Multiple sequence alignment - TraesCS1B01G282400

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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 TraesCS1B01G282400 chr1B 100.000 6092 0 0 1 6092 491237239 491243330 0.000000e+00 11250.0
1 TraesCS1B01G282400 chr1D 92.471 4622 192 60 1529 6091 366247109 366242585 0.000000e+00 6464.0
2 TraesCS1B01G282400 chr1D 89.831 944 34 26 624 1533 366249664 366248749 0.000000e+00 1155.0
3 TraesCS1B01G282400 chr1D 96.000 75 1 1 2415 2487 211683201 211683127 2.980000e-23 121.0
4 TraesCS1B01G282400 chr1A 93.983 3058 104 25 2734 5742 465503027 465506053 0.000000e+00 4554.0
5 TraesCS1B01G282400 chr1A 89.928 1807 85 34 624 2393 465501277 465503023 0.000000e+00 2239.0
6 TraesCS1B01G282400 chr1A 93.600 625 36 1 3 623 207423546 207422922 0.000000e+00 929.0
7 TraesCS1B01G282400 chr1A 89.583 192 16 1 5880 6071 465506529 465506716 2.190000e-59 241.0
8 TraesCS1B01G282400 chr7A 94.099 627 33 1 3 625 6241799 6241173 0.000000e+00 950.0
9 TraesCS1B01G282400 chr7A 93.939 627 34 1 3 625 6172150 6171524 0.000000e+00 944.0
10 TraesCS1B01G282400 chr7A 83.459 399 53 6 4281 4670 88933967 88933573 5.810000e-95 359.0
11 TraesCS1B01G282400 chr7A 88.646 229 19 1 4281 4502 479836464 479836692 7.780000e-69 272.0
12 TraesCS1B01G282400 chrUn 93.620 627 36 1 3 625 277522197 277522823 0.000000e+00 933.0
13 TraesCS1B01G282400 chrUn 82.886 783 60 37 3246 4002 37333312 37334046 2.400000e-178 636.0
14 TraesCS1B01G282400 chrUn 82.143 644 56 17 4936 5572 37334286 37334877 1.180000e-136 497.0
15 TraesCS1B01G282400 chrUn 81.463 410 53 12 4281 4679 255438563 255438960 1.270000e-81 315.0
16 TraesCS1B01G282400 chrUn 86.869 99 10 2 4673 4771 37334169 37334264 2.320000e-19 108.0
17 TraesCS1B01G282400 chrUn 86.486 74 8 1 4599 4670 255440188 255440261 5.060000e-11 80.5
18 TraesCS1B01G282400 chrUn 86.486 74 8 2 4599 4670 318688448 318688375 5.060000e-11 80.5
19 TraesCS1B01G282400 chrUn 86.486 74 8 2 4599 4670 318694007 318694080 5.060000e-11 80.5
20 TraesCS1B01G282400 chrUn 86.486 74 8 2 4599 4670 331715602 331715675 5.060000e-11 80.5
21 TraesCS1B01G282400 chr6A 93.610 626 34 4 3 624 591878390 591879013 0.000000e+00 929.0
22 TraesCS1B01G282400 chr4A 93.730 622 35 1 6 623 548655372 548654751 0.000000e+00 929.0
23 TraesCS1B01G282400 chr4A 85.417 240 25 4 5014 5253 102624923 102625152 2.190000e-59 241.0
24 TraesCS1B01G282400 chr4A 97.778 45 1 0 4936 4980 102624878 102624922 1.820000e-10 78.7
25 TraesCS1B01G282400 chr6B 93.323 629 38 1 2 626 664720244 664720872 0.000000e+00 926.0
26 TraesCS1B01G282400 chr6B 91.358 81 6 1 2406 2486 113298867 113298946 6.460000e-20 110.0
27 TraesCS1B01G282400 chr3A 93.450 626 36 2 2 623 13156310 13156934 0.000000e+00 924.0
28 TraesCS1B01G282400 chr3A 85.094 691 57 21 3221 3885 26004114 26003444 0.000000e+00 664.0
29 TraesCS1B01G282400 chr3A 85.559 644 57 12 4936 5572 26002847 26002233 5.150000e-180 641.0
30 TraesCS1B01G282400 chr3A 88.008 517 55 7 4161 4673 671349290 671349803 6.750000e-169 604.0
31 TraesCS1B01G282400 chr3A 87.571 177 22 0 2869 3045 629219180 629219004 8.000000e-49 206.0
32 TraesCS1B01G282400 chr3A 75.290 259 57 6 2095 2350 629224070 629223816 3.860000e-22 117.0
33 TraesCS1B01G282400 chr3A 87.500 96 10 1 4676 4771 26002962 26002869 6.460000e-20 110.0
34 TraesCS1B01G282400 chr3A 86.458 96 11 1 4676 4771 26003227 26003134 3.000000e-18 104.0
35 TraesCS1B01G282400 chr5A 93.440 625 36 4 3 623 439106187 439106810 0.000000e+00 922.0
36 TraesCS1B01G282400 chr5A 87.786 524 56 8 4161 4680 5427740 5427221 1.880000e-169 606.0
37 TraesCS1B01G282400 chr5A 93.333 75 1 3 2413 2487 547647465 547647535 2.320000e-19 108.0
38 TraesCS1B01G282400 chr3D 85.014 694 56 23 3219 3885 18426781 18427453 0.000000e+00 662.0
39 TraesCS1B01G282400 chr3D 83.450 713 89 12 4936 5642 534127584 534128273 2.400000e-178 636.0
40 TraesCS1B01G282400 chr3D 84.627 644 63 15 4936 5572 18428047 18428661 5.220000e-170 608.0
41 TraesCS1B01G282400 chr3D 86.425 221 19 5 3794 4014 534127146 534127355 1.320000e-56 231.0
42 TraesCS1B01G282400 chr3D 88.136 177 21 0 2869 3045 486043740 486043564 1.720000e-50 211.0
43 TraesCS1B01G282400 chr3D 87.879 99 10 1 4673 4771 18427929 18428025 1.390000e-21 115.0
44 TraesCS1B01G282400 chr3D 86.869 99 11 1 4673 4771 18427668 18427764 6.460000e-20 110.0
45 TraesCS1B01G282400 chr3D 89.855 69 7 0 4684 4752 534127474 534127542 8.410000e-14 89.8
46 TraesCS1B01G282400 chr3D 86.486 74 8 2 4599 4670 36244665 36244592 5.060000e-11 80.5
47 TraesCS1B01G282400 chr5D 85.622 619 50 14 3417 4016 61698670 61698072 1.120000e-171 614.0
48 TraesCS1B01G282400 chr5D 85.149 404 44 9 4286 4678 179649748 179650146 3.420000e-107 399.0
49 TraesCS1B01G282400 chr3B 84.839 620 54 14 3417 4016 720194084 720194683 6.800000e-164 588.0
50 TraesCS1B01G282400 chr3B 89.119 193 17 3 2869 3058 648741216 648741025 2.840000e-58 237.0
51 TraesCS1B01G282400 chr5B 84.516 620 56 15 3417 4016 703732177 703732776 1.470000e-160 577.0
52 TraesCS1B01G282400 chr5B 92.500 80 3 3 2412 2491 538724052 538723976 1.790000e-20 111.0
53 TraesCS1B01G282400 chr6D 84.194 620 58 15 3417 4016 4982718 4982119 3.190000e-157 566.0
54 TraesCS1B01G282400 chr2A 81.220 410 53 13 4281 4679 361210693 361210297 5.930000e-80 309.0
55 TraesCS1B01G282400 chr2A 91.503 153 12 1 4788 4939 141506319 141506471 6.190000e-50 209.0
56 TraesCS1B01G282400 chr2A 91.447 152 12 1 4788 4938 176673417 176673266 2.230000e-49 207.0
57 TraesCS1B01G282400 chr7D 86.307 241 23 4 5013 5253 1223986 1224216 2.820000e-63 254.0
58 TraesCS1B01G282400 chr2D 84.362 243 28 4 5014 5256 608571984 608571752 4.750000e-56 230.0
59 TraesCS1B01G282400 chr2D 92.667 150 9 2 4788 4936 79056318 79056170 1.330000e-51 215.0
60 TraesCS1B01G282400 chr2D 94.000 100 6 0 5014 5113 557135131 557135032 1.060000e-32 152.0
61 TraesCS1B01G282400 chr2D 96.104 77 2 1 2415 2490 327614826 327614902 2.310000e-24 124.0
62 TraesCS1B01G282400 chr2D 89.535 86 6 3 2407 2490 609212127 609212043 8.350000e-19 106.0
63 TraesCS1B01G282400 chr2D 97.778 45 1 0 4936 4980 557135176 557135132 1.820000e-10 78.7
64 TraesCS1B01G282400 chr2D 97.778 45 1 0 4936 4980 608572029 608571985 1.820000e-10 78.7
65 TraesCS1B01G282400 chr4B 93.960 149 9 0 4788 4936 106227560 106227412 6.140000e-55 226.0
66 TraesCS1B01G282400 chr4B 92.667 150 9 2 4788 4936 438375332 438375184 1.330000e-51 215.0
67 TraesCS1B01G282400 chr4B 87.500 96 6 5 2416 2506 269174077 269174171 8.350000e-19 106.0
68 TraesCS1B01G282400 chr7B 91.946 149 12 0 4788 4936 44939705 44939557 6.190000e-50 209.0
69 TraesCS1B01G282400 chr4D 92.000 150 11 1 4788 4936 74079503 74079354 6.190000e-50 209.0
70 TraesCS1B01G282400 chr4D 82.941 170 20 5 5927 6092 112728301 112728465 1.770000e-30 145.0
71 TraesCS1B01G282400 chr4D 89.535 86 7 2 2409 2492 399226546 399226631 2.320000e-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 TraesCS1B01G282400 chr1B 491237239 491243330 6091 False 11250.000000 11250 100.000000 1 6092 1 chr1B.!!$F1 6091
1 TraesCS1B01G282400 chr1D 366242585 366249664 7079 True 3809.500000 6464 91.151000 624 6091 2 chr1D.!!$R2 5467
2 TraesCS1B01G282400 chr1A 465501277 465506716 5439 False 2344.666667 4554 91.164667 624 6071 3 chr1A.!!$F1 5447
3 TraesCS1B01G282400 chr1A 207422922 207423546 624 True 929.000000 929 93.600000 3 623 1 chr1A.!!$R1 620
4 TraesCS1B01G282400 chr7A 6241173 6241799 626 True 950.000000 950 94.099000 3 625 1 chr7A.!!$R2 622
5 TraesCS1B01G282400 chr7A 6171524 6172150 626 True 944.000000 944 93.939000 3 625 1 chr7A.!!$R1 622
6 TraesCS1B01G282400 chrUn 277522197 277522823 626 False 933.000000 933 93.620000 3 625 1 chrUn.!!$F1 622
7 TraesCS1B01G282400 chrUn 37333312 37334877 1565 False 413.666667 636 83.966000 3246 5572 3 chrUn.!!$F4 2326
8 TraesCS1B01G282400 chr6A 591878390 591879013 623 False 929.000000 929 93.610000 3 624 1 chr6A.!!$F1 621
9 TraesCS1B01G282400 chr4A 548654751 548655372 621 True 929.000000 929 93.730000 6 623 1 chr4A.!!$R1 617
10 TraesCS1B01G282400 chr6B 664720244 664720872 628 False 926.000000 926 93.323000 2 626 1 chr6B.!!$F2 624
11 TraesCS1B01G282400 chr3A 13156310 13156934 624 False 924.000000 924 93.450000 2 623 1 chr3A.!!$F1 621
12 TraesCS1B01G282400 chr3A 671349290 671349803 513 False 604.000000 604 88.008000 4161 4673 1 chr3A.!!$F2 512
13 TraesCS1B01G282400 chr3A 26002233 26004114 1881 True 379.750000 664 86.152750 3221 5572 4 chr3A.!!$R3 2351
14 TraesCS1B01G282400 chr5A 439106187 439106810 623 False 922.000000 922 93.440000 3 623 1 chr5A.!!$F1 620
15 TraesCS1B01G282400 chr5A 5427221 5427740 519 True 606.000000 606 87.786000 4161 4680 1 chr5A.!!$R1 519
16 TraesCS1B01G282400 chr3D 18426781 18428661 1880 False 373.750000 662 86.097250 3219 5572 4 chr3D.!!$F1 2353
17 TraesCS1B01G282400 chr3D 534127146 534128273 1127 False 318.933333 636 86.576667 3794 5642 3 chr3D.!!$F2 1848
18 TraesCS1B01G282400 chr5D 61698072 61698670 598 True 614.000000 614 85.622000 3417 4016 1 chr5D.!!$R1 599
19 TraesCS1B01G282400 chr3B 720194084 720194683 599 False 588.000000 588 84.839000 3417 4016 1 chr3B.!!$F1 599
20 TraesCS1B01G282400 chr5B 703732177 703732776 599 False 577.000000 577 84.516000 3417 4016 1 chr5B.!!$F1 599
21 TraesCS1B01G282400 chr6D 4982119 4982718 599 True 566.000000 566 84.194000 3417 4016 1 chr6D.!!$R1 599

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
632 638 2.429250 TGAACAGAGTGAACCGAGTCAA 59.571 45.455 0.00 0.00 0.00 3.18 F
1431 1478 0.665670 CAGTGTCAGTGCGAGTCCTG 60.666 60.000 0.00 0.00 0.00 3.86 F
1704 3395 0.174617 GAGTACTGGCTCTGCAGGTC 59.825 60.000 15.13 6.87 32.99 3.85 F
2657 4370 0.326264 CTGTGGGACTGCTAAGGCTT 59.674 55.000 4.58 4.58 39.59 4.35 F
3771 5516 3.057526 GGAAAGTGTCACCCATTAGTTGC 60.058 47.826 0.00 0.00 0.00 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1457 1504 0.179124 GGAGCTCCGCAGTAAGACAG 60.179 60.00 19.06 0.00 0.00 3.51 R
2704 4417 0.324368 ACCATCAGGAGCTCGGTACA 60.324 55.00 7.83 0.00 38.69 2.90 R
3605 5330 3.194116 AGCATTCAAATTCGGTTGATGCT 59.806 39.13 17.58 17.58 41.82 3.79 R
3958 5703 0.318441 GCTGGCCTTTTCAGGGTTTC 59.682 55.00 3.32 0.00 41.21 2.78 R
5132 7200 0.615850 CTGGAGGACTGGGGAAGTTC 59.384 60.00 0.00 0.00 40.07 3.01 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
79 80 8.770438 TTCGGTTTGTACGGTATTAATACTTT 57.230 30.769 21.86 13.05 33.81 2.66
131 132 5.006649 GGTTCGGTTTCGGTATATACCAAAC 59.993 44.000 29.16 29.16 46.80 2.93
185 186 4.555348 AACCAAAGTTGACGCGAATTTA 57.445 36.364 15.93 0.00 33.97 1.40
319 324 4.573201 GGTTATGGACGTGCTTAGCATTTA 59.427 41.667 11.03 0.00 41.91 1.40
395 400 9.515020 TGAATTTGACTCATGTACAAGAAAAAC 57.485 29.630 0.00 0.00 0.00 2.43
412 417 6.492254 AGAAAAACGACAACTTGTATGGTTC 58.508 36.000 0.00 0.00 0.00 3.62
474 480 8.558700 GGTTTATTCTGTTAACTGTTCGGTTTA 58.441 33.333 7.22 0.00 0.00 2.01
518 524 9.757227 AATCAAAGTTCAAATCGGTATGAAAAA 57.243 25.926 0.00 0.00 37.31 1.94
572 578 5.793030 AACCATAAAATCGGTTTGGTTCA 57.207 34.783 9.70 0.00 42.99 3.18
573 579 5.993748 ACCATAAAATCGGTTTGGTTCAT 57.006 34.783 0.00 0.00 28.43 2.57
613 619 4.634184 TTTCGGTTCGGTTTTCAAATGA 57.366 36.364 0.00 0.00 0.00 2.57
632 638 2.429250 TGAACAGAGTGAACCGAGTCAA 59.571 45.455 0.00 0.00 0.00 3.18
749 777 3.942439 GGGCCCACGCTATCTCCC 61.942 72.222 19.95 0.00 34.44 4.30
988 1035 4.452733 CCTCGACCCCGCCAGAAC 62.453 72.222 0.00 0.00 35.37 3.01
1191 1238 1.440476 CGGGGCTTAGAGTTACCGG 59.560 63.158 0.00 0.00 37.80 5.28
1197 1244 1.551883 GCTTAGAGTTACCGGAACCCA 59.448 52.381 9.46 0.00 39.02 4.51
1276 1323 3.123620 GCTTCTGCCTGCCGTCTG 61.124 66.667 0.00 0.00 0.00 3.51
1277 1324 3.123620 CTTCTGCCTGCCGTCTGC 61.124 66.667 0.00 0.00 41.77 4.26
1280 1327 3.774528 CTGCCTGCCGTCTGCCTA 61.775 66.667 0.00 0.00 40.16 3.93
1292 1339 1.079127 CTGCCTACTGGGGTTGTCG 60.079 63.158 0.00 0.00 35.12 4.35
1305 1352 1.541670 GGTTGTCGCCAAGGTTGACTA 60.542 52.381 12.56 5.01 33.81 2.59
1335 1382 1.617804 CCATGGTTGCATTGGAGGTCT 60.618 52.381 2.57 0.00 0.00 3.85
1343 1390 2.284190 GCATTGGAGGTCTGCTTACTC 58.716 52.381 0.00 0.00 33.15 2.59
1357 1404 4.503910 TGCTTACTCTGTCATGCGTATTT 58.496 39.130 0.00 0.00 0.00 1.40
1358 1405 4.329801 TGCTTACTCTGTCATGCGTATTTG 59.670 41.667 0.00 0.00 0.00 2.32
1359 1406 4.330074 GCTTACTCTGTCATGCGTATTTGT 59.670 41.667 0.00 0.00 0.00 2.83
1360 1407 5.725042 GCTTACTCTGTCATGCGTATTTGTG 60.725 44.000 0.00 0.00 0.00 3.33
1361 1408 3.664107 ACTCTGTCATGCGTATTTGTGT 58.336 40.909 0.00 0.00 0.00 3.72
1362 1409 4.816392 ACTCTGTCATGCGTATTTGTGTA 58.184 39.130 0.00 0.00 0.00 2.90
1363 1410 5.234752 ACTCTGTCATGCGTATTTGTGTAA 58.765 37.500 0.00 0.00 0.00 2.41
1364 1411 5.874810 ACTCTGTCATGCGTATTTGTGTAAT 59.125 36.000 0.00 0.00 0.00 1.89
1365 1412 7.039270 ACTCTGTCATGCGTATTTGTGTAATA 58.961 34.615 0.00 0.00 0.00 0.98
1369 1416 8.202745 TGTCATGCGTATTTGTGTAATATTGA 57.797 30.769 0.00 0.00 31.61 2.57
1395 1442 2.871133 TGTCTATGCCGTAAACAGTCG 58.129 47.619 0.00 0.00 0.00 4.18
1407 1454 4.143179 CGTAAACAGTCGGAGAAATTGACC 60.143 45.833 0.00 0.00 39.69 4.02
1408 1455 3.485463 AACAGTCGGAGAAATTGACCA 57.515 42.857 0.00 0.00 39.69 4.02
1431 1478 0.665670 CAGTGTCAGTGCGAGTCCTG 60.666 60.000 0.00 0.00 0.00 3.86
1609 3300 7.068348 GTGTCTGAATGACCTCCTATAACACTA 59.932 40.741 0.00 0.00 44.75 2.74
1610 3301 7.785028 TGTCTGAATGACCTCCTATAACACTAT 59.215 37.037 0.00 0.00 44.75 2.12
1623 3314 6.597672 CCTATAACACTATGTGCTTGGTTTGA 59.402 38.462 0.00 0.00 36.98 2.69
1638 3329 6.415867 GCTTGGTTTGATCATGATATTGAACG 59.584 38.462 8.54 1.42 0.00 3.95
1688 3379 9.511272 TCTCATAAATAGCAAATGCATATGAGT 57.489 29.630 27.03 7.77 43.43 3.41
1704 3395 0.174617 GAGTACTGGCTCTGCAGGTC 59.825 60.000 15.13 6.87 32.99 3.85
1780 3471 3.881089 GCAATTAGTTAACTGCCCCGTAT 59.119 43.478 18.56 0.00 32.77 3.06
1844 3543 1.491274 TTGACAGCATCCTCTGGGCA 61.491 55.000 0.00 0.00 38.36 5.36
1899 3598 5.503927 ACATATGCTCCATCTTGAAGTGTT 58.496 37.500 1.58 0.00 0.00 3.32
1907 3606 6.426937 GCTCCATCTTGAAGTGTTGTTTAGTA 59.573 38.462 0.00 0.00 0.00 1.82
1916 3615 6.762187 TGAAGTGTTGTTTAGTAAACCATCGA 59.238 34.615 20.42 1.53 40.67 3.59
1919 3618 8.836268 AGTGTTGTTTAGTAAACCATCGATTA 57.164 30.769 20.42 0.00 40.67 1.75
1933 3632 5.775701 ACCATCGATTATTAGGCACTAGAGT 59.224 40.000 0.00 0.00 44.25 3.24
2045 3744 3.308323 GCTGTACTTTCTCTGCATGCTAC 59.692 47.826 20.33 10.59 0.00 3.58
2059 3758 4.690748 TGCATGCTACGCTATATCTTTTCC 59.309 41.667 20.33 0.00 0.00 3.13
2184 3883 6.246449 CAAGAACTGATTCATAGAAGTTGCG 58.754 40.000 0.00 0.00 37.29 4.85
2200 3899 7.553334 AGAAGTTGCGAGACCTGTAAATTATA 58.447 34.615 0.00 0.00 0.00 0.98
2201 3900 7.707035 AGAAGTTGCGAGACCTGTAAATTATAG 59.293 37.037 0.00 0.00 0.00 1.31
2420 4119 9.733219 GTAGTATCAGACAAACAGTAATACTCC 57.267 37.037 0.00 0.00 32.41 3.85
2448 4147 9.241317 TCCGTAAAGAAATATAAGAGCGTTTAG 57.759 33.333 0.00 0.00 0.00 1.85
2455 4154 9.469807 AGAAATATAAGAGCGTTTAGATCACAG 57.530 33.333 0.00 0.00 37.82 3.66
2483 4196 8.425703 GCTCTTATATTTCTTTACAGAGGGAGT 58.574 37.037 0.00 0.00 0.00 3.85
2609 4322 5.508567 TCCAAAAGGATCTATCACATGCAA 58.491 37.500 0.00 0.00 0.00 4.08
2631 4344 5.876612 AATTTGAGTTCAGAGAGATGTGC 57.123 39.130 0.00 0.00 0.00 4.57
2634 4347 3.922910 TGAGTTCAGAGAGATGTGCTTG 58.077 45.455 0.00 0.00 0.00 4.01
2657 4370 0.326264 CTGTGGGACTGCTAAGGCTT 59.674 55.000 4.58 4.58 39.59 4.35
2695 4408 3.754955 TGCTCTCGTTAGTTGTACGATG 58.245 45.455 0.00 0.00 45.76 3.84
3605 5330 4.081697 TCGCTTTCTACAGATGGATTGACA 60.082 41.667 0.00 0.00 0.00 3.58
3771 5516 3.057526 GGAAAGTGTCACCCATTAGTTGC 60.058 47.826 0.00 0.00 0.00 4.17
3781 5526 4.016444 ACCCATTAGTTGCGATTTGTGAT 58.984 39.130 0.00 0.00 0.00 3.06
3827 5572 6.541111 AGAGTGTAAAGATTCACCGAAAAC 57.459 37.500 0.00 0.00 35.45 2.43
3958 5703 7.359262 TCTCTCGTACATAAATTTGTTGTGG 57.641 36.000 15.15 9.29 0.00 4.17
4057 5804 1.615883 GACTCACTTGGCTCTGTCTCA 59.384 52.381 0.00 0.00 0.00 3.27
4058 5805 2.036475 GACTCACTTGGCTCTGTCTCAA 59.964 50.000 0.00 0.00 0.00 3.02
4059 5806 2.435805 ACTCACTTGGCTCTGTCTCAAA 59.564 45.455 0.00 0.00 0.00 2.69
4060 5807 3.065655 CTCACTTGGCTCTGTCTCAAAG 58.934 50.000 0.00 0.00 0.00 2.77
4061 5808 2.700371 TCACTTGGCTCTGTCTCAAAGA 59.300 45.455 0.00 0.00 0.00 2.52
4062 5809 3.326006 TCACTTGGCTCTGTCTCAAAGAT 59.674 43.478 0.00 0.00 0.00 2.40
4063 5810 3.436015 CACTTGGCTCTGTCTCAAAGATG 59.564 47.826 0.00 0.00 0.00 2.90
4148 5895 2.442212 TCATAGGACGCGTCAAAACA 57.558 45.000 37.26 18.69 0.00 2.83
4182 5929 5.247110 TCAGGTCTTGAGCTCTAGAAAATGT 59.753 40.000 26.14 9.16 30.13 2.71
4229 5976 6.054860 ACATTAAGGACAACTGCTACAGAT 57.945 37.500 0.78 0.00 35.18 2.90
4353 6101 4.917385 TGGTTAGCATGTTAATGGTGAGT 58.083 39.130 5.24 0.00 44.16 3.41
4582 6331 6.238759 CCCTTTTAAGCTCCTTATCATTTCCG 60.239 42.308 0.00 0.00 0.00 4.30
4592 6341 4.034510 CCTTATCATTTCCGCTGTTCTGTC 59.965 45.833 0.00 0.00 0.00 3.51
4725 6777 6.888105 TGTAACATCTCAATCCAGCATAAGA 58.112 36.000 0.00 0.00 0.00 2.10
4798 6850 7.287512 AGTCTTTATAATAACTCCCTCCGTC 57.712 40.000 0.00 0.00 0.00 4.79
4799 6851 7.068061 AGTCTTTATAATAACTCCCTCCGTCT 58.932 38.462 0.00 0.00 0.00 4.18
4806 6858 0.250513 ACTCCCTCCGTCTGCAAATC 59.749 55.000 0.00 0.00 0.00 2.17
5129 7197 4.097135 CCAGCATATCTCAGGTATAGTCGG 59.903 50.000 0.00 0.00 0.00 4.79
5132 7200 5.650266 AGCATATCTCAGGTATAGTCGGAAG 59.350 44.000 0.00 0.00 0.00 3.46
5134 7202 6.151312 GCATATCTCAGGTATAGTCGGAAGAA 59.849 42.308 0.00 0.00 45.01 2.52
5135 7203 7.531716 CATATCTCAGGTATAGTCGGAAGAAC 58.468 42.308 0.00 0.00 45.01 3.01
5137 7205 5.507637 TCTCAGGTATAGTCGGAAGAACTT 58.492 41.667 0.00 0.00 45.01 2.66
5138 7206 5.589452 TCTCAGGTATAGTCGGAAGAACTTC 59.411 44.000 6.06 6.06 45.01 3.01
5160 7234 1.229625 AGTCCTCCAGGCCATGTGA 60.230 57.895 5.01 0.00 34.44 3.58
5218 7292 6.986817 CCTAAGTTCCTGTAGGTATTGACATG 59.013 42.308 0.00 0.00 33.47 3.21
5229 7303 6.817765 AGGTATTGACATGTAACCTTTGTG 57.182 37.500 13.26 0.00 37.25 3.33
5275 7349 1.399440 CCAAAGTCGTGGATGATGCTG 59.601 52.381 0.00 0.00 41.65 4.41
5326 7402 0.798776 GGAACACAAGGACTGCGATG 59.201 55.000 0.00 0.00 0.00 3.84
5384 7464 1.843368 AAAGTGGGGTGCTGATGATG 58.157 50.000 0.00 0.00 0.00 3.07
5388 7468 1.206811 TGGGGTGCTGATGATGGTCA 61.207 55.000 0.00 0.00 0.00 4.02
5421 7501 0.824759 ACTTAGGCGGCTTACTGAGG 59.175 55.000 19.76 0.71 0.00 3.86
5422 7502 0.530870 CTTAGGCGGCTTACTGAGGC 60.531 60.000 19.76 0.00 46.92 4.70
5429 7509 2.588027 GGCTTACTGAGGCTACTGAC 57.412 55.000 0.00 0.00 46.86 3.51
5478 7558 5.287274 CACAGAATGAGTGCTTAGTTACTCG 59.713 44.000 11.80 3.32 44.81 4.18
5522 7607 9.485206 GTAACTTCAACTGAGACAGGTTATTTA 57.515 33.333 0.00 0.00 35.51 1.40
5583 7672 4.571580 CAGAAGGGTAAACAACGTGTTACA 59.428 41.667 15.09 0.00 40.14 2.41
5663 7776 2.464865 GTAGTCCTATCTGTGCGCTTG 58.535 52.381 9.73 0.00 0.00 4.01
5664 7777 0.898320 AGTCCTATCTGTGCGCTTGT 59.102 50.000 9.73 0.00 0.00 3.16
5665 7778 1.276421 AGTCCTATCTGTGCGCTTGTT 59.724 47.619 9.73 0.00 0.00 2.83
5666 7779 1.394917 GTCCTATCTGTGCGCTTGTTG 59.605 52.381 9.73 0.00 0.00 3.33
5667 7780 0.729116 CCTATCTGTGCGCTTGTTGG 59.271 55.000 9.73 0.00 0.00 3.77
5668 7781 1.442769 CTATCTGTGCGCTTGTTGGT 58.557 50.000 9.73 0.00 0.00 3.67
5669 7782 1.394917 CTATCTGTGCGCTTGTTGGTC 59.605 52.381 9.73 0.00 0.00 4.02
5670 7783 0.534877 ATCTGTGCGCTTGTTGGTCA 60.535 50.000 9.73 0.00 0.00 4.02
5671 7784 0.746204 TCTGTGCGCTTGTTGGTCAA 60.746 50.000 9.73 0.00 34.61 3.18
5681 7794 3.956233 CTTGTTGGTCAAGTGACATGTG 58.044 45.455 1.15 0.00 46.47 3.21
5682 7795 3.274095 TGTTGGTCAAGTGACATGTGA 57.726 42.857 1.15 0.00 46.47 3.58
5683 7796 3.615155 TGTTGGTCAAGTGACATGTGAA 58.385 40.909 1.15 0.00 46.47 3.18
5684 7797 3.376859 TGTTGGTCAAGTGACATGTGAAC 59.623 43.478 1.15 0.94 46.47 3.18
5685 7798 3.558931 TGGTCAAGTGACATGTGAACT 57.441 42.857 1.15 3.73 46.47 3.01
5686 7799 3.884895 TGGTCAAGTGACATGTGAACTT 58.115 40.909 14.84 14.84 46.47 2.66
5727 7840 2.802247 GACAATTGGCTTGGCAAACTTC 59.198 45.455 13.34 6.51 42.96 3.01
5729 7842 3.062042 CAATTGGCTTGGCAAACTTCTC 58.938 45.455 13.34 0.00 0.00 2.87
5734 7847 0.961753 CTTGGCAAACTTCTCCCCAC 59.038 55.000 0.00 0.00 0.00 4.61
5742 7855 4.156739 GCAAACTTCTCCCCACTGAATTAG 59.843 45.833 0.00 0.00 0.00 1.73
5755 7868 5.280521 CCACTGAATTAGGTACCCTCACTTT 60.281 44.000 8.74 0.00 34.61 2.66
5782 7895 8.011106 ACAAATTATTTGGTACTACGAACGTTG 58.989 33.333 20.00 6.21 44.81 4.10
5783 7896 7.887996 AATTATTTGGTACTACGAACGTTGA 57.112 32.000 5.00 0.00 0.00 3.18
5784 7897 6.932901 TTATTTGGTACTACGAACGTTGAG 57.067 37.500 5.00 1.55 0.00 3.02
5799 7912 1.048601 TTGAGGAGAGAGCACGGTTT 58.951 50.000 0.00 0.00 0.00 3.27
5812 7925 1.325338 CACGGTTTTATTACGAGGCGG 59.675 52.381 0.00 0.00 0.00 6.13
5815 7928 2.535574 CGGTTTTATTACGAGGCGGTAC 59.464 50.000 0.00 0.00 0.00 3.34
5823 7936 1.216977 CGAGGCGGTACCAACATCA 59.783 57.895 13.54 0.00 43.14 3.07
5828 7941 2.158957 AGGCGGTACCAACATCATACAG 60.159 50.000 13.54 0.00 43.14 2.74
5832 7945 4.365723 CGGTACCAACATCATACAGTACC 58.634 47.826 13.54 7.01 44.02 3.34
5960 8475 1.517257 GAGCTGTGATGACCGACGG 60.517 63.158 13.61 13.61 0.00 4.79
6016 8531 5.276270 CAACTATAGTGCATTCATTGTGCC 58.724 41.667 6.06 0.00 41.83 5.01
6017 8532 4.525996 ACTATAGTGCATTCATTGTGCCA 58.474 39.130 4.10 0.00 41.83 4.92
6059 8574 1.346365 TGCGATCGAGCAAGTTACAC 58.654 50.000 21.57 0.00 45.06 2.90
6091 8606 2.073816 CGGAGGTGTGGTGTGATAAAC 58.926 52.381 0.00 0.00 0.00 2.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
131 132 9.294030 GTATATACCGAAACCATACCGAAATAG 57.706 37.037 1.02 0.00 0.00 1.73
207 208 7.865385 AGTATGTGTTTTGCGTCATAAATTTGT 59.135 29.630 0.00 0.00 0.00 2.83
277 282 8.418662 CCATAACCATCAACAGATGAATCAATT 58.581 33.333 7.02 0.00 42.54 2.32
395 400 5.639506 AGATGAAGAACCATACAAGTTGTCG 59.360 40.000 12.82 5.07 0.00 4.35
457 463 4.630111 ACCGATAAACCGAACAGTTAACA 58.370 39.130 8.61 0.00 0.00 2.41
518 524 7.713942 GGTTTCTGGTTTCGGTATAGTATGAAT 59.286 37.037 0.00 0.00 0.00 2.57
526 532 8.513774 GTTTTTATGGTTTCTGGTTTCGGTATA 58.486 33.333 0.00 0.00 0.00 1.47
572 578 8.089597 ACCGAAAAACCATACCGAAAATAAAAT 58.910 29.630 0.00 0.00 0.00 1.82
573 579 7.432059 ACCGAAAAACCATACCGAAAATAAAA 58.568 30.769 0.00 0.00 0.00 1.52
613 619 3.654414 GATTGACTCGGTTCACTCTGTT 58.346 45.455 0.00 0.00 0.00 3.16
749 777 2.357034 CACTGAACGTGGGTCCCG 60.357 66.667 2.65 0.00 40.02 5.14
773 808 4.368543 GGACGTGACGTGGGGTCC 62.369 72.222 18.09 6.14 45.46 4.46
870 912 4.382320 GCGGTTGGTGGCGGAGTA 62.382 66.667 0.00 0.00 0.00 2.59
983 1030 3.976701 ATTGCGGCGGAGGGTTCTG 62.977 63.158 9.78 0.00 0.00 3.02
984 1031 3.717294 ATTGCGGCGGAGGGTTCT 61.717 61.111 9.78 0.00 0.00 3.01
985 1032 3.508840 CATTGCGGCGGAGGGTTC 61.509 66.667 9.78 0.00 0.00 3.62
1191 1238 2.680339 GAGCAAGCAACTAGATGGGTTC 59.320 50.000 0.00 0.00 0.00 3.62
1197 1244 2.697751 AGATCCGAGCAAGCAACTAGAT 59.302 45.455 0.00 0.00 0.00 1.98
1271 1318 1.079127 CAACCCCAGTAGGCAGACG 60.079 63.158 0.00 0.00 0.00 4.18
1272 1319 0.036294 GACAACCCCAGTAGGCAGAC 60.036 60.000 0.00 0.00 0.00 3.51
1273 1320 1.541310 CGACAACCCCAGTAGGCAGA 61.541 60.000 0.00 0.00 0.00 4.26
1274 1321 1.079127 CGACAACCCCAGTAGGCAG 60.079 63.158 0.00 0.00 0.00 4.85
1275 1322 3.065306 CGACAACCCCAGTAGGCA 58.935 61.111 0.00 0.00 0.00 4.75
1276 1323 2.436115 GCGACAACCCCAGTAGGC 60.436 66.667 0.00 0.00 0.00 3.93
1277 1324 2.267961 GGCGACAACCCCAGTAGG 59.732 66.667 0.00 0.00 0.00 3.18
1292 1339 3.646736 ACCCTTATAGTCAACCTTGGC 57.353 47.619 0.00 0.00 0.00 4.52
1295 1342 5.853572 TGGAAACCCTTATAGTCAACCTT 57.146 39.130 0.00 0.00 0.00 3.50
1305 1352 3.182887 TGCAACCATGGAAACCCTTAT 57.817 42.857 21.47 0.00 0.00 1.73
1335 1382 3.801114 ATACGCATGACAGAGTAAGCA 57.199 42.857 0.00 0.00 0.00 3.91
1343 1390 8.334632 TCAATATTACACAAATACGCATGACAG 58.665 33.333 0.00 0.00 32.86 3.51
1357 1404 9.428097 GCATAGACATCTGATCAATATTACACA 57.572 33.333 0.00 0.00 0.00 3.72
1358 1405 8.877779 GGCATAGACATCTGATCAATATTACAC 58.122 37.037 0.00 0.00 0.00 2.90
1359 1406 7.761249 CGGCATAGACATCTGATCAATATTACA 59.239 37.037 0.00 0.00 0.00 2.41
1360 1407 7.761704 ACGGCATAGACATCTGATCAATATTAC 59.238 37.037 0.00 0.00 0.00 1.89
1361 1408 7.840931 ACGGCATAGACATCTGATCAATATTA 58.159 34.615 0.00 0.00 0.00 0.98
1362 1409 6.705302 ACGGCATAGACATCTGATCAATATT 58.295 36.000 0.00 0.00 0.00 1.28
1363 1410 6.291648 ACGGCATAGACATCTGATCAATAT 57.708 37.500 0.00 0.00 0.00 1.28
1364 1411 5.728637 ACGGCATAGACATCTGATCAATA 57.271 39.130 0.00 0.00 0.00 1.90
1365 1412 4.613925 ACGGCATAGACATCTGATCAAT 57.386 40.909 0.00 0.00 0.00 2.57
1369 1416 5.163405 ACTGTTTACGGCATAGACATCTGAT 60.163 40.000 0.00 0.00 28.10 2.90
1395 1442 4.691860 CACTGATGTGGTCAATTTCTCC 57.308 45.455 0.00 0.00 40.33 3.71
1408 1455 0.676184 ACTCGCACTGACACTGATGT 59.324 50.000 0.00 0.00 43.71 3.06
1449 1496 1.067846 CGCAGTAAGACAGCCTACACA 60.068 52.381 0.00 0.00 0.00 3.72
1450 1497 1.630148 CGCAGTAAGACAGCCTACAC 58.370 55.000 0.00 0.00 0.00 2.90
1451 1498 0.530744 CCGCAGTAAGACAGCCTACA 59.469 55.000 0.00 0.00 0.00 2.74
1452 1499 0.815734 TCCGCAGTAAGACAGCCTAC 59.184 55.000 0.00 0.00 0.00 3.18
1453 1500 1.103803 CTCCGCAGTAAGACAGCCTA 58.896 55.000 0.00 0.00 0.00 3.93
1454 1501 1.893786 CTCCGCAGTAAGACAGCCT 59.106 57.895 0.00 0.00 0.00 4.58
1455 1502 1.811679 GCTCCGCAGTAAGACAGCC 60.812 63.158 0.00 0.00 0.00 4.85
1456 1503 0.804156 GAGCTCCGCAGTAAGACAGC 60.804 60.000 0.87 0.00 0.00 4.40
1457 1504 0.179124 GGAGCTCCGCAGTAAGACAG 60.179 60.000 19.06 0.00 0.00 3.51
1461 1508 1.520342 GCTGGAGCTCCGCAGTAAG 60.520 63.158 31.47 22.33 39.43 2.34
1609 3300 6.971726 ATATCATGATCAAACCAAGCACAT 57.028 33.333 12.53 0.00 0.00 3.21
1610 3301 6.377712 TCAATATCATGATCAAACCAAGCACA 59.622 34.615 12.53 0.00 0.00 4.57
1623 3314 3.466836 ACCGCACGTTCAATATCATGAT 58.533 40.909 13.81 13.81 0.00 2.45
1688 3379 2.034878 CTATGACCTGCAGAGCCAGTA 58.965 52.381 17.39 0.00 0.00 2.74
1704 3395 7.558161 TTGCATATTCTCCAACAGAACTATG 57.442 36.000 0.00 0.00 44.28 2.23
1805 3503 6.821160 TGTCAAGTTTTAGTGTCAGTTGATGA 59.179 34.615 0.00 0.00 33.50 2.92
1809 3507 5.163764 TGCTGTCAAGTTTTAGTGTCAGTTG 60.164 40.000 0.00 0.00 34.61 3.16
1882 3581 4.574599 AAACAACACTTCAAGATGGAGC 57.425 40.909 0.00 0.00 0.00 4.70
1883 3582 6.867662 ACTAAACAACACTTCAAGATGGAG 57.132 37.500 0.00 0.00 0.00 3.86
1899 3598 9.048446 GCCTAATAATCGATGGTTTACTAAACA 57.952 33.333 12.68 0.00 43.15 2.83
1907 3606 7.062749 TCTAGTGCCTAATAATCGATGGTTT 57.937 36.000 0.00 0.00 0.00 3.27
2420 4119 6.214399 ACGCTCTTATATTTCTTTACGGAGG 58.786 40.000 0.00 0.00 0.00 4.30
2448 4147 6.777526 AAGAAATATAAGAGCGCTGTGATC 57.222 37.500 18.48 0.00 0.00 2.92
2450 4149 7.039270 TGTAAAGAAATATAAGAGCGCTGTGA 58.961 34.615 18.48 3.32 0.00 3.58
2451 4150 7.222805 TCTGTAAAGAAATATAAGAGCGCTGTG 59.777 37.037 18.48 0.00 0.00 3.66
2452 4151 7.265673 TCTGTAAAGAAATATAAGAGCGCTGT 58.734 34.615 18.48 8.56 0.00 4.40
2455 4154 6.146347 CCCTCTGTAAAGAAATATAAGAGCGC 59.854 42.308 0.00 0.00 0.00 5.92
2597 4310 7.532571 TCTGAACTCAAATTTGCATGTGATAG 58.467 34.615 13.54 5.61 0.00 2.08
2600 4313 5.532032 TCTCTGAACTCAAATTTGCATGTGA 59.468 36.000 13.54 6.42 0.00 3.58
2609 4322 5.558818 AGCACATCTCTCTGAACTCAAATT 58.441 37.500 0.00 0.00 0.00 1.82
2631 4344 1.972872 AGCAGTCCCACAGAAACAAG 58.027 50.000 0.00 0.00 0.00 3.16
2634 4347 2.427506 CCTTAGCAGTCCCACAGAAAC 58.572 52.381 0.00 0.00 0.00 2.78
2704 4417 0.324368 ACCATCAGGAGCTCGGTACA 60.324 55.000 7.83 0.00 38.69 2.90
2718 4431 3.462021 GATCTCAGTAACTGGCACCATC 58.538 50.000 0.00 0.00 31.51 3.51
3232 4946 6.719370 AGTGGCCTATAAATGTGTTTCTTTGA 59.281 34.615 3.32 0.00 0.00 2.69
3605 5330 3.194116 AGCATTCAAATTCGGTTGATGCT 59.806 39.130 17.58 17.58 41.82 3.79
3669 5394 4.697352 GGTGTGAATCTTTGTGTAGCTCAT 59.303 41.667 0.00 0.00 0.00 2.90
3797 5542 7.122204 TCGGTGAATCTTTACACTCTTGAGATA 59.878 37.037 4.49 0.00 37.22 1.98
3915 5660 6.529829 CGAGAGAGGAGTGACTGATTTAAAAG 59.470 42.308 0.00 0.00 0.00 2.27
3916 5661 6.015350 ACGAGAGAGGAGTGACTGATTTAAAA 60.015 38.462 0.00 0.00 0.00 1.52
3958 5703 0.318441 GCTGGCCTTTTCAGGGTTTC 59.682 55.000 3.32 0.00 41.21 2.78
4016 5762 4.816925 GTCTATATTTGGCCTTGTGACTCC 59.183 45.833 3.32 0.00 0.00 3.85
4058 5805 9.247861 ACTTACCAGCAAATAATCTTTCATCTT 57.752 29.630 0.00 0.00 0.00 2.40
4059 5806 8.814038 ACTTACCAGCAAATAATCTTTCATCT 57.186 30.769 0.00 0.00 0.00 2.90
4060 5807 9.860898 AAACTTACCAGCAAATAATCTTTCATC 57.139 29.630 0.00 0.00 0.00 2.92
4061 5808 9.643693 CAAACTTACCAGCAAATAATCTTTCAT 57.356 29.630 0.00 0.00 0.00 2.57
4062 5809 7.598493 GCAAACTTACCAGCAAATAATCTTTCA 59.402 33.333 0.00 0.00 0.00 2.69
4063 5810 7.598493 TGCAAACTTACCAGCAAATAATCTTTC 59.402 33.333 0.00 0.00 33.48 2.62
4148 5895 3.130693 GCTCAAGACCTGAAGTACCGTAT 59.869 47.826 0.00 0.00 32.17 3.06
4553 6302 7.648177 ATGATAAGGAGCTTAAAAGGGGATA 57.352 36.000 0.00 0.00 29.35 2.59
4582 6331 6.560253 TTATTCTCTTTTGGACAGAACAGC 57.440 37.500 0.00 0.00 0.00 4.40
4592 6341 8.255905 AGAAGGCATTGAATTATTCTCTTTTGG 58.744 33.333 6.50 0.00 0.00 3.28
4622 6371 6.190587 AGGATTTAGCATTTAAAGGAGCTGT 58.809 36.000 17.76 7.86 37.94 4.40
4725 6777 8.636213 CAATAAGAGACATGCCCTCAAAATAAT 58.364 33.333 15.44 1.06 33.25 1.28
4781 6833 3.305720 TGCAGACGGAGGGAGTTATTAT 58.694 45.455 0.00 0.00 0.00 1.28
4910 6963 5.049405 CCCTCCGTTCACAAATATAAGATGC 60.049 44.000 0.00 0.00 0.00 3.91
4995 7063 1.476471 GGCATGGTCATTCCTCCAGAG 60.476 57.143 0.00 0.00 37.14 3.35
5129 7197 1.279558 GGAGGACTGGGGAAGTTCTTC 59.720 57.143 2.25 4.19 45.58 2.87
5132 7200 0.615850 CTGGAGGACTGGGGAAGTTC 59.384 60.000 0.00 0.00 40.07 3.01
5134 7202 1.229658 CCTGGAGGACTGGGGAAGT 60.230 63.158 0.00 0.00 43.85 3.01
5135 7203 2.674220 GCCTGGAGGACTGGGGAAG 61.674 68.421 0.00 0.00 38.54 3.46
5137 7205 4.741239 GGCCTGGAGGACTGGGGA 62.741 72.222 0.00 0.00 41.12 4.81
5160 7234 1.479709 ATCTAGGTTCAGTCGCAGCT 58.520 50.000 0.00 0.00 0.00 4.24
5218 7292 5.240844 AGCTGTAAACATCCACAAAGGTTAC 59.759 40.000 0.00 0.00 39.02 2.50
5229 7303 6.035758 CGTTCCTTTAGTAGCTGTAAACATCC 59.964 42.308 0.00 0.00 0.00 3.51
5326 7402 6.703165 CCTAATATACAACCGGTGTTTACTCC 59.297 42.308 8.52 0.00 41.98 3.85
5421 7501 2.884639 ACCACAAACCATTGTCAGTAGC 59.115 45.455 0.00 0.00 46.78 3.58
5422 7502 4.821805 AGAACCACAAACCATTGTCAGTAG 59.178 41.667 0.00 0.00 46.78 2.57
5429 7509 4.685628 GCACATAAGAACCACAAACCATTG 59.314 41.667 0.00 0.00 42.46 2.82
5478 7558 8.995220 TGAAGTTACATTGTAATGACCTAACAC 58.005 33.333 12.16 8.32 39.67 3.32
5583 7672 1.852157 ATCCCAGACCGCACATTGGT 61.852 55.000 0.00 0.00 44.10 3.67
5621 7710 2.697147 GAAACTCCAGGCAGCCACCA 62.697 60.000 15.80 0.00 0.00 4.17
5663 7776 3.627577 AGTTCACATGTCACTTGACCAAC 59.372 43.478 6.91 3.02 44.15 3.77
5664 7777 3.884895 AGTTCACATGTCACTTGACCAA 58.115 40.909 6.91 0.00 44.15 3.67
5665 7778 3.558931 AGTTCACATGTCACTTGACCA 57.441 42.857 6.91 0.00 44.15 4.02
5666 7779 4.601019 CAAAGTTCACATGTCACTTGACC 58.399 43.478 17.09 0.00 44.15 4.02
5667 7780 4.037690 GCAAAGTTCACATGTCACTTGAC 58.962 43.478 17.09 10.62 44.97 3.18
5668 7781 3.066621 GGCAAAGTTCACATGTCACTTGA 59.933 43.478 17.09 0.35 31.00 3.02
5669 7782 3.374745 GGCAAAGTTCACATGTCACTTG 58.625 45.455 17.09 13.01 31.00 3.16
5670 7783 2.362077 GGGCAAAGTTCACATGTCACTT 59.638 45.455 12.41 12.41 31.90 3.16
5671 7784 1.956477 GGGCAAAGTTCACATGTCACT 59.044 47.619 0.00 0.00 0.00 3.41
5672 7785 1.956477 AGGGCAAAGTTCACATGTCAC 59.044 47.619 0.00 0.00 0.00 3.67
5673 7786 2.363306 AGGGCAAAGTTCACATGTCA 57.637 45.000 0.00 0.00 0.00 3.58
5674 7787 2.488153 GGTAGGGCAAAGTTCACATGTC 59.512 50.000 0.00 0.00 0.00 3.06
5675 7788 2.158534 TGGTAGGGCAAAGTTCACATGT 60.159 45.455 0.00 0.00 0.00 3.21
5676 7789 2.513753 TGGTAGGGCAAAGTTCACATG 58.486 47.619 0.00 0.00 0.00 3.21
5677 7790 2.969821 TGGTAGGGCAAAGTTCACAT 57.030 45.000 0.00 0.00 0.00 3.21
5678 7791 2.691011 GTTTGGTAGGGCAAAGTTCACA 59.309 45.455 0.00 0.00 0.00 3.58
5679 7792 2.691011 TGTTTGGTAGGGCAAAGTTCAC 59.309 45.455 0.00 0.00 0.00 3.18
5680 7793 3.019799 TGTTTGGTAGGGCAAAGTTCA 57.980 42.857 0.00 0.00 0.00 3.18
5681 7794 3.306019 CCATGTTTGGTAGGGCAAAGTTC 60.306 47.826 0.00 0.00 38.30 3.01
5682 7795 2.632512 CCATGTTTGGTAGGGCAAAGTT 59.367 45.455 0.00 0.00 38.30 2.66
5683 7796 2.247358 CCATGTTTGGTAGGGCAAAGT 58.753 47.619 0.00 0.00 38.30 2.66
5684 7797 1.550072 CCCATGTTTGGTAGGGCAAAG 59.450 52.381 0.00 0.00 41.91 2.77
5685 7798 1.638529 CCCATGTTTGGTAGGGCAAA 58.361 50.000 0.00 0.00 41.91 3.68
5686 7799 3.372557 CCCATGTTTGGTAGGGCAA 57.627 52.632 0.00 0.00 41.91 4.52
5727 7840 3.840124 GGTACCTAATTCAGTGGGGAG 57.160 52.381 4.06 0.00 0.00 4.30
5742 7855 8.248253 CCAAATAATTTGTAAAGTGAGGGTACC 58.752 37.037 2.17 2.17 44.31 3.34
5755 7868 8.755696 ACGTTCGTAGTACCAAATAATTTGTA 57.244 30.769 0.00 0.00 38.98 2.41
5775 7888 1.704070 GTGCTCTCTCCTCAACGTTC 58.296 55.000 0.00 0.00 0.00 3.95
5779 7892 0.318762 AACCGTGCTCTCTCCTCAAC 59.681 55.000 0.00 0.00 0.00 3.18
5782 7895 3.528597 ATAAAACCGTGCTCTCTCCTC 57.471 47.619 0.00 0.00 0.00 3.71
5783 7896 3.983044 AATAAAACCGTGCTCTCTCCT 57.017 42.857 0.00 0.00 0.00 3.69
5784 7897 3.550678 CGTAATAAAACCGTGCTCTCTCC 59.449 47.826 0.00 0.00 0.00 3.71
5799 7912 2.495270 TGTTGGTACCGCCTCGTAATAA 59.505 45.455 7.57 0.00 38.35 1.40
5812 7925 6.403878 ACTTGGTACTGTATGATGTTGGTAC 58.596 40.000 0.00 0.00 0.00 3.34
5815 7928 7.915293 TTTACTTGGTACTGTATGATGTTGG 57.085 36.000 0.00 0.00 0.00 3.77
5924 8439 2.288825 GCTCCCGATTCACGATAATCCA 60.289 50.000 0.00 0.00 45.77 3.41
5960 8475 1.301558 CTCATCATCTCCCGGCAGC 60.302 63.158 0.00 0.00 0.00 5.25
6016 8531 3.207669 GCGGCATTGCTCTCCCTG 61.208 66.667 8.82 0.00 0.00 4.45
6017 8532 3.406200 AGCGGCATTGCTCTCCCT 61.406 61.111 8.82 0.00 42.95 4.20
6059 8574 3.262420 CACACCTCCGAATACTTCCTTG 58.738 50.000 0.00 0.00 0.00 3.61


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

AutoCloner maintained by Alex Coulton.