Multiple sequence alignment - TraesCS3D01G429700

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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 TraesCS3D01G429700 chr3D 100.000 2702 0 0 1 2702 544340931 544338230 0.000000e+00 4990.0
1 TraesCS3D01G429700 chr3D 86.529 1403 134 25 288 1684 544278627 544277274 0.000000e+00 1493.0
2 TraesCS3D01G429700 chr3D 84.279 1005 122 26 817 1797 544347137 544346145 0.000000e+00 948.0
3 TraesCS3D01G429700 chr3D 87.054 757 91 4 963 1712 544439568 544440324 0.000000e+00 848.0
4 TraesCS3D01G429700 chr3D 86.250 160 20 2 84 241 544278791 544278632 3.580000e-39 172.0
5 TraesCS3D01G429700 chr3D 88.889 99 11 0 2583 2681 38220554 38220652 3.650000e-24 122.0
6 TraesCS3D01G429700 chr3D 94.118 68 4 0 1834 1901 544277217 544277150 1.320000e-18 104.0
7 TraesCS3D01G429700 chr3A 90.603 2256 133 34 84 2317 681319662 681317464 0.000000e+00 2918.0
8 TraesCS3D01G429700 chr3A 85.083 905 104 19 846 1737 681328662 681329548 0.000000e+00 894.0
9 TraesCS3D01G429700 chr3A 86.224 784 99 6 963 1738 681396009 681396791 0.000000e+00 841.0
10 TraesCS3D01G429700 chr3A 90.625 96 9 0 2587 2682 76629886 76629981 7.850000e-26 128.0
11 TraesCS3D01G429700 chr3B 91.589 1831 121 17 84 1901 720179123 720177313 0.000000e+00 2497.0
12 TraesCS3D01G429700 chr3B 86.175 962 105 20 822 1766 720183414 720182464 0.000000e+00 1014.0
13 TraesCS3D01G429700 chr3B 87.145 739 88 5 979 1712 720263052 720263788 0.000000e+00 832.0
14 TraesCS3D01G429700 chr3B 83.046 637 79 19 858 1478 720201521 720202144 3.930000e-153 551.0
15 TraesCS3D01G429700 chr3B 90.526 95 9 0 2587 2681 783578789 783578695 2.820000e-25 126.0
16 TraesCS3D01G429700 chr3B 75.983 229 48 7 289 515 527701812 527702035 7.910000e-21 111.0
17 TraesCS3D01G429700 chr3B 75.546 229 49 7 289 515 527711037 527711260 3.680000e-19 106.0
18 TraesCS3D01G429700 chr5B 93.431 137 6 3 2567 2700 537232608 537232744 1.640000e-47 200.0
19 TraesCS3D01G429700 chr5B 93.750 80 5 0 1 80 655007021 655006942 1.310000e-23 121.0
20 TraesCS3D01G429700 chr5B 87.368 95 10 2 2313 2405 334484152 334484246 1.020000e-19 108.0
21 TraesCS3D01G429700 chr2D 79.424 243 40 7 290 527 320486841 320486604 2.150000e-36 163.0
22 TraesCS3D01G429700 chr2D 79.817 218 40 3 288 504 638719082 638719296 3.600000e-34 156.0
23 TraesCS3D01G429700 chr4D 77.866 253 49 5 291 543 126895353 126895108 1.680000e-32 150.0
24 TraesCS3D01G429700 chr4D 91.089 101 8 1 2587 2686 190849655 190849555 4.690000e-28 135.0
25 TraesCS3D01G429700 chr2B 91.089 101 9 0 2587 2687 586892480 586892580 1.300000e-28 137.0
26 TraesCS3D01G429700 chr7A 89.524 105 11 0 2583 2687 701212698 701212594 1.690000e-27 134.0
27 TraesCS3D01G429700 chr5D 89.899 99 10 0 2583 2681 550275354 550275452 7.850000e-26 128.0
28 TraesCS3D01G429700 chr2A 90.625 96 9 0 2587 2682 699156781 699156686 7.850000e-26 128.0
29 TraesCS3D01G429700 chr4B 74.658 292 68 6 291 579 370257673 370257385 1.020000e-24 124.0
30 TraesCS3D01G429700 chr7B 91.860 86 4 2 2 87 202102968 202102886 1.700000e-22 117.0
31 TraesCS3D01G429700 chr7B 93.548 62 4 0 20 81 451064449 451064388 2.860000e-15 93.5
32 TraesCS3D01G429700 chr7B 79.412 102 19 2 457 558 666599382 666599481 1.340000e-08 71.3
33 TraesCS3D01G429700 chr5A 92.405 79 4 2 1 78 461783260 461783337 7.910000e-21 111.0
34 TraesCS3D01G429700 chr5A 86.316 95 10 3 2313 2405 631819232 631819139 1.710000e-17 100.0
35 TraesCS3D01G429700 chr5A 96.875 32 0 1 2320 2351 607745370 607745340 5.000000e-03 52.8
36 TraesCS3D01G429700 chr6D 76.233 223 43 8 290 510 290322946 290322732 2.840000e-20 110.0
37 TraesCS3D01G429700 chr1B 91.250 80 5 1 1 80 176803836 176803759 1.020000e-19 108.0


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 TraesCS3D01G429700 chr3D 544338230 544340931 2701 True 4990.000000 4990 100.000000 1 2702 1 chr3D.!!$R1 2701
1 TraesCS3D01G429700 chr3D 544346145 544347137 992 True 948.000000 948 84.279000 817 1797 1 chr3D.!!$R2 980
2 TraesCS3D01G429700 chr3D 544439568 544440324 756 False 848.000000 848 87.054000 963 1712 1 chr3D.!!$F2 749
3 TraesCS3D01G429700 chr3D 544277150 544278791 1641 True 589.666667 1493 88.965667 84 1901 3 chr3D.!!$R3 1817
4 TraesCS3D01G429700 chr3A 681317464 681319662 2198 True 2918.000000 2918 90.603000 84 2317 1 chr3A.!!$R1 2233
5 TraesCS3D01G429700 chr3A 681328662 681329548 886 False 894.000000 894 85.083000 846 1737 1 chr3A.!!$F2 891
6 TraesCS3D01G429700 chr3A 681396009 681396791 782 False 841.000000 841 86.224000 963 1738 1 chr3A.!!$F3 775
7 TraesCS3D01G429700 chr3B 720177313 720183414 6101 True 1755.500000 2497 88.882000 84 1901 2 chr3B.!!$R2 1817
8 TraesCS3D01G429700 chr3B 720263052 720263788 736 False 832.000000 832 87.145000 979 1712 1 chr3B.!!$F4 733
9 TraesCS3D01G429700 chr3B 720201521 720202144 623 False 551.000000 551 83.046000 858 1478 1 chr3B.!!$F3 620

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
453 4678 0.108662 TAGGCGTCTCGTAGTCGACA 60.109 55.0 19.5 0.48 41.35 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2347 6637 0.03496 GAGAAGCTGGGGAAAGGGAC 60.035 60.0 0.0 0.0 0.0 4.46 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
26 27 8.410141 AGAGAGTGTAGTTGAAGATGTATTAGC 58.590 37.037 0.00 0.00 0.00 3.09
27 28 8.067751 AGAGTGTAGTTGAAGATGTATTAGCA 57.932 34.615 0.00 0.00 0.00 3.49
30 31 7.976734 AGTGTAGTTGAAGATGTATTAGCAGAC 59.023 37.037 0.00 0.00 0.00 3.51
32 33 9.185680 TGTAGTTGAAGATGTATTAGCAGACTA 57.814 33.333 0.00 0.00 0.00 2.59
51 52 8.521176 GCAGACTATAATTCTATTACCGAGGAA 58.479 37.037 0.00 0.00 0.00 3.36
60 61 9.675464 AATTCTATTACCGAGGAATAAAACACA 57.325 29.630 0.00 0.00 0.00 3.72
62 63 9.504708 TTCTATTACCGAGGAATAAAACACAAA 57.495 29.630 0.00 0.00 0.00 2.83
63 64 8.938906 TCTATTACCGAGGAATAAAACACAAAC 58.061 33.333 0.00 0.00 0.00 2.93
65 66 7.571080 TTACCGAGGAATAAAACACAAACTT 57.429 32.000 0.00 0.00 0.00 2.66
66 67 6.459670 ACCGAGGAATAAAACACAAACTTT 57.540 33.333 0.00 0.00 0.00 2.66
67 68 6.500910 ACCGAGGAATAAAACACAAACTTTC 58.499 36.000 0.00 0.00 0.00 2.62
69 70 5.918576 CGAGGAATAAAACACAAACTTTCCC 59.081 40.000 0.00 0.00 33.26 3.97
71 72 4.986034 GGAATAAAACACAAACTTTCCCCG 59.014 41.667 0.00 0.00 0.00 5.73
73 74 1.187087 AAACACAAACTTTCCCCGCA 58.813 45.000 0.00 0.00 0.00 5.69
74 75 1.187087 AACACAAACTTTCCCCGCAA 58.813 45.000 0.00 0.00 0.00 4.85
75 76 1.187087 ACACAAACTTTCCCCGCAAA 58.813 45.000 0.00 0.00 0.00 3.68
76 77 1.550976 ACACAAACTTTCCCCGCAAAA 59.449 42.857 0.00 0.00 0.00 2.44
201 4412 2.742053 GTTTGAGCACGTACATCCATGT 59.258 45.455 0.00 0.00 44.48 3.21
376 4601 3.667497 ATACACGCACATCTATCCCTG 57.333 47.619 0.00 0.00 0.00 4.45
383 4608 2.224475 GCACATCTATCCCTGTGAGCAT 60.224 50.000 6.85 0.00 44.35 3.79
408 4633 2.747989 CGAGAGACTAAGCCGGCATATA 59.252 50.000 31.54 17.28 0.00 0.86
453 4678 0.108662 TAGGCGTCTCGTAGTCGACA 60.109 55.000 19.50 0.48 41.35 4.35
464 4689 2.157279 CGTAGTCGACAGAAACGTCTCT 59.843 50.000 19.50 0.00 39.71 3.10
563 4791 6.479972 TGGAATAAGGATACCACTGTACTG 57.520 41.667 0.00 0.00 37.17 2.74
566 4794 3.895232 AAGGATACCACTGTACTGCTG 57.105 47.619 0.00 0.00 37.17 4.41
568 4796 2.761208 AGGATACCACTGTACTGCTGAC 59.239 50.000 0.00 0.00 37.17 3.51
584 4812 4.334552 TGCTGACCATCTAAGCATTTCAA 58.665 39.130 0.00 0.00 41.83 2.69
585 4813 4.397103 TGCTGACCATCTAAGCATTTCAAG 59.603 41.667 0.00 0.00 41.83 3.02
836 5066 0.461693 CTGCAGCTACTCTTCCAGCC 60.462 60.000 0.00 0.00 38.61 4.85
967 5226 3.002656 CGATCGAGCACCAAATAGCAAAT 59.997 43.478 10.26 0.00 0.00 2.32
969 5228 5.613360 CGATCGAGCACCAAATAGCAAATAG 60.613 44.000 10.26 0.00 0.00 1.73
1182 5454 2.746375 GGTCCCCGTGCTCATCCAT 61.746 63.158 0.00 0.00 0.00 3.41
1184 5456 1.995066 TCCCCGTGCTCATCCATGT 60.995 57.895 0.00 0.00 0.00 3.21
1323 5595 1.065102 GCCTACATCGACGACAAGCTA 59.935 52.381 0.00 0.00 0.00 3.32
1628 5900 4.729918 CAAGAAGGCTGCCCCGCT 62.730 66.667 16.57 7.42 39.21 5.52
1894 6183 1.146041 TGTGGCGGATATGTCCAGC 59.854 57.895 9.40 12.11 45.37 4.85
1912 6201 2.232941 CAGCAGTACGGTAGGAGGAAAA 59.767 50.000 0.00 0.00 0.00 2.29
1928 6217 5.702209 GGAGGAAAACCATCGTGTTTAAGTA 59.298 40.000 0.00 0.00 37.46 2.24
2035 6325 6.478512 AAAAATAGAACTTGGCTTTGGTGA 57.521 33.333 0.00 0.00 0.00 4.02
2036 6326 6.478512 AAAATAGAACTTGGCTTTGGTGAA 57.521 33.333 0.00 0.00 0.00 3.18
2037 6327 6.670695 AAATAGAACTTGGCTTTGGTGAAT 57.329 33.333 0.00 0.00 0.00 2.57
2038 6328 5.649782 ATAGAACTTGGCTTTGGTGAATG 57.350 39.130 0.00 0.00 0.00 2.67
2039 6329 3.565307 AGAACTTGGCTTTGGTGAATGA 58.435 40.909 0.00 0.00 0.00 2.57
2040 6330 4.154942 AGAACTTGGCTTTGGTGAATGAT 58.845 39.130 0.00 0.00 0.00 2.45
2041 6331 4.219288 AGAACTTGGCTTTGGTGAATGATC 59.781 41.667 0.00 0.00 0.00 2.92
2042 6332 3.771216 ACTTGGCTTTGGTGAATGATCT 58.229 40.909 0.00 0.00 0.00 2.75
2067 6357 4.202010 TGGAGCTTTGTGTGCTTAACTTTC 60.202 41.667 0.00 0.00 41.30 2.62
2089 6379 4.522789 TCTTCTTTTAGAATGGTTGCACCC 59.477 41.667 0.00 0.00 33.13 4.61
2122 6412 7.962918 GTCAAGTTACTGCGATATTGAACAATT 59.037 33.333 5.37 0.00 32.50 2.32
2143 6433 7.981789 ACAATTTGCTAGTCTCTTCGATCATAA 59.018 33.333 0.00 0.00 0.00 1.90
2160 6450 3.127203 TCATAACCCGCAAATTTACACGG 59.873 43.478 15.80 15.80 45.21 4.94
2176 6466 9.813446 AATTTACACGGGTAGTTCTAAGATTAG 57.187 33.333 0.00 0.00 0.00 1.73
2256 6546 3.904965 TCACATGGTAGTTAGGTGGTTCA 59.095 43.478 0.00 0.00 0.00 3.18
2318 6608 2.466867 CGTGTGAAGTACATGGGCC 58.533 57.895 0.00 0.00 42.24 5.80
2319 6609 0.321210 CGTGTGAAGTACATGGGCCA 60.321 55.000 9.61 9.61 42.24 5.36
2320 6610 1.453155 GTGTGAAGTACATGGGCCAG 58.547 55.000 13.78 6.92 42.24 4.85
2321 6611 1.064003 TGTGAAGTACATGGGCCAGT 58.936 50.000 13.78 12.84 33.42 4.00
2322 6612 1.423541 TGTGAAGTACATGGGCCAGTT 59.576 47.619 13.78 3.25 33.42 3.16
2323 6613 2.084546 GTGAAGTACATGGGCCAGTTC 58.915 52.381 13.78 7.29 0.00 3.01
2324 6614 1.985159 TGAAGTACATGGGCCAGTTCT 59.015 47.619 13.78 10.53 0.00 3.01
2325 6615 2.375174 TGAAGTACATGGGCCAGTTCTT 59.625 45.455 13.78 17.80 0.00 2.52
2326 6616 3.181434 TGAAGTACATGGGCCAGTTCTTT 60.181 43.478 13.78 3.57 0.00 2.52
2327 6617 3.525800 AGTACATGGGCCAGTTCTTTT 57.474 42.857 13.78 0.00 0.00 2.27
2328 6618 3.157087 AGTACATGGGCCAGTTCTTTTG 58.843 45.455 13.78 5.87 0.00 2.44
2329 6619 1.341080 ACATGGGCCAGTTCTTTTGG 58.659 50.000 13.78 0.00 38.78 3.28
2330 6620 1.133199 ACATGGGCCAGTTCTTTTGGA 60.133 47.619 13.78 0.00 37.96 3.53
2331 6621 1.273327 CATGGGCCAGTTCTTTTGGAC 59.727 52.381 13.78 0.00 43.39 4.02
2332 6622 0.821711 TGGGCCAGTTCTTTTGGACG 60.822 55.000 0.00 0.00 45.18 4.79
2333 6623 0.536460 GGGCCAGTTCTTTTGGACGA 60.536 55.000 4.39 0.00 45.18 4.20
2334 6624 1.534729 GGCCAGTTCTTTTGGACGAT 58.465 50.000 0.00 0.00 37.96 3.73
2335 6625 1.886542 GGCCAGTTCTTTTGGACGATT 59.113 47.619 0.00 0.00 37.96 3.34
2336 6626 2.095212 GGCCAGTTCTTTTGGACGATTC 60.095 50.000 0.00 0.00 37.96 2.52
2337 6627 2.814336 GCCAGTTCTTTTGGACGATTCT 59.186 45.455 0.00 0.00 37.96 2.40
2338 6628 3.120165 GCCAGTTCTTTTGGACGATTCTC 60.120 47.826 0.00 0.00 37.96 2.87
2339 6629 3.437049 CCAGTTCTTTTGGACGATTCTCC 59.563 47.826 0.00 0.00 37.96 3.71
2340 6630 4.319177 CAGTTCTTTTGGACGATTCTCCT 58.681 43.478 0.00 0.00 0.00 3.69
2341 6631 5.479306 CAGTTCTTTTGGACGATTCTCCTA 58.521 41.667 0.00 0.00 0.00 2.94
2342 6632 5.578727 CAGTTCTTTTGGACGATTCTCCTAG 59.421 44.000 0.00 0.00 0.00 3.02
2343 6633 5.480772 AGTTCTTTTGGACGATTCTCCTAGA 59.519 40.000 0.00 0.00 0.00 2.43
2344 6634 5.995565 TCTTTTGGACGATTCTCCTAGAA 57.004 39.130 0.00 0.00 38.78 2.10
2345 6635 6.546428 TCTTTTGGACGATTCTCCTAGAAT 57.454 37.500 1.85 1.85 46.84 2.40
2355 6645 5.538849 ATTCTCCTAGAATCGTCCCTTTC 57.461 43.478 0.00 0.00 40.75 2.62
2356 6646 3.297736 TCTCCTAGAATCGTCCCTTTCC 58.702 50.000 0.00 0.00 0.00 3.13
2357 6647 2.365941 CTCCTAGAATCGTCCCTTTCCC 59.634 54.545 0.00 0.00 0.00 3.97
2358 6648 1.416772 CCTAGAATCGTCCCTTTCCCC 59.583 57.143 0.00 0.00 0.00 4.81
2359 6649 2.116238 CTAGAATCGTCCCTTTCCCCA 58.884 52.381 0.00 0.00 0.00 4.96
2360 6650 0.912486 AGAATCGTCCCTTTCCCCAG 59.088 55.000 0.00 0.00 0.00 4.45
2361 6651 0.748367 GAATCGTCCCTTTCCCCAGC 60.748 60.000 0.00 0.00 0.00 4.85
2362 6652 1.208165 AATCGTCCCTTTCCCCAGCT 61.208 55.000 0.00 0.00 0.00 4.24
2363 6653 1.208165 ATCGTCCCTTTCCCCAGCTT 61.208 55.000 0.00 0.00 0.00 3.74
2364 6654 1.377333 CGTCCCTTTCCCCAGCTTC 60.377 63.158 0.00 0.00 0.00 3.86
2365 6655 1.842381 CGTCCCTTTCCCCAGCTTCT 61.842 60.000 0.00 0.00 0.00 2.85
2366 6656 0.034960 GTCCCTTTCCCCAGCTTCTC 60.035 60.000 0.00 0.00 0.00 2.87
2367 6657 1.208165 TCCCTTTCCCCAGCTTCTCC 61.208 60.000 0.00 0.00 0.00 3.71
2368 6658 1.304617 CCTTTCCCCAGCTTCTCCC 59.695 63.158 0.00 0.00 0.00 4.30
2369 6659 1.500783 CCTTTCCCCAGCTTCTCCCA 61.501 60.000 0.00 0.00 0.00 4.37
2370 6660 0.405585 CTTTCCCCAGCTTCTCCCAA 59.594 55.000 0.00 0.00 0.00 4.12
2371 6661 0.856982 TTTCCCCAGCTTCTCCCAAA 59.143 50.000 0.00 0.00 0.00 3.28
2372 6662 0.856982 TTCCCCAGCTTCTCCCAAAA 59.143 50.000 0.00 0.00 0.00 2.44
2373 6663 1.084018 TCCCCAGCTTCTCCCAAAAT 58.916 50.000 0.00 0.00 0.00 1.82
2374 6664 1.432807 TCCCCAGCTTCTCCCAAAATT 59.567 47.619 0.00 0.00 0.00 1.82
2375 6665 1.551883 CCCCAGCTTCTCCCAAAATTG 59.448 52.381 0.00 0.00 0.00 2.32
2376 6666 1.066645 CCCAGCTTCTCCCAAAATTGC 60.067 52.381 0.00 0.00 0.00 3.56
2377 6667 1.066645 CCAGCTTCTCCCAAAATTGCC 60.067 52.381 0.00 0.00 0.00 4.52
2378 6668 1.619827 CAGCTTCTCCCAAAATTGCCA 59.380 47.619 0.00 0.00 0.00 4.92
2379 6669 1.620323 AGCTTCTCCCAAAATTGCCAC 59.380 47.619 0.00 0.00 0.00 5.01
2380 6670 1.620323 GCTTCTCCCAAAATTGCCACT 59.380 47.619 0.00 0.00 0.00 4.00
2381 6671 2.353109 GCTTCTCCCAAAATTGCCACTC 60.353 50.000 0.00 0.00 0.00 3.51
2382 6672 1.923356 TCTCCCAAAATTGCCACTCC 58.077 50.000 0.00 0.00 0.00 3.85
2383 6673 1.146774 TCTCCCAAAATTGCCACTCCA 59.853 47.619 0.00 0.00 0.00 3.86
2384 6674 2.181975 CTCCCAAAATTGCCACTCCAT 58.818 47.619 0.00 0.00 0.00 3.41
2385 6675 3.011144 TCTCCCAAAATTGCCACTCCATA 59.989 43.478 0.00 0.00 0.00 2.74
2386 6676 3.962718 CTCCCAAAATTGCCACTCCATAT 59.037 43.478 0.00 0.00 0.00 1.78
2387 6677 4.360889 TCCCAAAATTGCCACTCCATATT 58.639 39.130 0.00 0.00 0.00 1.28
2388 6678 4.782156 TCCCAAAATTGCCACTCCATATTT 59.218 37.500 0.00 0.00 0.00 1.40
2389 6679 5.250313 TCCCAAAATTGCCACTCCATATTTT 59.750 36.000 0.00 0.00 0.00 1.82
2390 6680 5.945191 CCCAAAATTGCCACTCCATATTTTT 59.055 36.000 0.00 0.00 0.00 1.94
2623 6913 8.738645 ATTACAGACTCTCAATAAATTCCCAC 57.261 34.615 0.00 0.00 0.00 4.61
2624 6914 5.178797 ACAGACTCTCAATAAATTCCCACG 58.821 41.667 0.00 0.00 0.00 4.94
2625 6915 5.178797 CAGACTCTCAATAAATTCCCACGT 58.821 41.667 0.00 0.00 0.00 4.49
2626 6916 5.643777 CAGACTCTCAATAAATTCCCACGTT 59.356 40.000 0.00 0.00 0.00 3.99
2627 6917 6.816640 CAGACTCTCAATAAATTCCCACGTTA 59.183 38.462 0.00 0.00 0.00 3.18
2628 6918 7.333423 CAGACTCTCAATAAATTCCCACGTTAA 59.667 37.037 0.00 0.00 0.00 2.01
2629 6919 8.047310 AGACTCTCAATAAATTCCCACGTTAAT 58.953 33.333 0.00 0.00 0.00 1.40
2630 6920 8.209917 ACTCTCAATAAATTCCCACGTTAATC 57.790 34.615 0.00 0.00 0.00 1.75
2631 6921 7.827236 ACTCTCAATAAATTCCCACGTTAATCA 59.173 33.333 0.00 0.00 0.00 2.57
2632 6922 8.208718 TCTCAATAAATTCCCACGTTAATCAG 57.791 34.615 0.00 0.00 0.00 2.90
2633 6923 7.827236 TCTCAATAAATTCCCACGTTAATCAGT 59.173 33.333 0.00 0.00 0.00 3.41
2634 6924 9.104965 CTCAATAAATTCCCACGTTAATCAGTA 57.895 33.333 0.00 0.00 0.00 2.74
2635 6925 9.451002 TCAATAAATTCCCACGTTAATCAGTAA 57.549 29.630 0.00 0.00 0.00 2.24
2641 6931 9.675464 AATTCCCACGTTAATCAGTAATTAAGA 57.325 29.630 0.00 0.00 39.83 2.10
2642 6932 9.675464 ATTCCCACGTTAATCAGTAATTAAGAA 57.325 29.630 0.00 0.00 39.83 2.52
2643 6933 8.483307 TCCCACGTTAATCAGTAATTAAGAAC 57.517 34.615 0.00 0.00 39.83 3.01
2644 6934 7.550196 TCCCACGTTAATCAGTAATTAAGAACC 59.450 37.037 0.00 0.00 39.83 3.62
2645 6935 7.396419 CCACGTTAATCAGTAATTAAGAACCG 58.604 38.462 0.00 0.00 39.83 4.44
2646 6936 7.063780 CCACGTTAATCAGTAATTAAGAACCGT 59.936 37.037 0.00 0.00 39.83 4.83
2647 6937 8.437742 CACGTTAATCAGTAATTAAGAACCGTT 58.562 33.333 0.00 0.00 39.83 4.44
2648 6938 9.638239 ACGTTAATCAGTAATTAAGAACCGTTA 57.362 29.630 0.00 0.00 39.83 3.18
2657 6947 9.813446 AGTAATTAAGAACCGTTAATCTAGTGG 57.187 33.333 0.00 0.00 32.50 4.00
2658 6948 9.038803 GTAATTAAGAACCGTTAATCTAGTGGG 57.961 37.037 0.00 0.00 32.50 4.61
2659 6949 6.855763 TTAAGAACCGTTAATCTAGTGGGA 57.144 37.500 0.00 0.00 0.00 4.37
2660 6950 4.732672 AGAACCGTTAATCTAGTGGGAC 57.267 45.455 0.00 0.00 0.00 4.46
2661 6951 3.450096 AGAACCGTTAATCTAGTGGGACC 59.550 47.826 0.00 0.00 0.00 4.46
2662 6952 2.823959 ACCGTTAATCTAGTGGGACCA 58.176 47.619 0.00 0.00 0.00 4.02
2663 6953 3.175594 ACCGTTAATCTAGTGGGACCAA 58.824 45.455 0.00 0.00 0.00 3.67
2664 6954 3.197116 ACCGTTAATCTAGTGGGACCAAG 59.803 47.826 0.00 0.00 0.00 3.61
2665 6955 3.197116 CCGTTAATCTAGTGGGACCAAGT 59.803 47.826 0.00 0.00 0.00 3.16
2666 6956 4.323257 CCGTTAATCTAGTGGGACCAAGTT 60.323 45.833 0.00 0.00 0.00 2.66
2667 6957 5.105228 CCGTTAATCTAGTGGGACCAAGTTA 60.105 44.000 0.00 0.00 0.00 2.24
2668 6958 6.407752 CCGTTAATCTAGTGGGACCAAGTTAT 60.408 42.308 0.00 0.00 0.00 1.89
2669 6959 7.201938 CCGTTAATCTAGTGGGACCAAGTTATA 60.202 40.741 0.00 0.00 0.00 0.98
2670 6960 8.199449 CGTTAATCTAGTGGGACCAAGTTATAA 58.801 37.037 0.00 0.00 0.00 0.98
2671 6961 9.322773 GTTAATCTAGTGGGACCAAGTTATAAC 57.677 37.037 7.57 7.57 0.00 1.89
2672 6962 5.587388 TCTAGTGGGACCAAGTTATAACG 57.413 43.478 9.91 0.00 0.00 3.18
2673 6963 3.622166 AGTGGGACCAAGTTATAACGG 57.378 47.619 9.91 8.71 0.00 4.44
2674 6964 2.908351 AGTGGGACCAAGTTATAACGGT 59.092 45.455 13.23 13.23 0.00 4.83
2675 6965 3.004862 GTGGGACCAAGTTATAACGGTG 58.995 50.000 16.99 14.78 0.00 4.94
2676 6966 2.905085 TGGGACCAAGTTATAACGGTGA 59.095 45.455 16.99 2.23 0.00 4.02
2677 6967 3.327172 TGGGACCAAGTTATAACGGTGAA 59.673 43.478 16.99 3.35 0.00 3.18
2678 6968 3.937079 GGGACCAAGTTATAACGGTGAAG 59.063 47.826 16.99 7.94 0.00 3.02
2679 6969 4.322953 GGGACCAAGTTATAACGGTGAAGA 60.323 45.833 16.99 0.00 0.00 2.87
2680 6970 5.425630 GGACCAAGTTATAACGGTGAAGAT 58.574 41.667 16.99 4.76 0.00 2.40
2681 6971 5.522824 GGACCAAGTTATAACGGTGAAGATC 59.477 44.000 16.99 11.03 0.00 2.75
2682 6972 6.045072 ACCAAGTTATAACGGTGAAGATCA 57.955 37.500 18.54 0.00 0.00 2.92
2683 6973 6.469410 ACCAAGTTATAACGGTGAAGATCAA 58.531 36.000 18.54 0.00 0.00 2.57
2684 6974 6.370718 ACCAAGTTATAACGGTGAAGATCAAC 59.629 38.462 18.54 0.00 0.00 3.18
2685 6975 6.183360 CCAAGTTATAACGGTGAAGATCAACC 60.183 42.308 18.54 0.00 27.88 3.77
2686 6976 5.425630 AGTTATAACGGTGAAGATCAACCC 58.574 41.667 9.91 0.00 27.88 4.11
2687 6977 2.373540 TAACGGTGAAGATCAACCCG 57.626 50.000 10.40 10.40 40.53 5.28
2688 6978 0.395312 AACGGTGAAGATCAACCCGT 59.605 50.000 11.47 11.47 46.72 5.28
2689 6979 0.037605 ACGGTGAAGATCAACCCGTC 60.038 55.000 11.47 0.00 43.02 4.79
2690 6980 0.037697 CGGTGAAGATCAACCCGTCA 60.038 55.000 0.00 0.00 33.12 4.35
2691 6981 1.405526 CGGTGAAGATCAACCCGTCAT 60.406 52.381 0.00 0.00 33.12 3.06
2692 6982 2.711542 GGTGAAGATCAACCCGTCATT 58.288 47.619 0.00 0.00 0.00 2.57
2693 6983 3.677700 CGGTGAAGATCAACCCGTCATTA 60.678 47.826 0.00 0.00 33.12 1.90
2694 6984 3.871594 GGTGAAGATCAACCCGTCATTAG 59.128 47.826 0.00 0.00 0.00 1.73
2695 6985 4.382685 GGTGAAGATCAACCCGTCATTAGA 60.383 45.833 0.00 0.00 0.00 2.10
2696 6986 5.175859 GTGAAGATCAACCCGTCATTAGAA 58.824 41.667 0.00 0.00 0.00 2.10
2697 6987 5.642063 GTGAAGATCAACCCGTCATTAGAAA 59.358 40.000 0.00 0.00 0.00 2.52
2698 6988 6.148811 GTGAAGATCAACCCGTCATTAGAAAA 59.851 38.462 0.00 0.00 0.00 2.29
2699 6989 6.712998 TGAAGATCAACCCGTCATTAGAAAAA 59.287 34.615 0.00 0.00 0.00 1.94
2700 6990 7.393234 TGAAGATCAACCCGTCATTAGAAAAAT 59.607 33.333 0.00 0.00 0.00 1.82
2701 6991 7.321745 AGATCAACCCGTCATTAGAAAAATC 57.678 36.000 0.00 0.00 0.00 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 7.976734 GTCTGCTAATACATCTTCAACTACACT 59.023 37.037 0.00 0.00 0.00 3.55
5 6 7.976734 AGTCTGCTAATACATCTTCAACTACAC 59.023 37.037 0.00 0.00 0.00 2.90
23 24 9.175312 CCTCGGTAATAGAATTATAGTCTGCTA 57.825 37.037 0.00 0.00 0.00 3.49
24 25 7.889073 TCCTCGGTAATAGAATTATAGTCTGCT 59.111 37.037 0.00 0.00 0.00 4.24
25 26 8.053026 TCCTCGGTAATAGAATTATAGTCTGC 57.947 38.462 0.00 0.00 0.00 4.26
34 35 9.675464 TGTGTTTTATTCCTCGGTAATAGAATT 57.325 29.630 0.00 0.00 31.63 2.17
36 37 9.504708 TTTGTGTTTTATTCCTCGGTAATAGAA 57.495 29.630 0.00 0.00 0.00 2.10
38 39 8.943002 AGTTTGTGTTTTATTCCTCGGTAATAG 58.057 33.333 0.00 0.00 0.00 1.73
42 43 7.255208 GGAAAGTTTGTGTTTTATTCCTCGGTA 60.255 37.037 0.00 0.00 33.68 4.02
44 45 5.918576 GGAAAGTTTGTGTTTTATTCCTCGG 59.081 40.000 0.00 0.00 33.68 4.63
46 47 6.220930 GGGGAAAGTTTGTGTTTTATTCCTC 58.779 40.000 0.00 0.00 36.10 3.71
48 49 4.986034 CGGGGAAAGTTTGTGTTTTATTCC 59.014 41.667 0.00 0.00 35.29 3.01
51 52 3.385111 TGCGGGGAAAGTTTGTGTTTTAT 59.615 39.130 0.00 0.00 0.00 1.40
52 53 2.758979 TGCGGGGAAAGTTTGTGTTTTA 59.241 40.909 0.00 0.00 0.00 1.52
54 55 1.187087 TGCGGGGAAAGTTTGTGTTT 58.813 45.000 0.00 0.00 0.00 2.83
55 56 1.187087 TTGCGGGGAAAGTTTGTGTT 58.813 45.000 0.00 0.00 0.00 3.32
57 58 2.301577 TTTTGCGGGGAAAGTTTGTG 57.698 45.000 0.00 0.00 0.00 3.33
80 81 8.582657 TGCTACACTCTAAGAAACTCTAGATT 57.417 34.615 0.00 0.00 0.00 2.40
81 82 8.760980 ATGCTACACTCTAAGAAACTCTAGAT 57.239 34.615 0.00 0.00 0.00 1.98
82 83 8.462811 CAATGCTACACTCTAAGAAACTCTAGA 58.537 37.037 0.00 0.00 0.00 2.43
201 4412 2.106511 GTGAAGATAGGGCCCATAAGCA 59.893 50.000 27.56 11.95 0.00 3.91
327 4551 8.499288 TTCATAGGGGTGAATGTATATGTGTA 57.501 34.615 0.00 0.00 33.41 2.90
328 4552 7.387265 TTCATAGGGGTGAATGTATATGTGT 57.613 36.000 0.00 0.00 33.41 3.72
353 4577 4.022329 CAGGGATAGATGTGCGTGTATACA 60.022 45.833 0.08 0.08 0.00 2.29
376 4601 4.597079 CTTAGTCTCTCGAAGATGCTCAC 58.403 47.826 0.00 0.00 36.11 3.51
383 4608 1.380524 CCGGCTTAGTCTCTCGAAGA 58.619 55.000 0.00 0.00 31.87 2.87
408 4633 9.367444 ACGACGACTTCATAAAATCTTAAGATT 57.633 29.630 22.43 22.43 45.91 2.40
430 4655 0.300193 GACTACGAGACGCCTACGAC 59.700 60.000 0.00 0.00 43.93 4.34
453 4678 6.445475 GTGTTAAGTAGGAAGAGACGTTTCT 58.555 40.000 2.13 2.13 33.37 2.52
464 4689 3.592059 GGTGATGCGTGTTAAGTAGGAA 58.408 45.455 0.00 0.00 0.00 3.36
563 4791 4.201990 CCTTGAAATGCTTAGATGGTCAGC 60.202 45.833 0.00 0.00 0.00 4.26
566 4794 3.696051 TGCCTTGAAATGCTTAGATGGTC 59.304 43.478 0.00 0.00 0.00 4.02
568 4796 3.490419 GCTGCCTTGAAATGCTTAGATGG 60.490 47.826 0.00 0.00 0.00 3.51
584 4812 1.601759 AAGCACAACATCGCTGCCT 60.602 52.632 0.00 0.00 38.82 4.75
585 4813 1.443194 CAAGCACAACATCGCTGCC 60.443 57.895 0.00 0.00 38.82 4.85
836 5066 2.313234 CGCAAATCAAGCTGAACAGTG 58.687 47.619 3.77 0.00 0.00 3.66
967 5226 5.926663 TCGATCTCTTCCTTGCTACTACTA 58.073 41.667 0.00 0.00 0.00 1.82
969 5228 5.335348 GGATCGATCTCTTCCTTGCTACTAC 60.335 48.000 23.96 0.00 0.00 2.73
1142 5414 2.958578 CTTGTGCACCGGGTTGGAGT 62.959 60.000 15.69 0.00 42.00 3.85
1182 5454 4.100084 CAGATGGGCCTGCCGACA 62.100 66.667 4.53 0.00 36.85 4.35
1293 5565 1.223487 GATGTAGGCGGCCCAGAAA 59.777 57.895 17.02 0.00 0.00 2.52
1323 5595 3.148084 CCTATCCACGCGGGGAAT 58.852 61.111 37.21 24.24 41.12 3.01
1365 5637 4.432601 AGCTTCTCGGCTCTGTCT 57.567 55.556 0.00 0.00 38.24 3.41
1894 6183 2.564062 TGGTTTTCCTCCTACCGTACTG 59.436 50.000 0.00 0.00 41.38 2.74
1928 6217 8.310122 AGGCTTGGACATACAAAAATATCAAT 57.690 30.769 0.00 0.00 0.00 2.57
1951 6240 8.784043 ACTAAACTTGCACTTTTTAGACATAGG 58.216 33.333 20.18 2.29 36.64 2.57
2015 6305 5.774690 TCATTCACCAAAGCCAAGTTCTATT 59.225 36.000 0.00 0.00 0.00 1.73
2016 6306 5.324409 TCATTCACCAAAGCCAAGTTCTAT 58.676 37.500 0.00 0.00 0.00 1.98
2017 6307 4.724399 TCATTCACCAAAGCCAAGTTCTA 58.276 39.130 0.00 0.00 0.00 2.10
2018 6308 3.565307 TCATTCACCAAAGCCAAGTTCT 58.435 40.909 0.00 0.00 0.00 3.01
2019 6309 4.219288 AGATCATTCACCAAAGCCAAGTTC 59.781 41.667 0.00 0.00 0.00 3.01
2020 6310 4.154942 AGATCATTCACCAAAGCCAAGTT 58.845 39.130 0.00 0.00 0.00 2.66
2021 6311 3.771216 AGATCATTCACCAAAGCCAAGT 58.229 40.909 0.00 0.00 0.00 3.16
2022 6312 5.221185 CCATAGATCATTCACCAAAGCCAAG 60.221 44.000 0.00 0.00 0.00 3.61
2023 6313 4.646040 CCATAGATCATTCACCAAAGCCAA 59.354 41.667 0.00 0.00 0.00 4.52
2024 6314 4.079844 TCCATAGATCATTCACCAAAGCCA 60.080 41.667 0.00 0.00 0.00 4.75
2025 6315 4.464008 TCCATAGATCATTCACCAAAGCC 58.536 43.478 0.00 0.00 0.00 4.35
2026 6316 4.023365 GCTCCATAGATCATTCACCAAAGC 60.023 45.833 0.00 0.00 0.00 3.51
2027 6317 5.374921 AGCTCCATAGATCATTCACCAAAG 58.625 41.667 0.00 0.00 0.00 2.77
2028 6318 5.378230 AGCTCCATAGATCATTCACCAAA 57.622 39.130 0.00 0.00 0.00 3.28
2029 6319 5.378230 AAGCTCCATAGATCATTCACCAA 57.622 39.130 0.00 0.00 0.00 3.67
2030 6320 5.128205 CAAAGCTCCATAGATCATTCACCA 58.872 41.667 0.00 0.00 0.00 4.17
2031 6321 5.008415 CACAAAGCTCCATAGATCATTCACC 59.992 44.000 0.00 0.00 0.00 4.02
2032 6322 5.587844 ACACAAAGCTCCATAGATCATTCAC 59.412 40.000 0.00 0.00 0.00 3.18
2033 6323 5.587443 CACACAAAGCTCCATAGATCATTCA 59.413 40.000 0.00 0.00 0.00 2.57
2034 6324 5.505324 GCACACAAAGCTCCATAGATCATTC 60.505 44.000 0.00 0.00 0.00 2.67
2035 6325 4.337555 GCACACAAAGCTCCATAGATCATT 59.662 41.667 0.00 0.00 0.00 2.57
2036 6326 3.881688 GCACACAAAGCTCCATAGATCAT 59.118 43.478 0.00 0.00 0.00 2.45
2037 6327 3.054875 AGCACACAAAGCTCCATAGATCA 60.055 43.478 0.00 0.00 38.01 2.92
2038 6328 3.539604 AGCACACAAAGCTCCATAGATC 58.460 45.455 0.00 0.00 38.01 2.75
2039 6329 3.641434 AGCACACAAAGCTCCATAGAT 57.359 42.857 0.00 0.00 38.01 1.98
2040 6330 3.423539 AAGCACACAAAGCTCCATAGA 57.576 42.857 0.00 0.00 42.53 1.98
2041 6331 4.697352 AGTTAAGCACACAAAGCTCCATAG 59.303 41.667 0.00 0.00 42.53 2.23
2042 6332 4.651778 AGTTAAGCACACAAAGCTCCATA 58.348 39.130 0.00 0.00 42.53 2.74
2089 6379 2.869801 TCGCAGTAACTTGACCTGTTTG 59.130 45.455 0.00 0.00 0.00 2.93
2122 6412 5.221263 GGGTTATGATCGAAGAGACTAGCAA 60.221 44.000 0.00 0.00 43.63 3.91
2227 6517 5.987953 CACCTAACTACCATGTGATCATCTG 59.012 44.000 0.00 0.00 31.15 2.90
2306 6596 3.525800 AAAGAACTGGCCCATGTACTT 57.474 42.857 0.00 0.00 0.00 2.24
2309 6599 2.109128 TCCAAAAGAACTGGCCCATGTA 59.891 45.455 0.00 0.00 33.63 2.29
2317 6607 3.437049 GGAGAATCGTCCAAAAGAACTGG 59.563 47.826 0.00 0.00 36.51 4.00
2318 6608 4.319177 AGGAGAATCGTCCAAAAGAACTG 58.681 43.478 0.00 0.00 39.34 3.16
2319 6609 4.625607 AGGAGAATCGTCCAAAAGAACT 57.374 40.909 0.00 0.00 39.34 3.01
2320 6610 5.721232 TCTAGGAGAATCGTCCAAAAGAAC 58.279 41.667 0.00 0.00 39.34 3.01
2321 6611 5.995565 TCTAGGAGAATCGTCCAAAAGAA 57.004 39.130 0.00 0.00 39.34 2.52
2322 6612 5.995565 TTCTAGGAGAATCGTCCAAAAGA 57.004 39.130 0.00 0.00 39.34 2.52
2333 6623 4.345547 GGAAAGGGACGATTCTAGGAGAAT 59.654 45.833 1.34 1.34 46.84 2.40
2334 6624 3.705072 GGAAAGGGACGATTCTAGGAGAA 59.295 47.826 0.00 0.00 38.78 2.87
2335 6625 3.297736 GGAAAGGGACGATTCTAGGAGA 58.702 50.000 0.00 0.00 31.48 3.71
2336 6626 2.365941 GGGAAAGGGACGATTCTAGGAG 59.634 54.545 0.00 0.00 31.48 3.69
2337 6627 2.395619 GGGAAAGGGACGATTCTAGGA 58.604 52.381 0.00 0.00 31.48 2.94
2338 6628 1.416772 GGGGAAAGGGACGATTCTAGG 59.583 57.143 0.00 0.00 31.48 3.02
2339 6629 2.103263 CTGGGGAAAGGGACGATTCTAG 59.897 54.545 0.00 0.00 31.48 2.43
2340 6630 2.116238 CTGGGGAAAGGGACGATTCTA 58.884 52.381 0.00 0.00 31.48 2.10
2341 6631 0.912486 CTGGGGAAAGGGACGATTCT 59.088 55.000 0.00 0.00 31.48 2.40
2342 6632 0.748367 GCTGGGGAAAGGGACGATTC 60.748 60.000 0.00 0.00 0.00 2.52
2343 6633 1.208165 AGCTGGGGAAAGGGACGATT 61.208 55.000 0.00 0.00 0.00 3.34
2344 6634 1.208165 AAGCTGGGGAAAGGGACGAT 61.208 55.000 0.00 0.00 0.00 3.73
2345 6635 1.838073 GAAGCTGGGGAAAGGGACGA 61.838 60.000 0.00 0.00 0.00 4.20
2346 6636 1.377333 GAAGCTGGGGAAAGGGACG 60.377 63.158 0.00 0.00 0.00 4.79
2347 6637 0.034960 GAGAAGCTGGGGAAAGGGAC 60.035 60.000 0.00 0.00 0.00 4.46
2348 6638 1.208165 GGAGAAGCTGGGGAAAGGGA 61.208 60.000 0.00 0.00 0.00 4.20
2349 6639 1.304617 GGAGAAGCTGGGGAAAGGG 59.695 63.158 0.00 0.00 0.00 3.95
2350 6640 1.304617 GGGAGAAGCTGGGGAAAGG 59.695 63.158 0.00 0.00 0.00 3.11
2351 6641 0.405585 TTGGGAGAAGCTGGGGAAAG 59.594 55.000 0.00 0.00 0.00 2.62
2352 6642 0.856982 TTTGGGAGAAGCTGGGGAAA 59.143 50.000 0.00 0.00 0.00 3.13
2353 6643 0.856982 TTTTGGGAGAAGCTGGGGAA 59.143 50.000 0.00 0.00 0.00 3.97
2354 6644 1.084018 ATTTTGGGAGAAGCTGGGGA 58.916 50.000 0.00 0.00 0.00 4.81
2355 6645 1.551883 CAATTTTGGGAGAAGCTGGGG 59.448 52.381 0.00 0.00 0.00 4.96
2356 6646 1.066645 GCAATTTTGGGAGAAGCTGGG 60.067 52.381 0.00 0.00 0.00 4.45
2357 6647 1.066645 GGCAATTTTGGGAGAAGCTGG 60.067 52.381 0.00 0.00 0.00 4.85
2358 6648 1.619827 TGGCAATTTTGGGAGAAGCTG 59.380 47.619 0.00 0.00 0.00 4.24
2359 6649 1.620323 GTGGCAATTTTGGGAGAAGCT 59.380 47.619 0.00 0.00 0.00 3.74
2360 6650 1.620323 AGTGGCAATTTTGGGAGAAGC 59.380 47.619 0.00 0.00 0.00 3.86
2361 6651 2.232208 GGAGTGGCAATTTTGGGAGAAG 59.768 50.000 0.00 0.00 0.00 2.85
2362 6652 2.247358 GGAGTGGCAATTTTGGGAGAA 58.753 47.619 0.00 0.00 0.00 2.87
2363 6653 1.146774 TGGAGTGGCAATTTTGGGAGA 59.853 47.619 0.00 0.00 0.00 3.71
2364 6654 1.631405 TGGAGTGGCAATTTTGGGAG 58.369 50.000 0.00 0.00 0.00 4.30
2365 6655 2.323999 ATGGAGTGGCAATTTTGGGA 57.676 45.000 0.00 0.00 0.00 4.37
2366 6656 4.758773 AATATGGAGTGGCAATTTTGGG 57.241 40.909 0.00 0.00 0.00 4.12
2597 6887 9.178758 GTGGGAATTTATTGAGAGTCTGTAATT 57.821 33.333 0.00 0.00 0.00 1.40
2598 6888 7.495934 CGTGGGAATTTATTGAGAGTCTGTAAT 59.504 37.037 0.00 0.80 0.00 1.89
2599 6889 6.816640 CGTGGGAATTTATTGAGAGTCTGTAA 59.183 38.462 0.00 0.00 0.00 2.41
2600 6890 6.070995 ACGTGGGAATTTATTGAGAGTCTGTA 60.071 38.462 0.00 0.00 0.00 2.74
2601 6891 5.178797 CGTGGGAATTTATTGAGAGTCTGT 58.821 41.667 0.00 0.00 0.00 3.41
2602 6892 5.178797 ACGTGGGAATTTATTGAGAGTCTG 58.821 41.667 0.00 0.00 0.00 3.51
2603 6893 5.422214 ACGTGGGAATTTATTGAGAGTCT 57.578 39.130 0.00 0.00 0.00 3.24
2604 6894 7.605410 TTAACGTGGGAATTTATTGAGAGTC 57.395 36.000 0.00 0.00 0.00 3.36
2605 6895 7.827236 TGATTAACGTGGGAATTTATTGAGAGT 59.173 33.333 0.00 0.00 0.00 3.24
2606 6896 8.208718 TGATTAACGTGGGAATTTATTGAGAG 57.791 34.615 0.00 0.00 0.00 3.20
2607 6897 7.827236 ACTGATTAACGTGGGAATTTATTGAGA 59.173 33.333 0.00 0.00 0.00 3.27
2608 6898 7.985476 ACTGATTAACGTGGGAATTTATTGAG 58.015 34.615 0.00 0.00 0.00 3.02
2609 6899 7.931578 ACTGATTAACGTGGGAATTTATTGA 57.068 32.000 0.00 0.00 0.00 2.57
2615 6905 9.675464 TCTTAATTACTGATTAACGTGGGAATT 57.325 29.630 0.00 0.00 35.74 2.17
2616 6906 9.675464 TTCTTAATTACTGATTAACGTGGGAAT 57.325 29.630 0.00 0.00 35.74 3.01
2617 6907 8.938906 GTTCTTAATTACTGATTAACGTGGGAA 58.061 33.333 0.00 0.00 35.74 3.97
2618 6908 7.550196 GGTTCTTAATTACTGATTAACGTGGGA 59.450 37.037 0.00 0.00 35.74 4.37
2619 6909 7.464977 CGGTTCTTAATTACTGATTAACGTGGG 60.465 40.741 0.00 0.00 35.74 4.61
2620 6910 7.063780 ACGGTTCTTAATTACTGATTAACGTGG 59.936 37.037 0.00 0.00 37.58 4.94
2621 6911 7.956558 ACGGTTCTTAATTACTGATTAACGTG 58.043 34.615 0.00 0.00 37.58 4.49
2622 6912 8.538409 AACGGTTCTTAATTACTGATTAACGT 57.462 30.769 3.65 0.00 39.14 3.99
2631 6921 9.813446 CCACTAGATTAACGGTTCTTAATTACT 57.187 33.333 0.00 0.00 0.00 2.24
2632 6922 9.038803 CCCACTAGATTAACGGTTCTTAATTAC 57.961 37.037 0.00 0.00 0.00 1.89
2633 6923 8.980596 TCCCACTAGATTAACGGTTCTTAATTA 58.019 33.333 0.00 0.00 0.00 1.40
2634 6924 7.767659 GTCCCACTAGATTAACGGTTCTTAATT 59.232 37.037 0.00 0.00 0.00 1.40
2635 6925 7.270779 GTCCCACTAGATTAACGGTTCTTAAT 58.729 38.462 0.00 0.00 0.00 1.40
2636 6926 6.351286 GGTCCCACTAGATTAACGGTTCTTAA 60.351 42.308 0.00 0.00 0.00 1.85
2637 6927 5.127682 GGTCCCACTAGATTAACGGTTCTTA 59.872 44.000 0.00 0.00 0.00 2.10
2638 6928 4.081254 GGTCCCACTAGATTAACGGTTCTT 60.081 45.833 0.00 0.00 0.00 2.52
2639 6929 3.450096 GGTCCCACTAGATTAACGGTTCT 59.550 47.826 0.00 0.00 0.00 3.01
2640 6930 3.196254 TGGTCCCACTAGATTAACGGTTC 59.804 47.826 0.00 0.00 0.00 3.62
2641 6931 3.175594 TGGTCCCACTAGATTAACGGTT 58.824 45.455 0.00 0.00 0.00 4.44
2642 6932 2.823959 TGGTCCCACTAGATTAACGGT 58.176 47.619 0.00 0.00 0.00 4.83
2643 6933 3.197116 ACTTGGTCCCACTAGATTAACGG 59.803 47.826 0.00 0.00 0.00 4.44
2644 6934 4.467198 ACTTGGTCCCACTAGATTAACG 57.533 45.455 0.00 0.00 0.00 3.18
2645 6935 9.322773 GTTATAACTTGGTCCCACTAGATTAAC 57.677 37.037 8.41 0.00 0.00 2.01
2646 6936 8.199449 CGTTATAACTTGGTCCCACTAGATTAA 58.801 37.037 13.56 0.00 0.00 1.40
2647 6937 7.201938 CCGTTATAACTTGGTCCCACTAGATTA 60.202 40.741 13.56 0.00 0.00 1.75
2648 6938 6.407752 CCGTTATAACTTGGTCCCACTAGATT 60.408 42.308 13.56 0.00 0.00 2.40
2649 6939 5.070047 CCGTTATAACTTGGTCCCACTAGAT 59.930 44.000 13.56 0.00 0.00 1.98
2650 6940 4.403432 CCGTTATAACTTGGTCCCACTAGA 59.597 45.833 13.56 0.00 0.00 2.43
2651 6941 4.161001 ACCGTTATAACTTGGTCCCACTAG 59.839 45.833 13.56 0.00 0.00 2.57
2652 6942 4.081531 CACCGTTATAACTTGGTCCCACTA 60.082 45.833 13.56 0.00 30.72 2.74
2653 6943 2.908351 ACCGTTATAACTTGGTCCCACT 59.092 45.455 13.56 0.00 0.00 4.00
2654 6944 3.004862 CACCGTTATAACTTGGTCCCAC 58.995 50.000 13.56 0.00 30.72 4.61
2655 6945 2.905085 TCACCGTTATAACTTGGTCCCA 59.095 45.455 13.56 0.00 30.72 4.37
2656 6946 3.615224 TCACCGTTATAACTTGGTCCC 57.385 47.619 13.56 0.00 30.72 4.46
2657 6947 4.824289 TCTTCACCGTTATAACTTGGTCC 58.176 43.478 13.56 0.00 30.72 4.46
2658 6948 6.103997 TGATCTTCACCGTTATAACTTGGTC 58.896 40.000 13.56 2.92 30.72 4.02
2659 6949 6.045072 TGATCTTCACCGTTATAACTTGGT 57.955 37.500 13.56 11.02 34.29 3.67
2660 6950 6.183360 GGTTGATCTTCACCGTTATAACTTGG 60.183 42.308 13.56 10.42 0.00 3.61
2661 6951 6.183360 GGGTTGATCTTCACCGTTATAACTTG 60.183 42.308 13.56 10.17 0.00 3.16
2662 6952 5.878669 GGGTTGATCTTCACCGTTATAACTT 59.121 40.000 13.56 0.00 0.00 2.66
2663 6953 5.425630 GGGTTGATCTTCACCGTTATAACT 58.574 41.667 13.56 0.00 0.00 2.24
2664 6954 4.269363 CGGGTTGATCTTCACCGTTATAAC 59.731 45.833 5.47 5.47 39.70 1.89
2665 6955 4.435425 CGGGTTGATCTTCACCGTTATAA 58.565 43.478 9.50 0.00 39.70 0.98
2666 6956 4.049546 CGGGTTGATCTTCACCGTTATA 57.950 45.455 9.50 0.00 39.70 0.98
2667 6957 2.901249 CGGGTTGATCTTCACCGTTAT 58.099 47.619 9.50 0.00 39.70 1.89
2668 6958 2.373540 CGGGTTGATCTTCACCGTTA 57.626 50.000 9.50 0.00 39.70 3.18
2669 6959 3.226884 CGGGTTGATCTTCACCGTT 57.773 52.632 9.50 0.00 39.70 4.44
2672 6962 2.403252 ATGACGGGTTGATCTTCACC 57.597 50.000 0.00 0.00 0.00 4.02
2673 6963 4.755411 TCTAATGACGGGTTGATCTTCAC 58.245 43.478 0.00 0.00 0.00 3.18
2674 6964 5.414789 TTCTAATGACGGGTTGATCTTCA 57.585 39.130 0.00 0.00 0.00 3.02
2675 6965 6.737254 TTTTCTAATGACGGGTTGATCTTC 57.263 37.500 0.00 0.00 0.00 2.87
2676 6966 7.703058 ATTTTTCTAATGACGGGTTGATCTT 57.297 32.000 0.00 0.00 0.00 2.40
2677 6967 7.321745 GATTTTTCTAATGACGGGTTGATCT 57.678 36.000 0.00 0.00 0.00 2.75


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

AutoCloner maintained by Alex Coulton.