Multiple sequence alignment - TraesCS5B01G458500

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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 TraesCS5B01G458500 chr5B 100.000 1581 0 0 1 1581 633504976 633506556 0.000000e+00 2920.0
1 TraesCS5B01G458500 chr5B 100.000 1462 0 0 1923 3384 633506898 633508359 0.000000e+00 2700.0
2 TraesCS5B01G458500 chr5B 93.883 752 45 1 2628 3378 15137424 15138175 0.000000e+00 1133.0
3 TraesCS5B01G458500 chr5B 83.315 905 101 24 685 1571 633658725 633659597 0.000000e+00 789.0
4 TraesCS5B01G458500 chr5B 100.000 40 0 0 1976 2015 633506900 633506939 1.300000e-09 75.0
5 TraesCS5B01G458500 chr5B 100.000 40 0 0 1925 1964 633506951 633506990 1.300000e-09 75.0
6 TraesCS5B01G458500 chr5D 97.881 991 12 6 594 1581 504232620 504233604 0.000000e+00 1705.0
7 TraesCS5B01G458500 chr5D 94.918 610 23 4 1923 2532 504233741 504234342 0.000000e+00 948.0
8 TraesCS5B01G458500 chr5D 83.918 883 91 26 685 1549 504440935 504441784 0.000000e+00 797.0
9 TraesCS5B01G458500 chr5D 85.103 631 90 4 2749 3377 565746023 565746651 2.850000e-180 641.0
10 TraesCS5B01G458500 chr5D 79.933 299 34 19 1932 2205 504233624 504233921 2.660000e-46 196.0
11 TraesCS5B01G458500 chr5D 97.590 83 2 0 1933 2015 504233700 504233782 3.520000e-30 143.0
12 TraesCS5B01G458500 chr5D 100.000 41 0 0 1923 1963 504233666 504233706 3.620000e-10 76.8
13 TraesCS5B01G458500 chr5A 93.782 965 34 12 618 1575 632198230 632199175 0.000000e+00 1426.0
14 TraesCS5B01G458500 chr5A 83.882 881 95 22 685 1549 632269085 632269934 0.000000e+00 797.0
15 TraesCS5B01G458500 chr5A 95.540 426 18 1 2204 2628 632199780 632200205 0.000000e+00 680.0
16 TraesCS5B01G458500 chr5A 94.737 228 12 0 1984 2211 632199325 632199552 4.150000e-94 355.0
17 TraesCS5B01G458500 chr5A 86.260 262 30 4 1 261 632196762 632197018 2.570000e-71 279.0
18 TraesCS5B01G458500 chr5A 77.143 280 42 18 1934 2205 632199179 632199444 3.520000e-30 143.0
19 TraesCS5B01G458500 chr5A 95.652 69 3 0 1933 2001 632199250 632199318 9.930000e-21 111.0
20 TraesCS5B01G458500 chr5A 97.297 37 1 0 1927 1963 632199220 632199256 2.820000e-06 63.9
21 TraesCS5B01G458500 chr5A 100.000 32 0 0 1933 1964 632199325 632199356 3.650000e-05 60.2
22 TraesCS5B01G458500 chr6B 91.877 751 56 1 2628 3378 311147340 311148085 0.000000e+00 1044.0
23 TraesCS5B01G458500 chr6B 81.842 749 127 8 2632 3377 33523339 33522597 3.710000e-174 621.0
24 TraesCS5B01G458500 chr4A 88.977 753 79 4 2628 3378 440255977 440256727 0.000000e+00 928.0
25 TraesCS5B01G458500 chr6A 86.230 748 102 1 2631 3377 196825359 196824612 0.000000e+00 809.0
26 TraesCS5B01G458500 chr7D 83.445 749 120 4 2631 3377 546061153 546060407 0.000000e+00 693.0
27 TraesCS5B01G458500 chr1A 82.243 749 127 5 2631 3377 108908563 108907819 2.850000e-180 641.0
28 TraesCS5B01G458500 chr3A 82.086 748 125 9 2628 3371 719113374 719114116 6.160000e-177 630.0


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 TraesCS5B01G458500 chr5B 633504976 633508359 3383 False 1442.5000 2920 100.000000 1 3384 4 chr5B.!!$F3 3383
1 TraesCS5B01G458500 chr5B 15137424 15138175 751 False 1133.0000 1133 93.883000 2628 3378 1 chr5B.!!$F1 750
2 TraesCS5B01G458500 chr5B 633658725 633659597 872 False 789.0000 789 83.315000 685 1571 1 chr5B.!!$F2 886
3 TraesCS5B01G458500 chr5D 504440935 504441784 849 False 797.0000 797 83.918000 685 1549 1 chr5D.!!$F1 864
4 TraesCS5B01G458500 chr5D 565746023 565746651 628 False 641.0000 641 85.103000 2749 3377 1 chr5D.!!$F2 628
5 TraesCS5B01G458500 chr5D 504232620 504234342 1722 False 613.7600 1705 94.064400 594 2532 5 chr5D.!!$F3 1938
6 TraesCS5B01G458500 chr5A 632269085 632269934 849 False 797.0000 797 83.882000 685 1549 1 chr5A.!!$F1 864
7 TraesCS5B01G458500 chr5A 632196762 632200205 3443 False 389.7625 1426 92.551375 1 2628 8 chr5A.!!$F2 2627
8 TraesCS5B01G458500 chr6B 311147340 311148085 745 False 1044.0000 1044 91.877000 2628 3378 1 chr6B.!!$F1 750
9 TraesCS5B01G458500 chr6B 33522597 33523339 742 True 621.0000 621 81.842000 2632 3377 1 chr6B.!!$R1 745
10 TraesCS5B01G458500 chr4A 440255977 440256727 750 False 928.0000 928 88.977000 2628 3378 1 chr4A.!!$F1 750
11 TraesCS5B01G458500 chr6A 196824612 196825359 747 True 809.0000 809 86.230000 2631 3377 1 chr6A.!!$R1 746
12 TraesCS5B01G458500 chr7D 546060407 546061153 746 True 693.0000 693 83.445000 2631 3377 1 chr7D.!!$R1 746
13 TraesCS5B01G458500 chr1A 108907819 108908563 744 True 641.0000 641 82.243000 2631 3377 1 chr1A.!!$R1 746
14 TraesCS5B01G458500 chr3A 719113374 719114116 742 False 630.0000 630 82.086000 2628 3371 1 chr3A.!!$F1 743

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
264 266 0.104487 CAAAGCATGTGGTTGGCACA 59.896 50.0 0.00 0.00 35.72 4.57 F
420 1271 0.467290 TCAGTTCTTTTGGGCGGCTT 60.467 50.0 9.56 0.00 0.00 4.35 F
1212 2294 0.542467 TGTACGTGGCCAAGGAGGTA 60.542 55.0 23.09 10.18 40.61 3.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2020 3210 0.107508 CAGTGGATGGTGCTTCGGAT 60.108 55.000 0.0 0.0 0.00 4.18 R
2299 3724 1.071471 CCCGTATGATGCCCCTGAC 59.929 63.158 0.0 0.0 0.00 3.51 R
2716 4143 3.378512 TCATGGACATTCCTAGAGCTGT 58.621 45.455 0.0 0.0 37.46 4.40 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
105 107 9.008584 ACTATAAAAGGAAGAGAGATGGGAAAT 57.991 33.333 0.00 0.00 0.00 2.17
110 112 9.552695 AAAAGGAAGAGAGATGGGAAATAAAAT 57.447 29.630 0.00 0.00 0.00 1.82
174 176 5.820926 GCATAAATGCGAAACAGAAAACA 57.179 34.783 0.00 0.00 44.67 2.83
183 185 9.469807 AATGCGAAACAGAAAACAAATAATGTA 57.530 25.926 0.00 0.00 42.99 2.29
184 186 9.638239 ATGCGAAACAGAAAACAAATAATGTAT 57.362 25.926 0.00 0.00 42.99 2.29
240 242 3.512680 CCTAGTTCTACGTGGCAGAAAG 58.487 50.000 0.00 0.00 33.95 2.62
243 245 2.628657 AGTTCTACGTGGCAGAAAGTCT 59.371 45.455 0.00 0.00 33.95 3.24
244 246 2.724977 TCTACGTGGCAGAAAGTCTG 57.275 50.000 0.00 0.72 46.90 3.51
261 263 3.955775 GCAAAGCATGTGGTTGGC 58.044 55.556 8.38 8.38 43.97 4.52
263 265 2.903284 CAAAGCATGTGGTTGGCAC 58.097 52.632 0.00 0.00 35.72 5.01
264 266 0.104487 CAAAGCATGTGGTTGGCACA 59.896 50.000 0.00 0.00 35.72 4.57
265 267 1.050204 AAAGCATGTGGTTGGCACAT 58.950 45.000 0.00 0.00 43.29 3.21
273 1120 1.367102 GGTTGGCACATGTGGTTGG 59.633 57.895 26.55 1.58 39.30 3.77
283 1130 0.538057 ATGTGGTTGGTGAGTGCCAG 60.538 55.000 0.00 0.00 40.01 4.85
289 1136 1.414866 TTGGTGAGTGCCAGGTAGCA 61.415 55.000 0.00 0.00 40.01 3.49
302 1149 1.168714 GGTAGCAGGAACTTGGCAAG 58.831 55.000 25.06 25.06 34.60 4.01
321 1168 2.826428 AGCATGCGATTTGACGAGTAT 58.174 42.857 13.01 0.00 35.09 2.12
342 1189 4.771590 TCGTCCTAGTGTATTTTCGTGT 57.228 40.909 0.00 0.00 0.00 4.49
383 1234 2.654749 AGATGACGAAATGCACTCGA 57.345 45.000 22.86 5.64 39.60 4.04
388 1239 2.609916 TGACGAAATGCACTCGACAAAA 59.390 40.909 22.86 2.87 37.87 2.44
410 1261 6.954487 AAAAATCTTACGGGTCAGTTCTTT 57.046 33.333 0.00 0.00 0.00 2.52
411 1262 6.954487 AAAATCTTACGGGTCAGTTCTTTT 57.046 33.333 0.00 0.00 0.00 2.27
412 1263 5.941948 AATCTTACGGGTCAGTTCTTTTG 57.058 39.130 0.00 0.00 0.00 2.44
413 1264 3.735591 TCTTACGGGTCAGTTCTTTTGG 58.264 45.455 0.00 0.00 0.00 3.28
414 1265 2.554370 TACGGGTCAGTTCTTTTGGG 57.446 50.000 0.00 0.00 0.00 4.12
415 1266 0.822121 ACGGGTCAGTTCTTTTGGGC 60.822 55.000 0.00 0.00 0.00 5.36
416 1267 1.852067 CGGGTCAGTTCTTTTGGGCG 61.852 60.000 0.00 0.00 0.00 6.13
417 1268 1.524008 GGGTCAGTTCTTTTGGGCGG 61.524 60.000 0.00 0.00 0.00 6.13
418 1269 1.285950 GTCAGTTCTTTTGGGCGGC 59.714 57.895 0.00 0.00 0.00 6.53
419 1270 1.150536 TCAGTTCTTTTGGGCGGCT 59.849 52.632 9.56 0.00 0.00 5.52
420 1271 0.467290 TCAGTTCTTTTGGGCGGCTT 60.467 50.000 9.56 0.00 0.00 4.35
421 1272 1.202830 TCAGTTCTTTTGGGCGGCTTA 60.203 47.619 9.56 0.00 0.00 3.09
422 1273 1.611491 CAGTTCTTTTGGGCGGCTTAA 59.389 47.619 9.56 1.63 0.00 1.85
423 1274 1.886542 AGTTCTTTTGGGCGGCTTAAG 59.113 47.619 9.56 10.11 0.00 1.85
424 1275 1.883926 GTTCTTTTGGGCGGCTTAAGA 59.116 47.619 9.56 12.26 0.00 2.10
425 1276 2.279935 TCTTTTGGGCGGCTTAAGAA 57.720 45.000 9.56 0.00 0.00 2.52
426 1277 2.588620 TCTTTTGGGCGGCTTAAGAAA 58.411 42.857 9.56 2.65 0.00 2.52
427 1278 3.161866 TCTTTTGGGCGGCTTAAGAAAT 58.838 40.909 9.56 0.00 0.00 2.17
428 1279 4.337145 TCTTTTGGGCGGCTTAAGAAATA 58.663 39.130 9.56 0.00 0.00 1.40
429 1280 4.767928 TCTTTTGGGCGGCTTAAGAAATAA 59.232 37.500 9.56 0.00 0.00 1.40
430 1281 4.712122 TTTGGGCGGCTTAAGAAATAAG 57.288 40.909 9.56 0.00 43.32 1.73
441 1292 5.679601 CTTAAGAAATAAGCTGGCTCTCCT 58.320 41.667 0.00 0.00 34.95 3.69
442 1293 3.836365 AGAAATAAGCTGGCTCTCCTC 57.164 47.619 0.00 0.00 0.00 3.71
443 1294 3.110705 AGAAATAAGCTGGCTCTCCTCA 58.889 45.455 0.00 0.00 0.00 3.86
444 1295 3.134442 AGAAATAAGCTGGCTCTCCTCAG 59.866 47.826 0.00 0.00 0.00 3.35
445 1296 2.173126 ATAAGCTGGCTCTCCTCAGT 57.827 50.000 0.00 0.00 33.81 3.41
446 1297 1.944177 TAAGCTGGCTCTCCTCAGTT 58.056 50.000 0.00 0.00 33.81 3.16
447 1298 1.063183 AAGCTGGCTCTCCTCAGTTT 58.937 50.000 0.00 0.00 33.81 2.66
448 1299 1.944177 AGCTGGCTCTCCTCAGTTTA 58.056 50.000 0.00 0.00 33.81 2.01
449 1300 2.260822 AGCTGGCTCTCCTCAGTTTAA 58.739 47.619 0.00 0.00 33.81 1.52
450 1301 2.639839 AGCTGGCTCTCCTCAGTTTAAA 59.360 45.455 0.00 0.00 33.81 1.52
451 1302 3.073062 AGCTGGCTCTCCTCAGTTTAAAA 59.927 43.478 0.00 0.00 33.81 1.52
452 1303 4.013050 GCTGGCTCTCCTCAGTTTAAAAT 58.987 43.478 0.00 0.00 33.81 1.82
453 1304 5.045578 AGCTGGCTCTCCTCAGTTTAAAATA 60.046 40.000 0.00 0.00 33.81 1.40
454 1305 5.825151 GCTGGCTCTCCTCAGTTTAAAATAT 59.175 40.000 0.00 0.00 33.81 1.28
455 1306 6.992715 GCTGGCTCTCCTCAGTTTAAAATATA 59.007 38.462 0.00 0.00 33.81 0.86
456 1307 7.499232 GCTGGCTCTCCTCAGTTTAAAATATAA 59.501 37.037 0.00 0.00 33.81 0.98
457 1308 8.964476 TGGCTCTCCTCAGTTTAAAATATAAG 57.036 34.615 0.00 0.00 0.00 1.73
458 1309 7.499232 TGGCTCTCCTCAGTTTAAAATATAAGC 59.501 37.037 0.00 0.00 0.00 3.09
459 1310 7.717436 GGCTCTCCTCAGTTTAAAATATAAGCT 59.283 37.037 0.00 0.00 0.00 3.74
460 1311 8.555361 GCTCTCCTCAGTTTAAAATATAAGCTG 58.445 37.037 5.91 5.91 37.19 4.24
461 1312 9.606631 CTCTCCTCAGTTTAAAATATAAGCTGT 57.393 33.333 10.48 0.00 37.16 4.40
462 1313 9.601217 TCTCCTCAGTTTAAAATATAAGCTGTC 57.399 33.333 10.48 0.00 37.16 3.51
463 1314 8.732746 TCCTCAGTTTAAAATATAAGCTGTCC 57.267 34.615 10.48 0.00 37.16 4.02
464 1315 8.548877 TCCTCAGTTTAAAATATAAGCTGTCCT 58.451 33.333 10.48 0.00 37.16 3.85
465 1316 8.831550 CCTCAGTTTAAAATATAAGCTGTCCTC 58.168 37.037 10.48 0.00 37.16 3.71
466 1317 9.383519 CTCAGTTTAAAATATAAGCTGTCCTCA 57.616 33.333 10.48 0.00 37.16 3.86
467 1318 9.733556 TCAGTTTAAAATATAAGCTGTCCTCAA 57.266 29.630 10.48 0.00 37.16 3.02
476 1327 9.643693 AATATAAGCTGTCCTCAAAATTTGTTG 57.356 29.630 5.56 0.75 0.00 3.33
477 1328 5.596836 AAGCTGTCCTCAAAATTTGTTGA 57.403 34.783 5.56 1.24 36.15 3.18
478 1329 5.596836 AGCTGTCCTCAAAATTTGTTGAA 57.403 34.783 5.56 0.00 37.08 2.69
479 1330 5.976458 AGCTGTCCTCAAAATTTGTTGAAA 58.024 33.333 5.56 0.00 37.08 2.69
480 1331 5.812127 AGCTGTCCTCAAAATTTGTTGAAAC 59.188 36.000 5.56 0.00 37.08 2.78
481 1332 5.812127 GCTGTCCTCAAAATTTGTTGAAACT 59.188 36.000 5.56 0.00 37.08 2.66
482 1333 6.313658 GCTGTCCTCAAAATTTGTTGAAACTT 59.686 34.615 5.56 0.00 37.08 2.66
483 1334 7.148423 GCTGTCCTCAAAATTTGTTGAAACTTT 60.148 33.333 5.56 0.00 37.08 2.66
484 1335 8.614469 TGTCCTCAAAATTTGTTGAAACTTTT 57.386 26.923 5.56 0.00 37.08 2.27
485 1336 9.061435 TGTCCTCAAAATTTGTTGAAACTTTTT 57.939 25.926 5.56 0.00 37.08 1.94
514 1365 8.983307 AAGTTATCCGACAACTAGTTTAGAAG 57.017 34.615 5.07 0.00 35.19 2.85
515 1366 8.345724 AGTTATCCGACAACTAGTTTAGAAGA 57.654 34.615 5.07 0.13 34.50 2.87
516 1367 8.242739 AGTTATCCGACAACTAGTTTAGAAGAC 58.757 37.037 5.07 4.32 34.50 3.01
517 1368 5.382618 TCCGACAACTAGTTTAGAAGACC 57.617 43.478 5.07 0.00 0.00 3.85
518 1369 4.219288 TCCGACAACTAGTTTAGAAGACCC 59.781 45.833 5.07 0.00 0.00 4.46
519 1370 4.164294 CGACAACTAGTTTAGAAGACCCG 58.836 47.826 5.07 0.00 0.00 5.28
520 1371 4.083110 CGACAACTAGTTTAGAAGACCCGA 60.083 45.833 5.07 0.00 0.00 5.14
521 1372 5.392811 CGACAACTAGTTTAGAAGACCCGAT 60.393 44.000 5.07 0.00 0.00 4.18
522 1373 6.356186 ACAACTAGTTTAGAAGACCCGATT 57.644 37.500 5.07 0.00 0.00 3.34
523 1374 7.472334 ACAACTAGTTTAGAAGACCCGATTA 57.528 36.000 5.07 0.00 0.00 1.75
524 1375 7.899973 ACAACTAGTTTAGAAGACCCGATTAA 58.100 34.615 5.07 0.00 0.00 1.40
525 1376 8.537858 ACAACTAGTTTAGAAGACCCGATTAAT 58.462 33.333 5.07 0.00 0.00 1.40
531 1382 9.198475 AGTTTAGAAGACCCGATTAATAAGAGA 57.802 33.333 0.00 0.00 0.00 3.10
532 1383 9.465985 GTTTAGAAGACCCGATTAATAAGAGAG 57.534 37.037 0.00 0.00 0.00 3.20
533 1384 6.658188 AGAAGACCCGATTAATAAGAGAGG 57.342 41.667 0.00 0.00 0.00 3.69
534 1385 4.875561 AGACCCGATTAATAAGAGAGGC 57.124 45.455 0.00 0.00 0.00 4.70
535 1386 3.256136 AGACCCGATTAATAAGAGAGGCG 59.744 47.826 0.00 0.00 0.00 5.52
536 1387 2.299297 ACCCGATTAATAAGAGAGGCGG 59.701 50.000 0.00 0.00 37.41 6.13
537 1388 2.299297 CCCGATTAATAAGAGAGGCGGT 59.701 50.000 0.00 0.00 36.03 5.68
538 1389 3.244112 CCCGATTAATAAGAGAGGCGGTT 60.244 47.826 0.00 0.00 36.03 4.44
539 1390 4.377897 CCGATTAATAAGAGAGGCGGTTT 58.622 43.478 0.00 0.00 33.35 3.27
540 1391 5.510179 CCCGATTAATAAGAGAGGCGGTTTA 60.510 44.000 0.00 0.00 36.03 2.01
541 1392 6.164176 CCGATTAATAAGAGAGGCGGTTTAT 58.836 40.000 0.00 0.00 33.35 1.40
542 1393 6.090898 CCGATTAATAAGAGAGGCGGTTTATG 59.909 42.308 0.00 0.00 33.35 1.90
543 1394 6.090898 CGATTAATAAGAGAGGCGGTTTATGG 59.909 42.308 0.00 0.00 0.00 2.74
544 1395 6.488769 TTAATAAGAGAGGCGGTTTATGGA 57.511 37.500 0.00 0.00 0.00 3.41
545 1396 5.367945 AATAAGAGAGGCGGTTTATGGAA 57.632 39.130 0.00 0.00 0.00 3.53
546 1397 3.713826 AAGAGAGGCGGTTTATGGAAA 57.286 42.857 0.00 0.00 0.00 3.13
547 1398 3.713826 AGAGAGGCGGTTTATGGAAAA 57.286 42.857 0.00 0.00 0.00 2.29
548 1399 4.028993 AGAGAGGCGGTTTATGGAAAAA 57.971 40.909 0.00 0.00 0.00 1.94
549 1400 4.010349 AGAGAGGCGGTTTATGGAAAAAG 58.990 43.478 0.00 0.00 0.00 2.27
550 1401 4.007659 GAGAGGCGGTTTATGGAAAAAGA 58.992 43.478 0.00 0.00 0.00 2.52
551 1402 4.600062 AGAGGCGGTTTATGGAAAAAGAT 58.400 39.130 0.00 0.00 0.00 2.40
552 1403 5.751586 AGAGGCGGTTTATGGAAAAAGATA 58.248 37.500 0.00 0.00 0.00 1.98
553 1404 6.365520 AGAGGCGGTTTATGGAAAAAGATAT 58.634 36.000 0.00 0.00 0.00 1.63
554 1405 6.263168 AGAGGCGGTTTATGGAAAAAGATATG 59.737 38.462 0.00 0.00 0.00 1.78
555 1406 5.301805 AGGCGGTTTATGGAAAAAGATATGG 59.698 40.000 0.00 0.00 0.00 2.74
556 1407 5.300792 GGCGGTTTATGGAAAAAGATATGGA 59.699 40.000 0.00 0.00 0.00 3.41
557 1408 6.438763 GCGGTTTATGGAAAAAGATATGGAG 58.561 40.000 0.00 0.00 0.00 3.86
558 1409 6.515035 GCGGTTTATGGAAAAAGATATGGAGG 60.515 42.308 0.00 0.00 0.00 4.30
559 1410 6.770785 CGGTTTATGGAAAAAGATATGGAGGA 59.229 38.462 0.00 0.00 0.00 3.71
560 1411 7.041098 CGGTTTATGGAAAAAGATATGGAGGAG 60.041 40.741 0.00 0.00 0.00 3.69
561 1412 7.998964 GGTTTATGGAAAAAGATATGGAGGAGA 59.001 37.037 0.00 0.00 0.00 3.71
562 1413 9.061435 GTTTATGGAAAAAGATATGGAGGAGAG 57.939 37.037 0.00 0.00 0.00 3.20
563 1414 8.567198 TTATGGAAAAAGATATGGAGGAGAGA 57.433 34.615 0.00 0.00 0.00 3.10
564 1415 6.491714 TGGAAAAAGATATGGAGGAGAGAG 57.508 41.667 0.00 0.00 0.00 3.20
565 1416 5.163258 TGGAAAAAGATATGGAGGAGAGAGC 60.163 44.000 0.00 0.00 0.00 4.09
566 1417 5.071653 GGAAAAAGATATGGAGGAGAGAGCT 59.928 44.000 0.00 0.00 0.00 4.09
567 1418 6.409120 GGAAAAAGATATGGAGGAGAGAGCTT 60.409 42.308 0.00 0.00 0.00 3.74
568 1419 7.202047 GGAAAAAGATATGGAGGAGAGAGCTTA 60.202 40.741 0.00 0.00 0.00 3.09
569 1420 7.870426 AAAAGATATGGAGGAGAGAGCTTAT 57.130 36.000 0.00 0.00 0.00 1.73
570 1421 7.870426 AAAGATATGGAGGAGAGAGCTTATT 57.130 36.000 0.00 0.00 0.00 1.40
571 1422 7.870426 AAGATATGGAGGAGAGAGCTTATTT 57.130 36.000 0.00 0.00 0.00 1.40
572 1423 7.870426 AGATATGGAGGAGAGAGCTTATTTT 57.130 36.000 0.00 0.00 0.00 1.82
573 1424 8.273923 AGATATGGAGGAGAGAGCTTATTTTT 57.726 34.615 0.00 0.00 0.00 1.94
595 1446 8.920509 TTTTTAAGCTGTTAAAAGAACTGACC 57.079 30.769 0.00 0.00 44.87 4.02
596 1447 7.875327 TTTAAGCTGTTAAAAGAACTGACCT 57.125 32.000 0.00 0.00 35.58 3.85
597 1448 8.967664 TTTAAGCTGTTAAAAGAACTGACCTA 57.032 30.769 0.00 0.00 35.58 3.08
728 1790 5.297278 GCACTGGATATACGTCCTCCTATAG 59.703 48.000 11.05 0.00 39.12 1.31
837 1908 2.014335 GAAGCCATTCCAAACCATGC 57.986 50.000 0.00 0.00 0.00 4.06
838 1909 1.275856 GAAGCCATTCCAAACCATGCA 59.724 47.619 0.00 0.00 0.00 3.96
839 1910 1.575419 AGCCATTCCAAACCATGCAT 58.425 45.000 0.00 0.00 0.00 3.96
840 1911 1.208535 AGCCATTCCAAACCATGCATG 59.791 47.619 20.19 20.19 0.00 4.06
1212 2294 0.542467 TGTACGTGGCCAAGGAGGTA 60.542 55.000 23.09 10.18 40.61 3.08
2037 3227 1.718757 GCATCCGAAGCACCATCCAC 61.719 60.000 0.00 0.00 0.00 4.02
2078 3268 2.893398 CACCTACCTCCGAGGCAC 59.107 66.667 14.86 0.00 39.63 5.01
2112 3302 3.851128 GGGCTCCTACGGCTCCAC 61.851 72.222 0.00 0.00 0.00 4.02
2180 3370 0.878523 CGCACAAACCTCCGACTCAA 60.879 55.000 0.00 0.00 0.00 3.02
2483 3908 2.308769 GCGCGAGAGGATGCTCATG 61.309 63.158 17.24 9.04 34.56 3.07
2543 3969 6.149474 CGAGAAACCAAGTAGAATGGAATGTT 59.851 38.462 0.00 0.00 40.56 2.71
2551 3977 7.557719 CCAAGTAGAATGGAATGTTATGGTTCT 59.442 37.037 0.00 0.00 40.56 3.01
2552 3978 9.613428 CAAGTAGAATGGAATGTTATGGTTCTA 57.387 33.333 0.00 0.00 0.00 2.10
2623 4049 3.443329 TCATCATGGGTGCAATGTACAAC 59.557 43.478 0.00 0.00 0.00 3.32
2629 4055 2.825532 GGGTGCAATGTACAACTGGATT 59.174 45.455 0.00 0.00 0.00 3.01
2716 4143 8.412456 CACATAAACATGCCATCTAACCAATAA 58.588 33.333 0.00 0.00 0.00 1.40
2739 4166 4.202336 ACAGCTCTAGGAATGTCCATGATG 60.202 45.833 0.00 0.00 39.61 3.07
2795 4223 2.289694 GGCCTGTCTGTGCTTCTCTTTA 60.290 50.000 0.00 0.00 0.00 1.85
2857 4285 2.573009 TCCTCCATGCTTGAACTGATGA 59.427 45.455 0.22 0.00 0.00 2.92
2890 4318 7.287696 AGCCTTGAAAATTTTGGAGTTTCTCTA 59.712 33.333 8.47 0.00 41.59 2.43
2895 4323 9.354673 TGAAAATTTTGGAGTTTCTCTACATCT 57.645 29.630 8.47 0.00 41.59 2.90
2925 4353 1.447317 GCAGCCCATGGTGATTACGG 61.447 60.000 11.73 0.00 42.66 4.02
2929 4357 1.663695 CCCATGGTGATTACGGTCAC 58.336 55.000 11.73 8.74 46.04 3.67
2976 4404 7.432252 GGCTTAACAACAAATTTATCTCATCGG 59.568 37.037 0.00 0.00 0.00 4.18
3203 4634 6.426025 TCTTATATCTAAGCATTGCAGCACTG 59.574 38.462 11.91 8.38 35.32 3.66
3378 4809 5.531634 TGATTTCTTGAAATTGCTGGTGAC 58.468 37.500 9.58 0.00 0.00 3.67
3379 4810 4.998671 TTTCTTGAAATTGCTGGTGACA 57.001 36.364 0.00 0.00 39.59 3.58
3380 4811 3.988379 TCTTGAAATTGCTGGTGACAC 57.012 42.857 0.00 0.00 35.60 3.67
3381 4812 3.554934 TCTTGAAATTGCTGGTGACACT 58.445 40.909 5.39 0.00 35.60 3.55
3382 4813 4.713553 TCTTGAAATTGCTGGTGACACTA 58.286 39.130 5.39 0.00 35.60 2.74
3383 4814 4.515191 TCTTGAAATTGCTGGTGACACTAC 59.485 41.667 5.39 0.00 35.60 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 5.520649 GCAAGTCCATGGAAAAACGTTAAAA 59.479 36.000 18.20 0.00 0.00 1.52
10 11 2.428890 TGCAAGTCCATGGAAAAACGTT 59.571 40.909 18.20 0.00 0.00 3.99
209 211 7.318141 GCCACGTAGAACTAGGCAAATATATA 58.682 38.462 5.98 0.00 44.59 0.86
214 216 2.629051 GCCACGTAGAACTAGGCAAAT 58.371 47.619 5.98 0.00 44.59 2.32
221 223 3.825014 AGACTTTCTGCCACGTAGAACTA 59.175 43.478 0.00 0.00 34.31 2.24
225 227 2.724977 CAGACTTTCTGCCACGTAGA 57.275 50.000 0.00 0.00 37.72 2.59
240 242 1.603678 CCAACCACATGCTTTGCAGAC 60.604 52.381 0.00 0.00 43.65 3.51
243 245 1.069427 GCCAACCACATGCTTTGCA 59.931 52.632 0.00 0.00 44.86 4.08
244 246 1.069427 TGCCAACCACATGCTTTGC 59.931 52.632 0.00 0.00 0.00 3.68
245 247 2.903284 GTGCCAACCACATGCTTTG 58.097 52.632 0.00 0.00 44.06 2.77
261 263 0.311790 GCACTCACCAACCACATGTG 59.688 55.000 19.31 19.31 0.00 3.21
262 264 0.823356 GGCACTCACCAACCACATGT 60.823 55.000 0.00 0.00 0.00 3.21
263 265 0.822944 TGGCACTCACCAACCACATG 60.823 55.000 0.00 0.00 36.55 3.21
264 266 0.538057 CTGGCACTCACCAACCACAT 60.538 55.000 0.00 0.00 39.86 3.21
265 267 1.152984 CTGGCACTCACCAACCACA 60.153 57.895 0.00 0.00 39.86 4.17
267 269 1.057275 TACCTGGCACTCACCAACCA 61.057 55.000 0.00 0.00 39.86 3.67
268 270 0.321653 CTACCTGGCACTCACCAACC 60.322 60.000 0.00 0.00 39.86 3.77
273 1120 1.078848 CCTGCTACCTGGCACTCAC 60.079 63.158 0.00 0.00 37.29 3.51
283 1130 1.168714 CTTGCCAAGTTCCTGCTACC 58.831 55.000 0.00 0.00 0.00 3.18
289 1136 1.870055 CGCATGCTTGCCAAGTTCCT 61.870 55.000 17.13 0.00 46.57 3.36
302 1149 2.408991 CGATACTCGTCAAATCGCATGC 60.409 50.000 7.91 7.91 36.46 4.06
321 1168 4.771590 ACACGAAAATACACTAGGACGA 57.228 40.909 0.00 0.00 0.00 4.20
323 1170 4.795278 CCGTACACGAAAATACACTAGGAC 59.205 45.833 2.76 0.00 43.02 3.85
325 1172 3.549070 GCCGTACACGAAAATACACTAGG 59.451 47.826 2.76 0.00 43.02 3.02
326 1173 4.168014 TGCCGTACACGAAAATACACTAG 58.832 43.478 2.76 0.00 43.02 2.57
333 1180 2.591133 GCATTTGCCGTACACGAAAAT 58.409 42.857 2.76 6.47 43.02 1.82
361 1208 3.128764 TCGAGTGCATTTCGTCATCTAGT 59.871 43.478 18.92 0.00 39.05 2.57
365 1216 1.992667 TGTCGAGTGCATTTCGTCATC 59.007 47.619 18.92 11.09 39.05 2.92
388 1239 6.238925 CCAAAAGAACTGACCCGTAAGATTTT 60.239 38.462 0.00 0.00 43.02 1.82
391 1242 4.324267 CCAAAAGAACTGACCCGTAAGAT 58.676 43.478 0.00 0.00 43.02 2.40
392 1243 3.495453 CCCAAAAGAACTGACCCGTAAGA 60.495 47.826 0.00 0.00 43.02 2.10
393 1244 2.812011 CCCAAAAGAACTGACCCGTAAG 59.188 50.000 0.00 0.00 0.00 2.34
395 1246 1.543871 GCCCAAAAGAACTGACCCGTA 60.544 52.381 0.00 0.00 0.00 4.02
396 1247 0.822121 GCCCAAAAGAACTGACCCGT 60.822 55.000 0.00 0.00 0.00 5.28
397 1248 1.852067 CGCCCAAAAGAACTGACCCG 61.852 60.000 0.00 0.00 0.00 5.28
398 1249 1.524008 CCGCCCAAAAGAACTGACCC 61.524 60.000 0.00 0.00 0.00 4.46
399 1250 1.956802 CCGCCCAAAAGAACTGACC 59.043 57.895 0.00 0.00 0.00 4.02
400 1251 1.172812 AGCCGCCCAAAAGAACTGAC 61.173 55.000 0.00 0.00 0.00 3.51
401 1252 0.467290 AAGCCGCCCAAAAGAACTGA 60.467 50.000 0.00 0.00 0.00 3.41
402 1253 1.243902 TAAGCCGCCCAAAAGAACTG 58.756 50.000 0.00 0.00 0.00 3.16
403 1254 1.886542 CTTAAGCCGCCCAAAAGAACT 59.113 47.619 0.00 0.00 0.00 3.01
404 1255 1.883926 TCTTAAGCCGCCCAAAAGAAC 59.116 47.619 0.00 0.00 0.00 3.01
405 1256 2.279935 TCTTAAGCCGCCCAAAAGAA 57.720 45.000 0.00 0.00 0.00 2.52
406 1257 2.279935 TTCTTAAGCCGCCCAAAAGA 57.720 45.000 0.00 0.00 0.00 2.52
407 1258 3.592898 ATTTCTTAAGCCGCCCAAAAG 57.407 42.857 0.00 0.00 0.00 2.27
408 1259 5.066968 CTTATTTCTTAAGCCGCCCAAAA 57.933 39.130 0.00 0.00 31.37 2.44
409 1260 4.712122 CTTATTTCTTAAGCCGCCCAAA 57.288 40.909 0.00 0.00 31.37 3.28
418 1269 5.679601 AGGAGAGCCAGCTTATTTCTTAAG 58.320 41.667 0.00 0.00 37.53 1.85
419 1270 5.189736 TGAGGAGAGCCAGCTTATTTCTTAA 59.810 40.000 0.00 0.00 36.29 1.85
420 1271 4.716784 TGAGGAGAGCCAGCTTATTTCTTA 59.283 41.667 0.00 0.00 36.29 2.10
421 1272 3.521126 TGAGGAGAGCCAGCTTATTTCTT 59.479 43.478 0.00 0.00 36.29 2.52
422 1273 3.110705 TGAGGAGAGCCAGCTTATTTCT 58.889 45.455 0.00 0.00 36.29 2.52
423 1274 3.118445 ACTGAGGAGAGCCAGCTTATTTC 60.118 47.826 0.00 0.00 36.29 2.17
424 1275 2.843113 ACTGAGGAGAGCCAGCTTATTT 59.157 45.455 0.00 0.00 36.29 1.40
425 1276 2.476199 ACTGAGGAGAGCCAGCTTATT 58.524 47.619 0.00 0.00 36.29 1.40
426 1277 2.173126 ACTGAGGAGAGCCAGCTTAT 57.827 50.000 0.00 0.00 36.29 1.73
427 1278 1.944177 AACTGAGGAGAGCCAGCTTA 58.056 50.000 0.00 0.00 36.29 3.09
428 1279 1.063183 AAACTGAGGAGAGCCAGCTT 58.937 50.000 0.00 0.00 36.29 3.74
429 1280 1.944177 TAAACTGAGGAGAGCCAGCT 58.056 50.000 0.00 0.00 36.29 4.24
430 1281 2.770164 TTAAACTGAGGAGAGCCAGC 57.230 50.000 0.00 0.00 36.29 4.85
431 1282 8.964476 TTATATTTTAAACTGAGGAGAGCCAG 57.036 34.615 0.00 0.00 36.29 4.85
432 1283 7.499232 GCTTATATTTTAAACTGAGGAGAGCCA 59.501 37.037 0.00 0.00 36.29 4.75
433 1284 7.717436 AGCTTATATTTTAAACTGAGGAGAGCC 59.283 37.037 0.00 0.00 0.00 4.70
434 1285 8.555361 CAGCTTATATTTTAAACTGAGGAGAGC 58.445 37.037 0.00 0.00 0.00 4.09
435 1286 9.606631 ACAGCTTATATTTTAAACTGAGGAGAG 57.393 33.333 6.71 0.00 0.00 3.20
436 1287 9.601217 GACAGCTTATATTTTAAACTGAGGAGA 57.399 33.333 6.71 0.00 0.00 3.71
437 1288 8.831550 GGACAGCTTATATTTTAAACTGAGGAG 58.168 37.037 6.71 0.00 0.00 3.69
438 1289 8.548877 AGGACAGCTTATATTTTAAACTGAGGA 58.451 33.333 6.71 0.00 0.00 3.71
439 1290 8.738645 AGGACAGCTTATATTTTAAACTGAGG 57.261 34.615 6.71 0.00 0.00 3.86
440 1291 9.383519 TGAGGACAGCTTATATTTTAAACTGAG 57.616 33.333 6.71 0.00 0.00 3.35
441 1292 9.733556 TTGAGGACAGCTTATATTTTAAACTGA 57.266 29.630 6.71 0.00 0.00 3.41
450 1301 9.643693 CAACAAATTTTGAGGACAGCTTATATT 57.356 29.630 15.81 0.00 0.00 1.28
451 1302 9.023962 TCAACAAATTTTGAGGACAGCTTATAT 57.976 29.630 15.81 0.00 31.68 0.86
452 1303 8.402798 TCAACAAATTTTGAGGACAGCTTATA 57.597 30.769 15.81 0.00 31.68 0.98
453 1304 7.288810 TCAACAAATTTTGAGGACAGCTTAT 57.711 32.000 15.81 0.00 31.68 1.73
454 1305 6.707440 TCAACAAATTTTGAGGACAGCTTA 57.293 33.333 15.81 0.00 31.68 3.09
455 1306 5.596836 TCAACAAATTTTGAGGACAGCTT 57.403 34.783 15.81 0.00 31.68 3.74
456 1307 5.596836 TTCAACAAATTTTGAGGACAGCT 57.403 34.783 15.81 0.00 36.84 4.24
457 1308 5.812127 AGTTTCAACAAATTTTGAGGACAGC 59.188 36.000 15.81 5.63 36.84 4.40
458 1309 7.832503 AAGTTTCAACAAATTTTGAGGACAG 57.167 32.000 15.81 0.00 36.84 3.51
459 1310 8.614469 AAAAGTTTCAACAAATTTTGAGGACA 57.386 26.923 15.81 3.47 36.84 4.02
489 1340 8.800332 TCTTCTAAACTAGTTGTCGGATAACTT 58.200 33.333 22.45 9.48 39.06 2.66
490 1341 8.242739 GTCTTCTAAACTAGTTGTCGGATAACT 58.757 37.037 21.29 21.29 41.06 2.24
491 1342 7.487509 GGTCTTCTAAACTAGTTGTCGGATAAC 59.512 40.741 9.34 9.33 0.00 1.89
492 1343 7.363268 GGGTCTTCTAAACTAGTTGTCGGATAA 60.363 40.741 9.34 0.00 0.00 1.75
493 1344 6.096001 GGGTCTTCTAAACTAGTTGTCGGATA 59.904 42.308 9.34 0.00 0.00 2.59
494 1345 5.105432 GGGTCTTCTAAACTAGTTGTCGGAT 60.105 44.000 9.34 0.00 0.00 4.18
495 1346 4.219288 GGGTCTTCTAAACTAGTTGTCGGA 59.781 45.833 9.34 2.75 0.00 4.55
496 1347 4.492611 GGGTCTTCTAAACTAGTTGTCGG 58.507 47.826 9.34 0.34 0.00 4.79
497 1348 4.083110 TCGGGTCTTCTAAACTAGTTGTCG 60.083 45.833 9.34 0.89 0.00 4.35
498 1349 5.382618 TCGGGTCTTCTAAACTAGTTGTC 57.617 43.478 9.34 0.00 0.00 3.18
499 1350 5.997384 ATCGGGTCTTCTAAACTAGTTGT 57.003 39.130 9.34 2.40 0.00 3.32
500 1351 8.943909 ATTAATCGGGTCTTCTAAACTAGTTG 57.056 34.615 9.34 0.00 0.00 3.16
505 1356 9.198475 TCTCTTATTAATCGGGTCTTCTAAACT 57.802 33.333 0.00 0.00 0.00 2.66
506 1357 9.465985 CTCTCTTATTAATCGGGTCTTCTAAAC 57.534 37.037 0.00 0.00 0.00 2.01
507 1358 8.639761 CCTCTCTTATTAATCGGGTCTTCTAAA 58.360 37.037 0.00 0.00 0.00 1.85
508 1359 7.255871 GCCTCTCTTATTAATCGGGTCTTCTAA 60.256 40.741 0.00 0.00 0.00 2.10
509 1360 6.208994 GCCTCTCTTATTAATCGGGTCTTCTA 59.791 42.308 0.00 0.00 0.00 2.10
510 1361 5.011227 GCCTCTCTTATTAATCGGGTCTTCT 59.989 44.000 0.00 0.00 0.00 2.85
511 1362 5.231702 GCCTCTCTTATTAATCGGGTCTTC 58.768 45.833 0.00 0.00 0.00 2.87
512 1363 4.262079 CGCCTCTCTTATTAATCGGGTCTT 60.262 45.833 0.00 0.00 0.00 3.01
513 1364 3.256136 CGCCTCTCTTATTAATCGGGTCT 59.744 47.826 0.00 0.00 0.00 3.85
514 1365 3.576648 CGCCTCTCTTATTAATCGGGTC 58.423 50.000 0.00 0.00 0.00 4.46
515 1366 2.299297 CCGCCTCTCTTATTAATCGGGT 59.701 50.000 0.00 0.00 32.75 5.28
516 1367 2.299297 ACCGCCTCTCTTATTAATCGGG 59.701 50.000 11.28 0.00 39.87 5.14
517 1368 3.662247 ACCGCCTCTCTTATTAATCGG 57.338 47.619 6.45 6.45 41.18 4.18
518 1369 6.090898 CCATAAACCGCCTCTCTTATTAATCG 59.909 42.308 0.00 0.00 0.00 3.34
519 1370 7.159372 TCCATAAACCGCCTCTCTTATTAATC 58.841 38.462 0.00 0.00 0.00 1.75
520 1371 7.074653 TCCATAAACCGCCTCTCTTATTAAT 57.925 36.000 0.00 0.00 0.00 1.40
521 1372 6.488769 TCCATAAACCGCCTCTCTTATTAA 57.511 37.500 0.00 0.00 0.00 1.40
522 1373 6.488769 TTCCATAAACCGCCTCTCTTATTA 57.511 37.500 0.00 0.00 0.00 0.98
523 1374 5.367945 TTCCATAAACCGCCTCTCTTATT 57.632 39.130 0.00 0.00 0.00 1.40
524 1375 5.367945 TTTCCATAAACCGCCTCTCTTAT 57.632 39.130 0.00 0.00 0.00 1.73
525 1376 4.829872 TTTCCATAAACCGCCTCTCTTA 57.170 40.909 0.00 0.00 0.00 2.10
526 1377 3.713826 TTTCCATAAACCGCCTCTCTT 57.286 42.857 0.00 0.00 0.00 2.85
527 1378 3.713826 TTTTCCATAAACCGCCTCTCT 57.286 42.857 0.00 0.00 0.00 3.10
528 1379 4.007659 TCTTTTTCCATAAACCGCCTCTC 58.992 43.478 0.00 0.00 0.00 3.20
529 1380 4.028993 TCTTTTTCCATAAACCGCCTCT 57.971 40.909 0.00 0.00 0.00 3.69
530 1381 4.983671 ATCTTTTTCCATAAACCGCCTC 57.016 40.909 0.00 0.00 0.00 4.70
531 1382 5.301805 CCATATCTTTTTCCATAAACCGCCT 59.698 40.000 0.00 0.00 0.00 5.52
532 1383 5.300792 TCCATATCTTTTTCCATAAACCGCC 59.699 40.000 0.00 0.00 0.00 6.13
533 1384 6.385649 TCCATATCTTTTTCCATAAACCGC 57.614 37.500 0.00 0.00 0.00 5.68
534 1385 6.770785 TCCTCCATATCTTTTTCCATAAACCG 59.229 38.462 0.00 0.00 0.00 4.44
535 1386 7.998964 TCTCCTCCATATCTTTTTCCATAAACC 59.001 37.037 0.00 0.00 0.00 3.27
536 1387 8.980481 TCTCCTCCATATCTTTTTCCATAAAC 57.020 34.615 0.00 0.00 0.00 2.01
537 1388 9.003145 TCTCTCCTCCATATCTTTTTCCATAAA 57.997 33.333 0.00 0.00 0.00 1.40
538 1389 8.567198 TCTCTCCTCCATATCTTTTTCCATAA 57.433 34.615 0.00 0.00 0.00 1.90
539 1390 7.256475 GCTCTCTCCTCCATATCTTTTTCCATA 60.256 40.741 0.00 0.00 0.00 2.74
540 1391 6.465607 GCTCTCTCCTCCATATCTTTTTCCAT 60.466 42.308 0.00 0.00 0.00 3.41
541 1392 5.163258 GCTCTCTCCTCCATATCTTTTTCCA 60.163 44.000 0.00 0.00 0.00 3.53
542 1393 5.071653 AGCTCTCTCCTCCATATCTTTTTCC 59.928 44.000 0.00 0.00 0.00 3.13
543 1394 6.173427 AGCTCTCTCCTCCATATCTTTTTC 57.827 41.667 0.00 0.00 0.00 2.29
544 1395 6.573712 AAGCTCTCTCCTCCATATCTTTTT 57.426 37.500 0.00 0.00 0.00 1.94
545 1396 7.870426 ATAAGCTCTCTCCTCCATATCTTTT 57.130 36.000 0.00 0.00 0.00 2.27
546 1397 7.870426 AATAAGCTCTCTCCTCCATATCTTT 57.130 36.000 0.00 0.00 0.00 2.52
547 1398 7.870426 AAATAAGCTCTCTCCTCCATATCTT 57.130 36.000 0.00 0.00 0.00 2.40
548 1399 7.870426 AAAATAAGCTCTCTCCTCCATATCT 57.130 36.000 0.00 0.00 0.00 1.98
570 1421 8.745590 AGGTCAGTTCTTTTAACAGCTTAAAAA 58.254 29.630 5.17 2.30 39.99 1.94
571 1422 8.288689 AGGTCAGTTCTTTTAACAGCTTAAAA 57.711 30.769 3.86 3.86 38.81 1.52
572 1423 7.875327 AGGTCAGTTCTTTTAACAGCTTAAA 57.125 32.000 0.00 0.00 31.23 1.52
573 1424 7.988599 TGTAGGTCAGTTCTTTTAACAGCTTAA 59.011 33.333 0.00 0.00 0.00 1.85
574 1425 7.502696 TGTAGGTCAGTTCTTTTAACAGCTTA 58.497 34.615 0.00 0.00 0.00 3.09
575 1426 6.354130 TGTAGGTCAGTTCTTTTAACAGCTT 58.646 36.000 0.00 0.00 0.00 3.74
576 1427 5.925509 TGTAGGTCAGTTCTTTTAACAGCT 58.074 37.500 0.00 0.00 0.00 4.24
577 1428 6.229561 CTGTAGGTCAGTTCTTTTAACAGC 57.770 41.667 0.00 0.00 39.17 4.40
588 1439 7.280205 CAAAACTTTGTCTACTGTAGGTCAGTT 59.720 37.037 14.47 13.37 42.24 3.16
589 1440 6.761714 CAAAACTTTGTCTACTGTAGGTCAGT 59.238 38.462 14.47 8.89 44.38 3.41
590 1441 6.202954 CCAAAACTTTGTCTACTGTAGGTCAG 59.797 42.308 14.47 8.35 41.70 3.51
591 1442 6.053005 CCAAAACTTTGTCTACTGTAGGTCA 58.947 40.000 14.47 11.13 36.45 4.02
592 1443 6.285990 TCCAAAACTTTGTCTACTGTAGGTC 58.714 40.000 14.47 8.94 36.45 3.85
593 1444 6.243216 TCCAAAACTTTGTCTACTGTAGGT 57.757 37.500 14.47 1.85 36.45 3.08
594 1445 7.094762 GGAATCCAAAACTTTGTCTACTGTAGG 60.095 40.741 14.47 1.24 36.45 3.18
595 1446 7.444183 TGGAATCCAAAACTTTGTCTACTGTAG 59.556 37.037 8.55 8.55 36.45 2.74
596 1447 7.284074 TGGAATCCAAAACTTTGTCTACTGTA 58.716 34.615 0.00 0.00 36.45 2.74
597 1448 6.126409 TGGAATCCAAAACTTTGTCTACTGT 58.874 36.000 0.00 0.00 36.45 3.55
600 1451 6.635030 ACTGGAATCCAAAACTTTGTCTAC 57.365 37.500 2.61 0.00 36.45 2.59
677 1739 5.124138 CCCAGTAATTTGTGCACCGTATTTA 59.876 40.000 15.69 2.80 0.00 1.40
678 1740 4.082463 CCCAGTAATTTGTGCACCGTATTT 60.082 41.667 15.69 3.77 0.00 1.40
680 1742 3.013921 CCCAGTAATTTGTGCACCGTAT 58.986 45.455 15.69 1.81 0.00 3.06
681 1743 2.224572 ACCCAGTAATTTGTGCACCGTA 60.225 45.455 15.69 0.00 0.00 4.02
682 1744 1.243902 CCCAGTAATTTGTGCACCGT 58.756 50.000 15.69 0.00 0.00 4.83
683 1745 1.243902 ACCCAGTAATTTGTGCACCG 58.756 50.000 15.69 0.00 0.00 4.94
754 1817 4.438744 GGTTTCAACTATATGTGTGGCTGC 60.439 45.833 0.00 0.00 0.00 5.25
811 1882 4.542075 GGAATGGCTTCCGGAGAC 57.458 61.111 3.34 1.47 41.60 3.36
2020 3210 0.107508 CAGTGGATGGTGCTTCGGAT 60.108 55.000 0.00 0.00 0.00 4.18
2037 3227 4.498520 AGGACGCCGACGCATCAG 62.499 66.667 0.00 0.00 45.53 2.90
2051 3241 3.138798 GGTAGGTGCGCTCGAGGA 61.139 66.667 15.58 0.00 0.00 3.71
2299 3724 1.071471 CCCGTATGATGCCCCTGAC 59.929 63.158 0.00 0.00 0.00 3.51
2483 3908 4.878397 ACTAAAGACCATAAGTGCATCAGC 59.122 41.667 0.00 0.00 42.57 4.26
2543 3969 8.812972 ACTCACTACACTTTGAATAGAACCATA 58.187 33.333 0.00 0.00 0.00 2.74
2552 3978 8.686334 ACAAAATTGACTCACTACACTTTGAAT 58.314 29.630 0.00 0.00 0.00 2.57
2590 4016 7.041635 TGCACCCATGATGAATAGTTAAATG 57.958 36.000 0.00 0.00 0.00 2.32
2623 4049 7.372451 TGAAAATTACCGTAGAACAATCCAG 57.628 36.000 0.00 0.00 0.00 3.86
2629 4055 9.672086 CTTTTGAATGAAAATTACCGTAGAACA 57.328 29.630 0.00 0.00 32.98 3.18
2716 4143 3.378512 TCATGGACATTCCTAGAGCTGT 58.621 45.455 0.00 0.00 37.46 4.40
2757 4185 3.390639 CAGGCCTTCAGAGACTGGATTAT 59.609 47.826 0.00 0.00 31.51 1.28
2795 4223 9.660180 GACCTTAAGTTGATTATTCTGAGAACT 57.340 33.333 0.00 0.00 0.00 3.01
2857 4285 6.413892 TCCAAAATTTTCAAGGCTCAAAACT 58.586 32.000 0.00 0.00 0.00 2.66
2895 4323 4.016838 GGGCTGCTGGCACATTTA 57.983 55.556 18.73 0.00 45.23 1.40
2976 4404 5.159209 CAAAGTCAGAGGCATCAATGTTTC 58.841 41.667 0.00 0.00 0.00 2.78
3225 4656 7.498900 TCTGCAAAGAAAAGAAGTAATCTCACA 59.501 33.333 0.00 0.00 37.42 3.58
3231 4662 7.231317 TCACCATCTGCAAAGAAAAGAAGTAAT 59.769 33.333 0.00 0.00 0.00 1.89
3232 4663 6.545666 TCACCATCTGCAAAGAAAAGAAGTAA 59.454 34.615 0.00 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.