 ATAAAAGGGGATGTATCTAGACGTAT 57.103 34.615 0.00 0.00 0.00 3.06
2264 2285 7.613551 AAAAGGGGATGTATCTAGACGTATT 57.386 36.000 0.00 0.00 0.00 1.89
2265 2286 7.613551 AAAGGGGATGTATCTAGACGTATTT 57.386 36.000 0.00 0.00 0.00 1.40
2266 2287 7.613551 AAGGGGATGTATCTAGACGTATTTT 57.386 36.000 0.00 0.00 0.00 1.82
2267 2288 8.716674 AAGGGGATGTATCTAGACGTATTTTA 57.283 34.615 0.00 0.00 0.00 1.52
2268 2289 8.350852 AGGGGATGTATCTAGACGTATTTTAG 57.649 38.462 0.00 0.00 0.00 1.85
2269 2290 7.949006 AGGGGATGTATCTAGACGTATTTTAGT 59.051 37.037 0.00 0.00 0.00 2.24
2270 2291 8.583296 GGGGATGTATCTAGACGTATTTTAGTT 58.417 37.037 0.00 0.00 0.00 2.24
2271 2292 9.623350 GGGATGTATCTAGACGTATTTTAGTTC 57.377 37.037 0.00 0.00 0.00 3.01
2303 2324 9.118300 ACATCTCTTTCTATCCATTTTGATGAC 57.882 33.333 0.00 0.00 33.85 3.06
2304 2325 9.117183 CATCTCTTTCTATCCATTTTGATGACA 57.883 33.333 0.00 0.00 32.05 3.58
2305 2326 9.690913 ATCTCTTTCTATCCATTTTGATGACAA 57.309 29.630 0.00 0.00 0.00 3.18
2306 2327 9.170734 TCTCTTTCTATCCATTTTGATGACAAG 57.829 33.333 0.00 0.00 37.32 3.16
2307 2328 8.868522 TCTTTCTATCCATTTTGATGACAAGT 57.131 30.769 0.00 0.00 37.32 3.16
2308 2329 9.958180 TCTTTCTATCCATTTTGATGACAAGTA 57.042 29.630 0.00 0.00 37.32 2.24
2314 2335 8.915871 ATCCATTTTGATGACAAGTATTTTCG 57.084 30.769 0.00 0.00 37.32 3.46
2315 2336 7.312154 TCCATTTTGATGACAAGTATTTTCGG 58.688 34.615 0.00 0.00 37.32 4.30
2316 2337 7.175816 TCCATTTTGATGACAAGTATTTTCGGA 59.824 33.333 0.00 0.00 37.32 4.55
2317 2338 7.273381 CCATTTTGATGACAAGTATTTTCGGAC 59.727 37.037 0.00 0.00 37.32 4.79
2318 2339 5.524511 TTGATGACAAGTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
2319 2340 3.930229 TGATGACAAGTATTTTCGGACGG 59.070 43.478 0.00 0.00 0.00 4.79
2320 2341 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
2321 2342 3.581755 TGACAAGTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
2322 2343 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
2323 2344 2.277084 CAAGTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
2324 2345 1.856629 AGTATTTTCGGACGGAGGGA 58.143 50.000 0.00 0.00 0.00 4.20
2325 2346 1.755380 AGTATTTTCGGACGGAGGGAG 59.245 52.381 0.00 0.00 0.00 4.30
2326 2347 1.479730 GTATTTTCGGACGGAGGGAGT 59.520 52.381 0.00 0.00 0.00 3.85
2447 2468 9.614792 CAGCCTATAGAAGTACAAAATTAACCT 57.385 33.333 0.00 0.00 0.00 3.50
2607 2633 2.864931 GAATCAGAAGAGCGGCGCG 61.865 63.158 27.59 11.30 0.00 6.86
2688 2717 7.703328 TCGAATTGCTCTCTGTTTTAGTTTTT 58.297 30.769 0.00 0.00 0.00 1.94
3244 3558 6.652481 GGTCTTATCTCATGTCATGGTTATGG 59.348 42.308 12.90 1.19 34.97 2.74
3489 3894 6.393171 TGAAACCGCAGATCTATCATCTATG 58.607 40.000 0.00 0.00 0.00 2.23
3887 4848 4.026052 TGACATCACTATCTGCTCTTCCA 58.974 43.478 0.00 0.00 0.00 3.53
4083 5044 0.035317 TTCTTGCACAGCCGACTCAT 59.965 50.000 0.00 0.00 0.00 2.90
4244 5205 5.227569 TGAAGCAGAGTAACAATCTTGGA 57.772 39.130 0.00 0.00 0.00 3.53
4430 5391 8.028354 TCATGTCATATTTTCATTGTTGACACC 58.972 33.333 5.77 0.00 44.19 4.16
4602 5563 1.821216 TCATTGACCTTTTCCGAGCC 58.179 50.000 0.00 0.00 0.00 4.70
4777 5738 7.685155 GCCATTTAATCATGCAGTTCCACTAAT 60.685 37.037 0.00 0.00 0.00 1.73
4821 5782 1.356624 GGCTGTCTGTTGTGTGTGC 59.643 57.895 0.00 0.00 0.00 4.57
5018 5980 2.026449 AGATCCTTCAAGTTCCTGCCAG 60.026 50.000 0.00 0.00 0.00 4.85
5139 6101 3.319122 ACATTGAAAGAGACAACAAGGGC 59.681 43.478 0.00 0.00 0.00 5.19
5163 6125 5.772393 ATCCACCTTTACACAGTAATCCA 57.228 39.130 0.00 0.00 0.00 3.41
5221 6183 7.835682 TCAACATTTCAGATAATCATGGGTCTT 59.164 33.333 0.00 0.00 0.00 3.01
5325 6287 1.131126 GTGAGCAATGGGATGTCAACG 59.869 52.381 0.00 0.00 0.00 4.10
5332 6294 0.605319 TGGGATGTCAACGAAGGTGC 60.605 55.000 0.00 0.00 0.00 5.01
6088 7051 9.903682 CCTCGAAATAATTATCAAAAGCATCAT 57.096 29.630 0.00 0.00 0.00 2.45
6234 7197 3.139025 CCAACTCCATCACCCCATTCTAT 59.861 47.826 0.00 0.00 0.00 1.98
6390 7353 3.819337 GACACTAAACCTTCTTCAACCCC 59.181 47.826 0.00 0.00 0.00 4.95
6901 7929 0.108804 ACCACTATCCAGTTGACGCG 60.109 55.000 3.53 3.53 30.46 6.01
7384 8413 0.178961 AACTGAAAGACCCCTTGCCC 60.179 55.000 0.00 0.00 37.43 5.36
7601 8677 4.914312 ATGATTTGCTTGTGATTTTGCG 57.086 36.364 0.00 0.00 0.00 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
64 67 3.126001 ACGAAGAAAAGAGCACATCCA 57.874 42.857 0.00 0.00 0.00 3.41
102 105 3.554337 GGTGAGTGAAATCGTAGTGGTGT 60.554 47.826 0.00 0.00 0.00 4.16
115 118 1.055849 TGCTAGCCAAGGTGAGTGAA 58.944 50.000 13.29 0.00 0.00 3.18
116 119 1.065926 CATGCTAGCCAAGGTGAGTGA 60.066 52.381 13.29 0.00 0.00 3.41
175 178 3.254060 GAACTAGATGCAACGAAGAGCA 58.746 45.455 0.00 0.00 44.33 4.26
201 204 1.508545 CTCACATGTCTCGCGACCT 59.491 57.895 3.71 0.00 39.47 3.85
211 214 3.906720 AATAGGTAACCGCTCACATGT 57.093 42.857 0.00 0.00 37.17 3.21
236 239 4.504382 AGGGGAGAGAGTAAAAAGAAGGT 58.496 43.478 0.00 0.00 0.00 3.50
246 249 4.905456 TGTTCAAGAAAAGGGGAGAGAGTA 59.095 41.667 0.00 0.00 0.00 2.59
251 254 4.658901 AGTAGTGTTCAAGAAAAGGGGAGA 59.341 41.667 0.00 0.00 0.00 3.71
252 255 4.974399 AGTAGTGTTCAAGAAAAGGGGAG 58.026 43.478 0.00 0.00 0.00 4.30
253 256 4.658901 AGAGTAGTGTTCAAGAAAAGGGGA 59.341 41.667 0.00 0.00 0.00 4.81
254 257 4.974399 AGAGTAGTGTTCAAGAAAAGGGG 58.026 43.478 0.00 0.00 0.00 4.79
255 258 5.859495 AGAGAGTAGTGTTCAAGAAAAGGG 58.141 41.667 0.00 0.00 0.00 3.95
256 259 5.929415 GGAGAGAGTAGTGTTCAAGAAAAGG 59.071 44.000 0.00 0.00 0.00 3.11
257 260 5.929415 GGGAGAGAGTAGTGTTCAAGAAAAG 59.071 44.000 0.00 0.00 0.00 2.27
258 261 5.221661 GGGGAGAGAGTAGTGTTCAAGAAAA 60.222 44.000 0.00 0.00 0.00 2.29
259 262 4.283722 GGGGAGAGAGTAGTGTTCAAGAAA 59.716 45.833 0.00 0.00 0.00 2.52
260 263 3.833070 GGGGAGAGAGTAGTGTTCAAGAA 59.167 47.826 0.00 0.00 0.00 2.52
261 264 3.076182 AGGGGAGAGAGTAGTGTTCAAGA 59.924 47.826 0.00 0.00 0.00 3.02
262 265 3.436243 AGGGGAGAGAGTAGTGTTCAAG 58.564 50.000 0.00 0.00 0.00 3.02
263 266 3.544698 AGGGGAGAGAGTAGTGTTCAA 57.455 47.619 0.00 0.00 0.00 2.69
264 267 3.544698 AAGGGGAGAGAGTAGTGTTCA 57.455 47.619 0.00 0.00 0.00 3.18
265 268 5.018149 ACTAAAGGGGAGAGAGTAGTGTTC 58.982 45.833 0.00 0.00 0.00 3.18
266 269 5.013258 ACTAAAGGGGAGAGAGTAGTGTT 57.987 43.478 0.00 0.00 0.00 3.32
267 270 4.678538 ACTAAAGGGGAGAGAGTAGTGT 57.321 45.455 0.00 0.00 0.00 3.55
268 271 4.888823 GGTACTAAAGGGGAGAGAGTAGTG 59.111 50.000 0.00 0.00 0.00 2.74
269 272 4.795165 AGGTACTAAAGGGGAGAGAGTAGT 59.205 45.833 0.00 0.00 36.02 2.73
270 273 5.391577 AGGTACTAAAGGGGAGAGAGTAG 57.608 47.826 0.00 0.00 36.02 2.57
271 274 5.975618 ACTAGGTACTAAAGGGGAGAGAGTA 59.024 44.000 0.00 0.00 42.17 2.59
272 275 4.795165 ACTAGGTACTAAAGGGGAGAGAGT 59.205 45.833 0.00 0.00 42.17 3.24
273 276 5.391577 ACTAGGTACTAAAGGGGAGAGAG 57.608 47.826 0.00 0.00 42.17 3.20
274 277 5.975618 AGTACTAGGTACTAAAGGGGAGAGA 59.024 44.000 8.38 0.00 45.99 3.10
275 278 6.264771 AGTACTAGGTACTAAAGGGGAGAG 57.735 45.833 8.38 0.00 45.99 3.20
316 319 0.863220 TAGGGAAGAGGGGGAGGGAA 60.863 60.000 0.00 0.00 0.00 3.97
321 324 0.044244 CAAGGTAGGGAAGAGGGGGA 59.956 60.000 0.00 0.00 0.00 4.81
324 327 3.032459 GTCTACAAGGTAGGGAAGAGGG 58.968 54.545 3.77 0.00 0.00 4.30
325 328 3.709587 TGTCTACAAGGTAGGGAAGAGG 58.290 50.000 3.77 0.00 0.00 3.69
330 333 5.724370 TGATTCAATGTCTACAAGGTAGGGA 59.276 40.000 3.77 0.00 0.00 4.20
441 444 0.394216 CGATGGGGCAATGTCAAGGA 60.394 55.000 0.00 0.00 0.00 3.36
458 461 1.302431 CCTGGTGATTGTGTGGCGA 60.302 57.895 0.00 0.00 0.00 5.54
479 482 3.461831 AGCCTTGCCCTATGTTGGTATTA 59.538 43.478 0.00 0.00 0.00 0.98
486 489 3.175133 CGAAGCCTTGCCCTATGTT 57.825 52.632 0.00 0.00 0.00 2.71
506 509 5.088739 CGCTCTTTCAAATCTTTATTGCGT 58.911 37.500 0.00 0.00 34.89 5.24
535 538 2.725203 CTTCCAAGGGCACGAACCGA 62.725 60.000 0.00 0.00 0.00 4.69
561 564 7.827236 TGTTGAGATTTAGTGTAGGGTTTATGG 59.173 37.037 0.00 0.00 0.00 2.74
573 576 6.486657 TCCAAAGACCTTGTTGAGATTTAGTG 59.513 38.462 0.00 0.00 32.65 2.74
596 599 2.847441 TGAGCTCTCATTGCATCATCC 58.153 47.619 16.19 0.00 34.14 3.51
607 610 1.134431 TGTGTGTGCTTTGAGCTCTCA 60.134 47.619 16.19 4.95 42.97 3.27
625 628 2.164393 CCCCCTCTTCTTTGGGTGT 58.836 57.895 0.00 0.00 41.82 4.16
656 659 0.901124 CCTCACACCTCTTCCCTCAG 59.099 60.000 0.00 0.00 0.00 3.35
699 713 3.130340 GTGAAGGAAAACAAAGGTCAGCA 59.870 43.478 0.00 0.00 0.00 4.41
876 891 3.706373 GGCGAGGGAAGGACAGCA 61.706 66.667 0.00 0.00 0.00 4.41
1300 1315 1.192980 CGCAAAGCAAAGGAATTGTGC 59.807 47.619 0.00 0.00 41.32 4.57
1637 1653 6.357579 ACATTCATGGCCAATAAAAACTCA 57.642 33.333 10.96 0.00 0.00 3.41
1765 1781 9.275572 ACTAAGTTAAGTTATACCCAATCCTCA 57.724 33.333 3.23 0.00 0.00 3.86
1971 1988 4.665009 ACATTAGCCAGATATCCAGGGAAA 59.335 41.667 12.37 5.56 0.00 3.13
2144 2162 0.247460 TGCCATCTCCAGAAGTGACG 59.753 55.000 0.00 0.00 0.00 4.35
2198 2219 1.679977 CCGGACGGAGGGAGTACAA 60.680 63.158 4.40 0.00 37.50 2.41
2199 2220 2.044650 CCGGACGGAGGGAGTACA 60.045 66.667 4.40 0.00 37.50 2.90
2200 2221 0.967380 TTTCCGGACGGAGGGAGTAC 60.967 60.000 13.64 0.00 46.06 2.73
2201 2222 0.032813 ATTTCCGGACGGAGGGAGTA 60.033 55.000 13.64 0.00 46.06 2.59
2202 2223 0.032813 TATTTCCGGACGGAGGGAGT 60.033 55.000 13.64 0.00 46.06 3.85
2203 2224 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
2204 2225 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
2205 2226 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
2206 2227 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
2207 2228 2.094390 TGACAAGTATTTCCGGACGGAG 60.094 50.000 13.64 3.15 46.06 4.63
2208 2229 1.894466 TGACAAGTATTTCCGGACGGA 59.106 47.619 1.83 9.76 43.52 4.69
2209 2230 2.373540 TGACAAGTATTTCCGGACGG 57.626 50.000 1.83 3.96 0.00 4.79
2210 2231 3.517602 TGATGACAAGTATTTCCGGACG 58.482 45.455 1.83 0.00 0.00 4.79
2211 2232 5.873179 TTTGATGACAAGTATTTCCGGAC 57.127 39.130 1.83 0.00 37.32 4.79
2212 2233 6.127758 CCATTTTGATGACAAGTATTTCCGGA 60.128 38.462 0.00 0.00 37.32 5.14
2213 2234 6.035843 CCATTTTGATGACAAGTATTTCCGG 58.964 40.000 0.00 0.00 37.32 5.14
2214 2235 6.851609 TCCATTTTGATGACAAGTATTTCCG 58.148 36.000 0.00 0.00 37.32 4.30
2220 2241 8.748412 CCCTTTTATCCATTTTGATGACAAGTA 58.252 33.333 0.00 0.00 37.32 2.24
2221 2242 7.310609 CCCCTTTTATCCATTTTGATGACAAGT 60.311 37.037 0.00 0.00 37.32 3.16
2222 2243 7.043565 CCCCTTTTATCCATTTTGATGACAAG 58.956 38.462 0.00 0.00 37.32 3.16
2223 2244 6.728164 TCCCCTTTTATCCATTTTGATGACAA 59.272 34.615 0.00 0.00 0.00 3.18
2224 2245 6.259893 TCCCCTTTTATCCATTTTGATGACA 58.740 36.000 0.00 0.00 0.00 3.58
2225 2246 6.790232 TCCCCTTTTATCCATTTTGATGAC 57.210 37.500 0.00 0.00 0.00 3.06
2226 2247 6.902416 ACATCCCCTTTTATCCATTTTGATGA 59.098 34.615 0.00 0.00 32.39 2.92
2227 2248 7.128234 ACATCCCCTTTTATCCATTTTGATG 57.872 36.000 0.00 0.00 33.80 3.07
2228 2249 9.093458 GATACATCCCCTTTTATCCATTTTGAT 57.907 33.333 0.00 0.00 0.00 2.57
2229 2250 8.288812 AGATACATCCCCTTTTATCCATTTTGA 58.711 33.333 0.00 0.00 0.00 2.69
2230 2251 8.482852 AGATACATCCCCTTTTATCCATTTTG 57.517 34.615 0.00 0.00 0.00 2.44
2231 2252 9.813826 CTAGATACATCCCCTTTTATCCATTTT 57.186 33.333 0.00 0.00 0.00 1.82
2232 2253 9.182642 TCTAGATACATCCCCTTTTATCCATTT 57.817 33.333 0.00 0.00 0.00 2.32
2233 2254 8.606830 GTCTAGATACATCCCCTTTTATCCATT 58.393 37.037 0.00 0.00 0.00 3.16
2234 2255 7.093289 CGTCTAGATACATCCCCTTTTATCCAT 60.093 40.741 0.00 0.00 0.00 3.41
2235 2256 6.210784 CGTCTAGATACATCCCCTTTTATCCA 59.789 42.308 0.00 0.00 0.00 3.41
2236 2257 6.210984 ACGTCTAGATACATCCCCTTTTATCC 59.789 42.308 0.00 0.00 0.00 2.59
2237 2258 7.229581 ACGTCTAGATACATCCCCTTTTATC 57.770 40.000 0.00 0.00 0.00 1.75
2238 2259 8.896722 ATACGTCTAGATACATCCCCTTTTAT 57.103 34.615 0.00 0.00 0.00 1.40
2239 2260 8.716674 AATACGTCTAGATACATCCCCTTTTA 57.283 34.615 0.00 0.00 0.00 1.52
2240 2261 7.613551 AATACGTCTAGATACATCCCCTTTT 57.386 36.000 0.00 0.00 0.00 2.27
2241 2262 7.613551 AAATACGTCTAGATACATCCCCTTT 57.386 36.000 0.00 0.00 0.00 3.11
2242 2263 7.613551 AAAATACGTCTAGATACATCCCCTT 57.386 36.000 0.00 0.00 0.00 3.95
2243 2264 7.949006 ACTAAAATACGTCTAGATACATCCCCT 59.051 37.037 0.00 0.00 0.00 4.79
2244 2265 8.120140 ACTAAAATACGTCTAGATACATCCCC 57.880 38.462 0.00 0.00 0.00 4.81
2245 2266 9.623350 GAACTAAAATACGTCTAGATACATCCC 57.377 37.037 0.00 0.00 0.00 3.85
2277 2298 9.118300 GTCATCAAAATGGATAGAAAGAGATGT 57.882 33.333 0.00 0.00 33.42 3.06
2278 2299 9.117183 TGTCATCAAAATGGATAGAAAGAGATG 57.883 33.333 0.00 0.00 33.42 2.90
2279 2300 9.690913 TTGTCATCAAAATGGATAGAAAGAGAT 57.309 29.630 0.00 0.00 33.42 2.75
2280 2301 9.170734 CTTGTCATCAAAATGGATAGAAAGAGA 57.829 33.333 0.00 0.00 33.42 3.10
2281 2302 8.954350 ACTTGTCATCAAAATGGATAGAAAGAG 58.046 33.333 0.00 0.00 33.42 2.85
2282 2303 8.868522 ACTTGTCATCAAAATGGATAGAAAGA 57.131 30.769 0.00 0.00 33.42 2.52
2289 2310 7.975616 CCGAAAATACTTGTCATCAAAATGGAT 59.024 33.333 0.00 0.00 33.42 3.41
2290 2311 7.175816 TCCGAAAATACTTGTCATCAAAATGGA 59.824 33.333 0.00 0.00 33.42 3.41
2291 2312 7.273381 GTCCGAAAATACTTGTCATCAAAATGG 59.727 37.037 0.00 0.00 33.42 3.16
2292 2313 7.007367 CGTCCGAAAATACTTGTCATCAAAATG 59.993 37.037 0.00 0.00 32.87 2.32
2293 2314 7.021196 CGTCCGAAAATACTTGTCATCAAAAT 58.979 34.615 0.00 0.00 32.87 1.82
2294 2315 6.367421 CGTCCGAAAATACTTGTCATCAAAA 58.633 36.000 0.00 0.00 32.87 2.44
2295 2316 5.106869 CCGTCCGAAAATACTTGTCATCAAA 60.107 40.000 0.00 0.00 32.87 2.69
2296 2317 4.390603 CCGTCCGAAAATACTTGTCATCAA 59.609 41.667 0.00 0.00 0.00 2.57
2297 2318 3.930229 CCGTCCGAAAATACTTGTCATCA 59.070 43.478 0.00 0.00 0.00 3.07
2298 2319 4.178540 TCCGTCCGAAAATACTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
2299 2320 4.181578 CTCCGTCCGAAAATACTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
2300 2321 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
2301 2322 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
2302 2323 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
2303 2324 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
2304 2325 2.167900 CTCCCTCCGTCCGAAAATACTT 59.832 50.000 0.00 0.00 0.00 2.24
2305 2326 1.755380 CTCCCTCCGTCCGAAAATACT 59.245 52.381 0.00 0.00 0.00 2.12
2306 2327 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
2307 2328 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
2308 2329 1.856629 TACTCCCTCCGTCCGAAAAT 58.143 50.000 0.00 0.00 0.00 1.82
2309 2330 1.631405 TTACTCCCTCCGTCCGAAAA 58.369 50.000 0.00 0.00 0.00 2.29
2310 2331 1.856629 ATTACTCCCTCCGTCCGAAA 58.143 50.000 0.00 0.00 0.00 3.46
2311 2332 1.479323 CAATTACTCCCTCCGTCCGAA 59.521 52.381 0.00 0.00 0.00 4.30
2312 2333 1.108776 CAATTACTCCCTCCGTCCGA 58.891 55.000 0.00 0.00 0.00 4.55
2313 2334 0.822164 ACAATTACTCCCTCCGTCCG 59.178 55.000 0.00 0.00 0.00 4.79
2314 2335 1.553704 ACACAATTACTCCCTCCGTCC 59.446 52.381 0.00 0.00 0.00 4.79
2315 2336 3.429960 GGTACACAATTACTCCCTCCGTC 60.430 52.174 0.00 0.00 0.00 4.79
2316 2337 2.498885 GGTACACAATTACTCCCTCCGT 59.501 50.000 0.00 0.00 0.00 4.69
2317 2338 2.498481 TGGTACACAATTACTCCCTCCG 59.502 50.000 0.00 0.00 0.00 4.63
2318 2339 4.563140 TTGGTACACAATTACTCCCTCC 57.437 45.455 0.00 0.00 39.29 4.30
2319 2340 5.557866 ACTTTGGTACACAATTACTCCCTC 58.442 41.667 0.00 0.00 39.29 4.30
2320 2341 5.578157 ACTTTGGTACACAATTACTCCCT 57.422 39.130 0.00 0.00 39.29 4.20
2321 2342 5.048294 CCAACTTTGGTACACAATTACTCCC 60.048 44.000 0.00 0.00 43.43 4.30
2322 2343 6.009115 CCAACTTTGGTACACAATTACTCC 57.991 41.667 0.00 0.00 43.43 3.85
2607 2633 8.752766 TCTTTGATTTCAAATTCAGCATCTTC 57.247 30.769 6.21 0.00 43.92 2.87
2688 2717 9.016438 GTGAATAGACAATTAGTACCCCAAAAA 57.984 33.333 0.00 0.00 0.00 1.94
3244 3558 7.425023 GCAACATGTACAACAACAAAATTTGTC 59.575 33.333 12.11 0.00 44.59 3.18
3489 3894 3.267031 TCAGAAGGAAGGGAAAGGGAATC 59.733 47.826 0.00 0.00 0.00 2.52
3887 4848 5.892686 GTCCAGAAACCTATAGAGTACCTGT 59.107 44.000 0.00 0.00 0.00 4.00
4083 5044 5.925506 AAACAATCATCATGAATGCCTGA 57.074 34.783 2.32 0.00 30.64 3.86
4244 5205 1.153168 ACCTTTGCTGACACTGCGT 60.153 52.632 0.00 0.00 0.00 5.24
4430 5391 3.108144 CAACACTTTTCTTTGAGTGGCG 58.892 45.455 8.20 0.00 45.78 5.69
4537 5498 6.096423 AGCACATATTAACCGTAGAACTCTGA 59.904 38.462 0.00 0.00 0.00 3.27
4821 5782 5.247507 TGATCAAAACAAGACCACAAGTG 57.752 39.130 0.00 0.00 0.00 3.16
5018 5980 7.335422 ACTGATTGACTTCATCCACAATAGAAC 59.665 37.037 0.00 0.00 33.92 3.01
5139 6101 6.884832 TGGATTACTGTGTAAAGGTGGATAG 58.115 40.000 0.00 0.00 0.00 2.08
5163 6125 6.952938 TGAGCTGATAAGATAGATCCTCACAT 59.047 38.462 0.00 0.00 0.00 3.21
5221 6183 2.573462 AGCTATGTTCCTCCTGCTTCAA 59.427 45.455 0.00 0.00 0.00 2.69
5325 6287 0.954452 CCACCTCTTTGTGCACCTTC 59.046 55.000 15.69 0.00 34.85 3.46
5332 6294 2.566833 TCACCATCCACCTCTTTGTG 57.433 50.000 0.00 0.00 35.98 3.33
6088 7051 2.234896 TGTCCACCCTACCATAACGA 57.765 50.000 0.00 0.00 0.00 3.85
6234 7197 6.297010 GCCCCTTCCATGAATATTATCCTGTA 60.297 42.308 0.00 0.00 0.00 2.74
6390 7353 1.332375 GTCCAGGAGAGTTCGATCTCG 59.668 57.143 15.92 3.99 45.60 4.04
6682 7707 5.613329 AGGTTACACTAACAAAATGGACGA 58.387 37.500 0.00 0.00 40.39 4.20
6944 7972 3.756434 ACACATCAGTATTTTCCGGTTGG 59.244 43.478 0.00 0.00 0.00 3.77
6954 7982 3.549412 TGCGCCACACATCAGTATT 57.451 47.368 4.18 0.00 0.00 1.89
7384 8413 4.933330 TCTAGGCAGCTAATGTTACTTCG 58.067 43.478 0.00 0.00 0.00 3.79
7627 8703 1.522676 GCGACATGATATCACCACACG 59.477 52.381 7.78 10.63 0.00 4.49
7809 8891 8.193250 GCATCATTCTGCAAAAATAATTGTCT 57.807 30.769 0.00 0.00 41.87 3.41
7835 8917 5.513233 ACAGCCAGAATTCAAGGTATGATT 58.487 37.500 20.53 6.52 38.03 2.57


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

AutoCloner maintained by Alex Coulton.