Multiple sequence alignment - TraesCS5A01G254600

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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 TraesCS5A01G254600 chr5A 100.000 5378 0 0 1 5378 470192345 470197722 0.000000e+00 9932.0
1 TraesCS5A01G254600 chr5A 86.000 400 35 4 4990 5378 76240232 76239843 5.010000e-110 409.0
2 TraesCS5A01G254600 chr5A 92.308 39 3 0 2042 2080 351474467 351474505 7.520000e-04 56.5
3 TraesCS5A01G254600 chr5D 92.955 4982 210 66 5 4884 368329314 368334256 0.000000e+00 7125.0
4 TraesCS5A01G254600 chr5D 91.990 387 22 2 4998 5375 79129326 79128940 7.930000e-148 534.0
5 TraesCS5A01G254600 chr5D 94.382 89 5 0 4910 4998 368347259 368347347 2.610000e-28 137.0
6 TraesCS5A01G254600 chr5D 94.872 39 2 0 2042 2080 264795574 264795612 1.620000e-05 62.1
7 TraesCS5A01G254600 chr5B 92.271 4981 234 66 5 4888 436255219 436260145 0.000000e+00 6926.0
8 TraesCS5A01G254600 chr5B 92.308 39 3 0 2042 2080 297106188 297106226 7.520000e-04 56.5
9 TraesCS5A01G254600 chr7A 79.478 3216 540 90 1078 4243 206910818 206913963 0.000000e+00 2172.0
10 TraesCS5A01G254600 chr7A 92.172 396 20 3 4992 5377 216035252 216034858 2.830000e-152 549.0
11 TraesCS5A01G254600 chr7B 78.554 3222 563 96 1078 4243 161776639 161779788 0.000000e+00 2004.0
12 TraesCS5A01G254600 chr7D 79.606 2790 490 61 1078 3835 197610796 197613538 0.000000e+00 1927.0
13 TraesCS5A01G254600 chr7D 93.041 388 17 2 4998 5375 58150735 58150348 4.700000e-155 558.0
14 TraesCS5A01G254600 chr7D 92.621 393 19 2 4996 5378 546779073 546778681 1.690000e-154 556.0
15 TraesCS5A01G254600 chr7D 92.327 391 21 1 4996 5377 546778672 546778282 1.020000e-151 547.0
16 TraesCS5A01G254600 chr7D 94.150 359 20 1 4995 5352 554676003 554675645 3.660000e-151 545.0
17 TraesCS5A01G254600 chr7D 80.060 336 48 11 3920 4243 197613806 197614134 1.160000e-56 231.0
18 TraesCS5A01G254600 chr1A 94.944 356 17 1 4998 5352 560264383 560264738 1.690000e-154 556.0
19 TraesCS5A01G254600 chr1A 92.784 388 18 2 4998 5375 58173389 58173002 2.190000e-153 553.0
20 TraesCS5A01G254600 chr1A 72.556 532 110 26 3219 3741 117246836 117247340 2.020000e-29 141.0
21 TraesCS5A01G254600 chr1A 95.000 40 2 0 4114 4153 243607992 243608031 4.500000e-06 63.9
22 TraesCS5A01G254600 chr6D 94.150 359 18 3 4996 5352 189420379 189420022 1.320000e-150 544.0
23 TraesCS5A01G254600 chr4A 84.872 390 40 5 4998 5378 581316380 581316759 5.090000e-100 375.0
24 TraesCS5A01G254600 chr3D 83.478 115 13 6 3952 4062 609739077 609738965 9.530000e-18 102.0
25 TraesCS5A01G254600 chr3D 78.523 149 21 10 3916 4058 46583410 46583553 2.670000e-13 87.9
26 TraesCS5A01G254600 chr3A 83.478 115 13 6 3952 4062 743377872 743377760 9.530000e-18 102.0
27 TraesCS5A01G254600 chr3A 79.085 153 20 11 3918 4065 57944790 57944645 1.590000e-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 TraesCS5A01G254600 chr5A 470192345 470197722 5377 False 9932.0 9932 100.000 1 5378 1 chr5A.!!$F2 5377
1 TraesCS5A01G254600 chr5D 368329314 368334256 4942 False 7125.0 7125 92.955 5 4884 1 chr5D.!!$F2 4879
2 TraesCS5A01G254600 chr5B 436255219 436260145 4926 False 6926.0 6926 92.271 5 4888 1 chr5B.!!$F2 4883
3 TraesCS5A01G254600 chr7A 206910818 206913963 3145 False 2172.0 2172 79.478 1078 4243 1 chr7A.!!$F1 3165
4 TraesCS5A01G254600 chr7B 161776639 161779788 3149 False 2004.0 2004 78.554 1078 4243 1 chr7B.!!$F1 3165
5 TraesCS5A01G254600 chr7D 197610796 197614134 3338 False 1079.0 1927 79.833 1078 4243 2 chr7D.!!$F1 3165
6 TraesCS5A01G254600 chr7D 546778282 546779073 791 True 551.5 556 92.474 4996 5378 2 chr7D.!!$R3 382

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
451 467 0.109412 GAGCCTGACACTGCAAATGC 60.109 55.0 0.00 0.0 42.50 3.56 F
615 633 0.666913 GGCATGGCAGCAGTGATAAG 59.333 55.0 15.47 0.0 35.83 1.73 F
886 916 0.689745 TGTCCCCCTCTACAATCCCG 60.690 60.0 0.00 0.0 0.00 5.14 F
2082 2128 0.835543 AGCTCTCCAACTGCACCTCT 60.836 55.0 0.00 0.0 0.00 3.69 F
2961 3007 0.109272 TCGTGACGCTCAACATCTCC 60.109 55.0 0.00 0.0 0.00 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2283 2329 1.193426 GTCAAGTTCTGCAGCTCGAAC 59.807 52.381 9.47 16.0 39.74 3.95 R
2288 2334 1.506493 CTTCGTCAAGTTCTGCAGCT 58.494 50.000 9.47 0.0 0.00 4.24 R
2367 2413 2.038690 CCGCAGCCGATAGAGGTTA 58.961 57.895 0.00 0.0 36.29 2.85 R
3636 3694 1.898154 GCAGTCGTGGTGGAGGTAT 59.102 57.895 0.00 0.0 0.00 2.73 R
4729 5067 0.382873 CGCATCACCCACCAATCATG 59.617 55.000 0.00 0.0 0.00 3.07 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
56 57 5.479306 TCAGAGGTTCAGAACTAAAATCGG 58.521 41.667 13.13 5.40 0.00 4.18
120 122 5.985781 GTACATTTGTACTGTGGAAGTGTG 58.014 41.667 12.51 0.00 45.47 3.82
121 123 3.882888 ACATTTGTACTGTGGAAGTGTGG 59.117 43.478 0.00 0.00 40.26 4.17
122 124 3.916359 TTTGTACTGTGGAAGTGTGGA 57.084 42.857 0.00 0.00 40.26 4.02
125 127 3.239449 TGTACTGTGGAAGTGTGGAGAT 58.761 45.455 0.00 0.00 40.26 2.75
130 132 3.609853 TGTGGAAGTGTGGAGATAATGC 58.390 45.455 0.00 0.00 0.00 3.56
135 137 1.202580 AGTGTGGAGATAATGCGAGGC 60.203 52.381 0.00 0.00 0.00 4.70
144 146 4.060900 AGATAATGCGAGGCACAGTAATG 58.939 43.478 0.00 0.00 43.04 1.90
145 147 2.113860 AATGCGAGGCACAGTAATGT 57.886 45.000 0.00 0.00 43.04 2.71
172 175 7.945033 CACCAATGCAGTACAAGTTAATTTT 57.055 32.000 0.00 0.00 0.00 1.82
173 176 8.364129 CACCAATGCAGTACAAGTTAATTTTT 57.636 30.769 0.00 0.00 0.00 1.94
228 233 5.409520 TGTAAAGTGCAAAGTAGCAGATCTG 59.590 40.000 18.84 18.84 46.69 2.90
244 249 1.220529 TCTGCAGAAGAACACTTGCG 58.779 50.000 15.67 0.00 29.54 4.85
274 279 3.903932 GAGGCAGCCGCAAAGCAAC 62.904 63.158 10.86 0.00 41.24 4.17
306 311 6.075762 TGTTCAGACCATCAGAAACATTTG 57.924 37.500 0.00 0.00 0.00 2.32
337 342 0.253894 TAACCCCGCTAAGAAAGGGC 59.746 55.000 0.00 0.00 43.96 5.19
393 408 0.540365 CCACTGTCAACCCCTGCATT 60.540 55.000 0.00 0.00 0.00 3.56
394 409 1.331214 CACTGTCAACCCCTGCATTT 58.669 50.000 0.00 0.00 0.00 2.32
415 431 3.914426 ATGCAGGGTAGTACAAAGGAG 57.086 47.619 2.06 0.00 0.00 3.69
447 463 0.250038 GAGTGAGCCTGACACTGCAA 60.250 55.000 0.00 0.00 46.57 4.08
449 465 1.202855 AGTGAGCCTGACACTGCAAAT 60.203 47.619 0.00 0.00 45.19 2.32
450 466 1.068748 GTGAGCCTGACACTGCAAATG 60.069 52.381 0.00 0.00 35.66 2.32
451 467 0.109412 GAGCCTGACACTGCAAATGC 60.109 55.000 0.00 0.00 42.50 3.56
459 476 1.909781 ACTGCAAATGCCCCCACAG 60.910 57.895 2.46 0.00 41.18 3.66
535 552 0.880278 TTCACAGAGCACGACAAGGC 60.880 55.000 0.00 0.00 0.00 4.35
588 606 4.202264 ACAAGTCAGATTAGATTAGGGGCG 60.202 45.833 0.00 0.00 0.00 6.13
601 619 3.896133 GGGCGCTGTCATGGCATG 61.896 66.667 21.42 21.42 0.00 4.06
610 628 2.049767 TCATGGCATGGCAGCAGTG 61.050 57.895 27.02 19.53 35.83 3.66
615 633 0.666913 GGCATGGCAGCAGTGATAAG 59.333 55.000 15.47 0.00 35.83 1.73
616 634 1.386533 GCATGGCAGCAGTGATAAGT 58.613 50.000 0.00 0.00 0.00 2.24
617 635 2.564771 GCATGGCAGCAGTGATAAGTA 58.435 47.619 0.00 0.00 0.00 2.24
618 636 2.289002 GCATGGCAGCAGTGATAAGTAC 59.711 50.000 0.00 0.00 0.00 2.73
619 637 2.293677 TGGCAGCAGTGATAAGTACG 57.706 50.000 0.00 0.00 0.00 3.67
620 638 1.548719 TGGCAGCAGTGATAAGTACGT 59.451 47.619 0.00 0.00 0.00 3.57
621 639 1.927174 GGCAGCAGTGATAAGTACGTG 59.073 52.381 0.00 0.00 0.00 4.49
622 640 1.324736 GCAGCAGTGATAAGTACGTGC 59.675 52.381 0.00 0.00 0.00 5.34
623 641 1.583856 CAGCAGTGATAAGTACGTGCG 59.416 52.381 0.00 0.00 36.04 5.34
642 660 1.150827 GTACGTACACCAAGTTGGCC 58.849 55.000 22.25 0.00 42.67 5.36
643 661 1.050204 TACGTACACCAAGTTGGCCT 58.950 50.000 22.25 9.38 42.67 5.19
644 662 1.050204 ACGTACACCAAGTTGGCCTA 58.950 50.000 22.25 8.34 42.67 3.93
645 663 1.417145 ACGTACACCAAGTTGGCCTAA 59.583 47.619 22.25 2.26 42.67 2.69
646 664 2.158784 ACGTACACCAAGTTGGCCTAAA 60.159 45.455 22.25 0.39 42.67 1.85
647 665 2.224784 CGTACACCAAGTTGGCCTAAAC 59.775 50.000 22.25 11.69 42.67 2.01
648 666 2.445682 ACACCAAGTTGGCCTAAACA 57.554 45.000 22.25 0.00 42.67 2.83
802 826 4.884247 ACGGGATTAGCTACTTAATCTGC 58.116 43.478 6.85 0.00 39.13 4.26
858 888 8.174733 TCTTGTCTAGGGGTATAAACTAATCG 57.825 38.462 0.00 0.00 0.00 3.34
862 892 4.347360 AGGGGTATAAACTAATCGTGGC 57.653 45.455 0.00 0.00 0.00 5.01
868 898 1.632046 AAACTAATCGTGGCGCGGTG 61.632 55.000 21.40 4.94 41.72 4.94
886 916 0.689745 TGTCCCCCTCTACAATCCCG 60.690 60.000 0.00 0.00 0.00 5.14
927 957 3.211963 GCCACATCCCCATCGCAC 61.212 66.667 0.00 0.00 0.00 5.34
935 965 1.905843 CCCCATCGCACCACCAAAA 60.906 57.895 0.00 0.00 0.00 2.44
936 966 1.467678 CCCCATCGCACCACCAAAAA 61.468 55.000 0.00 0.00 0.00 1.94
1731 1777 2.538437 CAGCTCAAGAAGATCCAGACG 58.462 52.381 0.00 0.00 0.00 4.18
1737 1783 3.196469 TCAAGAAGATCCAGACGATTGCT 59.804 43.478 0.00 0.00 0.00 3.91
1830 1876 7.415086 TCTACCTCTACCAGAATTCTCTTTCT 58.585 38.462 4.57 0.00 36.38 2.52
1902 1948 3.785982 TGGCAGAACCAGCTCGTA 58.214 55.556 0.00 0.00 46.36 3.43
2082 2128 0.835543 AGCTCTCCAACTGCACCTCT 60.836 55.000 0.00 0.00 0.00 3.69
2262 2308 2.900546 CCTCTCCTACAACAACCTCACT 59.099 50.000 0.00 0.00 0.00 3.41
2271 2317 1.002134 CAACCTCACTGGGCCGATT 60.002 57.895 0.00 0.00 41.11 3.34
2367 2413 1.672356 GGACATCGGCAACTGCACT 60.672 57.895 3.76 0.00 44.36 4.40
2376 2422 2.418746 CGGCAACTGCACTAACCTCTAT 60.419 50.000 3.76 0.00 44.36 1.98
2526 2572 2.665603 GGCAGCCTCGAGTTCCTT 59.334 61.111 12.31 0.00 0.00 3.36
2961 3007 0.109272 TCGTGACGCTCAACATCTCC 60.109 55.000 0.00 0.00 0.00 3.71
3756 3814 4.637489 CTCGCCCGCATCCTCTCG 62.637 72.222 0.00 0.00 0.00 4.04
3777 3835 4.496336 GGGCAGGGCAAGCTCGAT 62.496 66.667 0.00 0.00 0.00 3.59
4382 4659 0.386113 GACTACTCCGCATGAGACCC 59.614 60.000 7.21 0.00 44.42 4.46
4385 4662 1.414181 CTACTCCGCATGAGACCCATT 59.586 52.381 7.21 0.00 44.42 3.16
4386 4663 0.179000 ACTCCGCATGAGACCCATTC 59.821 55.000 7.21 0.00 44.42 2.67
4387 4664 0.877649 CTCCGCATGAGACCCATTCG 60.878 60.000 0.00 0.00 44.42 3.34
4388 4665 1.143838 CCGCATGAGACCCATTCGA 59.856 57.895 0.00 0.00 43.02 3.71
4389 4666 1.154205 CCGCATGAGACCCATTCGAC 61.154 60.000 0.00 0.00 43.02 4.20
4393 4670 2.677902 GCATGAGACCCATTCGACTCAA 60.678 50.000 0.00 0.00 41.57 3.02
4417 4694 1.725557 GGTGCCGATCGAGCAGTAGA 61.726 60.000 25.06 6.51 41.87 2.59
4432 4739 2.983136 CAGTAGAGTTCACGAACAGCAG 59.017 50.000 12.21 0.00 43.47 4.24
4439 4746 1.082300 CACGAACAGCAGCAGCAAG 60.082 57.895 3.17 0.00 45.49 4.01
4440 4747 2.126965 CGAACAGCAGCAGCAAGC 60.127 61.111 3.17 0.00 45.49 4.01
4509 4820 0.461870 TGTGTAGATCATGGCGTGGC 60.462 55.000 6.90 0.00 0.00 5.01
4525 4836 4.739716 GGCGTGGCAAGTAATTAATCAATG 59.260 41.667 1.69 0.00 0.00 2.82
4561 4873 4.660303 AGGTGTAATAATCATCTCTGGCCA 59.340 41.667 4.71 4.71 0.00 5.36
4592 4904 2.159476 CCTGCGACATGAATCTTGGTTG 60.159 50.000 0.00 0.00 0.00 3.77
4661 4974 2.357517 GACTGTGGAGCGTGGGTG 60.358 66.667 0.00 0.00 0.00 4.61
4682 5011 3.655211 CTGGTCCTGGCTGGGCTT 61.655 66.667 14.95 0.00 41.10 4.35
4683 5012 3.635268 CTGGTCCTGGCTGGGCTTC 62.635 68.421 14.95 0.00 41.10 3.86
4684 5013 4.785453 GGTCCTGGCTGGGCTTCG 62.785 72.222 14.95 0.00 41.10 3.79
4685 5014 4.021925 GTCCTGGCTGGGCTTCGT 62.022 66.667 7.88 0.00 37.49 3.85
4708 5037 0.179032 TTTGGACTTGCTCGCTGGAA 60.179 50.000 0.00 0.00 0.00 3.53
4709 5038 0.884704 TTGGACTTGCTCGCTGGAAC 60.885 55.000 0.00 0.00 0.00 3.62
4729 5067 1.126846 CGAAATGGACGTGACTTGCTC 59.873 52.381 0.00 0.00 0.00 4.26
4767 5105 1.777461 CGGACGGACGATCGTTTAATC 59.223 52.381 23.63 16.48 43.96 1.75
4811 5164 2.586357 GAACGATCGGGGAGCAGC 60.586 66.667 20.98 0.00 0.00 5.25
4871 5227 0.379316 CGTGTCGACGGGATGTATGA 59.621 55.000 11.62 0.00 42.18 2.15
4877 5233 3.489785 GTCGACGGGATGTATGAATTGAC 59.510 47.826 0.00 0.00 0.00 3.18
4884 5240 7.257722 ACGGGATGTATGAATTGACATTTTTC 58.742 34.615 0.00 0.00 36.42 2.29
4886 5242 7.975616 CGGGATGTATGAATTGACATTTTTCTT 59.024 33.333 0.00 0.00 36.42 2.52
4887 5243 9.305925 GGGATGTATGAATTGACATTTTTCTTC 57.694 33.333 0.00 0.00 36.42 2.87
4888 5244 9.859427 GGATGTATGAATTGACATTTTTCTTCA 57.141 29.630 0.00 0.00 36.42 3.02
4892 5248 9.565213 GTATGAATTGACATTTTTCTTCAGAGG 57.435 33.333 0.00 0.00 0.00 3.69
4893 5249 6.985117 TGAATTGACATTTTTCTTCAGAGGG 58.015 36.000 0.00 0.00 0.00 4.30
4894 5250 5.990120 ATTGACATTTTTCTTCAGAGGGG 57.010 39.130 0.00 0.00 0.00 4.79
4895 5251 4.722526 TGACATTTTTCTTCAGAGGGGA 57.277 40.909 0.00 0.00 0.00 4.81
4896 5252 4.398319 TGACATTTTTCTTCAGAGGGGAC 58.602 43.478 0.00 0.00 0.00 4.46
4898 5254 5.066913 ACATTTTTCTTCAGAGGGGACTT 57.933 39.130 0.00 0.00 44.43 3.01
4899 5255 5.073428 ACATTTTTCTTCAGAGGGGACTTC 58.927 41.667 0.00 0.00 44.43 3.01
4900 5256 5.163045 ACATTTTTCTTCAGAGGGGACTTCT 60.163 40.000 0.00 0.00 44.43 2.85
4901 5257 6.044404 ACATTTTTCTTCAGAGGGGACTTCTA 59.956 38.462 0.00 0.00 44.43 2.10
4902 5258 5.746990 TTTTCTTCAGAGGGGACTTCTAG 57.253 43.478 0.00 0.00 44.43 2.43
4903 5259 3.390175 TCTTCAGAGGGGACTTCTAGG 57.610 52.381 0.00 0.00 44.43 3.02
4904 5260 1.760029 CTTCAGAGGGGACTTCTAGGC 59.240 57.143 0.00 0.00 44.43 3.93
4905 5261 0.395862 TCAGAGGGGACTTCTAGGCG 60.396 60.000 0.00 0.00 44.43 5.52
4906 5262 0.684805 CAGAGGGGACTTCTAGGCGT 60.685 60.000 0.00 0.00 44.43 5.68
4907 5263 0.924823 AGAGGGGACTTCTAGGCGTA 59.075 55.000 0.00 0.00 44.43 4.42
4908 5264 1.499870 AGAGGGGACTTCTAGGCGTAT 59.500 52.381 0.00 0.00 44.43 3.06
4909 5265 1.887854 GAGGGGACTTCTAGGCGTATC 59.112 57.143 0.00 0.00 44.43 2.24
4910 5266 1.217183 AGGGGACTTCTAGGCGTATCA 59.783 52.381 0.00 0.00 37.44 2.15
4911 5267 2.037144 GGGGACTTCTAGGCGTATCAA 58.963 52.381 0.00 0.00 0.00 2.57
4912 5268 2.223994 GGGGACTTCTAGGCGTATCAAC 60.224 54.545 0.00 0.00 0.00 3.18
4913 5269 2.694109 GGGACTTCTAGGCGTATCAACT 59.306 50.000 0.00 0.00 0.00 3.16
4914 5270 3.243468 GGGACTTCTAGGCGTATCAACTC 60.243 52.174 0.00 0.00 0.00 3.01
4915 5271 3.380637 GGACTTCTAGGCGTATCAACTCA 59.619 47.826 0.00 0.00 0.00 3.41
4916 5272 4.038162 GGACTTCTAGGCGTATCAACTCAT 59.962 45.833 0.00 0.00 0.00 2.90
4917 5273 5.452077 GGACTTCTAGGCGTATCAACTCATT 60.452 44.000 0.00 0.00 0.00 2.57
4918 5274 5.352284 ACTTCTAGGCGTATCAACTCATTG 58.648 41.667 0.00 0.00 37.14 2.82
4919 5275 5.105310 ACTTCTAGGCGTATCAACTCATTGT 60.105 40.000 0.00 0.00 37.11 2.71
4920 5276 6.096423 ACTTCTAGGCGTATCAACTCATTGTA 59.904 38.462 0.00 0.00 37.11 2.41
4921 5277 6.650427 TCTAGGCGTATCAACTCATTGTAT 57.350 37.500 0.00 0.00 37.11 2.29
4922 5278 7.754851 TCTAGGCGTATCAACTCATTGTATA 57.245 36.000 0.00 0.00 37.11 1.47
4923 5279 8.173542 TCTAGGCGTATCAACTCATTGTATAA 57.826 34.615 0.00 0.00 37.11 0.98
4924 5280 8.803235 TCTAGGCGTATCAACTCATTGTATAAT 58.197 33.333 0.00 0.00 37.11 1.28
4925 5281 9.424319 CTAGGCGTATCAACTCATTGTATAATT 57.576 33.333 0.00 0.00 37.11 1.40
4926 5282 8.677148 AGGCGTATCAACTCATTGTATAATTT 57.323 30.769 0.00 0.00 37.11 1.82
4927 5283 9.772973 AGGCGTATCAACTCATTGTATAATTTA 57.227 29.630 0.00 0.00 37.11 1.40
4953 5309 9.675464 ATTTTCACATTCATAAAATCCATGCTT 57.325 25.926 0.00 0.00 29.12 3.91
4954 5310 9.504708 TTTTCACATTCATAAAATCCATGCTTT 57.495 25.926 0.00 0.00 0.00 3.51
4955 5311 9.504708 TTTCACATTCATAAAATCCATGCTTTT 57.495 25.926 8.64 8.64 0.00 2.27
4956 5312 8.706492 TCACATTCATAAAATCCATGCTTTTC 57.294 30.769 7.31 0.00 0.00 2.29
4957 5313 8.312564 TCACATTCATAAAATCCATGCTTTTCA 58.687 29.630 7.31 0.00 0.00 2.69
4958 5314 8.937884 CACATTCATAAAATCCATGCTTTTCAA 58.062 29.630 7.31 2.34 0.00 2.69
4959 5315 9.675464 ACATTCATAAAATCCATGCTTTTCAAT 57.325 25.926 7.31 3.97 0.00 2.57
4962 5318 9.504708 TTCATAAAATCCATGCTTTTCAATTGT 57.495 25.926 5.13 0.00 0.00 2.71
4971 5327 9.585099 TCCATGCTTTTCAATTGTAATTATCAC 57.415 29.630 5.13 0.00 0.00 3.06
4972 5328 9.368674 CCATGCTTTTCAATTGTAATTATCACA 57.631 29.630 5.13 0.00 0.00 3.58
5046 5803 7.797038 TTTTGTGTAGGGACTAGAAAAAGTC 57.203 36.000 0.00 0.00 41.46 3.01
5070 5827 7.447545 GTCCACCTTAGAGACTTTTTACCAAAT 59.552 37.037 0.00 0.00 0.00 2.32
5076 5833 5.325239 AGAGACTTTTTACCAAATGGGAGG 58.675 41.667 4.17 0.00 41.15 4.30
5153 5910 6.669631 AGGAGAGTCTTTTTGGGACTTTTTA 58.330 36.000 0.00 0.00 43.13 1.52
5166 5923 5.361571 TGGGACTTTTTAGGACTTTTCCAAC 59.638 40.000 0.00 0.00 45.72 3.77
5172 5929 6.478512 TTTTAGGACTTTTCCAACAATGCT 57.521 33.333 0.00 0.00 45.72 3.79
5174 5931 3.837355 AGGACTTTTCCAACAATGCTCT 58.163 40.909 0.00 0.00 45.72 4.09
5177 5934 4.279420 GGACTTTTCCAACAATGCTCTTCT 59.721 41.667 0.00 0.00 42.30 2.85
5195 5952 0.107214 CTATGCACCCATTGGTCCGT 60.107 55.000 1.20 0.00 45.57 4.69
5274 6031 7.932491 GTCATTTAATAACCTCTAGGAAGGGAC 59.068 40.741 2.23 0.00 41.04 4.46
5278 6035 6.609379 AATAACCTCTAGGAAGGGACTAGA 57.391 41.667 2.23 0.00 43.33 2.43
5310 6067 2.106511 TCTCTGGAAACAAACAGGGAGG 59.893 50.000 0.00 0.00 39.19 4.30
5311 6068 2.106511 CTCTGGAAACAAACAGGGAGGA 59.893 50.000 0.00 0.00 42.06 3.71
5318 6075 5.339008 AAACAAACAGGGAGGAACTTTTC 57.661 39.130 0.00 0.00 41.55 2.29
5321 6078 3.953542 AACAGGGAGGAACTTTTCAGT 57.046 42.857 0.00 0.00 41.55 3.41
5328 6085 4.283722 GGGAGGAACTTTTCAGTGACTAGA 59.716 45.833 0.00 0.00 41.55 2.43
5377 6143 4.724279 AGAGAACCAAACACCACCTTAT 57.276 40.909 0.00 0.00 0.00 1.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.364568 TCATGTTCCCATCATCAGGTATAG 57.635 41.667 0.00 0.00 0.00 1.31
1 2 6.533730 GTTCATGTTCCCATCATCAGGTATA 58.466 40.000 0.00 0.00 0.00 1.47
2 3 5.380043 GTTCATGTTCCCATCATCAGGTAT 58.620 41.667 0.00 0.00 0.00 2.73
3 4 4.683129 CGTTCATGTTCCCATCATCAGGTA 60.683 45.833 0.00 0.00 0.00 3.08
25 26 2.168496 TCTGAACCTCTGAAGTACCCG 58.832 52.381 0.00 0.00 0.00 5.28
56 57 4.525912 ATTCCTTTGCTGGTCAATTCAC 57.474 40.909 0.00 0.00 34.12 3.18
112 114 3.126831 CTCGCATTATCTCCACACTTCC 58.873 50.000 0.00 0.00 0.00 3.46
114 116 2.743183 GCCTCGCATTATCTCCACACTT 60.743 50.000 0.00 0.00 0.00 3.16
115 117 1.202580 GCCTCGCATTATCTCCACACT 60.203 52.381 0.00 0.00 0.00 3.55
116 118 1.221414 GCCTCGCATTATCTCCACAC 58.779 55.000 0.00 0.00 0.00 3.82
117 119 0.829990 TGCCTCGCATTATCTCCACA 59.170 50.000 0.00 0.00 31.71 4.17
118 120 1.221414 GTGCCTCGCATTATCTCCAC 58.779 55.000 0.00 0.00 41.91 4.02
119 121 0.829990 TGTGCCTCGCATTATCTCCA 59.170 50.000 0.00 0.00 41.91 3.86
120 122 1.202580 ACTGTGCCTCGCATTATCTCC 60.203 52.381 0.00 0.00 41.91 3.71
121 123 2.231215 ACTGTGCCTCGCATTATCTC 57.769 50.000 0.00 0.00 41.91 2.75
122 124 3.819564 TTACTGTGCCTCGCATTATCT 57.180 42.857 0.00 0.00 41.91 1.98
125 127 2.935849 CACATTACTGTGCCTCGCATTA 59.064 45.455 0.00 0.00 45.79 1.90
171 174 9.887406 GTAAAATACTAACTGCAGCTGTAAAAA 57.113 29.630 15.27 0.00 0.00 1.94
172 175 8.508875 GGTAAAATACTAACTGCAGCTGTAAAA 58.491 33.333 15.27 0.00 0.00 1.52
173 176 7.148540 CGGTAAAATACTAACTGCAGCTGTAAA 60.149 37.037 15.27 0.39 0.00 2.01
228 233 0.239347 ATGCGCAAGTGTTCTTCTGC 59.761 50.000 17.11 0.00 41.68 4.26
244 249 0.527817 GCTGCCTCTTTGCATGATGC 60.528 55.000 11.12 11.12 45.29 3.91
274 279 1.374758 GGTCTGAACAGTGAGCCGG 60.375 63.158 0.00 0.00 0.00 6.13
278 283 3.949842 TCTGATGGTCTGAACAGTGAG 57.050 47.619 0.44 0.00 0.00 3.51
282 287 5.954296 AATGTTTCTGATGGTCTGAACAG 57.046 39.130 0.44 0.00 34.72 3.16
283 288 5.009911 CCAAATGTTTCTGATGGTCTGAACA 59.990 40.000 0.00 0.00 34.72 3.18
322 327 1.103398 CATGGCCCTTTCTTAGCGGG 61.103 60.000 0.00 0.00 41.06 6.13
324 329 1.729881 GCATGGCCCTTTCTTAGCG 59.270 57.895 0.00 0.00 0.00 4.26
325 330 1.032114 ACGCATGGCCCTTTCTTAGC 61.032 55.000 0.00 0.00 0.00 3.09
326 331 1.017387 GACGCATGGCCCTTTCTTAG 58.983 55.000 0.00 0.00 0.00 2.18
327 332 0.393808 GGACGCATGGCCCTTTCTTA 60.394 55.000 0.00 0.00 0.00 2.10
393 408 4.383770 GCTCCTTTGTACTACCCTGCATAA 60.384 45.833 0.00 0.00 0.00 1.90
394 409 3.134081 GCTCCTTTGTACTACCCTGCATA 59.866 47.826 0.00 0.00 0.00 3.14
447 463 1.077501 CGTGATCTGTGGGGGCATT 60.078 57.895 0.00 0.00 0.00 3.56
449 465 2.220586 TTCGTGATCTGTGGGGGCA 61.221 57.895 0.00 0.00 0.00 5.36
450 466 1.745489 GTTCGTGATCTGTGGGGGC 60.745 63.158 0.00 0.00 0.00 5.80
451 467 1.447838 CGTTCGTGATCTGTGGGGG 60.448 63.158 0.00 0.00 0.00 5.40
459 476 5.171147 TCTTCTTCTATCCGTTCGTGATC 57.829 43.478 0.00 0.00 0.00 2.92
530 547 2.053627 GTGAAAAACATCTGCGCCTTG 58.946 47.619 4.18 1.85 0.00 3.61
535 552 1.135972 CCGAGGTGAAAAACATCTGCG 60.136 52.381 0.00 0.00 40.41 5.18
588 606 2.805546 CTGCCATGCCATGACAGC 59.194 61.111 8.09 2.91 34.07 4.40
601 619 1.927174 CACGTACTTATCACTGCTGCC 59.073 52.381 0.00 0.00 0.00 4.85
619 637 1.190763 CAACTTGGTGTACGTACGCAC 59.809 52.381 33.25 24.20 38.40 5.34
620 638 1.489574 CAACTTGGTGTACGTACGCA 58.510 50.000 33.25 20.11 38.40 5.24
621 639 0.785979 CCAACTTGGTGTACGTACGC 59.214 55.000 27.15 27.15 36.03 4.42
622 640 0.785979 GCCAACTTGGTGTACGTACG 59.214 55.000 20.18 15.01 40.46 3.67
623 641 1.150827 GGCCAACTTGGTGTACGTAC 58.849 55.000 18.90 18.90 40.46 3.67
626 644 2.172851 TTAGGCCAACTTGGTGTACG 57.827 50.000 5.01 0.00 40.46 3.67
642 660 6.686679 CACCGCACACATATGTTTATGTTTAG 59.313 38.462 5.37 0.00 44.83 1.85
643 661 6.547283 CACCGCACACATATGTTTATGTTTA 58.453 36.000 5.37 0.00 44.83 2.01
644 662 5.398169 CACCGCACACATATGTTTATGTTT 58.602 37.500 5.37 0.00 44.83 2.83
645 663 4.674101 GCACCGCACACATATGTTTATGTT 60.674 41.667 5.37 0.00 44.83 2.71
646 664 5.635062 TGCACCGCACACATATGTTTATGT 61.635 41.667 5.37 0.00 40.49 2.29
647 665 3.181502 TGCACCGCACACATATGTTTATG 60.182 43.478 5.37 6.40 36.72 1.90
648 666 3.013219 TGCACCGCACACATATGTTTAT 58.987 40.909 5.37 0.00 36.72 1.40
746 769 5.638657 TCATCAAATCAAAAGATTTTGGCCG 59.361 36.000 15.91 5.25 45.68 6.13
747 770 7.619964 ATCATCAAATCAAAAGATTTTGGCC 57.380 32.000 15.91 0.00 45.68 5.36
776 800 6.202954 CAGATTAAGTAGCTAATCCCGTTTGG 59.797 42.308 0.00 0.00 38.53 3.28
802 826 3.065655 GAGATCTGGATCCAAATGAGCG 58.934 50.000 17.00 1.92 38.58 5.03
844 868 3.783111 GCGCCACGATTAGTTTATACC 57.217 47.619 0.00 0.00 0.00 2.73
868 898 0.398098 TCGGGATTGTAGAGGGGGAC 60.398 60.000 0.00 0.00 0.00 4.46
886 916 0.872021 CGCCTCCTATTGCTGTCGTC 60.872 60.000 0.00 0.00 0.00 4.20
935 965 0.036671 GGACGGACGGATGGAAGTTT 60.037 55.000 0.00 0.00 0.00 2.66
936 966 1.595357 GGACGGACGGATGGAAGTT 59.405 57.895 0.00 0.00 0.00 2.66
938 968 2.104331 CGGACGGACGGATGGAAG 59.896 66.667 0.00 0.00 0.00 3.46
939 969 2.677524 ACGGACGGACGGATGGAA 60.678 61.111 6.00 0.00 38.39 3.53
940 970 3.136123 GACGGACGGACGGATGGA 61.136 66.667 6.00 0.00 38.39 3.41
1647 1693 1.227674 GCCGATCATGGTGAGGTCC 60.228 63.158 0.00 0.00 0.00 4.46
1731 1777 4.818546 AGCATTGTGGTGTAGATAGCAATC 59.181 41.667 0.00 0.00 0.00 2.67
1737 1783 3.068165 CGGAGAGCATTGTGGTGTAGATA 59.932 47.826 0.00 0.00 0.00 1.98
1830 1876 2.680707 TGCGGTGGTATCGGTCCA 60.681 61.111 0.00 0.00 0.00 4.02
1833 1879 2.656069 AAGCTGCGGTGGTATCGGT 61.656 57.895 0.00 0.00 0.00 4.69
2082 2128 1.706287 CGAGCTCGATGTCCGTCAGA 61.706 60.000 32.06 0.00 43.02 3.27
2262 2308 2.685743 TCCTTCGGAATCGGCCCA 60.686 61.111 0.00 0.00 36.95 5.36
2271 2317 1.883732 CTCGAACAGCTCCTTCGGA 59.116 57.895 18.52 8.31 40.75 4.55
2283 2329 1.193426 GTCAAGTTCTGCAGCTCGAAC 59.807 52.381 9.47 16.00 39.74 3.95
2288 2334 1.506493 CTTCGTCAAGTTCTGCAGCT 58.494 50.000 9.47 0.00 0.00 4.24
2367 2413 2.038690 CCGCAGCCGATAGAGGTTA 58.961 57.895 0.00 0.00 36.29 2.85
2526 2572 4.402851 GCATTGGAGTGCAGGTCA 57.597 55.556 0.00 0.00 44.43 4.02
2727 2773 3.385384 CCGAGGTCCAGCAGCTGA 61.385 66.667 24.90 7.22 32.44 4.26
2850 2896 4.697756 TCAAGGCCGGCGAACTGG 62.698 66.667 22.54 10.01 46.21 4.00
2961 3007 4.496670 CCGGAGAAGGCGTTGTAG 57.503 61.111 0.00 0.00 0.00 2.74
3636 3694 1.898154 GCAGTCGTGGTGGAGGTAT 59.102 57.895 0.00 0.00 0.00 2.73
4374 4651 4.494091 AATTGAGTCGAATGGGTCTCAT 57.506 40.909 0.00 0.00 36.91 2.90
4382 4659 3.244976 GGCACCAAAATTGAGTCGAATG 58.755 45.455 0.00 0.00 0.00 2.67
4385 4662 0.871722 CGGCACCAAAATTGAGTCGA 59.128 50.000 6.70 0.00 34.62 4.20
4386 4663 0.871722 TCGGCACCAAAATTGAGTCG 59.128 50.000 6.32 6.32 34.22 4.18
4387 4664 2.476185 CGATCGGCACCAAAATTGAGTC 60.476 50.000 7.38 0.00 0.00 3.36
4388 4665 1.468520 CGATCGGCACCAAAATTGAGT 59.531 47.619 7.38 0.00 0.00 3.41
4389 4666 1.737236 TCGATCGGCACCAAAATTGAG 59.263 47.619 16.41 0.00 0.00 3.02
4393 4670 0.676466 TGCTCGATCGGCACCAAAAT 60.676 50.000 22.05 0.00 34.56 1.82
4417 4694 1.502163 GCTGCTGCTGTTCGTGAACT 61.502 55.000 13.40 0.00 41.67 3.01
4439 4746 7.974675 TGAGTAACTAATTTAACAGCATCTGC 58.025 34.615 0.00 0.00 42.49 4.26
4509 4820 9.669353 GTACAGCATCCATTGATTAATTACTTG 57.331 33.333 0.00 0.00 0.00 3.16
4525 4836 8.148351 TGATTATTACACCTAAGTACAGCATCC 58.852 37.037 0.00 0.00 0.00 3.51
4561 4873 2.698274 TCATGTCGCAGGGTATGTACAT 59.302 45.455 13.93 13.93 37.82 2.29
4592 4904 2.935955 CGCTCCACACGACCAAAC 59.064 61.111 0.00 0.00 0.00 2.93
4639 4952 3.626924 ACGCTCCACAGTCCCACC 61.627 66.667 0.00 0.00 0.00 4.61
4642 4955 4.394712 CCCACGCTCCACAGTCCC 62.395 72.222 0.00 0.00 0.00 4.46
4675 5004 1.028905 TCCAAACAAACGAAGCCCAG 58.971 50.000 0.00 0.00 0.00 4.45
4676 5005 0.741915 GTCCAAACAAACGAAGCCCA 59.258 50.000 0.00 0.00 0.00 5.36
4678 5007 2.459934 CAAGTCCAAACAAACGAAGCC 58.540 47.619 0.00 0.00 0.00 4.35
4679 5008 1.852280 GCAAGTCCAAACAAACGAAGC 59.148 47.619 0.00 0.00 0.00 3.86
4680 5009 3.363178 GAGCAAGTCCAAACAAACGAAG 58.637 45.455 0.00 0.00 0.00 3.79
4681 5010 2.223157 CGAGCAAGTCCAAACAAACGAA 60.223 45.455 0.00 0.00 0.00 3.85
4682 5011 1.329292 CGAGCAAGTCCAAACAAACGA 59.671 47.619 0.00 0.00 0.00 3.85
4683 5012 1.741993 CGAGCAAGTCCAAACAAACG 58.258 50.000 0.00 0.00 0.00 3.60
4684 5013 1.065551 AGCGAGCAAGTCCAAACAAAC 59.934 47.619 0.00 0.00 0.00 2.93
4685 5014 1.065401 CAGCGAGCAAGTCCAAACAAA 59.935 47.619 0.00 0.00 0.00 2.83
4708 5037 0.865769 GCAAGTCACGTCCATTTCGT 59.134 50.000 0.00 0.00 42.33 3.85
4709 5038 1.126846 GAGCAAGTCACGTCCATTTCG 59.873 52.381 0.00 0.00 0.00 3.46
4729 5067 0.382873 CGCATCACCCACCAATCATG 59.617 55.000 0.00 0.00 0.00 3.07
4871 5227 6.015095 GTCCCCTCTGAAGAAAAATGTCAATT 60.015 38.462 0.00 0.00 0.00 2.32
4877 5233 5.320277 AGAAGTCCCCTCTGAAGAAAAATG 58.680 41.667 0.00 0.00 0.00 2.32
4884 5240 1.760029 GCCTAGAAGTCCCCTCTGAAG 59.240 57.143 0.00 0.00 0.00 3.02
4886 5242 0.395862 CGCCTAGAAGTCCCCTCTGA 60.396 60.000 0.00 0.00 0.00 3.27
4887 5243 0.684805 ACGCCTAGAAGTCCCCTCTG 60.685 60.000 0.00 0.00 0.00 3.35
4888 5244 0.924823 TACGCCTAGAAGTCCCCTCT 59.075 55.000 0.00 0.00 0.00 3.69
4889 5245 1.887854 GATACGCCTAGAAGTCCCCTC 59.112 57.143 0.00 0.00 0.00 4.30
4890 5246 1.217183 TGATACGCCTAGAAGTCCCCT 59.783 52.381 0.00 0.00 0.00 4.79
4891 5247 1.700955 TGATACGCCTAGAAGTCCCC 58.299 55.000 0.00 0.00 0.00 4.81
4892 5248 2.694109 AGTTGATACGCCTAGAAGTCCC 59.306 50.000 0.00 0.00 0.00 4.46
4893 5249 3.380637 TGAGTTGATACGCCTAGAAGTCC 59.619 47.826 0.00 0.00 0.00 3.85
4894 5250 4.634184 TGAGTTGATACGCCTAGAAGTC 57.366 45.455 0.00 0.00 0.00 3.01
4895 5251 5.105310 ACAATGAGTTGATACGCCTAGAAGT 60.105 40.000 0.00 0.00 38.71 3.01
4896 5252 5.352284 ACAATGAGTTGATACGCCTAGAAG 58.648 41.667 0.00 0.00 38.71 2.85
4897 5253 5.339008 ACAATGAGTTGATACGCCTAGAA 57.661 39.130 0.00 0.00 38.71 2.10
4898 5254 6.650427 ATACAATGAGTTGATACGCCTAGA 57.350 37.500 0.00 0.00 38.71 2.43
4899 5255 8.988064 ATTATACAATGAGTTGATACGCCTAG 57.012 34.615 0.00 0.00 38.71 3.02
4900 5256 9.772973 AAATTATACAATGAGTTGATACGCCTA 57.227 29.630 0.00 0.00 38.71 3.93
4901 5257 8.677148 AAATTATACAATGAGTTGATACGCCT 57.323 30.769 0.00 0.00 38.71 5.52
4927 5283 9.675464 AAGCATGGATTTTATGAATGTGAAAAT 57.325 25.926 0.00 0.00 35.90 1.82
4928 5284 9.504708 AAAGCATGGATTTTATGAATGTGAAAA 57.495 25.926 0.00 0.00 0.00 2.29
4929 5285 9.504708 AAAAGCATGGATTTTATGAATGTGAAA 57.495 25.926 0.00 0.00 29.13 2.69
4930 5286 9.153721 GAAAAGCATGGATTTTATGAATGTGAA 57.846 29.630 0.00 0.00 31.14 3.18
4931 5287 8.312564 TGAAAAGCATGGATTTTATGAATGTGA 58.687 29.630 0.00 0.00 31.14 3.58
4932 5288 8.481974 TGAAAAGCATGGATTTTATGAATGTG 57.518 30.769 0.00 0.00 31.14 3.21
4933 5289 9.675464 ATTGAAAAGCATGGATTTTATGAATGT 57.325 25.926 0.00 0.00 31.14 2.71
4936 5292 9.504708 ACAATTGAAAAGCATGGATTTTATGAA 57.495 25.926 13.59 0.00 31.14 2.57
4945 5301 9.585099 GTGATAATTACAATTGAAAAGCATGGA 57.415 29.630 13.59 0.00 0.00 3.41
4946 5302 9.368674 TGTGATAATTACAATTGAAAAGCATGG 57.631 29.630 13.59 0.00 0.00 3.66
4977 5333 9.401496 ACCCCCTAATATTTCTATACAAGCTTA 57.599 33.333 0.00 0.00 0.00 3.09
4978 5334 8.164070 CACCCCCTAATATTTCTATACAAGCTT 58.836 37.037 0.00 0.00 0.00 3.74
4979 5335 7.294958 ACACCCCCTAATATTTCTATACAAGCT 59.705 37.037 0.00 0.00 0.00 3.74
4980 5336 7.459234 ACACCCCCTAATATTTCTATACAAGC 58.541 38.462 0.00 0.00 0.00 4.01
4981 5337 9.862149 AAACACCCCCTAATATTTCTATACAAG 57.138 33.333 0.00 0.00 0.00 3.16
4982 5338 9.635404 CAAACACCCCCTAATATTTCTATACAA 57.365 33.333 0.00 0.00 0.00 2.41
4983 5339 8.783903 ACAAACACCCCCTAATATTTCTATACA 58.216 33.333 0.00 0.00 0.00 2.29
4984 5340 9.636789 AACAAACACCCCCTAATATTTCTATAC 57.363 33.333 0.00 0.00 0.00 1.47
4986 5342 9.197306 GAAACAAACACCCCCTAATATTTCTAT 57.803 33.333 0.00 0.00 0.00 1.98
4987 5343 7.616542 GGAAACAAACACCCCCTAATATTTCTA 59.383 37.037 0.00 0.00 0.00 2.10
4988 5344 6.439375 GGAAACAAACACCCCCTAATATTTCT 59.561 38.462 0.00 0.00 0.00 2.52
4989 5345 6.211785 TGGAAACAAACACCCCCTAATATTTC 59.788 38.462 0.00 0.00 37.44 2.17
4990 5346 6.085416 TGGAAACAAACACCCCCTAATATTT 58.915 36.000 0.00 0.00 37.44 1.40
4991 5347 5.656420 TGGAAACAAACACCCCCTAATATT 58.344 37.500 0.00 0.00 37.44 1.28
4992 5348 5.269189 CTGGAAACAAACACCCCCTAATAT 58.731 41.667 0.00 0.00 42.06 1.28
4993 5349 4.509482 CCTGGAAACAAACACCCCCTAATA 60.509 45.833 0.00 0.00 42.06 0.98
4994 5350 3.506398 CTGGAAACAAACACCCCCTAAT 58.494 45.455 0.00 0.00 42.06 1.73
5046 5803 7.309194 CCATTTGGTAAAAAGTCTCTAAGGTGG 60.309 40.741 0.00 0.00 0.00 4.61
5048 5805 6.719829 CCCATTTGGTAAAAAGTCTCTAAGGT 59.280 38.462 0.00 0.00 0.00 3.50
5049 5806 6.946009 TCCCATTTGGTAAAAAGTCTCTAAGG 59.054 38.462 0.00 0.00 34.77 2.69
5070 5827 1.990327 GTCCCTAAAAAGTCCCTCCCA 59.010 52.381 0.00 0.00 0.00 4.37
5076 5833 5.879223 GCCTAGTTTAGTCCCTAAAAAGTCC 59.121 44.000 0.00 0.00 37.62 3.85
5106 5863 7.453126 TCCTTGAGAGTCTTCTTCATTTAGTCT 59.547 37.037 0.00 0.00 32.53 3.24
5153 5910 3.837355 AGAGCATTGTTGGAAAAGTCCT 58.163 40.909 0.00 0.00 45.22 3.85
5166 5923 2.646930 TGGGTGCATAGAAGAGCATTG 58.353 47.619 0.00 0.00 43.44 2.82
5310 6067 8.426881 AAAAGTCTCTAGTCACTGAAAAGTTC 57.573 34.615 0.00 0.00 0.00 3.01
5311 6068 8.794335 AAAAAGTCTCTAGTCACTGAAAAGTT 57.206 30.769 0.00 0.00 0.00 2.66
5318 6075 6.647067 CCCAACTAAAAAGTCTCTAGTCACTG 59.353 42.308 0.00 0.00 0.00 3.66
5321 6078 6.553852 AGTCCCAACTAAAAAGTCTCTAGTCA 59.446 38.462 0.00 0.00 32.59 3.41
5328 6085 7.932491 GTCTTTCTAGTCCCAACTAAAAAGTCT 59.068 37.037 9.86 0.00 42.70 3.24


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

AutoCloner maintained by Alex Coulton.