Multiple sequence alignment - TraesCS3D01G346200

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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 TraesCS3D01G346200 chr3D 100.000 5184 0 0 1 5184 457407487 457402304 0.000000e+00 9574.0
1 TraesCS3D01G346200 chr3D 83.544 237 27 10 1129 1359 94721472 94721242 1.460000e-50 211.0
2 TraesCS3D01G346200 chr3D 94.872 39 1 1 1229 1267 549490356 549490393 5.610000e-05 60.2
3 TraesCS3D01G346200 chr3B 88.614 2064 116 61 64 2053 605018400 605016382 0.000000e+00 2399.0
4 TraesCS3D01G346200 chr3B 94.572 1216 54 5 2081 3296 605016264 605015061 0.000000e+00 1869.0
5 TraesCS3D01G346200 chr3B 92.997 1228 64 16 3328 4542 605015069 605013851 0.000000e+00 1772.0
6 TraesCS3D01G346200 chr3B 92.026 627 35 8 4560 5184 605013867 605013254 0.000000e+00 867.0
7 TraesCS3D01G346200 chr3B 83.544 237 27 10 1129 1359 145362498 145362728 1.460000e-50 211.0
8 TraesCS3D01G346200 chr3A 90.206 1848 119 29 1475 3296 600319473 600317662 0.000000e+00 2353.0
9 TraesCS3D01G346200 chr3A 86.792 1431 68 44 59 1387 600320931 600319520 0.000000e+00 1483.0
10 TraesCS3D01G346200 chr3A 89.933 894 60 13 3545 4430 600317484 600316613 0.000000e+00 1125.0
11 TraesCS3D01G346200 chr3A 91.496 635 30 5 4560 5184 600316439 600315819 0.000000e+00 852.0
12 TraesCS3D01G346200 chr3A 94.681 188 10 0 3328 3515 600317670 600317483 5.080000e-75 292.0
13 TraesCS3D01G346200 chr3A 83.966 237 26 10 1129 1359 549265092 549265322 3.140000e-52 217.0
14 TraesCS3D01G346200 chr3A 90.351 114 7 2 4429 4542 600316532 600316423 4.180000e-31 147.0
15 TraesCS3D01G346200 chr5A 75.352 284 66 3 1077 1359 458525114 458524834 3.260000e-27 134.0
16 TraesCS3D01G346200 chr1D 75.836 269 45 17 1102 1363 72906880 72906625 9.120000e-23 119.0
17 TraesCS3D01G346200 chr1D 77.033 209 29 17 1105 1307 73054355 73054160 9.180000e-18 102.0


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 TraesCS3D01G346200 chr3D 457402304 457407487 5183 True 9574.00 9574 100.00000 1 5184 1 chr3D.!!$R2 5183
1 TraesCS3D01G346200 chr3B 605013254 605018400 5146 True 1726.75 2399 92.05225 64 5184 4 chr3B.!!$R1 5120
2 TraesCS3D01G346200 chr3A 600315819 600320931 5112 True 1042.00 2353 90.57650 59 5184 6 chr3A.!!$R1 5125

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
827 876 0.105504 AAGCAACCCCAGCCTTCTTT 60.106 50.000 0.00 0.0 0.00 2.52 F
1672 1781 0.115152 TCTTGTCCTCTGCCTCCTCA 59.885 55.000 0.00 0.0 0.00 3.86 F
2362 2602 1.279271 GCCTCTCTCAAACTTGGCCTA 59.721 52.381 3.32 0.0 34.81 3.93 F
2848 3088 2.050691 GCAACTGTGGCATTTAACACG 58.949 47.619 1.37 0.0 40.39 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1713 1822 0.617413 CTCTCCAGCCAGTTCACCAT 59.383 55.000 0.00 0.0 0.00 3.55 R
2821 3061 2.818111 TGCCACAGTTGCATGGAAA 58.182 47.368 8.28 0.0 38.34 3.13 R
4029 4276 1.402787 ACCTCCAACCTGCAAAACAG 58.597 50.000 0.00 0.0 46.77 3.16 R
4607 4940 1.347707 AGTCAACTCGCTGGGAATTCA 59.652 47.619 7.93 0.0 0.00 2.57 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
17 18 2.505557 GGCAATGTTCGCAGCTGC 60.506 61.111 29.12 29.12 38.46 5.25
18 19 2.256158 GCAATGTTCGCAGCTGCA 59.744 55.556 36.03 21.33 42.21 4.41
19 20 1.800315 GCAATGTTCGCAGCTGCAG 60.800 57.895 36.03 27.36 42.21 4.41
20 21 1.800315 CAATGTTCGCAGCTGCAGC 60.800 57.895 36.03 31.53 42.21 5.25
31 32 2.187424 CTGCAGCTCAGCTCCTCC 59.813 66.667 0.00 0.00 36.40 4.30
32 33 3.719883 CTGCAGCTCAGCTCCTCCG 62.720 68.421 0.00 0.00 36.40 4.63
33 34 4.527583 GCAGCTCAGCTCCTCCGG 62.528 72.222 0.00 0.00 36.40 5.14
34 35 3.847602 CAGCTCAGCTCCTCCGGG 61.848 72.222 0.00 0.00 36.40 5.73
35 36 4.390556 AGCTCAGCTCCTCCGGGT 62.391 66.667 0.00 0.00 30.62 5.28
36 37 3.844090 GCTCAGCTCCTCCGGGTC 61.844 72.222 0.00 0.00 0.00 4.46
37 38 3.522731 CTCAGCTCCTCCGGGTCG 61.523 72.222 0.00 0.00 0.00 4.79
38 39 4.361971 TCAGCTCCTCCGGGTCGT 62.362 66.667 0.00 0.00 0.00 4.34
39 40 3.827898 CAGCTCCTCCGGGTCGTC 61.828 72.222 0.00 0.00 0.00 4.20
40 41 4.361971 AGCTCCTCCGGGTCGTCA 62.362 66.667 0.00 0.00 0.00 4.35
41 42 3.827898 GCTCCTCCGGGTCGTCAG 61.828 72.222 0.00 0.00 0.00 3.51
42 43 3.827898 CTCCTCCGGGTCGTCAGC 61.828 72.222 0.00 0.00 0.00 4.26
49 50 2.658422 GGGTCGTCAGCCGGTTTA 59.342 61.111 1.90 0.00 37.11 2.01
50 51 1.739196 GGGTCGTCAGCCGGTTTAC 60.739 63.158 1.90 0.00 37.11 2.01
51 52 1.739196 GGTCGTCAGCCGGTTTACC 60.739 63.158 1.90 0.00 37.11 2.85
52 53 1.739196 GTCGTCAGCCGGTTTACCC 60.739 63.158 1.90 0.00 37.11 3.69
53 54 2.208619 TCGTCAGCCGGTTTACCCA 61.209 57.895 1.90 0.00 37.11 4.51
54 55 2.030958 CGTCAGCCGGTTTACCCAC 61.031 63.158 1.90 0.00 0.00 4.61
55 56 1.373812 GTCAGCCGGTTTACCCACT 59.626 57.895 1.90 0.00 0.00 4.00
56 57 0.672711 GTCAGCCGGTTTACCCACTC 60.673 60.000 1.90 0.00 0.00 3.51
57 58 1.376812 CAGCCGGTTTACCCACTCC 60.377 63.158 1.90 0.00 0.00 3.85
84 85 2.843545 GGAACCAGGGGTGAGCAA 59.156 61.111 0.00 0.00 35.34 3.91
97 98 0.106708 TGAGCAACACAGGTCACTCC 59.893 55.000 0.00 0.00 40.73 3.85
132 133 2.429930 CCCCTTTCGTCCACAGCA 59.570 61.111 0.00 0.00 0.00 4.41
237 252 0.174617 GCCACTGCCAGTCTACTCTC 59.825 60.000 0.00 0.00 0.00 3.20
279 303 3.025599 AGCCCCATGTGCCCATCT 61.026 61.111 1.17 0.00 0.00 2.90
301 325 0.105778 GCCTCATCTTCTTCCTCCCG 59.894 60.000 0.00 0.00 0.00 5.14
490 523 1.226974 AAGCACACGATCCGATCCG 60.227 57.895 2.69 1.43 0.00 4.18
795 844 1.000521 CCAAATCCCCTGCTGCTGA 60.001 57.895 8.20 0.00 0.00 4.26
817 866 0.614812 AAATCCATGCAAGCAACCCC 59.385 50.000 0.00 0.00 0.00 4.95
818 867 0.544833 AATCCATGCAAGCAACCCCA 60.545 50.000 0.00 0.00 0.00 4.96
819 868 0.974010 ATCCATGCAAGCAACCCCAG 60.974 55.000 0.00 0.00 0.00 4.45
821 870 2.999063 ATGCAAGCAACCCCAGCC 60.999 61.111 0.00 0.00 0.00 4.85
822 871 3.534704 ATGCAAGCAACCCCAGCCT 62.535 57.895 0.00 0.00 0.00 4.58
823 872 2.919328 GCAAGCAACCCCAGCCTT 60.919 61.111 0.00 0.00 0.00 4.35
824 873 2.935740 GCAAGCAACCCCAGCCTTC 61.936 63.158 0.00 0.00 0.00 3.46
826 875 0.829182 CAAGCAACCCCAGCCTTCTT 60.829 55.000 0.00 0.00 0.00 2.52
827 876 0.105504 AAGCAACCCCAGCCTTCTTT 60.106 50.000 0.00 0.00 0.00 2.52
851 903 4.021016 GTGGTGGCCCTGAGTATCTTATAG 60.021 50.000 0.00 0.00 34.92 1.31
852 904 3.055747 GGTGGCCCTGAGTATCTTATAGC 60.056 52.174 0.00 0.00 34.92 2.97
853 905 3.055747 GTGGCCCTGAGTATCTTATAGCC 60.056 52.174 0.00 0.00 38.37 3.93
854 906 3.173965 GGCCCTGAGTATCTTATAGCCA 58.826 50.000 0.00 0.00 37.80 4.75
941 1022 1.305381 AAGCTCCACTCTACCCGCT 60.305 57.895 0.00 0.00 0.00 5.52
951 1032 1.550976 CTCTACCCGCTTCTTCCACTT 59.449 52.381 0.00 0.00 0.00 3.16
1368 1473 0.953960 CCTGGAACAAGGGTGCGTAC 60.954 60.000 0.00 0.00 38.70 3.67
1405 1513 2.410053 GCTTGAGCTCCGATTATTAGCG 59.590 50.000 12.15 0.00 41.19 4.26
1510 1618 3.589654 CTTCTTGGAGTCGCCGGCA 62.590 63.158 28.98 11.20 40.66 5.69
1578 1686 0.173708 GGAGACGCCAAGACAGGTAG 59.826 60.000 0.00 0.00 36.34 3.18
1626 1734 2.027625 CGAGCTTTCCGGTGACACC 61.028 63.158 15.13 15.13 34.05 4.16
1644 1753 5.048782 TGACACCGATTCTTCAGAATTTTGG 60.049 40.000 3.54 8.59 44.14 3.28
1646 1755 6.001460 ACACCGATTCTTCAGAATTTTGGTA 58.999 36.000 15.89 0.00 44.14 3.25
1655 1764 7.060421 TCTTCAGAATTTTGGTACCAACTTCT 58.940 34.615 29.50 29.50 38.03 2.85
1662 1771 3.764237 TGGTACCAACTTCTTGTCCTC 57.236 47.619 13.60 0.00 0.00 3.71
1669 1778 0.980423 ACTTCTTGTCCTCTGCCTCC 59.020 55.000 0.00 0.00 0.00 4.30
1670 1779 1.274712 CTTCTTGTCCTCTGCCTCCT 58.725 55.000 0.00 0.00 0.00 3.69
1671 1780 1.206849 CTTCTTGTCCTCTGCCTCCTC 59.793 57.143 0.00 0.00 0.00 3.71
1672 1781 0.115152 TCTTGTCCTCTGCCTCCTCA 59.885 55.000 0.00 0.00 0.00 3.86
1713 1822 2.627945 CACTGGATGCCTACGCTTTTA 58.372 47.619 0.00 0.00 35.36 1.52
1778 1887 4.093011 AGTTCTACATTGCTGGAGAGAGT 58.907 43.478 0.00 0.00 43.36 3.24
1789 1898 3.491792 GCTGGAGAGAGTTATGCAGGTAC 60.492 52.174 0.00 0.00 34.89 3.34
1793 1902 6.136857 TGGAGAGAGTTATGCAGGTACTATT 58.863 40.000 0.00 0.00 36.02 1.73
1794 1903 7.295340 TGGAGAGAGTTATGCAGGTACTATTA 58.705 38.462 0.00 0.00 36.02 0.98
1829 1951 9.504708 AATGCAGGAATATCACAAAATTTTCAA 57.495 25.926 0.00 0.00 0.00 2.69
1846 1968 9.631257 AAATTTTCAAAGGAAATGGTTCAATCT 57.369 25.926 0.00 0.00 42.31 2.40
1849 1971 6.729690 TCAAAGGAAATGGTTCAATCTTGT 57.270 33.333 0.00 0.00 35.25 3.16
1850 1972 7.831691 TCAAAGGAAATGGTTCAATCTTGTA 57.168 32.000 0.00 0.00 35.25 2.41
1851 1973 7.885297 TCAAAGGAAATGGTTCAATCTTGTAG 58.115 34.615 0.00 0.00 35.25 2.74
1853 1975 6.139679 AGGAAATGGTTCAATCTTGTAGGA 57.860 37.500 0.00 0.00 35.25 2.94
1855 1977 6.434340 AGGAAATGGTTCAATCTTGTAGGAAC 59.566 38.462 0.00 0.00 39.04 3.62
1857 1979 6.824305 AATGGTTCAATCTTGTAGGAACTG 57.176 37.500 0.00 0.00 41.52 3.16
1858 1980 5.560722 TGGTTCAATCTTGTAGGAACTGA 57.439 39.130 0.00 0.00 41.52 3.41
1860 1982 5.939883 TGGTTCAATCTTGTAGGAACTGATG 59.060 40.000 0.00 0.00 41.52 3.07
1861 1983 6.173339 GGTTCAATCTTGTAGGAACTGATGA 58.827 40.000 0.00 0.00 41.52 2.92
1874 2013 3.018423 ACTGATGAAAATGGGGCCTAC 57.982 47.619 0.84 0.00 0.00 3.18
1875 2014 2.582636 ACTGATGAAAATGGGGCCTACT 59.417 45.455 0.84 0.00 0.00 2.57
1876 2015 3.011708 ACTGATGAAAATGGGGCCTACTT 59.988 43.478 0.84 0.00 0.00 2.24
1887 2026 6.943899 ATGGGGCCTACTTTTTGAATTTTA 57.056 33.333 0.84 0.00 0.00 1.52
1888 2027 6.104146 TGGGGCCTACTTTTTGAATTTTAC 57.896 37.500 0.84 0.00 0.00 2.01
1895 2034 7.114388 GCCTACTTTTTGAATTTTACGTTCTGG 59.886 37.037 0.00 0.00 0.00 3.86
1907 2046 3.775661 ACGTTCTGGTTCTTTGTTTGG 57.224 42.857 0.00 0.00 0.00 3.28
1915 2054 4.090090 TGGTTCTTTGTTTGGTGGAAGAA 58.910 39.130 0.00 0.00 36.19 2.52
2030 2179 6.478129 ACCTCAAAGGATTCGTGGTAAATAA 58.522 36.000 0.00 0.00 37.67 1.40
2031 2180 6.943718 ACCTCAAAGGATTCGTGGTAAATAAA 59.056 34.615 0.00 0.00 37.67 1.40
2032 2181 7.614192 ACCTCAAAGGATTCGTGGTAAATAAAT 59.386 33.333 0.00 0.00 37.67 1.40
2033 2182 7.915397 CCTCAAAGGATTCGTGGTAAATAAATG 59.085 37.037 0.00 0.00 37.67 2.32
2058 2207 6.610741 TTGAAACCCATGTTTTATTTGCAC 57.389 33.333 0.00 0.00 44.57 4.57
2065 2214 5.990996 CCCATGTTTTATTTGCACAAGTTCT 59.009 36.000 0.00 0.00 0.00 3.01
2066 2215 6.482973 CCCATGTTTTATTTGCACAAGTTCTT 59.517 34.615 0.00 0.00 0.00 2.52
2067 2216 7.307337 CCCATGTTTTATTTGCACAAGTTCTTC 60.307 37.037 0.00 0.00 0.00 2.87
2068 2217 6.804534 TGTTTTATTTGCACAAGTTCTTCG 57.195 33.333 0.00 0.00 0.00 3.79
2072 2221 9.341899 GTTTTATTTGCACAAGTTCTTCGATAT 57.658 29.630 0.00 0.00 0.00 1.63
2077 2226 8.894409 TTTGCACAAGTTCTTCGATATAAATG 57.106 30.769 0.00 0.00 0.00 2.32
2205 2445 3.435275 TGATCTCTGACAGCACTTACCT 58.565 45.455 0.00 0.00 0.00 3.08
2275 2515 4.763793 CCTGAATGTGTCAAGAACCTGAAT 59.236 41.667 0.00 0.00 35.22 2.57
2362 2602 1.279271 GCCTCTCTCAAACTTGGCCTA 59.721 52.381 3.32 0.00 34.81 3.93
2395 2635 7.962918 CGCTATGTAAGTGTTTTGCTTCTAAAT 59.037 33.333 0.00 0.00 0.00 1.40
2444 2684 9.715121 ACTCGTTAAAATTCCAGTTCTTACATA 57.285 29.630 0.00 0.00 0.00 2.29
2455 2695 8.842358 TCCAGTTCTTACATAAAAAGGTACAG 57.158 34.615 0.00 0.00 0.00 2.74
2482 2722 2.440627 TGTGGATTCTATGAGCAGGCAT 59.559 45.455 0.00 0.00 0.00 4.40
2553 2793 5.188359 GGGTAGTTGTTAATCAGGGTAGACA 59.812 44.000 0.00 0.00 0.00 3.41
2613 2853 5.588648 CCGCCATTTTAGACTGAATAAGGAA 59.411 40.000 0.00 0.00 0.00 3.36
2651 2891 4.833380 TCAGTGTAGTTTCTCTGCTAAGGT 59.167 41.667 0.00 0.00 0.00 3.50
2805 3045 7.925043 TTAGAAGGTTCTGTTTTGTGTGTTA 57.075 32.000 2.32 0.00 38.19 2.41
2821 3061 4.333649 GTGTGTTATACAGAGTGCATGCAT 59.666 41.667 25.64 12.95 40.69 3.96
2848 3088 2.050691 GCAACTGTGGCATTTAACACG 58.949 47.619 1.37 0.00 40.39 4.49
2867 3107 3.616821 CACGGCTTGAATTTCGATAGTGA 59.383 43.478 9.09 0.00 37.40 3.41
2873 3113 6.260050 GGCTTGAATTTCGATAGTGATACCAA 59.740 38.462 0.00 0.00 37.40 3.67
2874 3114 7.348201 GCTTGAATTTCGATAGTGATACCAAG 58.652 38.462 0.00 0.00 32.64 3.61
2875 3115 7.011482 GCTTGAATTTCGATAGTGATACCAAGT 59.989 37.037 0.00 0.00 32.42 3.16
2876 3116 9.529325 CTTGAATTTCGATAGTGATACCAAGTA 57.471 33.333 0.00 0.00 37.40 2.24
2877 3117 9.529325 TTGAATTTCGATAGTGATACCAAGTAG 57.471 33.333 0.00 0.00 37.40 2.57
2878 3118 8.141909 TGAATTTCGATAGTGATACCAAGTAGG 58.858 37.037 0.00 0.00 39.98 3.18
2918 3158 9.281371 AGATATACATGAATGTTGACATGAAGG 57.719 33.333 12.90 0.00 44.28 3.46
2945 3185 8.853345 GTGATGTTTATTCAATTTGCTACAGTG 58.147 33.333 0.00 0.00 0.00 3.66
2964 3204 5.010922 ACAGTGATTTGCATTGCCTTAGAAA 59.989 36.000 6.12 0.00 37.72 2.52
3236 3476 3.197265 CCTTGGAAAACTTGCAGGTTTG 58.803 45.455 25.43 13.38 34.81 2.93
3419 3659 4.550076 ATGCTTCCTATCTACCATGAGC 57.450 45.455 0.00 0.00 0.00 4.26
3438 3678 3.892918 GCTAATTGCAGCTGGTATCAG 57.107 47.619 17.12 0.00 41.69 2.90
3479 3719 2.646121 CCAGAAGGCCCAACACTTC 58.354 57.895 0.00 0.00 42.56 3.01
3483 3723 2.062636 AGAAGGCCCAACACTTCCTTA 58.937 47.619 0.00 0.00 43.10 2.69
3492 3732 5.163612 GCCCAACACTTCCTTATTTCAGATC 60.164 44.000 0.00 0.00 0.00 2.75
3495 3735 6.317391 CCAACACTTCCTTATTTCAGATCTCC 59.683 42.308 0.00 0.00 0.00 3.71
3508 3748 6.611613 TTCAGATCTCCTATATTCCGCATT 57.388 37.500 0.00 0.00 0.00 3.56
3523 3763 2.210116 CGCATTACCGAGCCATTTACT 58.790 47.619 0.00 0.00 0.00 2.24
3536 3776 3.983344 GCCATTTACTGAGTTTGCTTGTG 59.017 43.478 0.00 0.00 0.00 3.33
3594 3834 7.453393 TGAAGTCCATCTTGTTTCTGAGTTAT 58.547 34.615 0.00 0.00 36.40 1.89
3670 3911 6.975197 ACATTATATCGATATCGGCTTGTCTG 59.025 38.462 24.12 15.30 40.29 3.51
3671 3912 6.510879 TTATATCGATATCGGCTTGTCTGT 57.489 37.500 24.12 0.00 40.29 3.41
3679 3920 6.806739 CGATATCGGCTTGTCTGTATAAATGA 59.193 38.462 17.51 0.00 35.37 2.57
3687 3928 9.547753 GGCTTGTCTGTATAAATGAAGATCTTA 57.452 33.333 8.25 0.00 0.00 2.10
4011 4254 4.144297 TCTGTCCCAGAAAGACCATTTTG 58.856 43.478 0.00 0.00 37.57 2.44
4013 4256 3.888930 TGTCCCAGAAAGACCATTTTGAC 59.111 43.478 0.00 0.00 33.09 3.18
4014 4257 3.888930 GTCCCAGAAAGACCATTTTGACA 59.111 43.478 0.00 0.00 0.00 3.58
4015 4258 4.524328 GTCCCAGAAAGACCATTTTGACAT 59.476 41.667 0.00 0.00 0.00 3.06
4016 4259 4.766891 TCCCAGAAAGACCATTTTGACATC 59.233 41.667 0.00 0.00 0.00 3.06
4029 4276 7.094032 ACCATTTTGACATCAAATTCTCCTCTC 60.094 37.037 7.83 0.00 44.30 3.20
4075 4323 6.464039 GGAGTCAGGTTTACAAAGGACTAACT 60.464 42.308 0.00 0.00 35.88 2.24
4242 4492 9.487790 AAAATCATATTCACCGTTTTTCACATT 57.512 25.926 0.00 0.00 0.00 2.71
4243 4493 8.687824 AATCATATTCACCGTTTTTCACATTC 57.312 30.769 0.00 0.00 0.00 2.67
4432 4683 8.854614 ACTCACTGCATAGAAAGAAAATAACT 57.145 30.769 0.00 0.00 0.00 2.24
4437 4770 7.123247 ACTGCATAGAAAGAAAATAACTGGCAT 59.877 33.333 0.00 0.00 0.00 4.40
4525 4858 0.680921 CTGGGGTACTGGTTGCATGG 60.681 60.000 0.00 0.00 0.00 3.66
4526 4859 1.136961 TGGGGTACTGGTTGCATGGA 61.137 55.000 0.00 0.00 0.00 3.41
4527 4860 0.679960 GGGGTACTGGTTGCATGGAC 60.680 60.000 0.00 0.00 0.00 4.02
4528 4861 0.328258 GGGTACTGGTTGCATGGACT 59.672 55.000 0.00 0.00 0.00 3.85
4529 4862 1.271926 GGGTACTGGTTGCATGGACTT 60.272 52.381 0.00 0.00 0.00 3.01
4530 4863 2.026636 GGGTACTGGTTGCATGGACTTA 60.027 50.000 0.00 0.00 0.00 2.24
4531 4864 3.007635 GGTACTGGTTGCATGGACTTAC 58.992 50.000 0.00 0.00 0.00 2.34
4532 4865 2.200373 ACTGGTTGCATGGACTTACC 57.800 50.000 0.00 0.00 39.54 2.85
4533 4866 1.705186 ACTGGTTGCATGGACTTACCT 59.295 47.619 7.91 0.00 39.86 3.08
4534 4867 2.086869 CTGGTTGCATGGACTTACCTG 58.913 52.381 7.91 4.04 39.86 4.00
4535 4868 1.271871 TGGTTGCATGGACTTACCTGG 60.272 52.381 7.91 0.00 39.86 4.45
4536 4869 1.004277 GGTTGCATGGACTTACCTGGA 59.996 52.381 0.00 0.00 39.86 3.86
4537 4870 2.359900 GTTGCATGGACTTACCTGGAG 58.640 52.381 0.00 0.00 39.86 3.86
4538 4871 0.253044 TGCATGGACTTACCTGGAGC 59.747 55.000 0.00 0.00 39.86 4.70
4539 4872 0.464554 GCATGGACTTACCTGGAGCC 60.465 60.000 0.00 0.00 39.86 4.70
4540 4873 1.207791 CATGGACTTACCTGGAGCCT 58.792 55.000 0.00 0.00 39.86 4.58
4541 4874 1.561542 CATGGACTTACCTGGAGCCTT 59.438 52.381 0.00 0.00 39.86 4.35
4542 4875 1.742308 TGGACTTACCTGGAGCCTTT 58.258 50.000 0.00 0.00 39.86 3.11
4543 4876 2.062636 TGGACTTACCTGGAGCCTTTT 58.937 47.619 0.00 0.00 39.86 2.27
4544 4877 2.445525 TGGACTTACCTGGAGCCTTTTT 59.554 45.455 0.00 0.00 39.86 1.94
4589 4922 1.000938 GAGCCTTGACTGCAAACCTTG 60.001 52.381 0.00 0.00 32.73 3.61
4607 4940 3.508793 CCTTGATGTTGTGCTCCAATTCT 59.491 43.478 0.00 0.00 35.02 2.40
4633 4966 1.284657 CCAGCGAGTTGACTGCATAG 58.715 55.000 0.00 0.00 32.37 2.23
4697 5030 8.756486 TCCATCACATGAATTTATCTTGTCAT 57.244 30.769 0.00 0.00 42.68 3.06
4708 5041 8.985315 AATTTATCTTGTCATCCAGCTTATGA 57.015 30.769 4.69 4.69 0.00 2.15
4712 5045 7.893124 ATCTTGTCATCCAGCTTATGAAATT 57.107 32.000 9.55 0.00 35.23 1.82
4717 5050 6.543465 TGTCATCCAGCTTATGAAATTAGTGG 59.457 38.462 9.55 0.00 35.23 4.00
4883 5217 5.766174 TCCATTACCAGGACACAAAAACTAC 59.234 40.000 0.00 0.00 0.00 2.73
4911 5245 5.473504 AGGATCAACTTACACACATCAAACC 59.526 40.000 0.00 0.00 0.00 3.27
4957 5292 5.486526 ACAAAGGAACAAAATTCAGCAACA 58.513 33.333 0.00 0.00 0.00 3.33
4999 5340 3.153130 TCATAGAGAGAAGGGATCAGCG 58.847 50.000 0.00 0.00 0.00 5.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.505557 GCAGCTGCGAACATTGCC 60.506 61.111 25.23 0.00 32.83 4.52
1 2 1.800315 CTGCAGCTGCGAACATTGC 60.800 57.895 32.11 8.06 45.83 3.56
2 3 1.800315 GCTGCAGCTGCGAACATTG 60.800 57.895 32.11 16.45 45.83 2.82
3 4 2.564975 GCTGCAGCTGCGAACATT 59.435 55.556 32.11 0.00 45.83 2.71
36 37 2.030958 GTGGGTAAACCGGCTGACG 61.031 63.158 0.00 0.00 44.64 4.35
37 38 0.672711 GAGTGGGTAAACCGGCTGAC 60.673 60.000 0.00 0.00 44.64 3.51
38 39 1.675219 GAGTGGGTAAACCGGCTGA 59.325 57.895 0.00 0.00 44.64 4.26
39 40 1.376812 GGAGTGGGTAAACCGGCTG 60.377 63.158 0.00 0.00 44.64 4.85
40 41 1.838073 CTGGAGTGGGTAAACCGGCT 61.838 60.000 0.00 0.00 44.64 5.52
41 42 1.376812 CTGGAGTGGGTAAACCGGC 60.377 63.158 0.00 0.00 44.64 6.13
42 43 1.376812 GCTGGAGTGGGTAAACCGG 60.377 63.158 0.00 0.00 44.64 5.28
43 44 1.740296 CGCTGGAGTGGGTAAACCG 60.740 63.158 0.00 0.00 44.64 4.44
44 45 2.038837 GCGCTGGAGTGGGTAAACC 61.039 63.158 0.00 0.00 40.81 3.27
45 46 2.388232 CGCGCTGGAGTGGGTAAAC 61.388 63.158 5.56 0.00 34.35 2.01
46 47 2.047655 CGCGCTGGAGTGGGTAAA 60.048 61.111 5.56 0.00 34.35 2.01
74 75 1.600916 GACCTGTGTTGCTCACCCC 60.601 63.158 9.37 0.00 45.61 4.95
77 78 1.221414 GAGTGACCTGTGTTGCTCAC 58.779 55.000 5.83 5.83 46.31 3.51
79 80 0.603975 GGGAGTGACCTGTGTTGCTC 60.604 60.000 0.00 0.00 38.98 4.26
80 81 1.451936 GGGAGTGACCTGTGTTGCT 59.548 57.895 0.00 0.00 38.98 3.91
81 82 1.961277 CGGGAGTGACCTGTGTTGC 60.961 63.158 0.00 0.00 40.03 4.17
84 85 3.626924 GCCGGGAGTGACCTGTGT 61.627 66.667 2.18 0.00 43.20 3.72
279 303 2.114616 GGAGGAAGAAGATGAGGCTGA 58.885 52.381 0.00 0.00 0.00 4.26
301 325 1.745489 GTGTGAATGAGACGGGGGC 60.745 63.158 0.00 0.00 0.00 5.80
337 361 4.051237 CAGCAGCGCAATAGTATAGTGAA 58.949 43.478 11.47 0.00 39.37 3.18
374 398 2.808315 CACCGCGGTATCTGCTCT 59.192 61.111 33.70 0.61 0.00 4.09
475 508 2.658593 GGCGGATCGGATCGTGTG 60.659 66.667 11.62 3.41 0.00 3.82
490 523 2.272471 CGGAGGAGGGAAAAGGGC 59.728 66.667 0.00 0.00 0.00 5.19
795 844 2.093341 GGGTTGCTTGCATGGATTTCAT 60.093 45.455 1.34 0.00 36.31 2.57
817 866 1.662044 GCCACCACAAAGAAGGCTG 59.338 57.895 0.00 0.00 42.01 4.85
818 867 1.531602 GGCCACCACAAAGAAGGCT 60.532 57.895 0.00 0.00 44.60 4.58
819 868 2.574018 GGGCCACCACAAAGAAGGC 61.574 63.158 4.39 0.00 44.48 4.35
821 870 0.178992 TCAGGGCCACCACAAAGAAG 60.179 55.000 6.18 0.00 40.13 2.85
822 871 0.178992 CTCAGGGCCACCACAAAGAA 60.179 55.000 6.18 0.00 40.13 2.52
823 872 1.352622 ACTCAGGGCCACCACAAAGA 61.353 55.000 6.18 0.00 40.13 2.52
824 873 0.400213 TACTCAGGGCCACCACAAAG 59.600 55.000 6.18 0.00 40.13 2.77
826 875 0.618458 GATACTCAGGGCCACCACAA 59.382 55.000 6.18 0.00 40.13 3.33
827 876 0.252696 AGATACTCAGGGCCACCACA 60.253 55.000 6.18 0.00 40.13 4.17
852 904 2.750637 CTGCTGGCAGGAGCTTGG 60.751 66.667 23.27 0.00 39.90 3.61
941 1022 1.133915 GGTGGTGGTGAAGTGGAAGAA 60.134 52.381 0.00 0.00 0.00 2.52
1368 1473 2.878406 TCAAGCTGAAGAAAAAGACGGG 59.122 45.455 0.00 0.00 0.00 5.28
1395 1503 1.497722 GCCAGCGCCGCTAATAATC 59.502 57.895 13.03 0.00 36.40 1.75
1409 1517 2.053865 ATTGGACCAATGCGGCCAG 61.054 57.895 19.17 0.00 40.61 4.85
1410 1518 2.037049 ATTGGACCAATGCGGCCA 59.963 55.556 19.17 0.00 38.66 5.36
1411 1519 2.495866 CATTGGACCAATGCGGCC 59.504 61.111 29.54 0.00 43.38 6.13
1486 1594 1.074752 GCGACTCCAAGAAGAGCAAG 58.925 55.000 0.00 0.00 37.39 4.01
1510 1618 2.038975 TAGGAGAAGCCCACGCCT 59.961 61.111 0.00 0.00 40.38 5.52
1626 1734 6.494893 TGGTACCAAAATTCTGAAGAATCG 57.505 37.500 13.60 0.00 43.41 3.34
1634 1742 6.805713 ACAAGAAGTTGGTACCAAAATTCTG 58.194 36.000 34.96 30.37 40.36 3.02
1635 1743 6.040504 GGACAAGAAGTTGGTACCAAAATTCT 59.959 38.462 31.96 31.96 41.69 2.40
1644 1753 3.067833 GCAGAGGACAAGAAGTTGGTAC 58.932 50.000 0.00 0.00 38.07 3.34
1646 1755 1.202818 GGCAGAGGACAAGAAGTTGGT 60.203 52.381 0.00 0.00 38.07 3.67
1655 1764 1.661463 AATGAGGAGGCAGAGGACAA 58.339 50.000 0.00 0.00 0.00 3.18
1713 1822 0.617413 CTCTCCAGCCAGTTCACCAT 59.383 55.000 0.00 0.00 0.00 3.55
1793 1902 9.625747 TGTGATATTCCTGCATTTGAAAGTATA 57.374 29.630 0.00 0.00 0.00 1.47
1794 1903 8.523915 TGTGATATTCCTGCATTTGAAAGTAT 57.476 30.769 0.00 0.00 0.00 2.12
1797 1906 8.537049 TTTTGTGATATTCCTGCATTTGAAAG 57.463 30.769 0.00 0.00 0.00 2.62
1801 1910 9.763465 GAAAATTTTGTGATATTCCTGCATTTG 57.237 29.630 8.47 0.00 0.00 2.32
1802 1911 9.504708 TGAAAATTTTGTGATATTCCTGCATTT 57.495 25.926 8.47 0.00 0.00 2.32
1814 1936 8.750515 ACCATTTCCTTTGAAAATTTTGTGAT 57.249 26.923 8.47 0.00 43.37 3.06
1817 1939 8.572855 TGAACCATTTCCTTTGAAAATTTTGT 57.427 26.923 8.47 0.00 43.37 2.83
1829 1951 6.552008 TCCTACAAGATTGAACCATTTCCTT 58.448 36.000 0.00 0.00 0.00 3.36
1845 1967 5.126061 CCCCATTTTCATCAGTTCCTACAAG 59.874 44.000 0.00 0.00 0.00 3.16
1846 1968 5.016173 CCCCATTTTCATCAGTTCCTACAA 58.984 41.667 0.00 0.00 0.00 2.41
1849 1971 3.627237 GGCCCCATTTTCATCAGTTCCTA 60.627 47.826 0.00 0.00 0.00 2.94
1850 1972 2.460669 GCCCCATTTTCATCAGTTCCT 58.539 47.619 0.00 0.00 0.00 3.36
1851 1973 1.482182 GGCCCCATTTTCATCAGTTCC 59.518 52.381 0.00 0.00 0.00 3.62
1853 1975 2.629017 AGGCCCCATTTTCATCAGTT 57.371 45.000 0.00 0.00 0.00 3.16
1855 1977 3.303351 AGTAGGCCCCATTTTCATCAG 57.697 47.619 0.00 0.00 0.00 2.90
1857 1979 5.046663 TCAAAAAGTAGGCCCCATTTTCATC 60.047 40.000 0.00 0.00 0.00 2.92
1858 1980 4.843516 TCAAAAAGTAGGCCCCATTTTCAT 59.156 37.500 0.00 0.00 0.00 2.57
1860 1982 4.882842 TCAAAAAGTAGGCCCCATTTTC 57.117 40.909 0.00 0.00 0.00 2.29
1861 1983 5.841267 ATTCAAAAAGTAGGCCCCATTTT 57.159 34.783 0.00 0.81 0.00 1.82
1874 2013 8.628882 AGAACCAGAACGTAAAATTCAAAAAG 57.371 30.769 0.00 0.00 0.00 2.27
1875 2014 8.989653 AAGAACCAGAACGTAAAATTCAAAAA 57.010 26.923 0.00 0.00 0.00 1.94
1876 2015 8.865001 CAAAGAACCAGAACGTAAAATTCAAAA 58.135 29.630 0.00 0.00 0.00 2.44
1887 2026 3.086282 ACCAAACAAAGAACCAGAACGT 58.914 40.909 0.00 0.00 0.00 3.99
1888 2027 3.434637 CACCAAACAAAGAACCAGAACG 58.565 45.455 0.00 0.00 0.00 3.95
1895 2034 5.901552 TCATTCTTCCACCAAACAAAGAAC 58.098 37.500 0.00 0.00 39.72 3.01
2030 2179 8.134261 GCAAATAAAACATGGGTTTCAAACATT 58.866 29.630 1.93 0.00 46.20 2.71
2031 2180 7.284034 TGCAAATAAAACATGGGTTTCAAACAT 59.716 29.630 1.93 0.00 46.20 2.71
2032 2181 6.599244 TGCAAATAAAACATGGGTTTCAAACA 59.401 30.769 1.93 0.00 46.20 2.83
2033 2182 6.909895 GTGCAAATAAAACATGGGTTTCAAAC 59.090 34.615 0.00 0.00 46.20 2.93
2041 2190 5.990996 AGAACTTGTGCAAATAAAACATGGG 59.009 36.000 0.00 0.00 0.00 4.00
2058 2207 7.251704 ACTGGCATTTATATCGAAGAACTTG 57.748 36.000 0.00 0.00 43.58 3.16
2065 2214 7.857734 TTCAGAAACTGGCATTTATATCGAA 57.142 32.000 0.00 0.00 31.51 3.71
2066 2215 7.857734 TTTCAGAAACTGGCATTTATATCGA 57.142 32.000 0.00 0.00 31.51 3.59
2067 2216 8.327832 GTTTTCAGAAACTGGCATTTATATCG 57.672 34.615 0.00 0.00 41.50 2.92
2095 2335 5.069119 CCCCACCTTAATTTTCAGGAATAGC 59.931 44.000 5.29 0.00 33.90 2.97
2205 2445 4.883585 ACAAGCATGTCTTCTTCAAGTTGA 59.116 37.500 0.08 0.08 33.41 3.18
2275 2515 1.825474 CCTTCTTCGGAACTAGCCAGA 59.175 52.381 0.00 0.00 0.00 3.86
2362 2602 2.736347 ACACTTACATAGCGTCCTCCT 58.264 47.619 0.00 0.00 0.00 3.69
2395 2635 7.151308 AGTTGCAAAATGATCGGTTATGAAAA 58.849 30.769 0.00 0.00 0.00 2.29
2399 2639 4.730042 CGAGTTGCAAAATGATCGGTTATG 59.270 41.667 0.00 0.00 0.00 1.90
2444 2684 3.201266 TCCACACTCCACTGTACCTTTTT 59.799 43.478 0.00 0.00 0.00 1.94
2445 2685 2.775384 TCCACACTCCACTGTACCTTTT 59.225 45.455 0.00 0.00 0.00 2.27
2449 2689 2.567615 AGAATCCACACTCCACTGTACC 59.432 50.000 0.00 0.00 0.00 3.34
2455 2695 3.118629 TGCTCATAGAATCCACACTCCAC 60.119 47.826 0.00 0.00 0.00 4.02
2482 2722 5.681337 TTTCGTTATTGACATTGCACTGA 57.319 34.783 11.48 0.00 0.00 3.41
2542 2782 5.560722 TCAATTCAGTTTGTCTACCCTGA 57.439 39.130 0.00 0.00 32.38 3.86
2553 2793 8.980596 TGGGCTGATATTAAATCAATTCAGTTT 58.019 29.630 0.00 0.00 35.91 2.66
2613 2853 4.342862 ACACTGAGCTGAACTGTATTGT 57.657 40.909 0.00 0.00 0.00 2.71
2618 2858 4.100189 AGAAACTACACTGAGCTGAACTGT 59.900 41.667 0.00 0.00 0.00 3.55
2651 2891 6.537453 CATTTATTGGACCAATTGTACCCA 57.463 37.500 24.48 2.19 35.54 4.51
2687 2927 4.453136 GCACCCGTTACTTCAGTTTATCAA 59.547 41.667 0.00 0.00 0.00 2.57
2805 3045 3.623703 TGGAAATGCATGCACTCTGTAT 58.376 40.909 25.37 1.29 0.00 2.29
2821 3061 2.818111 TGCCACAGTTGCATGGAAA 58.182 47.368 8.28 0.00 38.34 3.13
2848 3088 5.758296 TGGTATCACTATCGAAATTCAAGCC 59.242 40.000 0.00 0.00 0.00 4.35
2917 3157 7.319646 TGTAGCAAATTGAATAAACATCACCC 58.680 34.615 0.00 0.00 0.00 4.61
2918 3158 8.028938 ACTGTAGCAAATTGAATAAACATCACC 58.971 33.333 0.00 0.00 0.00 4.02
2945 3185 9.101655 ACAAATATTTCTAAGGCAATGCAAATC 57.898 29.630 7.79 0.00 0.00 2.17
3184 3424 3.997762 TCCAGTTGTGTTAGCGTGTAAT 58.002 40.909 0.00 0.00 0.00 1.89
3236 3476 8.021396 AGGTGTATTTTTCAGCTAAAACGATTC 58.979 33.333 0.00 0.00 40.99 2.52
3419 3659 4.077300 TCCTGATACCAGCTGCAATTAG 57.923 45.455 8.66 9.45 39.07 1.73
3438 3678 5.246307 GCACTTACCTGAATACCCATATCC 58.754 45.833 0.00 0.00 0.00 2.59
3473 3713 6.882768 AGGAGATCTGAAATAAGGAAGTGT 57.117 37.500 0.00 0.00 0.00 3.55
3479 3719 7.708752 GCGGAATATAGGAGATCTGAAATAAGG 59.291 40.741 0.00 0.00 0.00 2.69
3483 3723 6.611613 TGCGGAATATAGGAGATCTGAAAT 57.388 37.500 0.00 0.00 0.00 2.17
3492 3732 4.673441 CTCGGTAATGCGGAATATAGGAG 58.327 47.826 0.00 0.00 0.00 3.69
3495 3735 3.187700 GGCTCGGTAATGCGGAATATAG 58.812 50.000 0.00 0.00 0.00 1.31
3508 3748 4.250464 CAAACTCAGTAAATGGCTCGGTA 58.750 43.478 0.00 0.00 0.00 4.02
3523 3763 3.213206 AGACATCCACAAGCAAACTCA 57.787 42.857 0.00 0.00 0.00 3.41
3536 3776 9.654663 ACTGACAAAAACTTATACTAGACATCC 57.345 33.333 0.00 0.00 0.00 3.51
3567 3807 5.070981 ACTCAGAAACAAGATGGACTTCAGA 59.929 40.000 0.00 0.00 36.61 3.27
3594 3834 8.821686 ATACCAAACACATAAAGATGATTCCA 57.178 30.769 0.00 0.00 36.48 3.53
3687 3928 5.598417 GGGGCAATAGTCTAAATGTTTGGAT 59.402 40.000 0.00 0.00 30.29 3.41
3721 3962 7.437748 AGAATATGGAGTTCTATTCCTGTTCG 58.562 38.462 0.00 0.00 35.75 3.95
4011 4254 7.303998 CAAAACAGAGAGGAGAATTTGATGTC 58.696 38.462 0.00 0.00 0.00 3.06
4013 4256 6.091437 GCAAAACAGAGAGGAGAATTTGATG 58.909 40.000 0.00 0.00 0.00 3.07
4014 4257 5.771666 TGCAAAACAGAGAGGAGAATTTGAT 59.228 36.000 0.00 0.00 0.00 2.57
4015 4258 5.132502 TGCAAAACAGAGAGGAGAATTTGA 58.867 37.500 0.00 0.00 0.00 2.69
4016 4259 5.443185 TGCAAAACAGAGAGGAGAATTTG 57.557 39.130 0.00 0.00 0.00 2.32
4029 4276 1.402787 ACCTCCAACCTGCAAAACAG 58.597 50.000 0.00 0.00 46.77 3.16
4432 4683 8.666573 CAAGAATTTGTATATGCAAAAATGCCA 58.333 29.630 20.62 0.00 41.03 4.92
4487 4820 5.300286 CCCCAGTTAATCAGTTGGATGATTC 59.700 44.000 5.29 0.00 44.68 2.52
4489 4822 4.230502 ACCCCAGTTAATCAGTTGGATGAT 59.769 41.667 0.00 0.00 41.72 2.45
4490 4823 3.591527 ACCCCAGTTAATCAGTTGGATGA 59.408 43.478 0.00 0.00 36.02 2.92
4491 4824 3.968265 ACCCCAGTTAATCAGTTGGATG 58.032 45.455 0.00 0.00 36.02 3.51
4547 4880 5.553123 TCCAGGTAAGTCTATTCGCAAAAA 58.447 37.500 0.00 0.00 0.00 1.94
4548 4881 5.155278 TCCAGGTAAGTCTATTCGCAAAA 57.845 39.130 0.00 0.00 0.00 2.44
4549 4882 4.755411 CTCCAGGTAAGTCTATTCGCAAA 58.245 43.478 0.00 0.00 0.00 3.68
4550 4883 3.430374 GCTCCAGGTAAGTCTATTCGCAA 60.430 47.826 0.00 0.00 0.00 4.85
4551 4884 2.100916 GCTCCAGGTAAGTCTATTCGCA 59.899 50.000 0.00 0.00 0.00 5.10
4552 4885 2.546162 GGCTCCAGGTAAGTCTATTCGC 60.546 54.545 0.00 0.00 0.00 4.70
4553 4886 2.959707 AGGCTCCAGGTAAGTCTATTCG 59.040 50.000 0.00 0.00 0.00 3.34
4554 4887 4.406003 TCAAGGCTCCAGGTAAGTCTATTC 59.594 45.833 0.00 0.00 0.00 1.75
4555 4888 4.162509 GTCAAGGCTCCAGGTAAGTCTATT 59.837 45.833 0.00 0.00 0.00 1.73
4556 4889 3.707102 GTCAAGGCTCCAGGTAAGTCTAT 59.293 47.826 0.00 0.00 0.00 1.98
4557 4890 3.097614 GTCAAGGCTCCAGGTAAGTCTA 58.902 50.000 0.00 0.00 0.00 2.59
4558 4891 1.903183 GTCAAGGCTCCAGGTAAGTCT 59.097 52.381 0.00 0.00 0.00 3.24
4589 4922 4.771590 TTCAGAATTGGAGCACAACATC 57.228 40.909 0.00 0.00 42.94 3.06
4607 4940 1.347707 AGTCAACTCGCTGGGAATTCA 59.652 47.619 7.93 0.00 0.00 2.57
4663 4996 6.839124 AATTCATGTGATGGAGCTTTGTTA 57.161 33.333 0.00 0.00 0.00 2.41
4664 4997 5.733620 AATTCATGTGATGGAGCTTTGTT 57.266 34.783 0.00 0.00 0.00 2.83
4665 4998 5.733620 AAATTCATGTGATGGAGCTTTGT 57.266 34.783 0.00 0.00 0.00 2.83
4666 4999 7.713750 AGATAAATTCATGTGATGGAGCTTTG 58.286 34.615 0.00 0.00 0.00 2.77
4667 5000 7.893124 AGATAAATTCATGTGATGGAGCTTT 57.107 32.000 0.00 0.00 0.00 3.51
4668 5001 7.341256 ACAAGATAAATTCATGTGATGGAGCTT 59.659 33.333 0.00 0.00 35.07 3.74
4669 5002 6.832384 ACAAGATAAATTCATGTGATGGAGCT 59.168 34.615 0.00 0.00 35.07 4.09
4697 5030 5.880332 GTCACCACTAATTTCATAAGCTGGA 59.120 40.000 0.00 0.00 0.00 3.86
4740 5073 7.156876 TGGATTCTGTTTTGATTATCCACAC 57.843 36.000 0.00 0.00 37.28 3.82
4785 5118 1.780503 AGCTTTCTGTGTGGGCTTTT 58.219 45.000 0.00 0.00 0.00 2.27
4789 5122 2.185004 TTCTAGCTTTCTGTGTGGGC 57.815 50.000 0.00 0.00 0.00 5.36
4883 5217 6.398095 TGATGTGTGTAAGTTGATCCTACTG 58.602 40.000 0.00 0.00 0.00 2.74
4911 5245 2.509931 TAGTGGAGGACGACCCCAGG 62.510 65.000 12.79 0.00 37.25 4.45
4923 5258 6.633500 TTTGTTCCTTTGTTCATAGTGGAG 57.367 37.500 0.00 0.00 0.00 3.86
4999 5340 2.123812 ACGGACGATCCTCCTCCC 60.124 66.667 8.83 0.00 33.30 4.30
5164 5508 2.532256 CGCCTACGAGGTCGACGAT 61.532 63.158 9.92 0.00 43.93 3.73


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

AutoCloner maintained by Alex Coulton.