Multiple sequence alignment - TraesCS4A01G064900

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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 TraesCS4A01G064900 chr4A 100.000 5326 0 0 1 5326 62223760 62218435 0.000000e+00 9836.0
1 TraesCS4A01G064900 chr4D 92.808 4658 194 60 1 4624 404441601 404437051 0.000000e+00 6615.0
2 TraesCS4A01G064900 chr4D 87.774 638 59 17 4696 5326 404436193 404435568 0.000000e+00 728.0
3 TraesCS4A01G064900 chr4B 91.321 4632 231 70 1 4535 501359035 501354478 0.000000e+00 6168.0
4 TraesCS4A01G064900 chr1A 90.596 319 14 7 1559 1861 575567578 575567896 4.970000e-110 409.0
5 TraesCS4A01G064900 chr1A 89.324 281 18 4 1232 1500 575567213 575567493 5.110000e-90 342.0
6 TraesCS4A01G064900 chr5A 82.796 93 12 4 4672 4763 594349448 594349359 4.420000e-11 80.5
7 TraesCS4A01G064900 chr6A 92.857 42 3 0 4679 4720 571167346 571167387 1.600000e-05 62.1


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 TraesCS4A01G064900 chr4A 62218435 62223760 5325 True 9836.0 9836 100.000 1 5326 1 chr4A.!!$R1 5325
1 TraesCS4A01G064900 chr4D 404435568 404441601 6033 True 3671.5 6615 90.291 1 5326 2 chr4D.!!$R1 5325
2 TraesCS4A01G064900 chr4B 501354478 501359035 4557 True 6168.0 6168 91.321 1 4535 1 chr4B.!!$R1 4534
3 TraesCS4A01G064900 chr1A 575567213 575567896 683 False 375.5 409 89.960 1232 1861 2 chr1A.!!$F1 629

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
223 225 0.233848 CGTTTCTTTCCCGTTGTCCG 59.766 55.0 0.00 0.00 0.00 4.79 F
896 902 0.393132 CCTTTTCCTTCTCCCGAGCC 60.393 60.0 0.00 0.00 0.00 4.70 F
1535 1619 0.042731 TGGGATTCCCTTCTCTCGGT 59.957 55.0 22.38 0.00 45.70 4.69 F
1879 2012 0.527817 CTCGTACGAAGGCCCATGTC 60.528 60.0 20.00 0.00 0.00 3.06 F
3707 3891 0.605860 AGCTGTACGACGAGGACACT 60.606 55.0 0.00 1.17 39.16 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1536 1620 0.328258 GGCCTGTAAAAGCCCAGAGA 59.672 55.000 0.00 0.0 43.76 3.10 R
1975 2116 1.067846 CCCGGCTTAAGAAAACCTTGC 60.068 52.381 6.67 0.0 36.34 4.01 R
3431 3615 0.032815 TGTAGTGCAGCAGCGTGTTA 59.967 50.000 0.00 0.0 46.23 2.41 R
3812 3996 2.079158 CAGTAGGTCTGGTTCGTCGTA 58.921 52.381 0.00 0.0 40.23 3.43 R
4608 4805 0.040646 ATGACGGGTGGAGGAGTACA 59.959 55.000 0.00 0.0 0.00 2.90 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
73 74 1.230819 AGACCTCCTCTCCTCCCCT 60.231 63.158 0.00 0.00 0.00 4.79
74 75 0.858139 AGACCTCCTCTCCTCCCCTT 60.858 60.000 0.00 0.00 0.00 3.95
223 225 0.233848 CGTTTCTTTCCCGTTGTCCG 59.766 55.000 0.00 0.00 0.00 4.79
232 234 3.777925 CGTTGTCCGAAGCAGGCG 61.778 66.667 0.00 0.00 39.56 5.52
243 245 4.552365 GCAGGCGGGATGCTGCTA 62.552 66.667 18.22 0.00 45.43 3.49
244 246 2.590007 CAGGCGGGATGCTGCTAC 60.590 66.667 18.22 1.87 45.43 3.58
245 247 4.227134 AGGCGGGATGCTGCTACG 62.227 66.667 18.22 0.00 45.43 3.51
283 285 0.597118 GCAGAGATGGACGCTAGCAG 60.597 60.000 16.45 10.16 0.00 4.24
284 286 0.597118 CAGAGATGGACGCTAGCAGC 60.597 60.000 16.45 5.35 38.02 5.25
285 287 1.039785 AGAGATGGACGCTAGCAGCA 61.040 55.000 16.45 2.83 42.58 4.41
362 365 4.162690 AAGGGTCAGCGCCGGATC 62.163 66.667 5.05 1.79 0.00 3.36
461 464 2.475466 CCATGTGATCCGTGCTGCC 61.475 63.158 0.00 0.00 0.00 4.85
462 465 2.512286 ATGTGATCCGTGCTGCCG 60.512 61.111 0.00 0.00 0.00 5.69
622 626 4.431131 CCCATTGGGCTGCGTCCT 62.431 66.667 9.28 0.00 35.35 3.85
651 655 1.344438 CACAAAAGCCCCTCCTTTTCC 59.656 52.381 0.00 0.00 41.67 3.13
727 731 1.077334 TCTTCTTCCTCTCGACCCCTT 59.923 52.381 0.00 0.00 0.00 3.95
760 765 3.909995 TCTCATCCCCTTTCACTTCTTCA 59.090 43.478 0.00 0.00 0.00 3.02
788 793 4.637977 CCTCTTCCTATCAAGTTGCCTTTC 59.362 45.833 0.00 0.00 0.00 2.62
789 794 5.241403 TCTTCCTATCAAGTTGCCTTTCA 57.759 39.130 0.00 0.00 0.00 2.69
811 816 3.810386 ACTTCTTCGGTTTGCTCTTCTTC 59.190 43.478 0.00 0.00 0.00 2.87
883 888 5.452216 GGAGTAGCTAGCTAGGTTCCTTTTC 60.452 48.000 28.98 16.64 35.39 2.29
888 894 4.080807 GCTAGCTAGGTTCCTTTTCCTTCT 60.081 45.833 22.10 0.00 35.51 2.85
896 902 0.393132 CCTTTTCCTTCTCCCGAGCC 60.393 60.000 0.00 0.00 0.00 4.70
926 932 2.734276 AAACAGAGCGGAGAAGAGAC 57.266 50.000 0.00 0.00 0.00 3.36
928 934 0.885196 ACAGAGCGGAGAAGAGACAC 59.115 55.000 0.00 0.00 0.00 3.67
929 935 0.884514 CAGAGCGGAGAAGAGACACA 59.115 55.000 0.00 0.00 0.00 3.72
938 944 1.341531 AGAAGAGACACACAGGAACCG 59.658 52.381 0.00 0.00 0.00 4.44
961 967 1.406477 GGTTGACCGGGCTAAAGTAGG 60.406 57.143 9.82 0.00 0.00 3.18
1100 1121 5.407407 TCTTCGCTTCTTTCTATTCCTGT 57.593 39.130 0.00 0.00 0.00 4.00
1101 1122 6.525578 TCTTCGCTTCTTTCTATTCCTGTA 57.474 37.500 0.00 0.00 0.00 2.74
1102 1123 7.113658 TCTTCGCTTCTTTCTATTCCTGTAT 57.886 36.000 0.00 0.00 0.00 2.29
1103 1124 8.234136 TCTTCGCTTCTTTCTATTCCTGTATA 57.766 34.615 0.00 0.00 0.00 1.47
1104 1125 8.136165 TCTTCGCTTCTTTCTATTCCTGTATAC 58.864 37.037 0.00 0.00 0.00 1.47
1105 1126 7.584122 TCGCTTCTTTCTATTCCTGTATACT 57.416 36.000 4.17 0.00 0.00 2.12
1106 1127 7.649973 TCGCTTCTTTCTATTCCTGTATACTC 58.350 38.462 4.17 0.00 0.00 2.59
1107 1128 7.284716 TCGCTTCTTTCTATTCCTGTATACTCA 59.715 37.037 4.17 0.00 0.00 3.41
1108 1129 8.085296 CGCTTCTTTCTATTCCTGTATACTCAT 58.915 37.037 4.17 0.00 0.00 2.90
1109 1130 9.202273 GCTTCTTTCTATTCCTGTATACTCATG 57.798 37.037 4.17 0.00 0.00 3.07
1112 1133 8.568794 TCTTTCTATTCCTGTATACTCATGTCG 58.431 37.037 4.17 0.00 0.00 4.35
1113 1134 6.819397 TCTATTCCTGTATACTCATGTCGG 57.181 41.667 4.17 0.00 0.00 4.79
1126 1147 3.006940 TCATGTCGGGCATTTCTTGTAC 58.993 45.455 0.00 0.00 35.19 2.90
1213 1236 2.294512 GCAGTTTTGCTTCTTACCAGCT 59.705 45.455 0.00 0.00 46.95 4.24
1234 1257 3.199880 AGGCTGGATTTCTACCATTCG 57.800 47.619 0.00 0.00 36.79 3.34
1242 1265 4.508124 GGATTTCTACCATTCGTACAGCAG 59.492 45.833 0.00 0.00 0.00 4.24
1310 1335 5.007682 CCGTCCCTTTCTCTTGGATTTTTA 58.992 41.667 0.00 0.00 0.00 1.52
1434 1464 6.992063 ACATTTGAGTAATTGCTAGGAGTG 57.008 37.500 0.00 0.00 0.00 3.51
1444 1474 2.329267 TGCTAGGAGTGGTATGGGATG 58.671 52.381 0.00 0.00 0.00 3.51
1447 1482 0.691078 AGGAGTGGTATGGGATGCGT 60.691 55.000 0.00 0.00 0.00 5.24
1477 1512 3.844640 AGCAGTATCTTTTGGGGTTTGT 58.155 40.909 0.00 0.00 0.00 2.83
1532 1616 1.135960 CCCTGGGATTCCCTTCTCTC 58.864 60.000 22.38 0.00 45.70 3.20
1535 1619 0.042731 TGGGATTCCCTTCTCTCGGT 59.957 55.000 22.38 0.00 45.70 4.69
1536 1620 1.205055 GGGATTCCCTTCTCTCGGTT 58.795 55.000 14.98 0.00 41.34 4.44
1537 1621 1.139256 GGGATTCCCTTCTCTCGGTTC 59.861 57.143 14.98 0.00 41.34 3.62
1538 1622 2.112190 GGATTCCCTTCTCTCGGTTCT 58.888 52.381 0.00 0.00 0.00 3.01
1539 1623 2.101750 GGATTCCCTTCTCTCGGTTCTC 59.898 54.545 0.00 0.00 0.00 2.87
1540 1624 2.606751 TTCCCTTCTCTCGGTTCTCT 57.393 50.000 0.00 0.00 0.00 3.10
1541 1625 1.840737 TCCCTTCTCTCGGTTCTCTG 58.159 55.000 0.00 0.00 0.00 3.35
1542 1626 0.820871 CCCTTCTCTCGGTTCTCTGG 59.179 60.000 0.00 0.00 0.00 3.86
1543 1627 0.820871 CCTTCTCTCGGTTCTCTGGG 59.179 60.000 0.00 0.00 0.00 4.45
1549 1633 2.233922 CTCTCGGTTCTCTGGGCTTTTA 59.766 50.000 0.00 0.00 0.00 1.52
1577 1665 3.381272 CGTGTATTCCTTGCCCATTTCAT 59.619 43.478 0.00 0.00 0.00 2.57
1583 1671 1.208535 CCTTGCCCATTTCATGTGCAT 59.791 47.619 0.00 0.00 42.99 3.96
1701 1819 2.639839 TGGAGCTAGGGCAAGGAATATC 59.360 50.000 0.00 0.00 41.70 1.63
1797 1927 1.155155 AAGAACCAACCCCGGCATT 59.845 52.632 0.00 0.00 0.00 3.56
1879 2012 0.527817 CTCGTACGAAGGCCCATGTC 60.528 60.000 20.00 0.00 0.00 3.06
1971 2112 1.894756 GTGCTGCAACACCGGGTTA 60.895 57.895 9.14 0.00 37.72 2.85
1972 2113 1.894756 TGCTGCAACACCGGGTTAC 60.895 57.895 6.32 2.62 37.72 2.50
1988 2129 4.146564 GGGTTACTGGCAAGGTTTTCTTA 58.853 43.478 0.00 0.00 33.68 2.10
1992 2133 2.628178 ACTGGCAAGGTTTTCTTAAGCC 59.372 45.455 0.00 0.00 42.00 4.35
1996 2137 1.067846 CAAGGTTTTCTTAAGCCGGGC 60.068 52.381 12.11 12.11 39.43 6.13
1997 2138 0.958876 AGGTTTTCTTAAGCCGGGCG 60.959 55.000 14.39 0.00 39.43 6.13
2039 2180 2.275318 GTGGTCAAGCAGTAGCATCTC 58.725 52.381 0.00 0.00 45.49 2.75
2118 2279 4.866921 TCGGTAATTATGTCACGGATCAG 58.133 43.478 0.00 0.00 0.00 2.90
2119 2280 3.987868 CGGTAATTATGTCACGGATCAGG 59.012 47.826 0.00 0.00 0.00 3.86
2120 2281 4.261867 CGGTAATTATGTCACGGATCAGGA 60.262 45.833 0.00 0.00 0.00 3.86
2121 2282 5.566826 CGGTAATTATGTCACGGATCAGGAT 60.567 44.000 0.00 0.00 0.00 3.24
2122 2283 5.869888 GGTAATTATGTCACGGATCAGGATC 59.130 44.000 0.55 0.55 37.11 3.36
2123 2284 5.551305 AATTATGTCACGGATCAGGATCA 57.449 39.130 11.12 0.00 39.54 2.92
2133 2294 2.344950 GATCAGGATCACATGCCGATC 58.655 52.381 14.52 14.52 38.86 3.69
2250 2413 1.668419 GGACCACATGGCAGTGTATC 58.332 55.000 13.48 10.85 37.82 2.24
2331 2502 1.340017 GGGACATGCTTGCCTTGTCTA 60.340 52.381 18.45 0.00 44.06 2.59
2368 2544 4.927782 TGCAGTGCACCCACGGAC 62.928 66.667 15.37 0.00 46.62 4.79
2369 2545 4.626081 GCAGTGCACCCACGGACT 62.626 66.667 14.63 0.00 46.62 3.85
2370 2546 2.357517 CAGTGCACCCACGGACTC 60.358 66.667 14.63 0.00 46.62 3.36
2376 2552 4.680537 ACCCACGGACTCGAGCCT 62.681 66.667 13.61 0.00 40.11 4.58
2494 2670 1.412793 CCCAAATGTCCCATGCCCATA 60.413 52.381 0.00 0.00 0.00 2.74
2496 2672 2.564062 CCAAATGTCCCATGCCCATATC 59.436 50.000 0.00 0.00 0.00 1.63
2568 2744 6.937465 ACATTCCTCTCTTCTCTTTTTGTACC 59.063 38.462 0.00 0.00 0.00 3.34
2574 2750 6.884832 TCTCTTCTCTTTTTGTACCTGTCAA 58.115 36.000 0.00 0.00 0.00 3.18
2616 2792 4.058124 TGATACTTTAGCATCGGCATCAC 58.942 43.478 0.00 0.00 44.61 3.06
2631 2813 2.535984 GCATCACGCATGTCTGTACTAC 59.464 50.000 0.00 0.00 41.79 2.73
2677 2859 6.041423 TCTATGATGCACTTTGTTCTCTCA 57.959 37.500 0.00 0.00 0.00 3.27
2689 2871 8.336080 CACTTTGTTCTCTCACCTAAACTAAAC 58.664 37.037 0.00 0.00 0.00 2.01
2690 2872 8.265764 ACTTTGTTCTCTCACCTAAACTAAACT 58.734 33.333 0.00 0.00 0.00 2.66
2745 2928 2.352503 AAAGATGCATGCCACGTTTC 57.647 45.000 16.68 2.70 0.00 2.78
2816 3000 2.497293 CGTGCAGGGGCGTACATA 59.503 61.111 0.00 0.00 45.35 2.29
3269 3453 1.630244 CCTTCTTCAACCGCTCGCTG 61.630 60.000 0.00 0.00 0.00 5.18
3707 3891 0.605860 AGCTGTACGACGAGGACACT 60.606 55.000 0.00 1.17 39.16 3.55
3785 3969 3.680786 TACGCGCTGCACCTGACT 61.681 61.111 5.73 0.00 0.00 3.41
3812 3996 3.058160 GTGCTGCTGGCCAACGAT 61.058 61.111 7.01 0.00 40.92 3.73
3864 4048 2.202623 GCGCGGACGAGAAGATGT 60.203 61.111 8.83 0.00 43.93 3.06
3921 4105 4.007644 TGGACTGCTCCGTGCTGG 62.008 66.667 8.77 0.00 43.66 4.85
4013 4197 3.584403 GGGATGGGGATGGGCTCC 61.584 72.222 0.00 0.00 44.11 4.70
4071 4255 0.311477 GACCGATCCGAGTAAGCTCC 59.689 60.000 0.00 0.00 38.49 4.70
4111 4305 2.095059 CCTGTTCTTTCGCATTCTTGGG 60.095 50.000 0.00 0.00 37.15 4.12
4121 4315 1.956636 GCATTCTTGGGACTCATGCCA 60.957 52.381 0.00 0.00 46.24 4.92
4167 4361 3.144506 GGCCATGGATCTTGTGTCTATG 58.855 50.000 18.40 0.00 35.19 2.23
4230 4424 2.501222 CGTCGTCGAACTCCACCG 60.501 66.667 0.00 0.00 39.71 4.94
4369 4563 0.041833 AGGCAGCAGAGTAGGGAAGA 59.958 55.000 0.00 0.00 0.00 2.87
4391 4588 3.181509 ACGTGCTATTAGTGACGTGAGAG 60.182 47.826 17.02 0.00 43.08 3.20
4537 4734 4.714308 TGGGAATTTGGGATTGTATTGGAC 59.286 41.667 0.00 0.00 0.00 4.02
4572 4769 1.222936 CCATCTGCTGGTGGAGGAC 59.777 63.158 17.59 0.00 40.49 3.85
4573 4770 1.153489 CATCTGCTGGTGGAGGACG 60.153 63.158 0.00 0.00 32.15 4.79
4574 4771 1.305297 ATCTGCTGGTGGAGGACGA 60.305 57.895 0.00 0.00 32.15 4.20
4585 4782 1.200839 GAGGACGAACGTGTTTGCG 59.799 57.895 4.19 0.00 37.94 4.85
4603 4800 1.268999 GCGCTCACCACAATCAAACAA 60.269 47.619 0.00 0.00 0.00 2.83
4604 4801 2.797792 GCGCTCACCACAATCAAACAAA 60.798 45.455 0.00 0.00 0.00 2.83
4606 4803 3.733380 CGCTCACCACAATCAAACAAACA 60.733 43.478 0.00 0.00 0.00 2.83
4607 4804 4.370917 GCTCACCACAATCAAACAAACAT 58.629 39.130 0.00 0.00 0.00 2.71
4608 4805 4.810491 GCTCACCACAATCAAACAAACATT 59.190 37.500 0.00 0.00 0.00 2.71
4609 4806 5.276963 GCTCACCACAATCAAACAAACATTG 60.277 40.000 0.00 0.00 34.29 2.82
4615 4812 6.420604 CCACAATCAAACAAACATTGTACTCC 59.579 38.462 0.00 0.00 44.59 3.85
4624 4821 0.902531 CATTGTACTCCTCCACCCGT 59.097 55.000 0.00 0.00 0.00 5.28
4625 4822 1.134788 CATTGTACTCCTCCACCCGTC 60.135 57.143 0.00 0.00 0.00 4.79
4626 4823 0.178955 TTGTACTCCTCCACCCGTCA 60.179 55.000 0.00 0.00 0.00 4.35
4629 4826 0.333652 TACTCCTCCACCCGTCATCA 59.666 55.000 0.00 0.00 0.00 3.07
4630 4827 0.544357 ACTCCTCCACCCGTCATCAA 60.544 55.000 0.00 0.00 0.00 2.57
4635 4857 1.674322 CCACCCGTCATCAACCCAC 60.674 63.158 0.00 0.00 0.00 4.61
4636 4858 1.374947 CACCCGTCATCAACCCACT 59.625 57.895 0.00 0.00 0.00 4.00
4648 4870 4.802051 CCCACTGACCCGGCCATG 62.802 72.222 2.24 0.00 0.00 3.66
4666 4888 3.003763 GTCTCCGTGCCCTCCCTT 61.004 66.667 0.00 0.00 0.00 3.95
4667 4889 2.683933 TCTCCGTGCCCTCCCTTC 60.684 66.667 0.00 0.00 0.00 3.46
4668 4890 2.685380 CTCCGTGCCCTCCCTTCT 60.685 66.667 0.00 0.00 0.00 2.85
4669 4891 2.683933 TCCGTGCCCTCCCTTCTC 60.684 66.667 0.00 0.00 0.00 2.87
4730 5710 7.450014 TCATCAAGGGTACAAAGCATCTTAAAA 59.550 33.333 0.00 0.00 0.00 1.52
4731 5711 6.977213 TCAAGGGTACAAAGCATCTTAAAAC 58.023 36.000 0.00 0.00 0.00 2.43
4732 5712 6.547880 TCAAGGGTACAAAGCATCTTAAAACA 59.452 34.615 0.00 0.00 0.00 2.83
4735 5715 7.787028 AGGGTACAAAGCATCTTAAAACAAAA 58.213 30.769 0.00 0.00 0.00 2.44
4737 5717 9.051679 GGGTACAAAGCATCTTAAAACAAAAAT 57.948 29.630 0.00 0.00 0.00 1.82
4768 5748 7.852550 ATTCATCAAGGTCTCTAGATCATCA 57.147 36.000 0.00 0.00 0.00 3.07
4772 5752 6.227298 TCAAGGTCTCTAGATCATCAAACC 57.773 41.667 0.00 0.00 0.00 3.27
4786 5766 0.947180 CAAACCACGACTACCACCGG 60.947 60.000 0.00 0.00 0.00 5.28
4788 5768 4.789075 CCACGACTACCACCGGCG 62.789 72.222 0.00 0.00 0.00 6.46
4791 5771 2.345760 ACGACTACCACCGGCGAAT 61.346 57.895 9.30 0.00 0.00 3.34
4796 5776 1.429148 CTACCACCGGCGAATCAAGC 61.429 60.000 9.30 0.00 0.00 4.01
4804 5784 2.086510 GCGAATCAAGCCGCTTACA 58.913 52.632 5.03 0.00 46.96 2.41
4806 5786 0.025001 CGAATCAAGCCGCTTACACG 59.975 55.000 5.03 6.11 0.00 4.49
4807 5787 0.247695 GAATCAAGCCGCTTACACGC 60.248 55.000 5.03 0.00 0.00 5.34
4808 5788 0.953471 AATCAAGCCGCTTACACGCA 60.953 50.000 5.03 0.00 0.00 5.24
4809 5789 0.744414 ATCAAGCCGCTTACACGCAT 60.744 50.000 5.03 0.00 0.00 4.73
4810 5790 1.060937 CAAGCCGCTTACACGCATC 59.939 57.895 5.03 0.00 0.00 3.91
4811 5791 2.452813 AAGCCGCTTACACGCATCG 61.453 57.895 3.05 0.00 0.00 3.84
4812 5792 4.575245 GCCGCTTACACGCATCGC 62.575 66.667 0.00 0.00 0.00 4.58
4813 5793 2.885644 CCGCTTACACGCATCGCT 60.886 61.111 0.00 0.00 0.00 4.93
4814 5794 2.317689 CGCTTACACGCATCGCTG 59.682 61.111 0.00 0.00 0.00 5.18
4815 5795 2.021931 GCTTACACGCATCGCTGC 59.978 61.111 0.00 0.00 45.31 5.25
4816 5796 2.703409 CTTACACGCATCGCTGCC 59.297 61.111 5.53 0.00 46.07 4.85
4832 5815 3.027675 GCCCACTTCCCTACCGGAC 62.028 68.421 9.46 0.00 41.83 4.79
4836 5819 1.400737 CACTTCCCTACCGGACCTAG 58.599 60.000 9.46 0.00 41.83 3.02
4848 5831 1.404315 CGGACCTAGCTTGACCTTGTC 60.404 57.143 0.00 0.00 0.00 3.18
4850 5833 0.608640 ACCTAGCTTGACCTTGTCGG 59.391 55.000 0.00 0.00 34.95 4.79
4873 5859 4.447724 GTGATAGAAAAGTCTTCGTGCACA 59.552 41.667 18.64 0.81 35.12 4.57
4880 5866 1.375908 TCTTCGTGCACATGGGAGC 60.376 57.895 18.64 0.00 0.00 4.70
4882 5868 3.233259 TTCGTGCACATGGGAGCGA 62.233 57.895 18.64 4.43 32.83 4.93
4904 5890 1.273606 AGGAGATCACACACTTCCACG 59.726 52.381 0.00 0.00 0.00 4.94
4920 5906 4.333417 CGGGGTCGTCTCCTTAGT 57.667 61.111 0.00 0.00 0.00 2.24
4968 5954 3.548770 TGAGATGCAATGAGGTGGAATC 58.451 45.455 0.00 0.00 0.00 2.52
4973 5959 1.752084 GCAATGAGGTGGAATCTCCCC 60.752 57.143 0.00 0.00 35.03 4.81
4974 5960 1.133668 CAATGAGGTGGAATCTCCCCC 60.134 57.143 0.00 0.00 35.03 5.40
5036 6022 2.369394 GCATTTCCTCGACCTCCATTT 58.631 47.619 0.00 0.00 0.00 2.32
5037 6023 3.541632 GCATTTCCTCGACCTCCATTTA 58.458 45.455 0.00 0.00 0.00 1.40
5038 6024 3.312697 GCATTTCCTCGACCTCCATTTAC 59.687 47.826 0.00 0.00 0.00 2.01
5039 6025 2.953466 TTCCTCGACCTCCATTTACG 57.047 50.000 0.00 0.00 0.00 3.18
5040 6026 0.458669 TCCTCGACCTCCATTTACGC 59.541 55.000 0.00 0.00 0.00 4.42
5059 6045 3.625897 GGGGTTGCTTGTTGGCCC 61.626 66.667 0.00 0.00 38.61 5.80
5060 6046 2.841988 GGGTTGCTTGTTGGCCCA 60.842 61.111 0.00 0.00 39.13 5.36
5065 6051 2.035626 GCTTGTTGGCCCAGGCTA 59.964 61.111 8.89 0.00 41.60 3.93
5091 6077 1.355971 GCGACGAAGGTAGCATTGAA 58.644 50.000 0.00 0.00 43.35 2.69
5119 6105 3.928992 GGCTTGCTTCCTTCTTTTATTGC 59.071 43.478 0.00 0.00 0.00 3.56
5123 6109 2.094752 GCTTCCTTCTTTTATTGCGGCA 60.095 45.455 0.00 0.00 0.00 5.69
5128 6114 2.634982 TCTTTTATTGCGGCAGCTTG 57.365 45.000 10.92 0.00 45.42 4.01
5150 6136 2.068277 GAGCAATCATGGCGCCTTCC 62.068 60.000 29.70 2.95 36.08 3.46
5164 6150 4.927782 TTCCTGCGGCGCACAAGT 62.928 61.111 33.07 0.00 33.79 3.16
5189 6175 4.338327 GTGACTTCTTCACGCCGT 57.662 55.556 0.00 0.00 45.33 5.68
5230 6216 3.575247 TCCGCTCTTGGGGGCAAA 61.575 61.111 0.00 0.00 46.27 3.68
5232 6218 3.737172 CGCTCTTGGGGGCAAACG 61.737 66.667 0.00 0.00 0.00 3.60
5259 6245 2.036256 GGTGCTTGGAGGGCATGT 59.964 61.111 0.00 0.00 41.86 3.21
5265 6251 0.329261 CTTGGAGGGCATGTCTTCCA 59.671 55.000 25.91 25.91 0.00 3.53
5291 6277 2.611473 CGTGCTCTGTGTTGGATCTTCT 60.611 50.000 0.00 0.00 0.00 2.85
5302 6288 3.063510 TGGATCTTCTTGTGCTTCCTG 57.936 47.619 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
65 66 1.133450 CATACGAGGAGAAGGGGAGGA 60.133 57.143 0.00 0.00 0.00 3.71
66 67 1.333177 CATACGAGGAGAAGGGGAGG 58.667 60.000 0.00 0.00 0.00 4.30
68 69 0.759436 GCCATACGAGGAGAAGGGGA 60.759 60.000 0.00 0.00 0.00 4.81
69 70 1.749033 GCCATACGAGGAGAAGGGG 59.251 63.158 0.00 0.00 0.00 4.79
283 285 2.434359 GGTCCCGCAGTACTGTGC 60.434 66.667 27.48 15.63 39.60 4.57
284 286 1.079819 CTGGTCCCGCAGTACTGTG 60.080 63.158 26.25 26.25 40.55 3.66
285 287 2.283529 CCTGGTCCCGCAGTACTGT 61.284 63.158 23.44 0.00 0.00 3.55
316 319 3.516981 ATGTTCGACTGAGATGTGGAG 57.483 47.619 0.00 0.00 0.00 3.86
360 363 1.246056 TTTCCGTCTCGTCCACCGAT 61.246 55.000 0.00 0.00 46.23 4.18
362 365 1.731969 GTTTCCGTCTCGTCCACCG 60.732 63.158 0.00 0.00 38.13 4.94
461 464 2.183555 GGGACAGCCTACGGTTCG 59.816 66.667 0.00 0.00 0.00 3.95
462 465 2.582978 GGGGACAGCCTACGGTTC 59.417 66.667 0.00 0.00 0.00 3.62
563 566 1.080025 GTTGCTTCGGGCGAGTACT 60.080 57.895 0.00 0.00 45.43 2.73
651 655 3.187700 GGCCTATTAATATGAGGACGCG 58.812 50.000 3.53 3.53 31.45 6.01
727 731 1.344496 GGGGATGAGAAGGGGAGAAGA 60.344 57.143 0.00 0.00 0.00 2.87
760 765 4.625083 GCAACTTGATAGGAAGAGGAAGCT 60.625 45.833 0.00 0.00 0.00 3.74
788 793 3.134458 AGAAGAGCAAACCGAAGAAGTG 58.866 45.455 0.00 0.00 0.00 3.16
789 794 3.477210 AGAAGAGCAAACCGAAGAAGT 57.523 42.857 0.00 0.00 0.00 3.01
811 816 2.733552 CTCGATGGATGATAACTTGGCG 59.266 50.000 0.00 0.00 0.00 5.69
896 902 1.734047 CGCTCTGTTTTCTCTCTCCCG 60.734 57.143 0.00 0.00 0.00 5.14
926 932 0.884704 CAACCTCCGGTTCCTGTGTG 60.885 60.000 0.00 0.00 43.05 3.82
928 934 0.602905 GTCAACCTCCGGTTCCTGTG 60.603 60.000 0.00 0.00 43.05 3.66
929 935 1.752833 GTCAACCTCCGGTTCCTGT 59.247 57.895 0.00 0.00 43.05 4.00
938 944 0.392595 CTTTAGCCCGGTCAACCTCC 60.393 60.000 0.00 0.00 0.00 4.30
988 995 3.853330 CGCCATGTCGTCGCCAAG 61.853 66.667 0.00 0.00 0.00 3.61
1045 1052 1.922570 TCTTCGCCGTGAATAGCTTC 58.077 50.000 0.00 0.00 35.63 3.86
1052 1059 0.389817 CTCACCATCTTCGCCGTGAA 60.390 55.000 0.00 0.00 34.98 3.18
1100 1121 4.955811 AGAAATGCCCGACATGAGTATA 57.044 40.909 0.00 0.00 39.60 1.47
1101 1122 3.845781 AGAAATGCCCGACATGAGTAT 57.154 42.857 0.00 0.00 39.60 2.12
1102 1123 3.270027 CAAGAAATGCCCGACATGAGTA 58.730 45.455 0.00 0.00 39.60 2.59
1103 1124 2.086869 CAAGAAATGCCCGACATGAGT 58.913 47.619 0.00 0.00 39.60 3.41
1104 1125 2.086869 ACAAGAAATGCCCGACATGAG 58.913 47.619 0.00 0.00 39.60 2.90
1105 1126 2.198827 ACAAGAAATGCCCGACATGA 57.801 45.000 0.00 0.00 39.60 3.07
1106 1127 2.223021 CGTACAAGAAATGCCCGACATG 60.223 50.000 0.00 0.00 39.60 3.21
1107 1128 2.006888 CGTACAAGAAATGCCCGACAT 58.993 47.619 0.00 0.00 42.30 3.06
1108 1129 1.270412 ACGTACAAGAAATGCCCGACA 60.270 47.619 0.00 0.00 31.87 4.35
1109 1130 1.435577 ACGTACAAGAAATGCCCGAC 58.564 50.000 0.00 0.00 31.87 4.79
1110 1131 2.029200 TGTACGTACAAGAAATGCCCGA 60.029 45.455 25.54 0.00 32.40 5.14
1111 1132 2.339418 TGTACGTACAAGAAATGCCCG 58.661 47.619 25.54 0.00 32.40 6.13
1112 1133 3.064820 CCATGTACGTACAAGAAATGCCC 59.935 47.826 30.46 0.00 39.99 5.36
1113 1134 3.687698 ACCATGTACGTACAAGAAATGCC 59.312 43.478 30.46 0.00 39.99 4.40
1126 1147 7.797123 GTGAAAGAAAAGAACTAACCATGTACG 59.203 37.037 0.00 0.00 0.00 3.67
1197 1218 2.305927 AGCCTAGCTGGTAAGAAGCAAA 59.694 45.455 0.00 0.00 43.37 3.68
1213 1236 3.709653 ACGAATGGTAGAAATCCAGCCTA 59.290 43.478 0.00 0.00 38.42 3.93
1225 1248 1.571919 GGCTGCTGTACGAATGGTAG 58.428 55.000 0.00 0.00 0.00 3.18
1228 1251 1.091771 CAGGGCTGCTGTACGAATGG 61.092 60.000 0.00 0.00 0.00 3.16
1234 1257 1.377333 GTTCCCAGGGCTGCTGTAC 60.377 63.158 0.00 0.00 0.00 2.90
1310 1335 4.501571 CCGGATCATAAGACGACAAAGGAT 60.502 45.833 0.00 0.00 0.00 3.24
1401 1431 9.899226 AGCAATTACTCAAATGTTAAGAGAAAC 57.101 29.630 0.00 0.00 33.69 2.78
1434 1464 3.472652 TGATTTACACGCATCCCATACC 58.527 45.455 0.00 0.00 0.00 2.73
1444 1474 5.470845 AAGATACTGCTTGATTTACACGC 57.529 39.130 0.00 0.00 42.83 5.34
1447 1482 6.152661 CCCCAAAAGATACTGCTTGATTTACA 59.847 38.462 0.00 0.00 0.00 2.41
1532 1616 2.076863 CTGTAAAAGCCCAGAGAACCG 58.923 52.381 0.00 0.00 0.00 4.44
1535 1619 1.271926 GGCCTGTAAAAGCCCAGAGAA 60.272 52.381 0.00 0.00 43.76 2.87
1536 1620 0.328258 GGCCTGTAAAAGCCCAGAGA 59.672 55.000 0.00 0.00 43.76 3.10
1537 1621 2.873797 GGCCTGTAAAAGCCCAGAG 58.126 57.895 0.00 0.00 43.76 3.35
1542 1626 1.746470 ATACACGGCCTGTAAAAGCC 58.254 50.000 15.93 0.00 46.17 4.35
1543 1627 2.096980 GGAATACACGGCCTGTAAAAGC 59.903 50.000 15.93 8.07 38.90 3.51
1549 1633 0.676782 GCAAGGAATACACGGCCTGT 60.677 55.000 0.00 7.14 36.82 4.00
1577 1665 7.987750 TGTATAAAAACTAGTCCAATGCACA 57.012 32.000 0.00 0.00 0.00 4.57
1651 1768 7.573968 AATCTTATTCTAAGCCCACATTGAC 57.426 36.000 0.00 0.00 0.00 3.18
1657 1774 7.773690 TCCAAGTAAATCTTATTCTAAGCCCAC 59.226 37.037 0.00 0.00 34.66 4.61
1701 1819 1.732259 GACCGTTTGATGCTACTGGTG 59.268 52.381 0.00 0.00 0.00 4.17
1797 1927 3.657398 AAGCCATCACAGATTCATGGA 57.343 42.857 5.21 0.00 39.73 3.41
1879 2012 2.456119 CCGCAAAGGCTGACGCTAG 61.456 63.158 0.00 0.00 38.10 3.42
1971 2112 2.628178 GGCTTAAGAAAACCTTGCCAGT 59.372 45.455 6.67 0.00 41.26 4.00
1972 2113 2.351738 CGGCTTAAGAAAACCTTGCCAG 60.352 50.000 6.67 0.00 41.53 4.85
1975 2116 1.067846 CCCGGCTTAAGAAAACCTTGC 60.068 52.381 6.67 0.00 36.34 4.01
2118 2279 2.661566 CGCGATCGGCATGTGATCC 61.662 63.158 18.30 12.72 43.84 3.36
2119 2280 1.661509 TCGCGATCGGCATGTGATC 60.662 57.895 18.30 15.88 43.84 2.92
2120 2281 1.951130 GTCGCGATCGGCATGTGAT 60.951 57.895 14.06 2.70 43.84 3.06
2121 2282 2.582226 GTCGCGATCGGCATGTGA 60.582 61.111 14.06 0.00 43.84 3.58
2122 2283 2.885164 TGTCGCGATCGGCATGTG 60.885 61.111 14.06 0.00 46.34 3.21
2133 2294 1.299850 TGACCAGTGTCTTGTCGCG 60.300 57.895 0.00 0.00 42.28 5.87
2331 2502 2.431601 GCTCTGCTTCACTCGCGT 60.432 61.111 5.77 0.00 0.00 6.01
2367 2543 2.586792 GCAATCCCAGGCTCGAGT 59.413 61.111 15.13 0.00 0.00 4.18
2368 2544 2.587194 CGCAATCCCAGGCTCGAG 60.587 66.667 8.45 8.45 0.00 4.04
2369 2545 4.838152 GCGCAATCCCAGGCTCGA 62.838 66.667 0.30 0.00 0.00 4.04
2494 2670 3.804036 TCCGGTTTTCATATTGCGAGAT 58.196 40.909 0.00 0.00 0.00 2.75
2496 2672 2.287915 CCTCCGGTTTTCATATTGCGAG 59.712 50.000 0.00 0.00 0.00 5.03
2652 2834 6.047511 AGAGAACAAAGTGCATCATAGAGT 57.952 37.500 0.00 0.00 0.00 3.24
2659 2841 3.406764 AGGTGAGAGAACAAAGTGCATC 58.593 45.455 0.00 0.00 0.00 3.91
2677 2859 6.655078 TTCTCCGTGTAGTTTAGTTTAGGT 57.345 37.500 0.00 0.00 0.00 3.08
2689 2871 5.755375 AGATGCAAATACATTCTCCGTGTAG 59.245 40.000 0.00 0.00 35.69 2.74
2690 2872 5.523552 CAGATGCAAATACATTCTCCGTGTA 59.476 40.000 0.00 0.00 36.58 2.90
2745 2928 2.210116 ACGTGTACCAAAGTTCTGCAG 58.790 47.619 7.63 7.63 0.00 4.41
2816 3000 2.742372 GTGCCGATGTTGACGCCT 60.742 61.111 0.00 0.00 0.00 5.52
3431 3615 0.032815 TGTAGTGCAGCAGCGTGTTA 59.967 50.000 0.00 0.00 46.23 2.41
3812 3996 2.079158 CAGTAGGTCTGGTTCGTCGTA 58.921 52.381 0.00 0.00 40.23 3.43
4013 4197 1.139095 GGAGAAGTAGCACGTCCCG 59.861 63.158 0.00 0.00 0.00 5.14
4049 4233 0.591741 GCTTACTCGGATCGGTCGTG 60.592 60.000 0.00 0.00 0.00 4.35
4071 4255 1.163554 GCAAGGAAGAGAAGGCTGTG 58.836 55.000 0.00 0.00 0.00 3.66
4081 4265 2.494059 CGAAAGAACAGGCAAGGAAGA 58.506 47.619 0.00 0.00 0.00 2.87
4111 4305 1.952296 GATGTTCCCATGGCATGAGTC 59.048 52.381 28.43 15.03 0.00 3.36
4121 4315 3.508793 CACAAGCAAAGAGATGTTCCCAT 59.491 43.478 0.00 0.00 0.00 4.00
4167 4361 3.056328 GCTGCCGTTCTTCCCACC 61.056 66.667 0.00 0.00 0.00 4.61
4255 4449 3.258070 AACGACGTGACATCGCCGA 62.258 57.895 0.00 0.00 43.46 5.54
4369 4563 2.745821 TCTCACGTCACTAATAGCACGT 59.254 45.455 10.98 10.98 46.05 4.49
4537 4734 1.391577 TGGCATCCAATGATCCAACG 58.608 50.000 0.00 0.00 30.28 4.10
4572 4769 1.717728 GTGAGCGCAAACACGTTCG 60.718 57.895 11.47 0.00 44.98 3.95
4573 4770 1.368850 GGTGAGCGCAAACACGTTC 60.369 57.895 11.47 0.00 42.73 3.95
4574 4771 2.109739 TGGTGAGCGCAAACACGTT 61.110 52.632 11.47 0.00 37.82 3.99
4585 4782 3.779759 TGTTTGTTTGATTGTGGTGAGC 58.220 40.909 0.00 0.00 0.00 4.26
4603 4800 1.278127 CGGGTGGAGGAGTACAATGTT 59.722 52.381 0.00 0.00 0.00 2.71
4604 4801 0.902531 CGGGTGGAGGAGTACAATGT 59.097 55.000 0.00 0.00 0.00 2.71
4606 4803 1.192428 GACGGGTGGAGGAGTACAAT 58.808 55.000 0.00 0.00 0.00 2.71
4607 4804 0.178955 TGACGGGTGGAGGAGTACAA 60.179 55.000 0.00 0.00 0.00 2.41
4608 4805 0.040646 ATGACGGGTGGAGGAGTACA 59.959 55.000 0.00 0.00 0.00 2.90
4609 4806 0.745468 GATGACGGGTGGAGGAGTAC 59.255 60.000 0.00 0.00 0.00 2.73
4615 4812 1.078426 GGGTTGATGACGGGTGGAG 60.078 63.158 0.00 0.00 0.00 3.86
4624 4821 1.676968 CGGGTCAGTGGGTTGATGA 59.323 57.895 0.00 0.00 0.00 2.92
4625 4822 1.377202 CCGGGTCAGTGGGTTGATG 60.377 63.158 0.00 0.00 0.00 3.07
4626 4823 3.077907 CCGGGTCAGTGGGTTGAT 58.922 61.111 0.00 0.00 0.00 2.57
4707 4968 6.547880 TGTTTTAAGATGCTTTGTACCCTTGA 59.452 34.615 0.00 0.00 0.00 3.02
4708 4969 6.744112 TGTTTTAAGATGCTTTGTACCCTTG 58.256 36.000 0.00 0.00 0.00 3.61
4709 4970 6.969993 TGTTTTAAGATGCTTTGTACCCTT 57.030 33.333 0.00 0.00 0.00 3.95
4742 5722 8.712103 TGATGATCTAGAGACCTTGATGAATTT 58.288 33.333 0.00 0.00 35.53 1.82
4743 5723 8.260099 TGATGATCTAGAGACCTTGATGAATT 57.740 34.615 0.00 0.00 35.53 2.17
4744 5724 7.852550 TGATGATCTAGAGACCTTGATGAAT 57.147 36.000 0.00 0.00 35.53 2.57
4745 5725 7.666063 TTGATGATCTAGAGACCTTGATGAA 57.334 36.000 0.00 0.00 35.53 2.57
4746 5726 7.418368 GGTTTGATGATCTAGAGACCTTGATGA 60.418 40.741 0.00 0.00 35.53 2.92
4768 5748 1.368579 CCGGTGGTAGTCGTGGTTT 59.631 57.895 0.00 0.00 0.00 3.27
4772 5752 2.552585 ATTCGCCGGTGGTAGTCGTG 62.553 60.000 16.49 0.00 0.00 4.35
4788 5768 0.247695 GCGTGTAAGCGGCTTGATTC 60.248 55.000 24.75 12.44 0.00 2.52
4791 5771 1.358725 GATGCGTGTAAGCGGCTTGA 61.359 55.000 24.75 8.73 40.67 3.02
4796 5776 2.885644 AGCGATGCGTGTAAGCGG 60.886 61.111 0.00 0.00 40.67 5.52
4800 5780 2.817834 GGGCAGCGATGCGTGTAA 60.818 61.111 20.69 0.00 35.24 2.41
4801 5781 4.075854 TGGGCAGCGATGCGTGTA 62.076 61.111 20.69 2.43 35.24 2.90
4804 5784 4.704833 AAGTGGGCAGCGATGCGT 62.705 61.111 20.69 0.61 35.24 5.24
4806 5786 3.512516 GGAAGTGGGCAGCGATGC 61.513 66.667 19.23 19.23 0.00 3.91
4807 5787 1.971505 TAGGGAAGTGGGCAGCGATG 61.972 60.000 0.00 0.00 0.00 3.84
4808 5788 1.689233 TAGGGAAGTGGGCAGCGAT 60.689 57.895 0.00 0.00 0.00 4.58
4809 5789 2.284331 TAGGGAAGTGGGCAGCGA 60.284 61.111 0.00 0.00 0.00 4.93
4810 5790 2.125106 GTAGGGAAGTGGGCAGCG 60.125 66.667 0.00 0.00 0.00 5.18
4811 5791 2.272471 GGTAGGGAAGTGGGCAGC 59.728 66.667 0.00 0.00 0.00 5.25
4812 5792 2.584608 CGGTAGGGAAGTGGGCAG 59.415 66.667 0.00 0.00 0.00 4.85
4813 5793 3.006728 CCGGTAGGGAAGTGGGCA 61.007 66.667 0.00 0.00 38.47 5.36
4814 5794 2.686106 TCCGGTAGGGAAGTGGGC 60.686 66.667 0.00 0.00 43.62 5.36
4832 5815 3.442996 CCGACAAGGTCAAGCTAGG 57.557 57.895 0.00 0.00 34.51 3.02
4848 5831 3.060895 GCACGAAGACTTTTCTATCACCG 59.939 47.826 0.00 0.00 0.00 4.94
4850 5833 4.447724 TGTGCACGAAGACTTTTCTATCAC 59.552 41.667 13.13 0.00 0.00 3.06
4857 5840 1.608590 CCCATGTGCACGAAGACTTTT 59.391 47.619 13.13 0.00 0.00 2.27
4873 5859 0.187117 TGATCTCCTCTCGCTCCCAT 59.813 55.000 0.00 0.00 0.00 4.00
4880 5866 2.159310 GGAAGTGTGTGATCTCCTCTCG 60.159 54.545 0.00 0.00 0.00 4.04
4882 5868 2.564947 GTGGAAGTGTGTGATCTCCTCT 59.435 50.000 0.00 0.00 0.00 3.69
4904 5890 1.477295 CTTCACTAAGGAGACGACCCC 59.523 57.143 0.00 0.00 0.00 4.95
4920 5906 3.699538 AGTATGCACTATCGTCACCTTCA 59.300 43.478 0.00 0.00 31.45 3.02
4928 5914 6.149129 TCTCATGAAAGTATGCACTATCGT 57.851 37.500 0.00 0.00 33.48 3.73
4937 5923 6.262496 ACCTCATTGCATCTCATGAAAGTATG 59.738 38.462 0.00 0.08 29.66 2.39
4968 5954 3.306613 ACTATTAAGAAGGTCGGGGGAG 58.693 50.000 0.00 0.00 0.00 4.30
4973 5959 6.171213 AGAAACCAACTATTAAGAAGGTCGG 58.829 40.000 0.00 0.00 34.04 4.79
4974 5960 6.034683 CGAGAAACCAACTATTAAGAAGGTCG 59.965 42.308 0.00 0.00 34.04 4.79
5020 6006 1.134907 GCGTAAATGGAGGTCGAGGAA 60.135 52.381 0.00 0.00 0.00 3.36
5036 6022 3.479127 AACAAGCAACCCCCGCGTA 62.479 57.895 4.92 0.00 0.00 4.42
5037 6023 4.887190 AACAAGCAACCCCCGCGT 62.887 61.111 4.92 0.00 0.00 6.01
5038 6024 4.341502 CAACAAGCAACCCCCGCG 62.342 66.667 0.00 0.00 0.00 6.46
5039 6025 3.989787 CCAACAAGCAACCCCCGC 61.990 66.667 0.00 0.00 0.00 6.13
5040 6026 3.989787 GCCAACAAGCAACCCCCG 61.990 66.667 0.00 0.00 0.00 5.73
5091 6077 2.613129 AGAAGGAAGCAAGCCCAATTT 58.387 42.857 0.00 0.00 0.00 1.82
5128 6114 3.599704 GCGCCATGATTGCTCCCC 61.600 66.667 0.00 0.00 0.00 4.81
5161 6147 4.454678 TGAAGAAGTCACATTGAGCACTT 58.545 39.130 0.00 0.00 0.00 3.16
5187 6173 4.162690 GCCCCAGTAGCCCTCACG 62.163 72.222 0.00 0.00 0.00 4.35
5197 6183 4.643387 GACACAAGCGGCCCCAGT 62.643 66.667 0.00 0.00 0.00 4.00
5205 6191 2.671177 CCAAGAGCGGACACAAGCG 61.671 63.158 0.00 0.00 38.61 4.68
5219 6205 1.524008 GAAGACCGTTTGCCCCCAAG 61.524 60.000 0.00 0.00 31.52 3.61
5228 6214 0.182775 AGCACCAAGGAAGACCGTTT 59.817 50.000 0.00 0.00 41.83 3.60
5230 6216 0.535102 CAAGCACCAAGGAAGACCGT 60.535 55.000 0.00 0.00 41.83 4.83
5232 6218 0.110486 TCCAAGCACCAAGGAAGACC 59.890 55.000 0.00 0.00 0.00 3.85
5259 6245 0.603707 CAGAGCACGCCTTTGGAAGA 60.604 55.000 0.00 0.00 0.00 2.87
5265 6251 1.447317 CCAACACAGAGCACGCCTTT 61.447 55.000 0.00 0.00 0.00 3.11


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

AutoCloner maintained by Alex Coulton.