Multiple sequence alignment - TraesCS3D01G048600

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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 TraesCS3D01G048600 chr3D 100.000 2607 0 0 1 2607 18730221 18732827 0.000000e+00 4815.0
1 TraesCS3D01G048600 chr3D 90.551 1143 99 9 610 1750 18694125 18695260 0.000000e+00 1504.0
2 TraesCS3D01G048600 chr3D 85.664 1130 150 10 280 1402 18952626 18953750 0.000000e+00 1179.0
3 TraesCS3D01G048600 chr3B 87.467 2306 241 26 309 2607 30438332 30440596 0.000000e+00 2614.0
4 TraesCS3D01G048600 chr3B 90.019 1583 137 14 171 1750 29717818 29719382 0.000000e+00 2028.0
5 TraesCS3D01G048600 chr3B 88.773 1532 143 18 222 1750 30276552 30278057 0.000000e+00 1849.0
6 TraesCS3D01G048600 chr3B 88.041 1572 164 16 179 1750 29951547 29953094 0.000000e+00 1840.0
7 TraesCS3D01G048600 chr3B 88.642 1532 145 18 222 1750 29890242 29891747 0.000000e+00 1838.0
8 TraesCS3D01G048600 chr3B 82.383 1385 219 21 239 1611 29610379 29611750 0.000000e+00 1182.0
9 TraesCS3D01G048600 chr3B 91.644 371 17 6 1762 2129 29691081 29691440 3.870000e-138 501.0
10 TraesCS3D01G048600 chr3B 80.312 320 53 7 2290 2607 29720206 29720517 1.560000e-57 233.0
11 TraesCS3D01G048600 chr3B 77.815 302 46 10 2286 2586 29953735 29954016 1.600000e-37 167.0
12 TraesCS3D01G048600 chr3B 76.636 214 25 13 2391 2604 29892552 29892740 7.680000e-16 95.3
13 TraesCS3D01G048600 chr3A 85.959 1111 147 8 296 1402 26427614 26428719 0.000000e+00 1179.0


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 TraesCS3D01G048600 chr3D 18730221 18732827 2606 False 4815.00 4815 100.0000 1 2607 1 chr3D.!!$F2 2606
1 TraesCS3D01G048600 chr3D 18694125 18695260 1135 False 1504.00 1504 90.5510 610 1750 1 chr3D.!!$F1 1140
2 TraesCS3D01G048600 chr3D 18952626 18953750 1124 False 1179.00 1179 85.6640 280 1402 1 chr3D.!!$F3 1122
3 TraesCS3D01G048600 chr3B 30438332 30440596 2264 False 2614.00 2614 87.4670 309 2607 1 chr3B.!!$F4 2298
4 TraesCS3D01G048600 chr3B 30276552 30278057 1505 False 1849.00 1849 88.7730 222 1750 1 chr3B.!!$F3 1528
5 TraesCS3D01G048600 chr3B 29610379 29611750 1371 False 1182.00 1182 82.3830 239 1611 1 chr3B.!!$F1 1372
6 TraesCS3D01G048600 chr3B 29717818 29720517 2699 False 1130.50 2028 85.1655 171 2607 2 chr3B.!!$F5 2436
7 TraesCS3D01G048600 chr3B 29951547 29954016 2469 False 1003.50 1840 82.9280 179 2586 2 chr3B.!!$F7 2407
8 TraesCS3D01G048600 chr3B 29890242 29892740 2498 False 966.65 1838 82.6390 222 2604 2 chr3B.!!$F6 2382
9 TraesCS3D01G048600 chr3A 26427614 26428719 1105 False 1179.00 1179 85.9590 296 1402 1 chr3A.!!$F1 1106

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
458 461 0.652592 CAGAAAGGCATTACGAGGCG 59.347 55.0 0.0 0.0 36.55 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2093 2460 0.041535 ATCCCCATCTGCAAGCCAAA 59.958 50.0 0.0 0.0 0.0 3.28 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
20 21 2.225467 GGACTGGCAGGAAGATTATGC 58.775 52.381 20.34 0.00 39.25 3.14
21 22 2.158696 GGACTGGCAGGAAGATTATGCT 60.159 50.000 20.34 0.00 39.88 3.79
22 23 3.071602 GGACTGGCAGGAAGATTATGCTA 59.928 47.826 20.34 0.00 39.88 3.49
23 24 4.444876 GGACTGGCAGGAAGATTATGCTAA 60.445 45.833 20.34 0.00 39.88 3.09
24 25 5.312079 GACTGGCAGGAAGATTATGCTAAT 58.688 41.667 20.34 0.00 39.88 1.73
25 26 6.439636 ACTGGCAGGAAGATTATGCTAATA 57.560 37.500 20.34 0.00 39.88 0.98
26 27 6.471146 ACTGGCAGGAAGATTATGCTAATAG 58.529 40.000 20.34 0.00 39.88 1.73
27 28 5.809001 TGGCAGGAAGATTATGCTAATAGG 58.191 41.667 0.00 0.00 39.88 2.57
28 29 5.310594 TGGCAGGAAGATTATGCTAATAGGT 59.689 40.000 0.00 0.00 39.88 3.08
29 30 6.500400 TGGCAGGAAGATTATGCTAATAGGTA 59.500 38.462 0.00 0.00 39.88 3.08
30 31 7.182749 TGGCAGGAAGATTATGCTAATAGGTAT 59.817 37.037 0.00 0.00 39.88 2.73
31 32 7.497249 GGCAGGAAGATTATGCTAATAGGTATG 59.503 40.741 0.00 0.00 39.88 2.39
32 33 7.011857 GCAGGAAGATTATGCTAATAGGTATGC 59.988 40.741 0.00 0.00 37.00 3.14
33 34 7.497249 CAGGAAGATTATGCTAATAGGTATGCC 59.503 40.741 0.00 0.00 0.00 4.40
34 35 7.182749 AGGAAGATTATGCTAATAGGTATGCCA 59.817 37.037 1.54 0.00 37.19 4.92
35 36 7.829211 GGAAGATTATGCTAATAGGTATGCCAA 59.171 37.037 1.54 0.00 37.19 4.52
36 37 9.231297 GAAGATTATGCTAATAGGTATGCCAAA 57.769 33.333 1.54 0.00 37.19 3.28
37 38 9.586732 AAGATTATGCTAATAGGTATGCCAAAA 57.413 29.630 1.54 0.00 37.19 2.44
38 39 9.014297 AGATTATGCTAATAGGTATGCCAAAAC 57.986 33.333 1.54 0.00 37.19 2.43
39 40 8.940397 ATTATGCTAATAGGTATGCCAAAACT 57.060 30.769 1.54 0.00 37.19 2.66
40 41 8.760980 TTATGCTAATAGGTATGCCAAAACTT 57.239 30.769 1.54 0.00 37.19 2.66
41 42 7.660030 ATGCTAATAGGTATGCCAAAACTTT 57.340 32.000 1.54 0.00 37.19 2.66
42 43 7.475137 TGCTAATAGGTATGCCAAAACTTTT 57.525 32.000 1.54 0.00 37.19 2.27
43 44 7.319646 TGCTAATAGGTATGCCAAAACTTTTG 58.680 34.615 1.54 7.21 37.19 2.44
44 45 6.255670 GCTAATAGGTATGCCAAAACTTTTGC 59.744 38.462 8.53 5.52 37.19 3.68
45 46 3.401033 AGGTATGCCAAAACTTTTGCC 57.599 42.857 8.53 4.67 37.19 4.52
46 47 2.703007 AGGTATGCCAAAACTTTTGCCA 59.297 40.909 8.53 4.70 37.19 4.92
47 48 3.327464 AGGTATGCCAAAACTTTTGCCAT 59.673 39.130 13.58 13.58 37.19 4.40
48 49 3.684305 GGTATGCCAAAACTTTTGCCATC 59.316 43.478 12.69 6.56 34.09 3.51
49 50 3.775261 ATGCCAAAACTTTTGCCATCT 57.225 38.095 8.53 0.00 0.00 2.90
50 51 3.557228 TGCCAAAACTTTTGCCATCTT 57.443 38.095 8.53 0.00 0.00 2.40
51 52 3.883669 TGCCAAAACTTTTGCCATCTTT 58.116 36.364 8.53 0.00 0.00 2.52
52 53 4.268359 TGCCAAAACTTTTGCCATCTTTT 58.732 34.783 8.53 0.00 0.00 2.27
53 54 4.335037 TGCCAAAACTTTTGCCATCTTTTC 59.665 37.500 8.53 0.00 0.00 2.29
54 55 4.335037 GCCAAAACTTTTGCCATCTTTTCA 59.665 37.500 8.53 0.00 0.00 2.69
55 56 5.008911 GCCAAAACTTTTGCCATCTTTTCAT 59.991 36.000 8.53 0.00 0.00 2.57
56 57 6.204495 GCCAAAACTTTTGCCATCTTTTCATA 59.796 34.615 8.53 0.00 0.00 2.15
57 58 7.094677 GCCAAAACTTTTGCCATCTTTTCATAT 60.095 33.333 8.53 0.00 0.00 1.78
58 59 8.231837 CCAAAACTTTTGCCATCTTTTCATATG 58.768 33.333 8.53 0.00 0.00 1.78
59 60 8.776470 CAAAACTTTTGCCATCTTTTCATATGT 58.224 29.630 1.90 0.00 0.00 2.29
60 61 9.995003 AAAACTTTTGCCATCTTTTCATATGTA 57.005 25.926 1.90 0.00 0.00 2.29
61 62 9.995003 AAACTTTTGCCATCTTTTCATATGTAA 57.005 25.926 1.90 0.00 0.00 2.41
62 63 9.643693 AACTTTTGCCATCTTTTCATATGTAAG 57.356 29.630 1.90 8.07 0.00 2.34
63 64 8.253113 ACTTTTGCCATCTTTTCATATGTAAGG 58.747 33.333 15.47 8.54 0.00 2.69
64 65 7.953005 TTTGCCATCTTTTCATATGTAAGGA 57.047 32.000 8.90 8.90 0.00 3.36
65 66 8.537728 TTTGCCATCTTTTCATATGTAAGGAT 57.462 30.769 12.15 12.15 0.00 3.24
66 67 8.537728 TTGCCATCTTTTCATATGTAAGGATT 57.462 30.769 14.45 1.88 0.00 3.01
67 68 8.537728 TGCCATCTTTTCATATGTAAGGATTT 57.462 30.769 14.45 0.00 0.00 2.17
68 69 9.639563 TGCCATCTTTTCATATGTAAGGATTTA 57.360 29.630 14.45 4.65 0.00 1.40
106 107 6.471233 ACTGATAGTGATTTTCGATGAGGA 57.529 37.500 0.00 0.00 0.00 3.71
107 108 6.878317 ACTGATAGTGATTTTCGATGAGGAA 58.122 36.000 0.00 0.00 0.00 3.36
108 109 7.331026 ACTGATAGTGATTTTCGATGAGGAAA 58.669 34.615 0.00 0.00 34.28 3.13
109 110 7.989741 ACTGATAGTGATTTTCGATGAGGAAAT 59.010 33.333 0.00 0.00 35.95 2.17
110 111 8.146479 TGATAGTGATTTTCGATGAGGAAATG 57.854 34.615 0.00 0.00 35.95 2.32
111 112 7.986889 TGATAGTGATTTTCGATGAGGAAATGA 59.013 33.333 0.00 0.00 35.95 2.57
112 113 8.915057 ATAGTGATTTTCGATGAGGAAATGAT 57.085 30.769 0.00 0.00 35.95 2.45
114 115 8.737168 AGTGATTTTCGATGAGGAAATGATAA 57.263 30.769 0.00 0.00 35.95 1.75
115 116 8.616076 AGTGATTTTCGATGAGGAAATGATAAC 58.384 33.333 0.00 0.00 35.95 1.89
116 117 8.616076 GTGATTTTCGATGAGGAAATGATAACT 58.384 33.333 0.00 0.00 35.95 2.24
117 118 9.177608 TGATTTTCGATGAGGAAATGATAACTT 57.822 29.630 0.00 0.00 35.95 2.66
145 146 9.778741 AAATGTAGAATCTTTGTACTCACTGAA 57.221 29.630 0.00 0.00 31.26 3.02
146 147 9.778741 AATGTAGAATCTTTGTACTCACTGAAA 57.221 29.630 0.00 0.00 31.26 2.69
147 148 8.818141 TGTAGAATCTTTGTACTCACTGAAAG 57.182 34.615 0.00 0.00 33.22 2.62
148 149 8.421784 TGTAGAATCTTTGTACTCACTGAAAGT 58.578 33.333 0.00 0.00 37.76 2.66
304 305 9.856162 AAGTTTATAACTCCTGGTACAAAGAAA 57.144 29.630 0.00 0.00 41.91 2.52
311 314 7.198306 ACTCCTGGTACAAAGAAAATAAACG 57.802 36.000 0.00 0.00 38.70 3.60
328 331 3.667497 AACGTCTGCTTCAATCTCAGA 57.333 42.857 0.00 0.00 34.78 3.27
333 336 4.201792 CGTCTGCTTCAATCTCAGATTTGG 60.202 45.833 0.00 0.00 38.85 3.28
341 344 1.660167 TCTCAGATTTGGCATCAGCG 58.340 50.000 0.00 0.00 43.41 5.18
386 389 8.721478 CCTTGTATTTATGTGCTGATATGGTAC 58.279 37.037 0.00 0.00 0.00 3.34
411 414 3.101437 ACGGGGAAAAGAAACTGGTTTT 58.899 40.909 0.13 0.00 32.11 2.43
412 415 3.131577 ACGGGGAAAAGAAACTGGTTTTC 59.868 43.478 0.13 0.00 43.67 2.29
440 443 5.312895 TGGAAAAAGAATAGTAGCAGCACA 58.687 37.500 0.00 0.00 0.00 4.57
458 461 0.652592 CAGAAAGGCATTACGAGGCG 59.347 55.000 0.00 0.00 36.55 5.52
512 515 7.278868 CCAAAAAGATACATGTACTCAGAGGTC 59.721 40.741 7.96 0.00 0.00 3.85
608 611 2.012673 GATGGTCATCTGGTTGCTGTC 58.987 52.381 3.87 0.00 35.04 3.51
677 680 2.648059 GTTATGAGCATTGGCAGGACT 58.352 47.619 0.00 0.00 44.61 3.85
683 686 1.074405 AGCATTGGCAGGACTTCTCAA 59.926 47.619 0.00 0.00 44.61 3.02
702 705 8.718102 TTCTCAAGTGAATATTGTTAGCCTAC 57.282 34.615 0.00 0.00 0.00 3.18
765 769 3.081061 GAGTACATGTGCAATGGTTCCA 58.919 45.455 16.62 0.00 0.00 3.53
867 871 5.079689 TCGTGGACTAGAATATTTGCACA 57.920 39.130 9.33 0.00 31.20 4.57
907 911 6.625740 CGGATTGTCCATTTTGACATTAAGCT 60.626 38.462 0.00 0.00 44.27 3.74
953 957 1.265236 TTTGCCCAAAGATTGCCGAT 58.735 45.000 0.00 0.00 0.00 4.18
960 964 2.416202 CCAAAGATTGCCGATTTTTGGC 59.584 45.455 12.62 0.00 46.65 4.52
981 985 3.650139 CCTTGCTAAACTGTGTCGTACT 58.350 45.455 0.00 0.00 0.00 2.73
984 988 5.118203 CCTTGCTAAACTGTGTCGTACTAAC 59.882 44.000 0.00 0.00 0.00 2.34
1110 1114 9.884465 GTTTATAGTTATGGAATGATGTTGCTC 57.116 33.333 0.00 0.00 0.00 4.26
1112 1116 3.879295 AGTTATGGAATGATGTTGCTCGG 59.121 43.478 0.00 0.00 0.00 4.63
1150 1154 3.575965 AAAATGTGAAATCGGTGGCTC 57.424 42.857 0.00 0.00 0.00 4.70
1161 1165 1.202879 TCGGTGGCTCAAAAATCCAGT 60.203 47.619 0.00 0.00 0.00 4.00
1225 1229 6.709397 TCAAGATGATGGATTAGAAGCATGTC 59.291 38.462 0.00 0.00 0.00 3.06
1234 1238 7.112122 TGGATTAGAAGCATGTCAAGTTACAT 58.888 34.615 0.00 0.00 40.75 2.29
1285 1289 0.387622 CTTGATTGGCTTGTGGTGCG 60.388 55.000 0.00 0.00 0.00 5.34
1424 1428 5.034797 TGCTTCTACATCGATTAGTGTTCG 58.965 41.667 0.00 0.00 37.94 3.95
1425 1429 4.085517 GCTTCTACATCGATTAGTGTTCGC 60.086 45.833 0.00 0.00 36.56 4.70
1426 1430 4.625972 TCTACATCGATTAGTGTTCGCA 57.374 40.909 0.00 0.00 36.56 5.10
1430 1434 5.143916 ACATCGATTAGTGTTCGCATTTC 57.856 39.130 0.00 0.00 36.56 2.17
1432 1436 5.005779 ACATCGATTAGTGTTCGCATTTCTC 59.994 40.000 0.00 0.00 36.56 2.87
1438 1446 1.732259 GTGTTCGCATTTCTCGGTGAT 59.268 47.619 0.00 0.00 0.00 3.06
1445 1455 3.616821 CGCATTTCTCGGTGATGTTCTTA 59.383 43.478 0.00 0.00 0.00 2.10
1450 1460 7.008628 GCATTTCTCGGTGATGTTCTTATTTTG 59.991 37.037 0.00 0.00 0.00 2.44
1454 1465 6.016693 TCTCGGTGATGTTCTTATTTTGCAAA 60.017 34.615 8.05 8.05 0.00 3.68
1455 1466 6.507900 TCGGTGATGTTCTTATTTTGCAAAA 58.492 32.000 25.76 25.76 0.00 2.44
1456 1467 6.980978 TCGGTGATGTTCTTATTTTGCAAAAA 59.019 30.769 27.10 11.98 0.00 1.94
1457 1468 7.655328 TCGGTGATGTTCTTATTTTGCAAAAAT 59.345 29.630 27.10 14.64 0.00 1.82
1507 1518 7.906160 TGCTTATCTCTAATTACAGCGAAAAC 58.094 34.615 0.00 0.00 0.00 2.43
1528 1539 7.458409 AAACTCAGCTCACAATATGAATGTT 57.542 32.000 0.00 0.00 36.69 2.71
1534 1545 6.252869 CAGCTCACAATATGAATGTTCAAAGC 59.747 38.462 0.00 0.00 41.13 3.51
1574 1585 5.899547 TCTGAGGAGATAAGGCTTGTGAATA 59.100 40.000 10.69 0.00 0.00 1.75
1583 1594 3.074412 AGGCTTGTGAATACAGGAAACG 58.926 45.455 0.00 0.00 38.23 3.60
1587 1598 1.795872 TGTGAATACAGGAAACGCACG 59.204 47.619 0.00 0.00 31.91 5.34
1616 1627 3.971305 TCCACCTCTTTGAGAAGGTAACA 59.029 43.478 0.00 0.00 41.41 2.41
1621 1632 6.934645 CACCTCTTTGAGAAGGTAACATGTAA 59.065 38.462 0.00 0.00 41.41 2.41
1625 1636 9.877178 CTCTTTGAGAAGGTAACATGTAATAGT 57.123 33.333 0.00 0.00 41.41 2.12
1653 1664 4.025040 TCAGATGTTGAACAGGCTCAAT 57.975 40.909 3.74 0.00 37.63 2.57
1714 1725 8.584157 TGCTAATACACAATTGACTGGAAATTT 58.416 29.630 13.59 0.00 0.00 1.82
1750 1766 5.682862 CGTCAGTGTTCCAATTTTCTTTGAG 59.317 40.000 0.00 0.00 0.00 3.02
1752 1768 7.428826 GTCAGTGTTCCAATTTTCTTTGAGAT 58.571 34.615 0.00 0.00 0.00 2.75
1753 1769 7.922811 GTCAGTGTTCCAATTTTCTTTGAGATT 59.077 33.333 0.00 0.00 0.00 2.40
1791 1852 7.116819 GTGGCGAAATCAAAAGTTTTAGTTTG 58.883 34.615 12.30 7.40 36.30 2.93
1832 1893 1.398041 CCATGTGCTGTGTACGAATGG 59.602 52.381 0.00 0.00 0.00 3.16
1920 1985 4.811555 TGTCTGTTGAATTGAAGTTCCG 57.188 40.909 0.00 0.00 0.00 4.30
1928 1993 7.881142 TGTTGAATTGAAGTTCCGTTAATGAT 58.119 30.769 0.00 0.00 0.00 2.45
1931 1997 8.786826 TGAATTGAAGTTCCGTTAATGATAGT 57.213 30.769 0.00 0.00 0.00 2.12
1958 2024 5.240623 TGTCCAAGTTCGCAAATAATCACTT 59.759 36.000 0.00 0.00 0.00 3.16
1964 2030 9.003112 CAAGTTCGCAAATAATCACTTTATCAG 57.997 33.333 0.00 0.00 29.96 2.90
1967 2033 9.982291 GTTCGCAAATAATCACTTTATCAGTAA 57.018 29.630 0.00 0.00 32.76 2.24
1973 2039 9.936329 AAATAATCACTTTATCAGTAATGGGGT 57.064 29.630 0.00 0.00 32.76 4.95
2024 2100 3.080158 TTGGCTGTTGGGAAGGGCA 62.080 57.895 0.00 0.00 0.00 5.36
2050 2126 6.808704 TGAAGAACAGAAGAGATACAATGTCG 59.191 38.462 0.00 0.00 0.00 4.35
2067 2143 4.594123 TGTCGTACCTTTGAGTTCATCA 57.406 40.909 0.00 0.00 35.62 3.07
2092 2459 5.063880 ACAATAGGAGTGGTGAGAACAAAC 58.936 41.667 0.00 0.00 0.00 2.93
2093 2460 5.163195 ACAATAGGAGTGGTGAGAACAAACT 60.163 40.000 0.00 0.00 0.00 2.66
2096 2463 3.947834 AGGAGTGGTGAGAACAAACTTTG 59.052 43.478 0.00 0.00 0.00 2.77
2109 2476 0.971386 AACTTTGGCTTGCAGATGGG 59.029 50.000 0.00 0.00 0.00 4.00
2125 2492 0.409092 TGGGGATGTCAATGCCAACT 59.591 50.000 0.00 0.00 45.91 3.16
2126 2493 1.203162 TGGGGATGTCAATGCCAACTT 60.203 47.619 0.00 0.00 45.91 2.66
2151 2521 6.374417 TTTTCTTCTCTGGTAGGCACTTAT 57.626 37.500 0.00 0.00 41.75 1.73
2181 2551 8.040727 TGTGTCATATTTGAACTAGCACATACT 58.959 33.333 3.50 0.00 32.23 2.12
2189 2559 5.730550 TGAACTAGCACATACTAAGGTTGG 58.269 41.667 0.00 0.00 0.00 3.77
2233 2610 6.072175 ACTGAAGACTTCTGAGATCACTGTAC 60.072 42.308 24.10 0.00 33.42 2.90
2250 2627 8.640063 TCACTGTACTTTAGGAGTATACACAA 57.360 34.615 5.50 0.00 42.57 3.33
2252 2629 8.301720 CACTGTACTTTAGGAGTATACACAACA 58.698 37.037 5.50 0.00 42.57 3.33
2259 2636 5.464030 AGGAGTATACACAACACGAAGTT 57.536 39.130 5.50 0.00 41.61 2.66
2266 2643 2.093658 ACACAACACGAAGTTCAGACCT 60.094 45.455 3.32 0.00 41.61 3.85
2268 2645 3.736252 CACAACACGAAGTTCAGACCTAG 59.264 47.826 3.32 0.00 41.61 3.02
2299 2678 3.692101 TGTGTCCGATGAGTTTTGTGTTT 59.308 39.130 0.00 0.00 0.00 2.83
2306 2685 5.339990 CGATGAGTTTTGTGTTTCACCTTT 58.660 37.500 0.00 0.00 32.73 3.11
2307 2686 5.804979 CGATGAGTTTTGTGTTTCACCTTTT 59.195 36.000 0.00 0.00 32.73 2.27
2348 2727 9.689501 AAAATGATTGGATCTTATGCCAAAATT 57.310 25.926 0.00 0.00 46.31 1.82
2353 2732 7.732222 TTGGATCTTATGCCAAAATTAAGGT 57.268 32.000 0.00 0.00 40.96 3.50
2354 2733 7.111247 TGGATCTTATGCCAAAATTAAGGTG 57.889 36.000 0.00 0.00 0.00 4.00
2369 2751 0.912486 AGGTGGACAGCTATTCCCAC 59.088 55.000 14.15 14.15 46.14 4.61
2540 2992 4.778842 ATTCGTAGCAAGCAGTTAATCG 57.221 40.909 0.00 0.00 0.00 3.34
2541 2993 3.226346 TCGTAGCAAGCAGTTAATCGT 57.774 42.857 0.00 0.00 0.00 3.73
2542 2994 2.921121 TCGTAGCAAGCAGTTAATCGTG 59.079 45.455 0.00 0.00 0.00 4.35
2543 2995 2.029244 CGTAGCAAGCAGTTAATCGTGG 59.971 50.000 0.00 0.00 0.00 4.94
2544 2996 2.472695 AGCAAGCAGTTAATCGTGGA 57.527 45.000 0.00 0.00 0.00 4.02
2545 2997 2.778299 AGCAAGCAGTTAATCGTGGAA 58.222 42.857 0.00 0.00 0.00 3.53
2546 2998 2.744202 AGCAAGCAGTTAATCGTGGAAG 59.256 45.455 0.00 0.00 0.00 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.158696 AGCATAATCTTCCTGCCAGTCC 60.159 50.000 0.00 0.00 36.56 3.85
2 3 4.778213 TTAGCATAATCTTCCTGCCAGT 57.222 40.909 0.00 0.00 36.56 4.00
3 4 5.879223 CCTATTAGCATAATCTTCCTGCCAG 59.121 44.000 0.00 0.00 36.56 4.85
5 6 5.810095 ACCTATTAGCATAATCTTCCTGCC 58.190 41.667 0.00 0.00 36.56 4.85
6 7 7.011857 GCATACCTATTAGCATAATCTTCCTGC 59.988 40.741 0.00 0.00 36.15 4.85
7 8 7.497249 GGCATACCTATTAGCATAATCTTCCTG 59.503 40.741 0.00 0.00 0.00 3.86
9 10 7.338710 TGGCATACCTATTAGCATAATCTTCC 58.661 38.462 0.00 0.00 36.63 3.46
10 11 8.792830 TTGGCATACCTATTAGCATAATCTTC 57.207 34.615 0.00 0.00 36.63 2.87
11 12 9.586732 TTTTGGCATACCTATTAGCATAATCTT 57.413 29.630 0.00 0.00 36.63 2.40
12 13 9.014297 GTTTTGGCATACCTATTAGCATAATCT 57.986 33.333 0.00 0.00 36.63 2.40
13 14 9.014297 AGTTTTGGCATACCTATTAGCATAATC 57.986 33.333 0.00 0.00 36.63 1.75
14 15 8.940397 AGTTTTGGCATACCTATTAGCATAAT 57.060 30.769 0.00 0.00 36.63 1.28
15 16 8.760980 AAGTTTTGGCATACCTATTAGCATAA 57.239 30.769 0.00 0.00 36.63 1.90
17 18 7.660030 AAAGTTTTGGCATACCTATTAGCAT 57.340 32.000 0.00 0.00 36.63 3.79
19 20 6.255670 GCAAAAGTTTTGGCATACCTATTAGC 59.744 38.462 25.65 6.20 37.08 3.09
20 21 6.756542 GGCAAAAGTTTTGGCATACCTATTAG 59.243 38.462 36.49 8.61 43.47 1.73
21 22 6.635755 GGCAAAAGTTTTGGCATACCTATTA 58.364 36.000 36.49 0.00 43.47 0.98
22 23 5.487433 GGCAAAAGTTTTGGCATACCTATT 58.513 37.500 36.49 0.00 43.47 1.73
23 24 5.084818 GGCAAAAGTTTTGGCATACCTAT 57.915 39.130 36.49 0.00 43.47 2.57
24 25 4.529109 GGCAAAAGTTTTGGCATACCTA 57.471 40.909 36.49 0.00 43.47 3.08
25 26 3.401033 GGCAAAAGTTTTGGCATACCT 57.599 42.857 36.49 0.00 43.47 3.08
31 32 4.335037 TGAAAAGATGGCAAAAGTTTTGGC 59.665 37.500 35.51 35.51 44.16 4.52
32 33 6.622833 ATGAAAAGATGGCAAAAGTTTTGG 57.377 33.333 25.65 10.84 0.00 3.28
33 34 8.776470 ACATATGAAAAGATGGCAAAAGTTTTG 58.224 29.630 21.60 21.60 0.00 2.44
34 35 8.907222 ACATATGAAAAGATGGCAAAAGTTTT 57.093 26.923 10.38 0.00 0.00 2.43
35 36 9.995003 TTACATATGAAAAGATGGCAAAAGTTT 57.005 25.926 10.38 0.00 0.00 2.66
36 37 9.643693 CTTACATATGAAAAGATGGCAAAAGTT 57.356 29.630 10.38 0.00 0.00 2.66
37 38 8.253113 CCTTACATATGAAAAGATGGCAAAAGT 58.747 33.333 10.38 0.00 0.00 2.66
38 39 8.469200 TCCTTACATATGAAAAGATGGCAAAAG 58.531 33.333 10.38 0.00 0.00 2.27
39 40 8.359875 TCCTTACATATGAAAAGATGGCAAAA 57.640 30.769 10.38 0.00 0.00 2.44
40 41 7.953005 TCCTTACATATGAAAAGATGGCAAA 57.047 32.000 10.38 0.00 0.00 3.68
41 42 8.537728 AATCCTTACATATGAAAAGATGGCAA 57.462 30.769 10.38 0.00 0.00 4.52
42 43 8.537728 AAATCCTTACATATGAAAAGATGGCA 57.462 30.769 10.38 0.00 0.00 4.92
83 84 6.471233 TCCTCATCGAAAATCACTATCAGT 57.529 37.500 0.00 0.00 0.00 3.41
84 85 7.776933 TTTCCTCATCGAAAATCACTATCAG 57.223 36.000 0.00 0.00 0.00 2.90
85 86 7.986889 TCATTTCCTCATCGAAAATCACTATCA 59.013 33.333 0.00 0.00 35.47 2.15
86 87 8.370493 TCATTTCCTCATCGAAAATCACTATC 57.630 34.615 0.00 0.00 35.47 2.08
87 88 8.915057 ATCATTTCCTCATCGAAAATCACTAT 57.085 30.769 0.00 0.00 35.47 2.12
88 89 9.830975 TTATCATTTCCTCATCGAAAATCACTA 57.169 29.630 0.00 0.00 35.47 2.74
89 90 8.616076 GTTATCATTTCCTCATCGAAAATCACT 58.384 33.333 0.00 0.00 35.47 3.41
90 91 8.616076 AGTTATCATTTCCTCATCGAAAATCAC 58.384 33.333 0.00 0.00 35.47 3.06
91 92 8.737168 AGTTATCATTTCCTCATCGAAAATCA 57.263 30.769 0.00 0.00 35.47 2.57
119 120 9.778741 TTCAGTGAGTACAAAGATTCTACATTT 57.221 29.630 0.00 0.00 0.00 2.32
120 121 9.778741 TTTCAGTGAGTACAAAGATTCTACATT 57.221 29.630 0.00 0.00 0.00 2.71
121 122 9.429359 CTTTCAGTGAGTACAAAGATTCTACAT 57.571 33.333 0.00 0.00 0.00 2.29
122 123 8.421784 ACTTTCAGTGAGTACAAAGATTCTACA 58.578 33.333 8.21 0.00 0.00 2.74
123 124 8.819643 ACTTTCAGTGAGTACAAAGATTCTAC 57.180 34.615 8.21 0.00 0.00 2.59
124 125 9.261180 CAACTTTCAGTGAGTACAAAGATTCTA 57.739 33.333 8.21 0.00 0.00 2.10
125 126 7.987458 TCAACTTTCAGTGAGTACAAAGATTCT 59.013 33.333 8.21 0.00 0.00 2.40
126 127 8.142994 TCAACTTTCAGTGAGTACAAAGATTC 57.857 34.615 8.21 0.00 0.00 2.52
127 128 8.682936 ATCAACTTTCAGTGAGTACAAAGATT 57.317 30.769 8.21 0.00 0.00 2.40
128 129 8.682936 AATCAACTTTCAGTGAGTACAAAGAT 57.317 30.769 8.21 0.00 0.00 2.40
129 130 7.987458 AGAATCAACTTTCAGTGAGTACAAAGA 59.013 33.333 8.21 0.00 0.00 2.52
130 131 8.147642 AGAATCAACTTTCAGTGAGTACAAAG 57.852 34.615 0.00 0.00 0.00 2.77
131 132 9.261180 CTAGAATCAACTTTCAGTGAGTACAAA 57.739 33.333 0.00 0.00 0.00 2.83
132 133 8.638873 TCTAGAATCAACTTTCAGTGAGTACAA 58.361 33.333 0.00 0.00 0.00 2.41
133 134 8.178313 TCTAGAATCAACTTTCAGTGAGTACA 57.822 34.615 0.00 0.00 0.00 2.90
134 135 9.646427 ATTCTAGAATCAACTTTCAGTGAGTAC 57.354 33.333 12.37 0.00 0.00 2.73
135 136 9.862371 GATTCTAGAATCAACTTTCAGTGAGTA 57.138 33.333 31.72 0.00 44.89 2.59
136 137 8.770438 GATTCTAGAATCAACTTTCAGTGAGT 57.230 34.615 31.72 2.17 44.89 3.41
152 153 9.071276 ACTTGCTTTCAGATTTTGATTCTAGAA 57.929 29.630 7.82 7.82 35.27 2.10
153 154 8.509690 CACTTGCTTTCAGATTTTGATTCTAGA 58.490 33.333 0.00 0.00 35.27 2.43
154 155 8.295288 ACACTTGCTTTCAGATTTTGATTCTAG 58.705 33.333 0.00 0.00 35.27 2.43
155 156 8.077991 CACACTTGCTTTCAGATTTTGATTCTA 58.922 33.333 0.00 0.00 35.27 2.10
156 157 6.921857 CACACTTGCTTTCAGATTTTGATTCT 59.078 34.615 0.00 0.00 35.27 2.40
157 158 6.145048 CCACACTTGCTTTCAGATTTTGATTC 59.855 38.462 0.00 0.00 35.27 2.52
158 159 5.987347 CCACACTTGCTTTCAGATTTTGATT 59.013 36.000 0.00 0.00 35.27 2.57
159 160 5.069516 ACCACACTTGCTTTCAGATTTTGAT 59.930 36.000 0.00 0.00 35.27 2.57
160 161 4.402155 ACCACACTTGCTTTCAGATTTTGA 59.598 37.500 0.00 0.00 0.00 2.69
161 162 4.685924 ACCACACTTGCTTTCAGATTTTG 58.314 39.130 0.00 0.00 0.00 2.44
162 163 4.402155 TGACCACACTTGCTTTCAGATTTT 59.598 37.500 0.00 0.00 0.00 1.82
163 164 3.953612 TGACCACACTTGCTTTCAGATTT 59.046 39.130 0.00 0.00 0.00 2.17
164 165 3.554934 TGACCACACTTGCTTTCAGATT 58.445 40.909 0.00 0.00 0.00 2.40
165 166 3.213206 TGACCACACTTGCTTTCAGAT 57.787 42.857 0.00 0.00 0.00 2.90
166 167 2.708216 TGACCACACTTGCTTTCAGA 57.292 45.000 0.00 0.00 0.00 3.27
167 168 2.620115 ACATGACCACACTTGCTTTCAG 59.380 45.455 0.00 0.00 0.00 3.02
168 169 2.358582 CACATGACCACACTTGCTTTCA 59.641 45.455 0.00 0.00 0.00 2.69
169 170 2.618241 TCACATGACCACACTTGCTTTC 59.382 45.455 0.00 0.00 0.00 2.62
176 177 3.297134 AAGGTTTCACATGACCACACT 57.703 42.857 0.00 0.00 38.42 3.55
177 178 4.261447 GGTTAAGGTTTCACATGACCACAC 60.261 45.833 0.00 0.00 38.42 3.82
285 286 8.776470 CGTTTATTTTCTTTGTACCAGGAGTTA 58.224 33.333 0.00 0.00 0.00 2.24
287 288 6.769341 ACGTTTATTTTCTTTGTACCAGGAGT 59.231 34.615 0.00 0.00 0.00 3.85
291 292 6.577427 GCAGACGTTTATTTTCTTTGTACCAG 59.423 38.462 0.00 0.00 0.00 4.00
292 293 6.261381 AGCAGACGTTTATTTTCTTTGTACCA 59.739 34.615 0.00 0.00 0.00 3.25
293 294 6.665465 AGCAGACGTTTATTTTCTTTGTACC 58.335 36.000 0.00 0.00 0.00 3.34
294 295 7.853929 TGAAGCAGACGTTTATTTTCTTTGTAC 59.146 33.333 0.00 0.00 0.00 2.90
296 297 6.791303 TGAAGCAGACGTTTATTTTCTTTGT 58.209 32.000 0.00 0.00 0.00 2.83
298 299 8.352942 AGATTGAAGCAGACGTTTATTTTCTTT 58.647 29.630 0.00 0.00 0.00 2.52
301 302 7.298122 TGAGATTGAAGCAGACGTTTATTTTC 58.702 34.615 0.00 0.00 0.00 2.29
304 305 6.166279 TCTGAGATTGAAGCAGACGTTTATT 58.834 36.000 0.00 0.00 34.02 1.40
306 307 5.134202 TCTGAGATTGAAGCAGACGTTTA 57.866 39.130 0.00 0.00 34.02 2.01
311 314 4.438472 GCCAAATCTGAGATTGAAGCAGAC 60.438 45.833 8.68 0.00 41.02 3.51
328 331 3.203442 CAGCCGCTGATGCCAAAT 58.797 55.556 15.74 0.00 32.44 2.32
386 389 2.228822 CCAGTTTCTTTTCCCCGTCATG 59.771 50.000 0.00 0.00 0.00 3.07
411 414 4.079958 GCTACTATTCTTTTTCCAGGGGGA 60.080 45.833 0.00 0.00 43.03 4.81
412 415 4.207955 GCTACTATTCTTTTTCCAGGGGG 58.792 47.826 0.00 0.00 0.00 5.40
415 418 4.943705 TGCTGCTACTATTCTTTTTCCAGG 59.056 41.667 0.00 0.00 0.00 4.45
431 434 2.205022 AATGCCTTTCTGTGCTGCTA 57.795 45.000 0.00 0.00 0.00 3.49
440 443 0.535335 TCGCCTCGTAATGCCTTTCT 59.465 50.000 0.00 0.00 0.00 2.52
458 461 3.862267 GTGCTCCATACGATGCTATCATC 59.138 47.826 0.00 0.00 44.34 2.92
477 480 4.503741 TGTATCTTTTTGGAGCAAGTGC 57.496 40.909 0.00 0.00 42.49 4.40
539 542 0.261696 AACCACCCTGACCAAGCTTT 59.738 50.000 0.00 0.00 0.00 3.51
677 680 8.540388 AGTAGGCTAACAATATTCACTTGAGAA 58.460 33.333 0.00 0.00 0.00 2.87
683 686 7.195374 TCCAAGTAGGCTAACAATATTCACT 57.805 36.000 0.00 0.00 37.29 3.41
702 705 4.527816 TGATCCCTCCAAACAAAATCCAAG 59.472 41.667 0.00 0.00 0.00 3.61
867 871 5.989777 GGACAATCCGTGTATTACAGCTATT 59.010 40.000 0.00 0.00 41.96 1.73
953 957 3.196685 ACACAGTTTAGCAAGGCCAAAAA 59.803 39.130 5.01 0.00 0.00 1.94
960 964 3.650139 AGTACGACACAGTTTAGCAAGG 58.350 45.455 0.00 0.00 0.00 3.61
981 985 6.801539 ATCATTGAAAGTTTGCTCTCGTTA 57.198 33.333 0.00 0.00 0.00 3.18
984 988 4.855388 CCAATCATTGAAAGTTTGCTCTCG 59.145 41.667 0.00 0.00 0.00 4.04
993 997 4.946157 CCTCTAGCACCAATCATTGAAAGT 59.054 41.667 0.00 0.00 0.00 2.66
1110 1114 1.224592 CCTTCCTCCAACCATCCCG 59.775 63.158 0.00 0.00 0.00 5.14
1112 1116 2.899303 TTTCCTTCCTCCAACCATCC 57.101 50.000 0.00 0.00 0.00 3.51
1150 1154 7.930865 TGGGAAATACTTTTCACTGGATTTTTG 59.069 33.333 2.74 0.00 44.19 2.44
1161 1165 8.434589 AAATCCAATCTGGGAAATACTTTTCA 57.565 30.769 1.38 0.00 42.55 2.69
1225 1229 6.558771 TTCCTCAATGTCACATGTAACTTG 57.441 37.500 0.00 1.63 0.00 3.16
1234 1238 4.583907 TCTTGCAATTTCCTCAATGTCACA 59.416 37.500 0.00 0.00 0.00 3.58
1285 1289 5.689068 GGCGATACACAGGTAATACTTGTAC 59.311 44.000 7.85 0.93 36.19 2.90
1391 1395 5.822278 TCGATGTAGAAGCATCTTACAGTC 58.178 41.667 0.00 0.79 42.14 3.51
1413 1417 3.617263 ACCGAGAAATGCGAACACTAATC 59.383 43.478 0.00 0.00 0.00 1.75
1417 1421 1.148310 CACCGAGAAATGCGAACACT 58.852 50.000 0.00 0.00 0.00 3.55
1424 1428 5.741388 ATAAGAACATCACCGAGAAATGC 57.259 39.130 0.00 0.00 0.00 3.56
1425 1429 7.008628 GCAAAATAAGAACATCACCGAGAAATG 59.991 37.037 0.00 0.00 0.00 2.32
1426 1430 7.029563 GCAAAATAAGAACATCACCGAGAAAT 58.970 34.615 0.00 0.00 0.00 2.17
1430 1434 5.295431 TGCAAAATAAGAACATCACCGAG 57.705 39.130 0.00 0.00 0.00 4.63
1432 1436 6.761731 TTTTGCAAAATAAGAACATCACCG 57.238 33.333 20.46 0.00 0.00 4.94
1497 1508 1.221414 GTGAGCTGAGTTTTCGCTGT 58.779 50.000 0.00 0.00 34.77 4.40
1507 1518 6.673154 TGAACATTCATATTGTGAGCTGAG 57.327 37.500 0.00 0.00 38.29 3.35
1534 1545 1.195347 CAGATGTCGTAGAGCTTGCG 58.805 55.000 0.00 0.00 36.95 4.85
1574 1585 1.305201 AATTGTCGTGCGTTTCCTGT 58.695 45.000 0.00 0.00 0.00 4.00
1583 1594 1.523758 AGAGGTGGAAATTGTCGTGC 58.476 50.000 0.00 0.00 0.00 5.34
1587 1598 5.048434 CCTTCTCAAAGAGGTGGAAATTGTC 60.048 44.000 0.00 0.00 34.14 3.18
1621 1632 9.770097 CCTGTTCAACATCTGAATATACACTAT 57.230 33.333 0.00 0.00 45.74 2.12
1625 1636 6.653020 AGCCTGTTCAACATCTGAATATACA 58.347 36.000 0.00 0.00 45.74 2.29
1637 1648 5.277779 CGAACTTAATTGAGCCTGTTCAACA 60.278 40.000 0.00 0.00 39.68 3.33
1682 1693 7.699391 CCAGTCAATTGTGTATTAGCAATTCTG 59.301 37.037 5.13 0.00 41.62 3.02
1683 1694 7.611467 TCCAGTCAATTGTGTATTAGCAATTCT 59.389 33.333 5.13 0.00 41.62 2.40
1714 1725 8.554835 TTGGAACACTGACGAATTTATATTGA 57.445 30.769 0.00 0.00 39.29 2.57
1726 1742 5.577835 TCAAAGAAAATTGGAACACTGACG 58.422 37.500 0.00 0.00 39.29 4.35
1727 1743 6.795399 TCTCAAAGAAAATTGGAACACTGAC 58.205 36.000 0.00 0.00 39.29 3.51
1760 1776 3.636764 ACTTTTGATTTCGCCACCTCTTT 59.363 39.130 0.00 0.00 0.00 2.52
1770 1831 9.833894 CACATCAAACTAAAACTTTTGATTTCG 57.166 29.630 6.79 0.78 40.81 3.46
1791 1852 3.608073 GGAATAAGCGTTTGTTGCACATC 59.392 43.478 7.95 0.00 33.85 3.06
1802 1863 2.162208 CACAGCACATGGAATAAGCGTT 59.838 45.455 0.00 0.00 31.45 4.84
1832 1893 1.139256 GAGCCACCCTTTACTCTAGGC 59.861 57.143 0.00 0.00 40.85 3.93
1920 1985 8.062448 GCGAACTTGGACAATACTATCATTAAC 58.938 37.037 0.00 0.00 0.00 2.01
1928 1993 7.908827 TTATTTGCGAACTTGGACAATACTA 57.091 32.000 0.00 0.00 0.00 1.82
1931 1997 7.120579 AGTGATTATTTGCGAACTTGGACAATA 59.879 33.333 0.00 0.00 0.00 1.90
1964 2030 9.452287 TGTGTTAGTCTTTATAAACCCCATTAC 57.548 33.333 0.00 0.00 0.00 1.89
1979 2054 9.846248 GCTGAAAAATCATTATGTGTTAGTCTT 57.154 29.630 0.00 0.00 0.00 3.01
1980 2055 9.236006 AGCTGAAAAATCATTATGTGTTAGTCT 57.764 29.630 0.00 0.00 0.00 3.24
2024 2100 7.490725 CGACATTGTATCTCTTCTGTTCTTCAT 59.509 37.037 0.00 0.00 0.00 2.57
2050 2126 9.046296 CCTATTGTATGATGAACTCAAAGGTAC 57.954 37.037 0.00 0.00 37.44 3.34
2067 2143 6.620877 TTGTTCTCACCACTCCTATTGTAT 57.379 37.500 0.00 0.00 0.00 2.29
2092 2459 0.612732 TCCCCATCTGCAAGCCAAAG 60.613 55.000 0.00 0.00 0.00 2.77
2093 2460 0.041535 ATCCCCATCTGCAAGCCAAA 59.958 50.000 0.00 0.00 0.00 3.28
2096 2463 1.076485 ACATCCCCATCTGCAAGCC 60.076 57.895 0.00 0.00 0.00 4.35
2133 2503 5.661312 ACACATATAAGTGCCTACCAGAGAA 59.339 40.000 7.99 0.00 43.23 2.87
2151 2521 7.821846 TGTGCTAGTTCAAATATGACACACATA 59.178 33.333 0.00 0.00 44.21 2.29
2181 2551 2.640826 CCTGGTAAGTGGTCCAACCTTA 59.359 50.000 11.70 5.51 39.58 2.69
2189 2559 4.222145 TCAGTTATCACCTGGTAAGTGGTC 59.778 45.833 13.17 0.00 35.87 4.02
2233 2610 7.088905 ACTTCGTGTTGTGTATACTCCTAAAG 58.911 38.462 4.17 1.47 0.00 1.85
2250 2627 4.667519 AAACTAGGTCTGAACTTCGTGT 57.332 40.909 0.00 0.00 0.00 4.49
2274 2651 3.559655 CACAAAACTCATCGGACACAAGA 59.440 43.478 0.00 0.00 0.00 3.02
2282 2661 3.315191 AGGTGAAACACAAAACTCATCGG 59.685 43.478 0.00 0.00 39.98 4.18
2284 2663 8.696410 TTAAAAGGTGAAACACAAAACTCATC 57.304 30.769 0.00 0.00 39.98 2.92
2299 2678 8.665643 TTTATCTGTTCGAACTTAAAAGGTGA 57.334 30.769 27.32 7.89 0.00 4.02
2307 2686 9.443323 TCCAATCATTTTATCTGTTCGAACTTA 57.557 29.630 27.32 16.25 0.00 2.24
2346 2725 3.785887 TGGGAATAGCTGTCCACCTTAAT 59.214 43.478 17.42 0.00 36.83 1.40
2347 2726 3.054655 GTGGGAATAGCTGTCCACCTTAA 60.055 47.826 17.42 0.00 42.66 1.85
2348 2727 2.504175 GTGGGAATAGCTGTCCACCTTA 59.496 50.000 17.42 0.00 42.66 2.69
2349 2728 1.282157 GTGGGAATAGCTGTCCACCTT 59.718 52.381 17.42 0.00 42.66 3.50
2350 2729 0.912486 GTGGGAATAGCTGTCCACCT 59.088 55.000 17.42 0.00 42.66 4.00
2353 2732 3.517296 TTTTGTGGGAATAGCTGTCCA 57.483 42.857 17.42 3.96 36.83 4.02
2354 2733 3.193479 CCTTTTTGTGGGAATAGCTGTCC 59.807 47.826 9.31 9.31 0.00 4.02
2369 2751 2.229792 TGCTACCAGTCTGCCTTTTTG 58.770 47.619 0.00 0.00 0.00 2.44
2424 2875 9.159470 GCAATTAGAGCTTAAATCACGTTTATC 57.841 33.333 0.00 0.00 32.56 1.75
2480 2932 9.507329 AGTCGCAAATTTAGATGGATATACAAT 57.493 29.630 0.00 0.00 0.00 2.71
2481 2933 8.902540 AGTCGCAAATTTAGATGGATATACAA 57.097 30.769 0.00 0.00 0.00 2.41
2517 2969 5.808540 ACGATTAACTGCTTGCTACGAATTA 59.191 36.000 0.00 0.00 0.00 1.40
2534 2986 2.613691 GCCTTCGACTTCCACGATTAA 58.386 47.619 0.00 0.00 39.45 1.40
2536 2988 0.736325 CGCCTTCGACTTCCACGATT 60.736 55.000 0.00 0.00 39.45 3.34
2540 2992 0.175073 ATACCGCCTTCGACTTCCAC 59.825 55.000 0.00 0.00 38.10 4.02
2541 2993 1.406539 GTATACCGCCTTCGACTTCCA 59.593 52.381 0.00 0.00 38.10 3.53
2542 2994 1.680207 AGTATACCGCCTTCGACTTCC 59.320 52.381 0.00 0.00 38.10 3.46
2543 2995 3.433513 AAGTATACCGCCTTCGACTTC 57.566 47.619 0.00 0.00 38.10 3.01
2544 2996 3.950395 AGTAAGTATACCGCCTTCGACTT 59.050 43.478 0.00 0.00 38.10 3.01
2545 2997 3.549794 AGTAAGTATACCGCCTTCGACT 58.450 45.455 0.00 0.00 38.10 4.18
2546 2998 3.978718 AGTAAGTATACCGCCTTCGAC 57.021 47.619 0.00 0.00 38.10 4.20


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

AutoCloner maintained by Alex Coulton.