Multiple sequence alignment - TraesCS3A01G503500

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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 TraesCS3A01G503500 chr3A 100.000 4449 0 0 1 4449 726133727 726129279 0.000000e+00 8216.0
1 TraesCS3A01G503500 chr3A 85.638 745 56 21 3534 4238 22261035 22260302 0.000000e+00 736.0
2 TraesCS3A01G503500 chr5A 88.999 2218 193 29 433 2624 502229115 502226923 0.000000e+00 2697.0
3 TraesCS3A01G503500 chr5A 92.336 809 52 8 2735 3539 502226866 502226064 0.000000e+00 1142.0
4 TraesCS3A01G503500 chr5A 84.615 351 25 10 3914 4238 256196087 256196434 5.550000e-84 322.0
5 TraesCS3A01G503500 chr5A 84.393 346 29 12 1 336 502229439 502229109 2.580000e-82 316.0
6 TraesCS3A01G503500 chr5B 88.694 2220 203 31 433 2624 476460698 476458499 0.000000e+00 2665.0
7 TraesCS3A01G503500 chr5B 93.052 806 50 6 2735 3539 476458442 476457642 0.000000e+00 1173.0
8 TraesCS3A01G503500 chr5B 85.596 361 27 7 1 336 476461052 476460692 5.470000e-94 355.0
9 TraesCS3A01G503500 chr5B 84.038 213 30 3 1687 1895 91767886 91767674 7.550000e-48 202.0
10 TraesCS3A01G503500 chr5B 87.879 99 10 2 2624 2721 164398665 164398762 1.010000e-21 115.0
11 TraesCS3A01G503500 chr5B 87.368 95 11 1 2624 2717 601397082 601397176 1.690000e-19 108.0
12 TraesCS3A01G503500 chr5D 89.123 2041 179 27 603 2624 396457769 396455753 0.000000e+00 2499.0
13 TraesCS3A01G503500 chr5D 93.052 806 50 6 2735 3539 396455696 396454896 0.000000e+00 1173.0
14 TraesCS3A01G503500 chr5D 82.548 361 29 11 1 336 396458450 396458099 2.030000e-73 287.0
15 TraesCS3A01G503500 chr5D 87.719 171 20 1 1687 1856 69545728 69545558 9.760000e-47 198.0
16 TraesCS3A01G503500 chr5D 91.071 56 1 1 3823 3874 396427480 396427425 6.170000e-09 73.1
17 TraesCS3A01G503500 chr3D 92.940 1544 71 13 61 1584 595101837 595100312 0.000000e+00 2213.0
18 TraesCS3A01G503500 chr3D 96.757 956 26 2 1848 2803 595100314 595099364 0.000000e+00 1589.0
19 TraesCS3A01G503500 chr3D 95.277 741 34 1 2800 3539 595098847 595098107 0.000000e+00 1173.0
20 TraesCS3A01G503500 chr3D 87.379 721 53 20 3743 4442 595092954 595092251 0.000000e+00 793.0
21 TraesCS3A01G503500 chr3D 98.361 61 0 1 3534 3594 595096568 595096509 6.090000e-19 106.0
22 TraesCS3A01G503500 chr1D 86.156 744 52 18 3534 4238 338689552 338690283 0.000000e+00 756.0
23 TraesCS3A01G503500 chr6B 85.695 755 57 15 3523 4236 637200570 637201314 0.000000e+00 749.0
24 TraesCS3A01G503500 chr4D 84.966 745 52 22 3534 4238 216307653 216306929 0.000000e+00 701.0
25 TraesCS3A01G503500 chrUn 88.245 604 35 12 3668 4238 30714193 30713593 0.000000e+00 689.0
26 TraesCS3A01G503500 chr3B 86.646 659 44 21 3804 4443 798544810 798544177 0.000000e+00 689.0
27 TraesCS3A01G503500 chr3B 85.859 99 12 2 2624 2721 168273986 168274083 2.190000e-18 104.0
28 TraesCS3A01G503500 chr7B 84.507 213 29 3 1687 1895 243782011 243781799 1.620000e-49 207.0
29 TraesCS3A01G503500 chr7B 83.495 206 31 2 1693 1895 347591770 347591565 5.870000e-44 189.0
30 TraesCS3A01G503500 chr7B 85.965 171 23 1 1687 1856 341992156 341991986 9.830000e-42 182.0
31 TraesCS3A01G503500 chr1B 88.158 152 17 1 1687 1837 466669730 466669881 3.540000e-41 180.0
32 TraesCS3A01G503500 chr4A 91.753 97 8 0 2624 2720 638173452 638173356 7.760000e-28 135.0
33 TraesCS3A01G503500 chr7A 89.796 98 9 1 2624 2721 678142626 678142722 1.680000e-24 124.0
34 TraesCS3A01G503500 chr1A 88.660 97 8 3 2624 2720 224818547 224818454 1.010000e-21 115.0
35 TraesCS3A01G503500 chr2A 86.735 98 11 2 2624 2720 657520735 657520831 1.690000e-19 108.0
36 TraesCS3A01G503500 chr4B 84.694 98 11 3 2624 2721 30730989 30731082 1.320000e-15 95.3


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 TraesCS3A01G503500 chr3A 726129279 726133727 4448 True 8216.000000 8216 100.0000 1 4449 1 chr3A.!!$R2 4448
1 TraesCS3A01G503500 chr3A 22260302 22261035 733 True 736.000000 736 85.6380 3534 4238 1 chr3A.!!$R1 704
2 TraesCS3A01G503500 chr5A 502226064 502229439 3375 True 1385.000000 2697 88.5760 1 3539 3 chr5A.!!$R1 3538
3 TraesCS3A01G503500 chr5B 476457642 476461052 3410 True 1397.666667 2665 89.1140 1 3539 3 chr5B.!!$R2 3538
4 TraesCS3A01G503500 chr5D 396454896 396458450 3554 True 1319.666667 2499 88.2410 1 3539 3 chr5D.!!$R3 3538
5 TraesCS3A01G503500 chr3D 595092251 595101837 9586 True 1174.800000 2213 94.1428 61 4442 5 chr3D.!!$R1 4381
6 TraesCS3A01G503500 chr1D 338689552 338690283 731 False 756.000000 756 86.1560 3534 4238 1 chr1D.!!$F1 704
7 TraesCS3A01G503500 chr6B 637200570 637201314 744 False 749.000000 749 85.6950 3523 4236 1 chr6B.!!$F1 713
8 TraesCS3A01G503500 chr4D 216306929 216307653 724 True 701.000000 701 84.9660 3534 4238 1 chr4D.!!$R1 704
9 TraesCS3A01G503500 chrUn 30713593 30714193 600 True 689.000000 689 88.2450 3668 4238 1 chrUn.!!$R1 570
10 TraesCS3A01G503500 chr3B 798544177 798544810 633 True 689.000000 689 86.6460 3804 4443 1 chr3B.!!$R1 639

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
359 385 0.040692 GTTTTCGGCTTGTTCGGGAC 60.041 55.000 0.00 0.0 0.00 4.46 F
373 399 0.110238 CGGGACTTTGTGTGCATTCG 60.110 55.000 0.00 0.0 38.87 3.34 F
374 400 0.387239 GGGACTTTGTGTGCATTCGC 60.387 55.000 0.00 0.0 38.87 4.70 F
1352 1662 0.388391 CAAACCGCACAATCCGCAAT 60.388 50.000 0.00 0.0 0.00 3.56 F
1478 1796 0.934496 TGTTCTCTGAAAACGCCACG 59.066 50.000 0.00 0.0 0.00 4.94 F
1625 1948 2.645802 TGGTGGTTTAAGTGTGTCACC 58.354 47.619 0.00 0.0 43.39 4.02 F
2797 3130 2.816087 CAATGGGTTCCTGACTGAACTG 59.184 50.000 4.16 0.0 43.31 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1337 1647 1.372838 TACCATTGCGGATTGTGCGG 61.373 55.000 0.00 0.0 38.63 5.69 R
1611 1929 3.275617 AGCACAGGTGACACACTTAAA 57.724 42.857 8.08 0.0 34.40 1.52 R
1759 2082 4.273235 TGCTAATCAACATATGCAAGTCCG 59.727 41.667 1.58 0.0 0.00 4.79 R
3170 4024 0.721718 CGTGCGCTAGAAGGGAAAAG 59.278 55.000 9.73 0.0 0.00 2.27 R
3362 4219 4.096382 GGCGTTGTGATTAATCAGTGGATT 59.904 41.667 18.47 0.0 45.50 3.01 R
3447 4304 5.450412 CCCAACGCAACTGCAATATTAATCT 60.450 40.000 2.12 0.0 42.21 2.40 R
4426 10273 1.070786 GGCGACTGACAACCAAGGA 59.929 57.895 0.00 0.0 0.00 3.36 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
42 43 2.136878 CGCACAGGCCTCCTCCTAT 61.137 63.158 0.00 0.00 33.95 2.57
50 51 1.858372 GCCTCCTCCTATCTCGTCGC 61.858 65.000 0.00 0.00 0.00 5.19
54 55 1.228306 CTCCTATCTCGTCGCCCCT 60.228 63.158 0.00 0.00 0.00 4.79
96 113 0.396435 AACTGATGGCTTGTCGGACA 59.604 50.000 6.76 6.76 0.00 4.02
232 258 2.028294 CGGAGGATGATGAAGAGGATGG 60.028 54.545 0.00 0.00 0.00 3.51
278 304 1.141881 CCGCTTCTCGCACTACCAT 59.858 57.895 0.00 0.00 39.08 3.55
281 307 1.469940 CGCTTCTCGCACTACCATTCT 60.470 52.381 0.00 0.00 39.08 2.40
333 359 3.419793 TCCAGTTTGGAAGTGCCTG 57.580 52.632 0.00 0.00 45.00 4.85
334 360 0.178992 TCCAGTTTGGAAGTGCCTGG 60.179 55.000 0.00 0.00 45.00 4.45
335 361 0.468029 CCAGTTTGGAAGTGCCTGGT 60.468 55.000 0.00 0.00 40.96 4.00
336 362 0.670162 CAGTTTGGAAGTGCCTGGTG 59.330 55.000 0.00 0.00 37.63 4.17
337 363 0.550914 AGTTTGGAAGTGCCTGGTGA 59.449 50.000 0.00 0.00 37.63 4.02
338 364 0.954452 GTTTGGAAGTGCCTGGTGAG 59.046 55.000 0.00 0.00 37.63 3.51
339 365 0.550914 TTTGGAAGTGCCTGGTGAGT 59.449 50.000 0.00 0.00 37.63 3.41
340 366 0.179020 TTGGAAGTGCCTGGTGAGTG 60.179 55.000 0.00 0.00 37.63 3.51
341 367 1.344953 TGGAAGTGCCTGGTGAGTGT 61.345 55.000 0.00 0.00 37.63 3.55
342 368 0.179018 GGAAGTGCCTGGTGAGTGTT 60.179 55.000 0.00 0.00 0.00 3.32
343 369 1.680338 GAAGTGCCTGGTGAGTGTTT 58.320 50.000 0.00 0.00 0.00 2.83
344 370 2.024414 GAAGTGCCTGGTGAGTGTTTT 58.976 47.619 0.00 0.00 0.00 2.43
345 371 1.680338 AGTGCCTGGTGAGTGTTTTC 58.320 50.000 0.00 0.00 0.00 2.29
346 372 0.307760 GTGCCTGGTGAGTGTTTTCG 59.692 55.000 0.00 0.00 0.00 3.46
347 373 0.817634 TGCCTGGTGAGTGTTTTCGG 60.818 55.000 0.00 0.00 0.00 4.30
348 374 1.949257 CCTGGTGAGTGTTTTCGGC 59.051 57.895 0.00 0.00 0.00 5.54
349 375 0.535102 CCTGGTGAGTGTTTTCGGCT 60.535 55.000 0.00 0.00 0.00 5.52
350 376 1.308998 CTGGTGAGTGTTTTCGGCTT 58.691 50.000 0.00 0.00 0.00 4.35
351 377 1.002468 CTGGTGAGTGTTTTCGGCTTG 60.002 52.381 0.00 0.00 0.00 4.01
352 378 1.021968 GGTGAGTGTTTTCGGCTTGT 58.978 50.000 0.00 0.00 0.00 3.16
353 379 1.404035 GGTGAGTGTTTTCGGCTTGTT 59.596 47.619 0.00 0.00 0.00 2.83
354 380 2.540973 GGTGAGTGTTTTCGGCTTGTTC 60.541 50.000 0.00 0.00 0.00 3.18
355 381 1.329292 TGAGTGTTTTCGGCTTGTTCG 59.671 47.619 0.00 0.00 0.00 3.95
356 382 0.661020 AGTGTTTTCGGCTTGTTCGG 59.339 50.000 0.00 0.00 0.00 4.30
357 383 0.317519 GTGTTTTCGGCTTGTTCGGG 60.318 55.000 0.00 0.00 0.00 5.14
358 384 0.464013 TGTTTTCGGCTTGTTCGGGA 60.464 50.000 0.00 0.00 0.00 5.14
359 385 0.040692 GTTTTCGGCTTGTTCGGGAC 60.041 55.000 0.00 0.00 0.00 4.46
360 386 0.179040 TTTTCGGCTTGTTCGGGACT 60.179 50.000 0.00 0.00 0.00 3.85
361 387 0.179040 TTTCGGCTTGTTCGGGACTT 60.179 50.000 0.00 0.00 0.00 3.01
362 388 0.179040 TTCGGCTTGTTCGGGACTTT 60.179 50.000 0.00 0.00 0.00 2.66
363 389 0.882927 TCGGCTTGTTCGGGACTTTG 60.883 55.000 0.00 0.00 0.00 2.77
364 390 1.164041 CGGCTTGTTCGGGACTTTGT 61.164 55.000 0.00 0.00 0.00 2.83
365 391 0.310854 GGCTTGTTCGGGACTTTGTG 59.689 55.000 0.00 0.00 0.00 3.33
366 392 1.021968 GCTTGTTCGGGACTTTGTGT 58.978 50.000 0.00 0.00 0.00 3.72
367 393 1.268539 GCTTGTTCGGGACTTTGTGTG 60.269 52.381 0.00 0.00 0.00 3.82
368 394 0.736053 TTGTTCGGGACTTTGTGTGC 59.264 50.000 0.00 0.00 36.19 4.57
369 395 0.393132 TGTTCGGGACTTTGTGTGCA 60.393 50.000 0.00 0.00 38.87 4.57
370 396 0.951558 GTTCGGGACTTTGTGTGCAT 59.048 50.000 0.00 0.00 38.87 3.96
371 397 1.336755 GTTCGGGACTTTGTGTGCATT 59.663 47.619 0.00 0.00 38.87 3.56
372 398 1.234821 TCGGGACTTTGTGTGCATTC 58.765 50.000 0.00 0.00 38.87 2.67
373 399 0.110238 CGGGACTTTGTGTGCATTCG 60.110 55.000 0.00 0.00 38.87 3.34
374 400 0.387239 GGGACTTTGTGTGCATTCGC 60.387 55.000 0.00 0.00 38.87 4.70
387 413 3.715495 TGCATTCGCATTTCTTTTGTGT 58.285 36.364 0.00 0.00 45.36 3.72
388 414 4.864633 TGCATTCGCATTTCTTTTGTGTA 58.135 34.783 0.00 0.00 45.36 2.90
389 415 5.468592 TGCATTCGCATTTCTTTTGTGTAT 58.531 33.333 0.00 0.00 45.36 2.29
390 416 5.345472 TGCATTCGCATTTCTTTTGTGTATG 59.655 36.000 0.00 0.00 45.36 2.39
391 417 5.220265 GCATTCGCATTTCTTTTGTGTATGG 60.220 40.000 6.15 0.00 34.73 2.74
392 418 5.697473 TTCGCATTTCTTTTGTGTATGGA 57.303 34.783 0.00 0.00 0.00 3.41
393 419 5.041951 TCGCATTTCTTTTGTGTATGGAC 57.958 39.130 0.00 0.00 0.00 4.02
394 420 4.517075 TCGCATTTCTTTTGTGTATGGACA 59.483 37.500 0.00 0.00 0.00 4.02
395 421 5.182950 TCGCATTTCTTTTGTGTATGGACAT 59.817 36.000 0.00 0.00 38.04 3.06
396 422 5.286797 CGCATTTCTTTTGTGTATGGACATG 59.713 40.000 0.00 0.00 38.04 3.21
397 423 6.158598 GCATTTCTTTTGTGTATGGACATGT 58.841 36.000 0.00 0.00 38.04 3.21
398 424 6.308766 GCATTTCTTTTGTGTATGGACATGTC 59.691 38.462 17.91 17.91 38.04 3.06
399 425 7.596494 CATTTCTTTTGTGTATGGACATGTCT 58.404 34.615 24.50 9.24 38.04 3.41
400 426 6.558771 TTCTTTTGTGTATGGACATGTCTG 57.441 37.500 24.50 2.58 38.04 3.51
401 427 5.620206 TCTTTTGTGTATGGACATGTCTGT 58.380 37.500 24.50 15.58 38.04 3.41
402 428 6.061441 TCTTTTGTGTATGGACATGTCTGTT 58.939 36.000 24.50 12.31 38.04 3.16
403 429 6.545666 TCTTTTGTGTATGGACATGTCTGTTT 59.454 34.615 24.50 10.03 38.04 2.83
404 430 5.687770 TTGTGTATGGACATGTCTGTTTG 57.312 39.130 24.50 0.00 38.04 2.93
405 431 4.967036 TGTGTATGGACATGTCTGTTTGA 58.033 39.130 24.50 3.20 38.04 2.69
406 432 5.559770 TGTGTATGGACATGTCTGTTTGAT 58.440 37.500 24.50 10.05 38.04 2.57
407 433 5.412286 TGTGTATGGACATGTCTGTTTGATG 59.588 40.000 24.50 0.00 38.04 3.07
408 434 4.943093 TGTATGGACATGTCTGTTTGATGG 59.057 41.667 24.50 0.00 35.14 3.51
409 435 3.507162 TGGACATGTCTGTTTGATGGT 57.493 42.857 24.50 0.00 35.14 3.55
410 436 4.632327 TGGACATGTCTGTTTGATGGTA 57.368 40.909 24.50 0.00 35.14 3.25
411 437 4.323417 TGGACATGTCTGTTTGATGGTAC 58.677 43.478 24.50 4.55 35.14 3.34
412 438 4.202409 TGGACATGTCTGTTTGATGGTACA 60.202 41.667 24.50 7.10 38.36 2.90
413 439 4.943705 GGACATGTCTGTTTGATGGTACAT 59.056 41.667 24.50 0.00 38.60 2.29
414 440 5.065218 GGACATGTCTGTTTGATGGTACATC 59.935 44.000 24.50 2.40 38.60 3.06
415 441 5.559770 ACATGTCTGTTTGATGGTACATCA 58.440 37.500 7.78 7.78 35.68 3.07
416 442 6.003326 ACATGTCTGTTTGATGGTACATCAA 58.997 36.000 17.87 17.87 35.68 2.57
417 443 6.149973 ACATGTCTGTTTGATGGTACATCAAG 59.850 38.462 20.01 12.01 38.98 3.02
418 444 8.705810 ACATGTCTGTTTGATGGTACATCAAGG 61.706 40.741 20.01 15.29 38.98 3.61
548 686 6.088085 GTGCATTTCGTTTGGTATGAAAGAAG 59.912 38.462 0.00 0.00 43.17 2.85
553 691 8.842358 TTTCGTTTGGTATGAAAGAAGTATCT 57.158 30.769 0.00 0.00 36.95 1.98
566 710 8.587608 TGAAAGAAGTATCTGATTGCCATTTTT 58.412 29.630 0.00 0.00 35.59 1.94
648 951 7.711339 AGGCTAGTAACTAAAACATGCTACATC 59.289 37.037 0.00 0.00 0.00 3.06
769 1074 7.921786 TGAGAATAACCCATTACAAACTCTG 57.078 36.000 0.00 0.00 0.00 3.35
771 1076 7.606456 TGAGAATAACCCATTACAAACTCTGTC 59.394 37.037 0.00 0.00 39.64 3.51
833 1140 7.317390 TCACGAGTTATTACATGTAAGCAGAA 58.683 34.615 22.03 11.36 0.00 3.02
838 1145 7.402862 AGTTATTACATGTAAGCAGAACCCTT 58.597 34.615 22.03 5.52 0.00 3.95
855 1162 2.224314 CCCTTTTCTCTTGAAGACACGC 59.776 50.000 0.00 0.00 32.27 5.34
1017 1327 5.062558 GGAAAACATGAAAAATGAGGCATCG 59.937 40.000 0.00 0.00 0.00 3.84
1080 1390 7.132863 GTGAAGAGGATGTACAGAACAAAAAC 58.867 38.462 0.33 0.00 42.70 2.43
1131 1441 3.563808 CCAAAGCTGCACTGTTGTTAGTA 59.436 43.478 1.02 0.00 0.00 1.82
1327 1637 5.319140 TCGTGTTCGATTGATTTCCTCTA 57.681 39.130 0.00 0.00 41.35 2.43
1352 1662 0.388391 CAAACCGCACAATCCGCAAT 60.388 50.000 0.00 0.00 0.00 3.56
1478 1796 0.934496 TGTTCTCTGAAAACGCCACG 59.066 50.000 0.00 0.00 0.00 4.94
1552 1870 8.902540 TGCATAAGATAGTTGTAAATACCTGG 57.097 34.615 0.00 0.00 0.00 4.45
1611 1929 4.591321 AGGAATGACATATGTTGGTGGT 57.409 40.909 10.30 0.00 0.00 4.16
1613 1931 5.332743 AGGAATGACATATGTTGGTGGTTT 58.667 37.500 10.30 0.00 0.00 3.27
1615 1933 6.951198 AGGAATGACATATGTTGGTGGTTTAA 59.049 34.615 10.30 0.00 0.00 1.52
1625 1948 2.645802 TGGTGGTTTAAGTGTGTCACC 58.354 47.619 0.00 0.00 43.39 4.02
1629 1952 3.064820 GTGGTTTAAGTGTGTCACCTGTG 59.935 47.826 0.00 0.00 34.49 3.66
1657 1980 2.865119 TTCATTGCTCTCTTCAGGCA 57.135 45.000 0.00 0.00 0.00 4.75
1675 1998 4.467769 AGGCAATGTTCCCTGAGATTATG 58.532 43.478 0.00 0.00 0.00 1.90
1689 2012 9.123902 CCCTGAGATTATGTGATTGTTTGATTA 57.876 33.333 0.00 0.00 0.00 1.75
1739 2062 7.631510 TCCATTTGGATCTGGTAATCATCTA 57.368 36.000 0.00 0.00 39.78 1.98
1767 2090 6.146021 ACAAATTTTCATTGAATCGGACTTGC 59.854 34.615 0.00 0.00 0.00 4.01
1768 2091 4.844998 TTTTCATTGAATCGGACTTGCA 57.155 36.364 0.00 0.00 0.00 4.08
1773 2096 5.125356 TCATTGAATCGGACTTGCATATGT 58.875 37.500 4.29 0.00 0.00 2.29
1849 2172 7.928307 ACTATGTTGTGATAGCATTTTCAGT 57.072 32.000 0.00 0.00 32.13 3.41
2145 2473 7.880195 GGGAATATAGTCACATATTGCTCTGTT 59.120 37.037 2.18 0.00 38.53 3.16
2164 2492 5.352293 TCTGTTATGTGCATGAACATGACTC 59.648 40.000 31.18 18.40 43.70 3.36
2183 2511 9.381033 CATGACTCTCAAGTGATTATCTTTCTT 57.619 33.333 0.00 0.00 35.28 2.52
2459 2787 8.076178 AGGTTTGTCGAATTATTGAACTCTTTG 58.924 33.333 0.00 0.00 0.00 2.77
2500 2828 6.459066 TCATCTTCTATTTCGGTCATGGATC 58.541 40.000 0.00 0.00 0.00 3.36
2667 3000 4.574828 AGTGTCGTTGATTTAGCACAACTT 59.425 37.500 0.00 0.00 42.53 2.66
2721 3054 4.684484 ATTTTGGTACGGAGGGAGTATC 57.316 45.455 0.00 0.00 0.00 2.24
2797 3130 2.816087 CAATGGGTTCCTGACTGAACTG 59.184 50.000 4.16 0.00 43.31 3.16
2946 3800 5.808042 TTCTGCTAGAAGATTTGACATGC 57.192 39.130 0.00 0.00 29.50 4.06
3261 4115 4.613925 TGCCATCTCTCCTGATATTGTC 57.386 45.455 0.00 0.00 0.00 3.18
3278 4132 8.293157 TGATATTGTCATTTAACGTTTCTGCAA 58.707 29.630 5.91 10.38 0.00 4.08
3362 4219 5.516044 TCTCTAGGTGGCTAAACTATGACA 58.484 41.667 0.00 0.00 0.00 3.58
3447 4304 7.450014 TGTCCAAGAAAAAGGAATGCATAACTA 59.550 33.333 0.00 0.00 35.29 2.24
3706 7746 6.203723 CCAGTTTGGTTTCTTCTCTTCTACAG 59.796 42.308 0.00 0.00 31.35 2.74
3753 9564 0.321298 TGGTGGCCGCTCTAACTTTC 60.321 55.000 17.49 0.00 0.00 2.62
3779 9591 6.703607 TGAAGCTAGAGAAAAAGAAGACACAG 59.296 38.462 0.00 0.00 0.00 3.66
3790 9602 0.261696 AAGACACAGGGGCAAAGGTT 59.738 50.000 0.00 0.00 0.00 3.50
4001 9818 3.316283 ACCATGCTGTAAATTTGTTGCG 58.684 40.909 0.00 0.00 0.00 4.85
4026 9844 5.659440 AACAAACTGATGAACCAACAACT 57.341 34.783 0.00 0.00 0.00 3.16
4046 9864 9.483916 AACAACTAAATTAAAACTTGGGCATAC 57.516 29.630 0.00 0.00 0.00 2.39
4052 9870 2.981400 AAACTTGGGCATACGAAACG 57.019 45.000 0.00 0.00 0.00 3.60
4176 10019 6.866480 AGCATGGTTGATGGTATTTTTACAG 58.134 36.000 0.00 0.00 41.13 2.74
4259 10105 2.428890 TGGTCGTTTGGCACAGAAAAAT 59.571 40.909 0.00 0.00 42.39 1.82
4267 10113 3.376540 TGGCACAGAAAAATAAACACGC 58.623 40.909 0.00 0.00 0.00 5.34
4268 10114 3.067461 TGGCACAGAAAAATAAACACGCT 59.933 39.130 0.00 0.00 0.00 5.07
4279 10125 1.512926 AAACACGCTCCAAGTGCTAG 58.487 50.000 0.00 0.00 42.94 3.42
4369 10215 3.056832 GGGGATAATTGAGAGAAGGGGT 58.943 50.000 0.00 0.00 0.00 4.95
4385 10231 1.609210 GGTGGGAAATGTGGGTGGG 60.609 63.158 0.00 0.00 0.00 4.61
4419 10265 8.616076 ACATATTCTTTCAACCATTCGATCTTC 58.384 33.333 0.00 0.00 0.00 2.87
4426 10273 3.611766 ACCATTCGATCTTCGTTTCCT 57.388 42.857 0.00 0.00 41.35 3.36
4443 10290 0.951040 CCTCCTTGGTTGTCAGTCGC 60.951 60.000 0.00 0.00 0.00 5.19
4444 10291 0.951040 CTCCTTGGTTGTCAGTCGCC 60.951 60.000 0.00 0.00 0.00 5.54
4445 10292 2.317609 CCTTGGTTGTCAGTCGCCG 61.318 63.158 0.00 0.00 0.00 6.46
4446 10293 1.594293 CTTGGTTGTCAGTCGCCGT 60.594 57.895 0.00 0.00 0.00 5.68
4447 10294 1.831389 CTTGGTTGTCAGTCGCCGTG 61.831 60.000 0.00 0.00 0.00 4.94
4448 10295 3.041940 GGTTGTCAGTCGCCGTGG 61.042 66.667 0.00 0.00 0.00 4.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
96 113 1.215679 TCCTCGTCCTCCTCCTCCTT 61.216 60.000 0.00 0.00 0.00 3.36
100 117 1.928714 GAGGTCCTCGTCCTCCTCCT 61.929 65.000 2.28 0.00 43.90 3.69
288 314 0.898789 AGAACCGGATCGTGAGTGGT 60.899 55.000 9.46 0.00 33.45 4.16
328 354 0.817634 CCGAAAACACTCACCAGGCA 60.818 55.000 0.00 0.00 0.00 4.75
329 355 1.949257 CCGAAAACACTCACCAGGC 59.051 57.895 0.00 0.00 0.00 4.85
330 356 0.535102 AGCCGAAAACACTCACCAGG 60.535 55.000 0.00 0.00 0.00 4.45
331 357 1.002468 CAAGCCGAAAACACTCACCAG 60.002 52.381 0.00 0.00 0.00 4.00
332 358 1.021202 CAAGCCGAAAACACTCACCA 58.979 50.000 0.00 0.00 0.00 4.17
333 359 1.021968 ACAAGCCGAAAACACTCACC 58.978 50.000 0.00 0.00 0.00 4.02
334 360 2.716398 GAACAAGCCGAAAACACTCAC 58.284 47.619 0.00 0.00 0.00 3.51
335 361 1.329292 CGAACAAGCCGAAAACACTCA 59.671 47.619 0.00 0.00 0.00 3.41
336 362 1.333791 CCGAACAAGCCGAAAACACTC 60.334 52.381 0.00 0.00 0.00 3.51
337 363 0.661020 CCGAACAAGCCGAAAACACT 59.339 50.000 0.00 0.00 0.00 3.55
338 364 0.317519 CCCGAACAAGCCGAAAACAC 60.318 55.000 0.00 0.00 0.00 3.32
339 365 0.464013 TCCCGAACAAGCCGAAAACA 60.464 50.000 0.00 0.00 0.00 2.83
340 366 0.040692 GTCCCGAACAAGCCGAAAAC 60.041 55.000 0.00 0.00 0.00 2.43
341 367 0.179040 AGTCCCGAACAAGCCGAAAA 60.179 50.000 0.00 0.00 0.00 2.29
342 368 0.179040 AAGTCCCGAACAAGCCGAAA 60.179 50.000 0.00 0.00 0.00 3.46
343 369 0.179040 AAAGTCCCGAACAAGCCGAA 60.179 50.000 0.00 0.00 0.00 4.30
344 370 0.882927 CAAAGTCCCGAACAAGCCGA 60.883 55.000 0.00 0.00 0.00 5.54
345 371 1.164041 ACAAAGTCCCGAACAAGCCG 61.164 55.000 0.00 0.00 0.00 5.52
346 372 0.310854 CACAAAGTCCCGAACAAGCC 59.689 55.000 0.00 0.00 0.00 4.35
347 373 1.021968 ACACAAAGTCCCGAACAAGC 58.978 50.000 0.00 0.00 0.00 4.01
348 374 1.268539 GCACACAAAGTCCCGAACAAG 60.269 52.381 0.00 0.00 0.00 3.16
349 375 0.736053 GCACACAAAGTCCCGAACAA 59.264 50.000 0.00 0.00 0.00 2.83
350 376 0.393132 TGCACACAAAGTCCCGAACA 60.393 50.000 0.00 0.00 0.00 3.18
351 377 0.951558 ATGCACACAAAGTCCCGAAC 59.048 50.000 0.00 0.00 0.00 3.95
352 378 1.606668 GAATGCACACAAAGTCCCGAA 59.393 47.619 0.00 0.00 0.00 4.30
353 379 1.234821 GAATGCACACAAAGTCCCGA 58.765 50.000 0.00 0.00 0.00 5.14
354 380 0.110238 CGAATGCACACAAAGTCCCG 60.110 55.000 0.00 0.00 0.00 5.14
355 381 0.387239 GCGAATGCACACAAAGTCCC 60.387 55.000 0.00 0.00 42.15 4.46
356 382 3.092081 GCGAATGCACACAAAGTCC 57.908 52.632 0.00 0.00 42.15 3.85
367 393 5.220265 CCATACACAAAAGAAATGCGAATGC 60.220 40.000 0.00 0.00 43.20 3.56
368 394 6.033831 GTCCATACACAAAAGAAATGCGAATG 59.966 38.462 0.00 0.00 0.00 2.67
369 395 6.092748 GTCCATACACAAAAGAAATGCGAAT 58.907 36.000 0.00 0.00 0.00 3.34
370 396 5.009110 TGTCCATACACAAAAGAAATGCGAA 59.991 36.000 0.00 0.00 0.00 4.70
371 397 4.517075 TGTCCATACACAAAAGAAATGCGA 59.483 37.500 0.00 0.00 0.00 5.10
372 398 4.793071 TGTCCATACACAAAAGAAATGCG 58.207 39.130 0.00 0.00 0.00 4.73
373 399 6.158598 ACATGTCCATACACAAAAGAAATGC 58.841 36.000 0.00 0.00 38.78 3.56
374 400 7.539710 CAGACATGTCCATACACAAAAGAAATG 59.460 37.037 22.21 3.98 38.78 2.32
375 401 7.231317 ACAGACATGTCCATACACAAAAGAAAT 59.769 33.333 22.21 0.00 38.78 2.17
376 402 6.545666 ACAGACATGTCCATACACAAAAGAAA 59.454 34.615 22.21 0.00 38.78 2.52
377 403 6.061441 ACAGACATGTCCATACACAAAAGAA 58.939 36.000 22.21 0.00 38.78 2.52
378 404 5.620206 ACAGACATGTCCATACACAAAAGA 58.380 37.500 22.21 0.00 38.78 2.52
379 405 5.947228 ACAGACATGTCCATACACAAAAG 57.053 39.130 22.21 1.31 38.78 2.27
380 406 6.319911 TCAAACAGACATGTCCATACACAAAA 59.680 34.615 22.21 0.00 39.29 2.44
381 407 5.825151 TCAAACAGACATGTCCATACACAAA 59.175 36.000 22.21 0.00 39.29 2.83
382 408 5.372373 TCAAACAGACATGTCCATACACAA 58.628 37.500 22.21 0.00 39.29 3.33
383 409 4.967036 TCAAACAGACATGTCCATACACA 58.033 39.130 22.21 0.00 39.29 3.72
384 410 5.163723 CCATCAAACAGACATGTCCATACAC 60.164 44.000 22.21 0.00 39.29 2.90
385 411 4.943093 CCATCAAACAGACATGTCCATACA 59.057 41.667 22.21 2.98 39.29 2.29
386 412 4.943705 ACCATCAAACAGACATGTCCATAC 59.056 41.667 22.21 0.00 39.29 2.39
387 413 5.178096 ACCATCAAACAGACATGTCCATA 57.822 39.130 22.21 3.04 39.29 2.74
388 414 4.038271 ACCATCAAACAGACATGTCCAT 57.962 40.909 22.21 7.94 39.29 3.41
389 415 3.507162 ACCATCAAACAGACATGTCCA 57.493 42.857 22.21 0.25 39.29 4.02
390 416 4.323417 TGTACCATCAAACAGACATGTCC 58.677 43.478 22.21 4.75 39.29 4.02
391 417 5.643348 TGATGTACCATCAAACAGACATGTC 59.357 40.000 18.47 18.47 39.29 3.06
392 418 5.559770 TGATGTACCATCAAACAGACATGT 58.440 37.500 0.00 0.00 43.15 3.21
393 419 6.403964 CCTTGATGTACCATCAAACAGACATG 60.404 42.308 17.51 0.00 37.55 3.21
394 420 5.649395 CCTTGATGTACCATCAAACAGACAT 59.351 40.000 17.51 0.00 37.55 3.06
395 421 5.003160 CCTTGATGTACCATCAAACAGACA 58.997 41.667 17.51 0.00 37.55 3.41
396 422 5.245531 TCCTTGATGTACCATCAAACAGAC 58.754 41.667 17.51 0.00 37.55 3.51
397 423 5.497464 TCCTTGATGTACCATCAAACAGA 57.503 39.130 17.51 12.66 37.55 3.41
398 424 7.050377 ACTATCCTTGATGTACCATCAAACAG 58.950 38.462 17.51 13.94 37.55 3.16
399 425 6.957631 ACTATCCTTGATGTACCATCAAACA 58.042 36.000 17.51 9.46 37.55 2.83
400 426 7.169308 CGTACTATCCTTGATGTACCATCAAAC 59.831 40.741 17.51 11.29 37.55 2.93
401 427 7.068962 TCGTACTATCCTTGATGTACCATCAAA 59.931 37.037 17.51 7.26 37.55 2.69
402 428 6.548251 TCGTACTATCCTTGATGTACCATCAA 59.452 38.462 16.36 16.36 36.67 2.57
403 429 6.066032 TCGTACTATCCTTGATGTACCATCA 58.934 40.000 2.88 2.88 33.73 3.07
404 430 6.570672 TCGTACTATCCTTGATGTACCATC 57.429 41.667 0.00 0.00 33.73 3.51
405 431 8.824756 ATATCGTACTATCCTTGATGTACCAT 57.175 34.615 0.00 0.00 33.73 3.55
406 432 9.392259 CTATATCGTACTATCCTTGATGTACCA 57.608 37.037 0.00 0.00 33.73 3.25
407 433 8.344098 GCTATATCGTACTATCCTTGATGTACC 58.656 40.741 0.00 0.00 33.73 3.34
408 434 8.344098 GGCTATATCGTACTATCCTTGATGTAC 58.656 40.741 0.00 0.00 33.89 2.90
409 435 8.272889 AGGCTATATCGTACTATCCTTGATGTA 58.727 37.037 0.00 0.00 0.00 2.29
410 436 7.067615 CAGGCTATATCGTACTATCCTTGATGT 59.932 40.741 0.00 0.00 0.00 3.06
411 437 7.421599 CAGGCTATATCGTACTATCCTTGATG 58.578 42.308 0.00 0.00 0.00 3.07
412 438 6.547880 CCAGGCTATATCGTACTATCCTTGAT 59.452 42.308 0.00 0.00 0.00 2.57
413 439 5.886474 CCAGGCTATATCGTACTATCCTTGA 59.114 44.000 0.00 0.00 0.00 3.02
414 440 5.652891 ACCAGGCTATATCGTACTATCCTTG 59.347 44.000 0.00 0.00 0.00 3.61
415 441 5.828871 ACCAGGCTATATCGTACTATCCTT 58.171 41.667 0.00 0.00 0.00 3.36
416 442 5.453866 ACCAGGCTATATCGTACTATCCT 57.546 43.478 0.00 0.00 0.00 3.24
417 443 7.040548 GGATTACCAGGCTATATCGTACTATCC 60.041 44.444 0.00 0.00 35.97 2.59
418 444 7.040548 GGGATTACCAGGCTATATCGTACTATC 60.041 44.444 0.00 0.00 39.85 2.08
419 445 6.776603 GGGATTACCAGGCTATATCGTACTAT 59.223 42.308 0.00 0.00 39.85 2.12
420 446 6.069206 AGGGATTACCAGGCTATATCGTACTA 60.069 42.308 0.00 0.00 43.89 1.82
421 447 4.954826 GGGATTACCAGGCTATATCGTACT 59.045 45.833 0.00 0.00 39.85 2.73
422 448 4.954826 AGGGATTACCAGGCTATATCGTAC 59.045 45.833 0.00 0.00 43.89 3.67
423 449 5.202746 AGGGATTACCAGGCTATATCGTA 57.797 43.478 0.00 0.00 43.89 3.43
424 450 4.062490 AGGGATTACCAGGCTATATCGT 57.938 45.455 0.00 0.00 43.89 3.73
425 451 6.551601 AGAATAGGGATTACCAGGCTATATCG 59.448 42.308 0.00 0.00 43.89 2.92
426 452 7.922699 AGAATAGGGATTACCAGGCTATATC 57.077 40.000 0.00 0.00 43.89 1.63
427 453 8.802640 TCTAGAATAGGGATTACCAGGCTATAT 58.197 37.037 0.00 0.00 43.89 0.86
428 454 8.183571 TCTAGAATAGGGATTACCAGGCTATA 57.816 38.462 0.00 0.00 43.89 1.31
429 455 7.057732 TCTAGAATAGGGATTACCAGGCTAT 57.942 40.000 0.00 0.00 43.89 2.97
430 456 6.479395 TCTAGAATAGGGATTACCAGGCTA 57.521 41.667 0.00 0.00 43.89 3.93
431 457 5.355670 TCTAGAATAGGGATTACCAGGCT 57.644 43.478 0.00 0.00 43.89 4.58
463 592 6.587608 GCTTGGAAGTTTCTCATGGTATTTTG 59.412 38.462 0.00 0.00 0.00 2.44
548 686 9.807649 AAATACTCAAAAATGGCAATCAGATAC 57.192 29.630 0.00 0.00 0.00 2.24
553 691 7.894708 TCAGAAATACTCAAAAATGGCAATCA 58.105 30.769 0.00 0.00 0.00 2.57
648 951 7.488471 GCTAACACTGTATGGAAGTTACTACAG 59.512 40.741 16.78 16.78 44.18 2.74
730 1035 7.428020 GGTTATTCTCATGCATTGCAATTCTA 58.572 34.615 16.46 2.14 43.62 2.10
769 1074 8.721478 ACCATATATTGCATCTAATTTGTCGAC 58.279 33.333 9.11 9.11 0.00 4.20
771 1076 9.333497 CAACCATATATTGCATCTAATTTGTCG 57.667 33.333 0.00 0.00 0.00 4.35
833 1140 3.467803 CGTGTCTTCAAGAGAAAAGGGT 58.532 45.455 0.00 0.00 35.79 4.34
838 1145 2.218953 ACGCGTGTCTTCAAGAGAAA 57.781 45.000 12.93 0.00 35.79 2.52
855 1162 9.454585 TTGAGTTTTCGATTATATACTGGTACG 57.545 33.333 0.00 0.00 0.00 3.67
1017 1327 6.944234 ATAAATTCATCGTCCCCTTCTTTC 57.056 37.500 0.00 0.00 0.00 2.62
1022 1332 4.097892 GTGCAATAAATTCATCGTCCCCTT 59.902 41.667 0.00 0.00 0.00 3.95
1080 1390 3.060003 CAGTTTGAGTGAGAGCTTTCGTG 60.060 47.826 0.00 0.00 0.00 4.35
1337 1647 1.372838 TACCATTGCGGATTGTGCGG 61.373 55.000 0.00 0.00 38.63 5.69
1352 1662 7.490079 CAGCTGTAAATACTGACGTTATTACCA 59.510 37.037 5.25 0.00 33.10 3.25
1552 1870 4.094442 ACGAAACCTATTCGCCTTTTCATC 59.906 41.667 10.20 0.00 44.98 2.92
1595 1913 6.016693 CACACTTAAACCACCAACATATGTCA 60.017 38.462 9.23 0.00 0.00 3.58
1611 1929 3.275617 AGCACAGGTGACACACTTAAA 57.724 42.857 8.08 0.00 34.40 1.52
1613 1931 4.617253 AATAGCACAGGTGACACACTTA 57.383 40.909 8.08 0.00 34.40 2.24
1615 1933 4.826274 ATAATAGCACAGGTGACACACT 57.174 40.909 8.08 0.00 34.40 3.55
1625 1948 7.928103 AGAGAGCAATGAAAATAATAGCACAG 58.072 34.615 0.00 0.00 0.00 3.66
1629 1952 8.074972 CCTGAAGAGAGCAATGAAAATAATAGC 58.925 37.037 0.00 0.00 0.00 2.97
1657 1980 7.121382 ACAATCACATAATCTCAGGGAACATT 58.879 34.615 0.00 0.00 0.00 2.71
1739 2062 7.209475 AGTCCGATTCAATGAAAATTTGTTGT 58.791 30.769 0.00 0.00 0.00 3.32
1751 2074 5.428496 ACATATGCAAGTCCGATTCAATG 57.572 39.130 1.58 0.00 0.00 2.82
1752 2075 5.589855 TCAACATATGCAAGTCCGATTCAAT 59.410 36.000 1.58 0.00 0.00 2.57
1753 2076 4.940654 TCAACATATGCAAGTCCGATTCAA 59.059 37.500 1.58 0.00 0.00 2.69
1759 2082 4.273235 TGCTAATCAACATATGCAAGTCCG 59.727 41.667 1.58 0.00 0.00 4.79
1760 2083 5.278169 CCTGCTAATCAACATATGCAAGTCC 60.278 44.000 1.58 0.00 0.00 3.85
1767 2090 7.619050 AGATCTACCCTGCTAATCAACATATG 58.381 38.462 0.00 0.00 0.00 1.78
1768 2091 7.677745 AGAGATCTACCCTGCTAATCAACATAT 59.322 37.037 0.00 0.00 0.00 1.78
1773 2096 7.510685 ACAATAGAGATCTACCCTGCTAATCAA 59.489 37.037 0.00 0.00 0.00 2.57
1815 2138 7.028962 GCTATCACAACATAGTTGCAAATCAA 58.971 34.615 1.02 0.00 0.00 2.57
1826 2149 7.977904 TGACTGAAAATGCTATCACAACATAG 58.022 34.615 0.00 0.00 0.00 2.23
1837 2160 6.148315 CAGACTCAACATGACTGAAAATGCTA 59.852 38.462 0.00 0.00 30.95 3.49
1849 2172 8.988934 GTAATTTAGTCAACAGACTCAACATGA 58.011 33.333 0.00 0.00 41.54 3.07
2145 2473 5.088680 TGAGAGTCATGTTCATGCACATA 57.911 39.130 10.73 0.00 35.51 2.29
2183 2511 9.639563 TGCCATATTATCTGTTCCTAAAAATCA 57.360 29.630 0.00 0.00 0.00 2.57
2459 2787 5.002464 AGATGAAAATGCTACATTGGTGC 57.998 39.130 0.00 0.00 0.00 5.01
2575 2908 1.986882 AAAGGGGTGCTCTTCAAGTG 58.013 50.000 0.00 0.00 0.00 3.16
2691 3024 4.240096 CTCCGTACCAAAATAAGTGTCGT 58.760 43.478 0.00 0.00 0.00 4.34
2704 3037 1.133575 CCAGATACTCCCTCCGTACCA 60.134 57.143 0.00 0.00 0.00 3.25
2826 3680 6.062749 CCCAGTAGCACAACTATAGAGACTA 58.937 44.000 6.78 4.17 32.15 2.59
3169 4023 1.671850 CGTGCGCTAGAAGGGAAAAGA 60.672 52.381 9.73 0.00 0.00 2.52
3170 4024 0.721718 CGTGCGCTAGAAGGGAAAAG 59.278 55.000 9.73 0.00 0.00 2.27
3261 4115 7.750458 AGACACATATTGCAGAAACGTTAAATG 59.250 33.333 0.00 1.86 0.00 2.32
3278 4132 5.706833 TGAAAACACAGATGCAGACACATAT 59.293 36.000 0.00 0.00 0.00 1.78
3362 4219 4.096382 GGCGTTGTGATTAATCAGTGGATT 59.904 41.667 18.47 0.00 45.50 3.01
3447 4304 5.450412 CCCAACGCAACTGCAATATTAATCT 60.450 40.000 2.12 0.00 42.21 2.40
3514 4371 7.056635 ACTTCAATATGTGGGGATTAAGACTG 58.943 38.462 0.00 0.00 0.00 3.51
3620 7660 7.466805 CCATAAACAACATGATGTCAGTACTG 58.533 38.462 17.17 17.17 31.81 2.74
3681 7721 6.055588 TGTAGAAGAGAAGAAACCAAACTGG 58.944 40.000 0.00 0.00 45.02 4.00
3753 9564 6.703607 TGTGTCTTCTTTTTCTCTAGCTTCAG 59.296 38.462 0.00 0.00 0.00 3.02
3779 9591 4.464597 TGATATGTTTACAACCTTTGCCCC 59.535 41.667 0.00 0.00 0.00 5.80
3800 9612 7.398829 TCTTATGCCTGTAAAACCATACTTGA 58.601 34.615 0.00 0.00 0.00 3.02
3938 9755 2.300152 TCTGCTCAACTCGGTCAGAAAT 59.700 45.455 0.00 0.00 31.62 2.17
3946 9763 1.446907 AATTGCTCTGCTCAACTCGG 58.553 50.000 0.00 0.00 0.00 4.63
4001 9818 4.180057 TGTTGGTTCATCAGTTTGTTTGC 58.820 39.130 0.00 0.00 0.00 3.68
4026 9844 7.537991 CGTTTCGTATGCCCAAGTTTTAATTTA 59.462 33.333 0.00 0.00 0.00 1.40
4046 9864 2.033194 GGAGCCCTTGGTCGTTTCG 61.033 63.158 0.00 0.00 39.95 3.46
4096 9938 3.497332 TGCTAGGTGACTTGTGTCTACT 58.503 45.455 0.00 0.00 43.29 2.57
4259 10105 2.683968 CTAGCACTTGGAGCGTGTTTA 58.316 47.619 0.00 0.00 37.01 2.01
4267 10113 2.740981 CAACTGAAGCTAGCACTTGGAG 59.259 50.000 18.83 6.11 0.00 3.86
4268 10114 2.550855 CCAACTGAAGCTAGCACTTGGA 60.551 50.000 18.83 0.00 33.63 3.53
4279 10125 3.518634 TTGTTTGAACCCAACTGAAGC 57.481 42.857 0.00 0.00 30.88 3.86
4344 10190 5.341200 CCCCTTCTCTCAATTATCCCCTTTT 60.341 44.000 0.00 0.00 0.00 2.27
4369 10215 2.119391 GCCCACCCACATTTCCCA 59.881 61.111 0.00 0.00 0.00 4.37
4385 10231 4.485163 GTTGAAAGAATATGTGGTGTGGC 58.515 43.478 0.00 0.00 0.00 5.01
4419 10265 1.873591 CTGACAACCAAGGAGGAAACG 59.126 52.381 0.00 0.00 41.22 3.60
4426 10273 1.070786 GGCGACTGACAACCAAGGA 59.929 57.895 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.