Multiple sequence alignment - TraesCS5A01G187700

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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 TraesCS5A01G187700 chr5A 100.000 3439 0 0 1 3439 389168296 389164858 0.000000e+00 6351.0
1 TraesCS5A01G187700 chr5A 89.304 1150 104 13 1297 2432 389637057 389635913 0.000000e+00 1424.0
2 TraesCS5A01G187700 chr5A 95.973 298 12 0 1 298 12017098 12016801 5.160000e-133 484.0
3 TraesCS5A01G187700 chr5A 94.776 268 11 1 677 941 12016255 12015988 6.870000e-112 414.0
4 TraesCS5A01G187700 chr5A 95.628 183 7 1 497 679 12016710 12016529 3.360000e-75 292.0
5 TraesCS5A01G187700 chr5D 96.047 2226 40 16 487 2680 308625224 308627433 0.000000e+00 3579.0
6 TraesCS5A01G187700 chr5D 86.055 1427 150 31 1021 2432 308344564 308345956 0.000000e+00 1487.0
7 TraesCS5A01G187700 chr5D 92.867 757 48 5 2683 3439 308627466 308628216 0.000000e+00 1094.0
8 TraesCS5A01G187700 chr5D 91.286 482 13 7 487 942 217725769 217726247 6.260000e-177 630.0
9 TraesCS5A01G187700 chr5D 97.651 298 7 0 1 298 217725474 217725771 2.370000e-141 512.0
10 TraesCS5A01G187700 chr5D 97.651 298 7 0 1 298 308624929 308625226 2.370000e-141 512.0
11 TraesCS5A01G187700 chr5D 96.907 194 5 1 293 485 102865808 102866001 1.190000e-84 324.0
12 TraesCS5A01G187700 chr5B 97.649 1659 28 3 880 2532 353919915 353921568 0.000000e+00 2837.0
13 TraesCS5A01G187700 chr5B 85.875 1423 155 29 1022 2429 353043562 353044953 0.000000e+00 1472.0
14 TraesCS5A01G187700 chr5B 93.750 496 28 2 2684 3179 353922233 353922725 0.000000e+00 741.0
15 TraesCS5A01G187700 chr5B 95.987 299 10 2 1 298 353919357 353919654 5.160000e-133 484.0
16 TraesCS5A01G187700 chr5B 96.169 261 8 2 487 746 353919652 353919911 3.170000e-115 425.0
17 TraesCS5A01G187700 chr5B 83.125 480 51 18 487 941 507635707 507636181 8.880000e-111 411.0
18 TraesCS5A01G187700 chr5B 82.292 480 55 16 487 941 81555179 81554705 4.160000e-104 388.0
19 TraesCS5A01G187700 chr5B 88.704 301 28 3 1 297 507635410 507635708 2.520000e-96 363.0
20 TraesCS5A01G187700 chr5B 92.925 212 13 2 3228 3439 353922727 353922936 1.200000e-79 307.0
21 TraesCS5A01G187700 chr5B 87.137 241 25 3 1 237 81559730 81559492 5.660000e-68 268.0
22 TraesCS5A01G187700 chr7B 86.483 725 83 13 2684 3401 162991143 162990427 0.000000e+00 782.0
23 TraesCS5A01G187700 chr7B 91.935 62 5 0 2619 2680 162991247 162991186 1.700000e-13 87.9
24 TraesCS5A01G187700 chr3D 86.088 726 92 7 2683 3401 489529290 489528567 0.000000e+00 773.0
25 TraesCS5A01G187700 chr2A 84.044 727 106 9 2683 3401 129106751 129106027 0.000000e+00 691.0
26 TraesCS5A01G187700 chr2A 73.136 711 119 50 2735 3399 6132110 6131426 4.530000e-44 189.0
27 TraesCS5A01G187700 chr2A 72.574 711 123 50 2735 3399 6183156 6182472 2.120000e-37 167.0
28 TraesCS5A01G187700 chr2A 97.619 42 1 0 2687 2728 494951998 494951957 4.760000e-09 73.1
29 TraesCS5A01G187700 chr2D 84.680 594 76 10 2685 3269 585899652 585899065 2.300000e-161 579.0
30 TraesCS5A01G187700 chr2D 94.975 199 9 1 288 485 357008028 357008226 9.270000e-81 311.0
31 TraesCS5A01G187700 chr2D 78.873 213 38 4 3190 3401 43287655 43287861 1.660000e-28 137.0
32 TraesCS5A01G187700 chr6B 88.571 455 21 4 487 941 50068941 50068518 1.090000e-144 523.0
33 TraesCS5A01G187700 chr6B 96.656 299 8 2 1 298 50069236 50068939 2.380000e-136 496.0
34 TraesCS5A01G187700 chr2B 97.324 299 6 2 1 298 629976311 629976014 1.100000e-139 507.0
35 TraesCS5A01G187700 chr2B 81.726 591 102 4 2817 3401 714270977 714270387 3.990000e-134 488.0
36 TraesCS5A01G187700 chr2B 81.726 591 101 5 2817 3401 714327847 714327258 1.430000e-133 486.0
37 TraesCS5A01G187700 chr2B 96.935 261 6 2 487 746 629976016 629975757 1.470000e-118 436.0
38 TraesCS5A01G187700 chr1A 90.313 351 32 2 2685 3035 512857962 512858310 3.130000e-125 459.0
39 TraesCS5A01G187700 chr3A 80.249 481 60 18 487 941 712496007 712495536 2.560000e-86 329.0
40 TraesCS5A01G187700 chr3A 85.766 274 25 4 1 271 744571171 744571433 9.400000e-71 278.0
41 TraesCS5A01G187700 chr4D 97.354 189 5 0 297 485 138386159 138385971 4.280000e-84 322.0
42 TraesCS5A01G187700 chr4D 96.825 189 6 0 297 485 136503345 136503157 1.990000e-82 316.0
43 TraesCS5A01G187700 chr6D 96.825 189 6 0 297 485 49949393 49949581 1.990000e-82 316.0
44 TraesCS5A01G187700 chr1D 96.825 189 6 0 297 485 126667958 126668146 1.990000e-82 316.0
45 TraesCS5A01G187700 chr1D 96.825 189 6 0 297 485 175014208 175014020 1.990000e-82 316.0
46 TraesCS5A01G187700 chr1D 96.825 189 6 0 297 485 178527545 178527357 1.990000e-82 316.0
47 TraesCS5A01G187700 chr1D 96.825 189 6 0 297 485 246241654 246241466 1.990000e-82 316.0


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 TraesCS5A01G187700 chr5A 389164858 389168296 3438 True 6351.000000 6351 100.000000 1 3439 1 chr5A.!!$R1 3438
1 TraesCS5A01G187700 chr5A 389635913 389637057 1144 True 1424.000000 1424 89.304000 1297 2432 1 chr5A.!!$R2 1135
2 TraesCS5A01G187700 chr5A 12015988 12017098 1110 True 396.666667 484 95.459000 1 941 3 chr5A.!!$R3 940
3 TraesCS5A01G187700 chr5D 308624929 308628216 3287 False 1728.333333 3579 95.521667 1 3439 3 chr5D.!!$F4 3438
4 TraesCS5A01G187700 chr5D 308344564 308345956 1392 False 1487.000000 1487 86.055000 1021 2432 1 chr5D.!!$F2 1411
5 TraesCS5A01G187700 chr5D 217725474 217726247 773 False 571.000000 630 94.468500 1 942 2 chr5D.!!$F3 941
6 TraesCS5A01G187700 chr5B 353043562 353044953 1391 False 1472.000000 1472 85.875000 1022 2429 1 chr5B.!!$F1 1407
7 TraesCS5A01G187700 chr5B 353919357 353922936 3579 False 958.800000 2837 95.296000 1 3439 5 chr5B.!!$F2 3438
8 TraesCS5A01G187700 chr5B 507635410 507636181 771 False 387.000000 411 85.914500 1 941 2 chr5B.!!$F3 940
9 TraesCS5A01G187700 chr7B 162990427 162991247 820 True 434.950000 782 89.209000 2619 3401 2 chr7B.!!$R1 782
10 TraesCS5A01G187700 chr3D 489528567 489529290 723 True 773.000000 773 86.088000 2683 3401 1 chr3D.!!$R1 718
11 TraesCS5A01G187700 chr2A 129106027 129106751 724 True 691.000000 691 84.044000 2683 3401 1 chr2A.!!$R3 718
12 TraesCS5A01G187700 chr2D 585899065 585899652 587 True 579.000000 579 84.680000 2685 3269 1 chr2D.!!$R1 584
13 TraesCS5A01G187700 chr6B 50068518 50069236 718 True 509.500000 523 92.613500 1 941 2 chr6B.!!$R1 940
14 TraesCS5A01G187700 chr2B 714270387 714270977 590 True 488.000000 488 81.726000 2817 3401 1 chr2B.!!$R1 584
15 TraesCS5A01G187700 chr2B 714327258 714327847 589 True 486.000000 486 81.726000 2817 3401 1 chr2B.!!$R2 584
16 TraesCS5A01G187700 chr2B 629975757 629976311 554 True 471.500000 507 97.129500 1 746 2 chr2B.!!$R3 745

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
478 486 1.095228 AACTACATGATTGGCGGCCG 61.095 55.0 24.05 24.05 0.0 6.13 F
1018 1414 0.467384 CATGGGCGTCTCATCTCCTT 59.533 55.0 0.00 0.00 0.0 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1521 1935 0.472734 ACCAGCTCCAGGAACTCAGT 60.473 55.0 0.00 0.0 34.60 3.41 R
2729 3691 0.243907 CGATAGATCGGACGGCCATT 59.756 55.0 8.76 0.0 45.93 3.16 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
151 158 4.909305 CACAATTGAAAACAGCGTACGAAT 59.091 37.500 21.65 3.07 0.00 3.34
156 163 3.185594 TGAAAACAGCGTACGAATCAAGG 59.814 43.478 21.65 1.69 0.00 3.61
217 224 8.342634 GGCAAAGAAAATTTTAGGAAGAAAACC 58.657 33.333 2.75 0.00 31.35 3.27
304 312 7.752557 TTTTTGGAAACCAACGTTTGTATAC 57.247 32.000 5.33 0.00 43.82 1.47
305 313 6.446781 TTTGGAAACCAACGTTTGTATACA 57.553 33.333 5.33 0.08 43.82 2.29
306 314 5.421212 TGGAAACCAACGTTTGTATACAC 57.579 39.130 4.68 0.00 42.34 2.90
307 315 5.124645 TGGAAACCAACGTTTGTATACACT 58.875 37.500 4.68 0.00 42.34 3.55
308 316 5.589452 TGGAAACCAACGTTTGTATACACTT 59.411 36.000 4.68 0.00 42.34 3.16
309 317 6.095160 TGGAAACCAACGTTTGTATACACTTT 59.905 34.615 4.68 0.00 42.34 2.66
310 318 7.281774 TGGAAACCAACGTTTGTATACACTTTA 59.718 33.333 4.68 0.00 42.34 1.85
311 319 8.291740 GGAAACCAACGTTTGTATACACTTTAT 58.708 33.333 4.68 0.00 42.34 1.40
312 320 9.109533 GAAACCAACGTTTGTATACACTTTATG 57.890 33.333 4.68 2.93 42.34 1.90
313 321 6.604930 ACCAACGTTTGTATACACTTTATGC 58.395 36.000 4.68 0.00 0.00 3.14
314 322 6.205076 ACCAACGTTTGTATACACTTTATGCA 59.795 34.615 4.68 0.00 0.00 3.96
315 323 7.078851 CCAACGTTTGTATACACTTTATGCAA 58.921 34.615 4.68 0.00 0.00 4.08
316 324 7.270365 CCAACGTTTGTATACACTTTATGCAAG 59.730 37.037 4.68 0.00 38.64 4.01
317 325 7.661127 ACGTTTGTATACACTTTATGCAAGA 57.339 32.000 4.68 0.00 36.21 3.02
318 326 7.515643 ACGTTTGTATACACTTTATGCAAGAC 58.484 34.615 4.68 0.00 36.21 3.01
319 327 7.171848 ACGTTTGTATACACTTTATGCAAGACA 59.828 33.333 4.68 0.00 36.21 3.41
320 328 8.012809 CGTTTGTATACACTTTATGCAAGACAA 58.987 33.333 4.68 0.00 36.21 3.18
321 329 9.113876 GTTTGTATACACTTTATGCAAGACAAC 57.886 33.333 4.68 0.00 31.84 3.32
322 330 7.971183 TGTATACACTTTATGCAAGACAACA 57.029 32.000 0.08 0.00 36.21 3.33
323 331 8.028540 TGTATACACTTTATGCAAGACAACAG 57.971 34.615 0.08 0.00 36.21 3.16
324 332 7.659799 TGTATACACTTTATGCAAGACAACAGT 59.340 33.333 0.08 0.00 36.21 3.55
325 333 5.173774 ACACTTTATGCAAGACAACAGTG 57.826 39.130 0.00 0.00 38.60 3.66
326 334 4.881273 ACACTTTATGCAAGACAACAGTGA 59.119 37.500 13.30 0.00 37.21 3.41
327 335 5.356751 ACACTTTATGCAAGACAACAGTGAA 59.643 36.000 13.30 0.00 37.21 3.18
328 336 5.682862 CACTTTATGCAAGACAACAGTGAAC 59.317 40.000 0.00 0.00 36.46 3.18
329 337 5.590259 ACTTTATGCAAGACAACAGTGAACT 59.410 36.000 0.00 0.00 36.21 3.01
330 338 5.911280 CTTTATGCAAGACAACAGTGAACTG 59.089 40.000 8.91 8.91 41.31 3.16
331 339 7.486079 CTTTATGCAAGACAACAGTGAACTGC 61.486 42.308 10.36 0.00 40.13 4.40
332 340 9.738917 CTTTATGCAAGACAACAGTGAACTGCA 62.739 40.741 10.36 3.49 40.13 4.41
343 351 4.511527 CAGTGAACTGCAGGATGATAAGT 58.488 43.478 19.93 0.00 38.34 2.24
344 352 5.664457 CAGTGAACTGCAGGATGATAAGTA 58.336 41.667 19.93 0.00 38.34 2.24
345 353 6.108687 CAGTGAACTGCAGGATGATAAGTAA 58.891 40.000 19.93 0.00 38.34 2.24
346 354 6.257411 CAGTGAACTGCAGGATGATAAGTAAG 59.743 42.308 19.93 0.00 38.34 2.34
347 355 6.155221 AGTGAACTGCAGGATGATAAGTAAGA 59.845 38.462 19.93 0.00 39.69 2.10
348 356 6.818644 GTGAACTGCAGGATGATAAGTAAGAA 59.181 38.462 19.93 0.00 39.69 2.52
349 357 6.818644 TGAACTGCAGGATGATAAGTAAGAAC 59.181 38.462 19.93 0.00 39.69 3.01
350 358 5.675538 ACTGCAGGATGATAAGTAAGAACC 58.324 41.667 19.93 0.00 39.69 3.62
351 359 5.426833 ACTGCAGGATGATAAGTAAGAACCT 59.573 40.000 19.93 0.00 39.69 3.50
352 360 6.069963 ACTGCAGGATGATAAGTAAGAACCTT 60.070 38.462 19.93 0.00 39.69 3.50
353 361 6.115446 TGCAGGATGATAAGTAAGAACCTTG 58.885 40.000 0.00 0.00 39.69 3.61
354 362 6.116126 GCAGGATGATAAGTAAGAACCTTGT 58.884 40.000 0.00 0.00 39.69 3.16
355 363 7.093068 TGCAGGATGATAAGTAAGAACCTTGTA 60.093 37.037 0.00 0.00 39.69 2.41
356 364 7.439655 GCAGGATGATAAGTAAGAACCTTGTAG 59.560 40.741 0.00 0.00 39.69 2.74
357 365 7.439655 CAGGATGATAAGTAAGAACCTTGTAGC 59.560 40.741 0.00 0.00 39.69 3.58
358 366 6.706716 GGATGATAAGTAAGAACCTTGTAGCC 59.293 42.308 0.00 0.00 0.00 3.93
359 367 6.869206 TGATAAGTAAGAACCTTGTAGCCT 57.131 37.500 0.00 0.00 0.00 4.58
360 368 7.253905 TGATAAGTAAGAACCTTGTAGCCTT 57.746 36.000 0.00 0.00 0.00 4.35
361 369 7.328737 TGATAAGTAAGAACCTTGTAGCCTTC 58.671 38.462 0.00 0.00 0.00 3.46
362 370 5.827326 AAGTAAGAACCTTGTAGCCTTCT 57.173 39.130 0.00 0.00 0.00 2.85
363 371 5.827326 AGTAAGAACCTTGTAGCCTTCTT 57.173 39.130 0.00 0.00 36.95 2.52
364 372 6.189036 AGTAAGAACCTTGTAGCCTTCTTT 57.811 37.500 0.00 0.00 35.21 2.52
365 373 6.602278 AGTAAGAACCTTGTAGCCTTCTTTT 58.398 36.000 0.00 0.00 35.21 2.27
366 374 7.061054 AGTAAGAACCTTGTAGCCTTCTTTTT 58.939 34.615 0.00 0.00 35.21 1.94
367 375 8.215736 AGTAAGAACCTTGTAGCCTTCTTTTTA 58.784 33.333 0.00 0.00 35.21 1.52
368 376 6.879276 AGAACCTTGTAGCCTTCTTTTTAC 57.121 37.500 0.00 0.00 0.00 2.01
369 377 6.602278 AGAACCTTGTAGCCTTCTTTTTACT 58.398 36.000 0.00 0.00 0.00 2.24
370 378 6.486993 AGAACCTTGTAGCCTTCTTTTTACTG 59.513 38.462 0.00 0.00 0.00 2.74
371 379 5.691896 ACCTTGTAGCCTTCTTTTTACTGT 58.308 37.500 0.00 0.00 0.00 3.55
372 380 5.763698 ACCTTGTAGCCTTCTTTTTACTGTC 59.236 40.000 0.00 0.00 0.00 3.51
373 381 5.181433 CCTTGTAGCCTTCTTTTTACTGTCC 59.819 44.000 0.00 0.00 0.00 4.02
374 382 4.312443 TGTAGCCTTCTTTTTACTGTCCG 58.688 43.478 0.00 0.00 0.00 4.79
375 383 3.487120 AGCCTTCTTTTTACTGTCCGT 57.513 42.857 0.00 0.00 0.00 4.69
376 384 4.612264 AGCCTTCTTTTTACTGTCCGTA 57.388 40.909 0.00 0.00 0.00 4.02
377 385 4.964593 AGCCTTCTTTTTACTGTCCGTAA 58.035 39.130 0.00 0.00 36.34 3.18
378 386 5.557866 AGCCTTCTTTTTACTGTCCGTAAT 58.442 37.500 0.00 0.00 37.88 1.89
379 387 5.411669 AGCCTTCTTTTTACTGTCCGTAATG 59.588 40.000 0.00 0.00 37.88 1.90
380 388 5.410439 GCCTTCTTTTTACTGTCCGTAATGA 59.590 40.000 0.00 0.00 37.88 2.57
381 389 6.402226 GCCTTCTTTTTACTGTCCGTAATGAG 60.402 42.308 0.00 0.00 37.88 2.90
382 390 6.649557 CCTTCTTTTTACTGTCCGTAATGAGT 59.350 38.462 0.00 0.00 37.88 3.41
383 391 7.172703 CCTTCTTTTTACTGTCCGTAATGAGTT 59.827 37.037 0.00 0.00 37.88 3.01
384 392 7.416154 TCTTTTTACTGTCCGTAATGAGTTG 57.584 36.000 0.00 0.00 37.88 3.16
385 393 6.987992 TCTTTTTACTGTCCGTAATGAGTTGT 59.012 34.615 0.00 0.00 37.88 3.32
386 394 6.533819 TTTTACTGTCCGTAATGAGTTGTG 57.466 37.500 0.00 0.00 37.88 3.33
387 395 3.746045 ACTGTCCGTAATGAGTTGTGT 57.254 42.857 0.00 0.00 0.00 3.72
388 396 4.067972 ACTGTCCGTAATGAGTTGTGTT 57.932 40.909 0.00 0.00 0.00 3.32
389 397 5.204409 ACTGTCCGTAATGAGTTGTGTTA 57.796 39.130 0.00 0.00 0.00 2.41
390 398 5.227908 ACTGTCCGTAATGAGTTGTGTTAG 58.772 41.667 0.00 0.00 0.00 2.34
391 399 5.010314 ACTGTCCGTAATGAGTTGTGTTAGA 59.990 40.000 0.00 0.00 0.00 2.10
392 400 6.032956 TGTCCGTAATGAGTTGTGTTAGAT 57.967 37.500 0.00 0.00 0.00 1.98
393 401 5.867174 TGTCCGTAATGAGTTGTGTTAGATG 59.133 40.000 0.00 0.00 0.00 2.90
394 402 6.097356 GTCCGTAATGAGTTGTGTTAGATGA 58.903 40.000 0.00 0.00 0.00 2.92
395 403 6.034683 GTCCGTAATGAGTTGTGTTAGATGAC 59.965 42.308 0.00 0.00 0.00 3.06
396 404 5.867174 CCGTAATGAGTTGTGTTAGATGACA 59.133 40.000 0.00 0.00 0.00 3.58
397 405 6.367695 CCGTAATGAGTTGTGTTAGATGACAA 59.632 38.462 0.00 0.00 0.00 3.18
398 406 7.064609 CCGTAATGAGTTGTGTTAGATGACAAT 59.935 37.037 0.00 0.00 34.69 2.71
399 407 9.083080 CGTAATGAGTTGTGTTAGATGACAATA 57.917 33.333 0.00 0.00 34.69 1.90
402 410 9.896645 AATGAGTTGTGTTAGATGACAATATCT 57.103 29.630 0.00 0.00 40.39 1.98
403 411 8.707938 TGAGTTGTGTTAGATGACAATATCTG 57.292 34.615 0.00 0.00 37.91 2.90
404 412 8.531146 TGAGTTGTGTTAGATGACAATATCTGA 58.469 33.333 0.00 0.00 37.91 3.27
405 413 9.371136 GAGTTGTGTTAGATGACAATATCTGAA 57.629 33.333 0.00 0.00 37.91 3.02
406 414 9.896645 AGTTGTGTTAGATGACAATATCTGAAT 57.103 29.630 0.00 0.00 37.91 2.57
434 442 7.979444 TTTTCTTTTGTAGTGGATCCTGTAG 57.021 36.000 14.23 0.00 0.00 2.74
435 443 5.086104 TCTTTTGTAGTGGATCCTGTAGC 57.914 43.478 14.23 0.31 0.00 3.58
436 444 4.530553 TCTTTTGTAGTGGATCCTGTAGCA 59.469 41.667 14.23 3.04 0.00 3.49
437 445 4.471904 TTTGTAGTGGATCCTGTAGCAG 57.528 45.455 14.23 0.00 0.00 4.24
438 446 3.101643 TGTAGTGGATCCTGTAGCAGT 57.898 47.619 14.23 0.00 0.00 4.40
439 447 3.441101 TGTAGTGGATCCTGTAGCAGTT 58.559 45.455 14.23 0.00 0.00 3.16
440 448 3.838317 TGTAGTGGATCCTGTAGCAGTTT 59.162 43.478 14.23 0.00 0.00 2.66
441 449 5.020795 TGTAGTGGATCCTGTAGCAGTTTA 58.979 41.667 14.23 0.00 0.00 2.01
442 450 4.473477 AGTGGATCCTGTAGCAGTTTAC 57.527 45.455 14.23 0.00 0.00 2.01
443 451 4.097418 AGTGGATCCTGTAGCAGTTTACT 58.903 43.478 14.23 0.00 0.00 2.24
444 452 4.160626 AGTGGATCCTGTAGCAGTTTACTC 59.839 45.833 14.23 0.00 0.00 2.59
445 453 4.081642 GTGGATCCTGTAGCAGTTTACTCA 60.082 45.833 14.23 0.00 0.00 3.41
446 454 4.530553 TGGATCCTGTAGCAGTTTACTCAA 59.469 41.667 14.23 0.00 0.00 3.02
447 455 5.112686 GGATCCTGTAGCAGTTTACTCAAG 58.887 45.833 3.84 0.00 0.00 3.02
448 456 5.105310 GGATCCTGTAGCAGTTTACTCAAGA 60.105 44.000 3.84 0.00 0.00 3.02
449 457 6.407525 GGATCCTGTAGCAGTTTACTCAAGAT 60.408 42.308 3.84 0.00 0.00 2.40
450 458 6.360370 TCCTGTAGCAGTTTACTCAAGATT 57.640 37.500 0.00 0.00 0.00 2.40
451 459 7.476540 TCCTGTAGCAGTTTACTCAAGATTA 57.523 36.000 0.00 0.00 0.00 1.75
452 460 7.321153 TCCTGTAGCAGTTTACTCAAGATTAC 58.679 38.462 0.00 0.00 0.00 1.89
453 461 6.535508 CCTGTAGCAGTTTACTCAAGATTACC 59.464 42.308 0.00 0.00 0.00 2.85
454 462 7.241042 TGTAGCAGTTTACTCAAGATTACCT 57.759 36.000 0.00 0.00 0.00 3.08
455 463 7.321153 TGTAGCAGTTTACTCAAGATTACCTC 58.679 38.462 0.00 0.00 0.00 3.85
456 464 6.613153 AGCAGTTTACTCAAGATTACCTCT 57.387 37.500 0.00 0.00 34.96 3.69
457 465 6.635755 AGCAGTTTACTCAAGATTACCTCTC 58.364 40.000 0.00 0.00 31.03 3.20
458 466 6.211584 AGCAGTTTACTCAAGATTACCTCTCA 59.788 38.462 0.00 0.00 31.03 3.27
459 467 6.874134 GCAGTTTACTCAAGATTACCTCTCAA 59.126 38.462 0.00 0.00 31.03 3.02
460 468 7.387948 GCAGTTTACTCAAGATTACCTCTCAAA 59.612 37.037 0.00 0.00 31.03 2.69
461 469 8.713271 CAGTTTACTCAAGATTACCTCTCAAAC 58.287 37.037 0.00 0.00 31.03 2.93
462 470 8.652290 AGTTTACTCAAGATTACCTCTCAAACT 58.348 33.333 0.00 0.00 31.03 2.66
463 471 9.924650 GTTTACTCAAGATTACCTCTCAAACTA 57.075 33.333 0.00 0.00 31.03 2.24
464 472 9.924650 TTTACTCAAGATTACCTCTCAAACTAC 57.075 33.333 0.00 0.00 31.03 2.73
465 473 7.540474 ACTCAAGATTACCTCTCAAACTACA 57.460 36.000 0.00 0.00 31.03 2.74
466 474 8.140112 ACTCAAGATTACCTCTCAAACTACAT 57.860 34.615 0.00 0.00 31.03 2.29
467 475 8.037758 ACTCAAGATTACCTCTCAAACTACATG 58.962 37.037 0.00 0.00 31.03 3.21
468 476 8.134202 TCAAGATTACCTCTCAAACTACATGA 57.866 34.615 0.00 0.00 31.03 3.07
469 477 8.762645 TCAAGATTACCTCTCAAACTACATGAT 58.237 33.333 0.00 0.00 31.03 2.45
470 478 9.388506 CAAGATTACCTCTCAAACTACATGATT 57.611 33.333 0.00 0.00 31.03 2.57
471 479 8.954950 AGATTACCTCTCAAACTACATGATTG 57.045 34.615 0.00 0.00 0.00 2.67
472 480 7.989741 AGATTACCTCTCAAACTACATGATTGG 59.010 37.037 0.00 0.00 0.00 3.16
473 481 4.265073 ACCTCTCAAACTACATGATTGGC 58.735 43.478 0.00 0.00 0.00 4.52
474 482 3.310774 CCTCTCAAACTACATGATTGGCG 59.689 47.826 0.00 0.00 0.00 5.69
475 483 3.270027 TCTCAAACTACATGATTGGCGG 58.730 45.455 0.00 0.00 0.00 6.13
476 484 1.742831 TCAAACTACATGATTGGCGGC 59.257 47.619 0.00 0.00 0.00 6.53
477 485 1.102978 AAACTACATGATTGGCGGCC 58.897 50.000 13.32 13.32 0.00 6.13
478 486 1.095228 AACTACATGATTGGCGGCCG 61.095 55.000 24.05 24.05 0.00 6.13
479 487 2.203139 TACATGATTGGCGGCCGG 60.203 61.111 29.38 9.99 0.00 6.13
654 746 1.144691 TGGAACCATTGACCCTCACA 58.855 50.000 0.00 0.00 0.00 3.58
786 1182 3.064545 GCCTTTACATGTCTGTCTGCATC 59.935 47.826 0.00 0.00 36.79 3.91
828 1224 5.693961 TCTTCCATCCAGCTTATGCATTAA 58.306 37.500 3.54 0.00 42.74 1.40
931 1327 3.558411 GAGCACGAGCACGCCATC 61.558 66.667 7.77 0.00 45.49 3.51
975 1371 6.692486 TCTCATCTTCACTTGAAACTAGTCC 58.308 40.000 0.00 0.00 33.07 3.85
976 1372 5.470368 TCATCTTCACTTGAAACTAGTCCG 58.530 41.667 0.00 0.00 33.07 4.79
977 1373 3.650139 TCTTCACTTGAAACTAGTCCGC 58.350 45.455 0.00 0.00 33.07 5.54
1018 1414 0.467384 CATGGGCGTCTCATCTCCTT 59.533 55.000 0.00 0.00 0.00 3.36
1251 1662 2.712077 GCAATGACGCGGTTCTTTG 58.288 52.632 12.47 15.01 35.01 2.77
1746 2160 2.035442 GTGAAGGGCACGGAGAAGC 61.035 63.158 0.00 0.00 37.83 3.86
2454 2874 8.034215 CCTCCAGATGATAGTGATACTGAAATC 58.966 40.741 0.00 0.00 0.00 2.17
2468 2888 8.814931 TGATACTGAAATCCAATCATGGTTTTT 58.185 29.630 5.62 0.00 44.75 1.94
2554 3477 5.532406 TCAAGATTATGCAGAATGTTAGGGC 59.468 40.000 15.16 0.00 39.31 5.19
2712 3674 1.601903 CTTGCAACAAGAGCGGTGTTA 59.398 47.619 0.00 0.00 37.09 2.41
2729 3691 9.386010 AGCGGTGTTACAGAAATATTTATAACA 57.614 29.630 18.92 18.92 31.82 2.41
2768 3731 2.681778 CCAGCCAGTCGAGGACCT 60.682 66.667 0.00 0.00 32.18 3.85
2796 3759 1.804151 CAGCTACCTTGTTGCGCTTAA 59.196 47.619 9.73 0.00 39.09 1.85
2800 3763 0.109723 ACCTTGTTGCGCTTAAGGGA 59.890 50.000 28.52 5.75 44.10 4.20
2882 3845 2.946762 GCTCGCCGAAGTTGCTTT 59.053 55.556 0.00 0.00 0.00 3.51
2892 3855 2.739379 CGAAGTTGCTTTTCCTCCTCTC 59.261 50.000 0.00 0.00 0.00 3.20
3080 4045 6.147328 GCTTTCTACAACTCGGACTATGTTTT 59.853 38.462 0.00 0.00 0.00 2.43
3100 4072 4.561735 TTTACAAGACCCTTTTTGCGAG 57.438 40.909 0.00 0.00 0.00 5.03
3104 4076 3.636764 ACAAGACCCTTTTTGCGAGAAAT 59.363 39.130 0.00 0.00 0.00 2.17
3106 4078 5.476945 ACAAGACCCTTTTTGCGAGAAATAT 59.523 36.000 0.00 0.00 0.00 1.28
3183 4156 3.586470 TTTGAAACAAGACCCCTGCTA 57.414 42.857 0.00 0.00 0.00 3.49
3217 4192 4.764679 TCTTCACCACCGAATCATTTTG 57.235 40.909 0.00 0.00 0.00 2.44
3246 4221 3.802139 TCTGAAACTAGTCTTGTGTTGCG 59.198 43.478 0.00 0.00 0.00 4.85
3393 4369 3.195698 CGCCGGCTGAAAGGTAGC 61.196 66.667 26.68 0.00 40.41 3.58
3394 4370 2.046314 GCCGGCTGAAAGGTAGCA 60.046 61.111 22.15 0.00 42.88 3.49
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
58 59 4.775253 TGTCCCTGAAGTTCCAAAAACTTT 59.225 37.500 0.00 0.00 40.27 2.66
151 158 6.371548 CAGTCGTGAGGATTATTTTTCCTTGA 59.628 38.462 0.00 0.00 43.75 3.02
156 163 8.290325 AGTTTTCAGTCGTGAGGATTATTTTTC 58.710 33.333 0.00 0.00 32.98 2.29
298 306 7.659799 ACTGTTGTCTTGCATAAAGTGTATACA 59.340 33.333 0.08 0.08 37.18 2.29
299 307 7.957484 CACTGTTGTCTTGCATAAAGTGTATAC 59.043 37.037 0.00 0.00 37.18 1.47
300 308 7.875554 TCACTGTTGTCTTGCATAAAGTGTATA 59.124 33.333 0.00 0.00 37.18 1.47
301 309 6.710295 TCACTGTTGTCTTGCATAAAGTGTAT 59.290 34.615 0.00 0.00 37.18 2.29
302 310 6.052360 TCACTGTTGTCTTGCATAAAGTGTA 58.948 36.000 0.00 0.00 37.18 2.90
303 311 4.881273 TCACTGTTGTCTTGCATAAAGTGT 59.119 37.500 0.00 0.00 37.18 3.55
304 312 5.422666 TCACTGTTGTCTTGCATAAAGTG 57.577 39.130 0.00 0.00 37.18 3.16
305 313 5.590259 AGTTCACTGTTGTCTTGCATAAAGT 59.410 36.000 0.00 0.00 37.18 2.66
306 314 5.911280 CAGTTCACTGTTGTCTTGCATAAAG 59.089 40.000 0.00 0.00 39.09 1.85
307 315 5.733091 GCAGTTCACTGTTGTCTTGCATAAA 60.733 40.000 8.72 0.00 45.45 1.40
308 316 4.261155 GCAGTTCACTGTTGTCTTGCATAA 60.261 41.667 8.72 0.00 45.45 1.90
309 317 3.250762 GCAGTTCACTGTTGTCTTGCATA 59.749 43.478 8.72 0.00 45.45 3.14
310 318 2.033801 GCAGTTCACTGTTGTCTTGCAT 59.966 45.455 8.72 0.00 45.45 3.96
311 319 1.401552 GCAGTTCACTGTTGTCTTGCA 59.598 47.619 8.72 0.00 45.45 4.08
312 320 1.401552 TGCAGTTCACTGTTGTCTTGC 59.598 47.619 8.72 0.00 45.45 4.01
313 321 2.032550 CCTGCAGTTCACTGTTGTCTTG 59.967 50.000 13.81 0.00 45.45 3.02
314 322 2.092968 TCCTGCAGTTCACTGTTGTCTT 60.093 45.455 13.81 0.00 45.45 3.01
315 323 1.486310 TCCTGCAGTTCACTGTTGTCT 59.514 47.619 13.81 0.00 45.45 3.41
316 324 1.953559 TCCTGCAGTTCACTGTTGTC 58.046 50.000 13.81 0.00 45.45 3.18
317 325 2.158769 TCATCCTGCAGTTCACTGTTGT 60.159 45.455 13.81 0.00 45.45 3.32
318 326 2.497138 TCATCCTGCAGTTCACTGTTG 58.503 47.619 13.81 1.81 45.45 3.33
319 327 2.936919 TCATCCTGCAGTTCACTGTT 57.063 45.000 13.81 0.00 45.45 3.16
320 328 4.019860 ACTTATCATCCTGCAGTTCACTGT 60.020 41.667 13.81 0.00 45.45 3.55
321 329 4.511527 ACTTATCATCCTGCAGTTCACTG 58.488 43.478 13.81 2.31 46.40 3.66
322 330 4.833478 ACTTATCATCCTGCAGTTCACT 57.167 40.909 13.81 0.00 0.00 3.41
323 331 6.341316 TCTTACTTATCATCCTGCAGTTCAC 58.659 40.000 13.81 0.00 0.00 3.18
324 332 6.544928 TCTTACTTATCATCCTGCAGTTCA 57.455 37.500 13.81 0.00 0.00 3.18
325 333 6.258947 GGTTCTTACTTATCATCCTGCAGTTC 59.741 42.308 13.81 0.00 0.00 3.01
326 334 6.069963 AGGTTCTTACTTATCATCCTGCAGTT 60.070 38.462 13.81 0.00 0.00 3.16
327 335 5.426833 AGGTTCTTACTTATCATCCTGCAGT 59.573 40.000 13.81 0.00 0.00 4.40
328 336 5.923204 AGGTTCTTACTTATCATCCTGCAG 58.077 41.667 6.78 6.78 0.00 4.41
329 337 5.957771 AGGTTCTTACTTATCATCCTGCA 57.042 39.130 0.00 0.00 0.00 4.41
330 338 6.116126 ACAAGGTTCTTACTTATCATCCTGC 58.884 40.000 0.00 0.00 0.00 4.85
331 339 7.439655 GCTACAAGGTTCTTACTTATCATCCTG 59.560 40.741 0.00 0.00 0.00 3.86
332 340 7.419172 GGCTACAAGGTTCTTACTTATCATCCT 60.419 40.741 0.00 0.00 0.00 3.24
333 341 6.706716 GGCTACAAGGTTCTTACTTATCATCC 59.293 42.308 0.00 0.00 0.00 3.51
334 342 7.501844 AGGCTACAAGGTTCTTACTTATCATC 58.498 38.462 0.00 0.00 0.00 2.92
335 343 7.439108 AGGCTACAAGGTTCTTACTTATCAT 57.561 36.000 0.00 0.00 0.00 2.45
336 344 6.869206 AGGCTACAAGGTTCTTACTTATCA 57.131 37.500 0.00 0.00 0.00 2.15
337 345 7.557724 AGAAGGCTACAAGGTTCTTACTTATC 58.442 38.462 0.00 0.00 0.00 1.75
338 346 7.497773 AGAAGGCTACAAGGTTCTTACTTAT 57.502 36.000 0.00 0.00 0.00 1.73
339 347 6.930068 AGAAGGCTACAAGGTTCTTACTTA 57.070 37.500 0.00 0.00 0.00 2.24
340 348 5.827326 AGAAGGCTACAAGGTTCTTACTT 57.173 39.130 0.00 0.00 0.00 2.24
341 349 5.827326 AAGAAGGCTACAAGGTTCTTACT 57.173 39.130 0.00 0.00 37.46 2.24
342 350 6.879276 AAAAGAAGGCTACAAGGTTCTTAC 57.121 37.500 0.00 0.00 38.10 2.34
343 351 8.215736 AGTAAAAAGAAGGCTACAAGGTTCTTA 58.784 33.333 0.00 0.00 38.10 2.10
344 352 7.013369 CAGTAAAAAGAAGGCTACAAGGTTCTT 59.987 37.037 0.00 0.00 40.23 2.52
345 353 6.486993 CAGTAAAAAGAAGGCTACAAGGTTCT 59.513 38.462 0.00 0.00 0.00 3.01
346 354 6.262496 ACAGTAAAAAGAAGGCTACAAGGTTC 59.738 38.462 0.00 0.00 0.00 3.62
347 355 6.127101 ACAGTAAAAAGAAGGCTACAAGGTT 58.873 36.000 0.00 0.00 0.00 3.50
348 356 5.691896 ACAGTAAAAAGAAGGCTACAAGGT 58.308 37.500 0.00 0.00 0.00 3.50
349 357 5.181433 GGACAGTAAAAAGAAGGCTACAAGG 59.819 44.000 0.00 0.00 0.00 3.61
350 358 5.107065 CGGACAGTAAAAAGAAGGCTACAAG 60.107 44.000 0.00 0.00 0.00 3.16
351 359 4.753107 CGGACAGTAAAAAGAAGGCTACAA 59.247 41.667 0.00 0.00 0.00 2.41
352 360 4.202284 ACGGACAGTAAAAAGAAGGCTACA 60.202 41.667 0.00 0.00 0.00 2.74
353 361 4.313282 ACGGACAGTAAAAAGAAGGCTAC 58.687 43.478 0.00 0.00 0.00 3.58
354 362 4.612264 ACGGACAGTAAAAAGAAGGCTA 57.388 40.909 0.00 0.00 0.00 3.93
355 363 3.487120 ACGGACAGTAAAAAGAAGGCT 57.513 42.857 0.00 0.00 0.00 4.58
366 374 4.859304 ACACAACTCATTACGGACAGTA 57.141 40.909 0.00 0.00 0.00 2.74
367 375 3.746045 ACACAACTCATTACGGACAGT 57.254 42.857 0.00 0.00 0.00 3.55
368 376 5.466819 TCTAACACAACTCATTACGGACAG 58.533 41.667 0.00 0.00 0.00 3.51
369 377 5.456548 TCTAACACAACTCATTACGGACA 57.543 39.130 0.00 0.00 0.00 4.02
370 378 6.034683 GTCATCTAACACAACTCATTACGGAC 59.965 42.308 0.00 0.00 0.00 4.79
371 379 6.097356 GTCATCTAACACAACTCATTACGGA 58.903 40.000 0.00 0.00 0.00 4.69
372 380 5.867174 TGTCATCTAACACAACTCATTACGG 59.133 40.000 0.00 0.00 0.00 4.02
373 381 6.944557 TGTCATCTAACACAACTCATTACG 57.055 37.500 0.00 0.00 0.00 3.18
376 384 9.896645 AGATATTGTCATCTAACACAACTCATT 57.103 29.630 0.00 0.00 35.37 2.57
377 385 9.322773 CAGATATTGTCATCTAACACAACTCAT 57.677 33.333 0.00 0.00 35.37 2.90
378 386 8.531146 TCAGATATTGTCATCTAACACAACTCA 58.469 33.333 0.00 0.00 35.37 3.41
379 387 8.932945 TCAGATATTGTCATCTAACACAACTC 57.067 34.615 0.00 0.00 35.37 3.01
380 388 9.896645 ATTCAGATATTGTCATCTAACACAACT 57.103 29.630 0.00 0.00 35.37 3.16
409 417 7.040686 GCTACAGGATCCACTACAAAAGAAAAA 60.041 37.037 15.82 0.00 0.00 1.94
410 418 6.430000 GCTACAGGATCCACTACAAAAGAAAA 59.570 38.462 15.82 0.00 0.00 2.29
411 419 5.938125 GCTACAGGATCCACTACAAAAGAAA 59.062 40.000 15.82 0.00 0.00 2.52
412 420 5.012664 TGCTACAGGATCCACTACAAAAGAA 59.987 40.000 15.82 0.00 0.00 2.52
413 421 4.530553 TGCTACAGGATCCACTACAAAAGA 59.469 41.667 15.82 0.00 0.00 2.52
414 422 4.832248 TGCTACAGGATCCACTACAAAAG 58.168 43.478 15.82 0.86 0.00 2.27
415 423 4.286032 ACTGCTACAGGATCCACTACAAAA 59.714 41.667 15.82 0.00 35.51 2.44
416 424 3.838317 ACTGCTACAGGATCCACTACAAA 59.162 43.478 15.82 0.00 35.51 2.83
417 425 3.441101 ACTGCTACAGGATCCACTACAA 58.559 45.455 15.82 0.00 35.51 2.41
418 426 3.101643 ACTGCTACAGGATCCACTACA 57.898 47.619 15.82 4.47 35.51 2.74
419 427 4.473477 AAACTGCTACAGGATCCACTAC 57.527 45.455 15.82 0.00 35.51 2.73
420 428 5.269991 AGTAAACTGCTACAGGATCCACTA 58.730 41.667 15.82 1.19 35.51 2.74
421 429 4.097418 AGTAAACTGCTACAGGATCCACT 58.903 43.478 15.82 0.47 35.51 4.00
422 430 4.081642 TGAGTAAACTGCTACAGGATCCAC 60.082 45.833 15.82 0.00 35.51 4.02
423 431 4.093743 TGAGTAAACTGCTACAGGATCCA 58.906 43.478 15.82 0.00 35.51 3.41
424 432 4.737855 TGAGTAAACTGCTACAGGATCC 57.262 45.455 2.48 2.48 35.51 3.36
425 433 5.967088 TCTTGAGTAAACTGCTACAGGATC 58.033 41.667 0.00 0.00 35.51 3.36
426 434 6.552445 ATCTTGAGTAAACTGCTACAGGAT 57.448 37.500 0.00 0.00 35.51 3.24
427 435 6.360370 AATCTTGAGTAAACTGCTACAGGA 57.640 37.500 0.00 0.00 35.51 3.86
428 436 6.535508 GGTAATCTTGAGTAAACTGCTACAGG 59.464 42.308 0.00 0.00 35.51 4.00
429 437 7.324178 AGGTAATCTTGAGTAAACTGCTACAG 58.676 38.462 0.00 0.00 37.52 2.74
430 438 7.178628 AGAGGTAATCTTGAGTAAACTGCTACA 59.821 37.037 0.00 0.00 32.99 2.74
431 439 7.548967 AGAGGTAATCTTGAGTAAACTGCTAC 58.451 38.462 0.00 0.00 32.99 3.58
432 440 7.396339 TGAGAGGTAATCTTGAGTAAACTGCTA 59.604 37.037 0.00 0.00 38.84 3.49
433 441 6.211584 TGAGAGGTAATCTTGAGTAAACTGCT 59.788 38.462 0.00 0.00 38.84 4.24
434 442 6.398918 TGAGAGGTAATCTTGAGTAAACTGC 58.601 40.000 0.00 0.00 38.84 4.40
435 443 8.713271 GTTTGAGAGGTAATCTTGAGTAAACTG 58.287 37.037 0.00 0.00 38.84 3.16
436 444 8.652290 AGTTTGAGAGGTAATCTTGAGTAAACT 58.348 33.333 0.00 0.00 38.84 2.66
437 445 8.834749 AGTTTGAGAGGTAATCTTGAGTAAAC 57.165 34.615 0.00 0.00 38.84 2.01
438 446 9.924650 GTAGTTTGAGAGGTAATCTTGAGTAAA 57.075 33.333 0.00 0.00 38.84 2.01
439 447 9.085645 TGTAGTTTGAGAGGTAATCTTGAGTAA 57.914 33.333 0.00 0.00 38.84 2.24
440 448 8.645814 TGTAGTTTGAGAGGTAATCTTGAGTA 57.354 34.615 0.00 0.00 38.84 2.59
441 449 7.540474 TGTAGTTTGAGAGGTAATCTTGAGT 57.460 36.000 0.00 0.00 38.84 3.41
442 450 8.253810 TCATGTAGTTTGAGAGGTAATCTTGAG 58.746 37.037 0.00 0.00 38.84 3.02
443 451 8.134202 TCATGTAGTTTGAGAGGTAATCTTGA 57.866 34.615 0.00 0.00 38.84 3.02
444 452 8.954950 ATCATGTAGTTTGAGAGGTAATCTTG 57.045 34.615 0.00 0.00 38.84 3.02
445 453 9.388506 CAATCATGTAGTTTGAGAGGTAATCTT 57.611 33.333 0.00 0.00 38.84 2.40
446 454 7.989741 CCAATCATGTAGTTTGAGAGGTAATCT 59.010 37.037 0.00 0.00 42.61 2.40
447 455 7.254932 GCCAATCATGTAGTTTGAGAGGTAATC 60.255 40.741 0.00 0.00 0.00 1.75
448 456 6.543831 GCCAATCATGTAGTTTGAGAGGTAAT 59.456 38.462 0.00 0.00 0.00 1.89
449 457 5.880332 GCCAATCATGTAGTTTGAGAGGTAA 59.120 40.000 0.00 0.00 0.00 2.85
450 458 5.428253 GCCAATCATGTAGTTTGAGAGGTA 58.572 41.667 0.00 0.00 0.00 3.08
451 459 4.265073 GCCAATCATGTAGTTTGAGAGGT 58.735 43.478 0.00 0.00 0.00 3.85
452 460 3.310774 CGCCAATCATGTAGTTTGAGAGG 59.689 47.826 0.00 0.00 0.00 3.69
453 461 3.310774 CCGCCAATCATGTAGTTTGAGAG 59.689 47.826 0.00 0.00 0.00 3.20
454 462 3.270027 CCGCCAATCATGTAGTTTGAGA 58.730 45.455 0.00 0.00 0.00 3.27
455 463 2.223340 GCCGCCAATCATGTAGTTTGAG 60.223 50.000 0.00 0.00 0.00 3.02
456 464 1.742831 GCCGCCAATCATGTAGTTTGA 59.257 47.619 0.00 0.00 0.00 2.69
457 465 1.202290 GGCCGCCAATCATGTAGTTTG 60.202 52.381 3.91 0.00 0.00 2.93
458 466 1.102978 GGCCGCCAATCATGTAGTTT 58.897 50.000 3.91 0.00 0.00 2.66
459 467 1.095228 CGGCCGCCAATCATGTAGTT 61.095 55.000 14.67 0.00 0.00 2.24
460 468 1.523711 CGGCCGCCAATCATGTAGT 60.524 57.895 14.67 0.00 0.00 2.73
461 469 2.253758 CCGGCCGCCAATCATGTAG 61.254 63.158 22.85 0.00 0.00 2.74
462 470 2.203139 CCGGCCGCCAATCATGTA 60.203 61.111 22.85 0.00 0.00 2.29
473 481 3.976701 AAGAACAGATGGCCGGCCG 62.977 63.158 39.00 27.17 39.42 6.13
474 482 2.044946 AAGAACAGATGGCCGGCC 60.045 61.111 39.40 39.40 0.00 6.13
475 483 1.244019 AACAAGAACAGATGGCCGGC 61.244 55.000 21.18 21.18 0.00 6.13
476 484 1.247567 AAACAAGAACAGATGGCCGG 58.752 50.000 0.00 0.00 0.00 6.13
477 485 3.074412 ACTAAACAAGAACAGATGGCCG 58.926 45.455 0.00 0.00 0.00 6.13
478 486 6.569179 TTTACTAAACAAGAACAGATGGCC 57.431 37.500 0.00 0.00 0.00 5.36
479 487 9.556030 GTATTTTACTAAACAAGAACAGATGGC 57.444 33.333 0.00 0.00 0.00 4.40
483 491 8.492748 CGCTGTATTTTACTAAACAAGAACAGA 58.507 33.333 0.00 0.00 34.05 3.41
484 492 8.280497 ACGCTGTATTTTACTAAACAAGAACAG 58.720 33.333 0.00 0.00 35.02 3.16
485 493 8.145316 ACGCTGTATTTTACTAAACAAGAACA 57.855 30.769 0.00 0.00 0.00 3.18
486 494 8.889000 CAACGCTGTATTTTACTAAACAAGAAC 58.111 33.333 0.00 0.00 0.00 3.01
487 495 8.071368 CCAACGCTGTATTTTACTAAACAAGAA 58.929 33.333 0.00 0.00 0.00 2.52
488 496 7.441760 TCCAACGCTGTATTTTACTAAACAAGA 59.558 33.333 0.00 0.00 0.00 3.02
532 623 5.913137 TGAAGTTTTCAGTTGTGTGGATT 57.087 34.783 0.00 0.00 34.08 3.01
533 624 6.207417 CCTATGAAGTTTTCAGTTGTGTGGAT 59.793 38.462 0.00 0.00 43.98 3.41
693 1061 7.669089 TTTCCTAACAACTTCTTCCCAAATT 57.331 32.000 0.00 0.00 0.00 1.82
742 1113 2.294233 CCAGCGATGGGATTTGGTATTG 59.706 50.000 13.14 0.00 0.00 1.90
828 1224 0.372334 GTGCGTACGCCGATCATTTT 59.628 50.000 35.11 0.00 41.09 1.82
959 1355 1.689813 TGGCGGACTAGTTTCAAGTGA 59.310 47.619 0.00 0.00 0.00 3.41
975 1371 0.671781 CTGAGAAAGACCACCTGGCG 60.672 60.000 0.00 0.00 39.32 5.69
976 1372 0.957888 GCTGAGAAAGACCACCTGGC 60.958 60.000 0.00 0.00 39.32 4.85
977 1373 0.689623 AGCTGAGAAAGACCACCTGG 59.310 55.000 0.00 0.00 42.17 4.45
1018 1414 2.260434 GCGTGGAAGCGTCTGGTA 59.740 61.111 0.00 0.00 0.00 3.25
1190 1601 2.937469 TGGAAGCGGCAATTAATGTG 57.063 45.000 1.45 0.00 0.00 3.21
1247 1658 4.034279 CCTGCAAACCATGAACAAACAAAG 59.966 41.667 0.00 0.00 0.00 2.77
1250 1661 2.499289 ACCTGCAAACCATGAACAAACA 59.501 40.909 0.00 0.00 0.00 2.83
1251 1662 2.865551 CACCTGCAAACCATGAACAAAC 59.134 45.455 0.00 0.00 0.00 2.93
1521 1935 0.472734 ACCAGCTCCAGGAACTCAGT 60.473 55.000 0.00 0.00 34.60 3.41
1697 2111 1.954146 CCAGAACACCGACACCGTG 60.954 63.158 0.00 0.00 0.00 4.94
2468 2888 4.002906 AGGAGTGATAGTCGCACAAAAA 57.997 40.909 0.00 0.00 38.70 1.94
2606 3529 2.414785 GCGGCCCACAATCGGAAAT 61.415 57.895 0.00 0.00 0.00 2.17
2680 3603 0.818040 GTTGCAAGGGAGGTCACGTT 60.818 55.000 0.00 0.00 0.00 3.99
2712 3674 8.232913 ACGGCCATTGTTATAAATATTTCTGT 57.767 30.769 3.39 0.00 0.00 3.41
2729 3691 0.243907 CGATAGATCGGACGGCCATT 59.756 55.000 8.76 0.00 45.93 3.16
2768 3731 3.779759 CAACAAGGTAGCTGTTGCAAAA 58.220 40.909 17.89 0.00 45.07 2.44
2796 3759 1.147817 AGGTCCTTGTTGCAAATCCCT 59.852 47.619 0.00 0.00 0.00 4.20
2882 3845 1.002274 GGCTGAGGGAGAGGAGGAA 59.998 63.158 0.00 0.00 0.00 3.36
3080 4045 3.811083 TCTCGCAAAAAGGGTCTTGTAA 58.189 40.909 0.00 0.00 0.00 2.41
3100 4072 9.956720 AAAATGGTTCGATGATGAAGATATTTC 57.043 29.630 0.00 0.00 0.00 2.17
3106 4078 9.177608 AGATTAAAAATGGTTCGATGATGAAGA 57.822 29.630 0.00 0.00 0.00 2.87
3143 4115 7.509141 TCAAAATGTTTCTGCAATAGACTCA 57.491 32.000 0.00 0.00 34.43 3.41
3217 4192 6.981559 ACACAAGACTAGTTTCAGAAAGAGAC 59.018 38.462 10.51 5.73 0.00 3.36
3246 4221 6.650427 AGGGTCTTGTTTCAGTAAATTTCC 57.350 37.500 0.00 0.00 0.00 3.13
3289 4265 3.181474 GGCCACAAGTCAGTCCTATAGTC 60.181 52.174 0.00 0.00 0.00 2.59
3393 4369 6.310956 ACACATGCAATTACAATCGGAAAATG 59.689 34.615 0.00 0.00 0.00 2.32
3394 4370 6.397272 ACACATGCAATTACAATCGGAAAAT 58.603 32.000 0.00 0.00 0.00 1.82


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

AutoCloner maintained by Alex Coulton.