Multiple sequence alignment - TraesCS1D01G219500

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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 TraesCS1D01G219500 chr1D 100.000 3824 0 0 1 3824 307216379 307220202 0.000000e+00 7062.0
1 TraesCS1D01G219500 chr1D 92.473 186 7 6 1998 2180 238940203 238940384 3.790000e-65 259.0
2 TraesCS1D01G219500 chr1D 78.571 266 57 0 1431 1696 6864516 6864781 3.930000e-40 176.0
3 TraesCS1D01G219500 chr1A 92.352 1229 70 11 808 2017 385660471 385661694 0.000000e+00 1727.0
4 TraesCS1D01G219500 chr1A 91.183 896 73 3 2186 3079 385661700 385662591 0.000000e+00 1212.0
5 TraesCS1D01G219500 chr1A 91.162 396 14 10 1 384 385659959 385660345 5.660000e-143 518.0
6 TraesCS1D01G219500 chr1A 78.559 583 117 7 2236 2814 8296603 8297181 1.000000e-100 377.0
7 TraesCS1D01G219500 chr1A 80.989 263 50 0 1431 1693 8295776 8296038 3.870000e-50 209.0
8 TraesCS1D01G219500 chr1A 92.308 104 5 2 721 821 385660354 385660457 1.110000e-30 145.0
9 TraesCS1D01G219500 chr1A 75.676 185 45 0 1500 1684 8321021 8321205 4.070000e-15 93.5
10 TraesCS1D01G219500 chr1B 90.291 1308 90 19 740 2017 414805968 414807268 0.000000e+00 1677.0
11 TraesCS1D01G219500 chr1B 91.400 907 75 3 2174 3079 414807265 414808169 0.000000e+00 1240.0
12 TraesCS1D01G219500 chr1B 93.048 748 23 12 1 738 414801764 414802492 0.000000e+00 1066.0
13 TraesCS1D01G219500 chr1B 79.924 264 51 2 1431 1693 9263376 9263638 3.900000e-45 193.0
14 TraesCS1D01G219500 chr1B 78.810 269 57 0 1431 1699 8915941 8915673 8.440000e-42 182.0
15 TraesCS1D01G219500 chr7D 98.533 750 9 2 3076 3824 504419024 504418276 0.000000e+00 1323.0
16 TraesCS1D01G219500 chr7D 98.257 746 12 1 3079 3824 431611558 431610814 0.000000e+00 1304.0
17 TraesCS1D01G219500 chr7D 92.737 179 7 5 2000 2175 206437445 206437620 1.760000e-63 254.0
18 TraesCS1D01G219500 chr7D 91.713 181 12 3 2005 2182 568028771 568028591 8.200000e-62 248.0
19 TraesCS1D01G219500 chr7D 77.820 266 57 2 1435 1699 127682968 127682704 3.060000e-36 163.0
20 TraesCS1D01G219500 chr6D 98.660 746 9 1 3079 3824 400835326 400834582 0.000000e+00 1321.0
21 TraesCS1D01G219500 chr6D 90.863 197 8 8 2014 2205 206560438 206560247 4.900000e-64 255.0
22 TraesCS1D01G219500 chr6D 91.444 187 8 7 2004 2185 32865161 32865344 2.280000e-62 250.0
23 TraesCS1D01G219500 chr2D 98.660 746 9 1 3079 3824 296805567 296806311 0.000000e+00 1321.0
24 TraesCS1D01G219500 chr2D 98.660 746 9 1 3079 3824 619224826 619224082 0.000000e+00 1321.0
25 TraesCS1D01G219500 chr2D 98.527 747 10 1 3078 3824 590005592 590004847 0.000000e+00 1317.0
26 TraesCS1D01G219500 chr2D 80.755 265 51 0 1435 1699 11774774 11775038 1.390000e-49 207.0
27 TraesCS1D01G219500 chr5D 98.396 748 12 0 3076 3823 124818631 124819378 0.000000e+00 1315.0
28 TraesCS1D01G219500 chr5D 98.525 746 10 1 3079 3824 443055347 443054603 0.000000e+00 1315.0
29 TraesCS1D01G219500 chr4D 98.271 752 11 1 3073 3824 85160823 85161572 0.000000e+00 1315.0
30 TraesCS1D01G219500 chr2A 93.714 175 7 3 2009 2180 746757159 746756986 3.790000e-65 259.0
31 TraesCS1D01G219500 chr2A 81.132 265 50 0 1435 1699 12287807 12288071 2.990000e-51 213.0
32 TraesCS1D01G219500 chr6A 94.152 171 7 3 2010 2178 60016876 60016707 1.360000e-64 257.0
33 TraesCS1D01G219500 chr4B 92.737 179 8 4 2000 2175 585609112 585609288 1.760000e-63 254.0
34 TraesCS1D01G219500 chr4B 77.682 233 52 0 1467 1699 36763317 36763085 3.980000e-30 143.0
35 TraesCS1D01G219500 chr4B 77.350 234 51 2 1467 1699 36664400 36664168 1.850000e-28 137.0
36 TraesCS1D01G219500 chr4B 77.253 233 53 0 1467 1699 36714346 36714114 1.850000e-28 137.0
37 TraesCS1D01G219500 chr6B 89.899 198 9 9 2014 2205 320413104 320412912 1.060000e-60 244.0
38 TraesCS1D01G219500 chr2B 80.657 274 53 0 1433 1706 18178494 18178221 2.990000e-51 213.0
39 TraesCS1D01G219500 chr7B 79.245 265 55 0 1435 1699 89542868 89542604 6.520000e-43 185.0


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 TraesCS1D01G219500 chr1D 307216379 307220202 3823 False 7062.000000 7062 100.000000 1 3824 1 chr1D.!!$F3 3823
1 TraesCS1D01G219500 chr1A 385659959 385662591 2632 False 900.500000 1727 91.751250 1 3079 4 chr1A.!!$F3 3078
2 TraesCS1D01G219500 chr1A 8295776 8297181 1405 False 293.000000 377 79.774000 1431 2814 2 chr1A.!!$F2 1383
3 TraesCS1D01G219500 chr1B 414801764 414808169 6405 False 1327.666667 1677 91.579667 1 3079 3 chr1B.!!$F2 3078
4 TraesCS1D01G219500 chr7D 504418276 504419024 748 True 1323.000000 1323 98.533000 3076 3824 1 chr7D.!!$R3 748
5 TraesCS1D01G219500 chr7D 431610814 431611558 744 True 1304.000000 1304 98.257000 3079 3824 1 chr7D.!!$R2 745
6 TraesCS1D01G219500 chr6D 400834582 400835326 744 True 1321.000000 1321 98.660000 3079 3824 1 chr6D.!!$R2 745
7 TraesCS1D01G219500 chr2D 296805567 296806311 744 False 1321.000000 1321 98.660000 3079 3824 1 chr2D.!!$F2 745
8 TraesCS1D01G219500 chr2D 619224082 619224826 744 True 1321.000000 1321 98.660000 3079 3824 1 chr2D.!!$R2 745
9 TraesCS1D01G219500 chr2D 590004847 590005592 745 True 1317.000000 1317 98.527000 3078 3824 1 chr2D.!!$R1 746
10 TraesCS1D01G219500 chr5D 124818631 124819378 747 False 1315.000000 1315 98.396000 3076 3823 1 chr5D.!!$F1 747
11 TraesCS1D01G219500 chr5D 443054603 443055347 744 True 1315.000000 1315 98.525000 3079 3824 1 chr5D.!!$R1 745
12 TraesCS1D01G219500 chr4D 85160823 85161572 749 False 1315.000000 1315 98.271000 3073 3824 1 chr4D.!!$F1 751

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
119 129 0.108945 GGCTGATCAAGTGCTTTGCC 60.109 55.0 0.00 0.0 36.70 4.52 F
280 293 0.328258 AGTACAACACCATCCAGCCC 59.672 55.0 0.00 0.0 0.00 5.19 F
1199 4730 0.393402 ATCATGCACATGCGTCTGGT 60.393 50.0 5.73 0.0 45.83 4.00 F
1736 5288 0.467290 TGCCACCTCCTGTTTGGTTC 60.467 55.0 0.00 0.0 33.75 3.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1176 4707 0.042708 GACGCATGTGCATGATCGAC 60.043 55.0 15.53 7.42 41.20 4.20 R
1367 4901 0.827507 GTGCACCAAACCATGTCCCT 60.828 55.0 5.22 0.00 0.00 4.20 R
2580 6279 0.772124 TGAAGGCCTCCTTGAAGGGT 60.772 55.0 5.23 0.00 44.82 4.34 R
3655 7354 0.759959 TTGTGGTGTAAAGCTCCGGA 59.240 50.0 2.93 2.93 33.61 5.14 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
87 88 2.281970 CAGTCAAGCTGCCTGCCA 60.282 61.111 0.00 0.00 44.23 4.92
92 93 1.545582 GTCAAGCTGCCTGCCATTTTA 59.454 47.619 0.00 0.00 44.23 1.52
94 95 2.428171 TCAAGCTGCCTGCCATTTTATC 59.572 45.455 0.00 0.00 44.23 1.75
95 96 2.429610 CAAGCTGCCTGCCATTTTATCT 59.570 45.455 0.00 0.00 44.23 1.98
96 97 2.029623 AGCTGCCTGCCATTTTATCTG 58.970 47.619 0.00 0.00 44.23 2.90
119 129 0.108945 GGCTGATCAAGTGCTTTGCC 60.109 55.000 0.00 0.00 36.70 4.52
280 293 0.328258 AGTACAACACCATCCAGCCC 59.672 55.000 0.00 0.00 0.00 5.19
351 368 1.297378 CGCTGCGCTGTTGATCATG 60.297 57.895 9.88 0.00 0.00 3.07
356 373 0.590195 GCGCTGTTGATCATGGATCC 59.410 55.000 4.20 4.20 38.20 3.36
357 374 1.957668 CGCTGTTGATCATGGATCCA 58.042 50.000 18.88 18.88 38.20 3.41
358 375 2.501261 CGCTGTTGATCATGGATCCAT 58.499 47.619 22.15 22.15 38.20 3.41
359 376 2.483106 CGCTGTTGATCATGGATCCATC 59.517 50.000 24.93 15.23 38.20 3.51
392 409 6.955963 CGTCGAAAGGAAAGATGATTTTACAG 59.044 38.462 0.00 0.00 0.00 2.74
424 441 4.634004 CCTGTGCAATCAATTAGGACGTAA 59.366 41.667 0.00 0.00 0.00 3.18
425 442 5.123186 CCTGTGCAATCAATTAGGACGTAAA 59.877 40.000 0.00 0.00 0.00 2.01
426 443 6.183360 CCTGTGCAATCAATTAGGACGTAAAT 60.183 38.462 0.00 0.00 0.00 1.40
427 444 7.011950 CCTGTGCAATCAATTAGGACGTAAATA 59.988 37.037 0.00 0.00 0.00 1.40
428 445 7.915508 TGTGCAATCAATTAGGACGTAAATAG 58.084 34.615 0.00 0.00 0.00 1.73
429 446 7.766738 TGTGCAATCAATTAGGACGTAAATAGA 59.233 33.333 0.00 0.00 0.00 1.98
430 447 8.062448 GTGCAATCAATTAGGACGTAAATAGAC 58.938 37.037 0.00 0.00 0.00 2.59
432 449 7.225931 GCAATCAATTAGGACGTAAATAGACCA 59.774 37.037 0.00 0.00 0.00 4.02
434 451 6.267817 TCAATTAGGACGTAAATAGACCACG 58.732 40.000 0.00 0.00 41.32 4.94
439 456 2.785679 ACGTAAATAGACCACGTACGC 58.214 47.619 16.72 0.00 46.23 4.42
440 457 2.420022 ACGTAAATAGACCACGTACGCT 59.580 45.455 16.72 6.78 46.23 5.07
441 458 3.119849 ACGTAAATAGACCACGTACGCTT 60.120 43.478 16.72 0.00 46.23 4.68
442 459 3.853671 CGTAAATAGACCACGTACGCTTT 59.146 43.478 16.72 0.00 32.18 3.51
443 460 4.324402 CGTAAATAGACCACGTACGCTTTT 59.676 41.667 16.72 9.64 32.18 2.27
444 461 5.511377 CGTAAATAGACCACGTACGCTTTTA 59.489 40.000 16.72 8.83 32.18 1.52
445 462 5.768333 AAATAGACCACGTACGCTTTTAC 57.232 39.130 16.72 2.51 0.00 2.01
446 463 4.708726 ATAGACCACGTACGCTTTTACT 57.291 40.909 16.72 9.93 0.00 2.24
447 464 2.938869 AGACCACGTACGCTTTTACTC 58.061 47.619 16.72 0.57 0.00 2.59
448 465 1.988467 GACCACGTACGCTTTTACTCC 59.012 52.381 16.72 0.00 0.00 3.85
449 466 1.340889 ACCACGTACGCTTTTACTCCA 59.659 47.619 16.72 0.00 0.00 3.86
467 484 1.600663 CCACATCGTACGCTCTCATCC 60.601 57.143 11.24 0.00 0.00 3.51
554 574 9.893634 TTCTTTATAATCTTTAACACGGATGGA 57.106 29.630 0.00 0.00 0.00 3.41
557 577 8.615878 TTATAATCTTTAACACGGATGGATGG 57.384 34.615 0.00 0.00 0.00 3.51
599 619 6.434018 ACCCAAAATGTGATGTTTTGTTTG 57.566 33.333 9.60 0.00 42.25 2.93
679 699 1.144057 CCATTCGTCTCCTTCCCCG 59.856 63.158 0.00 0.00 0.00 5.73
740 760 4.183865 CGTCATCTTGCACTGAGGATTTA 58.816 43.478 6.54 0.00 30.74 1.40
742 762 5.277202 CGTCATCTTGCACTGAGGATTTATG 60.277 44.000 6.54 0.00 30.74 1.90
906 4429 4.627058 TGATCGCATCCGCTCTATAAAAA 58.373 39.130 0.00 0.00 35.30 1.94
907 4430 4.447724 TGATCGCATCCGCTCTATAAAAAC 59.552 41.667 0.00 0.00 35.30 2.43
925 4448 1.215647 CGAGTACCTCCACAGCACC 59.784 63.158 0.00 0.00 0.00 5.01
986 4516 2.046892 CTCGGCCACAGGAACCAG 60.047 66.667 2.24 0.00 0.00 4.00
1077 4607 1.171549 TCTCGCACAGGCATTGCAAA 61.172 50.000 11.39 0.00 40.20 3.68
1079 4609 2.366584 CGCACAGGCATTGCAAACG 61.367 57.895 11.39 0.00 40.20 3.60
1080 4610 1.007502 GCACAGGCATTGCAAACGA 60.008 52.632 11.39 0.00 39.93 3.85
1089 4619 0.743688 ATTGCAAACGACCAGCACAA 59.256 45.000 1.71 0.00 38.11 3.33
1199 4730 0.393402 ATCATGCACATGCGTCTGGT 60.393 50.000 5.73 0.00 45.83 4.00
1270 4803 1.340889 TGTGTCTGCAAATTTCAGGCC 59.659 47.619 15.16 0.00 35.43 5.19
1287 4820 6.036577 TCAGGCCAAATTTCCTAAATTGAC 57.963 37.500 5.01 0.00 40.05 3.18
1367 4901 4.713824 AGAAGATTCGTCAACCGTGATA 57.286 40.909 2.46 0.00 35.80 2.15
1420 4955 1.135199 GTGCAGCCTTGTTCATCCATG 60.135 52.381 0.00 0.00 0.00 3.66
1428 4963 1.062525 GTTCATCCATGCCGCGTTC 59.937 57.895 4.92 0.00 0.00 3.95
1540 5075 0.625849 CCAAGGGTGGGCTACTCATT 59.374 55.000 2.93 0.00 41.77 2.57
1702 5237 2.813908 GCCGGACGCGTCTCAAAT 60.814 61.111 35.50 0.00 0.00 2.32
1736 5288 0.467290 TGCCACCTCCTGTTTGGTTC 60.467 55.000 0.00 0.00 33.75 3.62
1749 5301 5.860716 CCTGTTTGGTTCTAGTAGTACGTTC 59.139 44.000 0.00 0.00 0.00 3.95
1856 5410 3.260483 CAGATGAGCGCTGACGGC 61.260 66.667 18.48 0.00 40.57 5.68
1929 5483 2.902065 TGTCGTCGATGACTTCAGAG 57.098 50.000 31.83 0.00 39.64 3.35
1960 5514 2.963854 CGCCATCGCAGCTGGTAG 60.964 66.667 17.12 3.27 36.10 3.18
2018 5572 6.238703 GCCACTCATGTACTACTACTTACTCC 60.239 46.154 0.00 0.00 0.00 3.85
2021 5575 8.561212 CACTCATGTACTACTACTTACTCCATC 58.439 40.741 0.00 0.00 0.00 3.51
2023 5577 6.709397 TCATGTACTACTACTTACTCCATCCG 59.291 42.308 0.00 0.00 0.00 4.18
2025 5579 6.418101 TGTACTACTACTTACTCCATCCGTT 58.582 40.000 0.00 0.00 0.00 4.44
2026 5580 6.886459 TGTACTACTACTTACTCCATCCGTTT 59.114 38.462 0.00 0.00 0.00 3.60
2029 5583 7.341805 ACTACTACTTACTCCATCCGTTTCTA 58.658 38.462 0.00 0.00 0.00 2.10
2030 5584 7.831193 ACTACTACTTACTCCATCCGTTTCTAA 59.169 37.037 0.00 0.00 0.00 2.10
2032 5586 8.075761 ACTACTTACTCCATCCGTTTCTAAAT 57.924 34.615 0.00 0.00 0.00 1.40
2036 5590 9.901172 ACTTACTCCATCCGTTTCTAAATATTT 57.099 29.630 5.89 5.89 0.00 1.40
2038 5592 9.675464 TTACTCCATCCGTTTCTAAATATTTGT 57.325 29.630 11.05 0.00 0.00 2.83
2039 5593 8.575649 ACTCCATCCGTTTCTAAATATTTGTT 57.424 30.769 11.05 0.00 0.00 2.83
2040 5594 9.020731 ACTCCATCCGTTTCTAAATATTTGTTT 57.979 29.630 11.05 0.00 0.00 2.83
2041 5595 9.855021 CTCCATCCGTTTCTAAATATTTGTTTT 57.145 29.630 11.05 0.00 0.00 2.43
2076 5770 4.476297 TGGACTACCACATACGGATGTAT 58.524 43.478 14.23 7.46 44.82 2.29
2080 5774 7.555195 TGGACTACCACATACGGATGTATATAG 59.445 40.741 14.23 16.35 44.82 1.31
2082 5776 8.503458 ACTACCACATACGGATGTATATAGAC 57.497 38.462 22.62 0.00 44.82 2.59
2116 5810 8.976986 AAGTGTAGATTCATTCATTTTGCTTC 57.023 30.769 0.00 0.00 0.00 3.86
2117 5811 7.246311 AGTGTAGATTCATTCATTTTGCTTCG 58.754 34.615 0.00 0.00 0.00 3.79
2118 5812 7.023575 GTGTAGATTCATTCATTTTGCTTCGT 58.976 34.615 0.00 0.00 0.00 3.85
2119 5813 8.175069 GTGTAGATTCATTCATTTTGCTTCGTA 58.825 33.333 0.00 0.00 0.00 3.43
2120 5814 8.892723 TGTAGATTCATTCATTTTGCTTCGTAT 58.107 29.630 0.00 0.00 0.00 3.06
2121 5815 9.162793 GTAGATTCATTCATTTTGCTTCGTATG 57.837 33.333 0.00 0.00 0.00 2.39
2122 5816 7.765307 AGATTCATTCATTTTGCTTCGTATGT 58.235 30.769 0.00 0.00 0.00 2.29
2123 5817 8.892723 AGATTCATTCATTTTGCTTCGTATGTA 58.107 29.630 0.00 0.00 0.00 2.29
2124 5818 9.162793 GATTCATTCATTTTGCTTCGTATGTAG 57.837 33.333 0.00 0.00 0.00 2.74
2125 5819 7.609760 TCATTCATTTTGCTTCGTATGTAGT 57.390 32.000 0.00 0.00 0.00 2.73
2126 5820 7.684670 TCATTCATTTTGCTTCGTATGTAGTC 58.315 34.615 0.00 0.00 0.00 2.59
2127 5821 7.333174 TCATTCATTTTGCTTCGTATGTAGTCA 59.667 33.333 0.00 0.00 0.00 3.41
2128 5822 6.403333 TCATTTTGCTTCGTATGTAGTCAC 57.597 37.500 0.00 0.00 0.00 3.67
2130 5824 6.649141 TCATTTTGCTTCGTATGTAGTCACTT 59.351 34.615 0.00 0.00 0.00 3.16
2131 5825 5.839262 TTTGCTTCGTATGTAGTCACTTG 57.161 39.130 0.00 0.00 0.00 3.16
2132 5826 4.514781 TGCTTCGTATGTAGTCACTTGT 57.485 40.909 0.00 0.00 0.00 3.16
2133 5827 4.878439 TGCTTCGTATGTAGTCACTTGTT 58.122 39.130 0.00 0.00 0.00 2.83
2134 5828 4.684242 TGCTTCGTATGTAGTCACTTGTTG 59.316 41.667 0.00 0.00 0.00 3.33
2135 5829 4.921515 GCTTCGTATGTAGTCACTTGTTGA 59.078 41.667 0.00 0.00 0.00 3.18
2136 5830 5.404366 GCTTCGTATGTAGTCACTTGTTGAA 59.596 40.000 0.00 0.00 35.39 2.69
2137 5831 6.073980 GCTTCGTATGTAGTCACTTGTTGAAA 60.074 38.462 0.00 0.00 35.39 2.69
2138 5832 7.360101 GCTTCGTATGTAGTCACTTGTTGAAAT 60.360 37.037 0.00 0.00 35.39 2.17
2139 5833 7.576750 TCGTATGTAGTCACTTGTTGAAATC 57.423 36.000 0.00 0.00 35.39 2.17
2140 5834 7.375834 TCGTATGTAGTCACTTGTTGAAATCT 58.624 34.615 0.00 0.00 35.39 2.40
2141 5835 7.541091 TCGTATGTAGTCACTTGTTGAAATCTC 59.459 37.037 0.00 0.00 35.39 2.75
2143 5837 9.856488 GTATGTAGTCACTTGTTGAAATCTCTA 57.144 33.333 0.00 0.00 35.39 2.43
2144 5838 8.994429 ATGTAGTCACTTGTTGAAATCTCTAG 57.006 34.615 0.00 0.00 35.39 2.43
2146 5840 8.638873 TGTAGTCACTTGTTGAAATCTCTAGAA 58.361 33.333 0.00 0.00 35.39 2.10
2147 5841 9.477484 GTAGTCACTTGTTGAAATCTCTAGAAA 57.523 33.333 0.00 0.00 35.39 2.52
2148 5842 8.600449 AGTCACTTGTTGAAATCTCTAGAAAG 57.400 34.615 0.00 0.00 35.39 2.62
2149 5843 8.424918 AGTCACTTGTTGAAATCTCTAGAAAGA 58.575 33.333 0.00 0.00 35.39 2.52
2150 5844 8.491950 GTCACTTGTTGAAATCTCTAGAAAGAC 58.508 37.037 0.00 0.00 35.39 3.01
2153 5847 9.396022 ACTTGTTGAAATCTCTAGAAAGACAAA 57.604 29.630 0.00 0.00 0.00 2.83
2166 5860 9.595823 TCTAGAAAGACAAATATTTAGGAACGG 57.404 33.333 0.00 0.00 0.00 4.44
2167 5861 9.595823 CTAGAAAGACAAATATTTAGGAACGGA 57.404 33.333 0.00 0.00 0.00 4.69
2169 5863 8.893727 AGAAAGACAAATATTTAGGAACGGATG 58.106 33.333 0.00 0.00 0.00 3.51
2170 5864 7.568199 AAGACAAATATTTAGGAACGGATGG 57.432 36.000 0.00 0.00 0.00 3.51
2171 5865 6.895782 AGACAAATATTTAGGAACGGATGGA 58.104 36.000 0.00 0.00 0.00 3.41
2172 5866 6.992715 AGACAAATATTTAGGAACGGATGGAG 59.007 38.462 0.00 0.00 0.00 3.86
2173 5867 6.659824 ACAAATATTTAGGAACGGATGGAGT 58.340 36.000 0.00 0.00 0.00 3.85
2175 5869 7.713942 ACAAATATTTAGGAACGGATGGAGTAC 59.286 37.037 0.00 0.00 0.00 2.73
2176 5870 7.613551 AATATTTAGGAACGGATGGAGTACT 57.386 36.000 0.00 0.00 0.00 2.73
2179 5873 6.855763 TTTAGGAACGGATGGAGTACTAAA 57.144 37.500 0.00 0.00 33.19 1.85
2181 5875 4.351127 AGGAACGGATGGAGTACTAAAGT 58.649 43.478 0.00 0.00 0.00 2.66
2183 5877 5.105432 AGGAACGGATGGAGTACTAAAGTTC 60.105 44.000 0.00 6.49 35.92 3.01
2184 5878 5.337009 GGAACGGATGGAGTACTAAAGTTCA 60.337 44.000 18.75 5.35 37.69 3.18
2201 5898 6.456795 AAGTTCATCGATCATACTCTGTCA 57.543 37.500 0.00 0.00 0.00 3.58
2210 5907 4.350368 TCATACTCTGTCAAAGCAACCA 57.650 40.909 0.00 0.00 0.00 3.67
2214 5911 3.554934 ACTCTGTCAAAGCAACCATTGA 58.445 40.909 0.00 0.00 33.37 2.57
2219 5917 5.945191 TCTGTCAAAGCAACCATTGATGATA 59.055 36.000 0.00 0.00 37.82 2.15
2230 5928 5.134661 ACCATTGATGATATGTGTGCATGA 58.865 37.500 0.00 0.00 36.58 3.07
2307 6006 1.131638 TCCTCAAGGATAGCGCCAAT 58.868 50.000 2.29 0.00 39.78 3.16
2313 6012 1.227556 GGATAGCGCCAATGACCGT 60.228 57.895 2.29 0.00 0.00 4.83
2358 6057 2.511373 AATCGATGCCGCTTCGCA 60.511 55.556 20.59 11.83 44.35 5.10
2418 6117 3.071837 TGCGTGGGCATCCGTCTA 61.072 61.111 0.00 0.00 46.21 2.59
2481 6180 3.394836 GCTCTCGCCCTCCACCTT 61.395 66.667 0.00 0.00 0.00 3.50
2487 6186 1.672356 CGCCCTCCACCTTGTCAAG 60.672 63.158 5.53 5.53 0.00 3.02
2588 6287 2.221299 ACCGCCTGCTACCCTTCAA 61.221 57.895 0.00 0.00 0.00 2.69
2601 6300 1.539157 CCTTCAAGGAGGCCTTCAAC 58.461 55.000 15.31 1.37 42.67 3.18
2622 6321 2.046314 ACCTTCATCGCCAACGGG 60.046 61.111 0.00 0.00 40.63 5.28
2818 6517 2.963101 ACCGATTATCCATTCCTCGACA 59.037 45.455 0.00 0.00 0.00 4.35
3002 6701 8.825667 AAGAGTGACAAGAGAATTAAGACTTC 57.174 34.615 0.00 0.00 0.00 3.01
3007 6706 9.604626 GTGACAAGAGAATTAAGACTTCATTTG 57.395 33.333 0.00 0.00 0.00 2.32
3008 6707 9.342308 TGACAAGAGAATTAAGACTTCATTTGT 57.658 29.630 0.00 8.15 35.75 2.83
3018 6717 4.119862 AGACTTCATTTGTATGCGCGTAT 58.880 39.130 15.52 15.52 0.00 3.06
3052 6751 2.503356 AGAAGGGTGCTCATAGAAGTGG 59.497 50.000 0.00 0.00 0.00 4.00
3061 6760 5.059161 TGCTCATAGAAGTGGCACATAATC 58.941 41.667 21.41 11.95 44.52 1.75
3086 6785 8.912988 TCCATGAGTTAAAACTTGTGAAAGATT 58.087 29.630 0.00 0.00 39.88 2.40
3300 6999 7.093814 ACAAGAAGCAATATGGCTATCACAAAA 60.094 33.333 4.64 0.00 45.07 2.44
3545 7244 2.438411 CCGTACAAATGGCAACCCTTA 58.562 47.619 0.00 0.00 0.00 2.69
3639 7338 3.531538 GCGATCTCCACAACCTAATTGA 58.468 45.455 0.00 0.00 41.23 2.57
3655 7354 2.035237 TTGAAGACCCCGACGCTTGT 62.035 55.000 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
82 83 1.002033 GCCGAGCAGATAAAATGGCAG 60.002 52.381 0.00 0.00 40.66 4.85
87 88 4.077300 TGATCAGCCGAGCAGATAAAAT 57.923 40.909 0.00 0.00 35.03 1.82
92 93 0.829333 ACTTGATCAGCCGAGCAGAT 59.171 50.000 0.00 3.99 39.09 2.90
94 95 1.703438 GCACTTGATCAGCCGAGCAG 61.703 60.000 0.00 0.00 39.09 4.24
95 96 1.742880 GCACTTGATCAGCCGAGCA 60.743 57.895 0.00 0.00 35.25 4.26
96 97 1.023513 AAGCACTTGATCAGCCGAGC 61.024 55.000 0.00 0.00 0.00 5.03
119 129 1.549037 CCGGATCTAGGGGAGGAAGAG 60.549 61.905 0.00 0.00 0.00 2.85
280 293 1.990799 TCTCGTTCATGTTGGCGTAG 58.009 50.000 0.00 0.00 0.00 3.51
351 368 2.035961 TCGACGGAAGAATGATGGATCC 59.964 50.000 4.20 4.20 0.00 3.36
356 373 3.521560 TCCTTTCGACGGAAGAATGATG 58.478 45.455 17.69 0.00 32.80 3.07
357 374 3.887621 TCCTTTCGACGGAAGAATGAT 57.112 42.857 17.69 0.00 32.80 2.45
358 375 3.671008 TTCCTTTCGACGGAAGAATGA 57.329 42.857 17.69 3.41 35.70 2.57
359 376 3.994392 TCTTTCCTTTCGACGGAAGAATG 59.006 43.478 17.69 11.11 41.26 2.67
414 431 5.220586 CGTACGTGGTCTATTTACGTCCTAA 60.221 44.000 7.22 0.00 46.81 2.69
424 441 5.064441 AGTAAAAGCGTACGTGGTCTATT 57.936 39.130 17.90 5.62 0.00 1.73
425 442 4.439289 GGAGTAAAAGCGTACGTGGTCTAT 60.439 45.833 17.90 0.00 0.00 1.98
426 443 3.119849 GGAGTAAAAGCGTACGTGGTCTA 60.120 47.826 17.90 0.00 0.00 2.59
427 444 2.352127 GGAGTAAAAGCGTACGTGGTCT 60.352 50.000 17.90 8.15 0.00 3.85
428 445 1.988467 GGAGTAAAAGCGTACGTGGTC 59.012 52.381 17.90 0.00 0.00 4.02
429 446 1.340889 TGGAGTAAAAGCGTACGTGGT 59.659 47.619 17.90 2.74 0.00 4.16
430 447 1.723003 GTGGAGTAAAAGCGTACGTGG 59.277 52.381 17.90 0.00 0.00 4.94
432 449 2.798976 TGTGGAGTAAAAGCGTACGT 57.201 45.000 17.90 0.00 0.00 3.57
434 451 3.248266 ACGATGTGGAGTAAAAGCGTAC 58.752 45.455 0.00 0.00 0.00 3.67
435 452 3.581024 ACGATGTGGAGTAAAAGCGTA 57.419 42.857 0.00 0.00 0.00 4.42
436 453 2.450609 ACGATGTGGAGTAAAAGCGT 57.549 45.000 0.00 0.00 0.00 5.07
437 454 2.278094 CGTACGATGTGGAGTAAAAGCG 59.722 50.000 10.44 0.00 0.00 4.68
438 455 2.028883 GCGTACGATGTGGAGTAAAAGC 59.971 50.000 21.65 0.00 0.00 3.51
439 456 3.508762 AGCGTACGATGTGGAGTAAAAG 58.491 45.455 21.65 0.00 0.00 2.27
440 457 3.192001 AGAGCGTACGATGTGGAGTAAAA 59.808 43.478 21.65 0.00 0.00 1.52
441 458 2.751259 AGAGCGTACGATGTGGAGTAAA 59.249 45.455 21.65 0.00 0.00 2.01
442 459 2.353889 GAGAGCGTACGATGTGGAGTAA 59.646 50.000 21.65 0.00 0.00 2.24
443 460 1.938577 GAGAGCGTACGATGTGGAGTA 59.061 52.381 21.65 0.00 0.00 2.59
444 461 0.733729 GAGAGCGTACGATGTGGAGT 59.266 55.000 21.65 0.00 0.00 3.85
445 462 0.733150 TGAGAGCGTACGATGTGGAG 59.267 55.000 21.65 0.00 0.00 3.86
446 463 1.333931 GATGAGAGCGTACGATGTGGA 59.666 52.381 21.65 0.00 0.00 4.02
447 464 1.600663 GGATGAGAGCGTACGATGTGG 60.601 57.143 21.65 0.00 0.00 4.17
448 465 1.065551 TGGATGAGAGCGTACGATGTG 59.934 52.381 21.65 0.00 0.00 3.21
449 466 1.335182 CTGGATGAGAGCGTACGATGT 59.665 52.381 21.65 12.30 0.00 3.06
467 484 7.385205 ACAGTAGTACTTCTTTACATGTTGCTG 59.615 37.037 2.30 3.53 0.00 4.41
503 523 3.371487 CCATCACAATTAGGGCAGGTGTA 60.371 47.826 0.00 0.00 0.00 2.90
539 559 4.766375 ACTACCATCCATCCGTGTTAAAG 58.234 43.478 0.00 0.00 0.00 1.85
546 566 6.667848 TCATCATATAACTACCATCCATCCGT 59.332 38.462 0.00 0.00 0.00 4.69
554 574 7.737607 TGGGTTAGGTCATCATATAACTACCAT 59.262 37.037 0.00 0.00 0.00 3.55
555 575 7.077095 TGGGTTAGGTCATCATATAACTACCA 58.923 38.462 0.00 0.00 0.00 3.25
556 576 7.549147 TGGGTTAGGTCATCATATAACTACC 57.451 40.000 0.00 0.00 0.00 3.18
557 577 9.841295 TTTTGGGTTAGGTCATCATATAACTAC 57.159 33.333 0.00 0.00 0.00 2.73
599 619 1.012086 GTCCGGGCGGAGAAAATTAC 58.988 55.000 0.00 0.00 46.16 1.89
679 699 1.522580 GCAGGAGAGCCGGATTCAC 60.523 63.158 5.05 0.00 39.96 3.18
740 760 3.864921 GCACTTTGTCTCGTCCCTTACAT 60.865 47.826 0.00 0.00 0.00 2.29
742 762 2.067013 GCACTTTGTCTCGTCCCTTAC 58.933 52.381 0.00 0.00 0.00 2.34
925 4448 0.037232 GGTTTCGAGTGAGTGAGGGG 60.037 60.000 0.00 0.00 0.00 4.79
986 4516 3.942351 TCCATGGATCGATGGATGC 57.058 52.632 29.58 2.14 45.85 3.91
1029 4559 3.803082 CCCATCTTGTGCGGCGTG 61.803 66.667 9.37 0.00 0.00 5.34
1077 4607 1.909700 ATGGAAATTGTGCTGGTCGT 58.090 45.000 0.00 0.00 0.00 4.34
1079 4609 3.940209 TGAATGGAAATTGTGCTGGTC 57.060 42.857 0.00 0.00 0.00 4.02
1080 4610 3.618019 GCATGAATGGAAATTGTGCTGGT 60.618 43.478 0.00 0.00 0.00 4.00
1089 4619 3.254166 GCTACGATGGCATGAATGGAAAT 59.746 43.478 3.81 0.00 0.00 2.17
1176 4707 0.042708 GACGCATGTGCATGATCGAC 60.043 55.000 15.53 7.42 41.20 4.20
1297 4830 6.227298 TCAGGCAGATTTGGTAAAACAAAA 57.773 33.333 0.00 0.00 42.91 2.44
1298 4831 5.860941 TCAGGCAGATTTGGTAAAACAAA 57.139 34.783 0.00 0.00 43.69 2.83
1305 4838 9.639563 TCAATATTATTTCAGGCAGATTTGGTA 57.360 29.630 0.00 0.00 0.00 3.25
1360 4894 2.288666 CAAACCATGTCCCTATCACGG 58.711 52.381 0.00 0.00 0.00 4.94
1362 4896 3.016736 CACCAAACCATGTCCCTATCAC 58.983 50.000 0.00 0.00 0.00 3.06
1367 4901 0.827507 GTGCACCAAACCATGTCCCT 60.828 55.000 5.22 0.00 0.00 4.20
1428 4963 3.663176 CCAGCACAACCCTGCACG 61.663 66.667 0.00 0.00 39.86 5.34
1534 5069 2.125512 GTCGCCTCCGCAATGAGT 60.126 61.111 0.00 0.00 34.03 3.41
1702 5237 3.838317 AGGTGGCAGAGTCATTACTGTAA 59.162 43.478 2.26 2.26 35.56 2.41
1778 5330 2.238646 CCCATTGGGCTGTAACTCTACA 59.761 50.000 9.28 0.00 35.35 2.74
1779 5331 2.919228 CCCATTGGGCTGTAACTCTAC 58.081 52.381 9.28 0.00 35.35 2.59
1983 5537 4.647853 AGTACATGAGTGGCCGATAAAGTA 59.352 41.667 0.00 0.00 0.00 2.24
1989 5543 2.667470 AGTAGTACATGAGTGGCCGAT 58.333 47.619 0.00 0.00 0.00 4.18
1991 5545 2.950309 AGTAGTAGTACATGAGTGGCCG 59.050 50.000 10.33 0.00 0.00 6.13
2039 5593 9.137459 TGTGGTAGTCCATTTGAAATCTAAAAA 57.863 29.630 0.00 0.00 46.20 1.94
2040 5594 8.698973 TGTGGTAGTCCATTTGAAATCTAAAA 57.301 30.769 0.00 0.00 46.20 1.52
2041 5595 8.877864 ATGTGGTAGTCCATTTGAAATCTAAA 57.122 30.769 0.00 0.00 46.20 1.85
2042 5596 9.391006 GTATGTGGTAGTCCATTTGAAATCTAA 57.609 33.333 0.00 0.00 46.20 2.10
2043 5597 7.709182 CGTATGTGGTAGTCCATTTGAAATCTA 59.291 37.037 0.00 0.00 46.20 1.98
2045 5599 6.238374 CCGTATGTGGTAGTCCATTTGAAATC 60.238 42.308 0.00 0.00 46.20 2.17
2047 5601 4.938832 CCGTATGTGGTAGTCCATTTGAAA 59.061 41.667 0.00 0.00 46.20 2.69
2048 5602 4.223255 TCCGTATGTGGTAGTCCATTTGAA 59.777 41.667 0.00 0.00 46.20 2.69
2049 5603 3.770388 TCCGTATGTGGTAGTCCATTTGA 59.230 43.478 0.00 0.00 46.20 2.69
2050 5604 4.131649 TCCGTATGTGGTAGTCCATTTG 57.868 45.455 0.00 0.00 46.20 2.32
2051 5605 4.163458 ACATCCGTATGTGGTAGTCCATTT 59.837 41.667 0.00 0.00 44.79 2.32
2053 5607 3.305720 ACATCCGTATGTGGTAGTCCAT 58.694 45.455 0.00 0.00 44.79 3.41
2054 5608 2.742348 ACATCCGTATGTGGTAGTCCA 58.258 47.619 0.00 0.00 44.79 4.02
2055 5609 6.770746 ATATACATCCGTATGTGGTAGTCC 57.229 41.667 3.56 0.00 45.99 3.85
2056 5610 8.610896 GTCTATATACATCCGTATGTGGTAGTC 58.389 40.741 3.56 0.00 45.99 2.59
2057 5611 8.105197 TGTCTATATACATCCGTATGTGGTAGT 58.895 37.037 3.56 0.00 45.99 2.73
2058 5612 8.502105 TGTCTATATACATCCGTATGTGGTAG 57.498 38.462 3.56 3.93 45.99 3.18
2060 5614 7.956328 ATGTCTATATACATCCGTATGTGGT 57.044 36.000 3.56 0.00 45.99 4.16
2091 5785 7.752239 CGAAGCAAAATGAATGAATCTACACTT 59.248 33.333 0.00 0.00 0.00 3.16
2093 5787 7.023575 ACGAAGCAAAATGAATGAATCTACAC 58.976 34.615 0.00 0.00 0.00 2.90
2097 5791 7.765307 ACATACGAAGCAAAATGAATGAATCT 58.235 30.769 0.00 0.00 0.00 2.40
2098 5792 7.975866 ACATACGAAGCAAAATGAATGAATC 57.024 32.000 0.00 0.00 0.00 2.52
2100 5794 8.039603 ACTACATACGAAGCAAAATGAATGAA 57.960 30.769 0.00 0.00 0.00 2.57
2101 5795 7.333174 TGACTACATACGAAGCAAAATGAATGA 59.667 33.333 0.00 0.00 0.00 2.57
2102 5796 7.426456 GTGACTACATACGAAGCAAAATGAATG 59.574 37.037 0.00 0.00 0.00 2.67
2103 5797 7.334421 AGTGACTACATACGAAGCAAAATGAAT 59.666 33.333 0.00 0.00 0.00 2.57
2106 5800 6.408858 AGTGACTACATACGAAGCAAAATG 57.591 37.500 0.00 0.00 0.00 2.32
2107 5801 6.426937 ACAAGTGACTACATACGAAGCAAAAT 59.573 34.615 0.00 0.00 0.00 1.82
2108 5802 5.756347 ACAAGTGACTACATACGAAGCAAAA 59.244 36.000 0.00 0.00 0.00 2.44
2110 5804 4.878439 ACAAGTGACTACATACGAAGCAA 58.122 39.130 0.00 0.00 0.00 3.91
2112 5806 4.921515 TCAACAAGTGACTACATACGAAGC 59.078 41.667 0.00 0.00 0.00 3.86
2113 5807 7.402811 TTTCAACAAGTGACTACATACGAAG 57.597 36.000 0.00 0.00 35.39 3.79
2114 5808 7.870954 AGATTTCAACAAGTGACTACATACGAA 59.129 33.333 0.00 0.00 35.39 3.85
2115 5809 7.375834 AGATTTCAACAAGTGACTACATACGA 58.624 34.615 0.00 0.00 35.39 3.43
2116 5810 7.542477 AGAGATTTCAACAAGTGACTACATACG 59.458 37.037 0.00 0.00 35.39 3.06
2117 5811 8.764524 AGAGATTTCAACAAGTGACTACATAC 57.235 34.615 0.00 0.00 35.39 2.39
2119 5813 8.807118 TCTAGAGATTTCAACAAGTGACTACAT 58.193 33.333 0.00 0.00 35.39 2.29
2120 5814 8.178313 TCTAGAGATTTCAACAAGTGACTACA 57.822 34.615 0.00 0.00 35.39 2.74
2121 5815 9.477484 TTTCTAGAGATTTCAACAAGTGACTAC 57.523 33.333 0.00 0.00 35.39 2.73
2122 5816 9.698309 CTTTCTAGAGATTTCAACAAGTGACTA 57.302 33.333 0.00 0.00 35.39 2.59
2123 5817 8.424918 TCTTTCTAGAGATTTCAACAAGTGACT 58.575 33.333 0.00 0.00 35.39 3.41
2124 5818 8.491950 GTCTTTCTAGAGATTTCAACAAGTGAC 58.508 37.037 0.00 0.00 35.39 3.67
2125 5819 8.204160 TGTCTTTCTAGAGATTTCAACAAGTGA 58.796 33.333 0.00 0.00 0.00 3.41
2126 5820 8.370493 TGTCTTTCTAGAGATTTCAACAAGTG 57.630 34.615 0.00 0.00 0.00 3.16
2127 5821 8.964476 TTGTCTTTCTAGAGATTTCAACAAGT 57.036 30.769 0.00 0.00 0.00 3.16
2140 5834 9.595823 CCGTTCCTAAATATTTGTCTTTCTAGA 57.404 33.333 11.05 0.00 0.00 2.43
2141 5835 9.595823 TCCGTTCCTAAATATTTGTCTTTCTAG 57.404 33.333 11.05 0.00 0.00 2.43
2143 5837 8.893727 CATCCGTTCCTAAATATTTGTCTTTCT 58.106 33.333 11.05 0.00 0.00 2.52
2144 5838 8.129211 CCATCCGTTCCTAAATATTTGTCTTTC 58.871 37.037 11.05 0.00 0.00 2.62
2146 5840 7.343357 TCCATCCGTTCCTAAATATTTGTCTT 58.657 34.615 11.05 0.00 0.00 3.01
2147 5841 6.895782 TCCATCCGTTCCTAAATATTTGTCT 58.104 36.000 11.05 0.00 0.00 3.41
2148 5842 6.766467 ACTCCATCCGTTCCTAAATATTTGTC 59.234 38.462 11.05 0.00 0.00 3.18
2149 5843 6.659824 ACTCCATCCGTTCCTAAATATTTGT 58.340 36.000 11.05 0.00 0.00 2.83
2150 5844 7.931948 AGTACTCCATCCGTTCCTAAATATTTG 59.068 37.037 11.05 1.40 0.00 2.32
2153 5847 8.716674 TTAGTACTCCATCCGTTCCTAAATAT 57.283 34.615 0.00 0.00 0.00 1.28
2154 5848 8.537728 TTTAGTACTCCATCCGTTCCTAAATA 57.462 34.615 0.00 0.00 0.00 1.40
2155 5849 7.125356 ACTTTAGTACTCCATCCGTTCCTAAAT 59.875 37.037 0.00 0.00 0.00 1.40
2157 5851 5.954150 ACTTTAGTACTCCATCCGTTCCTAA 59.046 40.000 0.00 0.00 0.00 2.69
2158 5852 5.513233 ACTTTAGTACTCCATCCGTTCCTA 58.487 41.667 0.00 0.00 0.00 2.94
2159 5853 4.351127 ACTTTAGTACTCCATCCGTTCCT 58.649 43.478 0.00 0.00 0.00 3.36
2160 5854 4.732672 ACTTTAGTACTCCATCCGTTCC 57.267 45.455 0.00 0.00 0.00 3.62
2161 5855 5.717119 TGAACTTTAGTACTCCATCCGTTC 58.283 41.667 0.00 6.12 0.00 3.95
2162 5856 5.733620 TGAACTTTAGTACTCCATCCGTT 57.266 39.130 0.00 0.00 0.00 4.44
2164 5858 4.976731 CGATGAACTTTAGTACTCCATCCG 59.023 45.833 0.00 0.00 0.00 4.18
2165 5859 6.145338 TCGATGAACTTTAGTACTCCATCC 57.855 41.667 0.00 0.00 0.00 3.51
2166 5860 7.426410 TGATCGATGAACTTTAGTACTCCATC 58.574 38.462 0.54 3.85 0.00 3.51
2167 5861 7.348080 TGATCGATGAACTTTAGTACTCCAT 57.652 36.000 0.54 0.00 0.00 3.41
2168 5862 6.769134 TGATCGATGAACTTTAGTACTCCA 57.231 37.500 0.54 0.00 0.00 3.86
2169 5863 8.569641 AGTATGATCGATGAACTTTAGTACTCC 58.430 37.037 0.54 0.00 0.00 3.85
2170 5864 9.601971 GAGTATGATCGATGAACTTTAGTACTC 57.398 37.037 0.54 3.24 0.00 2.59
2171 5865 9.344772 AGAGTATGATCGATGAACTTTAGTACT 57.655 33.333 0.54 0.00 0.00 2.73
2172 5866 9.388346 CAGAGTATGATCGATGAACTTTAGTAC 57.612 37.037 0.54 0.00 0.00 2.73
2173 5867 9.121658 ACAGAGTATGATCGATGAACTTTAGTA 57.878 33.333 0.54 0.00 0.00 1.82
2175 5869 8.131731 TGACAGAGTATGATCGATGAACTTTAG 58.868 37.037 0.54 0.86 0.00 1.85
2176 5870 7.996385 TGACAGAGTATGATCGATGAACTTTA 58.004 34.615 0.54 0.00 0.00 1.85
2179 5873 6.456795 TTGACAGAGTATGATCGATGAACT 57.543 37.500 0.54 2.84 0.00 3.01
2181 5875 5.750547 GCTTTGACAGAGTATGATCGATGAA 59.249 40.000 0.54 0.00 0.00 2.57
2183 5877 5.045872 TGCTTTGACAGAGTATGATCGATG 58.954 41.667 0.54 0.00 0.00 3.84
2184 5878 5.268118 TGCTTTGACAGAGTATGATCGAT 57.732 39.130 0.00 0.00 0.00 3.59
2201 5898 6.334989 CACACATATCATCAATGGTTGCTTT 58.665 36.000 0.00 0.00 0.00 3.51
2210 5907 7.284919 ACATTCATGCACACATATCATCAAT 57.715 32.000 0.00 0.00 33.67 2.57
2214 5911 5.708697 CCCTACATTCATGCACACATATCAT 59.291 40.000 0.00 0.00 33.67 2.45
2219 5917 3.370840 ACCCTACATTCATGCACACAT 57.629 42.857 0.00 0.00 36.79 3.21
2230 5928 0.971386 ACACCGTCGAACCCTACATT 59.029 50.000 0.00 0.00 0.00 2.71
2328 6027 2.656651 CGATTCTCGAGGCTGCCG 60.657 66.667 13.96 2.08 43.74 5.69
2358 6057 1.982938 GGCGTCCACCACCTCTAGT 60.983 63.158 0.00 0.00 0.00 2.57
2418 6117 3.708631 CCATGTAGTCAGTGAAGGGAGAT 59.291 47.826 0.00 0.00 0.00 2.75
2481 6180 5.181009 CCATAGTCATTGAGCTTCTTGACA 58.819 41.667 19.59 10.35 40.69 3.58
2487 6186 3.501445 GGATGCCATAGTCATTGAGCTTC 59.499 47.826 0.00 0.00 0.00 3.86
2580 6279 0.772124 TGAAGGCCTCCTTGAAGGGT 60.772 55.000 5.23 0.00 44.82 4.34
2622 6321 3.963124 TTCCTCCCGGTCGTACCCC 62.963 68.421 0.00 0.00 33.75 4.95
2818 6517 5.173664 GCTTTGCAGGAAGCTGATTTATTT 58.826 37.500 14.55 0.00 46.55 1.40
2869 6568 9.823647 ACAGTAGATAATTGATGTCGATCTTTT 57.176 29.630 0.00 0.00 0.00 2.27
3002 6701 6.495110 AAATGAAATACGCGCATACAAATG 57.505 33.333 5.73 0.00 36.09 2.32
3007 6706 2.645647 GCGAAATGAAATACGCGCATAC 59.354 45.455 5.73 0.00 40.82 2.39
3008 6707 2.898746 GCGAAATGAAATACGCGCATA 58.101 42.857 5.73 0.00 40.82 3.14
3018 6717 2.813754 CACCCTTCTCAGCGAAATGAAA 59.186 45.455 0.00 0.00 0.00 2.69
3052 6751 8.028938 ACAAGTTTTAACTCATGGATTATGTGC 58.971 33.333 0.00 0.00 38.57 4.57
3061 6760 8.971321 CAATCTTTCACAAGTTTTAACTCATGG 58.029 33.333 0.00 0.00 38.57 3.66
3086 6785 1.043116 CCCTCTAGGCGACATCCACA 61.043 60.000 0.00 0.00 0.00 4.17
3300 6999 6.480320 CCGAGCTCTTTACTTATGCACTTTAT 59.520 38.462 12.85 0.00 0.00 1.40
3365 7064 1.157870 CGCAAGGGTGTGAACTTCGT 61.158 55.000 0.00 0.00 37.45 3.85
3639 7338 2.342648 GACAAGCGTCGGGGTCTT 59.657 61.111 0.00 0.00 31.07 3.01
3655 7354 0.759959 TTGTGGTGTAAAGCTCCGGA 59.240 50.000 2.93 2.93 33.61 5.14


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

AutoCloner maintained by Alex Coulton.