Multiple sequence alignment - TraesCS6A01G122700

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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 TraesCS6A01G122700 chr6A 100.000 7781 0 0 1 7781 96439501 96447281 0.000000e+00 14369.0
1 TraesCS6A01G122700 chr6D 96.193 6015 163 25 1704 7681 79717698 79723683 0.000000e+00 9779.0
2 TraesCS6A01G122700 chr6D 91.236 1643 112 19 13 1639 79716075 79717701 0.000000e+00 2207.0
3 TraesCS6A01G122700 chr6B 95.525 3307 103 20 3336 6625 152084103 152087381 0.000000e+00 5245.0
4 TraesCS6A01G122700 chr6B 92.180 1688 91 15 1 1669 152078402 152080067 0.000000e+00 2348.0
5 TraesCS6A01G122700 chr6B 96.148 1220 41 3 2119 3334 152082800 152084017 0.000000e+00 1988.0
6 TraesCS6A01G122700 chr6B 95.678 1018 33 10 6666 7680 152087380 152088389 0.000000e+00 1626.0
7 TraesCS6A01G122700 chr6B 97.149 456 13 0 1666 2121 152082186 152082641 0.000000e+00 771.0
8 TraesCS6A01G122700 chr5D 88.360 189 15 6 1 184 503743445 503743631 3.650000e-53 220.0
9 TraesCS6A01G122700 chr5D 86.702 188 20 5 1 183 422694558 422694745 3.680000e-48 204.0
10 TraesCS6A01G122700 chr5D 94.186 86 5 0 2453 2538 420277225 420277140 1.760000e-26 132.0
11 TraesCS6A01G122700 chr5B 88.360 189 15 6 1 184 632232893 632233079 3.650000e-53 220.0
12 TraesCS6A01G122700 chr3B 88.360 189 15 7 2 184 404130449 404130636 3.650000e-53 220.0
13 TraesCS6A01G122700 chr3B 93.258 89 6 0 2453 2541 228206186 228206274 1.760000e-26 132.0
14 TraesCS6A01G122700 chr3B 82.243 107 15 4 7413 7517 156906977 156907081 1.080000e-13 89.8
15 TraesCS6A01G122700 chr7D 87.895 190 16 7 1 184 332728494 332728306 4.730000e-52 217.0
16 TraesCS6A01G122700 chr7D 79.070 172 29 7 7205 7373 112788420 112788587 2.300000e-20 111.0
17 TraesCS6A01G122700 chr3A 86.842 190 20 5 1 185 597549308 597549119 2.850000e-49 207.0
18 TraesCS6A01G122700 chr1D 86.316 190 21 5 1 185 188539131 188538942 1.320000e-47 202.0
19 TraesCS6A01G122700 chr7A 96.000 100 4 0 7421 7520 628642647 628642548 6.250000e-36 163.0
20 TraesCS6A01G122700 chr7A 90.566 53 4 1 7468 7520 169956573 169956624 1.400000e-07 69.4
21 TraesCS6A01G122700 chr2A 93.458 107 7 0 7413 7519 377131673 377131779 8.080000e-35 159.0
22 TraesCS6A01G122700 chr2A 91.837 98 5 3 2446 2542 79308234 79308139 4.900000e-27 134.0
23 TraesCS6A01G122700 chr1B 94.231 104 5 1 2442 2544 331096882 331096985 2.910000e-34 158.0
24 TraesCS6A01G122700 chr7B 92.593 108 8 0 7413 7520 589732907 589732800 1.050000e-33 156.0
25 TraesCS6A01G122700 chr2B 93.204 103 7 0 7413 7515 358770088 358770190 1.350000e-32 152.0
26 TraesCS6A01G122700 chr2B 94.118 85 5 0 2454 2538 723392895 723392979 6.340000e-26 130.0
27 TraesCS6A01G122700 chr2D 92.381 105 8 0 7677 7781 113211611 113211715 4.860000e-32 150.0
28 TraesCS6A01G122700 chr3D 96.591 88 3 0 2453 2540 157099357 157099444 6.290000e-31 147.0
29 TraesCS6A01G122700 chr3D 92.222 90 7 0 2453 2542 64483269 64483358 2.280000e-25 128.0


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 TraesCS6A01G122700 chr6A 96439501 96447281 7780 False 14369.0 14369 100.0000 1 7781 1 chr6A.!!$F1 7780
1 TraesCS6A01G122700 chr6D 79716075 79723683 7608 False 5993.0 9779 93.7145 13 7681 2 chr6D.!!$F1 7668
2 TraesCS6A01G122700 chr6B 152078402 152088389 9987 False 2395.6 5245 95.3360 1 7680 5 chr6B.!!$F1 7679

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
545 550 1.372838 TTGTGTTGGTGCACGAGTGG 61.373 55.000 11.45 0.00 41.94 4.00 F
1514 1538 1.209747 AGAAGAGGGGTATGCGTTTCC 59.790 52.381 0.00 0.00 0.00 3.13 F
2873 5189 0.613777 AGGGAAGGGTCTTGCGTAAG 59.386 55.000 6.95 6.95 43.44 2.34 F
3103 5419 0.390472 GGCCTCGACCTCAAGTCTTG 60.390 60.000 6.21 6.21 43.91 3.02 F
4814 7243 0.541863 ATCGCAGTTACCTCTTGGGG 59.458 55.000 0.00 0.00 40.03 4.96 F
4815 7244 0.543410 TCGCAGTTACCTCTTGGGGA 60.543 55.000 0.00 0.00 40.03 4.81 F
4843 7272 1.337167 GGGACAGAAAACTTGCATGCC 60.337 52.381 16.68 0.00 0.00 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2522 4834 1.041447 ATTGTACTCCCTCCGTCCCG 61.041 60.000 0.00 0.0 0.00 5.14 R
2947 5263 0.591659 GAGCTTTTGGGTGAACCGAC 59.408 55.000 0.00 0.0 44.64 4.79 R
4521 6950 2.002586 TGCTTGATAGTTCGAAGCTGC 58.997 47.619 0.00 0.0 42.19 5.25 R
4876 7305 0.759959 TCGGTTTGGCACCTTGTCTA 59.240 50.000 0.00 0.0 44.69 2.59 R
6415 8844 1.316706 GCAGACGGACTAGCTCAGGT 61.317 60.000 0.00 0.0 0.00 4.00 R
6657 9086 4.777896 AGTTAAAGCCTAGGTGAGACATCA 59.222 41.667 11.31 0.0 0.00 3.07 R
6977 9416 3.126001 TCCAGGTCATGAAAGTGTGAC 57.874 47.619 0.00 0.0 43.02 3.67 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
164 169 7.176589 TGTTATGAATTATCAAAACCACCCC 57.823 36.000 0.00 0.00 39.49 4.95
186 191 4.625311 CCGGGATTAGTTGCATTTTCAAAC 59.375 41.667 0.00 0.00 0.00 2.93
268 273 4.761975 AGTTCGTGTCTTTGTAGGTTTGA 58.238 39.130 0.00 0.00 0.00 2.69
301 306 5.105917 ACCTTGCGGATTTTAGGTTTATGTG 60.106 40.000 0.00 0.00 37.75 3.21
302 307 5.105917 CCTTGCGGATTTTAGGTTTATGTGT 60.106 40.000 0.00 0.00 0.00 3.72
303 308 5.554822 TGCGGATTTTAGGTTTATGTGTC 57.445 39.130 0.00 0.00 0.00 3.67
306 311 5.067283 GCGGATTTTAGGTTTATGTGTCCAT 59.933 40.000 0.00 0.00 34.97 3.41
307 312 6.494842 CGGATTTTAGGTTTATGTGTCCATG 58.505 40.000 0.00 0.00 32.29 3.66
308 313 6.273071 GGATTTTAGGTTTATGTGTCCATGC 58.727 40.000 0.00 0.00 32.29 4.06
310 315 5.895636 TTTAGGTTTATGTGTCCATGCAG 57.104 39.130 0.00 0.00 32.29 4.41
311 316 3.719268 AGGTTTATGTGTCCATGCAGA 57.281 42.857 0.00 0.00 32.29 4.26
313 318 4.603131 AGGTTTATGTGTCCATGCAGATT 58.397 39.130 0.00 0.00 32.29 2.40
314 319 4.641989 AGGTTTATGTGTCCATGCAGATTC 59.358 41.667 0.00 0.00 32.29 2.52
324 329 5.469760 TGTCCATGCAGATTCATTTATACGG 59.530 40.000 0.00 0.00 0.00 4.02
379 384 6.757478 TGTCGTTTTATTGATGCGGTCTATTA 59.243 34.615 0.00 0.00 0.00 0.98
433 438 2.590821 AGTTCTTGTGCTTTGATGCCT 58.409 42.857 0.00 0.00 0.00 4.75
434 439 2.961062 AGTTCTTGTGCTTTGATGCCTT 59.039 40.909 0.00 0.00 0.00 4.35
460 465 2.443390 AGGTGATACCCCGACCCG 60.443 66.667 0.00 0.00 39.75 5.28
484 489 4.553323 GCACTTTGATGCTCATGTCTTTT 58.447 39.130 0.00 0.00 42.62 2.27
489 494 5.571784 TTGATGCTCATGTCTTTTCATCC 57.428 39.130 0.00 0.00 31.85 3.51
532 537 5.422012 AGAGGGTTTCAGTCAAATTTGTGTT 59.578 36.000 17.47 2.51 0.00 3.32
545 550 1.372838 TTGTGTTGGTGCACGAGTGG 61.373 55.000 11.45 0.00 41.94 4.00
571 576 3.767673 TGTCGCTTCTCCAACCTAACTAT 59.232 43.478 0.00 0.00 0.00 2.12
593 598 1.873591 GTCTCTTTCGCAAAGCCTTGA 59.126 47.619 0.00 0.00 38.39 3.02
626 631 6.017026 TCGTGTTGCAAAAACTGATACCATAA 60.017 34.615 0.00 0.00 29.63 1.90
716 732 8.023128 CCAAATCATTGTACCTGTAGTTTTGAG 58.977 37.037 0.00 0.00 34.60 3.02
740 762 9.827411 GAGAAGTTTGAATAAAGTTACATGTCC 57.173 33.333 0.00 0.00 39.04 4.02
741 763 9.574516 AGAAGTTTGAATAAAGTTACATGTCCT 57.425 29.630 0.00 0.00 39.04 3.85
742 764 9.827411 GAAGTTTGAATAAAGTTACATGTCCTC 57.173 33.333 0.00 0.00 39.04 3.71
743 765 8.336801 AGTTTGAATAAAGTTACATGTCCTCC 57.663 34.615 0.00 0.00 0.00 4.30
744 766 8.164070 AGTTTGAATAAAGTTACATGTCCTCCT 58.836 33.333 0.00 0.00 0.00 3.69
791 813 2.262915 CTGGCCACACTCGAGTCC 59.737 66.667 16.96 14.53 0.00 3.85
794 816 2.262915 GCCACACTCGAGTCCAGG 59.737 66.667 16.96 17.93 0.00 4.45
842 864 2.517402 CCGAGAGACGAGGGGAGG 60.517 72.222 0.00 0.00 45.77 4.30
1214 1236 2.439701 CCACGTCCTCTCCCGCTA 60.440 66.667 0.00 0.00 0.00 4.26
1344 1368 9.367444 GGATCGATTTTGATAGTACGGAATTAT 57.633 33.333 0.00 0.00 0.00 1.28
1448 1472 1.228552 TTTTCTGGCCCAGCTGGAC 60.229 57.895 34.91 23.90 45.71 4.02
1514 1538 1.209747 AGAAGAGGGGTATGCGTTTCC 59.790 52.381 0.00 0.00 0.00 3.13
1611 1640 5.101628 TCAATATGCTTTCATCGTTTTGCC 58.898 37.500 0.00 0.00 34.22 4.52
1627 1656 4.576216 TTTGCCAAACGAGCTGAATTTA 57.424 36.364 0.00 0.00 0.00 1.40
1643 1672 7.285783 CTGAATTTACAGCACAATTTCCATG 57.714 36.000 0.00 0.00 0.00 3.66
1695 3846 1.456705 TGGACCCACCAAACCAAGC 60.457 57.895 0.00 0.00 46.75 4.01
1904 4055 1.873591 CCAGTTAGTGCCACAGTTGTC 59.126 52.381 0.00 0.00 0.00 3.18
2181 4493 7.001674 TGATGGTACTCCTTTTTAGAGCAAAA 58.998 34.615 0.00 0.00 34.56 2.44
2248 4560 6.128472 GCAGAACAATTTGGAAAATGGATGTC 60.128 38.462 0.78 0.00 0.00 3.06
2314 4626 7.865385 GTGTATGTGATTGCAAAAGGAAAGTTA 59.135 33.333 1.71 0.00 0.00 2.24
2370 4682 7.172190 CGACAATGATACAAGCAAAGAGGATAT 59.828 37.037 0.00 0.00 0.00 1.63
2522 4834 5.857822 ACTAAACCAGCGACACTTATTTC 57.142 39.130 0.00 0.00 0.00 2.17
2553 4865 9.021807 CGGAGGGAGTACAATATTTATCTCTAA 57.978 37.037 0.00 0.00 0.00 2.10
2668 4980 7.068348 GTGAGTCTACATCCCTAACTATCACAA 59.932 40.741 0.00 0.00 0.00 3.33
2866 5182 4.077982 TGAGGATATACAGGGAAGGGTCTT 60.078 45.833 0.00 0.00 0.00 3.01
2873 5189 0.613777 AGGGAAGGGTCTTGCGTAAG 59.386 55.000 6.95 6.95 43.44 2.34
2912 5228 4.530710 TTCGAGGCTGAGCTTAGTTTTA 57.469 40.909 3.72 0.00 0.00 1.52
3009 5325 4.757657 ACAATGTAACACTGCCGTCATTTA 59.242 37.500 0.00 0.00 0.00 1.40
3089 5405 2.171448 TCATTTTCTCTAGCTGGGCCTC 59.829 50.000 4.53 0.00 0.00 4.70
3100 5416 2.232298 CTGGGCCTCGACCTCAAGTC 62.232 65.000 4.53 0.00 42.54 3.01
3103 5419 0.390472 GGCCTCGACCTCAAGTCTTG 60.390 60.000 6.21 6.21 43.91 3.02
3108 5424 1.068588 TCGACCTCAAGTCTTGTGTGG 59.931 52.381 12.30 14.15 43.91 4.17
3328 5651 5.079643 ACCATGAGCAAATCTAAACCTTGT 58.920 37.500 0.00 0.00 0.00 3.16
3334 5657 6.321181 TGAGCAAATCTAAACCTTGTGAACTT 59.679 34.615 0.00 0.00 0.00 2.66
3337 5744 8.135529 AGCAAATCTAAACCTTGTGAACTTTAC 58.864 33.333 0.00 0.00 0.00 2.01
3357 5764 2.223876 ACTTTCTTGCACAGCATGGTTG 60.224 45.455 0.00 0.00 43.62 3.77
3813 6225 3.696051 TGTCATTGGCTCCAATTAGCTTC 59.304 43.478 11.22 1.12 43.32 3.86
3821 6233 4.019858 GCTCCAATTAGCTTCTTCCCTTT 58.980 43.478 0.00 0.00 39.50 3.11
3840 6252 9.762381 TTCCCTTTTGTATATTGGAGTGTTTAT 57.238 29.630 0.00 0.00 0.00 1.40
3884 6296 2.646930 TGATGGATCATGTGCAAGGAC 58.353 47.619 0.00 0.00 0.00 3.85
3952 6364 5.911378 TGCAGCAATGTAAAATATGACCA 57.089 34.783 0.00 0.00 0.00 4.02
3989 6411 4.028993 ACCCAACTATTCACGACCATTT 57.971 40.909 0.00 0.00 0.00 2.32
4094 6517 4.695217 TTAATGTTCCCTTCGATGTTGC 57.305 40.909 0.00 0.00 0.00 4.17
4105 6528 3.887339 TCGATGTTGCGAAAATTGTGA 57.113 38.095 0.00 0.00 37.35 3.58
4110 6533 6.304445 TCGATGTTGCGAAAATTGTGAATTAC 59.696 34.615 0.00 0.00 37.35 1.89
4132 6555 6.584185 ACCGTTTCTATTTTGGCTTGTATT 57.416 33.333 0.00 0.00 0.00 1.89
4218 6647 2.125713 CTGCGCACATCGGTACCA 60.126 61.111 5.66 0.00 38.94 3.25
4254 6683 1.000060 CACAACATGGCAACCTCAAGG 60.000 52.381 0.00 0.00 42.17 3.61
4264 6693 2.810400 GCAACCTCAAGGCACTAGTTCA 60.810 50.000 0.00 0.00 38.49 3.18
4270 6699 3.993081 CTCAAGGCACTAGTTCAACAGAG 59.007 47.826 0.00 0.00 38.49 3.35
4367 6796 6.294397 GCAATCATTTGTCTCCAGAATATCCC 60.294 42.308 0.00 0.00 35.17 3.85
4521 6950 2.486982 CCAACTGGAGAATGTGCTTCAG 59.513 50.000 0.00 0.00 45.29 3.02
4603 7032 6.377327 AATTCTTTATGGCATACGGAACTG 57.623 37.500 17.75 0.68 0.00 3.16
4612 7041 3.625764 GGCATACGGAACTGCTAAAATCA 59.374 43.478 0.00 0.00 38.45 2.57
4724 7153 4.492611 CTTCGGAACTACAAAGAGGTACC 58.507 47.826 2.73 2.73 0.00 3.34
4814 7243 0.541863 ATCGCAGTTACCTCTTGGGG 59.458 55.000 0.00 0.00 40.03 4.96
4815 7244 0.543410 TCGCAGTTACCTCTTGGGGA 60.543 55.000 0.00 0.00 40.03 4.81
4843 7272 1.337167 GGGACAGAAAACTTGCATGCC 60.337 52.381 16.68 0.00 0.00 4.40
4847 7276 1.788308 CAGAAAACTTGCATGCCGTTG 59.212 47.619 16.68 5.03 0.00 4.10
4876 7305 4.760204 CGAAAAGATGGTCCTTTACTTGGT 59.240 41.667 0.00 0.00 35.50 3.67
5077 7506 8.642432 TCACCTCGAAATGATATATATGGATCC 58.358 37.037 4.20 4.20 0.00 3.36
5078 7507 8.424133 CACCTCGAAATGATATATATGGATCCA 58.576 37.037 18.88 18.88 0.00 3.41
5083 7512 8.646004 CGAAATGATATATATGGATCCACTCCT 58.354 37.037 18.99 3.24 45.21 3.69
5105 7534 7.461749 TCCTGAGGAGAAACATAAACTTGAAT 58.538 34.615 0.00 0.00 0.00 2.57
5122 7551 4.751767 TGAATTGAACAGCAAACCCTTT 57.248 36.364 0.00 0.00 40.48 3.11
5197 7626 9.851686 TTAGAGTGCAGATTGTATAATCCAAAT 57.148 29.630 8.45 0.00 42.99 2.32
5283 7712 7.068348 TGGACCAGTCTATAAAGCTACACTTAG 59.932 40.741 0.00 0.00 37.75 2.18
5671 8100 4.193826 TCGGATGGAGATAGCATTTAGC 57.806 45.455 0.00 0.00 46.19 3.09
6166 8595 4.047627 TGATCCTGAGTACCAGAAGACA 57.952 45.455 11.58 5.30 45.78 3.41
6415 8844 3.430790 CCGATCTGGAATCTGTTGTGCTA 60.431 47.826 0.00 0.00 42.00 3.49
6467 8896 1.634973 TGCCATCTGAACATCCTTCCA 59.365 47.619 0.00 0.00 0.00 3.53
6521 8950 4.881850 ACAAGGTAAAAGAACTGACCAGTG 59.118 41.667 3.13 0.00 41.58 3.66
6677 9106 5.755409 TTTGATGTCTCACCTAGGCTTTA 57.245 39.130 9.30 0.00 0.00 1.85
6679 9108 5.086104 TGATGTCTCACCTAGGCTTTAAC 57.914 43.478 9.30 1.78 0.00 2.01
6680 9109 4.777896 TGATGTCTCACCTAGGCTTTAACT 59.222 41.667 9.30 0.00 0.00 2.24
6681 9110 4.803098 TGTCTCACCTAGGCTTTAACTC 57.197 45.455 9.30 0.00 0.00 3.01
6682 9111 4.417437 TGTCTCACCTAGGCTTTAACTCT 58.583 43.478 9.30 0.00 0.00 3.24
6683 9112 4.463186 TGTCTCACCTAGGCTTTAACTCTC 59.537 45.833 9.30 0.00 0.00 3.20
6829 9268 2.320587 GCTGTCGCACTGGAACCTG 61.321 63.158 0.00 0.00 35.78 4.00
6872 9311 2.682594 AGATACTGCACTATCCCAGCA 58.317 47.619 9.08 0.00 36.72 4.41
7140 9579 7.881142 TGTAAACAACAAGGGATCACATAAAG 58.119 34.615 0.00 0.00 34.29 1.85
7153 9592 8.455682 GGGATCACATAAAGAACGAAAATGTTA 58.544 33.333 0.00 0.00 30.75 2.41
7173 9612 5.186215 TGTTACATAATGGAAGACTCGGTCA 59.814 40.000 6.78 0.00 34.60 4.02
7181 9620 2.298163 GGAAGACTCGGTCACACCTAAA 59.702 50.000 6.78 0.00 35.66 1.85
7270 9709 6.074516 CGACAGTTACATCGTTCAGAAGAAAA 60.075 38.462 1.64 0.00 35.08 2.29
7292 9731 1.354705 GCAAAGAGGAAACTAGGGGGT 59.645 52.381 0.00 0.00 44.43 4.95
7353 9793 0.394565 CCTAGCTACCTCATGTGCCC 59.605 60.000 0.00 0.00 0.00 5.36
7356 9796 2.679342 GCTACCTCATGTGCCCCCA 61.679 63.158 0.00 0.00 0.00 4.96
7359 9799 0.331278 TACCTCATGTGCCCCCAAAG 59.669 55.000 0.00 0.00 0.00 2.77
7361 9801 0.331278 CCTCATGTGCCCCCAAAGTA 59.669 55.000 0.00 0.00 0.00 2.24
7419 9859 1.861982 TCCACTAGCTGTTACTCCCC 58.138 55.000 0.00 0.00 0.00 4.81
7466 9906 2.489971 CCAGTCCGCTTTGAACTGTTA 58.510 47.619 0.00 0.00 38.97 2.41
7544 9987 6.688637 TGGCAGTCATGAAAAATATCAGAG 57.311 37.500 0.00 0.00 31.76 3.35
7545 9988 5.066893 TGGCAGTCATGAAAAATATCAGAGC 59.933 40.000 0.00 0.00 31.76 4.09
7622 10065 4.288670 CAATCAGATTGCAGTGTGATCC 57.711 45.455 19.96 0.00 31.61 3.36
7631 10074 1.415659 GCAGTGTGATCCTATGGCTCT 59.584 52.381 0.00 0.00 0.00 4.09
7635 10078 4.525874 CAGTGTGATCCTATGGCTCTCATA 59.474 45.833 0.00 0.00 37.30 2.15
7661 10104 8.268850 TCTTGAGCCAAGAATAACTCATTTAC 57.731 34.615 13.26 0.00 45.84 2.01
7681 10124 2.411535 GCTGCATATGCTTCAGCCA 58.588 52.632 27.13 5.40 45.34 4.75
7682 10125 0.311165 GCTGCATATGCTTCAGCCAG 59.689 55.000 27.13 15.52 45.34 4.85
7683 10126 1.963172 CTGCATATGCTTCAGCCAGA 58.037 50.000 27.13 3.93 42.66 3.86
7684 10127 2.294979 CTGCATATGCTTCAGCCAGAA 58.705 47.619 27.13 3.19 42.66 3.02
7685 10128 2.885266 CTGCATATGCTTCAGCCAGAAT 59.115 45.455 27.13 0.00 42.66 2.40
7686 10129 2.621526 TGCATATGCTTCAGCCAGAATG 59.378 45.455 27.13 0.00 42.66 2.67
7687 10130 2.882761 GCATATGCTTCAGCCAGAATGA 59.117 45.455 20.64 0.00 41.18 2.57
7688 10131 3.058155 GCATATGCTTCAGCCAGAATGAG 60.058 47.826 20.64 0.00 41.18 2.90
7689 10132 4.386711 CATATGCTTCAGCCAGAATGAGA 58.613 43.478 0.00 0.00 41.18 3.27
7690 10133 3.579534 ATGCTTCAGCCAGAATGAGAT 57.420 42.857 0.00 0.00 41.18 2.75
7691 10134 2.915349 TGCTTCAGCCAGAATGAGATC 58.085 47.619 0.00 0.00 41.18 2.75
7692 10135 2.220313 GCTTCAGCCAGAATGAGATCC 58.780 52.381 0.00 0.00 39.69 3.36
7693 10136 2.421107 GCTTCAGCCAGAATGAGATCCA 60.421 50.000 0.00 0.00 39.69 3.41
7694 10137 3.468770 CTTCAGCCAGAATGAGATCCAG 58.531 50.000 0.00 0.00 39.69 3.86
7695 10138 2.475155 TCAGCCAGAATGAGATCCAGT 58.525 47.619 0.00 0.00 39.69 4.00
7696 10139 2.169978 TCAGCCAGAATGAGATCCAGTG 59.830 50.000 0.00 0.00 39.69 3.66
7697 10140 1.134159 AGCCAGAATGAGATCCAGTGC 60.134 52.381 0.00 0.00 39.69 4.40
7698 10141 1.964552 CCAGAATGAGATCCAGTGCC 58.035 55.000 0.00 0.00 39.69 5.01
7699 10142 1.489649 CCAGAATGAGATCCAGTGCCT 59.510 52.381 0.00 0.00 39.69 4.75
7700 10143 2.092538 CCAGAATGAGATCCAGTGCCTT 60.093 50.000 0.00 0.00 39.69 4.35
7701 10144 2.943690 CAGAATGAGATCCAGTGCCTTG 59.056 50.000 0.00 0.00 39.69 3.61
7702 10145 2.842496 AGAATGAGATCCAGTGCCTTGA 59.158 45.455 0.00 0.00 0.00 3.02
7703 10146 3.458857 AGAATGAGATCCAGTGCCTTGAT 59.541 43.478 0.00 0.00 0.00 2.57
7704 10147 2.704464 TGAGATCCAGTGCCTTGATG 57.296 50.000 0.00 0.00 0.00 3.07
7705 10148 1.911357 TGAGATCCAGTGCCTTGATGT 59.089 47.619 0.00 0.00 0.00 3.06
7706 10149 2.286872 GAGATCCAGTGCCTTGATGTG 58.713 52.381 0.00 0.00 0.00 3.21
7707 10150 1.911357 AGATCCAGTGCCTTGATGTGA 59.089 47.619 0.00 0.00 0.00 3.58
7708 10151 2.093075 AGATCCAGTGCCTTGATGTGAG 60.093 50.000 0.00 0.00 0.00 3.51
7709 10152 0.321919 TCCAGTGCCTTGATGTGAGC 60.322 55.000 0.00 0.00 0.00 4.26
7710 10153 0.607217 CCAGTGCCTTGATGTGAGCA 60.607 55.000 0.00 0.00 0.00 4.26
7711 10154 1.241165 CAGTGCCTTGATGTGAGCAA 58.759 50.000 0.00 0.00 36.91 3.91
7712 10155 1.199327 CAGTGCCTTGATGTGAGCAAG 59.801 52.381 0.00 0.00 41.77 4.01
7717 10160 2.846039 CTTGATGTGAGCAAGGCATC 57.154 50.000 0.00 0.00 39.18 3.91
7718 10161 1.063616 CTTGATGTGAGCAAGGCATCG 59.936 52.381 0.00 0.00 41.17 3.84
7719 10162 0.249955 TGATGTGAGCAAGGCATCGA 59.750 50.000 0.00 0.00 41.17 3.59
7720 10163 1.134310 TGATGTGAGCAAGGCATCGAT 60.134 47.619 0.00 0.00 41.17 3.59
7721 10164 1.263484 GATGTGAGCAAGGCATCGATG 59.737 52.381 21.27 21.27 31.25 3.84
7722 10165 0.249955 TGTGAGCAAGGCATCGATGA 59.750 50.000 29.20 2.05 0.00 2.92
7723 10166 1.338960 TGTGAGCAAGGCATCGATGAA 60.339 47.619 29.20 0.49 0.00 2.57
7724 10167 1.063174 GTGAGCAAGGCATCGATGAAC 59.937 52.381 29.20 19.35 0.00 3.18
7725 10168 1.338960 TGAGCAAGGCATCGATGAACA 60.339 47.619 29.20 12.97 0.00 3.18
7726 10169 1.329906 GAGCAAGGCATCGATGAACAG 59.670 52.381 29.20 15.37 0.00 3.16
7727 10170 1.089920 GCAAGGCATCGATGAACAGT 58.910 50.000 29.20 9.72 0.00 3.55
7728 10171 2.093500 AGCAAGGCATCGATGAACAGTA 60.093 45.455 29.20 0.00 0.00 2.74
7729 10172 2.874701 GCAAGGCATCGATGAACAGTAT 59.125 45.455 29.20 4.21 0.00 2.12
7730 10173 3.303593 GCAAGGCATCGATGAACAGTATG 60.304 47.826 29.20 15.99 46.00 2.39
7731 10174 4.122046 CAAGGCATCGATGAACAGTATGA 58.878 43.478 29.20 0.00 39.69 2.15
7732 10175 4.613925 AGGCATCGATGAACAGTATGAT 57.386 40.909 29.20 0.48 39.69 2.45
7733 10176 4.313282 AGGCATCGATGAACAGTATGATG 58.687 43.478 29.20 0.00 39.69 3.07
7734 10177 4.039609 AGGCATCGATGAACAGTATGATGA 59.960 41.667 29.20 0.00 39.69 2.92
7735 10178 4.151335 GGCATCGATGAACAGTATGATGAC 59.849 45.833 29.20 5.52 39.69 3.06
7736 10179 4.987285 GCATCGATGAACAGTATGATGACT 59.013 41.667 29.20 0.00 39.69 3.41
7742 10185 3.713902 CAGTATGATGACTGGCCCC 57.286 57.895 0.00 0.00 42.68 5.80
7743 10186 0.839277 CAGTATGATGACTGGCCCCA 59.161 55.000 0.00 0.00 42.68 4.96
7744 10187 0.839946 AGTATGATGACTGGCCCCAC 59.160 55.000 0.00 0.00 0.00 4.61
7745 10188 0.839946 GTATGATGACTGGCCCCACT 59.160 55.000 0.00 0.00 0.00 4.00
7746 10189 1.131638 TATGATGACTGGCCCCACTC 58.868 55.000 0.00 0.00 0.00 3.51
7747 10190 0.622738 ATGATGACTGGCCCCACTCT 60.623 55.000 0.00 0.00 0.00 3.24
7748 10191 1.267574 TGATGACTGGCCCCACTCTC 61.268 60.000 0.00 0.00 0.00 3.20
7749 10192 1.977293 GATGACTGGCCCCACTCTCC 61.977 65.000 0.00 0.00 0.00 3.71
7750 10193 2.607750 GACTGGCCCCACTCTCCA 60.608 66.667 0.00 0.00 0.00 3.86
7751 10194 2.930562 ACTGGCCCCACTCTCCAC 60.931 66.667 0.00 0.00 0.00 4.02
7752 10195 2.930019 CTGGCCCCACTCTCCACA 60.930 66.667 0.00 0.00 0.00 4.17
7753 10196 3.249189 TGGCCCCACTCTCCACAC 61.249 66.667 0.00 0.00 0.00 3.82
7754 10197 4.035102 GGCCCCACTCTCCACACC 62.035 72.222 0.00 0.00 0.00 4.16
7755 10198 4.394712 GCCCCACTCTCCACACCG 62.395 72.222 0.00 0.00 0.00 4.94
7756 10199 2.923035 CCCCACTCTCCACACCGT 60.923 66.667 0.00 0.00 0.00 4.83
7757 10200 2.657237 CCCACTCTCCACACCGTC 59.343 66.667 0.00 0.00 0.00 4.79
7758 10201 2.657237 CCACTCTCCACACCGTCC 59.343 66.667 0.00 0.00 0.00 4.79
7759 10202 2.258591 CACTCTCCACACCGTCCG 59.741 66.667 0.00 0.00 0.00 4.79
7760 10203 2.114625 ACTCTCCACACCGTCCGA 59.885 61.111 0.00 0.00 0.00 4.55
7761 10204 1.304217 ACTCTCCACACCGTCCGAT 60.304 57.895 0.00 0.00 0.00 4.18
7762 10205 1.313812 ACTCTCCACACCGTCCGATC 61.314 60.000 0.00 0.00 0.00 3.69
7763 10206 2.005960 CTCTCCACACCGTCCGATCC 62.006 65.000 0.00 0.00 0.00 3.36
7764 10207 2.283316 TCCACACCGTCCGATCCA 60.283 61.111 0.00 0.00 0.00 3.41
7765 10208 2.184322 CCACACCGTCCGATCCAG 59.816 66.667 0.00 0.00 0.00 3.86
7766 10209 2.184322 CACACCGTCCGATCCAGG 59.816 66.667 0.00 0.00 0.00 4.45
7767 10210 2.036731 ACACCGTCCGATCCAGGA 59.963 61.111 0.00 0.00 38.11 3.86
7768 10211 1.381327 ACACCGTCCGATCCAGGAT 60.381 57.895 0.00 0.00 43.04 3.24
7769 10212 1.364171 CACCGTCCGATCCAGGATC 59.636 63.158 18.69 18.69 43.04 3.36
7776 10219 2.340443 GATCCAGGATCGACGGCC 59.660 66.667 14.02 0.00 29.12 6.13
7777 10220 2.443952 ATCCAGGATCGACGGCCA 60.444 61.111 2.24 0.00 0.00 5.36
7778 10221 2.427540 GATCCAGGATCGACGGCCAG 62.428 65.000 14.02 0.00 29.12 4.85
7779 10222 2.928988 ATCCAGGATCGACGGCCAGA 62.929 60.000 2.24 0.00 0.00 3.86
7780 10223 2.502492 CCAGGATCGACGGCCAGAT 61.502 63.158 2.24 4.03 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 6.073602 GGCAAAGCTCCAAGACTAAATTTTTG 60.074 38.462 0.00 0.00 0.00 2.44
8 9 4.151883 TGGCAAAGCTCCAAGACTAAATT 58.848 39.130 0.00 0.00 0.00 1.82
164 169 4.323336 CGTTTGAAAATGCAACTAATCCCG 59.677 41.667 0.00 0.00 0.00 5.14
186 191 2.948979 AGCAGGAGAAGATCAGAGTACG 59.051 50.000 0.00 0.00 0.00 3.67
225 230 1.218196 ACCTCGATCTATGGTCCCACT 59.782 52.381 0.00 0.00 0.00 4.00
227 232 2.445905 ACTACCTCGATCTATGGTCCCA 59.554 50.000 0.00 0.00 35.48 4.37
301 306 5.700832 TCCGTATAAATGAATCTGCATGGAC 59.299 40.000 0.00 0.00 0.00 4.02
302 307 5.863965 TCCGTATAAATGAATCTGCATGGA 58.136 37.500 0.00 0.00 0.00 3.41
303 308 6.596888 AGATCCGTATAAATGAATCTGCATGG 59.403 38.462 0.00 0.00 0.00 3.66
306 311 6.646653 GTCAGATCCGTATAAATGAATCTGCA 59.353 38.462 5.50 0.00 35.54 4.41
307 312 6.183360 CGTCAGATCCGTATAAATGAATCTGC 60.183 42.308 5.50 1.63 35.54 4.26
308 313 7.084486 TCGTCAGATCCGTATAAATGAATCTG 58.916 38.462 0.00 0.00 36.54 2.90
310 315 7.085116 ACTCGTCAGATCCGTATAAATGAATC 58.915 38.462 0.00 0.00 0.00 2.52
311 316 6.982852 ACTCGTCAGATCCGTATAAATGAAT 58.017 36.000 0.00 0.00 0.00 2.57
313 318 5.763698 AGACTCGTCAGATCCGTATAAATGA 59.236 40.000 0.00 0.00 0.00 2.57
314 319 6.003234 AGACTCGTCAGATCCGTATAAATG 57.997 41.667 0.00 0.00 0.00 2.32
324 329 5.462405 ACACTAACAAAGACTCGTCAGATC 58.538 41.667 0.00 0.00 0.00 2.75
433 438 3.449737 CGGGGTATCACCTGAAAGTAGAA 59.550 47.826 0.00 0.00 39.34 2.10
434 439 3.028850 CGGGGTATCACCTGAAAGTAGA 58.971 50.000 0.00 0.00 39.34 2.59
489 494 5.280215 CCCTCTTAGGTTGCCTATCCATAAG 60.280 48.000 0.00 0.00 35.87 1.73
547 552 0.606604 TAGGTTGGAGAAGCGACACC 59.393 55.000 0.00 0.00 34.60 4.16
571 576 3.067106 CAAGGCTTTGCGAAAGAGACTA 58.933 45.455 0.00 0.00 41.02 2.59
615 620 9.993454 TCAGAATCATCTTCTTTATGGTATCAG 57.007 33.333 0.00 0.00 32.03 2.90
716 732 9.827411 GAGGACATGTAACTTTATTCAAACTTC 57.173 33.333 0.00 0.00 0.00 3.01
1214 1236 1.464198 ACCAGGAAGAAGGGCTGGT 60.464 57.895 0.00 0.00 42.86 4.00
1332 1354 7.526142 TGAGAATCTGCTATAATTCCGTACT 57.474 36.000 0.00 0.00 33.29 2.73
1344 1368 6.695429 AGATCGCATATTTGAGAATCTGCTA 58.305 36.000 0.00 0.00 40.96 3.49
1345 1369 5.549347 AGATCGCATATTTGAGAATCTGCT 58.451 37.500 0.00 0.00 40.96 4.24
1448 1472 2.847327 TCAGCTCTTTGGTCTGAAGG 57.153 50.000 0.00 0.00 34.30 3.46
1514 1538 7.120285 ACCAGACACAAAGTGATGATGAAATAG 59.880 37.037 3.88 0.00 36.96 1.73
1627 1656 3.472283 TTTGCATGGAAATTGTGCTGT 57.528 38.095 8.47 0.00 39.52 4.40
1691 3842 3.247006 AGGTAGAATGTACACCGCTTG 57.753 47.619 0.00 0.00 37.42 4.01
1695 3846 8.259049 TGAAAATAAAGGTAGAATGTACACCG 57.741 34.615 0.00 0.00 37.42 4.94
1833 3984 8.911247 AAAGAACATTTACTCGATATTTTGGC 57.089 30.769 0.00 0.00 0.00 4.52
1925 4076 6.668645 AGTAACTTATGATGGCACCCAATTA 58.331 36.000 0.00 0.00 36.95 1.40
2027 4178 4.213482 ACAACAAAGTCCACGATAGCTTTC 59.787 41.667 0.00 0.00 42.67 2.62
2136 4448 9.334947 ACCATCAAATAAGAGATAATGACACAG 57.665 33.333 0.00 0.00 0.00 3.66
2181 4493 2.076863 GCTCATCAAAGTACGGCAAGT 58.923 47.619 0.00 0.00 0.00 3.16
2314 4626 2.846827 AGTGGCTGGCCTAAAAGTAGAT 59.153 45.455 13.05 0.00 36.94 1.98
2370 4682 1.466856 GCCAGGTGCATCAGATTTCA 58.533 50.000 0.00 0.00 40.77 2.69
2522 4834 1.041447 ATTGTACTCCCTCCGTCCCG 61.041 60.000 0.00 0.00 0.00 5.14
2553 4865 8.579850 TCATGAGCAAACAAAGAATAACCTAT 57.420 30.769 0.00 0.00 0.00 2.57
2668 4980 8.679725 TGTAGAAGACCTATCTATCACCCTATT 58.320 37.037 0.00 0.00 33.57 1.73
2682 4994 7.284944 GGTAAGTAGAGCATTGTAGAAGACCTA 59.715 40.741 0.00 0.00 0.00 3.08
2816 5128 7.335924 ACCGTTGTAACTTTGTGCATATTCTAT 59.664 33.333 0.00 0.00 0.00 1.98
2895 5211 7.883311 TCATTAAACTAAAACTAAGCTCAGCCT 59.117 33.333 0.00 0.00 0.00 4.58
2925 5241 7.307396 CCGACTAATGCATGTAATTCTACAAGG 60.307 40.741 0.00 0.00 41.36 3.61
2939 5255 1.280710 TGGGTGAACCGACTAATGCAT 59.719 47.619 0.00 0.00 44.64 3.96
2947 5263 0.591659 GAGCTTTTGGGTGAACCGAC 59.408 55.000 0.00 0.00 44.64 4.79
2984 5300 3.061322 TGACGGCAGTGTTACATTGTAC 58.939 45.455 9.49 2.86 0.00 2.90
3018 5334 1.367346 TCAGTCCACATTAGGCCCAA 58.633 50.000 0.00 0.00 0.00 4.12
3100 5416 8.771920 TTCTACATAGTATGAAACCACACAAG 57.228 34.615 17.13 0.00 0.00 3.16
3134 5450 1.215423 AGCTTTGGGGTGAACTGTCTT 59.785 47.619 0.00 0.00 0.00 3.01
3246 5562 7.120726 GGCATATAATGGTATGGTTGTAGGAAC 59.879 40.741 0.00 0.00 33.61 3.62
3247 5563 7.172342 GGCATATAATGGTATGGTTGTAGGAA 58.828 38.462 0.00 0.00 33.61 3.36
3302 5625 6.272822 AGGTTTAGATTTGCTCATGGTTTC 57.727 37.500 0.00 0.00 0.00 2.78
3328 5651 4.397730 TGCTGTGCAAGAAAGTAAAGTTCA 59.602 37.500 0.00 0.00 34.76 3.18
3334 5657 3.221771 ACCATGCTGTGCAAGAAAGTAA 58.778 40.909 0.00 0.00 43.62 2.24
3337 5744 2.034939 TCAACCATGCTGTGCAAGAAAG 59.965 45.455 0.00 0.00 43.62 2.62
3536 5948 7.484993 AATCTCATGATATTCTCAGAGAGGG 57.515 40.000 0.00 0.00 39.42 4.30
3813 6225 7.703058 AACACTCCAATATACAAAAGGGAAG 57.297 36.000 0.00 0.00 0.00 3.46
3840 6252 9.993454 TCAACATTATTTGGAAATGATCAAACA 57.007 25.926 0.00 0.00 37.68 2.83
3898 6310 5.642063 GGGTAAGAGTCAAATTCGACATTCA 59.358 40.000 0.00 0.00 38.43 2.57
3952 6364 6.576778 AGTTGGGTTTATTCTACTGGCTAT 57.423 37.500 0.00 0.00 0.00 2.97
3989 6411 3.804325 GCTGCATAGAAAATAGCTCGACA 59.196 43.478 0.00 0.00 0.00 4.35
4068 6491 7.757624 GCAACATCGAAGGGAACATTAAAATTA 59.242 33.333 0.00 0.00 0.00 1.40
4087 6510 6.452350 CGGTAATTCACAATTTTCGCAACATC 60.452 38.462 0.00 0.00 32.38 3.06
4094 6517 8.889849 ATAGAAACGGTAATTCACAATTTTCG 57.110 30.769 0.00 0.00 34.00 3.46
4105 6528 6.988522 ACAAGCCAAAATAGAAACGGTAATT 58.011 32.000 0.00 0.00 0.00 1.40
4110 6533 7.883229 AAAATACAAGCCAAAATAGAAACGG 57.117 32.000 0.00 0.00 0.00 4.44
4218 6647 4.695396 TGTTGTGCTGCTTCATCAAAATT 58.305 34.783 0.00 0.00 0.00 1.82
4254 6683 3.185391 GCACTTCTCTGTTGAACTAGTGC 59.815 47.826 17.00 17.00 37.96 4.40
4264 6693 2.224281 TGTGAATCGGCACTTCTCTGTT 60.224 45.455 0.00 0.00 39.49 3.16
4270 6699 3.436704 TGAAAGATGTGAATCGGCACTTC 59.563 43.478 0.00 0.00 40.97 3.01
4367 6796 4.734917 ACAAGGTTTCTCTACGATTCTCG 58.265 43.478 0.00 0.00 46.93 4.04
4521 6950 2.002586 TGCTTGATAGTTCGAAGCTGC 58.997 47.619 0.00 0.00 42.19 5.25
4612 7041 8.818860 TGGTGTTGGTAAGACTTGTATATAACT 58.181 33.333 0.00 0.00 0.00 2.24
4724 7153 7.142680 AGACACAAAATGGTAAACAATAACCG 58.857 34.615 0.00 0.00 38.70 4.44
4814 7243 3.665190 AGTTTTCTGTCCCATCTTCGTC 58.335 45.455 0.00 0.00 0.00 4.20
4815 7244 3.771577 AGTTTTCTGTCCCATCTTCGT 57.228 42.857 0.00 0.00 0.00 3.85
4843 7272 9.579190 AAAGGACCATCTTTTCGTTCATCAACG 62.579 40.741 0.00 0.00 41.49 4.10
4847 7276 5.629079 AAAGGACCATCTTTTCGTTCATC 57.371 39.130 0.00 0.00 33.62 2.92
4856 7285 6.043938 TGTCTACCAAGTAAAGGACCATCTTT 59.956 38.462 0.00 0.00 39.86 2.52
4876 7305 0.759959 TCGGTTTGGCACCTTGTCTA 59.240 50.000 0.00 0.00 44.69 2.59
5083 7512 8.690203 TCAATTCAAGTTTATGTTTCTCCTCA 57.310 30.769 0.00 0.00 0.00 3.86
5105 7534 2.461695 TGGAAAGGGTTTGCTGTTCAA 58.538 42.857 0.00 0.00 31.65 2.69
5122 7551 4.380843 TTTAGTCTCAATTGGCCTTGGA 57.619 40.909 3.32 0.00 0.00 3.53
5283 7712 3.343941 TGACTGCAACAGGGGTATTAC 57.656 47.619 0.00 0.00 35.51 1.89
5566 7995 1.586154 CGGGAACTGTGGATGCAACC 61.586 60.000 5.96 5.96 0.00 3.77
6166 8595 2.107204 AGATTTTGTGCTGACCAGTCCT 59.893 45.455 0.00 0.00 0.00 3.85
6415 8844 1.316706 GCAGACGGACTAGCTCAGGT 61.317 60.000 0.00 0.00 0.00 4.00
6657 9086 4.777896 AGTTAAAGCCTAGGTGAGACATCA 59.222 41.667 11.31 0.00 0.00 3.07
6977 9416 3.126001 TCCAGGTCATGAAAGTGTGAC 57.874 47.619 0.00 0.00 43.02 3.67
7140 9579 9.274065 GTCTTCCATTATGTAACATTTTCGTTC 57.726 33.333 0.00 0.00 0.00 3.95
7153 9592 3.513912 TGTGACCGAGTCTTCCATTATGT 59.486 43.478 5.77 0.00 33.15 2.29
7173 9612 7.178274 TGGATAAGAAATGCACAATTTAGGTGT 59.822 33.333 0.00 0.00 38.64 4.16
7270 9709 1.636003 CCCCTAGTTTCCTCTTTGCCT 59.364 52.381 0.00 0.00 0.00 4.75
7292 9731 2.301870 AGCTTGTACTTGGGTCGATGAA 59.698 45.455 0.00 0.00 0.00 2.57
7353 9793 1.616994 CCCAAGGGAAGCTACTTTGGG 60.617 57.143 26.46 26.46 37.50 4.12
7356 9796 0.777446 TGCCCAAGGGAAGCTACTTT 59.223 50.000 9.92 0.00 37.50 2.66
7359 9799 0.678048 CACTGCCCAAGGGAAGCTAC 60.678 60.000 13.39 0.00 45.01 3.58
7361 9801 2.011617 AACACTGCCCAAGGGAAGCT 62.012 55.000 13.39 0.00 45.01 3.74
7466 9906 1.167851 CACATTTCAGACACGCCCAT 58.832 50.000 0.00 0.00 0.00 4.00
7545 9988 1.166129 ATCAGCAACAGCAAGCTCTG 58.834 50.000 0.99 0.99 39.50 3.35
7616 10059 6.154192 TCAAGATATGAGAGCCATAGGATCAC 59.846 42.308 3.96 0.00 41.08 3.06
7681 10124 2.842496 TCAAGGCACTGGATCTCATTCT 59.158 45.455 0.00 0.00 40.86 2.40
7682 10125 3.272574 TCAAGGCACTGGATCTCATTC 57.727 47.619 0.00 0.00 40.86 2.67
7690 10133 0.321919 GCTCACATCAAGGCACTGGA 60.322 55.000 0.00 0.00 45.85 3.86
7691 10134 0.607217 TGCTCACATCAAGGCACTGG 60.607 55.000 0.00 0.00 40.86 4.00
7692 10135 1.199327 CTTGCTCACATCAAGGCACTG 59.801 52.381 0.00 0.00 40.86 3.66
7698 10141 1.063616 CGATGCCTTGCTCACATCAAG 59.936 52.381 0.00 0.00 40.15 3.02
7699 10142 1.089112 CGATGCCTTGCTCACATCAA 58.911 50.000 0.00 0.00 40.15 2.57
7700 10143 0.249955 TCGATGCCTTGCTCACATCA 59.750 50.000 0.00 0.00 40.15 3.07
7701 10144 1.263484 CATCGATGCCTTGCTCACATC 59.737 52.381 13.37 0.00 37.44 3.06
7702 10145 1.134310 TCATCGATGCCTTGCTCACAT 60.134 47.619 20.81 0.00 0.00 3.21
7703 10146 0.249955 TCATCGATGCCTTGCTCACA 59.750 50.000 20.81 0.00 0.00 3.58
7704 10147 1.063174 GTTCATCGATGCCTTGCTCAC 59.937 52.381 20.81 3.38 0.00 3.51
7705 10148 1.338960 TGTTCATCGATGCCTTGCTCA 60.339 47.619 20.81 8.30 0.00 4.26
7706 10149 1.329906 CTGTTCATCGATGCCTTGCTC 59.670 52.381 20.81 6.04 0.00 4.26
7707 10150 1.339438 ACTGTTCATCGATGCCTTGCT 60.339 47.619 20.81 0.00 0.00 3.91
7708 10151 1.089920 ACTGTTCATCGATGCCTTGC 58.910 50.000 20.81 8.66 0.00 4.01
7709 10152 4.122046 TCATACTGTTCATCGATGCCTTG 58.878 43.478 20.81 12.51 0.00 3.61
7710 10153 4.406648 TCATACTGTTCATCGATGCCTT 57.593 40.909 20.81 5.44 0.00 4.35
7711 10154 4.039609 TCATCATACTGTTCATCGATGCCT 59.960 41.667 20.81 3.32 32.25 4.75
7712 10155 4.151335 GTCATCATACTGTTCATCGATGCC 59.849 45.833 20.81 13.41 32.25 4.40
7713 10156 4.987285 AGTCATCATACTGTTCATCGATGC 59.013 41.667 20.81 8.26 32.25 3.91
7714 10157 5.404667 CCAGTCATCATACTGTTCATCGATG 59.595 44.000 19.61 19.61 44.45 3.84
7715 10158 5.536260 CCAGTCATCATACTGTTCATCGAT 58.464 41.667 0.00 0.00 44.45 3.59
7716 10159 4.737649 GCCAGTCATCATACTGTTCATCGA 60.738 45.833 3.56 0.00 44.45 3.59
7717 10160 3.492383 GCCAGTCATCATACTGTTCATCG 59.508 47.826 3.56 0.00 44.45 3.84
7718 10161 3.812053 GGCCAGTCATCATACTGTTCATC 59.188 47.826 0.00 0.00 44.45 2.92
7719 10162 3.434167 GGGCCAGTCATCATACTGTTCAT 60.434 47.826 4.39 0.00 44.45 2.57
7720 10163 2.092968 GGGCCAGTCATCATACTGTTCA 60.093 50.000 4.39 0.00 44.45 3.18
7721 10164 2.565841 GGGCCAGTCATCATACTGTTC 58.434 52.381 4.39 0.00 44.45 3.18
7722 10165 1.212935 GGGGCCAGTCATCATACTGTT 59.787 52.381 4.39 0.00 44.45 3.16
7723 10166 0.839946 GGGGCCAGTCATCATACTGT 59.160 55.000 4.39 0.00 44.45 3.55
7724 10167 0.839277 TGGGGCCAGTCATCATACTG 59.161 55.000 4.39 0.00 45.33 2.74
7725 10168 0.839946 GTGGGGCCAGTCATCATACT 59.160 55.000 4.39 0.00 0.00 2.12
7726 10169 0.839946 AGTGGGGCCAGTCATCATAC 59.160 55.000 4.39 0.00 0.00 2.39
7727 10170 1.131638 GAGTGGGGCCAGTCATCATA 58.868 55.000 4.39 0.00 43.73 2.15
7728 10171 0.622738 AGAGTGGGGCCAGTCATCAT 60.623 55.000 4.39 0.00 45.95 2.45
7729 10172 1.229625 AGAGTGGGGCCAGTCATCA 60.230 57.895 4.39 0.00 45.95 3.07
7730 10173 1.524482 GAGAGTGGGGCCAGTCATC 59.476 63.158 4.39 0.00 45.95 2.92
7731 10174 1.997874 GGAGAGTGGGGCCAGTCAT 60.998 63.158 4.39 0.00 45.95 3.06
7732 10175 2.607750 GGAGAGTGGGGCCAGTCA 60.608 66.667 4.39 0.00 45.95 3.41
7733 10176 2.607750 TGGAGAGTGGGGCCAGTC 60.608 66.667 4.39 4.24 44.40 3.51
7734 10177 2.930562 GTGGAGAGTGGGGCCAGT 60.931 66.667 4.39 0.00 31.18 4.00
7735 10178 2.930019 TGTGGAGAGTGGGGCCAG 60.930 66.667 4.39 0.00 31.18 4.85
7736 10179 3.249189 GTGTGGAGAGTGGGGCCA 61.249 66.667 4.39 0.00 0.00 5.36
7737 10180 4.035102 GGTGTGGAGAGTGGGGCC 62.035 72.222 0.00 0.00 0.00 5.80
7738 10181 4.394712 CGGTGTGGAGAGTGGGGC 62.395 72.222 0.00 0.00 0.00 5.80
7739 10182 2.923035 ACGGTGTGGAGAGTGGGG 60.923 66.667 0.00 0.00 0.00 4.96
7740 10183 2.657237 GACGGTGTGGAGAGTGGG 59.343 66.667 0.00 0.00 0.00 4.61
7741 10184 2.657237 GGACGGTGTGGAGAGTGG 59.343 66.667 0.00 0.00 0.00 4.00
7742 10185 1.595993 ATCGGACGGTGTGGAGAGTG 61.596 60.000 0.00 0.00 0.00 3.51
7743 10186 1.304217 ATCGGACGGTGTGGAGAGT 60.304 57.895 0.00 0.00 0.00 3.24
7744 10187 1.433879 GATCGGACGGTGTGGAGAG 59.566 63.158 0.00 0.00 0.00 3.20
7745 10188 2.050350 GGATCGGACGGTGTGGAGA 61.050 63.158 0.00 0.00 0.00 3.71
7746 10189 2.284798 CTGGATCGGACGGTGTGGAG 62.285 65.000 0.00 0.00 0.00 3.86
7747 10190 2.283316 TGGATCGGACGGTGTGGA 60.283 61.111 0.00 0.00 0.00 4.02
7748 10191 2.184322 CTGGATCGGACGGTGTGG 59.816 66.667 0.00 0.00 0.00 4.17
7749 10192 1.676678 ATCCTGGATCGGACGGTGTG 61.677 60.000 2.57 0.00 35.52 3.82
7750 10193 1.381327 ATCCTGGATCGGACGGTGT 60.381 57.895 2.57 0.00 35.52 4.16
7751 10194 1.364171 GATCCTGGATCGGACGGTG 59.636 63.158 20.20 0.00 35.52 4.94
7752 10195 3.857764 GATCCTGGATCGGACGGT 58.142 61.111 20.20 0.00 35.52 4.83
7759 10202 2.340443 GGCCGTCGATCCTGGATC 59.660 66.667 23.93 23.93 35.88 3.36
7760 10203 2.443952 TGGCCGTCGATCCTGGAT 60.444 61.111 9.42 9.42 0.00 3.41
7761 10204 2.928988 ATCTGGCCGTCGATCCTGGA 62.929 60.000 0.00 0.00 0.00 3.86
7762 10205 2.502492 ATCTGGCCGTCGATCCTGG 61.502 63.158 0.00 0.00 0.00 4.45
7763 10206 3.133014 ATCTGGCCGTCGATCCTG 58.867 61.111 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.