Multiple sequence alignment - TraesCS4D01G161500

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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 TraesCS4D01G161500 chr4D 100.000 2447 0 0 1 2447 241310175 241312621 0.000000e+00 4519
1 TraesCS4D01G161500 chr4D 95.817 2271 76 5 1 2253 97360961 97363230 0.000000e+00 3650
2 TraesCS4D01G161500 chr4D 93.970 2272 117 6 1 2253 241247474 241249744 0.000000e+00 3419
3 TraesCS4D01G161500 chr4D 98.469 196 3 0 2252 2447 299897690 299897495 1.800000e-91 346
4 TraesCS4D01G161500 chr6D 96.612 2273 56 7 1 2253 430467642 430465371 0.000000e+00 3751
5 TraesCS4D01G161500 chr6D 95.314 1942 67 8 154 2076 370001600 369999664 0.000000e+00 3061
6 TraesCS4D01G161500 chr6D 93.017 1919 112 10 298 2206 183386761 183384855 0.000000e+00 2782
7 TraesCS4D01G161500 chr6D 98.969 194 2 0 2254 2447 114833901 114833708 5.010000e-92 348
8 TraesCS4D01G161500 chr5D 95.577 2261 90 6 1 2253 80104937 80102679 0.000000e+00 3613
9 TraesCS4D01G161500 chr5D 98.974 195 2 0 2253 2447 131039832 131040026 1.390000e-92 350
10 TraesCS4D01G161500 chr5D 98.477 197 3 0 2251 2447 227376240 227376044 5.010000e-92 348
11 TraesCS4D01G161500 chr1D 95.467 2272 83 6 1 2253 350976812 350979082 0.000000e+00 3607
12 TraesCS4D01G161500 chr1D 97.525 202 5 0 2244 2445 403818567 403818366 1.800000e-91 346
13 TraesCS4D01G161500 chr3D 97.034 1652 46 3 605 2253 202625719 202624068 0.000000e+00 2776
14 TraesCS4D01G161500 chr3D 96.002 1651 64 2 605 2253 498443593 498445243 0.000000e+00 2682
15 TraesCS4D01G161500 chr3D 97.044 203 6 0 2245 2447 49085250 49085048 2.330000e-90 342
16 TraesCS4D01G161500 chr1B 96.847 888 20 4 1 886 583548178 583549059 0.000000e+00 1478
17 TraesCS4D01G161500 chr1B 94.924 926 36 7 1 923 49787052 49786135 0.000000e+00 1439
18 TraesCS4D01G161500 chr7B 96.622 888 22 4 1 886 716797971 716797090 0.000000e+00 1467
19 TraesCS4D01G161500 chr5B 96.622 888 22 4 1 886 713115094 713114213 0.000000e+00 1467
20 TraesCS4D01G161500 chr5B 96.171 888 26 4 1 886 713093633 713094514 0.000000e+00 1445
21 TraesCS4D01G161500 chr5B 95.833 888 29 4 1 886 127821126 127820245 0.000000e+00 1428
22 TraesCS4D01G161500 chr6B 96.284 888 20 5 1 886 128892110 128891234 0.000000e+00 1445
23 TraesCS4D01G161500 chr2D 97.235 217 6 0 2037 2253 125389162 125388946 3.840000e-98 368
24 TraesCS4D01G161500 chr2D 98.974 195 2 0 2253 2447 72666948 72666754 1.390000e-92 350
25 TraesCS4D01G161500 chr2D 97.059 204 6 0 2244 2447 16638580 16638783 6.480000e-91 344
26 TraesCS4D01G161500 chr7D 95.775 213 5 3 2238 2447 477953439 477953650 8.380000e-90 340


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 TraesCS4D01G161500 chr4D 241310175 241312621 2446 False 4519 4519 100.000 1 2447 1 chr4D.!!$F3 2446
1 TraesCS4D01G161500 chr4D 97360961 97363230 2269 False 3650 3650 95.817 1 2253 1 chr4D.!!$F1 2252
2 TraesCS4D01G161500 chr4D 241247474 241249744 2270 False 3419 3419 93.970 1 2253 1 chr4D.!!$F2 2252
3 TraesCS4D01G161500 chr6D 430465371 430467642 2271 True 3751 3751 96.612 1 2253 1 chr6D.!!$R4 2252
4 TraesCS4D01G161500 chr6D 369999664 370001600 1936 True 3061 3061 95.314 154 2076 1 chr6D.!!$R3 1922
5 TraesCS4D01G161500 chr6D 183384855 183386761 1906 True 2782 2782 93.017 298 2206 1 chr6D.!!$R2 1908
6 TraesCS4D01G161500 chr5D 80102679 80104937 2258 True 3613 3613 95.577 1 2253 1 chr5D.!!$R1 2252
7 TraesCS4D01G161500 chr1D 350976812 350979082 2270 False 3607 3607 95.467 1 2253 1 chr1D.!!$F1 2252
8 TraesCS4D01G161500 chr3D 202624068 202625719 1651 True 2776 2776 97.034 605 2253 1 chr3D.!!$R2 1648
9 TraesCS4D01G161500 chr3D 498443593 498445243 1650 False 2682 2682 96.002 605 2253 1 chr3D.!!$F1 1648
10 TraesCS4D01G161500 chr1B 583548178 583549059 881 False 1478 1478 96.847 1 886 1 chr1B.!!$F1 885
11 TraesCS4D01G161500 chr1B 49786135 49787052 917 True 1439 1439 94.924 1 923 1 chr1B.!!$R1 922
12 TraesCS4D01G161500 chr7B 716797090 716797971 881 True 1467 1467 96.622 1 886 1 chr7B.!!$R1 885
13 TraesCS4D01G161500 chr5B 713114213 713115094 881 True 1467 1467 96.622 1 886 1 chr5B.!!$R2 885
14 TraesCS4D01G161500 chr5B 713093633 713094514 881 False 1445 1445 96.171 1 886 1 chr5B.!!$F1 885
15 TraesCS4D01G161500 chr5B 127820245 127821126 881 True 1428 1428 95.833 1 886 1 chr5B.!!$R1 885
16 TraesCS4D01G161500 chr6B 128891234 128892110 876 True 1445 1445 96.284 1 886 1 chr6B.!!$R1 885

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
226 227 1.000052 GAGGCTCGCTATAAGGGTCAC 60.000 57.143 0.0 0.0 0.0 3.67 F
364 365 1.131638 TTCCATTGCTCTATCCGGCT 58.868 50.000 0.0 0.0 0.0 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1273 1309 0.396435 TTCGAAGCTGCTCCAAGGAA 59.604 50.0 1.0 0.0 0.0 3.36 R
2318 2357 0.036388 GCTCCCCTTGTGTCGAATCA 60.036 55.0 0.0 0.0 0.0 2.57 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
120 121 3.718815 AGGAGTTCTTCACGTGAGAAAC 58.281 45.455 25.69 25.69 0.00 2.78
143 144 3.687698 TCCACGGCTTAGCTTAATTCAAC 59.312 43.478 3.59 0.00 0.00 3.18
226 227 1.000052 GAGGCTCGCTATAAGGGTCAC 60.000 57.143 0.00 0.00 0.00 3.67
282 283 6.633500 AATGATTGTAATATGACAACCCCG 57.367 37.500 7.85 0.00 41.93 5.73
364 365 1.131638 TTCCATTGCTCTATCCGGCT 58.868 50.000 0.00 0.00 0.00 5.52
383 384 1.449789 CTGCAAGATTCGATCGCGTAG 59.550 52.381 11.09 0.00 35.50 3.51
460 463 3.520721 GACCCCTAACTTACCTTTGCCTA 59.479 47.826 0.00 0.00 0.00 3.93
461 464 3.522343 ACCCCTAACTTACCTTTGCCTAG 59.478 47.826 0.00 0.00 0.00 3.02
491 494 3.716872 TGTAGAATCCATTCCCCCTCTTC 59.283 47.826 0.00 0.00 37.51 2.87
694 728 4.282703 GGCCTTACGTTCAGGATATCCTTA 59.717 45.833 22.29 11.84 46.09 2.69
886 920 4.142665 CGACGTCAAGATCAGTCTCCTTTA 60.143 45.833 17.16 0.00 32.15 1.85
936 971 1.749063 AGATGGACAGTAACGATCGCA 59.251 47.619 16.60 2.33 0.00 5.10
960 995 5.862924 AATATCAATTTATCGGCCTCGTG 57.137 39.130 0.00 0.00 37.69 4.35
990 1026 2.533266 GCTTCCAATTGCTCGGAAATG 58.467 47.619 0.00 0.00 40.71 2.32
993 1029 2.170166 TCCAATTGCTCGGAAATGCTT 58.830 42.857 0.00 0.00 0.00 3.91
1003 1039 5.171476 GCTCGGAAATGCTTAGCTATATGA 58.829 41.667 5.60 0.00 0.00 2.15
1020 1056 5.919348 ATATGAGGGACTTTGATGGTGAT 57.081 39.130 0.00 0.00 41.55 3.06
1129 1165 2.093973 CACCACCTAGCTCGAACTGAAT 60.094 50.000 0.00 0.00 0.00 2.57
1191 1227 1.382522 AGCCAATATGCGAAGTGGTG 58.617 50.000 6.48 0.00 36.02 4.17
1223 1259 6.647067 GGAGTCACAGGTACTATTTATGATGC 59.353 42.308 0.00 0.00 36.02 3.91
1289 1325 0.250901 TGGTTCCTTGGAGCAGCTTC 60.251 55.000 0.00 0.00 0.00 3.86
1290 1326 1.301677 GGTTCCTTGGAGCAGCTTCG 61.302 60.000 0.00 0.00 0.00 3.79
1310 1346 4.968626 TCGAAACGACGTATAAGCTACAA 58.031 39.130 0.00 0.00 34.70 2.41
1431 1468 1.225745 CAATCGGAGTTTCGCGCAC 60.226 57.895 8.75 0.00 0.00 5.34
1584 1622 4.790790 ACTCCCCCTTCATTCATAGAGTTT 59.209 41.667 0.00 0.00 29.31 2.66
1691 1729 3.449737 AGGTCGAATGAATACGAAAGGGA 59.550 43.478 0.00 0.00 40.12 4.20
1697 1735 5.175856 CGAATGAATACGAAAGGGAGATCAC 59.824 44.000 0.00 0.00 0.00 3.06
1793 1831 8.610369 AGAAATCTACTTCAAAGAGAGGGAAAT 58.390 33.333 0.00 0.00 0.00 2.17
1872 1910 1.510007 CACGCGCATACGTTTTCTTC 58.490 50.000 5.73 0.00 45.75 2.87
1887 1925 6.077838 CGTTTTCTTCTTGGGTAATTTCTCG 58.922 40.000 0.00 0.00 0.00 4.04
2059 2098 0.935898 CTGAGGCTGCATCAATCGAC 59.064 55.000 18.18 0.00 0.00 4.20
2090 2129 7.706607 CACGACATAAGGAATTGTTAGATCTCA 59.293 37.037 0.00 0.00 0.00 3.27
2166 2205 1.202818 GGCAAGCGATCCCCTATTCTT 60.203 52.381 0.00 0.00 0.00 2.52
2263 2302 5.957842 TCAATAGATTGTTGACAACCCAC 57.042 39.130 15.59 6.72 38.86 4.61
2264 2303 5.380900 TCAATAGATTGTTGACAACCCACA 58.619 37.500 15.59 0.00 38.86 4.17
2265 2304 5.830457 TCAATAGATTGTTGACAACCCACAA 59.170 36.000 15.59 4.44 38.86 3.33
2266 2305 5.964958 ATAGATTGTTGACAACCCACAAG 57.035 39.130 15.59 0.00 38.86 3.16
2267 2306 3.631250 AGATTGTTGACAACCCACAAGT 58.369 40.909 15.59 0.00 38.86 3.16
2268 2307 4.787551 AGATTGTTGACAACCCACAAGTA 58.212 39.130 15.59 0.00 38.86 2.24
2269 2308 5.385198 AGATTGTTGACAACCCACAAGTAT 58.615 37.500 15.59 0.00 38.86 2.12
2270 2309 6.539173 AGATTGTTGACAACCCACAAGTATA 58.461 36.000 15.59 0.00 38.86 1.47
2271 2310 6.655003 AGATTGTTGACAACCCACAAGTATAG 59.345 38.462 15.59 0.00 38.86 1.31
2272 2311 4.647611 TGTTGACAACCCACAAGTATAGG 58.352 43.478 15.59 0.00 0.00 2.57
2279 2318 1.002087 CCCACAAGTATAGGGGATCGC 59.998 57.143 0.06 0.06 43.57 4.58
2280 2319 1.691976 CCACAAGTATAGGGGATCGCA 59.308 52.381 12.32 0.00 0.00 5.10
2281 2320 2.104111 CCACAAGTATAGGGGATCGCAA 59.896 50.000 12.32 0.00 0.00 4.85
2282 2321 3.131396 CACAAGTATAGGGGATCGCAAC 58.869 50.000 12.32 4.19 0.00 4.17
2283 2322 2.769663 ACAAGTATAGGGGATCGCAACA 59.230 45.455 12.32 0.00 0.00 3.33
2284 2323 3.181465 ACAAGTATAGGGGATCGCAACAG 60.181 47.826 12.32 4.14 0.00 3.16
2285 2324 2.679082 AGTATAGGGGATCGCAACAGT 58.321 47.619 12.32 0.00 0.00 3.55
2286 2325 3.039011 AGTATAGGGGATCGCAACAGTT 58.961 45.455 12.32 0.00 0.00 3.16
2287 2326 3.454812 AGTATAGGGGATCGCAACAGTTT 59.545 43.478 12.32 0.00 0.00 2.66
2288 2327 2.871096 TAGGGGATCGCAACAGTTTT 57.129 45.000 12.32 0.00 0.00 2.43
2289 2328 1.534729 AGGGGATCGCAACAGTTTTC 58.465 50.000 12.32 0.00 0.00 2.29
2290 2329 0.168128 GGGGATCGCAACAGTTTTCG 59.832 55.000 12.32 0.00 0.00 3.46
2291 2330 1.153353 GGGATCGCAACAGTTTTCGA 58.847 50.000 4.64 9.18 35.34 3.71
2292 2331 1.128692 GGGATCGCAACAGTTTTCGAG 59.871 52.381 4.64 0.00 34.30 4.04
2293 2332 1.128692 GGATCGCAACAGTTTTCGAGG 59.871 52.381 11.65 0.00 34.30 4.63
2294 2333 1.128692 GATCGCAACAGTTTTCGAGGG 59.871 52.381 11.65 0.00 34.30 4.30
2295 2334 0.179067 TCGCAACAGTTTTCGAGGGT 60.179 50.000 3.87 0.00 0.00 4.34
2296 2335 1.068895 TCGCAACAGTTTTCGAGGGTA 59.931 47.619 3.87 0.00 0.00 3.69
2297 2336 1.459592 CGCAACAGTTTTCGAGGGTAG 59.540 52.381 0.00 0.00 0.00 3.18
2298 2337 2.762745 GCAACAGTTTTCGAGGGTAGA 58.237 47.619 0.00 0.00 0.00 2.59
2299 2338 2.737252 GCAACAGTTTTCGAGGGTAGAG 59.263 50.000 0.00 0.00 0.00 2.43
2300 2339 3.802675 GCAACAGTTTTCGAGGGTAGAGT 60.803 47.826 0.00 0.00 0.00 3.24
2301 2340 4.560108 GCAACAGTTTTCGAGGGTAGAGTA 60.560 45.833 0.00 0.00 0.00 2.59
2302 2341 5.721232 CAACAGTTTTCGAGGGTAGAGTAT 58.279 41.667 0.00 0.00 0.00 2.12
2303 2342 5.997384 ACAGTTTTCGAGGGTAGAGTATT 57.003 39.130 0.00 0.00 0.00 1.89
2304 2343 5.963594 ACAGTTTTCGAGGGTAGAGTATTC 58.036 41.667 0.00 0.00 0.00 1.75
2305 2344 5.479375 ACAGTTTTCGAGGGTAGAGTATTCA 59.521 40.000 0.00 0.00 0.00 2.57
2306 2345 6.014840 ACAGTTTTCGAGGGTAGAGTATTCAA 60.015 38.462 0.00 0.00 0.00 2.69
2307 2346 6.310711 CAGTTTTCGAGGGTAGAGTATTCAAC 59.689 42.308 0.00 0.00 0.00 3.18
2308 2347 4.996788 TTCGAGGGTAGAGTATTCAACC 57.003 45.455 0.00 0.00 0.00 3.77
2324 2363 9.801873 AGTATTCAACCCAAATTTATTGATTCG 57.198 29.630 10.73 0.00 31.45 3.34
2325 2364 9.796120 GTATTCAACCCAAATTTATTGATTCGA 57.204 29.630 10.73 0.00 31.45 3.71
2326 2365 8.702163 ATTCAACCCAAATTTATTGATTCGAC 57.298 30.769 10.73 0.00 31.45 4.20
2327 2366 7.220741 TCAACCCAAATTTATTGATTCGACA 57.779 32.000 7.33 0.00 0.00 4.35
2328 2367 7.087639 TCAACCCAAATTTATTGATTCGACAC 58.912 34.615 7.33 0.00 0.00 3.67
2329 2368 6.582677 ACCCAAATTTATTGATTCGACACA 57.417 33.333 0.00 0.00 0.00 3.72
2330 2369 6.987386 ACCCAAATTTATTGATTCGACACAA 58.013 32.000 6.03 6.03 0.00 3.33
2331 2370 7.090173 ACCCAAATTTATTGATTCGACACAAG 58.910 34.615 8.90 0.00 0.00 3.16
2332 2371 6.531240 CCCAAATTTATTGATTCGACACAAGG 59.469 38.462 8.90 3.91 0.00 3.61
2333 2372 6.531240 CCAAATTTATTGATTCGACACAAGGG 59.469 38.462 8.90 0.00 0.00 3.95
2334 2373 5.835113 ATTTATTGATTCGACACAAGGGG 57.165 39.130 8.90 0.00 0.00 4.79
2335 2374 4.561500 TTATTGATTCGACACAAGGGGA 57.438 40.909 8.90 0.00 0.00 4.81
2336 2375 2.472695 TTGATTCGACACAAGGGGAG 57.527 50.000 0.00 0.00 0.00 4.30
2337 2376 0.036388 TGATTCGACACAAGGGGAGC 60.036 55.000 0.00 0.00 0.00 4.70
2338 2377 0.744771 GATTCGACACAAGGGGAGCC 60.745 60.000 0.00 0.00 0.00 4.70
2339 2378 1.488705 ATTCGACACAAGGGGAGCCA 61.489 55.000 0.00 0.00 0.00 4.75
2340 2379 1.701031 TTCGACACAAGGGGAGCCAA 61.701 55.000 0.00 0.00 0.00 4.52
2341 2380 1.228124 CGACACAAGGGGAGCCAAA 60.228 57.895 0.00 0.00 0.00 3.28
2342 2381 1.237285 CGACACAAGGGGAGCCAAAG 61.237 60.000 0.00 0.00 0.00 2.77
2343 2382 0.110486 GACACAAGGGGAGCCAAAGA 59.890 55.000 0.00 0.00 0.00 2.52
2344 2383 0.555769 ACACAAGGGGAGCCAAAGAA 59.444 50.000 0.00 0.00 0.00 2.52
2345 2384 1.147817 ACACAAGGGGAGCCAAAGAAT 59.852 47.619 0.00 0.00 0.00 2.40
2346 2385 2.378547 ACACAAGGGGAGCCAAAGAATA 59.621 45.455 0.00 0.00 0.00 1.75
2347 2386 3.011708 ACACAAGGGGAGCCAAAGAATAT 59.988 43.478 0.00 0.00 0.00 1.28
2348 2387 4.026052 CACAAGGGGAGCCAAAGAATATT 58.974 43.478 0.00 0.00 0.00 1.28
2349 2388 4.098501 CACAAGGGGAGCCAAAGAATATTC 59.901 45.833 7.41 7.41 0.00 1.75
2350 2389 3.602205 AGGGGAGCCAAAGAATATTCC 57.398 47.619 11.92 0.00 0.00 3.01
2351 2390 2.177888 AGGGGAGCCAAAGAATATTCCC 59.822 50.000 11.92 4.15 42.85 3.97
2352 2391 2.091333 GGGGAGCCAAAGAATATTCCCA 60.091 50.000 11.92 0.00 44.88 4.37
2353 2392 3.629796 GGGGAGCCAAAGAATATTCCCAA 60.630 47.826 11.92 0.00 44.88 4.12
2354 2393 3.638627 GGGAGCCAAAGAATATTCCCAAG 59.361 47.826 11.92 0.83 43.04 3.61
2355 2394 4.281657 GGAGCCAAAGAATATTCCCAAGT 58.718 43.478 11.92 0.00 0.00 3.16
2356 2395 5.445964 GGAGCCAAAGAATATTCCCAAGTA 58.554 41.667 11.92 0.00 0.00 2.24
2357 2396 6.071320 GGAGCCAAAGAATATTCCCAAGTAT 58.929 40.000 11.92 0.00 0.00 2.12
2358 2397 6.551227 GGAGCCAAAGAATATTCCCAAGTATT 59.449 38.462 11.92 0.00 0.00 1.89
2359 2398 7.724061 GGAGCCAAAGAATATTCCCAAGTATTA 59.276 37.037 11.92 0.00 0.00 0.98
2360 2399 8.465273 AGCCAAAGAATATTCCCAAGTATTAC 57.535 34.615 11.92 0.00 0.00 1.89
2361 2400 7.505923 AGCCAAAGAATATTCCCAAGTATTACC 59.494 37.037 11.92 0.00 0.00 2.85
2362 2401 7.286775 GCCAAAGAATATTCCCAAGTATTACCA 59.713 37.037 11.92 0.00 0.00 3.25
2363 2402 8.850156 CCAAAGAATATTCCCAAGTATTACCAG 58.150 37.037 11.92 0.00 0.00 4.00
2364 2403 9.408648 CAAAGAATATTCCCAAGTATTACCAGT 57.591 33.333 11.92 0.00 0.00 4.00
2365 2404 9.990868 AAAGAATATTCCCAAGTATTACCAGTT 57.009 29.630 11.92 0.00 0.00 3.16
2366 2405 8.980481 AGAATATTCCCAAGTATTACCAGTTG 57.020 34.615 11.92 0.00 0.00 3.16
2367 2406 8.778059 AGAATATTCCCAAGTATTACCAGTTGA 58.222 33.333 11.92 0.00 31.64 3.18
2368 2407 8.980481 AATATTCCCAAGTATTACCAGTTGAG 57.020 34.615 0.00 0.00 31.64 3.02
2369 2408 5.836024 TTCCCAAGTATTACCAGTTGAGT 57.164 39.130 0.00 0.00 31.64 3.41
2370 2409 5.836024 TCCCAAGTATTACCAGTTGAGTT 57.164 39.130 0.00 0.00 31.64 3.01
2371 2410 5.556915 TCCCAAGTATTACCAGTTGAGTTG 58.443 41.667 0.00 0.00 31.64 3.16
2372 2411 5.072600 TCCCAAGTATTACCAGTTGAGTTGT 59.927 40.000 0.00 0.00 31.64 3.32
2373 2412 5.411669 CCCAAGTATTACCAGTTGAGTTGTC 59.588 44.000 0.00 0.00 31.64 3.18
2374 2413 5.995282 CCAAGTATTACCAGTTGAGTTGTCA 59.005 40.000 0.00 0.00 31.64 3.58
2375 2414 6.485313 CCAAGTATTACCAGTTGAGTTGTCAA 59.515 38.462 0.00 0.00 40.55 3.18
2376 2415 7.174946 CCAAGTATTACCAGTTGAGTTGTCAAT 59.825 37.037 0.00 0.00 44.58 2.57
2377 2416 8.567948 CAAGTATTACCAGTTGAGTTGTCAATT 58.432 33.333 0.00 0.00 44.58 2.32
2378 2417 8.324163 AGTATTACCAGTTGAGTTGTCAATTC 57.676 34.615 1.25 1.25 44.58 2.17
2379 2418 7.936847 AGTATTACCAGTTGAGTTGTCAATTCA 59.063 33.333 6.67 6.67 44.58 2.57
2380 2419 7.581213 ATTACCAGTTGAGTTGTCAATTCAA 57.419 32.000 16.95 16.95 44.58 2.69
2385 2424 4.992688 GTTGAGTTGTCAATTCAACCACA 58.007 39.130 29.81 8.46 46.35 4.17
2386 2425 4.630894 TGAGTTGTCAATTCAACCACAC 57.369 40.909 8.22 0.00 45.90 3.82
2387 2426 3.380004 TGAGTTGTCAATTCAACCACACC 59.620 43.478 8.22 0.00 45.90 4.16
2388 2427 3.631250 AGTTGTCAATTCAACCACACCT 58.369 40.909 6.44 0.00 45.90 4.00
2389 2428 3.381272 AGTTGTCAATTCAACCACACCTG 59.619 43.478 6.44 0.00 45.90 4.00
2390 2429 2.305928 TGTCAATTCAACCACACCTGG 58.694 47.619 0.00 0.00 44.26 4.45
2391 2430 2.092158 TGTCAATTCAACCACACCTGGA 60.092 45.455 0.00 0.00 40.55 3.86
2392 2431 3.157087 GTCAATTCAACCACACCTGGAT 58.843 45.455 0.00 0.00 40.55 3.41
2393 2432 4.202514 TGTCAATTCAACCACACCTGGATA 60.203 41.667 0.00 0.00 40.55 2.59
2394 2433 4.764823 GTCAATTCAACCACACCTGGATAA 59.235 41.667 0.00 0.00 40.55 1.75
2395 2434 4.764823 TCAATTCAACCACACCTGGATAAC 59.235 41.667 0.00 0.00 40.55 1.89
2396 2435 4.657814 ATTCAACCACACCTGGATAACT 57.342 40.909 0.00 0.00 40.55 2.24
2397 2436 4.447138 TTCAACCACACCTGGATAACTT 57.553 40.909 0.00 0.00 40.55 2.66
2398 2437 5.570205 TTCAACCACACCTGGATAACTTA 57.430 39.130 0.00 0.00 40.55 2.24
2399 2438 5.160607 TCAACCACACCTGGATAACTTAG 57.839 43.478 0.00 0.00 40.55 2.18
2400 2439 4.595781 TCAACCACACCTGGATAACTTAGT 59.404 41.667 0.00 0.00 40.55 2.24
2401 2440 5.781306 TCAACCACACCTGGATAACTTAGTA 59.219 40.000 0.00 0.00 40.55 1.82
2402 2441 6.442564 TCAACCACACCTGGATAACTTAGTAT 59.557 38.462 0.00 0.00 40.55 2.12
2403 2442 6.481434 ACCACACCTGGATAACTTAGTATC 57.519 41.667 0.00 0.00 40.55 2.24
2404 2443 6.203072 ACCACACCTGGATAACTTAGTATCT 58.797 40.000 0.00 0.00 40.55 1.98
2405 2444 6.098409 ACCACACCTGGATAACTTAGTATCTG 59.902 42.308 0.00 0.00 40.55 2.90
2406 2445 5.986135 CACACCTGGATAACTTAGTATCTGC 59.014 44.000 0.00 0.00 32.09 4.26
2407 2446 5.661312 ACACCTGGATAACTTAGTATCTGCA 59.339 40.000 0.00 0.00 32.09 4.41
2408 2447 6.183360 ACACCTGGATAACTTAGTATCTGCAG 60.183 42.308 7.63 7.63 32.09 4.41
2409 2448 5.221541 ACCTGGATAACTTAGTATCTGCAGC 60.222 44.000 9.47 0.00 32.09 5.25
2410 2449 5.221521 CCTGGATAACTTAGTATCTGCAGCA 60.222 44.000 9.47 0.00 32.09 4.41
2411 2450 6.233905 TGGATAACTTAGTATCTGCAGCAA 57.766 37.500 9.47 0.00 32.09 3.91
2412 2451 6.649155 TGGATAACTTAGTATCTGCAGCAAA 58.351 36.000 9.47 0.00 32.09 3.68
2413 2452 6.763135 TGGATAACTTAGTATCTGCAGCAAAG 59.237 38.462 9.47 9.85 32.09 2.77
2414 2453 6.763610 GGATAACTTAGTATCTGCAGCAAAGT 59.236 38.462 9.47 10.46 32.09 2.66
2415 2454 7.926555 GGATAACTTAGTATCTGCAGCAAAGTA 59.073 37.037 9.47 1.12 32.09 2.24
2416 2455 9.482627 GATAACTTAGTATCTGCAGCAAAGTAT 57.517 33.333 9.47 0.00 0.00 2.12
2417 2456 9.838339 ATAACTTAGTATCTGCAGCAAAGTATT 57.162 29.630 9.47 0.00 0.00 1.89
2418 2457 8.567285 AACTTAGTATCTGCAGCAAAGTATTT 57.433 30.769 9.47 0.00 40.26 1.40
2419 2458 9.667107 AACTTAGTATCTGCAGCAAAGTATTTA 57.333 29.630 9.47 0.00 35.03 1.40
2420 2459 9.319143 ACTTAGTATCTGCAGCAAAGTATTTAG 57.681 33.333 9.47 1.96 35.03 1.85
2421 2460 9.319143 CTTAGTATCTGCAGCAAAGTATTTAGT 57.681 33.333 9.47 0.00 35.03 2.24
2423 2462 8.879342 AGTATCTGCAGCAAAGTATTTAGTAG 57.121 34.615 9.47 0.00 35.03 2.57
2424 2463 6.610741 ATCTGCAGCAAAGTATTTAGTAGC 57.389 37.500 9.47 0.00 35.03 3.58
2425 2464 5.487433 TCTGCAGCAAAGTATTTAGTAGCA 58.513 37.500 9.47 0.00 35.03 3.49
2426 2465 5.937540 TCTGCAGCAAAGTATTTAGTAGCAA 59.062 36.000 9.47 0.00 35.03 3.91
2427 2466 6.429692 TCTGCAGCAAAGTATTTAGTAGCAAA 59.570 34.615 9.47 0.00 35.03 3.68
2428 2467 6.611381 TGCAGCAAAGTATTTAGTAGCAAAG 58.389 36.000 0.00 0.00 35.03 2.77
2429 2468 6.206634 TGCAGCAAAGTATTTAGTAGCAAAGT 59.793 34.615 0.00 0.00 35.03 2.66
2430 2469 7.389330 TGCAGCAAAGTATTTAGTAGCAAAGTA 59.611 33.333 0.00 0.00 35.03 2.24
2431 2470 8.234546 GCAGCAAAGTATTTAGTAGCAAAGTAA 58.765 33.333 0.00 0.00 35.03 2.24
2444 2483 8.644318 AGTAGCAAAGTAATATGGAAGTAACG 57.356 34.615 0.00 0.00 0.00 3.18
2445 2484 6.920569 AGCAAAGTAATATGGAAGTAACGG 57.079 37.500 0.00 0.00 0.00 4.44
2446 2485 6.412214 AGCAAAGTAATATGGAAGTAACGGT 58.588 36.000 0.00 0.00 0.00 4.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
120 121 3.531538 TGAATTAAGCTAAGCCGTGGAG 58.468 45.455 0.00 0.00 0.00 3.86
169 170 1.959042 AGAAACATATGGCGCTCCTG 58.041 50.000 7.64 2.67 0.00 3.86
226 227 3.706594 TCCTACCAATCCTGAACTAGCTG 59.293 47.826 0.00 0.00 0.00 4.24
282 283 0.107459 CACAAAGGCTAGCTCCCCTC 60.107 60.000 15.72 0.00 0.00 4.30
329 330 3.260475 TGGAATCACCGAGTTGTATGG 57.740 47.619 0.00 0.00 42.61 2.74
335 336 2.026822 AGAGCAATGGAATCACCGAGTT 60.027 45.455 0.00 0.00 42.61 3.01
364 365 1.064952 TCTACGCGATCGAATCTTGCA 59.935 47.619 21.57 0.00 39.41 4.08
383 384 1.875813 CCATCTCGTGCTCGTGCTC 60.876 63.158 11.19 6.24 40.48 4.26
447 450 5.241728 ACAAGAAAAGCTAGGCAAAGGTAAG 59.758 40.000 0.00 0.00 0.00 2.34
448 451 5.137551 ACAAGAAAAGCTAGGCAAAGGTAA 58.862 37.500 0.00 0.00 0.00 2.85
460 463 5.654209 GGGAATGGATTCTACAAGAAAAGCT 59.346 40.000 0.00 0.00 37.82 3.74
461 464 5.163509 GGGGAATGGATTCTACAAGAAAAGC 60.164 44.000 0.00 0.00 37.82 3.51
694 728 2.297701 ACCAAACATCGCAAAGACAGT 58.702 42.857 0.00 0.00 0.00 3.55
886 920 2.368875 TCTGCTCCCGAAAAGAGAAAGT 59.631 45.455 0.00 0.00 32.86 2.66
936 971 7.327975 TCACGAGGCCGATAAATTGATATTAT 58.672 34.615 0.00 0.00 39.50 1.28
960 995 2.444351 CAATTGGAAGCGCTTTCGATC 58.556 47.619 27.88 14.07 36.62 3.69
990 1026 6.102897 TCAAAGTCCCTCATATAGCTAAGC 57.897 41.667 0.00 0.00 0.00 3.09
993 1029 6.014242 CACCATCAAAGTCCCTCATATAGCTA 60.014 42.308 0.00 0.00 0.00 3.32
1020 1056 9.835389 ACCAATTTCTTGATCAATTCTTTTTGA 57.165 25.926 8.96 0.00 39.77 2.69
1104 1140 2.567615 AGTTCGAGCTAGGTGGTGAAAT 59.432 45.455 0.00 0.00 0.00 2.17
1112 1148 1.469940 CGCATTCAGTTCGAGCTAGGT 60.470 52.381 0.00 0.00 0.00 3.08
1129 1165 8.178964 GTCAACCATAAGTTTTATTACATCGCA 58.821 33.333 0.00 0.00 36.18 5.10
1191 1227 7.407393 AATAGTACCTGTGACTCCTACTTTC 57.593 40.000 0.00 0.00 0.00 2.62
1273 1309 0.396435 TTCGAAGCTGCTCCAAGGAA 59.604 50.000 1.00 0.00 0.00 3.36
1289 1325 5.023920 TCTTGTAGCTTATACGTCGTTTCG 58.976 41.667 1.78 0.00 0.00 3.46
1290 1326 8.552469 TTATCTTGTAGCTTATACGTCGTTTC 57.448 34.615 1.78 0.00 0.00 2.78
1431 1468 5.817816 GGTATCACTTTACCACCATCTGAAG 59.182 44.000 0.00 0.00 41.18 3.02
1503 1540 2.668144 AAAGGATCCGGGTCAAACAA 57.332 45.000 18.43 0.00 0.00 2.83
1548 1585 0.694444 GGGGAGTATGAGGAAGGCCA 60.694 60.000 5.01 0.00 36.29 5.36
1584 1622 0.620556 GGCCTCTTGTGGATTCCTCA 59.379 55.000 3.95 3.62 0.00 3.86
1691 1729 7.058525 TCATGGCTTATTGATTTGAGTGATCT 58.941 34.615 0.00 0.00 0.00 2.75
1697 1735 8.410912 TCTTCATTCATGGCTTATTGATTTGAG 58.589 33.333 0.00 0.00 0.00 3.02
1793 1831 4.806330 CTTGTTCTTTCGGACTAGCACTA 58.194 43.478 0.00 0.00 0.00 2.74
1872 1910 5.959618 AACTTTCCGAGAAATTACCCAAG 57.040 39.130 0.48 0.00 0.00 3.61
1887 1925 6.593770 AGGAATCAACAACACAAAAACTTTCC 59.406 34.615 0.00 0.00 0.00 3.13
2059 2098 6.583912 AACAATTCCTTATGTCGTGTATCG 57.416 37.500 0.00 0.00 41.41 2.92
2090 2129 3.949113 TGGTGAAGGCGAAGTTTAGTTTT 59.051 39.130 0.00 0.00 0.00 2.43
2166 2205 1.032794 CCGTCTGATCTTCGGGATGA 58.967 55.000 13.19 0.00 40.49 2.92
2253 2292 2.574369 CCCCTATACTTGTGGGTTGTCA 59.426 50.000 0.00 0.00 39.31 3.58
2254 2293 2.841881 TCCCCTATACTTGTGGGTTGTC 59.158 50.000 0.00 0.00 39.31 3.18
2255 2294 2.923908 TCCCCTATACTTGTGGGTTGT 58.076 47.619 0.00 0.00 39.31 3.32
2256 2295 3.494398 CGATCCCCTATACTTGTGGGTTG 60.494 52.174 0.00 0.00 39.31 3.77
2257 2296 2.704065 CGATCCCCTATACTTGTGGGTT 59.296 50.000 0.00 0.00 39.31 4.11
2258 2297 2.326428 CGATCCCCTATACTTGTGGGT 58.674 52.381 0.00 0.00 39.31 4.51
2259 2298 1.002087 GCGATCCCCTATACTTGTGGG 59.998 57.143 0.00 0.00 40.59 4.61
2260 2299 1.691976 TGCGATCCCCTATACTTGTGG 59.308 52.381 0.00 0.00 0.00 4.17
2261 2300 3.131396 GTTGCGATCCCCTATACTTGTG 58.869 50.000 0.00 0.00 0.00 3.33
2262 2301 2.769663 TGTTGCGATCCCCTATACTTGT 59.230 45.455 0.00 0.00 0.00 3.16
2263 2302 3.181465 ACTGTTGCGATCCCCTATACTTG 60.181 47.826 0.00 0.00 0.00 3.16
2264 2303 3.039011 ACTGTTGCGATCCCCTATACTT 58.961 45.455 0.00 0.00 0.00 2.24
2265 2304 2.679082 ACTGTTGCGATCCCCTATACT 58.321 47.619 0.00 0.00 0.00 2.12
2266 2305 3.470645 AACTGTTGCGATCCCCTATAC 57.529 47.619 0.00 0.00 0.00 1.47
2267 2306 4.448210 GAAAACTGTTGCGATCCCCTATA 58.552 43.478 0.00 0.00 0.00 1.31
2268 2307 3.279434 GAAAACTGTTGCGATCCCCTAT 58.721 45.455 0.00 0.00 0.00 2.57
2269 2308 2.706890 GAAAACTGTTGCGATCCCCTA 58.293 47.619 0.00 0.00 0.00 3.53
2270 2309 1.534729 GAAAACTGTTGCGATCCCCT 58.465 50.000 0.00 0.00 0.00 4.79
2271 2310 0.168128 CGAAAACTGTTGCGATCCCC 59.832 55.000 9.57 0.00 38.11 4.81
2272 2311 1.128692 CTCGAAAACTGTTGCGATCCC 59.871 52.381 15.79 0.00 43.94 3.85
2273 2312 1.128692 CCTCGAAAACTGTTGCGATCC 59.871 52.381 15.79 0.00 43.94 3.36
2274 2313 1.128692 CCCTCGAAAACTGTTGCGATC 59.871 52.381 15.79 3.49 43.94 3.69
2275 2314 1.156736 CCCTCGAAAACTGTTGCGAT 58.843 50.000 15.79 0.00 43.94 4.58
2276 2315 0.179067 ACCCTCGAAAACTGTTGCGA 60.179 50.000 14.99 14.99 42.74 5.10
2277 2316 1.459592 CTACCCTCGAAAACTGTTGCG 59.540 52.381 9.05 9.05 37.10 4.85
2278 2317 2.737252 CTCTACCCTCGAAAACTGTTGC 59.263 50.000 0.00 0.00 0.00 4.17
2279 2318 3.991367 ACTCTACCCTCGAAAACTGTTG 58.009 45.455 0.00 0.00 0.00 3.33
2280 2319 5.997384 ATACTCTACCCTCGAAAACTGTT 57.003 39.130 0.00 0.00 0.00 3.16
2281 2320 5.479375 TGAATACTCTACCCTCGAAAACTGT 59.521 40.000 0.00 0.00 0.00 3.55
2282 2321 5.962433 TGAATACTCTACCCTCGAAAACTG 58.038 41.667 0.00 0.00 0.00 3.16
2283 2322 6.396450 GTTGAATACTCTACCCTCGAAAACT 58.604 40.000 0.00 0.00 0.00 2.66
2284 2323 5.579904 GGTTGAATACTCTACCCTCGAAAAC 59.420 44.000 0.00 0.00 40.45 2.43
2285 2324 5.727434 GGTTGAATACTCTACCCTCGAAAA 58.273 41.667 0.00 0.00 40.45 2.29
2286 2325 5.334724 GGTTGAATACTCTACCCTCGAAA 57.665 43.478 0.00 0.00 40.45 3.46
2287 2326 4.996788 GGTTGAATACTCTACCCTCGAA 57.003 45.455 0.00 0.00 40.45 3.71
2298 2337 9.801873 CGAATCAATAAATTTGGGTTGAATACT 57.198 29.630 15.01 5.42 34.62 2.12
2299 2338 9.796120 TCGAATCAATAAATTTGGGTTGAATAC 57.204 29.630 15.01 10.41 34.62 1.89
2300 2339 9.796120 GTCGAATCAATAAATTTGGGTTGAATA 57.204 29.630 15.01 4.16 34.62 1.75
2301 2340 8.310382 TGTCGAATCAATAAATTTGGGTTGAAT 58.690 29.630 15.01 9.74 34.62 2.57
2302 2341 7.596995 GTGTCGAATCAATAAATTTGGGTTGAA 59.403 33.333 15.01 2.31 34.62 2.69
2303 2342 7.087639 GTGTCGAATCAATAAATTTGGGTTGA 58.912 34.615 14.00 14.00 35.33 3.18
2304 2343 6.865726 TGTGTCGAATCAATAAATTTGGGTTG 59.134 34.615 0.00 3.99 0.00 3.77
2305 2344 6.987386 TGTGTCGAATCAATAAATTTGGGTT 58.013 32.000 0.00 0.00 0.00 4.11
2306 2345 6.582677 TGTGTCGAATCAATAAATTTGGGT 57.417 33.333 0.00 0.00 0.00 4.51
2307 2346 6.531240 CCTTGTGTCGAATCAATAAATTTGGG 59.469 38.462 0.00 0.00 0.00 4.12
2308 2347 6.531240 CCCTTGTGTCGAATCAATAAATTTGG 59.469 38.462 0.00 1.78 0.00 3.28
2309 2348 6.531240 CCCCTTGTGTCGAATCAATAAATTTG 59.469 38.462 0.00 0.00 0.00 2.32
2310 2349 6.435904 TCCCCTTGTGTCGAATCAATAAATTT 59.564 34.615 0.00 0.00 0.00 1.82
2311 2350 5.949354 TCCCCTTGTGTCGAATCAATAAATT 59.051 36.000 4.42 0.00 0.00 1.82
2312 2351 5.505780 TCCCCTTGTGTCGAATCAATAAAT 58.494 37.500 4.42 0.00 0.00 1.40
2313 2352 4.912586 TCCCCTTGTGTCGAATCAATAAA 58.087 39.130 4.42 0.00 0.00 1.40
2314 2353 4.513442 CTCCCCTTGTGTCGAATCAATAA 58.487 43.478 4.42 0.00 0.00 1.40
2315 2354 3.681594 GCTCCCCTTGTGTCGAATCAATA 60.682 47.826 4.42 0.00 0.00 1.90
2316 2355 2.941415 GCTCCCCTTGTGTCGAATCAAT 60.941 50.000 4.42 0.00 0.00 2.57
2317 2356 1.610624 GCTCCCCTTGTGTCGAATCAA 60.611 52.381 0.00 0.00 0.00 2.57
2318 2357 0.036388 GCTCCCCTTGTGTCGAATCA 60.036 55.000 0.00 0.00 0.00 2.57
2319 2358 0.744771 GGCTCCCCTTGTGTCGAATC 60.745 60.000 0.00 0.00 0.00 2.52
2320 2359 1.299976 GGCTCCCCTTGTGTCGAAT 59.700 57.895 0.00 0.00 0.00 3.34
2321 2360 1.701031 TTGGCTCCCCTTGTGTCGAA 61.701 55.000 0.00 0.00 0.00 3.71
2322 2361 1.701031 TTTGGCTCCCCTTGTGTCGA 61.701 55.000 0.00 0.00 0.00 4.20
2323 2362 1.228124 TTTGGCTCCCCTTGTGTCG 60.228 57.895 0.00 0.00 0.00 4.35
2324 2363 0.110486 TCTTTGGCTCCCCTTGTGTC 59.890 55.000 0.00 0.00 0.00 3.67
2325 2364 0.555769 TTCTTTGGCTCCCCTTGTGT 59.444 50.000 0.00 0.00 0.00 3.72
2326 2365 1.928868 ATTCTTTGGCTCCCCTTGTG 58.071 50.000 0.00 0.00 0.00 3.33
2327 2366 4.281657 GAATATTCTTTGGCTCCCCTTGT 58.718 43.478 8.27 0.00 0.00 3.16
2328 2367 3.638627 GGAATATTCTTTGGCTCCCCTTG 59.361 47.826 14.95 0.00 0.00 3.61
2329 2368 3.374208 GGGAATATTCTTTGGCTCCCCTT 60.374 47.826 14.95 0.00 37.17 3.95
2330 2369 2.177888 GGGAATATTCTTTGGCTCCCCT 59.822 50.000 14.95 0.00 37.17 4.79
2331 2370 2.091333 TGGGAATATTCTTTGGCTCCCC 60.091 50.000 14.95 5.85 41.67 4.81
2332 2371 3.312736 TGGGAATATTCTTTGGCTCCC 57.687 47.619 14.95 6.65 42.53 4.30
2333 2372 4.281657 ACTTGGGAATATTCTTTGGCTCC 58.718 43.478 14.95 6.57 0.00 4.70
2334 2373 7.588497 AATACTTGGGAATATTCTTTGGCTC 57.412 36.000 14.95 0.00 0.00 4.70
2335 2374 7.505923 GGTAATACTTGGGAATATTCTTTGGCT 59.494 37.037 14.95 0.00 0.00 4.75
2336 2375 7.286775 TGGTAATACTTGGGAATATTCTTTGGC 59.713 37.037 14.95 0.00 0.00 4.52
2337 2376 8.760980 TGGTAATACTTGGGAATATTCTTTGG 57.239 34.615 14.95 6.48 0.00 3.28
2338 2377 9.408648 ACTGGTAATACTTGGGAATATTCTTTG 57.591 33.333 14.95 6.18 0.00 2.77
2339 2378 9.990868 AACTGGTAATACTTGGGAATATTCTTT 57.009 29.630 14.95 0.00 0.00 2.52
2340 2379 9.408648 CAACTGGTAATACTTGGGAATATTCTT 57.591 33.333 14.95 2.73 0.00 2.52
2341 2380 8.778059 TCAACTGGTAATACTTGGGAATATTCT 58.222 33.333 14.95 0.00 0.00 2.40
2342 2381 8.974060 TCAACTGGTAATACTTGGGAATATTC 57.026 34.615 6.93 6.93 0.00 1.75
2343 2382 8.557450 ACTCAACTGGTAATACTTGGGAATATT 58.443 33.333 0.00 0.00 0.00 1.28
2344 2383 8.102484 ACTCAACTGGTAATACTTGGGAATAT 57.898 34.615 0.00 0.00 0.00 1.28
2345 2384 7.504926 ACTCAACTGGTAATACTTGGGAATA 57.495 36.000 0.00 0.00 0.00 1.75
2346 2385 6.388619 ACTCAACTGGTAATACTTGGGAAT 57.611 37.500 0.00 0.00 0.00 3.01
2347 2386 5.836024 ACTCAACTGGTAATACTTGGGAA 57.164 39.130 0.00 0.00 0.00 3.97
2348 2387 5.072600 ACAACTCAACTGGTAATACTTGGGA 59.927 40.000 0.00 0.00 0.00 4.37
2349 2388 5.313712 ACAACTCAACTGGTAATACTTGGG 58.686 41.667 0.00 0.00 0.00 4.12
2350 2389 5.995282 TGACAACTCAACTGGTAATACTTGG 59.005 40.000 0.00 0.00 0.00 3.61
2351 2390 7.490962 TTGACAACTCAACTGGTAATACTTG 57.509 36.000 0.00 0.00 31.00 3.16
2352 2391 8.691661 AATTGACAACTCAACTGGTAATACTT 57.308 30.769 0.00 0.00 39.28 2.24
2353 2392 7.936847 TGAATTGACAACTCAACTGGTAATACT 59.063 33.333 0.00 0.00 39.28 2.12
2354 2393 8.094798 TGAATTGACAACTCAACTGGTAATAC 57.905 34.615 0.00 0.00 39.28 1.89
2355 2394 8.564574 GTTGAATTGACAACTCAACTGGTAATA 58.435 33.333 26.99 0.00 43.57 0.98
2356 2395 7.425606 GTTGAATTGACAACTCAACTGGTAAT 58.574 34.615 26.99 0.00 43.57 1.89
2357 2396 6.183360 GGTTGAATTGACAACTCAACTGGTAA 60.183 38.462 30.54 2.33 45.33 2.85
2358 2397 5.298276 GGTTGAATTGACAACTCAACTGGTA 59.702 40.000 30.54 2.98 45.33 3.25
2359 2398 4.097892 GGTTGAATTGACAACTCAACTGGT 59.902 41.667 30.54 0.00 45.33 4.00
2360 2399 4.097741 TGGTTGAATTGACAACTCAACTGG 59.902 41.667 30.54 0.00 45.33 4.00
2361 2400 5.036737 GTGGTTGAATTGACAACTCAACTG 58.963 41.667 30.54 0.00 45.33 3.16
2362 2401 4.704540 TGTGGTTGAATTGACAACTCAACT 59.295 37.500 30.54 0.00 45.33 3.16
2363 2402 4.798387 GTGTGGTTGAATTGACAACTCAAC 59.202 41.667 26.56 26.56 46.17 3.18
2364 2403 4.142271 GGTGTGGTTGAATTGACAACTCAA 60.142 41.667 7.94 7.94 46.17 3.02
2365 2404 3.380004 GGTGTGGTTGAATTGACAACTCA 59.620 43.478 9.21 0.00 46.17 3.41
2366 2405 3.632145 AGGTGTGGTTGAATTGACAACTC 59.368 43.478 9.21 0.00 46.17 3.01
2367 2406 3.381272 CAGGTGTGGTTGAATTGACAACT 59.619 43.478 9.21 0.00 46.17 3.16
2368 2407 3.490761 CCAGGTGTGGTTGAATTGACAAC 60.491 47.826 0.00 0.00 46.20 3.32
2369 2408 2.692557 CCAGGTGTGGTTGAATTGACAA 59.307 45.455 0.00 0.00 39.30 3.18
2370 2409 2.092158 TCCAGGTGTGGTTGAATTGACA 60.092 45.455 0.00 0.00 45.28 3.58
2371 2410 2.582052 TCCAGGTGTGGTTGAATTGAC 58.418 47.619 0.00 0.00 45.28 3.18
2372 2411 3.524095 ATCCAGGTGTGGTTGAATTGA 57.476 42.857 0.00 0.00 45.28 2.57
2373 2412 4.766891 AGTTATCCAGGTGTGGTTGAATTG 59.233 41.667 0.00 0.00 45.28 2.32
2374 2413 4.998051 AGTTATCCAGGTGTGGTTGAATT 58.002 39.130 0.00 0.00 45.28 2.17
2375 2414 4.657814 AGTTATCCAGGTGTGGTTGAAT 57.342 40.909 0.00 0.00 45.28 2.57
2376 2415 4.447138 AAGTTATCCAGGTGTGGTTGAA 57.553 40.909 0.00 0.00 45.28 2.69
2377 2416 4.595781 ACTAAGTTATCCAGGTGTGGTTGA 59.404 41.667 0.00 0.00 45.28 3.18
2378 2417 4.906618 ACTAAGTTATCCAGGTGTGGTTG 58.093 43.478 0.00 0.00 45.28 3.77
2379 2418 6.672657 AGATACTAAGTTATCCAGGTGTGGTT 59.327 38.462 0.00 0.00 45.28 3.67
2380 2419 6.098409 CAGATACTAAGTTATCCAGGTGTGGT 59.902 42.308 0.00 0.00 45.28 4.16
2381 2420 6.516718 CAGATACTAAGTTATCCAGGTGTGG 58.483 44.000 0.00 0.00 46.63 4.17
2382 2421 5.986135 GCAGATACTAAGTTATCCAGGTGTG 59.014 44.000 0.00 0.00 0.00 3.82
2383 2422 5.661312 TGCAGATACTAAGTTATCCAGGTGT 59.339 40.000 0.00 0.00 0.00 4.16
2384 2423 6.161855 TGCAGATACTAAGTTATCCAGGTG 57.838 41.667 0.00 0.00 0.00 4.00
2385 2424 5.221541 GCTGCAGATACTAAGTTATCCAGGT 60.222 44.000 20.43 0.00 0.00 4.00
2386 2425 5.221521 TGCTGCAGATACTAAGTTATCCAGG 60.222 44.000 20.43 0.00 0.00 4.45
2387 2426 5.847304 TGCTGCAGATACTAAGTTATCCAG 58.153 41.667 20.43 0.00 0.00 3.86
2388 2427 5.869649 TGCTGCAGATACTAAGTTATCCA 57.130 39.130 20.43 0.00 0.00 3.41
2389 2428 6.763610 ACTTTGCTGCAGATACTAAGTTATCC 59.236 38.462 20.43 0.00 0.00 2.59
2390 2429 7.778470 ACTTTGCTGCAGATACTAAGTTATC 57.222 36.000 20.43 0.00 0.00 1.75
2391 2430 9.838339 AATACTTTGCTGCAGATACTAAGTTAT 57.162 29.630 20.43 7.91 0.00 1.89
2392 2431 9.667107 AAATACTTTGCTGCAGATACTAAGTTA 57.333 29.630 20.43 7.94 0.00 2.24
2393 2432 8.567285 AAATACTTTGCTGCAGATACTAAGTT 57.433 30.769 20.43 6.88 0.00 2.66
2394 2433 9.319143 CTAAATACTTTGCTGCAGATACTAAGT 57.681 33.333 20.43 18.89 0.00 2.24
2395 2434 9.319143 ACTAAATACTTTGCTGCAGATACTAAG 57.681 33.333 20.43 14.24 0.00 2.18
2397 2436 9.967346 CTACTAAATACTTTGCTGCAGATACTA 57.033 33.333 20.43 0.00 0.00 1.82
2398 2437 7.439655 GCTACTAAATACTTTGCTGCAGATACT 59.560 37.037 20.43 0.00 0.00 2.12
2399 2438 7.224753 TGCTACTAAATACTTTGCTGCAGATAC 59.775 37.037 20.43 0.00 0.00 2.24
2400 2439 7.272244 TGCTACTAAATACTTTGCTGCAGATA 58.728 34.615 20.43 1.74 0.00 1.98
2401 2440 6.115446 TGCTACTAAATACTTTGCTGCAGAT 58.885 36.000 20.43 0.00 0.00 2.90
2402 2441 5.487433 TGCTACTAAATACTTTGCTGCAGA 58.513 37.500 20.43 0.00 0.00 4.26
2403 2442 5.801350 TGCTACTAAATACTTTGCTGCAG 57.199 39.130 10.11 10.11 0.00 4.41
2404 2443 6.206634 ACTTTGCTACTAAATACTTTGCTGCA 59.793 34.615 0.00 0.00 0.00 4.41
2405 2444 6.612306 ACTTTGCTACTAAATACTTTGCTGC 58.388 36.000 0.00 0.00 0.00 5.25
2418 2457 9.740239 CGTTACTTCCATATTACTTTGCTACTA 57.260 33.333 0.00 0.00 0.00 1.82
2419 2458 7.709613 CCGTTACTTCCATATTACTTTGCTACT 59.290 37.037 0.00 0.00 0.00 2.57
2420 2459 7.493645 ACCGTTACTTCCATATTACTTTGCTAC 59.506 37.037 0.00 0.00 0.00 3.58
2421 2460 7.558604 ACCGTTACTTCCATATTACTTTGCTA 58.441 34.615 0.00 0.00 0.00 3.49
2422 2461 6.412214 ACCGTTACTTCCATATTACTTTGCT 58.588 36.000 0.00 0.00 0.00 3.91
2423 2462 6.673154 ACCGTTACTTCCATATTACTTTGC 57.327 37.500 0.00 0.00 0.00 3.68


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

AutoCloner maintained by Alex Coulton.