Multiple sequence alignment - TraesCS3D01G256800

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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 TraesCS3D01G256800 chr3D 100.000 6135 0 0 1 6135 359092782 359086648 0.000000e+00 11330.0
1 TraesCS3D01G256800 chr3B 95.920 4289 99 21 1 4250 465069170 465064919 0.000000e+00 6881.0
2 TraesCS3D01G256800 chr3B 88.738 1181 71 23 4501 5648 465064562 465063411 0.000000e+00 1387.0
3 TraesCS3D01G256800 chr3B 94.983 299 11 3 5838 6135 465063220 465062925 3.350000e-127 466.0
4 TraesCS3D01G256800 chr3B 94.964 139 6 1 4374 4511 760588982 760589120 3.720000e-52 217.0
5 TraesCS3D01G256800 chr3B 94.326 141 7 1 4371 4511 520452797 520452936 1.340000e-51 215.0
6 TraesCS3D01G256800 chr3B 96.667 90 3 0 4247 4336 465064797 465064708 3.830000e-32 150.0
7 TraesCS3D01G256800 chr3B 95.556 45 2 0 6090 6134 465062915 465062871 8.530000e-09 73.1
8 TraesCS3D01G256800 chr3A 94.567 4436 123 34 1 4378 478666129 478661754 0.000000e+00 6748.0
9 TraesCS3D01G256800 chr3A 91.471 938 49 9 4501 5414 478661756 478660826 0.000000e+00 1260.0
10 TraesCS3D01G256800 chr3A 88.451 381 35 4 5467 5839 478660760 478660381 9.380000e-123 451.0
11 TraesCS3D01G256800 chr3A 89.935 308 20 6 5838 6135 478658572 478658266 2.680000e-103 387.0
12 TraesCS3D01G256800 chr3A 93.662 142 8 1 4370 4510 52198988 52198847 1.730000e-50 211.0
13 TraesCS3D01G256800 chr3A 97.183 71 2 0 5445 5515 478660828 478660758 3.000000e-23 121.0
14 TraesCS3D01G256800 chr5B 84.518 633 72 14 1 629 561693065 561693675 2.450000e-168 603.0
15 TraesCS3D01G256800 chr5B 84.859 568 56 18 1 563 561713123 561713665 4.180000e-151 545.0
16 TraesCS3D01G256800 chr5A 84.737 380 42 9 262 636 576340168 576340536 3.490000e-97 366.0
17 TraesCS3D01G256800 chr5D 95.620 137 5 1 4375 4511 204877241 204877376 1.040000e-52 219.0
18 TraesCS3D01G256800 chr5D 93.750 144 6 3 4369 4510 409447952 409448094 4.820000e-51 213.0
19 TraesCS3D01G256800 chr7D 94.406 143 5 3 4368 4510 183856446 183856307 3.720000e-52 217.0
20 TraesCS3D01G256800 chr4D 93.103 145 9 1 4367 4511 127554981 127555124 1.730000e-50 211.0
21 TraesCS3D01G256800 chr1B 94.118 136 7 1 4373 4507 623397565 623397430 8.060000e-49 206.0
22 TraesCS3D01G256800 chr7B 90.789 152 13 1 4369 4520 129309988 129309838 1.040000e-47 202.0
23 TraesCS3D01G256800 chr7B 88.710 62 5 2 5285 5345 32355879 32355819 2.370000e-09 75.0
24 TraesCS3D01G256800 chr2D 83.173 208 22 7 5643 5839 83104241 83104446 1.760000e-40 178.0
25 TraesCS3D01G256800 chr2B 80.583 206 28 6 5645 5839 26441362 26441566 1.380000e-31 148.0
26 TraesCS3D01G256800 chr2B 81.366 161 23 5 5285 5444 598969871 598970025 2.320000e-24 124.0
27 TraesCS3D01G256800 chr2B 98.000 50 0 1 5645 5694 55904835 55904787 1.100000e-12 86.1
28 TraesCS3D01G256800 chr1D 81.395 172 18 6 5284 5454 116866 116708 1.790000e-25 128.0
29 TraesCS3D01G256800 chr6B 76.329 207 31 14 5645 5839 514687836 514688036 1.820000e-15 95.3
30 TraesCS3D01G256800 chr6A 77.852 149 33 0 5293 5441 597706608 597706756 6.550000e-15 93.5


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 TraesCS3D01G256800 chr3D 359086648 359092782 6134 True 11330.00 11330 100.0000 1 6135 1 chr3D.!!$R1 6134
1 TraesCS3D01G256800 chr3B 465062871 465069170 6299 True 1791.42 6881 94.3728 1 6135 5 chr3B.!!$R1 6134
2 TraesCS3D01G256800 chr3A 478658266 478666129 7863 True 1793.40 6748 92.3214 1 6135 5 chr3A.!!$R2 6134
3 TraesCS3D01G256800 chr5B 561693065 561693675 610 False 603.00 603 84.5180 1 629 1 chr5B.!!$F1 628
4 TraesCS3D01G256800 chr5B 561713123 561713665 542 False 545.00 545 84.8590 1 563 1 chr5B.!!$F2 562

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
662 690 0.102481 ATCACATCGGACACGGTAGC 59.898 55.0 0.00 0.00 41.39 3.58 F
669 697 0.527817 CGGACACGGTAGCAATCCTC 60.528 60.0 5.00 0.00 36.18 3.71 F
2143 2214 0.036732 ATCAAGAACTCAGCCGGCAA 59.963 50.0 31.54 15.79 0.00 4.52 F
3142 3213 1.986698 CTGGCCGAATGCTGAAAAAG 58.013 50.0 0.00 0.00 40.92 2.27 F
4390 4712 0.256752 TTGATACTCCCTCCGTCCGA 59.743 55.0 0.00 0.00 0.00 4.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1945 2016 0.107831 GTAGGTGTGTGGTGCCTGAA 59.892 55.000 0.00 0.00 34.07 3.02 R
2293 2364 1.141449 CTGGAGCTTCAGCCTCTCG 59.859 63.158 9.65 0.00 43.38 4.04 R
3297 3368 1.203052 CATTGCACAGGCTGGTAAAGG 59.797 52.381 20.34 7.46 41.91 3.11 R
5009 5342 0.320697 GGGGCAACACGTCTAGAACT 59.679 55.000 0.00 0.00 39.74 3.01 R
5703 6105 0.036010 CAGGGTCTGCGGAGTGATTT 60.036 55.000 3.10 0.00 0.00 2.17 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
265 280 2.158959 CGCGATCGACCCACTTGAC 61.159 63.158 21.57 0.00 38.10 3.18
287 302 7.199766 TGACAACACGATTTTGAGCTTTTAAT 58.800 30.769 0.00 0.00 0.00 1.40
289 304 9.176181 GACAACACGATTTTGAGCTTTTAATTA 57.824 29.630 0.00 0.00 0.00 1.40
290 305 8.964150 ACAACACGATTTTGAGCTTTTAATTAC 58.036 29.630 0.00 0.00 0.00 1.89
291 306 8.963130 CAACACGATTTTGAGCTTTTAATTACA 58.037 29.630 0.00 0.00 0.00 2.41
292 307 8.502161 ACACGATTTTGAGCTTTTAATTACAC 57.498 30.769 0.00 0.00 0.00 2.90
293 308 7.593644 ACACGATTTTGAGCTTTTAATTACACC 59.406 33.333 0.00 0.00 0.00 4.16
294 309 6.799925 ACGATTTTGAGCTTTTAATTACACCG 59.200 34.615 0.00 0.00 0.00 4.94
389 404 3.522808 GGAGACGCCGGTGTAGAT 58.477 61.111 23.00 10.36 0.00 1.98
606 627 2.067091 TATGGGAAGTCGTAGCGCGG 62.067 60.000 8.83 0.00 41.72 6.46
647 668 1.819632 GCCACGACCCATGGATCAC 60.820 63.158 15.22 0.24 39.87 3.06
651 679 0.104855 ACGACCCATGGATCACATCG 59.895 55.000 15.22 13.97 37.84 3.84
662 690 0.102481 ATCACATCGGACACGGTAGC 59.898 55.000 0.00 0.00 41.39 3.58
669 697 0.527817 CGGACACGGTAGCAATCCTC 60.528 60.000 5.00 0.00 36.18 3.71
673 701 0.806102 CACGGTAGCAATCCTCCACG 60.806 60.000 0.00 0.00 0.00 4.94
691 719 4.460382 TCCACGAACTCTACGTAAAATCCT 59.540 41.667 0.00 0.00 42.07 3.24
696 724 5.741040 CGAACTCTACGTAAAATCCTACACC 59.259 44.000 0.00 0.00 0.00 4.16
859 910 1.349688 CAACCTGGCTACCACTAACCA 59.650 52.381 0.00 0.00 0.00 3.67
1167 1218 4.816984 TCTCCGCCTCCTCCGTCC 62.817 72.222 0.00 0.00 0.00 4.79
1408 1463 1.475682 GGAGGTCGTTCAGTCCGTATT 59.524 52.381 0.00 0.00 33.11 1.89
1419 1474 6.563381 CGTTCAGTCCGTATTTTGCATATACC 60.563 42.308 11.69 2.04 0.00 2.73
1420 1475 5.302360 TCAGTCCGTATTTTGCATATACCC 58.698 41.667 11.69 3.65 0.00 3.69
1513 1571 7.327761 CACATGAGCAATCTTTAAGTTGGAAAG 59.672 37.037 0.00 0.00 35.60 2.62
1514 1572 7.231317 ACATGAGCAATCTTTAAGTTGGAAAGA 59.769 33.333 0.00 3.82 44.71 2.52
1537 1595 9.793259 AAGAGGAATTTTTATTCAGACAGTACA 57.207 29.630 0.00 0.00 32.39 2.90
1569 1639 4.868172 TCATCCATTGATTCCCAGTTCT 57.132 40.909 0.00 0.00 0.00 3.01
1574 1644 4.043310 TCCATTGATTCCCAGTTCTTCAGT 59.957 41.667 0.00 0.00 0.00 3.41
1575 1645 5.250543 TCCATTGATTCCCAGTTCTTCAGTA 59.749 40.000 0.00 0.00 0.00 2.74
1587 1658 4.065789 GTTCTTCAGTAGGGTGTCCAAAG 58.934 47.826 0.00 0.00 34.83 2.77
1670 1741 7.915293 TCGTATTGGATCAAAATGTGTAGTT 57.085 32.000 0.00 0.00 0.00 2.24
1693 1764 5.064558 TCTATCCACTATCGACTGTTCTCC 58.935 45.833 0.00 0.00 0.00 3.71
1724 1795 0.820891 CTTTGGACCTGCTGCAGTGT 60.821 55.000 26.41 22.48 0.00 3.55
1772 1843 4.147449 CGGCAGCGATGGAGGTGA 62.147 66.667 1.46 0.00 41.72 4.02
2143 2214 0.036732 ATCAAGAACTCAGCCGGCAA 59.963 50.000 31.54 15.79 0.00 4.52
2293 2364 6.218019 TGATAGCATGGCAATTTATGAAAGC 58.782 36.000 0.00 0.00 0.00 3.51
2518 2589 5.045651 TGCCAATCTCATTCTGGAGAAGTTA 60.046 40.000 0.00 0.00 46.28 2.24
3142 3213 1.986698 CTGGCCGAATGCTGAAAAAG 58.013 50.000 0.00 0.00 40.92 2.27
3297 3368 5.064441 ACAATAGAAGCCATCAAGCAAAC 57.936 39.130 0.00 0.00 34.23 2.93
3346 3417 6.983984 TGAACATTCAGCAGATTCATTGAAA 58.016 32.000 2.68 0.00 33.71 2.69
3355 3426 4.569564 GCAGATTCATTGAAAAATCCAGCC 59.430 41.667 2.68 0.00 33.29 4.85
3965 4041 4.101741 AGGTGAGTATATTGGGAGCAACTC 59.898 45.833 0.00 0.00 35.13 3.01
3998 4074 7.393515 ACTTATTTTGTTTCTTTATCTCGCCCT 59.606 33.333 0.00 0.00 0.00 5.19
4018 4094 6.647067 CGCCCTTCTTGAATTACTATCTAAGG 59.353 42.308 0.00 0.00 0.00 2.69
4164 4250 4.387256 GCACTTTTGCTGTTGTGTAAAACA 59.613 37.500 0.00 0.00 46.17 2.83
4376 4698 2.677836 GCGTGGTGAGCTCAAATTGATA 59.322 45.455 20.19 0.00 0.00 2.15
4377 4699 3.485877 GCGTGGTGAGCTCAAATTGATAC 60.486 47.826 20.19 2.77 0.00 2.24
4378 4700 3.935203 CGTGGTGAGCTCAAATTGATACT 59.065 43.478 20.19 0.00 0.00 2.12
4379 4701 4.033358 CGTGGTGAGCTCAAATTGATACTC 59.967 45.833 20.19 15.24 32.94 2.59
4380 4702 4.333926 GTGGTGAGCTCAAATTGATACTCC 59.666 45.833 20.19 11.72 31.94 3.85
4381 4703 3.879892 GGTGAGCTCAAATTGATACTCCC 59.120 47.826 20.19 6.92 31.94 4.30
4382 4704 4.384647 GGTGAGCTCAAATTGATACTCCCT 60.385 45.833 20.19 1.70 31.94 4.20
4383 4705 4.813697 GTGAGCTCAAATTGATACTCCCTC 59.186 45.833 20.19 0.00 31.94 4.30
4384 4706 4.141620 TGAGCTCAAATTGATACTCCCTCC 60.142 45.833 15.67 1.42 31.94 4.30
4385 4707 3.134458 GCTCAAATTGATACTCCCTCCG 58.866 50.000 0.00 0.00 0.00 4.63
4386 4708 3.432326 GCTCAAATTGATACTCCCTCCGT 60.432 47.826 0.00 0.00 0.00 4.69
4387 4709 4.372656 CTCAAATTGATACTCCCTCCGTC 58.627 47.826 0.00 0.00 0.00 4.79
4388 4710 3.134081 TCAAATTGATACTCCCTCCGTCC 59.866 47.826 0.00 0.00 0.00 4.79
4389 4711 1.329256 ATTGATACTCCCTCCGTCCG 58.671 55.000 0.00 0.00 0.00 4.79
4390 4712 0.256752 TTGATACTCCCTCCGTCCGA 59.743 55.000 0.00 0.00 0.00 4.55
4391 4713 0.256752 TGATACTCCCTCCGTCCGAA 59.743 55.000 0.00 0.00 0.00 4.30
4392 4714 1.341285 TGATACTCCCTCCGTCCGAAA 60.341 52.381 0.00 0.00 0.00 3.46
4393 4715 1.753073 GATACTCCCTCCGTCCGAAAA 59.247 52.381 0.00 0.00 0.00 2.29
4394 4716 1.856629 TACTCCCTCCGTCCGAAAAT 58.143 50.000 0.00 0.00 0.00 1.82
4395 4717 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
4396 4718 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
4397 4719 1.755380 CTCCCTCCGTCCGAAAATACT 59.245 52.381 0.00 0.00 0.00 2.12
4398 4720 2.167900 CTCCCTCCGTCCGAAAATACTT 59.832 50.000 0.00 0.00 0.00 2.24
4399 4721 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
4400 4722 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
4401 4723 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
4402 4724 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
4403 4725 4.181578 CTCCGTCCGAAAATACTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
4404 4726 4.178540 TCCGTCCGAAAATACTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
4405 4727 3.930229 CCGTCCGAAAATACTTGTCATCA 59.070 43.478 0.00 0.00 0.00 3.07
4406 4728 4.390603 CCGTCCGAAAATACTTGTCATCAA 59.609 41.667 0.00 0.00 0.00 2.57
4407 4729 5.106869 CCGTCCGAAAATACTTGTCATCAAA 60.107 40.000 0.00 0.00 32.87 2.69
4408 4730 6.367421 CGTCCGAAAATACTTGTCATCAAAA 58.633 36.000 0.00 0.00 32.87 2.44
4409 4731 7.021196 CGTCCGAAAATACTTGTCATCAAAAT 58.979 34.615 0.00 0.00 32.87 1.82
4410 4732 7.007367 CGTCCGAAAATACTTGTCATCAAAATG 59.993 37.037 0.00 0.00 32.87 2.32
4411 4733 7.273381 GTCCGAAAATACTTGTCATCAAAATGG 59.727 37.037 0.00 0.00 33.42 3.16
4412 4734 7.175816 TCCGAAAATACTTGTCATCAAAATGGA 59.824 33.333 0.00 0.00 33.42 3.41
4413 4735 7.975616 CCGAAAATACTTGTCATCAAAATGGAT 59.024 33.333 0.00 0.00 33.42 3.41
4421 4743 8.096414 ACTTGTCATCAAAATGGATAAAAAGGG 58.904 33.333 0.00 0.00 33.42 3.95
4422 4744 7.789202 TGTCATCAAAATGGATAAAAAGGGA 57.211 32.000 0.00 0.00 33.42 4.20
4423 4745 8.378115 TGTCATCAAAATGGATAAAAAGGGAT 57.622 30.769 0.00 0.00 33.42 3.85
4424 4746 8.259411 TGTCATCAAAATGGATAAAAAGGGATG 58.741 33.333 0.00 0.00 33.42 3.51
4425 4747 8.260114 GTCATCAAAATGGATAAAAAGGGATGT 58.740 33.333 0.00 0.00 33.42 3.06
4426 4748 9.486123 TCATCAAAATGGATAAAAAGGGATGTA 57.514 29.630 0.00 0.00 33.42 2.29
4429 4751 9.713684 TCAAAATGGATAAAAAGGGATGTATCT 57.286 29.630 0.00 0.00 0.00 1.98
4435 4757 9.225682 TGGATAAAAAGGGATGTATCTAGAACT 57.774 33.333 0.00 0.00 0.00 3.01
4477 4799 9.271828 ACAACCCTTTTTATTCATTTTGATGAC 57.728 29.630 0.00 0.00 0.00 3.06
4478 4800 9.270640 CAACCCTTTTTATTCATTTTGATGACA 57.729 29.630 0.00 0.00 0.00 3.58
4479 4801 9.844257 AACCCTTTTTATTCATTTTGATGACAA 57.156 25.926 0.00 0.00 0.00 3.18
4480 4802 9.492973 ACCCTTTTTATTCATTTTGATGACAAG 57.507 29.630 0.00 0.00 37.32 3.16
4481 4803 9.492973 CCCTTTTTATTCATTTTGATGACAAGT 57.507 29.630 0.00 0.00 37.32 3.16
4489 4811 9.865321 ATTCATTTTGATGACAAGTATTTCTGG 57.135 29.630 0.00 0.00 37.32 3.86
4490 4812 8.634335 TCATTTTGATGACAAGTATTTCTGGA 57.366 30.769 0.00 0.00 37.32 3.86
4491 4813 8.514594 TCATTTTGATGACAAGTATTTCTGGAC 58.485 33.333 0.00 0.00 37.32 4.02
4492 4814 6.480524 TTTGATGACAAGTATTTCTGGACG 57.519 37.500 0.00 0.00 37.32 4.79
4493 4815 4.503910 TGATGACAAGTATTTCTGGACGG 58.496 43.478 0.00 0.00 0.00 4.79
4494 4816 4.221924 TGATGACAAGTATTTCTGGACGGA 59.778 41.667 0.00 0.00 0.00 4.69
4495 4817 4.188247 TGACAAGTATTTCTGGACGGAG 57.812 45.455 0.00 0.00 0.00 4.63
4496 4818 3.830178 TGACAAGTATTTCTGGACGGAGA 59.170 43.478 0.00 0.00 0.00 3.71
4497 4819 4.082190 TGACAAGTATTTCTGGACGGAGAG 60.082 45.833 0.00 0.00 0.00 3.20
4498 4820 4.087182 ACAAGTATTTCTGGACGGAGAGA 58.913 43.478 0.00 0.00 0.00 3.10
4499 4821 4.158764 ACAAGTATTTCTGGACGGAGAGAG 59.841 45.833 0.00 0.00 0.00 3.20
4500 4822 3.970842 AGTATTTCTGGACGGAGAGAGT 58.029 45.455 0.00 0.00 0.00 3.24
4507 4829 4.851843 TCTGGACGGAGAGAGTACAATAA 58.148 43.478 0.00 0.00 31.16 1.40
4688 5018 4.314961 CACCATAGTACAACTCTTGCACA 58.685 43.478 0.00 0.00 29.15 4.57
4730 5060 7.936847 CCATAATGGTAATGCTTTAGACCTGTA 59.063 37.037 6.01 0.41 31.35 2.74
4736 5066 7.335924 TGGTAATGCTTTAGACCTGTACATTTC 59.664 37.037 0.00 0.00 32.87 2.17
4743 5073 2.484264 AGACCTGTACATTTCGCTTTGC 59.516 45.455 0.00 0.00 0.00 3.68
4798 5128 2.738321 GCTCTGTTTCTCCTGCTAGCTC 60.738 54.545 17.23 0.00 0.00 4.09
4918 5251 4.386716 GCAGTTATTCATCTGCGATGAG 57.613 45.455 16.77 8.93 45.42 2.90
4935 5268 1.351017 TGAGGGCGTTTGGAGAAGAAT 59.649 47.619 0.00 0.00 0.00 2.40
5023 5356 7.860918 TGTATCATCTAGTTCTAGACGTGTT 57.139 36.000 11.11 5.78 0.00 3.32
5024 5357 7.694886 TGTATCATCTAGTTCTAGACGTGTTG 58.305 38.462 11.11 6.43 0.00 3.33
5025 5358 4.982999 TCATCTAGTTCTAGACGTGTTGC 58.017 43.478 11.11 0.00 0.00 4.17
5076 5430 2.958355 CCATCCCGTGCCATTTTTAGAT 59.042 45.455 0.00 0.00 0.00 1.98
5092 5446 7.656707 TTTTTAGATAGTTTGGTCGGTGTAC 57.343 36.000 0.00 0.00 0.00 2.90
5113 5467 1.482182 TGTGACTGCACTCTTGACTGT 59.518 47.619 0.00 0.00 45.36 3.55
5179 5534 2.503061 CTCGGACATGCCCTGGAG 59.497 66.667 0.00 0.00 0.00 3.86
5225 5580 4.972440 GCATCGAGCATTTGGAAAGTAATC 59.028 41.667 0.00 0.00 44.79 1.75
5237 5592 8.770010 TTTGGAAAGTAATCCCAAAACTTAGA 57.230 30.769 0.00 0.00 44.25 2.10
5249 5604 8.165267 TCCCAAAACTTAGAACCCTGATAATA 57.835 34.615 0.00 0.00 0.00 0.98
5351 5706 6.856895 AGTATATTTTTGACAGAAGCTTGCC 58.143 36.000 2.10 0.00 0.00 4.52
5361 5716 1.916697 GAAGCTTGCCTTCTGTCGCC 61.917 60.000 2.10 0.00 45.27 5.54
5384 5739 3.305335 GGAATTTGTCAACCTTGCGTGAT 60.305 43.478 0.00 0.00 0.00 3.06
5411 5766 1.374252 CCACCGAAAGACGTCAGGG 60.374 63.158 19.50 14.59 40.78 4.45
5412 5767 2.027625 CACCGAAAGACGTCAGGGC 61.028 63.158 19.50 3.03 40.78 5.19
5413 5768 2.434359 CCGAAAGACGTCAGGGCC 60.434 66.667 19.50 0.00 40.78 5.80
5414 5769 2.434359 CGAAAGACGTCAGGGCCC 60.434 66.667 16.46 16.46 37.22 5.80
5415 5770 2.434359 GAAAGACGTCAGGGCCCG 60.434 66.667 18.44 12.05 0.00 6.13
5416 5771 2.920912 AAAGACGTCAGGGCCCGA 60.921 61.111 18.44 14.51 0.00 5.14
5417 5772 2.837371 GAAAGACGTCAGGGCCCGAG 62.837 65.000 18.44 14.09 0.00 4.63
5418 5773 4.680537 AGACGTCAGGGCCCGAGT 62.681 66.667 18.44 15.19 0.00 4.18
5419 5774 4.436998 GACGTCAGGGCCCGAGTG 62.437 72.222 18.44 10.07 0.00 3.51
5422 5777 3.075005 GTCAGGGCCCGAGTGCTA 61.075 66.667 18.44 0.00 0.00 3.49
5423 5778 2.041922 TCAGGGCCCGAGTGCTAT 60.042 61.111 18.44 0.00 0.00 2.97
5424 5779 2.109799 CAGGGCCCGAGTGCTATG 59.890 66.667 18.44 1.82 0.00 2.23
5425 5780 3.866582 AGGGCCCGAGTGCTATGC 61.867 66.667 18.44 0.00 0.00 3.14
5426 5781 4.175337 GGGCCCGAGTGCTATGCA 62.175 66.667 5.69 0.00 35.60 3.96
5438 5793 1.361668 GCTATGCACCTGACGTGTGG 61.362 60.000 0.00 0.00 44.97 4.17
5520 5921 1.527433 GGGTTGGCAAAGAGGACTGC 61.527 60.000 0.00 0.00 37.86 4.40
5547 5948 4.592485 TCACCTCAAGAGTCAAGACTTC 57.408 45.455 3.96 0.00 42.66 3.01
5560 5961 4.023963 GTCAAGACTTCTTACAGTTTGGCC 60.024 45.833 0.00 0.00 34.28 5.36
5588 5989 1.674980 ACTCGACGAGTCCCACTCC 60.675 63.158 24.44 0.00 42.12 3.85
5638 6040 4.290093 ACTCCTAGATGGCAAGATACACA 58.710 43.478 0.00 0.00 35.26 3.72
5670 6072 6.345723 GCAAAAACGACAAATATGACTTGTGG 60.346 38.462 0.00 0.00 37.14 4.17
5690 6092 5.067153 TGTGGTCGAAATCAATTCACAAACT 59.933 36.000 0.00 0.00 37.96 2.66
5694 6096 6.360681 GGTCGAAATCAATTCACAAACTGAAG 59.639 38.462 0.00 0.00 42.36 3.02
5695 6097 7.132213 GTCGAAATCAATTCACAAACTGAAGA 58.868 34.615 0.00 0.00 42.36 2.87
5697 6099 7.226523 TCGAAATCAATTCACAAACTGAAGAGA 59.773 33.333 0.00 0.00 42.36 3.10
5698 6100 7.857389 CGAAATCAATTCACAAACTGAAGAGAA 59.143 33.333 0.00 0.00 42.36 2.87
5699 6101 9.520204 GAAATCAATTCACAAACTGAAGAGAAA 57.480 29.630 0.00 0.00 42.36 2.52
5700 6102 9.874205 AAATCAATTCACAAACTGAAGAGAAAA 57.126 25.926 0.00 0.00 42.36 2.29
5701 6103 9.874205 AATCAATTCACAAACTGAAGAGAAAAA 57.126 25.926 0.00 0.00 42.36 1.94
5730 6139 2.813908 GCAGACCCTGTAACGCCG 60.814 66.667 0.00 0.00 33.43 6.46
5733 6142 2.125793 GACCCTGTAACGCCGGAC 60.126 66.667 5.05 0.00 0.00 4.79
5737 6146 2.048597 CTGTAACGCCGGACAGCA 60.049 61.111 5.05 0.00 36.91 4.41
5739 6148 2.260434 GTAACGCCGGACAGCAGA 59.740 61.111 5.05 0.00 0.00 4.26
5747 6156 4.687215 GGACAGCAGAGCGCCACA 62.687 66.667 2.29 0.00 44.04 4.17
5760 6169 0.166597 CGCCACACTACATTGTGCAG 59.833 55.000 0.00 0.00 44.79 4.41
5763 6172 0.453282 CACACTACATTGTGCAGCGC 60.453 55.000 0.00 0.00 40.51 5.92
5783 6192 2.409371 GCTTGACTAACACGCGTTACAC 60.409 50.000 10.22 0.00 36.52 2.90
5784 6193 1.397619 TGACTAACACGCGTTACACG 58.602 50.000 10.22 0.00 45.88 4.49
5801 6210 4.403976 GCCTAGCTAGCGTCACAC 57.596 61.111 15.74 0.00 0.00 3.82
5803 6212 1.668101 GCCTAGCTAGCGTCACACCT 61.668 60.000 15.74 0.00 0.00 4.00
5812 6221 1.344942 GCGTCACACCTTAGACTGCG 61.345 60.000 0.00 0.00 32.68 5.18
5828 6237 4.083802 AGACTGCGTGAAAATTGCTAAGTC 60.084 41.667 0.00 0.00 33.97 3.01
5839 6248 1.593196 TGCTAAGTCAGTGTGCAACC 58.407 50.000 0.00 0.00 34.36 3.77
5840 6249 1.134250 TGCTAAGTCAGTGTGCAACCA 60.134 47.619 0.00 0.00 34.36 3.67
5841 6250 1.264288 GCTAAGTCAGTGTGCAACCAC 59.736 52.381 0.00 0.00 42.40 4.16
5866 8093 1.071471 GCCGGACCATGGATTCGAT 59.929 57.895 21.47 0.00 0.00 3.59
5878 8105 6.263168 ACCATGGATTCGATTGGAATAAAGAC 59.737 38.462 21.47 0.00 45.33 3.01
5946 8174 2.119801 AGCTGGCCAGTTACTGATTG 57.880 50.000 32.81 5.74 32.44 2.67
6080 8316 3.024356 TCCTCCCTCCCTCGCTCT 61.024 66.667 0.00 0.00 0.00 4.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
256 257 3.066064 TCAAAATCGTGTTGTCAAGTGGG 59.934 43.478 0.00 0.00 0.00 4.61
265 280 8.963130 TGTAATTAAAAGCTCAAAATCGTGTTG 58.037 29.630 0.00 0.00 0.00 3.33
287 302 1.167851 CTACAGGTCGGTCGGTGTAA 58.832 55.000 0.00 0.00 0.00 2.41
289 304 0.825010 AACTACAGGTCGGTCGGTGT 60.825 55.000 0.00 0.00 0.00 4.16
290 305 0.388134 CAACTACAGGTCGGTCGGTG 60.388 60.000 0.00 0.00 0.00 4.94
291 306 1.530013 CCAACTACAGGTCGGTCGGT 61.530 60.000 0.00 0.00 0.00 4.69
292 307 1.214589 CCAACTACAGGTCGGTCGG 59.785 63.158 0.00 0.00 0.00 4.79
293 308 1.445582 GCCAACTACAGGTCGGTCG 60.446 63.158 0.00 0.00 0.00 4.79
294 309 0.249398 ATGCCAACTACAGGTCGGTC 59.751 55.000 0.00 0.00 0.00 4.79
538 556 3.195698 GACGATGGGGCGCAACTC 61.196 66.667 10.83 1.29 33.86 3.01
606 627 2.091885 TCCCATAAAAGGCATGGAGGTC 60.092 50.000 3.28 0.00 44.95 3.85
647 668 1.209128 GATTGCTACCGTGTCCGATG 58.791 55.000 0.00 0.00 35.63 3.84
651 679 0.179081 GGAGGATTGCTACCGTGTCC 60.179 60.000 0.00 0.00 0.00 4.02
662 690 2.163815 ACGTAGAGTTCGTGGAGGATTG 59.836 50.000 0.00 0.00 40.07 2.67
669 697 4.741342 AGGATTTTACGTAGAGTTCGTGG 58.259 43.478 0.00 0.00 41.62 4.94
673 701 6.624423 TGGTGTAGGATTTTACGTAGAGTTC 58.376 40.000 0.00 0.00 0.00 3.01
691 719 5.523188 CACGGTTTTACTTACAGTTGGTGTA 59.477 40.000 0.00 0.00 40.94 2.90
696 724 4.268405 ACGTCACGGTTTTACTTACAGTTG 59.732 41.667 0.35 0.00 0.00 3.16
859 910 0.908180 CCCGGACCCCAGACTACTTT 60.908 60.000 0.73 0.00 0.00 2.66
1115 1166 1.377463 CGGGAGACTGACCTCGTCT 60.377 63.158 0.00 0.00 43.97 4.18
1408 1463 2.816777 TGGCACAGGGTATATGCAAA 57.183 45.000 0.00 0.00 41.27 3.68
1513 1571 9.994432 CATGTACTGTCTGAATAAAAATTCCTC 57.006 33.333 0.00 0.00 0.00 3.71
1514 1572 8.960591 CCATGTACTGTCTGAATAAAAATTCCT 58.039 33.333 0.00 0.00 0.00 3.36
1528 1586 4.096681 TGATGACTTCCCATGTACTGTCT 58.903 43.478 0.00 0.00 0.00 3.41
1536 1594 4.466827 TCAATGGATGATGACTTCCCATG 58.533 43.478 0.00 0.00 38.91 3.66
1537 1595 4.801521 TCAATGGATGATGACTTCCCAT 57.198 40.909 0.00 0.00 38.91 4.00
1569 1639 1.073284 GGCTTTGGACACCCTACTGAA 59.927 52.381 0.00 0.00 0.00 3.02
1574 1644 1.742308 AGAAGGCTTTGGACACCCTA 58.258 50.000 0.00 0.00 0.00 3.53
1575 1645 0.853530 AAGAAGGCTTTGGACACCCT 59.146 50.000 0.00 0.00 0.00 4.34
1587 1658 3.384789 AGAAACAAAGGGTCAAAGAAGGC 59.615 43.478 0.00 0.00 0.00 4.35
1670 1741 5.064558 GGAGAACAGTCGATAGTGGATAGA 58.935 45.833 0.00 0.00 37.40 1.98
1693 1764 4.633565 GCAGGTCCAAAGAAGAAGTATCAG 59.366 45.833 0.00 0.00 0.00 2.90
1724 1795 1.066002 GGTATCGCGTGTAGGCTTACA 59.934 52.381 5.77 4.29 37.45 2.41
1772 1843 1.730501 CTCACTGTGCCATCAATCGT 58.269 50.000 2.12 0.00 0.00 3.73
1897 1968 2.348666 GCAGTGGTTACAGATAGCAACG 59.651 50.000 0.00 0.00 0.00 4.10
1945 2016 0.107831 GTAGGTGTGTGGTGCCTGAA 59.892 55.000 0.00 0.00 34.07 3.02
2143 2214 1.559682 ACAATCATACGGGCAAGGTCT 59.440 47.619 0.00 0.00 0.00 3.85
2293 2364 1.141449 CTGGAGCTTCAGCCTCTCG 59.859 63.158 9.65 0.00 43.38 4.04
2518 2589 3.139397 TCCTTTCAATACCCCACTGTTGT 59.861 43.478 0.00 0.00 0.00 3.32
3142 3213 2.599677 AGATCCCAGTATCCCTCGAAC 58.400 52.381 0.00 0.00 0.00 3.95
3297 3368 1.203052 CATTGCACAGGCTGGTAAAGG 59.797 52.381 20.34 7.46 41.91 3.11
3346 3417 3.676324 CGTAGAAGAGAACGGCTGGATTT 60.676 47.826 0.00 0.00 35.51 2.17
3355 3426 2.631418 TTCCAGCGTAGAAGAGAACG 57.369 50.000 0.00 0.00 41.92 3.95
4018 4094 7.846644 TGGTATGGATCAAAAATCAAAATGC 57.153 32.000 0.00 0.00 0.00 3.56
4034 4110 6.397272 GCATTTCAAGTTGAATTGGTATGGA 58.603 36.000 28.57 11.34 37.87 3.41
4164 4250 2.082140 AGGAAAAAGAGGCCCGTTTT 57.918 45.000 14.36 14.36 38.75 2.43
4376 4698 1.479730 GTATTTTCGGACGGAGGGAGT 59.520 52.381 0.00 0.00 0.00 3.85
4377 4699 1.755380 AGTATTTTCGGACGGAGGGAG 59.245 52.381 0.00 0.00 0.00 4.30
4378 4700 1.856629 AGTATTTTCGGACGGAGGGA 58.143 50.000 0.00 0.00 0.00 4.20
4379 4701 2.277084 CAAGTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
4380 4702 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
4381 4703 3.581755 TGACAAGTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
4382 4704 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
4383 4705 3.930229 TGATGACAAGTATTTTCGGACGG 59.070 43.478 0.00 0.00 0.00 4.79
4384 4706 5.524511 TTGATGACAAGTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
4385 4707 7.273381 CCATTTTGATGACAAGTATTTTCGGAC 59.727 37.037 0.00 0.00 37.32 4.79
4386 4708 7.175816 TCCATTTTGATGACAAGTATTTTCGGA 59.824 33.333 0.00 0.00 37.32 4.55
4387 4709 7.312154 TCCATTTTGATGACAAGTATTTTCGG 58.688 34.615 0.00 0.00 37.32 4.30
4388 4710 8.915871 ATCCATTTTGATGACAAGTATTTTCG 57.084 30.769 0.00 0.00 37.32 3.46
4395 4717 8.096414 CCCTTTTTATCCATTTTGATGACAAGT 58.904 33.333 0.00 0.00 37.32 3.16
4396 4718 8.313292 TCCCTTTTTATCCATTTTGATGACAAG 58.687 33.333 0.00 0.00 37.32 3.16
4397 4719 8.200024 TCCCTTTTTATCCATTTTGATGACAA 57.800 30.769 0.00 0.00 0.00 3.18
4398 4720 7.789202 TCCCTTTTTATCCATTTTGATGACA 57.211 32.000 0.00 0.00 0.00 3.58
4399 4721 8.260114 ACATCCCTTTTTATCCATTTTGATGAC 58.740 33.333 0.00 0.00 32.39 3.06
4400 4722 8.378115 ACATCCCTTTTTATCCATTTTGATGA 57.622 30.769 0.00 0.00 32.39 2.92
4403 4725 9.713684 AGATACATCCCTTTTTATCCATTTTGA 57.286 29.630 0.00 0.00 0.00 2.69
4409 4731 9.225682 AGTTCTAGATACATCCCTTTTTATCCA 57.774 33.333 0.00 0.00 0.00 3.41
4451 4773 9.271828 GTCATCAAAATGAATAAAAAGGGTTGT 57.728 29.630 0.00 0.00 43.42 3.32
4452 4774 9.270640 TGTCATCAAAATGAATAAAAAGGGTTG 57.729 29.630 0.00 0.00 43.42 3.77
4453 4775 9.844257 TTGTCATCAAAATGAATAAAAAGGGTT 57.156 25.926 0.00 0.00 43.42 4.11
4454 4776 9.492973 CTTGTCATCAAAATGAATAAAAAGGGT 57.507 29.630 0.00 0.00 43.42 4.34
4455 4777 9.492973 ACTTGTCATCAAAATGAATAAAAAGGG 57.507 29.630 0.00 0.00 43.42 3.95
4463 4785 9.865321 CCAGAAATACTTGTCATCAAAATGAAT 57.135 29.630 0.00 0.00 43.42 2.57
4464 4786 9.076781 TCCAGAAATACTTGTCATCAAAATGAA 57.923 29.630 0.00 0.00 43.42 2.57
4465 4787 8.514594 GTCCAGAAATACTTGTCATCAAAATGA 58.485 33.333 0.00 0.00 39.63 2.57
4466 4788 7.482743 CGTCCAGAAATACTTGTCATCAAAATG 59.517 37.037 0.00 0.00 32.87 2.32
4467 4789 7.362056 CCGTCCAGAAATACTTGTCATCAAAAT 60.362 37.037 0.00 0.00 32.87 1.82
4468 4790 6.072728 CCGTCCAGAAATACTTGTCATCAAAA 60.073 38.462 0.00 0.00 32.87 2.44
4469 4791 5.411361 CCGTCCAGAAATACTTGTCATCAAA 59.589 40.000 0.00 0.00 32.87 2.69
4470 4792 4.935205 CCGTCCAGAAATACTTGTCATCAA 59.065 41.667 0.00 0.00 0.00 2.57
4471 4793 4.221924 TCCGTCCAGAAATACTTGTCATCA 59.778 41.667 0.00 0.00 0.00 3.07
4472 4794 4.755411 TCCGTCCAGAAATACTTGTCATC 58.245 43.478 0.00 0.00 0.00 2.92
4473 4795 4.466370 TCTCCGTCCAGAAATACTTGTCAT 59.534 41.667 0.00 0.00 0.00 3.06
4474 4796 3.830178 TCTCCGTCCAGAAATACTTGTCA 59.170 43.478 0.00 0.00 0.00 3.58
4475 4797 4.158025 TCTCTCCGTCCAGAAATACTTGTC 59.842 45.833 0.00 0.00 0.00 3.18
4476 4798 4.087182 TCTCTCCGTCCAGAAATACTTGT 58.913 43.478 0.00 0.00 0.00 3.16
4477 4799 4.158764 ACTCTCTCCGTCCAGAAATACTTG 59.841 45.833 0.00 0.00 0.00 3.16
4478 4800 4.345854 ACTCTCTCCGTCCAGAAATACTT 58.654 43.478 0.00 0.00 0.00 2.24
4479 4801 3.970842 ACTCTCTCCGTCCAGAAATACT 58.029 45.455 0.00 0.00 0.00 2.12
4480 4802 4.639310 TGTACTCTCTCCGTCCAGAAATAC 59.361 45.833 0.00 0.00 0.00 1.89
4481 4803 4.851843 TGTACTCTCTCCGTCCAGAAATA 58.148 43.478 0.00 0.00 0.00 1.40
4482 4804 3.698289 TGTACTCTCTCCGTCCAGAAAT 58.302 45.455 0.00 0.00 0.00 2.17
4483 4805 3.150458 TGTACTCTCTCCGTCCAGAAA 57.850 47.619 0.00 0.00 0.00 2.52
4484 4806 2.873094 TGTACTCTCTCCGTCCAGAA 57.127 50.000 0.00 0.00 0.00 3.02
4485 4807 2.873094 TTGTACTCTCTCCGTCCAGA 57.127 50.000 0.00 0.00 0.00 3.86
4486 4808 5.776173 ATTATTGTACTCTCTCCGTCCAG 57.224 43.478 0.00 0.00 0.00 3.86
4487 4809 7.834881 ATTATTATTGTACTCTCTCCGTCCA 57.165 36.000 0.00 0.00 0.00 4.02
4488 4810 8.578151 AGAATTATTATTGTACTCTCTCCGTCC 58.422 37.037 0.00 0.00 0.00 4.79
4507 4829 7.171678 GCAAAAGTCGCATCCTAGTAGAATTAT 59.828 37.037 0.00 0.00 0.00 1.28
4517 4839 2.016318 CATGGCAAAAGTCGCATCCTA 58.984 47.619 0.00 0.00 0.00 2.94
4649 4979 3.924144 TGGTGGATAAAAATGCACAAGC 58.076 40.909 11.34 0.00 43.46 4.01
4730 5060 0.532115 GGATGGGCAAAGCGAAATGT 59.468 50.000 0.00 0.00 0.00 2.71
4736 5066 3.204827 CTCCGGATGGGCAAAGCG 61.205 66.667 3.57 0.00 35.24 4.68
4743 5073 1.836999 TTGGTGTCACTCCGGATGGG 61.837 60.000 3.57 0.00 35.24 4.00
4798 5128 8.523464 GTTTATTTGATGGATCGTGAAATTTCG 58.477 33.333 13.34 3.42 0.00 3.46
4836 5166 3.395639 TCGAGAAAGTAAAACGCCACAT 58.604 40.909 0.00 0.00 0.00 3.21
4912 5245 0.391130 TTCTCCAAACGCCCTCATCG 60.391 55.000 0.00 0.00 0.00 3.84
4918 5251 0.811281 CCATTCTTCTCCAAACGCCC 59.189 55.000 0.00 0.00 0.00 6.13
4935 5268 3.737559 AATGCCATTCTTGTACCTCCA 57.262 42.857 0.00 0.00 0.00 3.86
5008 5341 1.547372 GGGGCAACACGTCTAGAACTA 59.453 52.381 0.00 0.00 39.74 2.24
5009 5342 0.320697 GGGGCAACACGTCTAGAACT 59.679 55.000 0.00 0.00 39.74 3.01
5010 5343 0.672711 GGGGGCAACACGTCTAGAAC 60.673 60.000 0.00 0.00 46.14 3.01
5011 5344 1.675219 GGGGGCAACACGTCTAGAA 59.325 57.895 0.00 0.00 46.14 2.10
5076 5430 2.957680 TCACAGTACACCGACCAAACTA 59.042 45.455 0.00 0.00 0.00 2.24
5092 5446 2.133553 CAGTCAAGAGTGCAGTCACAG 58.866 52.381 23.21 12.10 45.49 3.66
5113 5467 2.624636 CTGAGCAGCATGATACACACA 58.375 47.619 0.00 0.00 39.69 3.72
5179 5534 3.758554 ACAATATTGTCCACTCCAAGCAC 59.241 43.478 15.47 0.00 36.50 4.40
5225 5580 8.053355 ACTATTATCAGGGTTCTAAGTTTTGGG 58.947 37.037 0.00 0.00 0.00 4.12
5237 5592 4.464951 TGACGTGTGACTATTATCAGGGTT 59.535 41.667 0.00 0.00 0.00 4.11
5276 5631 7.745620 ACTAAAGTTGACATCCTTCGATTTT 57.254 32.000 0.00 0.00 0.00 1.82
5330 5685 5.990120 AGGCAAGCTTCTGTCAAAAATAT 57.010 34.783 0.00 0.00 0.00 1.28
5345 5700 3.793144 CGGCGACAGAAGGCAAGC 61.793 66.667 0.00 0.00 0.00 4.01
5351 5706 1.128692 GACAAATTCCGGCGACAGAAG 59.871 52.381 9.30 0.00 0.00 2.85
5361 5716 1.001815 ACGCAAGGTTGACAAATTCCG 60.002 47.619 0.00 0.00 46.39 4.30
5384 5739 2.287308 CGTCTTTCGGTGGCAATTTCAA 60.287 45.455 0.00 0.00 35.71 2.69
5418 5773 4.596311 CACGTCAGGTGCATAGCA 57.404 55.556 0.00 0.00 40.33 3.49
5426 5781 1.523711 CAAGTGCCACACGTCAGGT 60.524 57.895 0.00 0.00 39.64 4.00
5427 5782 2.896801 GCAAGTGCCACACGTCAGG 61.897 63.158 0.00 0.00 39.64 3.86
5438 5793 1.872952 GTTTTCCCAAATGGCAAGTGC 59.127 47.619 0.00 0.00 41.14 4.40
5547 5948 6.431234 AGTCTGAAAATAGGCCAAACTGTAAG 59.569 38.462 5.01 0.00 42.29 2.34
5588 5989 1.781555 CAGCGCTTCAACTGTACCG 59.218 57.895 7.50 0.00 0.00 4.02
5638 6040 1.757682 TTGTCGTTTTTGCCCTGTCT 58.242 45.000 0.00 0.00 0.00 3.41
5670 6072 7.132213 TCTTCAGTTTGTGAATTGATTTCGAC 58.868 34.615 0.00 0.00 44.44 4.20
5701 6103 1.073923 AGGGTCTGCGGAGTGATTTTT 59.926 47.619 3.10 0.00 0.00 1.94
5702 6104 0.693049 AGGGTCTGCGGAGTGATTTT 59.307 50.000 3.10 0.00 0.00 1.82
5703 6105 0.036010 CAGGGTCTGCGGAGTGATTT 60.036 55.000 3.10 0.00 0.00 2.17
5708 6112 1.874345 CGTTACAGGGTCTGCGGAGT 61.874 60.000 3.10 0.00 34.37 3.85
5714 6118 2.125673 CCGGCGTTACAGGGTCTG 60.126 66.667 6.01 0.00 37.52 3.51
5730 6139 4.687215 TGTGGCGCTCTGCTGTCC 62.687 66.667 7.64 0.00 45.43 4.02
5733 6142 2.097038 GTAGTGTGGCGCTCTGCTG 61.097 63.158 7.64 0.00 45.43 4.41
5737 6146 0.321671 ACAATGTAGTGTGGCGCTCT 59.678 50.000 7.64 7.83 0.00 4.09
5739 6148 2.543578 CACAATGTAGTGTGGCGCT 58.456 52.632 7.64 0.00 44.29 5.92
5747 6156 0.518636 CAAGCGCTGCACAATGTAGT 59.481 50.000 12.58 0.00 32.42 2.73
5763 6172 3.413687 GTGTAACGCGTGTTAGTCAAG 57.586 47.619 21.24 0.00 41.09 3.02
5784 6193 1.227002 GGTGTGACGCTAGCTAGGC 60.227 63.158 22.10 13.01 0.00 3.93
5788 6197 1.473278 GTCTAAGGTGTGACGCTAGCT 59.527 52.381 13.93 0.00 0.00 3.32
5791 6200 1.201647 GCAGTCTAAGGTGTGACGCTA 59.798 52.381 0.00 0.00 38.16 4.26
5793 6202 1.344942 CGCAGTCTAAGGTGTGACGC 61.345 60.000 0.00 0.00 38.16 5.19
5801 6210 3.189287 AGCAATTTTCACGCAGTCTAAGG 59.811 43.478 0.00 0.00 41.61 2.69
5803 6212 5.468746 ACTTAGCAATTTTCACGCAGTCTAA 59.531 36.000 0.00 0.00 41.61 2.10
5812 6221 4.676924 GCACACTGACTTAGCAATTTTCAC 59.323 41.667 0.00 0.00 0.00 3.18
5845 6254 3.400599 GAATCCATGGTCCGGCCGT 62.401 63.158 26.12 0.65 41.21 5.68
5846 6255 2.591715 GAATCCATGGTCCGGCCG 60.592 66.667 21.04 21.04 41.21 6.13
5850 8077 1.202639 TCCAATCGAATCCATGGTCCG 60.203 52.381 12.58 13.46 34.50 4.79
5866 8093 0.446222 GCGCTGCGTCTTTATTCCAA 59.554 50.000 24.04 0.00 0.00 3.53
5946 8174 3.402628 TCAGTTTTCAGGTAGAGGTGC 57.597 47.619 0.00 0.00 0.00 5.01
5987 8215 4.362279 TCTTTTGCGTAACGTTAGACAGT 58.638 39.130 8.60 0.00 0.00 3.55
5988 8216 4.959631 TCTTTTGCGTAACGTTAGACAG 57.040 40.909 8.60 2.19 0.00 3.51
6080 8316 1.014044 GTGACGCCTGCTCGATCAAA 61.014 55.000 0.00 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.