Multiple sequence alignment - TraesCS3D01G268400

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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 TraesCS3D01G268400 chr3D 100.000 5596 0 0 1 5596 372626048 372631643 0.000000e+00 10334.0
1 TraesCS3D01G268400 chr3D 96.104 77 3 0 3408 3484 372629531 372629455 5.890000e-25 126.0
2 TraesCS3D01G268400 chr3D 82.022 89 13 3 3398 3484 116015578 116015491 7.780000e-09 73.1
3 TraesCS3D01G268400 chr3A 95.798 1880 62 8 13 1888 494037422 494039288 0.000000e+00 3018.0
4 TraesCS3D01G268400 chr3A 92.133 1716 82 15 3484 5160 494041074 494042775 0.000000e+00 2372.0
5 TraesCS3D01G268400 chr3A 91.391 755 37 11 2649 3388 494040323 494041064 0.000000e+00 1009.0
6 TraesCS3D01G268400 chr3A 87.627 493 35 13 2024 2507 494039525 494040000 2.950000e-152 549.0
7 TraesCS3D01G268400 chr3A 83.704 405 22 5 5219 5588 494043489 494043884 5.370000e-90 342.0
8 TraesCS3D01G268400 chr3A 92.308 78 5 1 1933 2010 494039379 494039455 5.930000e-20 110.0
9 TraesCS3D01G268400 chr3A 88.571 70 8 0 3417 3486 644621993 644621924 9.990000e-13 86.1
10 TraesCS3D01G268400 chr3A 83.333 96 4 9 3407 3499 740351828 740351742 1.670000e-10 78.7
11 TraesCS3D01G268400 chr3A 84.615 78 4 4 3408 3484 740351757 740351827 2.800000e-08 71.3
12 TraesCS3D01G268400 chr3B 92.978 1894 59 23 30 1888 486808636 486810490 0.000000e+00 2693.0
13 TraesCS3D01G268400 chr3B 91.127 1296 54 26 3886 5160 486812411 486813666 0.000000e+00 1700.0
14 TraesCS3D01G268400 chr3B 89.219 1345 84 28 2096 3409 486810672 486811986 0.000000e+00 1624.0
15 TraesCS3D01G268400 chr3B 90.964 332 25 3 3483 3811 486811985 486812314 5.150000e-120 442.0
16 TraesCS3D01G268400 chr3B 91.827 208 8 2 5390 5588 486814253 486814460 1.190000e-71 281.0
17 TraesCS3D01G268400 chr3B 95.146 103 5 0 5219 5321 486814110 486814212 4.490000e-36 163.0
18 TraesCS3D01G268400 chr1A 84.993 733 68 20 77 797 58300182 58299480 0.000000e+00 706.0
19 TraesCS3D01G268400 chr1B 84.316 746 72 21 67 797 95305021 95304306 0.000000e+00 688.0
20 TraesCS3D01G268400 chr2A 85.749 407 33 11 13 406 526337479 526337085 1.880000e-109 407.0
21 TraesCS3D01G268400 chr2B 85.012 407 40 10 13 406 461515306 461514908 1.460000e-105 394.0
22 TraesCS3D01G268400 chr6D 91.463 82 4 1 3408 3486 72021808 72021727 5.930000e-20 110.0
23 TraesCS3D01G268400 chr6A 90.244 82 5 1 3408 3486 88767667 88767586 2.760000e-18 104.0
24 TraesCS3D01G268400 chr7A 86.207 87 6 3 3406 3488 398912529 398912613 7.720000e-14 89.8
25 TraesCS3D01G268400 chr7D 85.057 87 7 3 3406 3488 351567798 351567882 3.590000e-12 84.2


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 TraesCS3D01G268400 chr3D 372626048 372631643 5595 False 10334.000000 10334 100.000000 1 5596 1 chr3D.!!$F1 5595
1 TraesCS3D01G268400 chr3A 494037422 494043884 6462 False 1233.333333 3018 90.493500 13 5588 6 chr3A.!!$F2 5575
2 TraesCS3D01G268400 chr3B 486808636 486814460 5824 False 1150.500000 2693 91.876833 30 5588 6 chr3B.!!$F1 5558
3 TraesCS3D01G268400 chr1A 58299480 58300182 702 True 706.000000 706 84.993000 77 797 1 chr1A.!!$R1 720
4 TraesCS3D01G268400 chr1B 95304306 95305021 715 True 688.000000 688 84.316000 67 797 1 chr1B.!!$R1 730

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
269 285 0.037697 AAGTGCGCATCCAAGTACGA 60.038 50.0 15.91 0.00 0.00 3.43 F
1754 1808 0.114364 AGGATTTTGCCCCCTTCGTT 59.886 50.0 0.00 0.00 0.00 3.85 F
2491 2655 0.179078 AACGGAACCTTGTGCGTGTA 60.179 50.0 0.00 0.00 45.41 2.90 F
3568 3946 0.731514 CAGTTTCTTGCTGCATGCGG 60.732 55.0 22.66 22.66 46.63 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2091 2247 0.032267 GCCAGCATACTCTACCGACC 59.968 60.0 0.00 0.00 0.00 4.79 R
2769 3123 0.035317 TGCTCAGTGCCCAACAGTAG 59.965 55.0 0.00 0.00 42.00 2.57 R
3965 4401 0.038892 GCACCAATGTTCACAGCTGG 60.039 55.0 19.93 7.28 38.24 4.85 R
5331 6504 0.179067 TTCTTGTGGTCGGGTGTGTC 60.179 55.0 0.00 0.00 0.00 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
28 29 3.626977 TGCAAGTGATTGTTTTAGCACG 58.373 40.909 0.00 0.00 36.43 5.34
167 183 3.671740 TCTACAGTACCATCTGCTCCT 57.328 47.619 0.00 0.00 38.84 3.69
243 259 5.682943 TTTAACAAGCAAGCGTGAACTAT 57.317 34.783 14.62 0.00 0.00 2.12
244 260 6.788684 TTTAACAAGCAAGCGTGAACTATA 57.211 33.333 14.62 0.00 0.00 1.31
269 285 0.037697 AAGTGCGCATCCAAGTACGA 60.038 50.000 15.91 0.00 0.00 3.43
368 384 1.107114 AGTAGAGCGTGATGGTCCTG 58.893 55.000 0.00 0.00 46.44 3.86
386 402 2.159043 CCTGTCGCCTACAATCACAGAT 60.159 50.000 0.00 0.00 37.74 2.90
403 420 9.685276 AATCACAGATAAATTAATGGAGTCACA 57.315 29.630 0.00 0.00 0.00 3.58
680 708 1.302949 GCAATGCCAGTACCAGGGA 59.697 57.895 0.00 1.59 0.00 4.20
687 715 2.754658 AGTACCAGGGAGCGACGG 60.755 66.667 0.00 0.00 0.00 4.79
700 729 2.838693 GACGGGAGGGTAGGAGGC 60.839 72.222 0.00 0.00 0.00 4.70
1138 1170 2.122813 CCCCACCCGCCTATCTCT 60.123 66.667 0.00 0.00 0.00 3.10
1139 1171 2.210711 CCCCACCCGCCTATCTCTC 61.211 68.421 0.00 0.00 0.00 3.20
1443 1484 1.153920 CCGCCGCGGCTTTAAAAAT 60.154 52.632 43.60 0.00 41.17 1.82
1553 1594 6.370593 TGTTTGCGATCTAAGTTGTTTGATC 58.629 36.000 0.00 0.00 39.91 2.92
1707 1760 9.010029 ACGGAGTTCACATATTTTGAATTTACT 57.990 29.630 0.84 0.00 37.78 2.24
1754 1808 0.114364 AGGATTTTGCCCCCTTCGTT 59.886 50.000 0.00 0.00 0.00 3.85
1843 1897 5.985781 CTCTTAGACGAGCTTCTAGATCAC 58.014 45.833 0.00 0.00 27.99 3.06
1848 1902 4.702612 AGACGAGCTTCTAGATCACTTTGA 59.297 41.667 0.00 0.00 27.99 2.69
1850 1904 5.971763 ACGAGCTTCTAGATCACTTTGATT 58.028 37.500 0.00 0.00 37.20 2.57
1853 1907 7.067615 ACGAGCTTCTAGATCACTTTGATTCTA 59.932 37.037 0.00 0.00 37.20 2.10
1872 1926 9.431887 TGATTCTAAGTGTACAACAATAGAACC 57.568 33.333 16.64 11.47 39.47 3.62
1888 1942 4.577834 AGAACCGTGTGTTAAAAATGGG 57.422 40.909 0.00 0.00 37.29 4.00
1890 1944 3.994204 ACCGTGTGTTAAAAATGGGAC 57.006 42.857 0.00 0.00 0.00 4.46
1891 1945 2.291190 ACCGTGTGTTAAAAATGGGACG 59.709 45.455 0.00 0.00 0.00 4.79
1892 1946 2.350964 CCGTGTGTTAAAAATGGGACGG 60.351 50.000 0.00 0.00 39.17 4.79
1893 1947 2.548904 CGTGTGTTAAAAATGGGACGGA 59.451 45.455 0.00 0.00 0.00 4.69
1895 1949 3.057806 GTGTGTTAAAAATGGGACGGAGG 60.058 47.826 0.00 0.00 0.00 4.30
1896 1950 2.490509 GTGTTAAAAATGGGACGGAGGG 59.509 50.000 0.00 0.00 0.00 4.30
1897 1951 2.375845 TGTTAAAAATGGGACGGAGGGA 59.624 45.455 0.00 0.00 0.00 4.20
1898 1952 3.014623 GTTAAAAATGGGACGGAGGGAG 58.985 50.000 0.00 0.00 0.00 4.30
1914 1983 5.707298 CGGAGGGAGTATGCATTATGAAAAT 59.293 40.000 3.54 0.00 0.00 1.82
1918 1987 7.526041 AGGGAGTATGCATTATGAAAATACCA 58.474 34.615 3.54 0.00 0.00 3.25
1920 1989 7.665559 GGGAGTATGCATTATGAAAATACCAGA 59.334 37.037 3.54 0.00 0.00 3.86
1944 2044 6.896021 ATATTGGATTCATGAGCTTTGGAG 57.104 37.500 0.00 0.00 0.00 3.86
1973 2073 6.767902 TGGGCATTCTGAGATAACATAGAAAC 59.232 38.462 0.00 0.00 33.39 2.78
1987 2087 6.777213 ACATAGAAACTACCGAGAAGACAT 57.223 37.500 0.00 0.00 0.00 3.06
1991 2091 6.097915 AGAAACTACCGAGAAGACATCAAA 57.902 37.500 0.00 0.00 0.00 2.69
1994 2094 5.923733 ACTACCGAGAAGACATCAAAGAT 57.076 39.130 0.00 0.00 0.00 2.40
2004 2104 8.824159 AGAAGACATCAAAGATATTATGGTCG 57.176 34.615 0.00 0.00 0.00 4.79
2047 2203 1.961378 CACCAGCTTGCAGCATTGA 59.039 52.632 0.00 0.00 45.56 2.57
2071 2227 2.133742 CTTGGCTTGGGCGTCAACAG 62.134 60.000 0.00 0.00 39.81 3.16
2073 2229 2.639286 GCTTGGGCGTCAACAGTG 59.361 61.111 0.00 0.00 0.00 3.66
2078 2234 1.227556 GGGCGTCAACAGTGTCAGT 60.228 57.895 0.00 0.00 0.00 3.41
2082 2238 3.581755 GGCGTCAACAGTGTCAGTTATA 58.418 45.455 0.00 0.00 0.00 0.98
2094 2250 8.634444 ACAGTGTCAGTTATATATCTTCTGGTC 58.366 37.037 0.00 6.48 0.00 4.02
2096 2252 7.040340 AGTGTCAGTTATATATCTTCTGGTCGG 60.040 40.741 10.00 0.00 0.00 4.79
2233 2397 2.276732 AATGATAATCGGTGGGGCTG 57.723 50.000 0.00 0.00 0.00 4.85
2234 2398 1.140312 ATGATAATCGGTGGGGCTGT 58.860 50.000 0.00 0.00 0.00 4.40
2235 2399 1.796017 TGATAATCGGTGGGGCTGTA 58.204 50.000 0.00 0.00 0.00 2.74
2270 2434 0.532862 AAGACCTGAGGTGTTGTGCG 60.533 55.000 13.76 0.00 37.80 5.34
2439 2603 4.760204 AGTTCATGTTAGTAAAGTGGTGGC 59.240 41.667 0.00 0.00 0.00 5.01
2457 2621 1.506262 CCACTATTTGGTGCCGTGC 59.494 57.895 0.00 0.00 41.10 5.34
2475 2639 3.481951 CGTGCTAGTATGCAAGAACAACG 60.482 47.826 0.00 0.00 45.12 4.10
2491 2655 0.179078 AACGGAACCTTGTGCGTGTA 60.179 50.000 0.00 0.00 45.41 2.90
2507 2671 3.119849 GCGTGTATGCAGGTTTCAAAGAT 60.120 43.478 5.40 0.00 33.42 2.40
2597 2870 5.807909 ACATGCCCATTGCTATTTTCTTTT 58.192 33.333 0.00 0.00 42.00 2.27
2624 2902 6.549912 TTCTGTTCATCATGACTCACAAAG 57.450 37.500 0.00 0.00 0.00 2.77
2769 3123 3.764434 TCAGGAGGTACTGTGAAGTGATC 59.236 47.826 0.00 0.00 41.55 2.92
2777 3131 5.864474 GGTACTGTGAAGTGATCTACTGTTG 59.136 44.000 0.00 0.00 40.26 3.33
2836 3190 9.877178 TTTACAATCTTCTAGTCTCCTGAAATC 57.123 33.333 0.00 0.00 0.00 2.17
2851 3205 5.817296 TCCTGAAATCGTATTCCAACATGAG 59.183 40.000 0.00 0.00 0.00 2.90
2895 3249 5.922544 GCTAGTTCATGCAGTGATTGTTTTT 59.077 36.000 0.00 0.00 36.54 1.94
2930 3284 5.067674 TGGTTGCTATTTGATCCATGCTAAC 59.932 40.000 0.00 0.00 0.00 2.34
2935 3289 5.237344 GCTATTTGATCCATGCTAACGTCTT 59.763 40.000 0.00 0.00 0.00 3.01
2992 3347 1.816074 TCATTTGGGTAACTGGACGC 58.184 50.000 0.00 0.00 0.00 5.19
3191 3566 5.662674 ATGAAGACACTGAAGGTACTACC 57.337 43.478 0.00 0.00 38.49 3.18
3249 3624 5.428496 TCTTTGCAACATCAACTTCTCTG 57.572 39.130 0.00 0.00 0.00 3.35
3415 3790 9.507329 TCAATTTTCATAAGCATATACTCCCTC 57.493 33.333 0.00 0.00 0.00 4.30
3416 3791 9.512588 CAATTTTCATAAGCATATACTCCCTCT 57.487 33.333 0.00 0.00 0.00 3.69
3417 3792 9.512588 AATTTTCATAAGCATATACTCCCTCTG 57.487 33.333 0.00 0.00 0.00 3.35
3418 3793 7.618019 TTTCATAAGCATATACTCCCTCTGT 57.382 36.000 0.00 0.00 0.00 3.41
3419 3794 8.721133 TTTCATAAGCATATACTCCCTCTGTA 57.279 34.615 0.00 0.00 0.00 2.74
3420 3795 8.721133 TTCATAAGCATATACTCCCTCTGTAA 57.279 34.615 0.00 0.00 0.00 2.41
3421 3796 8.721133 TCATAAGCATATACTCCCTCTGTAAA 57.279 34.615 0.00 0.00 0.00 2.01
3422 3797 8.585881 TCATAAGCATATACTCCCTCTGTAAAC 58.414 37.037 0.00 0.00 0.00 2.01
3423 3798 6.808321 AAGCATATACTCCCTCTGTAAACA 57.192 37.500 0.00 0.00 0.00 2.83
3424 3799 6.808321 AGCATATACTCCCTCTGTAAACAA 57.192 37.500 0.00 0.00 0.00 2.83
3425 3800 7.195374 AGCATATACTCCCTCTGTAAACAAA 57.805 36.000 0.00 0.00 0.00 2.83
3426 3801 7.806180 AGCATATACTCCCTCTGTAAACAAAT 58.194 34.615 0.00 0.00 0.00 2.32
3427 3802 8.934697 AGCATATACTCCCTCTGTAAACAAATA 58.065 33.333 0.00 0.00 0.00 1.40
3428 3803 9.726438 GCATATACTCCCTCTGTAAACAAATAT 57.274 33.333 0.00 0.00 0.00 1.28
3434 3809 9.838339 ACTCCCTCTGTAAACAAATATAAGATG 57.162 33.333 0.00 0.00 0.00 2.90
3435 3810 9.838339 CTCCCTCTGTAAACAAATATAAGATGT 57.162 33.333 0.00 0.00 0.00 3.06
3481 3856 9.838339 ACATCTTATATTTGTTTACAGAGGGAG 57.162 33.333 0.00 0.00 0.00 4.30
3531 3906 2.379005 TCTCAGGACTATCATGCACGT 58.621 47.619 0.00 0.00 0.00 4.49
3542 3917 6.341316 ACTATCATGCACGTTTTCATAGTCT 58.659 36.000 0.00 0.00 0.00 3.24
3543 3918 4.926860 TCATGCACGTTTTCATAGTCTG 57.073 40.909 0.00 0.00 0.00 3.51
3568 3946 0.731514 CAGTTTCTTGCTGCATGCGG 60.732 55.000 22.66 22.66 46.63 5.69
3620 3998 0.742990 TTCCGCCGAGTGCCATTTAG 60.743 55.000 0.00 0.00 36.24 1.85
3635 4013 8.960591 AGTGCCATTTAGCCATTATAATGATAC 58.039 33.333 24.17 13.93 38.70 2.24
3726 4104 6.823497 AGTACAAGTAGTGGCTCTTTTGTAA 58.177 36.000 19.07 8.45 37.07 2.41
3740 4118 5.144100 TCTTTTGTAAAGGCAATGAGGGAA 58.856 37.500 0.00 0.00 0.00 3.97
3750 4128 2.417787 GCAATGAGGGAATTCCAACTGC 60.418 50.000 25.67 19.90 38.24 4.40
3758 4136 3.071479 GGAATTCCAACTGCGAGTGTAA 58.929 45.455 20.04 0.00 35.64 2.41
3760 4138 4.156008 GGAATTCCAACTGCGAGTGTAATT 59.844 41.667 20.04 0.00 35.64 1.40
3772 4150 8.979574 ACTGCGAGTGTAATTAATATAGCTTTC 58.020 33.333 0.00 0.00 0.00 2.62
3814 4193 4.654091 GCATGTGCCCAACTAATACAAT 57.346 40.909 0.00 0.00 34.31 2.71
3865 4249 6.154203 TGATGGCAGTGACAAATAAAAACA 57.846 33.333 0.77 0.00 0.00 2.83
3866 4250 6.757237 TGATGGCAGTGACAAATAAAAACAT 58.243 32.000 0.77 0.00 0.00 2.71
3965 4401 8.726870 TTTAAGAATGGTTACACATACTAGGC 57.273 34.615 0.00 0.00 0.00 3.93
4005 4441 6.435277 GGTGCTGTGGATTGGATTTGATATAT 59.565 38.462 0.00 0.00 0.00 0.86
4247 4683 0.466189 AGGTTGATAGCATTGGCCGG 60.466 55.000 0.00 0.00 42.56 6.13
4262 4698 4.514577 CGGCTACCTGCTCCCACG 62.515 72.222 0.00 0.00 42.39 4.94
4456 4892 2.241176 GGTGTATTCCTTGTGGGATCCA 59.759 50.000 15.23 0.00 44.66 3.41
4505 4941 4.675408 GCGGGAATGACATTTTCTTCTTCC 60.675 45.833 1.39 0.00 31.94 3.46
4594 5053 7.194607 TGAGAGATCAGTTCATTGTTTTCAC 57.805 36.000 0.00 0.00 0.00 3.18
4677 5136 6.151144 GTCTGCCAAACACTATAGGACAAAAT 59.849 38.462 4.43 0.00 0.00 1.82
4694 5153 5.789521 ACAAAATATGGCTTTTGGTGTACC 58.210 37.500 13.04 0.00 45.90 3.34
4778 5242 4.016572 AGTTTTAGGACCCCAATAGCCAAT 60.017 41.667 0.00 0.00 0.00 3.16
4786 5250 3.270960 ACCCCAATAGCCAATGAACCTTA 59.729 43.478 0.00 0.00 0.00 2.69
4806 5270 0.852842 CCTGGGAAGGGATGGCAATA 59.147 55.000 0.00 0.00 0.00 1.90
4839 5313 6.086222 CACGAGCATTGCAATTTTAGTTAGT 58.914 36.000 9.83 0.37 0.00 2.24
4866 5340 5.119588 GCATGACAACTACGCTGTAGTTTTA 59.880 40.000 22.74 15.52 35.76 1.52
4936 5411 5.387113 TGCCCATCCTTGTGATAACTAAT 57.613 39.130 0.00 0.00 30.56 1.73
4996 5472 3.187700 AGAACGTCCGCTGAATAACATC 58.812 45.455 0.00 0.00 0.00 3.06
5126 5605 7.029563 GGGGCGATATCTTTAGCAATTTATTG 58.970 38.462 0.34 0.00 40.66 1.90
5166 5645 5.116084 TGGGACAAGAATTCTTATGAGGG 57.884 43.478 20.07 9.54 34.28 4.30
5167 5646 4.788075 TGGGACAAGAATTCTTATGAGGGA 59.212 41.667 20.07 0.00 34.28 4.20
5168 5647 5.252863 TGGGACAAGAATTCTTATGAGGGAA 59.747 40.000 20.07 0.01 34.28 3.97
5169 5648 6.187682 GGGACAAGAATTCTTATGAGGGAAA 58.812 40.000 20.07 0.00 34.28 3.13
5170 5649 6.319911 GGGACAAGAATTCTTATGAGGGAAAG 59.680 42.308 20.07 6.81 34.28 2.62
5172 5651 7.777440 GGACAAGAATTCTTATGAGGGAAAGAT 59.223 37.037 20.07 0.00 34.28 2.40
5173 5652 8.517062 ACAAGAATTCTTATGAGGGAAAGATG 57.483 34.615 20.07 6.44 34.28 2.90
5174 5653 8.331740 ACAAGAATTCTTATGAGGGAAAGATGA 58.668 33.333 20.07 0.00 34.28 2.92
5175 5654 9.182214 CAAGAATTCTTATGAGGGAAAGATGAA 57.818 33.333 20.07 0.00 34.28 2.57
5176 5655 9.759473 AAGAATTCTTATGAGGGAAAGATGAAA 57.241 29.630 19.17 0.00 33.79 2.69
5177 5656 9.183368 AGAATTCTTATGAGGGAAAGATGAAAC 57.817 33.333 0.88 0.00 32.05 2.78
5179 5658 7.928307 TTCTTATGAGGGAAAGATGAAACTG 57.072 36.000 0.00 0.00 32.05 3.16
5180 5659 7.020827 TCTTATGAGGGAAAGATGAAACTGT 57.979 36.000 0.00 0.00 0.00 3.55
5182 5661 8.602424 TCTTATGAGGGAAAGATGAAACTGTTA 58.398 33.333 0.00 0.00 0.00 2.41
5183 5662 9.401058 CTTATGAGGGAAAGATGAAACTGTTAT 57.599 33.333 0.00 0.00 0.00 1.89
5184 5663 7.636150 ATGAGGGAAAGATGAAACTGTTATG 57.364 36.000 0.00 0.00 0.00 1.90
5186 5665 7.004086 TGAGGGAAAGATGAAACTGTTATGTT 58.996 34.615 0.00 0.00 0.00 2.71
5187 5666 7.505585 TGAGGGAAAGATGAAACTGTTATGTTT 59.494 33.333 0.00 0.00 42.11 2.83
5188 5667 8.250143 AGGGAAAGATGAAACTGTTATGTTTT 57.750 30.769 0.00 0.00 39.86 2.43
5189 5668 8.704668 AGGGAAAGATGAAACTGTTATGTTTTT 58.295 29.630 0.00 0.00 39.86 1.94
5212 5691 8.472007 TTTTTGAGGGAACTGTTATGTTATGT 57.528 30.769 0.00 0.00 44.43 2.29
5213 5692 8.472007 TTTTGAGGGAACTGTTATGTTATGTT 57.528 30.769 0.00 0.00 44.43 2.71
5215 5694 8.786826 TTGAGGGAACTGTTATGTTATGTTAG 57.213 34.615 0.00 0.00 44.43 2.34
5216 5695 6.821665 TGAGGGAACTGTTATGTTATGTTAGC 59.178 38.462 0.00 0.00 44.43 3.09
5264 6437 3.554934 TCAGATTTGACACAAGCCTTGT 58.445 40.909 3.74 3.74 46.75 3.16
5325 6498 4.802051 GGCTTGGCCCATCGCAGA 62.802 66.667 0.00 0.00 44.06 4.26
5326 6499 3.512516 GCTTGGCCCATCGCAGAC 61.513 66.667 0.00 0.00 42.51 3.51
5327 6500 2.046023 CTTGGCCCATCGCAGACA 60.046 61.111 0.00 0.00 42.51 3.41
5328 6501 2.359850 TTGGCCCATCGCAGACAC 60.360 61.111 0.00 0.00 42.51 3.67
5329 6502 3.189376 TTGGCCCATCGCAGACACA 62.189 57.895 0.00 0.00 42.51 3.72
5330 6503 2.821366 GGCCCATCGCAGACACAG 60.821 66.667 0.00 0.00 42.51 3.66
5331 6504 2.821366 GCCCATCGCAGACACAGG 60.821 66.667 0.00 0.00 42.51 4.00
5332 6505 2.981302 CCCATCGCAGACACAGGA 59.019 61.111 0.00 0.00 42.51 3.86
5333 6506 1.448540 CCCATCGCAGACACAGGAC 60.449 63.158 0.00 0.00 42.51 3.85
5350 6523 0.179067 GACACACCCGACCACAAGAA 60.179 55.000 0.00 0.00 0.00 2.52
5353 6526 1.746220 CACACCCGACCACAAGAAAAA 59.254 47.619 0.00 0.00 0.00 1.94
5422 6622 6.702716 TTGACCTTTTGTTTAAGTAGGGTG 57.297 37.500 0.00 0.00 0.00 4.61
5471 6671 2.257207 CAGAGTGGTTGGAGGGAGTAA 58.743 52.381 0.00 0.00 0.00 2.24
5487 6687 4.578105 GGGAGTAATGATCCTTTTGCTCTG 59.422 45.833 13.77 0.00 35.63 3.35
5572 6780 5.254115 GGCCTAATCCCATATTAACAGGAC 58.746 45.833 0.00 0.00 0.00 3.85
5591 6799 2.998668 CGATAGTGCCATTGTTCGAC 57.001 50.000 0.00 0.00 0.00 4.20
5592 6800 2.267426 CGATAGTGCCATTGTTCGACA 58.733 47.619 0.00 0.00 0.00 4.35
5593 6801 2.670905 CGATAGTGCCATTGTTCGACAA 59.329 45.455 3.49 3.49 42.95 3.18
5594 6802 3.124466 CGATAGTGCCATTGTTCGACAAA 59.876 43.478 4.87 0.00 41.96 2.83
5595 6803 4.377943 CGATAGTGCCATTGTTCGACAAAA 60.378 41.667 4.87 0.00 41.96 2.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.763356 TGCTAAAACAATCACTTGCAAATTTAG 58.237 29.630 0.00 6.87 35.69 1.85
1 2 8.547069 GTGCTAAAACAATCACTTGCAAATTTA 58.453 29.630 0.00 0.00 35.69 1.40
2 3 7.408910 GTGCTAAAACAATCACTTGCAAATTT 58.591 30.769 0.00 0.00 35.69 1.82
5 6 4.502282 CGTGCTAAAACAATCACTTGCAAA 59.498 37.500 0.00 0.00 35.69 3.68
7 8 3.066064 ACGTGCTAAAACAATCACTTGCA 59.934 39.130 0.00 0.00 35.69 4.08
8 9 3.421888 CACGTGCTAAAACAATCACTTGC 59.578 43.478 0.82 0.00 35.69 4.01
9 10 4.597079 ACACGTGCTAAAACAATCACTTG 58.403 39.130 17.22 0.00 38.39 3.16
10 11 4.893424 ACACGTGCTAAAACAATCACTT 57.107 36.364 17.22 0.00 0.00 3.16
11 12 4.893424 AACACGTGCTAAAACAATCACT 57.107 36.364 17.22 0.00 0.00 3.41
167 183 5.156608 TCTCTGAATGCTGAAATCAGTGA 57.843 39.130 11.77 0.00 45.45 3.41
243 259 3.505680 ACTTGGATGCGCACTTGATTTTA 59.494 39.130 14.90 0.00 0.00 1.52
244 260 2.297033 ACTTGGATGCGCACTTGATTTT 59.703 40.909 14.90 0.00 0.00 1.82
269 285 1.079127 CGCGGACATTCCAGAGGTT 60.079 57.895 0.00 0.00 35.91 3.50
368 384 6.604735 AATTTATCTGTGATTGTAGGCGAC 57.395 37.500 0.00 0.00 0.00 5.19
386 402 7.847096 TGCTAGTCTGTGACTCCATTAATTTA 58.153 34.615 3.30 0.00 42.40 1.40
403 420 1.342819 GATTCGATGCCCTGCTAGTCT 59.657 52.381 0.00 0.00 0.00 3.24
662 690 0.749454 CTCCCTGGTACTGGCATTGC 60.749 60.000 0.00 0.00 46.75 3.56
680 708 3.717924 CTCCTACCCTCCCGTCGCT 62.718 68.421 0.00 0.00 0.00 4.93
700 729 4.157120 CGGTAAGACCCCTGCCCG 62.157 72.222 0.00 0.00 33.75 6.13
850 879 2.668212 CGTTGAGGGCTTTGGCGA 60.668 61.111 0.00 0.00 39.81 5.54
1437 1478 4.304110 ACGTGAGTGAGAAGCGATTTTTA 58.696 39.130 0.00 0.00 46.97 1.52
1440 1481 2.440539 ACGTGAGTGAGAAGCGATTT 57.559 45.000 0.00 0.00 46.97 2.17
1478 1519 4.436242 AGCAGATGAACAGAAATGCAAG 57.564 40.909 0.00 0.00 36.15 4.01
1707 1760 2.033801 GGTAGCACTCGGAATAAGCGTA 59.966 50.000 0.00 0.00 0.00 4.42
1744 1798 1.452108 GGAGCATCAACGAAGGGGG 60.452 63.158 0.00 0.00 36.25 5.40
1848 1902 8.092687 ACGGTTCTATTGTTGTACACTTAGAAT 58.907 33.333 14.27 6.50 36.40 2.40
1850 1904 6.864685 CACGGTTCTATTGTTGTACACTTAGA 59.135 38.462 0.00 0.00 0.00 2.10
1853 1907 5.235616 CACACGGTTCTATTGTTGTACACTT 59.764 40.000 0.00 0.00 0.00 3.16
1872 1926 2.548904 TCCGTCCCATTTTTAACACACG 59.451 45.455 0.00 0.00 0.00 4.49
1888 1942 3.258372 TCATAATGCATACTCCCTCCGTC 59.742 47.826 0.00 0.00 0.00 4.79
1890 1944 3.961480 TCATAATGCATACTCCCTCCG 57.039 47.619 0.00 0.00 0.00 4.63
1891 1945 7.121315 GGTATTTTCATAATGCATACTCCCTCC 59.879 40.741 0.00 0.00 0.00 4.30
1892 1946 7.665559 TGGTATTTTCATAATGCATACTCCCTC 59.334 37.037 0.00 0.00 0.00 4.30
1893 1947 7.526041 TGGTATTTTCATAATGCATACTCCCT 58.474 34.615 0.00 0.00 0.00 4.20
1895 1949 8.621532 TCTGGTATTTTCATAATGCATACTCC 57.378 34.615 0.00 0.00 0.00 3.85
1914 1983 7.083062 AGCTCATGAATCCAATATTCTGGTA 57.917 36.000 0.00 0.00 37.74 3.25
1918 1987 7.064866 TCCAAAGCTCATGAATCCAATATTCT 58.935 34.615 0.00 0.00 0.00 2.40
1920 1989 7.064866 TCTCCAAAGCTCATGAATCCAATATT 58.935 34.615 0.00 0.00 0.00 1.28
1924 1993 4.305539 TCTCCAAAGCTCATGAATCCAA 57.694 40.909 0.00 0.00 0.00 3.53
1931 2000 2.159142 GCCCATTTCTCCAAAGCTCATG 60.159 50.000 0.00 0.00 0.00 3.07
1944 2044 6.645790 ATGTTATCTCAGAATGCCCATTTC 57.354 37.500 0.00 0.00 34.76 2.17
1987 2087 7.591421 TGACCTACGACCATAATATCTTTGA 57.409 36.000 0.00 0.00 0.00 2.69
1991 2091 5.775701 AGCTTGACCTACGACCATAATATCT 59.224 40.000 0.00 0.00 0.00 1.98
1994 2094 5.829391 TGTAGCTTGACCTACGACCATAATA 59.171 40.000 0.00 0.00 40.40 0.98
2004 2104 2.166664 CCCTCACTGTAGCTTGACCTAC 59.833 54.545 0.00 0.00 38.50 3.18
2047 2203 1.152756 ACGCCCAAGCCAAGTCTTT 60.153 52.632 0.00 0.00 34.57 2.52
2071 2227 7.085116 CCGACCAGAAGATATATAACTGACAC 58.915 42.308 12.08 5.40 0.00 3.67
2073 2229 7.216973 ACCGACCAGAAGATATATAACTGAC 57.783 40.000 12.08 7.20 0.00 3.51
2082 2238 5.416326 GCATACTCTACCGACCAGAAGATAT 59.584 44.000 0.00 0.00 0.00 1.63
2091 2247 0.032267 GCCAGCATACTCTACCGACC 59.968 60.000 0.00 0.00 0.00 4.79
2094 2250 0.315568 GGAGCCAGCATACTCTACCG 59.684 60.000 0.00 0.00 33.29 4.02
2096 2252 4.524714 TGATAAGGAGCCAGCATACTCTAC 59.475 45.833 0.00 0.00 33.29 2.59
2181 2337 4.082787 AGTTTGGCGACCAATTCAATACAG 60.083 41.667 11.30 0.00 43.55 2.74
2216 2380 1.691976 CTACAGCCCCACCGATTATCA 59.308 52.381 0.00 0.00 0.00 2.15
2217 2381 1.692519 ACTACAGCCCCACCGATTATC 59.307 52.381 0.00 0.00 0.00 1.75
2233 2397 6.531948 CAGGTCTTACAACAGATTAGCACTAC 59.468 42.308 0.00 0.00 0.00 2.73
2234 2398 6.436218 TCAGGTCTTACAACAGATTAGCACTA 59.564 38.462 0.00 0.00 0.00 2.74
2235 2399 5.246203 TCAGGTCTTACAACAGATTAGCACT 59.754 40.000 0.00 0.00 0.00 4.40
2270 2434 2.195922 CAAAATCAGCGCCCAATTAGC 58.804 47.619 2.29 0.00 0.00 3.09
2280 2444 8.310406 TGTAATAGATATGTCCAAAATCAGCG 57.690 34.615 0.00 0.00 0.00 5.18
2344 2508 4.651962 CCTAGGTTTCCTTCCCAAACAAAA 59.348 41.667 0.00 0.00 35.74 2.44
2457 2621 4.092968 GGTTCCGTTGTTCTTGCATACTAG 59.907 45.833 0.00 0.00 0.00 2.57
2475 2639 0.168128 GCATACACGCACAAGGTTCC 59.832 55.000 0.00 0.00 0.00 3.62
2491 2655 8.370182 AGAAATGTAAATCTTTGAAACCTGCAT 58.630 29.630 0.00 0.00 0.00 3.96
2597 2870 6.290605 TGTGAGTCATGATGAACAGAAAAGA 58.709 36.000 0.00 0.00 0.00 2.52
2611 2884 4.379186 GGCATGTTCTCTTTGTGAGTCATG 60.379 45.833 18.39 18.39 45.82 3.07
2612 2885 3.755378 GGCATGTTCTCTTTGTGAGTCAT 59.245 43.478 0.00 0.00 43.13 3.06
2769 3123 0.035317 TGCTCAGTGCCCAACAGTAG 59.965 55.000 0.00 0.00 42.00 2.57
2836 3190 5.525012 ACATCACATCTCATGTTGGAATACG 59.475 40.000 0.00 0.00 42.70 3.06
2851 3205 5.720371 AGCAGAGATAGGTACATCACATC 57.280 43.478 0.00 0.00 0.00 3.06
2935 3289 7.388224 TGCGGTTATTTTGTAGATGTTGAAGTA 59.612 33.333 0.00 0.00 0.00 2.24
2958 3312 6.896969 ACCCAAATGAATACAAAATTTTGCG 58.103 32.000 26.94 8.56 41.79 4.85
3060 3434 3.282021 GACAACATCACACTATGCCCAT 58.718 45.455 0.00 0.00 0.00 4.00
3092 3467 1.539869 AGTCCACAGGGCTGACCAT 60.540 57.895 0.47 0.00 43.89 3.55
3191 3566 7.295952 ACATAGCTAGTTCAAAGAAATGACG 57.704 36.000 0.00 0.00 0.00 4.35
3249 3624 6.183360 GCACTTGTATCCTGATAAAGTGTGAC 60.183 42.308 23.97 14.61 40.13 3.67
3394 3769 7.618019 ACAGAGGGAGTATATGCTTATGAAA 57.382 36.000 2.46 0.00 0.00 2.69
3408 3783 9.838339 CATCTTATATTTGTTTACAGAGGGAGT 57.162 33.333 0.00 0.00 0.00 3.85
3409 3784 9.838339 ACATCTTATATTTGTTTACAGAGGGAG 57.162 33.333 0.00 0.00 0.00 4.30
3455 3830 9.838339 CTCCCTCTGTAAACAAATATAAGATGT 57.162 33.333 0.00 0.00 0.00 3.06
3456 3831 9.838339 ACTCCCTCTGTAAACAAATATAAGATG 57.162 33.333 0.00 0.00 0.00 2.90
3462 3837 9.668497 GAAACTACTCCCTCTGTAAACAAATAT 57.332 33.333 0.00 0.00 0.00 1.28
3463 3838 8.877195 AGAAACTACTCCCTCTGTAAACAAATA 58.123 33.333 0.00 0.00 0.00 1.40
3464 3839 7.746703 AGAAACTACTCCCTCTGTAAACAAAT 58.253 34.615 0.00 0.00 0.00 2.32
3465 3840 7.133133 AGAAACTACTCCCTCTGTAAACAAA 57.867 36.000 0.00 0.00 0.00 2.83
3466 3841 6.742559 AGAAACTACTCCCTCTGTAAACAA 57.257 37.500 0.00 0.00 0.00 2.83
3467 3842 6.099269 ACAAGAAACTACTCCCTCTGTAAACA 59.901 38.462 0.00 0.00 0.00 2.83
3468 3843 6.522946 ACAAGAAACTACTCCCTCTGTAAAC 58.477 40.000 0.00 0.00 0.00 2.01
3469 3844 6.742559 ACAAGAAACTACTCCCTCTGTAAA 57.257 37.500 0.00 0.00 0.00 2.01
3470 3845 6.325545 TGAACAAGAAACTACTCCCTCTGTAA 59.674 38.462 0.00 0.00 0.00 2.41
3471 3846 5.836898 TGAACAAGAAACTACTCCCTCTGTA 59.163 40.000 0.00 0.00 0.00 2.74
3472 3847 4.654262 TGAACAAGAAACTACTCCCTCTGT 59.346 41.667 0.00 0.00 0.00 3.41
3473 3848 5.215252 TGAACAAGAAACTACTCCCTCTG 57.785 43.478 0.00 0.00 0.00 3.35
3474 3849 6.441088 AATGAACAAGAAACTACTCCCTCT 57.559 37.500 0.00 0.00 0.00 3.69
3475 3850 6.710744 TGAAATGAACAAGAAACTACTCCCTC 59.289 38.462 0.00 0.00 0.00 4.30
3476 3851 6.601332 TGAAATGAACAAGAAACTACTCCCT 58.399 36.000 0.00 0.00 0.00 4.20
3477 3852 6.877611 TGAAATGAACAAGAAACTACTCCC 57.122 37.500 0.00 0.00 0.00 4.30
3478 3853 7.931275 ACTTGAAATGAACAAGAAACTACTCC 58.069 34.615 13.34 0.00 44.92 3.85
3479 3854 8.070769 GGACTTGAAATGAACAAGAAACTACTC 58.929 37.037 13.34 0.77 44.92 2.59
3480 3855 7.775561 AGGACTTGAAATGAACAAGAAACTACT 59.224 33.333 13.34 0.00 44.92 2.57
3481 3856 7.931275 AGGACTTGAAATGAACAAGAAACTAC 58.069 34.615 13.34 0.00 44.92 2.73
3522 3897 4.565022 TCAGACTATGAAAACGTGCATGA 58.435 39.130 14.17 0.00 34.02 3.07
3542 3917 7.556816 GCATGCAGCAAGAAACTGAGAATCA 62.557 44.000 14.21 0.00 43.87 2.57
3543 3918 4.413087 CATGCAGCAAGAAACTGAGAATC 58.587 43.478 0.00 0.00 37.32 2.52
3568 3946 4.258935 ACATGTTCGAATTATGTGTCGC 57.741 40.909 22.37 0.31 37.19 5.19
3620 3998 8.239314 CACATTCTGTGGTATCATTATAATGGC 58.761 37.037 22.31 13.76 44.27 4.40
3680 4058 2.684001 ACATGATTGCAAGCAATGGG 57.316 45.000 22.73 13.57 45.50 4.00
3726 4104 2.833943 GTTGGAATTCCCTCATTGCCTT 59.166 45.455 21.90 0.00 35.38 4.35
3740 4118 8.677148 ATATTAATTACACTCGCAGTTGGAAT 57.323 30.769 0.00 0.00 0.00 3.01
3772 4150 5.904941 TGCCAAACAATATTCAGCAATAGG 58.095 37.500 0.00 0.00 0.00 2.57
3832 4211 5.988287 TGTCACTGCCATCATCTATTACAA 58.012 37.500 0.00 0.00 0.00 2.41
3834 4213 6.925610 TTTGTCACTGCCATCATCTATTAC 57.074 37.500 0.00 0.00 0.00 1.89
3841 4225 6.757237 TGTTTTTATTTGTCACTGCCATCAT 58.243 32.000 0.00 0.00 0.00 2.45
3941 4377 7.092802 TGGCCTAGTATGTGTAACCATTCTTAA 60.093 37.037 3.32 0.00 34.36 1.85
3942 4378 6.384595 TGGCCTAGTATGTGTAACCATTCTTA 59.615 38.462 3.32 0.00 34.36 2.10
3965 4401 0.038892 GCACCAATGTTCACAGCTGG 60.039 55.000 19.93 7.28 38.24 4.85
4247 4683 1.153549 CTTCGTGGGAGCAGGTAGC 60.154 63.158 0.00 0.00 46.19 3.58
4262 4698 2.087646 GATGTGAAGGGAAGTGGCTTC 58.912 52.381 0.58 0.58 39.52 3.86
4456 4892 4.099881 AGCACAAATGACAAGGAAACACAT 59.900 37.500 0.00 0.00 0.00 3.21
4505 4941 1.814527 GGAGGTACTACTGCCACCG 59.185 63.158 0.00 0.00 41.55 4.94
4677 5136 6.129414 TCTTAAGGTACACCAAAAGCCATA 57.871 37.500 1.85 0.00 38.89 2.74
4747 5211 6.466009 TTGGGGTCCTAAAACTAATTACCA 57.534 37.500 0.00 0.00 0.00 3.25
4778 5242 1.132332 TCCCTTCCCAGGTAAGGTTCA 60.132 52.381 9.92 0.00 41.72 3.18
4786 5250 1.224003 ATTGCCATCCCTTCCCAGGT 61.224 55.000 0.00 0.00 38.79 4.00
4839 5313 1.713597 CAGCGTAGTTGTCATGCTCA 58.286 50.000 0.00 0.00 32.81 4.26
4866 5340 6.594937 AGCACGGCAATTTTATGATGAAAAAT 59.405 30.769 0.00 0.00 37.98 1.82
4996 5472 2.955660 TCTTTGTGCTAAAACCAGGGTG 59.044 45.455 0.00 0.00 0.00 4.61
5099 5577 5.499004 AATTGCTAAAGATATCGCCCCTA 57.501 39.130 0.00 0.00 0.00 3.53
5100 5578 4.373156 AATTGCTAAAGATATCGCCCCT 57.627 40.909 0.00 0.00 0.00 4.79
5126 5605 4.822350 GTCCCATTCCTTATGCTCTTTACC 59.178 45.833 0.00 0.00 32.60 2.85
5132 5611 4.156455 TCTTGTCCCATTCCTTATGCTC 57.844 45.455 0.00 0.00 32.60 4.26
5160 5639 7.177878 ACATAACAGTTTCATCTTTCCCTCAT 58.822 34.615 0.00 0.00 0.00 2.90
5161 5640 6.542821 ACATAACAGTTTCATCTTTCCCTCA 58.457 36.000 0.00 0.00 0.00 3.86
5162 5641 7.454260 AACATAACAGTTTCATCTTTCCCTC 57.546 36.000 0.00 0.00 0.00 4.30
5164 5643 8.887036 AAAAACATAACAGTTTCATCTTTCCC 57.113 30.769 0.00 0.00 40.60 3.97
5187 5666 8.472007 ACATAACATAACAGTTCCCTCAAAAA 57.528 30.769 0.00 0.00 33.07 1.94
5188 5667 8.472007 AACATAACATAACAGTTCCCTCAAAA 57.528 30.769 0.00 0.00 33.07 2.44
5189 5668 9.226606 CTAACATAACATAACAGTTCCCTCAAA 57.773 33.333 0.00 0.00 33.07 2.69
5190 5669 7.335924 GCTAACATAACATAACAGTTCCCTCAA 59.664 37.037 0.00 0.00 33.07 3.02
5191 5670 6.821665 GCTAACATAACATAACAGTTCCCTCA 59.178 38.462 0.00 0.00 33.07 3.86
5193 5672 6.823689 CAGCTAACATAACATAACAGTTCCCT 59.176 38.462 0.00 0.00 33.07 4.20
5194 5673 6.598064 ACAGCTAACATAACATAACAGTTCCC 59.402 38.462 0.00 0.00 33.07 3.97
5195 5674 7.333423 TCACAGCTAACATAACATAACAGTTCC 59.667 37.037 0.00 0.00 33.07 3.62
5196 5675 8.251750 TCACAGCTAACATAACATAACAGTTC 57.748 34.615 0.00 0.00 33.07 3.01
5198 5677 8.040727 TCATCACAGCTAACATAACATAACAGT 58.959 33.333 0.00 0.00 0.00 3.55
5199 5678 8.424274 TCATCACAGCTAACATAACATAACAG 57.576 34.615 0.00 0.00 0.00 3.16
5200 5679 8.785329 TTCATCACAGCTAACATAACATAACA 57.215 30.769 0.00 0.00 0.00 2.41
5203 5682 8.882736 CAGTTTCATCACAGCTAACATAACATA 58.117 33.333 0.00 0.00 0.00 2.29
5206 5685 7.133891 ACAGTTTCATCACAGCTAACATAAC 57.866 36.000 0.00 0.00 0.00 1.89
5207 5686 7.744087 AACAGTTTCATCACAGCTAACATAA 57.256 32.000 0.00 0.00 0.00 1.90
5210 5689 6.710295 ACATAACAGTTTCATCACAGCTAACA 59.290 34.615 0.00 0.00 0.00 2.41
5211 5690 7.133891 ACATAACAGTTTCATCACAGCTAAC 57.866 36.000 0.00 0.00 0.00 2.34
5212 5691 7.744087 AACATAACAGTTTCATCACAGCTAA 57.256 32.000 0.00 0.00 0.00 3.09
5213 5692 7.064609 GCTAACATAACAGTTTCATCACAGCTA 59.935 37.037 0.00 0.00 33.07 3.32
5215 5694 6.024049 GCTAACATAACAGTTTCATCACAGC 58.976 40.000 0.00 0.00 33.07 4.40
5216 5695 7.369803 AGCTAACATAACAGTTTCATCACAG 57.630 36.000 0.00 0.00 33.07 3.66
5264 6437 5.827756 TGATTGACTAGAGTAAGGTCAGGA 58.172 41.667 0.00 0.00 40.38 3.86
5325 6498 2.803817 GGTCGGGTGTGTCCTGTGT 61.804 63.158 0.00 0.00 42.90 3.72
5326 6499 2.030562 GGTCGGGTGTGTCCTGTG 59.969 66.667 0.00 0.00 42.90 3.66
5327 6500 2.445085 TGGTCGGGTGTGTCCTGT 60.445 61.111 0.00 0.00 42.90 4.00
5328 6501 2.030562 GTGGTCGGGTGTGTCCTG 59.969 66.667 0.00 0.00 43.70 3.86
5329 6502 2.040009 CTTGTGGTCGGGTGTGTCCT 62.040 60.000 0.00 0.00 36.25 3.85
5330 6503 1.597027 CTTGTGGTCGGGTGTGTCC 60.597 63.158 0.00 0.00 0.00 4.02
5331 6504 0.179067 TTCTTGTGGTCGGGTGTGTC 60.179 55.000 0.00 0.00 0.00 3.67
5332 6505 0.253610 TTTCTTGTGGTCGGGTGTGT 59.746 50.000 0.00 0.00 0.00 3.72
5333 6506 1.384525 TTTTCTTGTGGTCGGGTGTG 58.615 50.000 0.00 0.00 0.00 3.82
5350 6523 1.551883 GGCCAGGCTGATGATTGTTTT 59.448 47.619 17.94 0.00 0.00 2.43
5353 6526 1.076485 GGGCCAGGCTGATGATTGT 60.076 57.895 17.94 0.00 0.00 2.71
5422 6622 2.165437 TGCACAAGACCAGACAAAAACC 59.835 45.455 0.00 0.00 0.00 3.27
5471 6671 7.893124 AAATATGTCAGAGCAAAAGGATCAT 57.107 32.000 0.00 0.00 33.23 2.45
5487 6687 7.807680 ACGACAGAGGAAAAGAAAAATATGTC 58.192 34.615 0.00 0.00 0.00 3.06
5569 6777 1.593006 CGAACAATGGCACTATCGTCC 59.407 52.381 0.00 0.00 0.00 4.79
5572 6780 2.267426 TGTCGAACAATGGCACTATCG 58.733 47.619 0.00 0.00 0.00 2.92


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

AutoCloner maintained by Alex Coulton.