Multiple sequence alignment - TraesCS7D01G054000

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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 TraesCS7D01G054000 chr7D 100.000 3533 0 0 1 3533 28579569 28576037 0.000000e+00 6525.0
1 TraesCS7D01G054000 chr7D 92.701 274 14 3 3265 3533 28613751 28613479 1.190000e-104 390.0
2 TraesCS7D01G054000 chr7D 92.336 274 15 3 3265 3533 28633777 28634049 5.530000e-103 385.0
3 TraesCS7D01G054000 chr7D 82.432 444 48 11 3109 3533 28543559 28543127 9.320000e-96 361.0
4 TraesCS7D01G054000 chr7D 86.331 139 19 0 318 456 28594851 28594713 6.110000e-33 152.0
5 TraesCS7D01G054000 chr7D 86.331 139 19 0 318 456 28651672 28651810 6.110000e-33 152.0
6 TraesCS7D01G054000 chr7D 86.022 93 8 3 1 88 28651336 28651428 1.040000e-15 95.3
7 TraesCS7D01G054000 chr7D 89.474 76 3 3 18 88 28595170 28595095 1.350000e-14 91.6
8 TraesCS7D01G054000 chr7A 89.463 2420 216 27 578 2976 29009671 29007270 0.000000e+00 3020.0
9 TraesCS7D01G054000 chr7A 87.631 2288 225 31 744 2997 28809201 28806938 0.000000e+00 2604.0
10 TraesCS7D01G054000 chr7A 87.626 2287 226 31 744 2997 28969298 28967036 0.000000e+00 2603.0
11 TraesCS7D01G054000 chr7A 87.500 2288 228 32 744 2997 28846002 28843739 0.000000e+00 2588.0
12 TraesCS7D01G054000 chr7A 87.441 1919 228 9 989 2901 563246827 563244916 0.000000e+00 2196.0
13 TraesCS7D01G054000 chr7A 93.607 219 14 0 1 219 29010181 29009963 9.460000e-86 327.0
14 TraesCS7D01G054000 chr7A 84.343 198 15 1 1 198 29011734 29011553 2.800000e-41 180.0
15 TraesCS7D01G054000 chr4A 88.751 2338 211 31 576 2887 702328223 702325912 0.000000e+00 2813.0
16 TraesCS7D01G054000 chr4A 87.053 2155 247 26 750 2878 702299073 702296925 0.000000e+00 2405.0
17 TraesCS7D01G054000 chr4A 86.311 2177 249 32 1017 3169 702353126 702350975 0.000000e+00 2324.0
18 TraesCS7D01G054000 chr4A 86.842 228 20 7 572 799 702368908 702368691 2.720000e-61 246.0
19 TraesCS7D01G054000 chr4A 80.321 249 34 13 3273 3519 11733855 11734090 1.300000e-39 174.0
20 TraesCS7D01G054000 chr4A 85.235 149 9 6 3 146 702328739 702328599 1.320000e-29 141.0
21 TraesCS7D01G054000 chr4A 100.000 33 0 0 20 52 702127875 702127843 1.060000e-05 62.1
22 TraesCS7D01G054000 chrUn 87.500 2288 224 34 744 2997 313533646 313531387 0.000000e+00 2584.0
23 TraesCS7D01G054000 chrUn 80.366 820 82 27 2723 3492 459694202 459694992 1.850000e-152 549.0
24 TraesCS7D01G054000 chr7B 86.018 2167 253 27 747 2901 525598724 525596596 0.000000e+00 2278.0
25 TraesCS7D01G054000 chr7B 76.471 136 32 0 294 429 3894116 3894251 1.360000e-09 75.0
26 TraesCS7D01G054000 chr5B 80.274 365 51 13 3171 3518 338935198 338934838 4.530000e-64 255.0
27 TraesCS7D01G054000 chr5B 77.410 332 47 17 3144 3453 674489589 674489264 4.690000e-39 172.0
28 TraesCS7D01G054000 chr1A 77.887 407 64 14 3141 3527 124346722 124347122 2.740000e-56 230.0
29 TraesCS7D01G054000 chr1B 83.117 231 34 5 3295 3522 331583947 331584175 4.620000e-49 206.0
30 TraesCS7D01G054000 chr1D 81.081 185 32 3 3315 3498 114116170 114116352 1.020000e-30 145.0
31 TraesCS7D01G054000 chr1D 79.845 129 24 2 3398 3525 272550986 272550859 3.760000e-15 93.5
32 TraesCS7D01G054000 chr3A 88.136 59 5 2 384 440 505225094 505225152 6.330000e-08 69.4


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 TraesCS7D01G054000 chr7D 28576037 28579569 3532 True 6525.000000 6525 100.000000 1 3533 1 chr7D.!!$R2 3532
1 TraesCS7D01G054000 chr7A 28806938 28809201 2263 True 2604.000000 2604 87.631000 744 2997 1 chr7A.!!$R1 2253
2 TraesCS7D01G054000 chr7A 28967036 28969298 2262 True 2603.000000 2603 87.626000 744 2997 1 chr7A.!!$R3 2253
3 TraesCS7D01G054000 chr7A 28843739 28846002 2263 True 2588.000000 2588 87.500000 744 2997 1 chr7A.!!$R2 2253
4 TraesCS7D01G054000 chr7A 563244916 563246827 1911 True 2196.000000 2196 87.441000 989 2901 1 chr7A.!!$R4 1912
5 TraesCS7D01G054000 chr7A 29007270 29011734 4464 True 1175.666667 3020 89.137667 1 2976 3 chr7A.!!$R5 2975
6 TraesCS7D01G054000 chr4A 702296925 702299073 2148 True 2405.000000 2405 87.053000 750 2878 1 chr4A.!!$R2 2128
7 TraesCS7D01G054000 chr4A 702350975 702353126 2151 True 2324.000000 2324 86.311000 1017 3169 1 chr4A.!!$R3 2152
8 TraesCS7D01G054000 chr4A 702325912 702328739 2827 True 1477.000000 2813 86.993000 3 2887 2 chr4A.!!$R5 2884
9 TraesCS7D01G054000 chrUn 313531387 313533646 2259 True 2584.000000 2584 87.500000 744 2997 1 chrUn.!!$R1 2253
10 TraesCS7D01G054000 chrUn 459694202 459694992 790 False 549.000000 549 80.366000 2723 3492 1 chrUn.!!$F1 769
11 TraesCS7D01G054000 chr7B 525596596 525598724 2128 True 2278.000000 2278 86.018000 747 2901 1 chr7B.!!$R1 2154

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
187 1746 0.250727 ACAGCTTTAAGCAGCCGGAA 60.251 50.0 19.63 0.0 45.56 4.30 F
228 1787 0.392863 AGCATGCATAACAGGTGCGA 60.393 50.0 21.98 0.0 45.37 5.10 F
709 2337 0.466124 GACCTCTACCTGCCCATGAC 59.534 60.0 0.00 0.0 0.00 3.06 F
2415 4083 0.321564 AGGCTTATCTTGCGCACACA 60.322 50.0 11.12 0.0 0.00 3.72 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1233 2896 0.179936 CCCTGAGCTCCTTCATGGTC 59.820 60.0 12.15 0.0 37.07 4.02 R
1644 3307 0.881118 GCCGACATGCCTTGAAGAAA 59.119 50.0 0.00 0.0 0.00 2.52 R
2449 4117 0.327924 TCCTGCAATGACGACCCAAT 59.672 50.0 0.00 0.0 0.00 3.16 R
3502 5280 0.109319 CCGCACAAGGGCACAATAAC 60.109 55.0 0.00 0.0 0.00 1.89 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
71 1629 6.487668 TGCCATCAGATTCATATTGGTACTTG 59.512 38.462 0.00 0.00 0.00 3.16
90 1648 3.107642 TGAAAGAACGGTCTGAAGTCC 57.892 47.619 2.28 0.00 33.05 3.85
100 1658 2.444421 GTCTGAAGTCCGAACCCTAGA 58.556 52.381 0.00 0.00 0.00 2.43
108 1666 6.664816 TGAAGTCCGAACCCTAGATACTTTTA 59.335 38.462 0.00 0.00 0.00 1.52
132 1691 1.608590 ACCGGCTGTTCAATCAAAGTG 59.391 47.619 0.00 0.00 0.00 3.16
159 1718 1.452833 GCTTAAGCAGCCCTCCAGG 60.453 63.158 22.59 0.00 43.65 4.45
171 1730 2.297315 GCCCTCCAGGAAAAAGAAACAG 59.703 50.000 0.00 0.00 38.24 3.16
187 1746 0.250727 ACAGCTTTAAGCAGCCGGAA 60.251 50.000 19.63 0.00 45.56 4.30
202 1761 1.540267 CGGAAGGTGGCCAATTAACA 58.460 50.000 7.24 0.00 0.00 2.41
228 1787 0.392863 AGCATGCATAACAGGTGCGA 60.393 50.000 21.98 0.00 45.37 5.10
279 1838 1.141053 ACTTGCCGGTTCTCACTTTCT 59.859 47.619 1.90 0.00 0.00 2.52
280 1839 2.222027 CTTGCCGGTTCTCACTTTCTT 58.778 47.619 1.90 0.00 0.00 2.52
282 1841 2.218603 TGCCGGTTCTCACTTTCTTTC 58.781 47.619 1.90 0.00 0.00 2.62
283 1842 2.218603 GCCGGTTCTCACTTTCTTTCA 58.781 47.619 1.90 0.00 0.00 2.69
284 1843 2.224314 GCCGGTTCTCACTTTCTTTCAG 59.776 50.000 1.90 0.00 0.00 3.02
285 1844 3.467803 CCGGTTCTCACTTTCTTTCAGT 58.532 45.455 0.00 0.00 0.00 3.41
286 1845 3.248602 CCGGTTCTCACTTTCTTTCAGTG 59.751 47.826 0.00 0.00 42.74 3.66
288 1847 5.047847 CGGTTCTCACTTTCTTTCAGTGTA 58.952 41.667 0.24 0.00 42.12 2.90
289 1848 5.522460 CGGTTCTCACTTTCTTTCAGTGTAA 59.478 40.000 0.24 0.00 42.12 2.41
290 1849 6.202954 CGGTTCTCACTTTCTTTCAGTGTAAT 59.797 38.462 0.24 0.00 42.12 1.89
291 1850 7.355778 GGTTCTCACTTTCTTTCAGTGTAATG 58.644 38.462 0.24 0.00 42.12 1.90
293 1852 7.715265 TCTCACTTTCTTTCAGTGTAATGTC 57.285 36.000 0.24 0.00 42.12 3.06
297 1856 9.554395 TCACTTTCTTTCAGTGTAATGTCATTA 57.446 29.630 0.89 0.89 42.12 1.90
299 1858 9.561069 ACTTTCTTTCAGTGTAATGTCATTACT 57.439 29.630 27.80 14.13 44.17 2.24
310 1869 9.554724 GTGTAATGTCATTACTTTTGGTACATG 57.445 33.333 27.80 0.00 44.17 3.21
314 1873 7.609760 TGTCATTACTTTTGGTACATGCTAG 57.390 36.000 0.00 0.00 39.30 3.42
366 1926 4.748600 AGCTCTTTCGGTAGTACACAAAAC 59.251 41.667 2.06 0.00 0.00 2.43
374 1934 8.659925 TTCGGTAGTACACAAAACTTCAAATA 57.340 30.769 2.06 0.00 0.00 1.40
376 1936 9.107177 TCGGTAGTACACAAAACTTCAAATAAA 57.893 29.630 2.06 0.00 0.00 1.40
435 1996 8.827832 ATTGGATCTCAATCAAATTAACTGGA 57.172 30.769 4.21 0.00 41.97 3.86
436 1997 8.648698 TTGGATCTCAATCAAATTAACTGGAA 57.351 30.769 0.00 0.00 33.21 3.53
438 1999 9.258629 TGGATCTCAATCAAATTAACTGGAAAT 57.741 29.630 0.00 0.00 33.21 2.17
468 2029 8.810652 TGAGAAAAATTTAACTGGAAATTCCG 57.189 30.769 7.60 5.05 40.17 4.30
469 2030 7.383843 TGAGAAAAATTTAACTGGAAATTCCGC 59.616 33.333 7.60 0.00 40.17 5.54
475 2036 2.586648 ACTGGAAATTCCGCTCCTTT 57.413 45.000 7.60 0.00 40.17 3.11
488 2049 1.272212 GCTCCTTTGGCCGAAATGAAA 59.728 47.619 6.92 0.00 0.00 2.69
490 2051 3.578688 CTCCTTTGGCCGAAATGAAAAG 58.421 45.455 6.92 4.73 0.00 2.27
491 2052 2.068519 CCTTTGGCCGAAATGAAAAGC 58.931 47.619 6.92 0.00 0.00 3.51
492 2053 1.720852 CTTTGGCCGAAATGAAAAGCG 59.279 47.619 6.92 0.00 0.00 4.68
493 2054 0.955178 TTGGCCGAAATGAAAAGCGA 59.045 45.000 0.00 0.00 0.00 4.93
494 2055 1.173043 TGGCCGAAATGAAAAGCGAT 58.827 45.000 0.00 0.00 0.00 4.58
495 2056 2.360844 TGGCCGAAATGAAAAGCGATA 58.639 42.857 0.00 0.00 0.00 2.92
496 2057 2.948979 TGGCCGAAATGAAAAGCGATAT 59.051 40.909 0.00 0.00 0.00 1.63
498 2059 3.003275 GGCCGAAATGAAAAGCGATATGA 59.997 43.478 0.00 0.00 0.00 2.15
499 2060 3.968724 GCCGAAATGAAAAGCGATATGAC 59.031 43.478 0.00 0.00 0.00 3.06
501 2062 5.200454 CCGAAATGAAAAGCGATATGACTG 58.800 41.667 0.00 0.00 0.00 3.51
503 2064 6.293081 CCGAAATGAAAAGCGATATGACTGAT 60.293 38.462 0.00 0.00 0.00 2.90
504 2065 7.128331 CGAAATGAAAAGCGATATGACTGATT 58.872 34.615 0.00 0.00 0.00 2.57
505 2066 7.641411 CGAAATGAAAAGCGATATGACTGATTT 59.359 33.333 0.00 0.00 0.00 2.17
577 2205 3.717400 TTTTTGTGTGTGTGTGTGTGT 57.283 38.095 0.00 0.00 0.00 3.72
578 2206 2.695613 TTTGTGTGTGTGTGTGTGTG 57.304 45.000 0.00 0.00 0.00 3.82
579 2207 1.598882 TTGTGTGTGTGTGTGTGTGT 58.401 45.000 0.00 0.00 0.00 3.72
580 2208 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
640 2268 1.405821 GGTCCATGAGAACGATCGTCT 59.594 52.381 22.98 19.15 0.00 4.18
701 2329 3.528370 CGGCCGGACCTCTACCTG 61.528 72.222 20.10 0.00 35.61 4.00
708 2336 0.691078 GGACCTCTACCTGCCCATGA 60.691 60.000 0.00 0.00 0.00 3.07
709 2337 0.466124 GACCTCTACCTGCCCATGAC 59.534 60.000 0.00 0.00 0.00 3.06
801 2429 2.203209 GCCGCTTCCCGAATCCAT 60.203 61.111 0.00 0.00 40.02 3.41
802 2430 2.546494 GCCGCTTCCCGAATCCATG 61.546 63.158 0.00 0.00 40.02 3.66
803 2431 2.546494 CCGCTTCCCGAATCCATGC 61.546 63.158 0.00 0.00 40.02 4.06
828 2457 1.353091 TATATACCATGCCCCGCACA 58.647 50.000 0.00 0.00 43.04 4.57
831 2461 0.613292 ATACCATGCCCCGCACAAAA 60.613 50.000 0.00 0.00 43.04 2.44
877 2534 2.738321 GCAGCAAACTAGCTCTCCTCTC 60.738 54.545 0.00 0.00 44.54 3.20
943 2605 0.750911 GCTCCCCTTCATCAAGCCAG 60.751 60.000 0.00 0.00 0.00 4.85
996 2659 3.994931 TCAAGGGTTAAGCCTCCTAAC 57.005 47.619 25.85 0.00 37.43 2.34
1032 2695 2.307686 GGACACCAACCCAATCTCCTTA 59.692 50.000 0.00 0.00 0.00 2.69
1063 2726 1.593209 GACGACAAGGCGGTGTTCA 60.593 57.895 0.00 0.00 35.12 3.18
1137 2800 4.533815 TCATCTCCGACTACTACACCAAT 58.466 43.478 0.00 0.00 0.00 3.16
1152 2815 1.768275 ACCAATATCGAGTCCATGCCA 59.232 47.619 0.00 0.00 0.00 4.92
1206 2869 4.166888 GAGCTCAGCGCATCCCCA 62.167 66.667 11.47 0.00 42.61 4.96
1230 2893 3.479269 CCTTCTGCGCCGTTCGAC 61.479 66.667 4.18 0.00 41.67 4.20
1268 2931 2.360475 GGCCTCTGTTGTCCCTGC 60.360 66.667 0.00 0.00 0.00 4.85
1323 2986 1.518367 TCTTTCCCTCCACCAACAGT 58.482 50.000 0.00 0.00 0.00 3.55
1461 3124 1.057275 TTCTGCACCTACCCACCACA 61.057 55.000 0.00 0.00 0.00 4.17
1598 3261 3.461773 CTCCATCGGCGTGTCCCT 61.462 66.667 6.85 0.00 0.00 4.20
1635 3298 0.970427 TCTATGCTGCCGACCAGACA 60.970 55.000 7.16 5.34 44.64 3.41
1644 3307 1.464376 CCGACCAGACACACTCCACT 61.464 60.000 0.00 0.00 0.00 4.00
1659 3322 3.152341 CTCCACTTTCTTCAAGGCATGT 58.848 45.455 0.00 0.00 36.72 3.21
1747 3410 3.329542 GACCCGGCCATGCTTCTCA 62.330 63.158 2.24 0.00 0.00 3.27
1767 3430 4.081406 TCAAGGTAATGCAAGCTGATGTT 58.919 39.130 0.00 0.00 0.00 2.71
1771 3434 3.191162 GGTAATGCAAGCTGATGTTGACA 59.809 43.478 0.00 0.00 0.00 3.58
1809 3472 1.919240 ATGTCTGTGTCACGGTAGGA 58.081 50.000 11.59 0.00 0.00 2.94
1936 3599 4.699522 GCCCGGAGTTTCGCCACT 62.700 66.667 0.73 0.00 0.00 4.00
2061 3728 0.889638 TGAGCGACTCGTTGGAGACT 60.890 55.000 0.00 0.00 43.27 3.24
2247 3915 3.367703 CCATGGCCAAGATGTTTGAAGAC 60.368 47.826 10.96 0.00 0.00 3.01
2258 3926 1.525619 GTTTGAAGACTTCGTCCGTGG 59.474 52.381 10.56 0.00 32.18 4.94
2415 4083 0.321564 AGGCTTATCTTGCGCACACA 60.322 50.000 11.12 0.00 0.00 3.72
2490 4158 0.908656 AGAGGCATGTGAGGAGTGCT 60.909 55.000 0.00 0.00 38.83 4.40
2512 4180 2.568956 TGGGACCTCATCAAGAAGACTG 59.431 50.000 0.00 0.00 0.00 3.51
2516 4184 4.067896 GACCTCATCAAGAAGACTGCAAA 58.932 43.478 0.00 0.00 0.00 3.68
2556 4224 4.790436 GGACGGACCAACTCACACAGAG 62.790 59.091 0.00 0.00 43.48 3.35
2581 4249 1.179152 CATGAGCTGCACAAATCCCA 58.821 50.000 3.43 0.00 0.00 4.37
2673 4365 6.478512 TTTTTGGACAGCAGGTTCTTATTT 57.521 33.333 0.00 0.00 0.00 1.40
2696 4388 3.924073 CGTTTTGTGATCTATGACGACCA 59.076 43.478 0.00 0.00 0.00 4.02
2715 4408 5.417894 CGACCAAGGGTATATCTGTAGCATA 59.582 44.000 0.00 0.00 35.25 3.14
2716 4409 6.096987 CGACCAAGGGTATATCTGTAGCATAT 59.903 42.308 0.00 0.00 35.25 1.78
2717 4410 7.187824 ACCAAGGGTATATCTGTAGCATATG 57.812 40.000 0.00 0.00 32.11 1.78
2718 4411 6.959954 ACCAAGGGTATATCTGTAGCATATGA 59.040 38.462 6.97 0.00 32.11 2.15
2721 4414 9.539825 CAAGGGTATATCTGTAGCATATGATTC 57.460 37.037 6.97 0.00 0.00 2.52
2767 4466 9.956720 CTGTAAAAGGGCTTATATTGAATGAAG 57.043 33.333 0.00 0.00 0.00 3.02
2773 4472 8.829373 AGGGCTTATATTGAATGAAGAAAAGT 57.171 30.769 6.01 0.00 0.00 2.66
2774 4473 9.259832 AGGGCTTATATTGAATGAAGAAAAGTT 57.740 29.630 6.01 0.00 0.00 2.66
2821 4541 6.441093 TTGGTAGTGAATGAGAAATGCATC 57.559 37.500 0.00 0.00 0.00 3.91
2827 4547 2.832643 ATGAGAAATGCATCCCCACA 57.167 45.000 0.00 0.00 0.00 4.17
2851 4571 8.771766 ACACATCTCGATCAATCAAGAAATATG 58.228 33.333 0.00 0.00 0.00 1.78
2865 4585 6.593770 TCAAGAAATATGTACGTTGCACTCAT 59.406 34.615 0.00 0.00 0.00 2.90
2878 4598 2.292016 TGCACTCATTTGGTTTGTACGG 59.708 45.455 0.00 0.00 0.00 4.02
2921 4641 4.946157 GCCATACAATTCCATCTCCATAGG 59.054 45.833 0.00 0.00 0.00 2.57
2931 4651 4.079269 TCCATCTCCATAGGCCAAATTGAA 60.079 41.667 5.01 0.00 0.00 2.69
2932 4652 4.650588 CCATCTCCATAGGCCAAATTGAAA 59.349 41.667 5.01 0.00 0.00 2.69
2933 4653 5.452356 CCATCTCCATAGGCCAAATTGAAAC 60.452 44.000 5.01 0.00 0.00 2.78
2934 4654 3.694072 TCTCCATAGGCCAAATTGAAACG 59.306 43.478 5.01 0.00 0.00 3.60
2936 4656 3.192422 TCCATAGGCCAAATTGAAACGTG 59.808 43.478 5.01 0.00 0.00 4.49
2938 4658 1.408969 AGGCCAAATTGAAACGTGGT 58.591 45.000 5.01 0.00 33.43 4.16
2950 4673 5.539582 TGAAACGTGGTTATACTTGCATC 57.460 39.130 0.00 0.00 0.00 3.91
2954 4677 4.683832 ACGTGGTTATACTTGCATCTCTC 58.316 43.478 0.00 0.00 0.00 3.20
2966 4693 2.821378 TGCATCTCTCAATGGTGTTTGG 59.179 45.455 0.00 0.00 0.00 3.28
2973 4700 0.387202 CAATGGTGTTTGGACCGCAA 59.613 50.000 0.00 0.00 39.07 4.85
3004 4733 7.493971 AGCAATAACACAGCAAATTAAAACACA 59.506 29.630 0.00 0.00 0.00 3.72
3022 4766 2.030540 CACATGGCCAGAGTTTTGACAG 60.031 50.000 13.05 0.00 0.00 3.51
3026 4770 1.239347 GCCAGAGTTTTGACAGGGAC 58.761 55.000 0.00 0.00 0.00 4.46
3064 4808 1.068885 CGACTTAATTTGCGCCCAACA 60.069 47.619 4.18 0.00 0.00 3.33
3068 4812 2.270275 TAATTTGCGCCCAACATTCG 57.730 45.000 4.18 0.00 0.00 3.34
3083 4827 5.178252 CCAACATTCGATGTGTCCATATCTC 59.822 44.000 4.66 0.00 44.07 2.75
3085 4829 4.248859 CATTCGATGTGTCCATATCTCCC 58.751 47.826 3.10 0.00 0.00 4.30
3090 4834 4.706962 CGATGTGTCCATATCTCCCTGATA 59.293 45.833 3.10 0.00 41.38 2.15
3098 4842 9.958125 TGTCCATATCTCCCTGATATATTATGT 57.042 33.333 0.00 0.00 44.20 2.29
3107 4866 7.555965 TCCCTGATATATTATGTTCGATGTGG 58.444 38.462 0.00 0.00 0.00 4.17
3156 4916 1.003580 GCACTGGGAGAGGATTTGTGA 59.996 52.381 0.00 0.00 0.00 3.58
3170 4930 4.379186 GGATTTGTGACATGCAAGTCTCAG 60.379 45.833 21.52 0.00 41.36 3.35
3197 4957 1.862827 GAGTACCTCGTGCGTGTTTTT 59.137 47.619 0.00 0.00 0.00 1.94
3198 4958 3.052036 GAGTACCTCGTGCGTGTTTTTA 58.948 45.455 0.00 0.00 0.00 1.52
3209 4969 5.564768 GTGCGTGTTTTTATTTTTGGCTTT 58.435 33.333 0.00 0.00 0.00 3.51
3210 4970 5.675012 GTGCGTGTTTTTATTTTTGGCTTTC 59.325 36.000 0.00 0.00 0.00 2.62
3211 4971 5.351465 TGCGTGTTTTTATTTTTGGCTTTCA 59.649 32.000 0.00 0.00 0.00 2.69
3212 4972 6.128282 TGCGTGTTTTTATTTTTGGCTTTCAA 60.128 30.769 0.00 0.00 0.00 2.69
3213 4973 6.743172 GCGTGTTTTTATTTTTGGCTTTCAAA 59.257 30.769 0.00 0.00 42.98 2.69
3262 5027 9.967245 GAAAAGTCCAAATTAAGTGTTGTTTTC 57.033 29.630 0.00 0.00 0.00 2.29
3295 5073 9.206690 TGTGGGCTTTCAAATAATATCCATTTA 57.793 29.630 0.00 0.00 0.00 1.40
3360 5138 7.358066 TCAACTCTTGTAACTTAGTACGAGTG 58.642 38.462 5.83 0.00 36.98 3.51
3361 5139 7.227314 TCAACTCTTGTAACTTAGTACGAGTGA 59.773 37.037 5.83 0.00 36.98 3.41
3362 5140 6.896969 ACTCTTGTAACTTAGTACGAGTGAC 58.103 40.000 11.13 11.13 36.98 3.67
3363 5141 6.484643 ACTCTTGTAACTTAGTACGAGTGACA 59.515 38.462 14.93 14.93 36.84 3.58
3364 5142 6.895898 TCTTGTAACTTAGTACGAGTGACAG 58.104 40.000 17.02 13.20 39.15 3.51
3374 5152 9.737427 CTTAGTACGAGTGACAGATAAAATCAT 57.263 33.333 0.00 0.00 0.00 2.45
3388 5166 8.600625 CAGATAAAATCATGATTTTTGTGCCTG 58.399 33.333 37.92 30.24 45.67 4.85
3390 5168 3.965379 ATCATGATTTTTGTGCCTGCA 57.035 38.095 1.18 0.00 0.00 4.41
3397 5175 0.313672 TTTTGTGCCTGCAATCGACC 59.686 50.000 0.00 0.00 0.00 4.79
3467 5245 7.522374 AGCGAGAAAATCATAAGTTTCAGTTC 58.478 34.615 0.00 0.00 40.92 3.01
3468 5246 7.389053 AGCGAGAAAATCATAAGTTTCAGTTCT 59.611 33.333 0.00 0.00 40.92 3.01
3487 5265 7.908082 TCAGTTCTAAAATCACAAGTTTCAACG 59.092 33.333 0.00 0.00 0.00 4.10
3492 5270 8.616942 TCTAAAATCACAAGTTTCAACGATTGA 58.383 29.630 0.00 0.00 38.04 2.57
3515 5293 5.869649 AACTTGAAAGTTATTGTGCCCTT 57.130 34.783 6.65 0.00 46.75 3.95
3516 5294 5.200368 ACTTGAAAGTTATTGTGCCCTTG 57.800 39.130 0.00 0.00 35.21 3.61
3517 5295 4.649218 ACTTGAAAGTTATTGTGCCCTTGT 59.351 37.500 0.00 0.00 35.21 3.16
3518 5296 4.582701 TGAAAGTTATTGTGCCCTTGTG 57.417 40.909 0.00 0.00 0.00 3.33
3519 5297 3.243704 TGAAAGTTATTGTGCCCTTGTGC 60.244 43.478 0.00 0.00 0.00 4.57
3520 5298 0.881118 AGTTATTGTGCCCTTGTGCG 59.119 50.000 0.00 0.00 0.00 5.34
3521 5299 0.109319 GTTATTGTGCCCTTGTGCGG 60.109 55.000 0.00 0.00 0.00 5.69
3531 5309 2.348411 CCTTGTGCGGGATCCTATTT 57.652 50.000 12.58 0.00 0.00 1.40
3532 5310 2.222027 CCTTGTGCGGGATCCTATTTC 58.778 52.381 12.58 0.00 0.00 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
71 1629 2.059541 CGGACTTCAGACCGTTCTTTC 58.940 52.381 9.25 0.00 45.60 2.62
90 1648 6.474751 CGGTTTCTAAAAGTATCTAGGGTTCG 59.525 42.308 0.00 0.00 0.00 3.95
100 1658 5.310451 TGAACAGCCGGTTTCTAAAAGTAT 58.690 37.500 1.90 0.00 40.63 2.12
108 1666 2.270352 TGATTGAACAGCCGGTTTCT 57.730 45.000 1.90 0.00 40.63 2.52
157 1716 6.220726 TGCTTAAAGCTGTTTCTTTTTCCT 57.779 33.333 0.00 0.00 42.97 3.36
159 1718 5.050769 GGCTGCTTAAAGCTGTTTCTTTTTC 60.051 40.000 0.00 0.00 42.97 2.29
171 1730 0.960861 ACCTTCCGGCTGCTTAAAGC 60.961 55.000 0.00 0.00 42.82 3.51
187 1746 1.616374 CCGTTTGTTAATTGGCCACCT 59.384 47.619 3.88 0.00 0.00 4.00
191 1750 1.708822 CTGCCGTTTGTTAATTGGCC 58.291 50.000 0.00 0.00 45.12 5.36
202 1761 0.887247 TGTTATGCATGCTGCCGTTT 59.113 45.000 20.33 0.00 44.23 3.60
254 1813 1.289380 GAGAACCGGCAAGTCTCGT 59.711 57.895 0.00 0.00 0.00 4.18
255 1814 1.009389 GTGAGAACCGGCAAGTCTCG 61.009 60.000 0.00 0.00 0.00 4.04
259 1818 1.141053 AGAAAGTGAGAACCGGCAAGT 59.859 47.619 0.00 0.00 0.00 3.16
279 1838 8.908903 ACCAAAAGTAATGACATTACACTGAAA 58.091 29.630 30.57 0.63 45.80 2.69
280 1839 8.458573 ACCAAAAGTAATGACATTACACTGAA 57.541 30.769 30.57 1.32 45.80 3.02
282 1841 8.779303 TGTACCAAAAGTAATGACATTACACTG 58.221 33.333 30.57 23.83 45.80 3.66
283 1842 8.911918 TGTACCAAAAGTAATGACATTACACT 57.088 30.769 30.57 19.02 45.80 3.55
284 1843 9.554724 CATGTACCAAAAGTAATGACATTACAC 57.445 33.333 30.57 21.09 45.80 2.90
285 1844 8.240682 GCATGTACCAAAAGTAATGACATTACA 58.759 33.333 30.57 15.95 45.80 2.41
286 1845 8.458843 AGCATGTACCAAAAGTAATGACATTAC 58.541 33.333 24.78 24.78 44.18 1.89
288 1847 7.466746 AGCATGTACCAAAAGTAATGACATT 57.533 32.000 5.87 5.87 31.05 2.71
289 1848 8.046708 TCTAGCATGTACCAAAAGTAATGACAT 58.953 33.333 0.00 0.00 31.05 3.06
290 1849 7.390823 TCTAGCATGTACCAAAAGTAATGACA 58.609 34.615 0.00 0.00 31.05 3.58
291 1850 7.843490 TCTAGCATGTACCAAAAGTAATGAC 57.157 36.000 0.00 0.00 31.05 3.06
299 1858 9.914834 AGGTAATTATTCTAGCATGTACCAAAA 57.085 29.630 11.50 0.00 33.63 2.44
300 1859 9.914834 AAGGTAATTATTCTAGCATGTACCAAA 57.085 29.630 11.50 0.00 33.63 3.28
301 1860 9.914834 AAAGGTAATTATTCTAGCATGTACCAA 57.085 29.630 11.50 0.00 33.63 3.67
302 1861 9.914834 AAAAGGTAATTATTCTAGCATGTACCA 57.085 29.630 11.50 0.00 33.63 3.25
346 1906 6.339730 TGAAGTTTTGTGTACTACCGAAAGA 58.660 36.000 0.00 0.00 0.00 2.52
347 1907 6.592798 TGAAGTTTTGTGTACTACCGAAAG 57.407 37.500 0.00 0.00 0.00 2.62
444 2005 7.598869 AGCGGAATTTCCAGTTAAATTTTTCTC 59.401 33.333 15.58 0.00 38.77 2.87
445 2006 7.441836 AGCGGAATTTCCAGTTAAATTTTTCT 58.558 30.769 15.58 0.00 38.77 2.52
446 2007 7.148639 GGAGCGGAATTTCCAGTTAAATTTTTC 60.149 37.037 15.58 0.00 38.77 2.29
447 2008 6.649141 GGAGCGGAATTTCCAGTTAAATTTTT 59.351 34.615 15.58 0.00 38.77 1.94
448 2009 6.014584 AGGAGCGGAATTTCCAGTTAAATTTT 60.015 34.615 15.58 0.00 38.77 1.82
449 2010 5.480422 AGGAGCGGAATTTCCAGTTAAATTT 59.520 36.000 15.58 0.00 38.77 1.82
450 2011 5.016831 AGGAGCGGAATTTCCAGTTAAATT 58.983 37.500 15.58 0.00 40.79 1.82
451 2012 4.600062 AGGAGCGGAATTTCCAGTTAAAT 58.400 39.130 15.58 0.00 35.91 1.40
452 2013 4.028993 AGGAGCGGAATTTCCAGTTAAA 57.971 40.909 15.58 0.00 35.91 1.52
457 2018 1.474077 CCAAAGGAGCGGAATTTCCAG 59.526 52.381 15.58 9.12 35.91 3.86
460 2021 0.173481 GGCCAAAGGAGCGGAATTTC 59.827 55.000 0.00 0.00 0.00 2.17
466 2027 2.046285 ATTTCGGCCAAAGGAGCGG 61.046 57.895 2.24 0.00 0.00 5.52
467 2028 1.137404 CATTTCGGCCAAAGGAGCG 59.863 57.895 2.24 0.00 0.00 5.03
468 2029 0.887933 TTCATTTCGGCCAAAGGAGC 59.112 50.000 2.24 0.00 36.20 4.70
469 2030 3.578688 CTTTTCATTTCGGCCAAAGGAG 58.421 45.455 2.24 0.00 36.20 3.69
475 2036 1.173043 ATCGCTTTTCATTTCGGCCA 58.827 45.000 2.24 0.00 0.00 5.36
511 2072 7.792383 CTGAAGTCATTGCATTTCAGTAAAG 57.208 36.000 13.07 0.00 40.84 1.85
562 2190 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
566 2194 2.977169 GTTTCAACACACACACACACAC 59.023 45.455 0.00 0.00 0.00 3.82
567 2195 2.881513 AGTTTCAACACACACACACACA 59.118 40.909 0.00 0.00 0.00 3.72
568 2196 3.233578 CAGTTTCAACACACACACACAC 58.766 45.455 0.00 0.00 0.00 3.82
569 2197 2.881513 ACAGTTTCAACACACACACACA 59.118 40.909 0.00 0.00 0.00 3.72
570 2198 3.188460 AGACAGTTTCAACACACACACAC 59.812 43.478 0.00 0.00 0.00 3.82
571 2199 3.407698 AGACAGTTTCAACACACACACA 58.592 40.909 0.00 0.00 0.00 3.72
572 2200 4.154195 AGAAGACAGTTTCAACACACACAC 59.846 41.667 0.00 0.00 0.00 3.82
573 2201 4.323417 AGAAGACAGTTTCAACACACACA 58.677 39.130 0.00 0.00 0.00 3.72
574 2202 4.946784 AGAAGACAGTTTCAACACACAC 57.053 40.909 0.00 0.00 0.00 3.82
575 2203 5.000591 TGAAGAAGACAGTTTCAACACACA 58.999 37.500 0.00 0.00 0.00 3.72
576 2204 5.545658 TGAAGAAGACAGTTTCAACACAC 57.454 39.130 0.00 0.00 0.00 3.82
577 2205 5.937540 TCTTGAAGAAGACAGTTTCAACACA 59.062 36.000 0.00 0.00 36.28 3.72
578 2206 6.092807 ACTCTTGAAGAAGACAGTTTCAACAC 59.907 38.462 0.00 0.00 36.28 3.32
579 2207 6.173339 ACTCTTGAAGAAGACAGTTTCAACA 58.827 36.000 0.00 0.00 36.28 3.33
580 2208 6.670077 ACTCTTGAAGAAGACAGTTTCAAC 57.330 37.500 0.00 0.00 36.28 3.18
625 2253 4.554919 CGGAATACAGACGATCGTTCTCAT 60.555 45.833 23.63 10.94 0.00 2.90
640 2268 2.417239 GTGCGTTTCAATCCGGAATACA 59.583 45.455 9.01 0.00 0.00 2.29
701 2329 0.103572 GTGCATTCATGGTCATGGGC 59.896 55.000 10.61 11.78 39.24 5.36
795 2423 7.000472 GCATGGTATATATAGGTGCATGGATT 59.000 38.462 14.45 0.00 0.00 3.01
801 2429 3.458118 GGGGCATGGTATATATAGGTGCA 59.542 47.826 18.31 0.00 33.05 4.57
802 2430 3.494398 CGGGGCATGGTATATATAGGTGC 60.494 52.174 12.30 12.30 0.00 5.01
803 2431 3.494398 GCGGGGCATGGTATATATAGGTG 60.494 52.174 0.00 0.00 0.00 4.00
828 2457 3.909732 TGGTGAATGGAGTTGGTCTTTT 58.090 40.909 0.00 0.00 0.00 2.27
831 2461 3.222603 GTTTGGTGAATGGAGTTGGTCT 58.777 45.455 0.00 0.00 0.00 3.85
877 2534 2.167487 CCGGAGAGGAAGAAGAAGAAGG 59.833 54.545 0.00 0.00 45.00 3.46
929 2591 1.067354 GGTTTGCTGGCTTGATGAAGG 60.067 52.381 0.00 0.00 0.00 3.46
943 2605 1.338020 CAAAGGAGGTGTGAGGTTTGC 59.662 52.381 0.00 0.00 0.00 3.68
996 2659 0.680618 TGTCCAAGCTGCCCATTTTG 59.319 50.000 0.00 0.00 0.00 2.44
1063 2726 3.901797 CTTCGGGGTTGAGCGGCTT 62.902 63.158 2.97 0.00 0.00 4.35
1137 2800 2.362397 GAGAACTGGCATGGACTCGATA 59.638 50.000 0.00 0.00 0.00 2.92
1152 2815 0.250338 GCTTCACGTTGGGGAGAACT 60.250 55.000 0.00 0.00 0.00 3.01
1182 2845 2.073213 GATGCGCTGAGCTCATCTTGT 61.073 52.381 25.38 3.73 44.33 3.16
1214 2877 3.827784 CGTCGAACGGCGCAGAAG 61.828 66.667 16.26 4.94 38.08 2.85
1230 2893 0.247460 TGAGCTCCTTCATGGTCACG 59.753 55.000 12.15 0.00 36.04 4.35
1233 2896 0.179936 CCCTGAGCTCCTTCATGGTC 59.820 60.000 12.15 0.00 37.07 4.02
1252 2915 2.360475 GGCAGGGACAACAGAGGC 60.360 66.667 0.00 0.00 0.00 4.70
1397 3060 3.083349 CCTCCATCTCGGTGGCCA 61.083 66.667 0.00 0.00 41.48 5.36
1448 3111 2.274542 TCATGAATGTGGTGGGTAGGT 58.725 47.619 0.00 0.00 0.00 3.08
1461 3124 2.027192 AGTACTGGTGCGGTTCATGAAT 60.027 45.455 12.12 0.00 0.00 2.57
1563 3226 3.554692 CCGCTCCGACGCAATGTC 61.555 66.667 0.00 0.00 44.53 3.06
1585 3248 3.461773 CAGGAGGGACACGCCGAT 61.462 66.667 0.00 0.00 44.78 4.18
1635 3298 2.092429 TGCCTTGAAGAAAGTGGAGTGT 60.092 45.455 0.00 0.00 33.66 3.55
1644 3307 0.881118 GCCGACATGCCTTGAAGAAA 59.119 50.000 0.00 0.00 0.00 2.52
1659 3322 4.002506 TCAAAGCCTGCGAGCCGA 62.003 61.111 0.00 0.00 0.00 5.54
1739 3402 2.489329 GCTTGCATTACCTTGAGAAGCA 59.511 45.455 0.00 0.00 35.40 3.91
1747 3410 4.081406 TCAACATCAGCTTGCATTACCTT 58.919 39.130 0.00 0.00 0.00 3.50
1767 3430 2.734591 GGCACGAGACCAGTGTCA 59.265 61.111 0.00 0.00 44.33 3.58
1771 3434 0.973632 TATGTTGGCACGAGACCAGT 59.026 50.000 0.00 0.00 38.73 4.00
1809 3472 1.890510 GGCGTTGGAAGACGTGGTT 60.891 57.895 0.00 0.00 44.50 3.67
1857 3520 2.504681 GCATTGAACAAGGCGGCG 60.505 61.111 0.51 0.51 38.35 6.46
1864 3527 2.006805 TGGACCCATGCATTGAACAA 57.993 45.000 0.00 0.00 0.00 2.83
2247 3915 2.355363 TTGTCGCCACGGACGAAG 60.355 61.111 0.00 0.00 41.93 3.79
2258 3926 1.300697 ACCTCGAACCTGTTGTCGC 60.301 57.895 0.00 0.00 0.00 5.19
2415 4083 1.065709 ACGAACTTGTCACCAACCACT 60.066 47.619 0.00 0.00 0.00 4.00
2449 4117 0.327924 TCCTGCAATGACGACCCAAT 59.672 50.000 0.00 0.00 0.00 3.16
2490 4158 3.008375 CAGTCTTCTTGATGAGGTCCCAA 59.992 47.826 0.00 0.00 0.00 4.12
2512 4180 6.318648 TCCACTTAATCCATGATACTGTTTGC 59.681 38.462 0.00 0.00 0.00 3.68
2516 4184 5.453339 CCGTCCACTTAATCCATGATACTGT 60.453 44.000 0.00 0.00 0.00 3.55
2548 4216 2.028294 AGCTCATGGAACTCTCTGTGTG 60.028 50.000 0.00 0.00 0.00 3.82
2556 4224 1.527034 TTGTGCAGCTCATGGAACTC 58.473 50.000 0.00 0.00 0.00 3.01
2564 4232 1.927487 ATTGGGATTTGTGCAGCTCA 58.073 45.000 0.00 0.00 0.00 4.26
2612 4283 9.810545 ACGATCAAACCAAAAGAAAAGAAAATA 57.189 25.926 0.00 0.00 0.00 1.40
2618 4309 7.698836 AATCACGATCAAACCAAAAGAAAAG 57.301 32.000 0.00 0.00 0.00 2.27
2651 4343 5.278266 CGAAATAAGAACCTGCTGTCCAAAA 60.278 40.000 0.00 0.00 0.00 2.44
2673 4365 4.171005 GGTCGTCATAGATCACAAAACGA 58.829 43.478 0.00 0.90 35.55 3.85
2690 4382 3.573110 GCTACAGATATACCCTTGGTCGT 59.427 47.826 0.00 0.00 37.09 4.34
2696 4388 9.271921 TGAATCATATGCTACAGATATACCCTT 57.728 33.333 0.00 0.00 0.00 3.95
2739 4438 9.866655 TCATTCAATATAAGCCCTTTTACAGAT 57.133 29.630 0.00 0.00 0.00 2.90
2740 4439 9.693739 TTCATTCAATATAAGCCCTTTTACAGA 57.306 29.630 0.00 0.00 0.00 3.41
2793 4498 7.611467 TGCATTTCTCATTCACTACCAAAGTAT 59.389 33.333 0.00 0.00 35.76 2.12
2798 4514 5.357878 GGATGCATTTCTCATTCACTACCAA 59.642 40.000 0.00 0.00 0.00 3.67
2805 4521 3.025978 GTGGGGATGCATTTCTCATTCA 58.974 45.455 0.00 0.00 0.00 2.57
2821 4541 2.158914 TGATTGATCGAGATGTGTGGGG 60.159 50.000 0.00 0.00 0.00 4.96
2827 4547 8.899427 ACATATTTCTTGATTGATCGAGATGT 57.101 30.769 10.88 9.51 44.53 3.06
2851 4571 3.619233 AACCAAATGAGTGCAACGTAC 57.381 42.857 0.00 0.00 45.86 3.67
2865 4585 4.498345 GCATCTTGAACCGTACAAACCAAA 60.498 41.667 0.00 0.00 0.00 3.28
2878 4598 2.352127 GCTTTGGTCTGGCATCTTGAAC 60.352 50.000 0.00 0.00 0.00 3.18
2921 4641 5.705902 AGTATAACCACGTTTCAATTTGGC 58.294 37.500 0.00 0.00 31.76 4.52
2931 4651 5.086104 AGAGATGCAAGTATAACCACGTT 57.914 39.130 0.00 0.00 0.00 3.99
2932 4652 4.159693 TGAGAGATGCAAGTATAACCACGT 59.840 41.667 0.00 0.00 0.00 4.49
2933 4653 4.682787 TGAGAGATGCAAGTATAACCACG 58.317 43.478 0.00 0.00 0.00 4.94
2934 4654 6.017605 CCATTGAGAGATGCAAGTATAACCAC 60.018 42.308 0.00 0.00 0.00 4.16
2936 4656 6.017605 CACCATTGAGAGATGCAAGTATAACC 60.018 42.308 0.00 0.00 0.00 2.85
2938 4658 6.653020 ACACCATTGAGAGATGCAAGTATAA 58.347 36.000 0.00 0.00 0.00 0.98
2950 4673 1.806542 CGGTCCAAACACCATTGAGAG 59.193 52.381 0.00 0.00 36.01 3.20
2954 4677 0.387202 TTGCGGTCCAAACACCATTG 59.613 50.000 0.00 0.00 36.01 2.82
2966 4693 0.878416 TTATTGCTGGTGTTGCGGTC 59.122 50.000 0.00 0.00 0.00 4.79
2973 4700 1.979855 TGCTGTGTTATTGCTGGTGT 58.020 45.000 0.00 0.00 0.00 4.16
3004 4733 1.548582 CCCTGTCAAAACTCTGGCCAT 60.549 52.381 5.51 0.00 0.00 4.40
3022 4766 4.738740 CGATCACTCAATTACTTACGTCCC 59.261 45.833 0.00 0.00 0.00 4.46
3026 4770 8.610855 TTAAGTCGATCACTCAATTACTTACG 57.389 34.615 0.00 0.00 32.30 3.18
3042 4786 1.745232 TGGGCGCAAATTAAGTCGAT 58.255 45.000 10.83 0.00 0.00 3.59
3064 4808 4.020751 CAGGGAGATATGGACACATCGAAT 60.021 45.833 0.00 0.00 38.53 3.34
3068 4812 6.805016 ATATCAGGGAGATATGGACACATC 57.195 41.667 0.00 0.00 45.89 3.06
3083 4827 6.763135 CCCACATCGAACATAATATATCAGGG 59.237 42.308 0.00 0.00 0.00 4.45
3090 4834 9.958180 TCAAATATCCCACATCGAACATAATAT 57.042 29.630 0.00 0.00 0.00 1.28
3097 4841 9.088512 GTAGATATCAAATATCCCACATCGAAC 57.911 37.037 5.32 0.00 42.03 3.95
3098 4842 8.811994 TGTAGATATCAAATATCCCACATCGAA 58.188 33.333 5.32 0.00 42.03 3.71
3107 4866 9.831737 GCAACAACATGTAGATATCAAATATCC 57.168 33.333 5.32 0.00 42.03 2.59
3156 4916 0.607489 GTGCCCTGAGACTTGCATGT 60.607 55.000 4.68 4.68 35.96 3.21
3181 4941 3.974871 AAATAAAAACACGCACGAGGT 57.025 38.095 0.00 0.00 0.00 3.85
3187 4947 5.351465 TGAAAGCCAAAAATAAAAACACGCA 59.649 32.000 0.00 0.00 0.00 5.24
3252 5017 5.757808 AGCCCACAAAATATGAAAACAACAC 59.242 36.000 0.00 0.00 0.00 3.32
3266 5031 7.911651 TGGATATTATTTGAAAGCCCACAAAA 58.088 30.769 0.00 0.00 39.01 2.44
3268 5033 7.673641 ATGGATATTATTTGAAAGCCCACAA 57.326 32.000 0.00 0.00 0.00 3.33
3269 5034 7.673641 AATGGATATTATTTGAAAGCCCACA 57.326 32.000 0.00 0.00 0.00 4.17
3340 5118 6.707608 TCTGTCACTCGTACTAAGTTACAAGA 59.292 38.462 11.23 8.97 32.21 3.02
3360 5138 8.598075 GGCACAAAAATCATGATTTTATCTGTC 58.402 33.333 35.08 27.61 46.76 3.51
3361 5139 8.316214 AGGCACAAAAATCATGATTTTATCTGT 58.684 29.630 35.08 31.30 46.76 3.41
3362 5140 8.600625 CAGGCACAAAAATCATGATTTTATCTG 58.399 33.333 35.08 30.80 46.76 2.90
3363 5141 7.279313 GCAGGCACAAAAATCATGATTTTATCT 59.721 33.333 35.08 25.45 46.76 1.98
3364 5142 7.064847 TGCAGGCACAAAAATCATGATTTTATC 59.935 33.333 35.08 25.07 46.76 1.75
3374 5152 2.295629 TCGATTGCAGGCACAAAAATCA 59.704 40.909 0.00 0.00 32.27 2.57
3417 5195 9.667107 CTCACTCTTACCAAGTTCCATAAATAA 57.333 33.333 0.00 0.00 0.00 1.40
3418 5196 7.769044 GCTCACTCTTACCAAGTTCCATAAATA 59.231 37.037 0.00 0.00 0.00 1.40
3419 5197 6.599638 GCTCACTCTTACCAAGTTCCATAAAT 59.400 38.462 0.00 0.00 0.00 1.40
3420 5198 5.938125 GCTCACTCTTACCAAGTTCCATAAA 59.062 40.000 0.00 0.00 0.00 1.40
3421 5199 5.488341 GCTCACTCTTACCAAGTTCCATAA 58.512 41.667 0.00 0.00 0.00 1.90
3422 5200 4.381612 CGCTCACTCTTACCAAGTTCCATA 60.382 45.833 0.00 0.00 0.00 2.74
3423 5201 3.617531 CGCTCACTCTTACCAAGTTCCAT 60.618 47.826 0.00 0.00 0.00 3.41
3424 5202 2.288825 CGCTCACTCTTACCAAGTTCCA 60.289 50.000 0.00 0.00 0.00 3.53
3425 5203 2.029290 TCGCTCACTCTTACCAAGTTCC 60.029 50.000 0.00 0.00 0.00 3.62
3426 5204 3.057456 TCTCGCTCACTCTTACCAAGTTC 60.057 47.826 0.00 0.00 0.00 3.01
3467 5245 8.781067 TCAATCGTTGAAACTTGTGATTTTAG 57.219 30.769 0.00 0.00 36.59 1.85
3482 5260 9.232082 CAATAACTTTCAAGTTTCAATCGTTGA 57.768 29.630 10.15 0.00 46.52 3.18
3487 5265 7.095649 GGGCACAATAACTTTCAAGTTTCAATC 60.096 37.037 10.15 0.00 46.52 2.67
3492 5270 5.869649 AGGGCACAATAACTTTCAAGTTT 57.130 34.783 10.15 0.00 46.52 2.66
3494 5272 4.649218 ACAAGGGCACAATAACTTTCAAGT 59.351 37.500 0.00 0.00 42.04 3.16
3495 5273 4.984161 CACAAGGGCACAATAACTTTCAAG 59.016 41.667 0.00 0.00 0.00 3.02
3496 5274 4.739137 GCACAAGGGCACAATAACTTTCAA 60.739 41.667 0.00 0.00 0.00 2.69
3497 5275 3.243704 GCACAAGGGCACAATAACTTTCA 60.244 43.478 0.00 0.00 0.00 2.69
3498 5276 3.317150 GCACAAGGGCACAATAACTTTC 58.683 45.455 0.00 0.00 0.00 2.62
3499 5277 2.288152 CGCACAAGGGCACAATAACTTT 60.288 45.455 0.00 0.00 0.00 2.66
3500 5278 1.269448 CGCACAAGGGCACAATAACTT 59.731 47.619 0.00 0.00 0.00 2.66
3501 5279 0.881118 CGCACAAGGGCACAATAACT 59.119 50.000 0.00 0.00 0.00 2.24
3502 5280 0.109319 CCGCACAAGGGCACAATAAC 60.109 55.000 0.00 0.00 0.00 1.89
3503 5281 1.247419 CCCGCACAAGGGCACAATAA 61.247 55.000 0.00 0.00 45.72 1.40
3504 5282 1.677300 CCCGCACAAGGGCACAATA 60.677 57.895 0.00 0.00 45.72 1.90
3505 5283 2.990967 CCCGCACAAGGGCACAAT 60.991 61.111 0.00 0.00 45.72 2.71
3512 5290 2.222027 GAAATAGGATCCCGCACAAGG 58.778 52.381 8.55 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.