Multiple sequence alignment - TraesCS6A01G347300

Loading Multiple Alignment...

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 TraesCS6A01G347300 chr6A 100.000 2534 0 0 1 2534 579820261 579822794 0.000000e+00 4680.0
1 TraesCS6A01G347300 chr6A 82.438 968 113 27 617 1558 579814441 579815377 0.000000e+00 793.0
2 TraesCS6A01G347300 chr6A 82.113 710 73 29 880 1558 579811615 579812301 2.200000e-155 558.0
3 TraesCS6A01G347300 chr6A 80.874 366 39 19 4 350 579813886 579814239 2.500000e-65 259.0
4 TraesCS6A01G347300 chr6A 85.526 76 11 0 750 825 579811528 579811603 2.090000e-11 80.5
5 TraesCS6A01G347300 chr6B 91.133 1218 52 21 513 1686 655277773 655278978 0.000000e+00 1600.0
6 TraesCS6A01G347300 chr6B 82.312 995 111 27 615 1558 655274951 655275931 0.000000e+00 802.0
7 TraesCS6A01G347300 chr6B 83.696 736 74 15 845 1564 655825832 655826537 0.000000e+00 652.0
8 TraesCS6A01G347300 chr6B 88.701 354 26 11 1 351 655277444 655277786 1.080000e-113 420.0
9 TraesCS6A01G347300 chr6B 83.732 418 65 2 1145 1559 655293905 655294322 2.360000e-105 392.0
10 TraesCS6A01G347300 chr6B 89.606 279 19 1 845 1113 655293643 655293921 1.870000e-91 346.0
11 TraesCS6A01G347300 chr6B 82.209 326 29 13 39 351 655274521 655274830 1.160000e-63 254.0
12 TraesCS6A01G347300 chr6B 80.212 283 31 11 894 1160 655272283 655272556 3.330000e-44 189.0
13 TraesCS6A01G347300 chr6B 81.567 217 17 10 573 767 655271966 655272181 9.380000e-35 158.0
14 TraesCS6A01G347300 chr6B 89.076 119 13 0 512 630 655274816 655274934 5.650000e-32 148.0
15 TraesCS6A01G347300 chr6B 89.256 121 10 3 512 630 655825556 655825675 5.650000e-32 148.0
16 TraesCS6A01G347300 chr6D 87.295 1220 99 27 512 1703 433645211 433646402 0.000000e+00 1343.0
17 TraesCS6A01G347300 chr6D 81.424 1039 130 35 572 1568 433641123 433642140 0.000000e+00 791.0
18 TraesCS6A01G347300 chr6D 80.811 912 107 24 671 1558 433697068 433696201 0.000000e+00 652.0
19 TraesCS6A01G347300 chr6D 89.045 356 31 6 1 351 433694457 433694105 3.870000e-118 435.0
20 TraesCS6A01G347300 chr6D 83.901 323 37 9 41 352 433644908 433645226 6.860000e-76 294.0
21 TraesCS6A01G347300 chr6D 93.333 105 5 2 527 630 433697256 433697153 1.210000e-33 154.0
22 TraesCS6A01G347300 chr6D 93.103 87 6 0 512 598 433694119 433694033 7.360000e-26 128.0
23 TraesCS6A01G347300 chr2D 90.342 849 66 8 1700 2534 538756823 538755977 0.000000e+00 1099.0
24 TraesCS6A01G347300 chr2D 88.816 152 15 1 360 511 176524788 176524937 4.300000e-43 185.0
25 TraesCS6A01G347300 chr2D 88.961 154 12 3 360 512 184791770 184791621 4.300000e-43 185.0
26 TraesCS6A01G347300 chr4D 89.059 850 74 7 1702 2534 140903168 140902321 0.000000e+00 1037.0
27 TraesCS6A01G347300 chr4D 87.660 859 81 10 1700 2534 334200424 334201281 0.000000e+00 976.0
28 TraesCS6A01G347300 chr4D 88.917 803 65 10 1753 2534 471959170 471959969 0.000000e+00 968.0
29 TraesCS6A01G347300 chr4D 88.792 803 72 8 1736 2534 482689260 482688472 0.000000e+00 968.0
30 TraesCS6A01G347300 chr4D 90.000 150 13 2 363 511 81139436 81139584 2.570000e-45 193.0
31 TraesCS6A01G347300 chr4D 89.262 149 14 2 363 511 3393265 3393411 4.300000e-43 185.0
32 TraesCS6A01G347300 chr4A 88.121 825 73 13 1733 2534 45135813 45136635 0.000000e+00 957.0
33 TraesCS6A01G347300 chr4A 80.776 593 73 19 1702 2258 413147543 413146956 2.330000e-115 425.0
34 TraesCS6A01G347300 chrUn 87.100 876 68 21 1702 2534 221217616 221218489 0.000000e+00 950.0
35 TraesCS6A01G347300 chr5D 86.830 858 80 13 1702 2534 173764197 173765046 0.000000e+00 928.0
36 TraesCS6A01G347300 chr5D 80.524 801 106 31 1748 2516 499408597 499407815 1.020000e-158 569.0
37 TraesCS6A01G347300 chr5A 85.549 865 92 16 1702 2534 611122026 611121163 0.000000e+00 874.0
38 TraesCS6A01G347300 chr5A 86.579 760 84 12 1783 2534 458477093 458476344 0.000000e+00 822.0
39 TraesCS6A01G347300 chr1A 84.633 872 95 15 1702 2534 549574589 549573718 0.000000e+00 832.0
40 TraesCS6A01G347300 chr3A 88.411 604 64 2 1932 2529 546686589 546685986 0.000000e+00 723.0
41 TraesCS6A01G347300 chr3A 78.000 700 112 25 1871 2534 743518395 743517702 3.930000e-108 401.0
42 TraesCS6A01G347300 chr3A 90.411 146 13 1 366 511 613161828 613161684 9.250000e-45 191.0
43 TraesCS6A01G347300 chr2A 87.831 189 20 2 1700 1887 104385088 104385274 4.240000e-53 219.0
44 TraesCS6A01G347300 chr7D 91.447 152 12 1 363 513 464086456 464086607 9.190000e-50 207.0
45 TraesCS6A01G347300 chr2B 91.156 147 13 0 368 514 126168336 126168482 1.540000e-47 200.0
46 TraesCS6A01G347300 chr7B 89.333 150 14 2 363 512 637198435 637198288 1.200000e-43 187.0
47 TraesCS6A01G347300 chr1B 89.796 147 14 1 365 511 265973377 265973522 1.200000e-43 187.0


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 TraesCS6A01G347300 chr6A 579820261 579822794 2533 False 4680.000000 4680 100.000000 1 2534 1 chr6A.!!$F1 2533
1 TraesCS6A01G347300 chr6A 579811528 579815377 3849 False 422.625000 793 82.737750 4 1558 4 chr6A.!!$F2 1554
2 TraesCS6A01G347300 chr6B 655271966 655278978 7012 False 510.142857 1600 85.030000 1 1686 7 chr6B.!!$F1 1685
3 TraesCS6A01G347300 chr6B 655825556 655826537 981 False 400.000000 652 86.476000 512 1564 2 chr6B.!!$F3 1052
4 TraesCS6A01G347300 chr6B 655293643 655294322 679 False 369.000000 392 86.669000 845 1559 2 chr6B.!!$F2 714
5 TraesCS6A01G347300 chr6D 433641123 433646402 5279 False 809.333333 1343 84.206667 41 1703 3 chr6D.!!$F1 1662
6 TraesCS6A01G347300 chr6D 433694033 433697256 3223 True 342.250000 652 89.073000 1 1558 4 chr6D.!!$R1 1557
7 TraesCS6A01G347300 chr2D 538755977 538756823 846 True 1099.000000 1099 90.342000 1700 2534 1 chr2D.!!$R2 834
8 TraesCS6A01G347300 chr4D 140902321 140903168 847 True 1037.000000 1037 89.059000 1702 2534 1 chr4D.!!$R1 832
9 TraesCS6A01G347300 chr4D 334200424 334201281 857 False 976.000000 976 87.660000 1700 2534 1 chr4D.!!$F3 834
10 TraesCS6A01G347300 chr4D 471959170 471959969 799 False 968.000000 968 88.917000 1753 2534 1 chr4D.!!$F4 781
11 TraesCS6A01G347300 chr4D 482688472 482689260 788 True 968.000000 968 88.792000 1736 2534 1 chr4D.!!$R2 798
12 TraesCS6A01G347300 chr4A 45135813 45136635 822 False 957.000000 957 88.121000 1733 2534 1 chr4A.!!$F1 801
13 TraesCS6A01G347300 chr4A 413146956 413147543 587 True 425.000000 425 80.776000 1702 2258 1 chr4A.!!$R1 556
14 TraesCS6A01G347300 chrUn 221217616 221218489 873 False 950.000000 950 87.100000 1702 2534 1 chrUn.!!$F1 832
15 TraesCS6A01G347300 chr5D 173764197 173765046 849 False 928.000000 928 86.830000 1702 2534 1 chr5D.!!$F1 832
16 TraesCS6A01G347300 chr5D 499407815 499408597 782 True 569.000000 569 80.524000 1748 2516 1 chr5D.!!$R1 768
17 TraesCS6A01G347300 chr5A 611121163 611122026 863 True 874.000000 874 85.549000 1702 2534 1 chr5A.!!$R2 832
18 TraesCS6A01G347300 chr5A 458476344 458477093 749 True 822.000000 822 86.579000 1783 2534 1 chr5A.!!$R1 751
19 TraesCS6A01G347300 chr1A 549573718 549574589 871 True 832.000000 832 84.633000 1702 2534 1 chr1A.!!$R1 832
20 TraesCS6A01G347300 chr3A 546685986 546686589 603 True 723.000000 723 88.411000 1932 2529 1 chr3A.!!$R1 597
21 TraesCS6A01G347300 chr3A 743517702 743518395 693 True 401.000000 401 78.000000 1871 2534 1 chr3A.!!$R3 663

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
700 4810 0.328258 AATGGACCCGGTCAAGAAGG 59.672 55.0 19.43 0.0 33.68 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2001 9672 0.875059 GACAACTGGCAGTAGGTTGC 59.125 55.0 22.37 7.8 42.55 4.17 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
44 45 2.201921 GCCATGGCAGATGAGATGAT 57.798 50.000 32.08 0.00 41.49 2.45
53 4013 6.888105 TGGCAGATGAGATGATGTAAAAGTA 58.112 36.000 0.00 0.00 0.00 2.24
77 4037 5.128171 AGTGTCCTAAAATACATCACGGCTA 59.872 40.000 0.00 0.00 0.00 3.93
97 4057 7.281324 ACGGCTATGTTTTGCATATACTTAACA 59.719 33.333 0.00 0.00 39.16 2.41
104 4064 9.632807 TGTTTTGCATATACTTAACAATTGGAC 57.367 29.630 10.83 0.00 0.00 4.02
108 4068 7.757526 TGCATATACTTAACAATTGGACACAC 58.242 34.615 10.83 0.00 0.00 3.82
109 4069 7.391833 TGCATATACTTAACAATTGGACACACA 59.608 33.333 10.83 0.00 0.00 3.72
111 4071 4.568152 ACTTAACAATTGGACACACAGC 57.432 40.909 10.83 0.00 0.00 4.40
112 4072 3.003275 ACTTAACAATTGGACACACAGCG 59.997 43.478 10.83 0.00 0.00 5.18
163 4126 0.472471 TTTCTTGTGGTCCCTCGCTT 59.528 50.000 0.00 0.00 0.00 4.68
216 4179 5.989477 TGCTCTATATTTGTAGCACTTGGT 58.011 37.500 0.00 0.00 39.92 3.67
284 4256 9.813826 TGGAGATACATCATCTATTAGAGAACA 57.186 33.333 0.00 0.00 44.41 3.18
336 4317 8.624670 ACCCTATTATACATCATCTGTAGGAGA 58.375 37.037 0.00 0.00 43.44 3.71
337 4318 9.653516 CCCTATTATACATCATCTGTAGGAGAT 57.346 37.037 0.00 0.00 43.44 2.75
345 4326 8.630054 ACATCATCTGTAGGAGATACTCTAAC 57.370 38.462 0.00 0.00 39.64 2.34
346 4327 7.389330 ACATCATCTGTAGGAGATACTCTAACG 59.611 40.741 0.00 0.00 39.64 3.18
347 4328 6.231951 TCATCTGTAGGAGATACTCTAACGG 58.768 44.000 0.00 0.00 39.64 4.44
348 4329 5.627182 TCTGTAGGAGATACTCTAACGGT 57.373 43.478 0.00 0.00 35.24 4.83
349 4330 5.999044 TCTGTAGGAGATACTCTAACGGTT 58.001 41.667 0.00 0.00 35.24 4.44
350 4331 6.421485 TCTGTAGGAGATACTCTAACGGTTT 58.579 40.000 0.00 0.00 35.24 3.27
351 4332 6.888632 TCTGTAGGAGATACTCTAACGGTTTT 59.111 38.462 0.00 0.00 35.24 2.43
352 4333 7.395489 TCTGTAGGAGATACTCTAACGGTTTTT 59.605 37.037 0.00 0.00 35.24 1.94
353 4334 7.542025 TGTAGGAGATACTCTAACGGTTTTTC 58.458 38.462 0.00 0.00 35.24 2.29
354 4335 5.648572 AGGAGATACTCTAACGGTTTTTCG 58.351 41.667 0.00 0.00 0.00 3.46
355 4336 5.416952 AGGAGATACTCTAACGGTTTTTCGA 59.583 40.000 0.00 0.00 0.00 3.71
356 4337 5.742926 GGAGATACTCTAACGGTTTTTCGAG 59.257 44.000 0.00 3.54 0.00 4.04
357 4338 6.404074 GGAGATACTCTAACGGTTTTTCGAGA 60.404 42.308 0.00 0.00 0.00 4.04
358 4339 6.553524 AGATACTCTAACGGTTTTTCGAGAG 58.446 40.000 13.44 13.44 37.24 3.20
359 4340 4.581077 ACTCTAACGGTTTTTCGAGAGT 57.419 40.909 14.48 14.48 38.58 3.24
360 4341 5.695851 ACTCTAACGGTTTTTCGAGAGTA 57.304 39.130 17.36 0.00 40.28 2.59
361 4342 5.456265 ACTCTAACGGTTTTTCGAGAGTAC 58.544 41.667 17.36 0.00 40.28 2.73
362 4343 5.009010 ACTCTAACGGTTTTTCGAGAGTACA 59.991 40.000 17.36 0.00 40.28 2.90
363 4344 5.830912 TCTAACGGTTTTTCGAGAGTACAA 58.169 37.500 0.00 0.00 0.00 2.41
364 4345 6.272318 TCTAACGGTTTTTCGAGAGTACAAA 58.728 36.000 0.00 0.00 0.00 2.83
365 4346 5.799681 AACGGTTTTTCGAGAGTACAAAA 57.200 34.783 0.00 0.00 0.00 2.44
366 4347 5.996669 ACGGTTTTTCGAGAGTACAAAAT 57.003 34.783 0.00 0.00 0.00 1.82
367 4348 5.744490 ACGGTTTTTCGAGAGTACAAAATG 58.256 37.500 0.00 0.00 0.00 2.32
368 4349 5.524646 ACGGTTTTTCGAGAGTACAAAATGA 59.475 36.000 0.00 0.00 0.00 2.57
369 4350 6.071463 CGGTTTTTCGAGAGTACAAAATGAG 58.929 40.000 0.00 0.00 0.00 2.90
370 4351 6.073980 CGGTTTTTCGAGAGTACAAAATGAGA 60.074 38.462 0.00 0.00 0.00 3.27
371 4352 7.070183 GGTTTTTCGAGAGTACAAAATGAGAC 58.930 38.462 0.00 0.00 0.00 3.36
372 4353 6.780706 TTTTCGAGAGTACAAAATGAGACC 57.219 37.500 0.00 0.00 0.00 3.85
373 4354 5.462530 TTCGAGAGTACAAAATGAGACCA 57.537 39.130 0.00 0.00 0.00 4.02
374 4355 5.462530 TCGAGAGTACAAAATGAGACCAA 57.537 39.130 0.00 0.00 0.00 3.67
375 4356 5.227908 TCGAGAGTACAAAATGAGACCAAC 58.772 41.667 0.00 0.00 0.00 3.77
376 4357 4.389077 CGAGAGTACAAAATGAGACCAACC 59.611 45.833 0.00 0.00 0.00 3.77
377 4358 4.652822 AGAGTACAAAATGAGACCAACCC 58.347 43.478 0.00 0.00 0.00 4.11
378 4359 4.104102 AGAGTACAAAATGAGACCAACCCA 59.896 41.667 0.00 0.00 0.00 4.51
379 4360 4.798882 AGTACAAAATGAGACCAACCCAA 58.201 39.130 0.00 0.00 0.00 4.12
380 4361 4.827284 AGTACAAAATGAGACCAACCCAAG 59.173 41.667 0.00 0.00 0.00 3.61
381 4362 3.909732 ACAAAATGAGACCAACCCAAGA 58.090 40.909 0.00 0.00 0.00 3.02
382 4363 4.285863 ACAAAATGAGACCAACCCAAGAA 58.714 39.130 0.00 0.00 0.00 2.52
383 4364 4.099419 ACAAAATGAGACCAACCCAAGAAC 59.901 41.667 0.00 0.00 0.00 3.01
384 4365 3.884037 AATGAGACCAACCCAAGAACT 57.116 42.857 0.00 0.00 0.00 3.01
385 4366 4.993705 AATGAGACCAACCCAAGAACTA 57.006 40.909 0.00 0.00 0.00 2.24
386 4367 4.993705 ATGAGACCAACCCAAGAACTAA 57.006 40.909 0.00 0.00 0.00 2.24
387 4368 4.081322 TGAGACCAACCCAAGAACTAAC 57.919 45.455 0.00 0.00 0.00 2.34
388 4369 3.181448 TGAGACCAACCCAAGAACTAACC 60.181 47.826 0.00 0.00 0.00 2.85
389 4370 2.107726 AGACCAACCCAAGAACTAACCC 59.892 50.000 0.00 0.00 0.00 4.11
390 4371 2.107726 GACCAACCCAAGAACTAACCCT 59.892 50.000 0.00 0.00 0.00 4.34
391 4372 2.107726 ACCAACCCAAGAACTAACCCTC 59.892 50.000 0.00 0.00 0.00 4.30
392 4373 2.423577 CAACCCAAGAACTAACCCTCG 58.576 52.381 0.00 0.00 0.00 4.63
393 4374 1.725803 ACCCAAGAACTAACCCTCGT 58.274 50.000 0.00 0.00 0.00 4.18
394 4375 2.052468 ACCCAAGAACTAACCCTCGTT 58.948 47.619 0.00 0.00 35.90 3.85
395 4376 2.224450 ACCCAAGAACTAACCCTCGTTG 60.224 50.000 0.00 0.00 33.17 4.10
396 4377 2.423577 CCAAGAACTAACCCTCGTTGG 58.576 52.381 0.00 0.00 36.57 3.77
397 4378 1.804748 CAAGAACTAACCCTCGTTGGC 59.195 52.381 0.00 0.00 33.96 4.52
398 4379 1.053424 AGAACTAACCCTCGTTGGCA 58.947 50.000 0.00 0.00 33.96 4.92
399 4380 1.628846 AGAACTAACCCTCGTTGGCAT 59.371 47.619 0.00 0.00 33.96 4.40
400 4381 2.039879 AGAACTAACCCTCGTTGGCATT 59.960 45.455 0.00 0.00 33.96 3.56
401 4382 2.579410 ACTAACCCTCGTTGGCATTT 57.421 45.000 0.00 0.00 33.96 2.32
402 4383 2.871453 ACTAACCCTCGTTGGCATTTT 58.129 42.857 0.00 0.00 33.96 1.82
403 4384 3.227614 ACTAACCCTCGTTGGCATTTTT 58.772 40.909 0.00 0.00 33.96 1.94
425 4406 6.642683 TTTTTATAGAAGAAACTCCGCGAG 57.357 37.500 8.23 5.77 35.52 5.03
426 4407 2.211353 ATAGAAGAAACTCCGCGAGC 57.789 50.000 8.23 0.00 32.04 5.03
427 4408 0.885879 TAGAAGAAACTCCGCGAGCA 59.114 50.000 8.23 0.00 32.04 4.26
428 4409 0.667792 AGAAGAAACTCCGCGAGCAC 60.668 55.000 8.23 0.00 32.04 4.40
429 4410 1.627550 GAAGAAACTCCGCGAGCACC 61.628 60.000 8.23 0.00 32.04 5.01
430 4411 2.357034 GAAACTCCGCGAGCACCA 60.357 61.111 8.23 0.00 32.04 4.17
431 4412 2.665185 AAACTCCGCGAGCACCAC 60.665 61.111 8.23 0.00 32.04 4.16
455 4436 2.490685 GAGCCGGGACTCGAACTC 59.509 66.667 2.18 0.00 42.43 3.01
456 4437 3.398353 GAGCCGGGACTCGAACTCG 62.398 68.421 2.18 4.83 42.43 4.18
458 4439 3.823330 CCGGGACTCGAACTCGGG 61.823 72.222 18.93 0.00 46.21 5.14
464 4445 3.382832 CTCGAACTCGGGTGGGCT 61.383 66.667 0.00 0.00 40.29 5.19
465 4446 2.920912 TCGAACTCGGGTGGGCTT 60.921 61.111 0.00 0.00 40.29 4.35
466 4447 2.742372 CGAACTCGGGTGGGCTTG 60.742 66.667 0.00 0.00 35.37 4.01
467 4448 3.056328 GAACTCGGGTGGGCTTGC 61.056 66.667 0.00 0.00 0.00 4.01
468 4449 3.842925 GAACTCGGGTGGGCTTGCA 62.843 63.158 0.00 0.00 0.00 4.08
469 4450 3.850098 AACTCGGGTGGGCTTGCAG 62.850 63.158 0.00 0.00 0.00 4.41
473 4454 3.994853 GGGTGGGCTTGCAGCAAC 61.995 66.667 2.83 1.39 44.75 4.17
474 4455 3.994853 GGTGGGCTTGCAGCAACC 61.995 66.667 2.83 10.66 44.75 3.77
475 4456 2.914097 GTGGGCTTGCAGCAACCT 60.914 61.111 19.85 0.00 44.75 3.50
476 4457 2.598394 TGGGCTTGCAGCAACCTC 60.598 61.111 19.85 9.46 44.75 3.85
477 4458 2.598394 GGGCTTGCAGCAACCTCA 60.598 61.111 19.85 0.00 44.75 3.86
478 4459 2.633509 GGGCTTGCAGCAACCTCAG 61.634 63.158 19.85 6.68 44.75 3.35
479 4460 2.257676 GCTTGCAGCAACCTCAGC 59.742 61.111 2.83 1.38 41.89 4.26
480 4461 2.266627 GCTTGCAGCAACCTCAGCT 61.267 57.895 2.83 0.00 41.89 4.24
485 4466 3.573229 AGCAACCTCAGCTGCCCA 61.573 61.111 9.47 0.00 41.61 5.36
486 4467 3.060615 GCAACCTCAGCTGCCCAG 61.061 66.667 9.47 0.70 32.18 4.45
496 4477 2.125106 CTGCCCAGCTAACGGGTC 60.125 66.667 9.27 2.95 46.40 4.46
497 4478 4.077184 TGCCCAGCTAACGGGTCG 62.077 66.667 9.27 0.00 46.40 4.79
498 4479 3.766691 GCCCAGCTAACGGGTCGA 61.767 66.667 9.27 0.00 46.40 4.20
499 4480 2.183555 CCCAGCTAACGGGTCGAC 59.816 66.667 7.13 7.13 39.05 4.20
500 4481 2.202570 CCAGCTAACGGGTCGACG 60.203 66.667 9.92 1.01 40.31 5.12
501 4482 2.879462 CAGCTAACGGGTCGACGC 60.879 66.667 21.72 21.72 37.37 5.19
502 4483 3.060615 AGCTAACGGGTCGACGCT 61.061 61.111 27.29 17.62 37.37 5.07
503 4484 2.578981 GCTAACGGGTCGACGCTC 60.579 66.667 27.29 10.93 37.37 5.03
504 4485 2.101770 CTAACGGGTCGACGCTCC 59.898 66.667 27.29 14.27 37.37 4.70
532 4513 7.994911 TCCTCATACTCTAACGGTTTCATAGTA 59.005 37.037 0.00 3.18 0.00 1.82
555 4537 6.915544 ATCTAATAAATCATCATGCGCGAT 57.084 33.333 12.10 0.00 0.00 4.58
602 4667 3.629398 ACTTAGCTACCATTTCAGCATGC 59.371 43.478 10.51 10.51 40.36 4.06
606 4671 2.101917 GCTACCATTTCAGCATGCCATT 59.898 45.455 15.66 0.00 37.73 3.16
651 4749 3.243704 TGTTTTGCTTTGGATGCCAGTAC 60.244 43.478 0.00 0.00 33.81 2.73
652 4750 2.584835 TTGCTTTGGATGCCAGTACT 57.415 45.000 0.00 0.00 33.81 2.73
653 4751 1.825090 TGCTTTGGATGCCAGTACTG 58.175 50.000 16.34 16.34 33.81 2.74
663 4761 1.515954 CCAGTACTGGGGTAGCACG 59.484 63.158 31.15 4.87 46.81 5.34
664 4762 0.968901 CCAGTACTGGGGTAGCACGA 60.969 60.000 31.15 0.00 46.81 4.35
665 4763 1.112113 CAGTACTGGGGTAGCACGAT 58.888 55.000 15.49 0.00 0.00 3.73
666 4764 1.112113 AGTACTGGGGTAGCACGATG 58.888 55.000 0.00 0.00 0.00 3.84
667 4765 0.822164 GTACTGGGGTAGCACGATGT 59.178 55.000 0.00 0.00 0.00 3.06
669 4767 1.112113 ACTGGGGTAGCACGATGTAG 58.888 55.000 0.00 0.00 0.00 2.74
699 4809 1.679032 GGAATGGACCCGGTCAAGAAG 60.679 57.143 19.43 0.00 33.68 2.85
700 4810 0.328258 AATGGACCCGGTCAAGAAGG 59.672 55.000 19.43 0.00 33.68 3.46
734 4851 1.351017 TCTGTTCCCTCCATGTCAACC 59.649 52.381 0.00 0.00 0.00 3.77
780 4902 1.475682 GTCTCCCCTCGTAATTCGTGT 59.524 52.381 0.00 0.00 40.80 4.49
784 4906 3.025978 TCCCCTCGTAATTCGTGTGTAT 58.974 45.455 0.00 0.00 40.80 2.29
799 4921 2.028567 TGTGTATCGTGTGGCATTCAGA 60.029 45.455 0.00 0.00 0.00 3.27
821 4943 1.068264 TGCGGATCGAGATCTATGCAC 60.068 52.381 17.32 0.00 36.40 4.57
824 4946 2.605030 GGATCGAGATCTATGCACTGC 58.395 52.381 12.22 0.00 37.92 4.40
825 4947 2.029560 GGATCGAGATCTATGCACTGCA 60.030 50.000 6.09 6.09 39.30 4.41
826 4948 3.553715 GGATCGAGATCTATGCACTGCAA 60.554 47.826 8.03 0.00 38.84 4.08
827 4949 3.089573 TCGAGATCTATGCACTGCAAG 57.910 47.619 8.03 7.26 43.62 4.01
828 4950 4.795635 GATCGAGATCTATGCACTGCAAGT 60.796 45.833 8.03 0.00 40.69 3.16
829 4951 6.573479 GATCGAGATCTATGCACTGCAAGTC 61.573 48.000 8.03 4.27 39.03 3.01
830 4952 8.658608 GATCGAGATCTATGCACTGCAAGTCT 62.659 46.154 8.03 8.85 39.03 3.24
838 4960 3.382111 CTGCAAGTCTCCCCTCGT 58.618 61.111 0.00 0.00 0.00 4.18
839 4961 2.579878 CTGCAAGTCTCCCCTCGTA 58.420 57.895 0.00 0.00 0.00 3.43
840 4962 0.895530 CTGCAAGTCTCCCCTCGTAA 59.104 55.000 0.00 0.00 0.00 3.18
841 4963 0.606604 TGCAAGTCTCCCCTCGTAAC 59.393 55.000 0.00 0.00 0.00 2.50
842 4964 0.896226 GCAAGTCTCCCCTCGTAACT 59.104 55.000 0.00 0.00 0.00 2.24
843 4965 1.135053 GCAAGTCTCCCCTCGTAACTC 60.135 57.143 0.00 0.00 0.00 3.01
927 5071 2.029244 ACGCGCATATAAATAGCATCGC 59.971 45.455 5.73 0.00 38.20 4.58
980 5124 4.321082 GCCGCGTCTTAATCTTAGATACCT 60.321 45.833 4.92 0.00 0.00 3.08
982 5126 6.214399 CCGCGTCTTAATCTTAGATACCTTT 58.786 40.000 4.92 0.00 0.00 3.11
1204 8301 0.104120 TTGTGACTCACGGTGTCAGG 59.896 55.000 8.17 0.53 43.90 3.86
1374 8474 1.596934 CGACTGCCCCAGTGTATGT 59.403 57.895 2.12 0.00 45.44 2.29
1634 8782 4.861462 CGTGTGCTGATCTATGGATGTATC 59.139 45.833 0.00 0.00 31.46 2.24
1666 8816 4.457496 ATCAGCCGCTCCACCGTG 62.457 66.667 0.00 0.00 0.00 4.94
1727 8880 0.949105 CTTCAACAGCCGCCTAACGT 60.949 55.000 0.00 0.00 41.42 3.99
1729 8882 1.959226 CAACAGCCGCCTAACGTGT 60.959 57.895 0.00 0.00 41.42 4.49
1787 8940 3.216292 AAAAACGCGGCAGGCAGT 61.216 55.556 12.47 0.00 43.84 4.40
2033 10284 2.537214 CCAGTTGTCATCATCATCGTCG 59.463 50.000 0.00 0.00 0.00 5.12
2041 10292 0.800683 TCATCATCGTCGTCGTTGGC 60.801 55.000 12.02 0.00 37.37 4.52
2143 10396 2.100031 CGCACTGTGATAGCGCCAA 61.100 57.895 12.86 0.00 45.14 4.52
2177 10430 2.107141 CTCTCCAACCGATCCGCC 59.893 66.667 0.00 0.00 0.00 6.13
2274 10539 3.036429 ATGCCTTGCTCGTCCTCCC 62.036 63.158 0.00 0.00 0.00 4.30
2293 10558 2.761195 CGACGATGAGGAGGCGACA 61.761 63.158 0.00 0.00 0.00 4.35
2298 10563 1.954362 GATGAGGAGGCGACACTGCT 61.954 60.000 0.00 0.00 42.20 4.24
2350 10615 2.584873 ATAAGACGAGGCGGAGGGGT 62.585 60.000 0.00 0.00 0.00 4.95
2407 10672 1.683790 AAGTTCATCTACGTGCGCGC 61.684 55.000 27.26 27.26 42.83 6.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 1.813178 CATCATCTCATCTGCCATGGC 59.187 52.381 30.54 30.54 42.35 4.40
26 27 3.141767 ACATCATCTCATCTGCCATGG 57.858 47.619 7.63 7.63 0.00 3.66
28 29 6.363065 ACTTTTACATCATCTCATCTGCCAT 58.637 36.000 0.00 0.00 0.00 4.40
31 32 7.493971 ACACTACTTTTACATCATCTCATCTGC 59.506 37.037 0.00 0.00 0.00 4.26
34 35 8.200792 AGGACACTACTTTTACATCATCTCATC 58.799 37.037 0.00 0.00 0.00 2.92
35 36 8.083828 AGGACACTACTTTTACATCATCTCAT 57.916 34.615 0.00 0.00 0.00 2.90
36 37 7.482169 AGGACACTACTTTTACATCATCTCA 57.518 36.000 0.00 0.00 0.00 3.27
37 38 9.871238 TTTAGGACACTACTTTTACATCATCTC 57.129 33.333 0.00 0.00 0.00 2.75
53 4013 4.081087 AGCCGTGATGTATTTTAGGACACT 60.081 41.667 0.00 0.00 0.00 3.55
97 4057 3.186119 CAAAAACGCTGTGTGTCCAATT 58.814 40.909 0.00 0.00 0.00 2.32
104 4064 0.457509 TGTGCCAAAAACGCTGTGTG 60.458 50.000 0.00 0.00 0.00 3.82
108 4068 1.324134 CACTTTGTGCCAAAAACGCTG 59.676 47.619 2.66 0.00 0.00 5.18
109 4069 1.203523 TCACTTTGTGCCAAAAACGCT 59.796 42.857 2.66 0.00 32.98 5.07
111 4071 3.186119 ACATCACTTTGTGCCAAAAACG 58.814 40.909 2.66 0.00 32.98 3.60
112 4072 6.654793 TTTACATCACTTTGTGCCAAAAAC 57.345 33.333 2.66 0.00 32.98 2.43
182 4145 0.744874 TATAGAGCAGCCACACGACC 59.255 55.000 0.00 0.00 0.00 4.79
246 4210 6.598503 TGATGTATCTCCAAATTCTGATGCT 58.401 36.000 0.00 0.00 0.00 3.79
303 4284 9.896645 CAGATGATGTATAATAGGGTAAAGCAT 57.103 33.333 0.00 0.00 0.00 3.79
310 4291 8.624670 TCTCCTACAGATGATGTATAATAGGGT 58.375 37.037 0.00 0.00 43.44 4.34
336 4317 6.264841 ACTCTCGAAAAACCGTTAGAGTAT 57.735 37.500 10.60 0.00 39.98 2.12
337 4318 5.695851 ACTCTCGAAAAACCGTTAGAGTA 57.304 39.130 10.60 0.00 39.98 2.59
338 4319 4.581077 ACTCTCGAAAAACCGTTAGAGT 57.419 40.909 7.54 7.54 38.26 3.24
339 4320 5.455392 TGTACTCTCGAAAAACCGTTAGAG 58.545 41.667 6.49 6.49 36.89 2.43
340 4321 5.437289 TGTACTCTCGAAAAACCGTTAGA 57.563 39.130 0.00 0.00 0.00 2.10
341 4322 6.515043 TTTGTACTCTCGAAAAACCGTTAG 57.485 37.500 0.00 0.00 0.00 2.34
342 4323 6.900568 TTTTGTACTCTCGAAAAACCGTTA 57.099 33.333 0.00 0.00 0.00 3.18
343 4324 5.799681 TTTTGTACTCTCGAAAAACCGTT 57.200 34.783 0.00 0.00 0.00 4.44
344 4325 5.524646 TCATTTTGTACTCTCGAAAAACCGT 59.475 36.000 0.00 0.00 0.00 4.83
345 4326 5.981174 TCATTTTGTACTCTCGAAAAACCG 58.019 37.500 0.00 0.00 0.00 4.44
346 4327 7.070183 GTCTCATTTTGTACTCTCGAAAAACC 58.930 38.462 0.00 0.00 0.00 3.27
347 4328 7.070183 GGTCTCATTTTGTACTCTCGAAAAAC 58.930 38.462 0.00 0.00 0.00 2.43
348 4329 6.764085 TGGTCTCATTTTGTACTCTCGAAAAA 59.236 34.615 0.00 0.00 0.00 1.94
349 4330 6.285224 TGGTCTCATTTTGTACTCTCGAAAA 58.715 36.000 0.00 0.00 0.00 2.29
350 4331 5.849510 TGGTCTCATTTTGTACTCTCGAAA 58.150 37.500 0.00 0.00 0.00 3.46
351 4332 5.462530 TGGTCTCATTTTGTACTCTCGAA 57.537 39.130 0.00 0.00 0.00 3.71
352 4333 5.227908 GTTGGTCTCATTTTGTACTCTCGA 58.772 41.667 0.00 0.00 0.00 4.04
353 4334 4.389077 GGTTGGTCTCATTTTGTACTCTCG 59.611 45.833 0.00 0.00 0.00 4.04
354 4335 4.695928 GGGTTGGTCTCATTTTGTACTCTC 59.304 45.833 0.00 0.00 0.00 3.20
355 4336 4.104102 TGGGTTGGTCTCATTTTGTACTCT 59.896 41.667 0.00 0.00 0.00 3.24
356 4337 4.394729 TGGGTTGGTCTCATTTTGTACTC 58.605 43.478 0.00 0.00 0.00 2.59
357 4338 4.447138 TGGGTTGGTCTCATTTTGTACT 57.553 40.909 0.00 0.00 0.00 2.73
358 4339 4.825085 TCTTGGGTTGGTCTCATTTTGTAC 59.175 41.667 0.00 0.00 0.00 2.90
359 4340 5.055265 TCTTGGGTTGGTCTCATTTTGTA 57.945 39.130 0.00 0.00 0.00 2.41
360 4341 3.909732 TCTTGGGTTGGTCTCATTTTGT 58.090 40.909 0.00 0.00 0.00 2.83
361 4342 4.342092 AGTTCTTGGGTTGGTCTCATTTTG 59.658 41.667 0.00 0.00 0.00 2.44
362 4343 4.546674 AGTTCTTGGGTTGGTCTCATTTT 58.453 39.130 0.00 0.00 0.00 1.82
363 4344 4.184649 AGTTCTTGGGTTGGTCTCATTT 57.815 40.909 0.00 0.00 0.00 2.32
364 4345 3.884037 AGTTCTTGGGTTGGTCTCATT 57.116 42.857 0.00 0.00 0.00 2.57
365 4346 4.506802 GGTTAGTTCTTGGGTTGGTCTCAT 60.507 45.833 0.00 0.00 0.00 2.90
366 4347 3.181448 GGTTAGTTCTTGGGTTGGTCTCA 60.181 47.826 0.00 0.00 0.00 3.27
367 4348 3.409570 GGTTAGTTCTTGGGTTGGTCTC 58.590 50.000 0.00 0.00 0.00 3.36
368 4349 2.107726 GGGTTAGTTCTTGGGTTGGTCT 59.892 50.000 0.00 0.00 0.00 3.85
369 4350 2.107726 AGGGTTAGTTCTTGGGTTGGTC 59.892 50.000 0.00 0.00 0.00 4.02
370 4351 2.107726 GAGGGTTAGTTCTTGGGTTGGT 59.892 50.000 0.00 0.00 0.00 3.67
371 4352 2.791655 GAGGGTTAGTTCTTGGGTTGG 58.208 52.381 0.00 0.00 0.00 3.77
372 4353 2.224450 ACGAGGGTTAGTTCTTGGGTTG 60.224 50.000 0.00 0.00 0.00 3.77
373 4354 2.052468 ACGAGGGTTAGTTCTTGGGTT 58.948 47.619 0.00 0.00 0.00 4.11
374 4355 1.725803 ACGAGGGTTAGTTCTTGGGT 58.274 50.000 0.00 0.00 0.00 4.51
375 4356 2.423577 CAACGAGGGTTAGTTCTTGGG 58.576 52.381 0.00 0.00 33.72 4.12
376 4357 2.423577 CCAACGAGGGTTAGTTCTTGG 58.576 52.381 0.00 0.00 33.72 3.61
377 4358 1.804748 GCCAACGAGGGTTAGTTCTTG 59.195 52.381 0.00 0.00 38.09 3.02
378 4359 1.418637 TGCCAACGAGGGTTAGTTCTT 59.581 47.619 0.00 0.00 38.09 2.52
379 4360 1.053424 TGCCAACGAGGGTTAGTTCT 58.947 50.000 0.00 0.00 38.09 3.01
380 4361 2.109425 ATGCCAACGAGGGTTAGTTC 57.891 50.000 0.00 0.00 38.09 3.01
381 4362 2.579410 AATGCCAACGAGGGTTAGTT 57.421 45.000 0.00 0.00 38.09 2.24
382 4363 2.579410 AAATGCCAACGAGGGTTAGT 57.421 45.000 0.00 0.00 38.09 2.24
383 4364 3.934457 AAAAATGCCAACGAGGGTTAG 57.066 42.857 0.00 0.00 38.09 2.34
402 4383 5.063060 GCTCGCGGAGTTTCTTCTATAAAAA 59.937 40.000 6.13 0.00 31.39 1.94
403 4384 4.565564 GCTCGCGGAGTTTCTTCTATAAAA 59.434 41.667 6.13 0.00 31.39 1.52
404 4385 4.110482 GCTCGCGGAGTTTCTTCTATAAA 58.890 43.478 6.13 0.00 31.39 1.40
405 4386 3.129813 TGCTCGCGGAGTTTCTTCTATAA 59.870 43.478 6.13 0.00 31.39 0.98
406 4387 2.686405 TGCTCGCGGAGTTTCTTCTATA 59.314 45.455 6.13 0.00 31.39 1.31
407 4388 1.476891 TGCTCGCGGAGTTTCTTCTAT 59.523 47.619 6.13 0.00 31.39 1.98
408 4389 0.885879 TGCTCGCGGAGTTTCTTCTA 59.114 50.000 6.13 0.00 31.39 2.10
409 4390 0.667792 GTGCTCGCGGAGTTTCTTCT 60.668 55.000 6.13 0.00 31.39 2.85
410 4391 1.627550 GGTGCTCGCGGAGTTTCTTC 61.628 60.000 6.13 0.00 31.39 2.87
411 4392 1.668151 GGTGCTCGCGGAGTTTCTT 60.668 57.895 6.13 0.00 31.39 2.52
412 4393 2.048127 GGTGCTCGCGGAGTTTCT 60.048 61.111 6.13 0.00 31.39 2.52
413 4394 2.357034 TGGTGCTCGCGGAGTTTC 60.357 61.111 6.13 0.00 31.39 2.78
414 4395 2.665185 GTGGTGCTCGCGGAGTTT 60.665 61.111 6.13 0.00 31.39 2.66
438 4419 2.490685 GAGTTCGAGTCCCGGCTC 59.509 66.667 0.00 0.00 39.14 4.70
439 4420 3.441290 CGAGTTCGAGTCCCGGCT 61.441 66.667 0.00 0.00 43.02 5.52
440 4421 4.493747 CCGAGTTCGAGTCCCGGC 62.494 72.222 0.00 0.00 43.02 6.13
441 4422 3.823330 CCCGAGTTCGAGTCCCGG 61.823 72.222 2.59 0.00 43.02 5.73
442 4423 3.060615 ACCCGAGTTCGAGTCCCG 61.061 66.667 2.59 0.00 43.02 5.14
443 4424 2.572284 CACCCGAGTTCGAGTCCC 59.428 66.667 2.59 0.00 43.02 4.46
444 4425 2.572284 CCACCCGAGTTCGAGTCC 59.428 66.667 2.59 0.00 43.02 3.85
445 4426 2.572284 CCCACCCGAGTTCGAGTC 59.428 66.667 2.59 0.00 43.02 3.36
446 4427 3.692406 GCCCACCCGAGTTCGAGT 61.692 66.667 2.59 0.00 43.02 4.18
447 4428 2.943978 AAGCCCACCCGAGTTCGAG 61.944 63.158 2.59 0.00 43.02 4.04
448 4429 2.920912 AAGCCCACCCGAGTTCGA 60.921 61.111 2.59 0.00 43.02 3.71
449 4430 2.742372 CAAGCCCACCCGAGTTCG 60.742 66.667 0.00 0.00 39.44 3.95
450 4431 3.056328 GCAAGCCCACCCGAGTTC 61.056 66.667 0.00 0.00 0.00 3.01
451 4432 3.850098 CTGCAAGCCCACCCGAGTT 62.850 63.158 0.00 0.00 0.00 3.01
452 4433 4.335647 CTGCAAGCCCACCCGAGT 62.336 66.667 0.00 0.00 0.00 4.18
463 4444 4.076244 AGCTGAGGTTGCTGCAAG 57.924 55.556 16.53 4.49 39.56 4.01
468 4449 3.564345 CTGGGCAGCTGAGGTTGCT 62.564 63.158 20.43 0.00 46.51 3.91
469 4450 3.060615 CTGGGCAGCTGAGGTTGC 61.061 66.667 20.43 0.23 46.58 4.17
483 4464 2.202570 CGTCGACCCGTTAGCTGG 60.203 66.667 10.58 0.00 0.00 4.85
484 4465 2.879462 GCGTCGACCCGTTAGCTG 60.879 66.667 10.58 0.00 0.00 4.24
485 4466 3.048941 GAGCGTCGACCCGTTAGCT 62.049 63.158 10.58 11.57 35.69 3.32
486 4467 2.578981 GAGCGTCGACCCGTTAGC 60.579 66.667 10.58 6.36 0.00 3.09
487 4468 2.101770 GGAGCGTCGACCCGTTAG 59.898 66.667 10.58 0.00 0.00 2.34
488 4469 3.803082 CGGAGCGTCGACCCGTTA 61.803 66.667 19.69 0.00 38.55 3.18
498 4479 0.107116 AGAGTATGAGGACGGAGCGT 60.107 55.000 0.00 0.00 45.10 5.07
499 4480 1.880271 TAGAGTATGAGGACGGAGCG 58.120 55.000 0.00 0.00 0.00 5.03
500 4481 2.031857 CGTTAGAGTATGAGGACGGAGC 60.032 54.545 0.00 0.00 0.00 4.70
501 4482 3.881780 CGTTAGAGTATGAGGACGGAG 57.118 52.381 0.00 0.00 0.00 4.63
504 4485 4.142534 TGAAACCGTTAGAGTATGAGGACG 60.143 45.833 0.00 0.00 0.00 4.79
505 4486 5.320549 TGAAACCGTTAGAGTATGAGGAC 57.679 43.478 0.00 0.00 0.00 3.85
506 4487 6.832384 ACTATGAAACCGTTAGAGTATGAGGA 59.168 38.462 0.00 0.00 0.00 3.71
507 4488 7.040473 ACTATGAAACCGTTAGAGTATGAGG 57.960 40.000 0.00 0.00 0.00 3.86
508 4489 9.828852 GATACTATGAAACCGTTAGAGTATGAG 57.171 37.037 6.20 0.00 30.72 2.90
509 4490 9.570468 AGATACTATGAAACCGTTAGAGTATGA 57.430 33.333 6.20 0.00 30.72 2.15
532 4513 6.915544 ATCGCGCATGATGATTTATTAGAT 57.084 33.333 8.75 0.00 0.00 1.98
542 4523 4.997565 TCTATTCATATCGCGCATGATGA 58.002 39.130 19.51 9.63 32.63 2.92
547 4528 8.338259 GGATAATTTTCTATTCATATCGCGCAT 58.662 33.333 8.75 2.59 0.00 4.73
651 4749 1.112113 ACTACATCGTGCTACCCCAG 58.888 55.000 0.00 0.00 0.00 4.45
652 4750 2.440517 TACTACATCGTGCTACCCCA 57.559 50.000 0.00 0.00 0.00 4.96
653 4751 4.142227 CCATATACTACATCGTGCTACCCC 60.142 50.000 0.00 0.00 0.00 4.95
654 4752 4.142227 CCCATATACTACATCGTGCTACCC 60.142 50.000 0.00 0.00 0.00 3.69
655 4753 4.703575 TCCCATATACTACATCGTGCTACC 59.296 45.833 0.00 0.00 0.00 3.18
656 4754 5.163642 CCTCCCATATACTACATCGTGCTAC 60.164 48.000 0.00 0.00 0.00 3.58
657 4755 4.948004 CCTCCCATATACTACATCGTGCTA 59.052 45.833 0.00 0.00 0.00 3.49
658 4756 3.764434 CCTCCCATATACTACATCGTGCT 59.236 47.826 0.00 0.00 0.00 4.40
659 4757 3.762288 TCCTCCCATATACTACATCGTGC 59.238 47.826 0.00 0.00 0.00 5.34
660 4758 5.977489 TTCCTCCCATATACTACATCGTG 57.023 43.478 0.00 0.00 0.00 4.35
661 4759 5.422331 CCATTCCTCCCATATACTACATCGT 59.578 44.000 0.00 0.00 0.00 3.73
663 4761 6.127026 GGTCCATTCCTCCCATATACTACATC 60.127 46.154 0.00 0.00 0.00 3.06
664 4762 5.726793 GGTCCATTCCTCCCATATACTACAT 59.273 44.000 0.00 0.00 0.00 2.29
665 4763 5.091552 GGTCCATTCCTCCCATATACTACA 58.908 45.833 0.00 0.00 0.00 2.74
666 4764 4.470304 GGGTCCATTCCTCCCATATACTAC 59.530 50.000 0.00 0.00 40.79 2.73
667 4765 4.695606 GGGTCCATTCCTCCCATATACTA 58.304 47.826 0.00 0.00 40.79 1.82
669 4767 2.236395 CGGGTCCATTCCTCCCATATAC 59.764 54.545 0.00 0.00 41.12 1.47
699 4809 4.583907 GGGAACAGAGTATACAGTACTCCC 59.416 50.000 13.48 13.48 43.61 4.30
700 4810 5.447757 AGGGAACAGAGTATACAGTACTCC 58.552 45.833 5.50 5.36 43.61 3.85
701 4811 5.532032 GGAGGGAACAGAGTATACAGTACTC 59.468 48.000 5.50 7.04 43.08 2.59
703 4813 5.198965 TGGAGGGAACAGAGTATACAGTAC 58.801 45.833 5.50 0.00 0.00 2.73
734 4851 4.402583 CACGTTACCATGCATGTTACAAG 58.597 43.478 24.58 10.99 0.00 3.16
780 4902 3.326836 TTCTGAATGCCACACGATACA 57.673 42.857 0.00 0.00 0.00 2.29
799 4921 2.232208 TGCATAGATCTCGATCCGCATT 59.768 45.455 0.00 0.00 38.58 3.56
821 4943 0.895530 TTACGAGGGGAGACTTGCAG 59.104 55.000 0.00 0.00 0.00 4.41
824 4946 1.477295 GGAGTTACGAGGGGAGACTTG 59.523 57.143 0.00 0.00 0.00 3.16
825 4947 1.849977 GGAGTTACGAGGGGAGACTT 58.150 55.000 0.00 0.00 0.00 3.01
826 4948 0.394080 CGGAGTTACGAGGGGAGACT 60.394 60.000 0.00 0.00 35.47 3.24
827 4949 0.393537 TCGGAGTTACGAGGGGAGAC 60.394 60.000 0.00 0.00 38.06 3.36
828 4950 0.329261 TTCGGAGTTACGAGGGGAGA 59.671 55.000 0.00 0.00 44.47 3.71
829 4951 1.337387 GATTCGGAGTTACGAGGGGAG 59.663 57.143 0.00 0.00 44.47 4.30
830 4952 1.064166 AGATTCGGAGTTACGAGGGGA 60.064 52.381 0.00 0.00 44.47 4.81
831 4953 1.400737 AGATTCGGAGTTACGAGGGG 58.599 55.000 0.00 0.00 44.47 4.79
832 4954 2.030981 GCTAGATTCGGAGTTACGAGGG 60.031 54.545 0.00 0.00 44.47 4.30
833 4955 2.879646 AGCTAGATTCGGAGTTACGAGG 59.120 50.000 0.00 0.00 44.47 4.63
834 4956 4.555348 AAGCTAGATTCGGAGTTACGAG 57.445 45.455 0.00 0.00 44.47 4.18
835 4957 4.024218 GCTAAGCTAGATTCGGAGTTACGA 60.024 45.833 0.00 0.00 41.76 3.43
836 4958 4.023878 AGCTAAGCTAGATTCGGAGTTACG 60.024 45.833 0.00 0.00 36.99 3.18
837 4959 5.216648 CAGCTAAGCTAGATTCGGAGTTAC 58.783 45.833 0.00 0.00 36.40 2.50
838 4960 4.278669 CCAGCTAAGCTAGATTCGGAGTTA 59.721 45.833 0.00 0.00 36.40 2.24
839 4961 3.068873 CCAGCTAAGCTAGATTCGGAGTT 59.931 47.826 0.00 0.00 36.40 3.01
840 4962 2.625790 CCAGCTAAGCTAGATTCGGAGT 59.374 50.000 0.00 0.00 36.40 3.85
841 4963 2.029470 CCCAGCTAAGCTAGATTCGGAG 60.029 54.545 0.00 0.00 36.40 4.63
842 4964 1.964223 CCCAGCTAAGCTAGATTCGGA 59.036 52.381 0.00 0.00 36.40 4.55
843 4965 1.689273 ACCCAGCTAAGCTAGATTCGG 59.311 52.381 0.00 0.00 36.40 4.30
909 5053 4.509230 AGATGGCGATGCTATTTATATGCG 59.491 41.667 0.00 0.00 27.76 4.73
958 5102 5.373981 AGGTATCTAAGATTAAGACGCGG 57.626 43.478 12.47 0.00 0.00 6.46
980 5124 5.371526 CCATTGCTGGAGCTAAGAGATAAA 58.628 41.667 0.00 0.00 46.37 1.40
982 5126 3.244353 GCCATTGCTGGAGCTAAGAGATA 60.244 47.826 0.00 0.00 46.37 1.98
1368 8468 1.655885 CGCAGGCATTGGCACATACA 61.656 55.000 13.20 0.00 43.71 2.29
1374 8474 4.695993 TCGTCGCAGGCATTGGCA 62.696 61.111 13.20 0.00 43.71 4.92
1666 8816 2.666994 GCGACTCTTAACTGGTGTAAGC 59.333 50.000 0.00 0.00 0.00 3.09
1781 8934 2.033757 CTGAAGCCAGCACTGCCT 59.966 61.111 0.00 0.00 33.07 4.75
2001 9672 0.875059 GACAACTGGCAGTAGGTTGC 59.125 55.000 22.37 7.80 42.55 4.17
2011 9691 2.283298 ACGATGATGATGACAACTGGC 58.717 47.619 0.00 0.00 0.00 4.85
2033 10284 3.934391 CTCGGACCAGGCCAACGAC 62.934 68.421 5.01 0.00 0.00 4.34
2041 10292 1.797211 GCTCGATACCTCGGACCAGG 61.797 65.000 8.07 8.07 45.10 4.45
2109 10361 4.391830 ACAGTGCGATATCGTTGAAAATGT 59.608 37.500 24.99 16.91 42.22 2.71
2188 10441 2.888464 CTACTGGGCGGAGAGGACGA 62.888 65.000 0.00 0.00 0.00 4.20
2274 10539 3.209812 TCGCCTCCTCATCGTCGG 61.210 66.667 0.00 0.00 0.00 4.79
2293 10558 3.873026 GAGCACACTCGGCAGCAGT 62.873 63.158 0.00 0.00 32.04 4.40
2378 10643 3.367087 CGTAGATGAACTTCCAGGACGTT 60.367 47.826 11.11 11.11 0.00 3.99
2407 10672 4.514577 CGTGGCGCCTAGACAGGG 62.515 72.222 29.70 0.98 39.56 4.45
2453 10718 1.376424 CACCTTCCAGACTGCGCAT 60.376 57.895 12.24 0.17 0.00 4.73


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

AutoCloner maintained by Alex Coulton.