Multiple sequence alignment - TraesCS3A01G441900

Loading Multiple Alignment...

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 TraesCS3A01G441900 chr3A 100.000 2339 0 0 1 2339 683682608 683680270 0.000000e+00 4320.0
1 TraesCS3A01G441900 chr3A 92.644 1074 70 5 741 1811 683548874 683547807 0.000000e+00 1537.0
2 TraesCS3A01G441900 chr3A 98.789 743 7 2 1 741 606572771 606572029 0.000000e+00 1321.0
3 TraesCS3A01G441900 chr3A 91.500 600 48 3 745 1343 24199928 24200525 0.000000e+00 822.0
4 TraesCS3A01G441900 chr3A 93.820 534 25 6 222 751 741853473 741854002 0.000000e+00 797.0
5 TraesCS3A01G441900 chr3A 89.024 246 20 6 1913 2157 683547555 683547316 4.890000e-77 298.0
6 TraesCS3A01G441900 chr3A 94.737 152 4 3 1363 1513 24200605 24200753 1.400000e-57 233.0
7 TraesCS3A01G441900 chr3A 77.000 100 21 2 1766 1864 325432265 325432167 3.250000e-04 56.5
8 TraesCS3A01G441900 chr4A 98.935 751 6 2 1 750 594268517 594267768 0.000000e+00 1341.0
9 TraesCS3A01G441900 chr4A 81.699 153 25 3 2180 2331 601435257 601435107 8.780000e-25 124.0
10 TraesCS3A01G441900 chrUn 99.194 744 4 1 1 742 122297978 122298721 0.000000e+00 1339.0
11 TraesCS3A01G441900 chr6B 99.059 744 5 2 1 742 95567929 95568672 0.000000e+00 1334.0
12 TraesCS3A01G441900 chr5A 99.055 741 4 2 1 739 665602544 665603283 0.000000e+00 1327.0
13 TraesCS3A01G441900 chr5A 96.809 752 21 2 1 750 665134100 665133350 0.000000e+00 1253.0
14 TraesCS3A01G441900 chr5A 80.519 154 25 4 2180 2331 159760205 159760055 1.900000e-21 113.0
15 TraesCS3A01G441900 chr1D 92.763 760 35 11 3 750 235997577 235996826 0.000000e+00 1081.0
16 TraesCS3A01G441900 chr2D 90.293 752 56 8 3 742 535018250 535018996 0.000000e+00 968.0
17 TraesCS3A01G441900 chr4B 93.377 604 36 4 741 1343 604888057 604888657 0.000000e+00 891.0
18 TraesCS3A01G441900 chr4B 84.314 153 20 2 1583 1731 604888974 604889126 1.870000e-31 147.0
19 TraesCS3A01G441900 chr4B 80.392 153 27 3 2180 2331 100818864 100818714 1.900000e-21 113.0
20 TraesCS3A01G441900 chr3D 93.377 604 37 3 741 1343 547001937 547001336 0.000000e+00 891.0
21 TraesCS3A01G441900 chr3D 84.160 827 63 21 1363 2157 547001225 547000435 0.000000e+00 739.0
22 TraesCS3A01G441900 chr3D 91.209 182 16 0 2158 2339 547022967 547022786 4.990000e-62 248.0
23 TraesCS3A01G441900 chr3B 93.201 603 39 2 742 1343 724187533 724186932 0.000000e+00 885.0
24 TraesCS3A01G441900 chr3B 85.070 710 65 11 1471 2157 724186679 724185988 0.000000e+00 686.0
25 TraesCS3A01G441900 chr3B 87.709 179 21 1 2160 2337 724203158 724202980 8.470000e-50 207.0
26 TraesCS3A01G441900 chr3B 90.991 111 6 4 1363 1472 724186851 724186744 1.870000e-31 147.0
27 TraesCS3A01G441900 chr3B 90.164 61 6 0 1815 1875 654052358 654052298 1.930000e-11 80.5
28 TraesCS3A01G441900 chr3B 85.714 70 8 2 1796 1864 805483872 805483940 3.220000e-09 73.1
29 TraesCS3A01G441900 chr2A 94.487 526 28 1 818 1343 5291287 5290763 0.000000e+00 809.0
30 TraesCS3A01G441900 chr2A 90.278 504 38 6 1363 1865 5290679 5290186 0.000000e+00 649.0
31 TraesCS3A01G441900 chr2A 80.519 154 25 4 2180 2331 461906100 461905950 1.900000e-21 113.0
32 TraesCS3A01G441900 chr7A 76.534 277 50 11 1609 1872 30874954 30875228 1.130000e-28 137.0
33 TraesCS3A01G441900 chr6D 81.699 153 25 3 2180 2331 461883710 461883560 8.780000e-25 124.0
34 TraesCS3A01G441900 chr7D 80.392 153 27 3 2180 2331 51474468 51474318 1.900000e-21 113.0
35 TraesCS3A01G441900 chr7D 97.778 45 0 1 1821 1864 115856322 115856366 2.490000e-10 76.8
36 TraesCS3A01G441900 chr1B 79.747 158 26 5 2177 2331 16620890 16621044 2.460000e-20 110.0
37 TraesCS3A01G441900 chr2B 95.833 48 1 1 1821 1867 779133546 779133593 2.490000e-10 76.8
38 TraesCS3A01G441900 chr2B 80.208 96 15 4 1775 1868 570494339 570494246 4.170000e-08 69.4
39 TraesCS3A01G441900 chr2B 80.208 96 15 4 1775 1868 570579727 570579634 4.170000e-08 69.4


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3A01G441900 chr3A 683680270 683682608 2338 True 4320.000000 4320 100.0000 1 2339 1 chr3A.!!$R3 2338
1 TraesCS3A01G441900 chr3A 606572029 606572771 742 True 1321.000000 1321 98.7890 1 741 1 chr3A.!!$R2 740
2 TraesCS3A01G441900 chr3A 683547316 683548874 1558 True 917.500000 1537 90.8340 741 2157 2 chr3A.!!$R4 1416
3 TraesCS3A01G441900 chr3A 741853473 741854002 529 False 797.000000 797 93.8200 222 751 1 chr3A.!!$F1 529
4 TraesCS3A01G441900 chr3A 24199928 24200753 825 False 527.500000 822 93.1185 745 1513 2 chr3A.!!$F2 768
5 TraesCS3A01G441900 chr4A 594267768 594268517 749 True 1341.000000 1341 98.9350 1 750 1 chr4A.!!$R1 749
6 TraesCS3A01G441900 chrUn 122297978 122298721 743 False 1339.000000 1339 99.1940 1 742 1 chrUn.!!$F1 741
7 TraesCS3A01G441900 chr6B 95567929 95568672 743 False 1334.000000 1334 99.0590 1 742 1 chr6B.!!$F1 741
8 TraesCS3A01G441900 chr5A 665602544 665603283 739 False 1327.000000 1327 99.0550 1 739 1 chr5A.!!$F1 738
9 TraesCS3A01G441900 chr5A 665133350 665134100 750 True 1253.000000 1253 96.8090 1 750 1 chr5A.!!$R2 749
10 TraesCS3A01G441900 chr1D 235996826 235997577 751 True 1081.000000 1081 92.7630 3 750 1 chr1D.!!$R1 747
11 TraesCS3A01G441900 chr2D 535018250 535018996 746 False 968.000000 968 90.2930 3 742 1 chr2D.!!$F1 739
12 TraesCS3A01G441900 chr4B 604888057 604889126 1069 False 519.000000 891 88.8455 741 1731 2 chr4B.!!$F1 990
13 TraesCS3A01G441900 chr3D 547000435 547001937 1502 True 815.000000 891 88.7685 741 2157 2 chr3D.!!$R2 1416
14 TraesCS3A01G441900 chr3B 724185988 724187533 1545 True 572.666667 885 89.7540 742 2157 3 chr3B.!!$R3 1415
15 TraesCS3A01G441900 chr2A 5290186 5291287 1101 True 729.000000 809 92.3825 818 1865 2 chr2A.!!$R2 1047

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
610 624 3.382278 TCGTACCCATTGTAACCCCATA 58.618 45.455 0.0 0.0 0.0 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2134 2660 0.040157 CCGTCCGTTCGACAAGTGTA 60.04 55.0 0.0 0.0 42.07 2.9 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
610 624 3.382278 TCGTACCCATTGTAACCCCATA 58.618 45.455 0.00 0.00 0.00 2.74
773 793 7.444629 ACGAGCTATTATTTATCGACACCTA 57.555 36.000 0.00 0.00 37.16 3.08
776 796 9.355215 CGAGCTATTATTTATCGACACCTAAAT 57.645 33.333 6.88 6.88 35.47 1.40
825 845 4.927425 GCTCTTCAACAAACATAGGACGTA 59.073 41.667 0.00 0.00 0.00 3.57
904 924 9.669887 AAAATAACCATGTTAGTATCCACGTAA 57.330 29.630 0.00 0.00 0.00 3.18
950 970 6.476706 CGTGAATGTGCTCATACTTTCATCTA 59.523 38.462 0.93 0.00 42.71 1.98
951 971 7.515841 CGTGAATGTGCTCATACTTTCATCTAC 60.516 40.741 0.93 0.00 42.71 2.59
965 985 4.720649 TCATCTACTCGAGTTTGGAAGG 57.279 45.455 25.44 14.82 0.00 3.46
1054 1074 1.818060 TGATATGCTTGTGGTTGGTGC 59.182 47.619 0.00 0.00 0.00 5.01
1071 1091 0.952497 TGCTGCTGCTTCTCCTTTCG 60.952 55.000 17.00 0.00 40.48 3.46
1073 1093 1.673033 GCTGCTGCTTCTCCTTTCGTA 60.673 52.381 8.53 0.00 36.03 3.43
1075 1095 3.738281 GCTGCTGCTTCTCCTTTCGTATA 60.738 47.826 8.53 0.00 36.03 1.47
1163 1184 8.970020 TGATTCTTATTGTTTGCTAATGGATGT 58.030 29.630 0.00 0.00 0.00 3.06
1193 1214 5.424573 AGATGAGATCTGATGGTTGTGAAGA 59.575 40.000 0.00 0.00 38.44 2.87
1354 1421 0.032130 TTAGGCATGCTCGATCGGTC 59.968 55.000 18.92 7.89 0.00 4.79
1483 1735 6.430451 CCATCGTCTATTAGTTTTCAATGGC 58.570 40.000 0.00 0.00 0.00 4.40
1584 1838 2.033577 CGTGAGATCGACGGTAGAGAAG 60.034 54.545 11.29 0.00 33.08 2.85
1601 1879 1.871676 GAAGAACCTTTTTCCGCGAGT 59.128 47.619 8.23 0.00 0.00 4.18
1628 1906 2.317609 CGTGCGGCTGCTTACACTT 61.318 57.895 20.27 0.00 43.34 3.16
1629 1907 1.841663 CGTGCGGCTGCTTACACTTT 61.842 55.000 20.27 0.00 43.34 2.66
1670 1952 2.912956 TCTTGGACATCTAAAGCCCAGT 59.087 45.455 0.00 0.00 0.00 4.00
1731 2013 3.787394 CGGCCCATCCCGTATAGT 58.213 61.111 0.00 0.00 43.24 2.12
1735 2017 2.463752 GGCCCATCCCGTATAGTGATA 58.536 52.381 0.00 0.00 0.00 2.15
1748 2030 8.746530 CCCGTATAGTGATATGTGGTTACTTAT 58.253 37.037 0.00 0.00 31.86 1.73
1756 2038 8.552034 GTGATATGTGGTTACTTATGAGCTTTC 58.448 37.037 0.00 0.00 30.01 2.62
1821 2111 2.747855 GCCAGAAGCCTTGACGGG 60.748 66.667 0.00 0.00 34.35 5.28
1854 2144 6.127619 GGCAGGAAAAGTGCTCAGTTATAATT 60.128 38.462 0.00 0.00 40.97 1.40
1888 2183 7.775397 AAATTAAATGTGCCATGTTATGCTC 57.225 32.000 0.00 0.00 0.00 4.26
1896 2191 3.390967 TGCCATGTTATGCTCTTAGCCTA 59.609 43.478 0.00 0.00 41.51 3.93
1910 2205 6.146347 GCTCTTAGCCTATTATTACTGTGTGC 59.854 42.308 0.00 0.00 34.48 4.57
1911 2206 6.213677 TCTTAGCCTATTATTACTGTGTGCG 58.786 40.000 0.00 0.00 0.00 5.34
1931 2411 1.269051 GGTGTTGTGTTGTTAGCCTGC 60.269 52.381 0.00 0.00 0.00 4.85
1944 2424 2.391389 GCCTGCTACTTCGCACACC 61.391 63.158 0.00 0.00 35.74 4.16
1945 2425 1.005037 CCTGCTACTTCGCACACCA 60.005 57.895 0.00 0.00 35.74 4.17
1946 2426 0.602638 CCTGCTACTTCGCACACCAA 60.603 55.000 0.00 0.00 35.74 3.67
1947 2427 0.792640 CTGCTACTTCGCACACCAAG 59.207 55.000 0.00 0.00 35.74 3.61
1948 2428 1.227999 TGCTACTTCGCACACCAAGC 61.228 55.000 0.00 0.00 34.44 4.01
1949 2429 1.227999 GCTACTTCGCACACCAAGCA 61.228 55.000 0.00 0.00 0.00 3.91
1983 2463 4.188247 TCTCGTTTTACACATCCAGGAG 57.812 45.455 0.00 0.00 0.00 3.69
1989 2473 3.838244 TTACACATCCAGGAGCATACC 57.162 47.619 0.00 0.00 0.00 2.73
1993 2477 2.105306 CACATCCAGGAGCATACCATGA 59.895 50.000 0.00 0.00 0.00 3.07
2046 2572 4.275689 CACACATACTTGAGAGGCAAACAA 59.724 41.667 0.00 0.00 35.74 2.83
2111 2637 6.657966 ACATGTGACATGAAGAGAAATGATGT 59.342 34.615 30.26 2.70 0.00 3.06
2113 2639 6.232692 TGTGACATGAAGAGAAATGATGTCA 58.767 36.000 0.00 0.00 46.62 3.58
2120 2646 8.733458 CATGAAGAGAAATGATGTCAAAACCTA 58.267 33.333 0.00 0.00 0.00 3.08
2133 2659 0.474184 AAACCTATGATGGGCCCGAG 59.526 55.000 19.37 8.85 0.00 4.63
2134 2660 0.694444 AACCTATGATGGGCCCGAGT 60.694 55.000 19.37 5.39 0.00 4.18
2137 2663 1.338107 CTATGATGGGCCCGAGTACA 58.662 55.000 19.37 12.68 0.00 2.90
2158 2684 4.565531 GTCGAACGGACGGACAAT 57.434 55.556 0.00 0.00 35.61 2.71
2159 2685 3.700577 GTCGAACGGACGGACAATA 57.299 52.632 0.00 0.00 35.61 1.90
2160 2686 2.199291 GTCGAACGGACGGACAATAT 57.801 50.000 0.00 0.00 35.61 1.28
2161 2687 2.533266 GTCGAACGGACGGACAATATT 58.467 47.619 0.00 0.00 35.61 1.28
2162 2688 3.694734 GTCGAACGGACGGACAATATTA 58.305 45.455 0.00 0.00 35.61 0.98
2163 2689 3.727723 GTCGAACGGACGGACAATATTAG 59.272 47.826 0.00 0.00 35.61 1.73
2164 2690 2.470257 CGAACGGACGGACAATATTAGC 59.530 50.000 0.00 0.00 0.00 3.09
2165 2691 3.450578 GAACGGACGGACAATATTAGCA 58.549 45.455 0.00 0.00 0.00 3.49
2166 2692 3.530265 ACGGACGGACAATATTAGCAA 57.470 42.857 0.00 0.00 0.00 3.91
2167 2693 4.067972 ACGGACGGACAATATTAGCAAT 57.932 40.909 0.00 0.00 0.00 3.56
2168 2694 4.448210 ACGGACGGACAATATTAGCAATT 58.552 39.130 0.00 0.00 0.00 2.32
2169 2695 4.272504 ACGGACGGACAATATTAGCAATTG 59.727 41.667 0.00 0.00 39.68 2.32
2191 2717 4.188247 TCGTAAGAGAAACTCCATGGTG 57.812 45.455 12.58 12.42 45.01 4.17
2192 2718 3.830178 TCGTAAGAGAAACTCCATGGTGA 59.170 43.478 20.43 0.00 45.01 4.02
2193 2719 3.927142 CGTAAGAGAAACTCCATGGTGAC 59.073 47.826 20.43 10.63 43.02 3.67
2194 2720 2.751166 AGAGAAACTCCATGGTGACG 57.249 50.000 20.43 6.22 0.00 4.35
2195 2721 1.276421 AGAGAAACTCCATGGTGACGG 59.724 52.381 20.43 5.51 0.00 4.79
2196 2722 1.275291 GAGAAACTCCATGGTGACGGA 59.725 52.381 20.43 0.00 0.00 4.69
2197 2723 1.909302 AGAAACTCCATGGTGACGGAT 59.091 47.619 20.43 1.65 0.00 4.18
2198 2724 2.305927 AGAAACTCCATGGTGACGGATT 59.694 45.455 20.43 6.96 0.00 3.01
2199 2725 2.879103 AACTCCATGGTGACGGATTT 57.121 45.000 20.43 0.21 0.00 2.17
2200 2726 2.879103 ACTCCATGGTGACGGATTTT 57.121 45.000 20.43 0.00 0.00 1.82
2201 2727 2.436417 ACTCCATGGTGACGGATTTTG 58.564 47.619 20.43 0.00 0.00 2.44
2202 2728 1.745087 CTCCATGGTGACGGATTTTGG 59.255 52.381 12.58 0.00 0.00 3.28
2203 2729 1.352687 TCCATGGTGACGGATTTTGGA 59.647 47.619 12.58 0.00 0.00 3.53
2204 2730 1.745087 CCATGGTGACGGATTTTGGAG 59.255 52.381 2.57 0.00 0.00 3.86
2205 2731 1.745087 CATGGTGACGGATTTTGGAGG 59.255 52.381 0.00 0.00 0.00 4.30
2206 2732 0.608035 TGGTGACGGATTTTGGAGGC 60.608 55.000 0.00 0.00 0.00 4.70
2207 2733 0.608035 GGTGACGGATTTTGGAGGCA 60.608 55.000 0.00 0.00 0.00 4.75
2208 2734 1.463674 GTGACGGATTTTGGAGGCAT 58.536 50.000 0.00 0.00 0.00 4.40
2209 2735 2.639065 GTGACGGATTTTGGAGGCATA 58.361 47.619 0.00 0.00 0.00 3.14
2210 2736 3.214328 GTGACGGATTTTGGAGGCATAT 58.786 45.455 0.00 0.00 0.00 1.78
2211 2737 3.632145 GTGACGGATTTTGGAGGCATATT 59.368 43.478 0.00 0.00 0.00 1.28
2212 2738 3.631686 TGACGGATTTTGGAGGCATATTG 59.368 43.478 0.00 0.00 0.00 1.90
2213 2739 3.882888 GACGGATTTTGGAGGCATATTGA 59.117 43.478 0.00 0.00 0.00 2.57
2214 2740 3.632145 ACGGATTTTGGAGGCATATTGAC 59.368 43.478 0.00 0.00 0.00 3.18
2215 2741 3.885297 CGGATTTTGGAGGCATATTGACT 59.115 43.478 0.00 0.00 39.41 3.41
2216 2742 4.339247 CGGATTTTGGAGGCATATTGACTT 59.661 41.667 0.00 0.00 34.53 3.01
2217 2743 5.163519 CGGATTTTGGAGGCATATTGACTTT 60.164 40.000 0.00 0.00 34.53 2.66
2218 2744 6.044682 GGATTTTGGAGGCATATTGACTTTG 58.955 40.000 0.00 0.00 34.53 2.77
2219 2745 6.127366 GGATTTTGGAGGCATATTGACTTTGA 60.127 38.462 0.00 0.00 34.53 2.69
2220 2746 6.662865 TTTTGGAGGCATATTGACTTTGAA 57.337 33.333 0.00 0.00 34.53 2.69
2221 2747 6.855763 TTTGGAGGCATATTGACTTTGAAT 57.144 33.333 0.00 0.00 34.53 2.57
2222 2748 6.455360 TTGGAGGCATATTGACTTTGAATC 57.545 37.500 0.00 0.00 34.53 2.52
2223 2749 5.508567 TGGAGGCATATTGACTTTGAATCA 58.491 37.500 0.00 0.00 34.53 2.57
2224 2750 6.131264 TGGAGGCATATTGACTTTGAATCAT 58.869 36.000 0.00 0.00 34.53 2.45
2225 2751 6.608405 TGGAGGCATATTGACTTTGAATCATT 59.392 34.615 0.00 0.00 34.53 2.57
2226 2752 7.124599 TGGAGGCATATTGACTTTGAATCATTT 59.875 33.333 0.00 0.00 34.53 2.32
2227 2753 7.437267 GGAGGCATATTGACTTTGAATCATTTG 59.563 37.037 0.00 0.00 34.53 2.32
2228 2754 8.070034 AGGCATATTGACTTTGAATCATTTGA 57.930 30.769 0.00 0.00 24.46 2.69
2229 2755 7.977853 AGGCATATTGACTTTGAATCATTTGAC 59.022 33.333 0.00 0.00 24.46 3.18
2230 2756 7.760794 GGCATATTGACTTTGAATCATTTGACA 59.239 33.333 0.00 0.00 0.00 3.58
2231 2757 8.589629 GCATATTGACTTTGAATCATTTGACAC 58.410 33.333 0.00 0.00 0.00 3.67
2232 2758 9.850628 CATATTGACTTTGAATCATTTGACACT 57.149 29.630 0.00 0.00 0.00 3.55
2234 2760 5.989249 TGACTTTGAATCATTTGACACTCG 58.011 37.500 0.00 0.00 0.00 4.18
2235 2761 4.787598 ACTTTGAATCATTTGACACTCGC 58.212 39.130 0.00 0.00 0.00 5.03
2236 2762 3.454042 TTGAATCATTTGACACTCGCG 57.546 42.857 0.00 0.00 0.00 5.87
2237 2763 2.682836 TGAATCATTTGACACTCGCGA 58.317 42.857 9.26 9.26 0.00 5.87
2238 2764 3.063485 TGAATCATTTGACACTCGCGAA 58.937 40.909 11.33 0.00 0.00 4.70
2239 2765 3.120683 TGAATCATTTGACACTCGCGAAC 60.121 43.478 11.33 2.73 0.00 3.95
2240 2766 2.148916 TCATTTGACACTCGCGAACT 57.851 45.000 11.33 0.00 0.00 3.01
2241 2767 2.479837 TCATTTGACACTCGCGAACTT 58.520 42.857 11.33 0.00 0.00 2.66
2242 2768 2.869801 TCATTTGACACTCGCGAACTTT 59.130 40.909 11.33 0.00 0.00 2.66
2243 2769 3.311322 TCATTTGACACTCGCGAACTTTT 59.689 39.130 11.33 0.00 0.00 2.27
2244 2770 2.730183 TTGACACTCGCGAACTTTTG 57.270 45.000 11.33 5.05 0.00 2.44
2245 2771 1.647346 TGACACTCGCGAACTTTTGT 58.353 45.000 11.33 8.43 0.00 2.83
2246 2772 1.326245 TGACACTCGCGAACTTTTGTG 59.674 47.619 18.79 18.79 0.00 3.33
2247 2773 1.326548 GACACTCGCGAACTTTTGTGT 59.673 47.619 24.04 24.04 40.67 3.72
2248 2774 2.536803 GACACTCGCGAACTTTTGTGTA 59.463 45.455 23.90 0.00 38.52 2.90
2249 2775 2.931325 ACACTCGCGAACTTTTGTGTAA 59.069 40.909 22.98 0.00 36.96 2.41
2250 2776 3.371591 ACACTCGCGAACTTTTGTGTAAA 59.628 39.130 22.98 0.00 36.96 2.01
2251 2777 4.142859 ACACTCGCGAACTTTTGTGTAAAA 60.143 37.500 22.98 0.00 36.96 1.52
2252 2778 4.967575 CACTCGCGAACTTTTGTGTAAAAT 59.032 37.500 11.33 0.00 35.39 1.82
2253 2779 5.454232 CACTCGCGAACTTTTGTGTAAAATT 59.546 36.000 11.33 0.00 35.39 1.82
2254 2780 6.020995 CACTCGCGAACTTTTGTGTAAAATTT 60.021 34.615 11.33 0.00 35.39 1.82
2255 2781 7.164498 CACTCGCGAACTTTTGTGTAAAATTTA 59.836 33.333 11.33 0.00 35.39 1.40
2256 2782 7.375017 ACTCGCGAACTTTTGTGTAAAATTTAG 59.625 33.333 11.33 0.00 35.39 1.85
2257 2783 6.633634 TCGCGAACTTTTGTGTAAAATTTAGG 59.366 34.615 6.20 0.00 35.39 2.69
2258 2784 6.415573 CGCGAACTTTTGTGTAAAATTTAGGT 59.584 34.615 0.00 0.00 35.39 3.08
2259 2785 7.552187 GCGAACTTTTGTGTAAAATTTAGGTG 58.448 34.615 0.00 0.00 35.39 4.00
2260 2786 7.432838 GCGAACTTTTGTGTAAAATTTAGGTGA 59.567 33.333 0.00 0.00 35.39 4.02
2261 2787 8.739461 CGAACTTTTGTGTAAAATTTAGGTGAC 58.261 33.333 0.00 0.00 35.39 3.67
2262 2788 9.797556 GAACTTTTGTGTAAAATTTAGGTGACT 57.202 29.630 0.00 0.00 38.62 3.41
2274 2800 2.573941 AGGTGACTAATACGCCGTTC 57.426 50.000 0.00 0.00 42.03 3.95
2275 2801 1.820519 AGGTGACTAATACGCCGTTCA 59.179 47.619 0.00 0.00 42.03 3.18
2276 2802 1.922545 GGTGACTAATACGCCGTTCAC 59.077 52.381 9.83 9.83 0.00 3.18
2277 2803 1.580704 GTGACTAATACGCCGTTCACG 59.419 52.381 0.00 0.00 39.44 4.35
2287 2813 3.808036 CGTTCACGGGCCATAAGG 58.192 61.111 4.39 0.00 35.37 2.69
2288 2814 1.219664 CGTTCACGGGCCATAAGGA 59.780 57.895 4.39 0.00 34.18 3.36
2289 2815 0.391927 CGTTCACGGGCCATAAGGAA 60.392 55.000 4.39 0.00 34.18 3.36
2290 2816 1.092348 GTTCACGGGCCATAAGGAAC 58.908 55.000 4.39 7.15 36.89 3.62
2291 2817 0.391927 TTCACGGGCCATAAGGAACG 60.392 55.000 4.39 0.00 40.14 3.95
2292 2818 1.219664 CACGGGCCATAAGGAACGA 59.780 57.895 4.39 0.00 38.44 3.85
2293 2819 0.810031 CACGGGCCATAAGGAACGAG 60.810 60.000 4.39 0.00 38.44 4.18
2294 2820 1.887707 CGGGCCATAAGGAACGAGC 60.888 63.158 4.39 0.00 37.64 5.03
2295 2821 1.223487 GGGCCATAAGGAACGAGCA 59.777 57.895 4.39 0.00 36.89 4.26
2296 2822 0.393808 GGGCCATAAGGAACGAGCAA 60.394 55.000 4.39 0.00 36.89 3.91
2297 2823 0.733150 GGCCATAAGGAACGAGCAAC 59.267 55.000 0.00 0.00 36.89 4.17
2298 2824 1.679032 GGCCATAAGGAACGAGCAACT 60.679 52.381 0.00 0.00 36.89 3.16
2299 2825 2.419574 GGCCATAAGGAACGAGCAACTA 60.420 50.000 0.00 0.00 36.89 2.24
2300 2826 3.267483 GCCATAAGGAACGAGCAACTAA 58.733 45.455 0.00 0.00 36.89 2.24
2301 2827 3.063588 GCCATAAGGAACGAGCAACTAAC 59.936 47.826 0.00 0.00 36.89 2.34
2302 2828 4.504858 CCATAAGGAACGAGCAACTAACT 58.495 43.478 0.00 0.00 36.89 2.24
2303 2829 4.935808 CCATAAGGAACGAGCAACTAACTT 59.064 41.667 0.00 0.00 36.89 2.66
2304 2830 6.103997 CCATAAGGAACGAGCAACTAACTTA 58.896 40.000 0.00 0.00 36.89 2.24
2305 2831 6.761714 CCATAAGGAACGAGCAACTAACTTAT 59.238 38.462 0.00 0.00 36.89 1.73
2306 2832 7.280205 CCATAAGGAACGAGCAACTAACTTATT 59.720 37.037 0.00 0.00 36.89 1.40
2307 2833 6.481954 AAGGAACGAGCAACTAACTTATTG 57.518 37.500 0.00 0.00 0.00 1.90
2317 2843 7.614674 GCAACTAACTTATTGCTAATCATGC 57.385 36.000 1.80 0.00 46.21 4.06
2318 2844 7.195646 GCAACTAACTTATTGCTAATCATGCA 58.804 34.615 1.80 0.00 46.21 3.96
2319 2845 7.864379 GCAACTAACTTATTGCTAATCATGCAT 59.136 33.333 0.00 0.00 46.21 3.96
2329 2855 8.803397 ATTGCTAATCATGCATATAGATGTGT 57.197 30.769 14.31 0.00 40.34 3.72
2330 2856 7.605410 TGCTAATCATGCATATAGATGTGTG 57.395 36.000 14.31 0.00 35.31 3.82
2331 2857 6.093082 TGCTAATCATGCATATAGATGTGTGC 59.907 38.462 14.31 9.67 35.31 4.57
2332 2858 5.541098 AATCATGCATATAGATGTGTGCG 57.459 39.130 0.00 0.00 40.34 5.34
2333 2859 4.255833 TCATGCATATAGATGTGTGCGA 57.744 40.909 0.00 0.00 40.34 5.10
2334 2860 4.824289 TCATGCATATAGATGTGTGCGAT 58.176 39.130 0.00 0.00 40.34 4.58
2335 2861 4.866486 TCATGCATATAGATGTGTGCGATC 59.134 41.667 0.00 0.00 40.34 3.69
2336 2862 3.588955 TGCATATAGATGTGTGCGATCC 58.411 45.455 0.00 0.00 40.34 3.36
2337 2863 3.006752 TGCATATAGATGTGTGCGATCCA 59.993 43.478 0.00 0.00 40.34 3.41
2338 2864 3.996363 GCATATAGATGTGTGCGATCCAA 59.004 43.478 0.00 0.00 35.30 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
923 943 5.178061 TGAAAGTATGAGCACATTCACGAT 58.822 37.500 0.83 0.00 32.77 3.73
926 946 6.674694 AGATGAAAGTATGAGCACATTCAC 57.325 37.500 0.83 0.00 38.51 3.18
934 954 6.067263 ACTCGAGTAGATGAAAGTATGAGC 57.933 41.667 18.46 0.00 0.00 4.26
950 970 4.956700 TCAGATATCCTTCCAAACTCGAGT 59.043 41.667 13.58 13.58 0.00 4.18
951 971 5.521906 TCAGATATCCTTCCAAACTCGAG 57.478 43.478 11.84 11.84 0.00 4.04
965 985 9.196552 TGTGTCGATGATGTATTTTCAGATATC 57.803 33.333 0.00 0.00 0.00 1.63
1054 1074 2.370281 TACGAAAGGAGAAGCAGCAG 57.630 50.000 0.00 0.00 0.00 4.24
1073 1093 8.818860 TGTGTAGGTTAATTGTGTTCCTACTAT 58.181 33.333 16.87 0.00 46.08 2.12
1075 1095 7.069877 TGTGTAGGTTAATTGTGTTCCTACT 57.930 36.000 16.87 0.00 46.08 2.57
1163 1184 7.767659 CACAACCATCAGATCTCATCTTTTCTA 59.232 37.037 0.00 0.00 37.58 2.10
1193 1214 2.785269 TCCCAGGTTTGGCTATCATGAT 59.215 45.455 13.81 13.81 43.58 2.45
1354 1421 8.408601 ACCTTTATTTTATTGCATGACTAGCAG 58.591 33.333 0.00 0.00 43.75 4.24
1383 1567 5.012239 AGTGAACATTACACCATCAAGCAT 58.988 37.500 0.00 0.00 38.82 3.79
1428 1614 8.969260 ATGAGCAGTGTTAATCATAATCAAGA 57.031 30.769 0.00 0.00 30.78 3.02
1584 1838 2.032426 TCAAACTCGCGGAAAAAGGTTC 59.968 45.455 6.13 0.00 0.00 3.62
1601 1879 3.936203 AGCCGCACGTCCCTCAAA 61.936 61.111 0.00 0.00 0.00 2.69
1680 1962 4.643795 ATGGACGACCTGCCATTG 57.356 55.556 5.33 0.00 42.03 2.82
1731 2013 7.438160 CGAAAGCTCATAAGTAACCACATATCA 59.562 37.037 0.00 0.00 0.00 2.15
1756 2038 1.933181 TGGCTGTTAGATCGATTTGCG 59.067 47.619 0.00 0.00 42.69 4.85
1815 2105 2.525629 TGCCCTCTCAACCCGTCA 60.526 61.111 0.00 0.00 0.00 4.35
1816 2106 2.266055 CTGCCCTCTCAACCCGTC 59.734 66.667 0.00 0.00 0.00 4.79
1817 2107 3.322466 CCTGCCCTCTCAACCCGT 61.322 66.667 0.00 0.00 0.00 5.28
1818 2108 2.124507 TTTCCTGCCCTCTCAACCCG 62.125 60.000 0.00 0.00 0.00 5.28
1819 2109 0.112412 TTTTCCTGCCCTCTCAACCC 59.888 55.000 0.00 0.00 0.00 4.11
1820 2110 1.202940 ACTTTTCCTGCCCTCTCAACC 60.203 52.381 0.00 0.00 0.00 3.77
1821 2111 1.882623 CACTTTTCCTGCCCTCTCAAC 59.117 52.381 0.00 0.00 0.00 3.18
1822 2112 1.819305 GCACTTTTCCTGCCCTCTCAA 60.819 52.381 0.00 0.00 0.00 3.02
1868 2163 6.238731 GCTAAGAGCATAACATGGCACATTTA 60.239 38.462 0.00 0.00 42.48 1.40
1869 2164 5.450965 GCTAAGAGCATAACATGGCACATTT 60.451 40.000 0.00 0.00 42.48 2.32
1870 2165 4.037208 GCTAAGAGCATAACATGGCACATT 59.963 41.667 0.00 0.00 42.48 2.71
1871 2166 3.567164 GCTAAGAGCATAACATGGCACAT 59.433 43.478 0.00 0.00 42.48 3.21
1872 2167 2.945008 GCTAAGAGCATAACATGGCACA 59.055 45.455 0.00 0.00 42.52 4.57
1873 2168 2.291741 GGCTAAGAGCATAACATGGCAC 59.708 50.000 0.00 0.00 44.75 5.01
1874 2169 2.173356 AGGCTAAGAGCATAACATGGCA 59.827 45.455 0.00 0.00 44.75 4.92
1875 2170 2.856222 AGGCTAAGAGCATAACATGGC 58.144 47.619 0.00 0.00 44.75 4.40
1876 2171 8.798859 AATAATAGGCTAAGAGCATAACATGG 57.201 34.615 0.00 0.00 41.07 3.66
1881 2176 9.929180 CACAGTAATAATAGGCTAAGAGCATAA 57.071 33.333 0.00 0.00 41.07 1.90
1883 2178 7.875041 CACACAGTAATAATAGGCTAAGAGCAT 59.125 37.037 0.00 0.00 44.75 3.79
1888 2183 5.405571 CCGCACACAGTAATAATAGGCTAAG 59.594 44.000 0.00 0.00 0.00 2.18
1896 2191 4.069304 ACAACACCGCACACAGTAATAAT 58.931 39.130 0.00 0.00 0.00 1.28
1910 2205 1.002900 CAGGCTAACAACACAACACCG 60.003 52.381 0.00 0.00 0.00 4.94
1911 2206 1.269051 GCAGGCTAACAACACAACACC 60.269 52.381 0.00 0.00 0.00 4.16
1931 2411 0.512952 GTGCTTGGTGTGCGAAGTAG 59.487 55.000 0.00 0.00 33.69 2.57
1944 2424 0.040958 GAACCGTCTGCTTGTGCTTG 60.041 55.000 0.00 0.00 40.48 4.01
1945 2425 0.179045 AGAACCGTCTGCTTGTGCTT 60.179 50.000 0.00 0.00 40.48 3.91
1946 2426 0.601311 GAGAACCGTCTGCTTGTGCT 60.601 55.000 0.00 0.00 40.48 4.40
1947 2427 1.862806 GAGAACCGTCTGCTTGTGC 59.137 57.895 0.00 0.00 32.80 4.57
1948 2428 2.145225 CGAGAACCGTCTGCTTGTG 58.855 57.895 0.00 0.00 32.80 3.33
1949 2429 4.655527 CGAGAACCGTCTGCTTGT 57.344 55.556 0.00 0.00 32.80 3.16
1989 2473 5.571784 AATGTAGCCATGTTCAGTTCATG 57.428 39.130 0.00 0.00 41.34 3.07
1993 2477 6.264292 TGTGTAAAATGTAGCCATGTTCAGTT 59.736 34.615 0.00 0.00 30.92 3.16
2046 2572 2.301346 CTAATCCGTACCGTACCTGGT 58.699 52.381 4.05 4.05 46.26 4.00
2111 2637 1.409521 CGGGCCCATCATAGGTTTTGA 60.410 52.381 24.92 0.00 0.00 2.69
2113 2639 0.923358 TCGGGCCCATCATAGGTTTT 59.077 50.000 24.92 0.00 0.00 2.43
2120 2646 0.691078 AGTGTACTCGGGCCCATCAT 60.691 55.000 24.92 6.30 0.00 2.45
2133 2659 1.047739 CGTCCGTTCGACAAGTGTAC 58.952 55.000 0.00 0.00 42.07 2.90
2134 2660 0.040157 CCGTCCGTTCGACAAGTGTA 60.040 55.000 0.00 0.00 42.07 2.90
2137 2663 1.008079 GTCCGTCCGTTCGACAAGT 60.008 57.895 0.00 0.00 42.07 3.16
2157 2683 9.601217 AGTTTCTCTTACGACAATTGCTAATAT 57.399 29.630 5.05 0.00 0.00 1.28
2158 2684 8.997621 AGTTTCTCTTACGACAATTGCTAATA 57.002 30.769 5.05 0.00 0.00 0.98
2159 2685 7.064728 GGAGTTTCTCTTACGACAATTGCTAAT 59.935 37.037 5.05 0.00 0.00 1.73
2160 2686 6.367969 GGAGTTTCTCTTACGACAATTGCTAA 59.632 38.462 5.05 0.00 0.00 3.09
2161 2687 5.867716 GGAGTTTCTCTTACGACAATTGCTA 59.132 40.000 5.05 0.00 0.00 3.49
2162 2688 4.691216 GGAGTTTCTCTTACGACAATTGCT 59.309 41.667 5.05 0.00 0.00 3.91
2163 2689 4.451096 TGGAGTTTCTCTTACGACAATTGC 59.549 41.667 5.05 0.00 0.00 3.56
2164 2690 6.402550 CCATGGAGTTTCTCTTACGACAATTG 60.403 42.308 5.56 3.24 0.00 2.32
2165 2691 5.643777 CCATGGAGTTTCTCTTACGACAATT 59.356 40.000 5.56 0.00 0.00 2.32
2166 2692 5.178797 CCATGGAGTTTCTCTTACGACAAT 58.821 41.667 5.56 0.00 0.00 2.71
2167 2693 4.039973 ACCATGGAGTTTCTCTTACGACAA 59.960 41.667 21.47 0.00 0.00 3.18
2168 2694 3.576982 ACCATGGAGTTTCTCTTACGACA 59.423 43.478 21.47 0.00 0.00 4.35
2169 2695 3.927142 CACCATGGAGTTTCTCTTACGAC 59.073 47.826 21.47 0.00 0.00 4.34
2170 2696 3.830178 TCACCATGGAGTTTCTCTTACGA 59.170 43.478 21.47 0.00 0.00 3.43
2171 2697 3.927142 GTCACCATGGAGTTTCTCTTACG 59.073 47.826 21.47 0.00 0.00 3.18
2172 2698 3.927142 CGTCACCATGGAGTTTCTCTTAC 59.073 47.826 21.47 0.83 0.00 2.34
2173 2699 3.056107 CCGTCACCATGGAGTTTCTCTTA 60.056 47.826 21.47 0.00 0.00 2.10
2174 2700 2.289694 CCGTCACCATGGAGTTTCTCTT 60.290 50.000 21.47 0.00 0.00 2.85
2175 2701 1.276421 CCGTCACCATGGAGTTTCTCT 59.724 52.381 21.47 0.00 0.00 3.10
2176 2702 1.275291 TCCGTCACCATGGAGTTTCTC 59.725 52.381 21.47 0.55 32.11 2.87
2177 2703 1.348064 TCCGTCACCATGGAGTTTCT 58.652 50.000 21.47 0.00 32.11 2.52
2178 2704 2.403252 ATCCGTCACCATGGAGTTTC 57.597 50.000 21.47 5.33 41.34 2.78
2179 2705 2.879103 AATCCGTCACCATGGAGTTT 57.121 45.000 21.47 0.00 41.34 2.66
2180 2706 2.819608 CAAAATCCGTCACCATGGAGTT 59.180 45.455 21.47 0.00 45.99 3.01
2181 2707 2.436417 CAAAATCCGTCACCATGGAGT 58.564 47.619 21.47 0.00 41.34 3.85
2182 2708 1.745087 CCAAAATCCGTCACCATGGAG 59.255 52.381 21.47 11.61 41.34 3.86
2183 2709 1.352687 TCCAAAATCCGTCACCATGGA 59.647 47.619 21.47 0.00 42.32 3.41
2184 2710 1.745087 CTCCAAAATCCGTCACCATGG 59.255 52.381 11.19 11.19 0.00 3.66
2185 2711 1.745087 CCTCCAAAATCCGTCACCATG 59.255 52.381 0.00 0.00 0.00 3.66
2186 2712 1.955208 GCCTCCAAAATCCGTCACCAT 60.955 52.381 0.00 0.00 0.00 3.55
2187 2713 0.608035 GCCTCCAAAATCCGTCACCA 60.608 55.000 0.00 0.00 0.00 4.17
2188 2714 0.608035 TGCCTCCAAAATCCGTCACC 60.608 55.000 0.00 0.00 0.00 4.02
2189 2715 1.463674 ATGCCTCCAAAATCCGTCAC 58.536 50.000 0.00 0.00 0.00 3.67
2190 2716 3.576078 ATATGCCTCCAAAATCCGTCA 57.424 42.857 0.00 0.00 0.00 4.35
2191 2717 3.882888 TCAATATGCCTCCAAAATCCGTC 59.117 43.478 0.00 0.00 0.00 4.79
2192 2718 3.632145 GTCAATATGCCTCCAAAATCCGT 59.368 43.478 0.00 0.00 0.00 4.69
2193 2719 3.885297 AGTCAATATGCCTCCAAAATCCG 59.115 43.478 0.00 0.00 0.00 4.18
2194 2720 5.859205 AAGTCAATATGCCTCCAAAATCC 57.141 39.130 0.00 0.00 0.00 3.01
2195 2721 6.866480 TCAAAGTCAATATGCCTCCAAAATC 58.134 36.000 0.00 0.00 0.00 2.17
2196 2722 6.855763 TCAAAGTCAATATGCCTCCAAAAT 57.144 33.333 0.00 0.00 0.00 1.82
2197 2723 6.662865 TTCAAAGTCAATATGCCTCCAAAA 57.337 33.333 0.00 0.00 0.00 2.44
2198 2724 6.436847 TGATTCAAAGTCAATATGCCTCCAAA 59.563 34.615 0.00 0.00 0.00 3.28
2199 2725 5.951148 TGATTCAAAGTCAATATGCCTCCAA 59.049 36.000 0.00 0.00 0.00 3.53
2200 2726 5.508567 TGATTCAAAGTCAATATGCCTCCA 58.491 37.500 0.00 0.00 0.00 3.86
2201 2727 6.645790 ATGATTCAAAGTCAATATGCCTCC 57.354 37.500 0.00 0.00 0.00 4.30
2202 2728 8.192774 TCAAATGATTCAAAGTCAATATGCCTC 58.807 33.333 0.00 0.00 0.00 4.70
2203 2729 7.977853 GTCAAATGATTCAAAGTCAATATGCCT 59.022 33.333 0.00 0.00 0.00 4.75
2204 2730 7.760794 TGTCAAATGATTCAAAGTCAATATGCC 59.239 33.333 0.00 0.00 0.00 4.40
2205 2731 8.589629 GTGTCAAATGATTCAAAGTCAATATGC 58.410 33.333 0.00 0.00 0.00 3.14
2206 2732 9.850628 AGTGTCAAATGATTCAAAGTCAATATG 57.149 29.630 0.00 0.00 0.00 1.78
2208 2734 8.229811 CGAGTGTCAAATGATTCAAAGTCAATA 58.770 33.333 0.00 0.00 0.00 1.90
2209 2735 7.080099 CGAGTGTCAAATGATTCAAAGTCAAT 58.920 34.615 0.00 0.00 0.00 2.57
2210 2736 6.429624 CGAGTGTCAAATGATTCAAAGTCAA 58.570 36.000 0.00 0.00 0.00 3.18
2211 2737 5.560760 GCGAGTGTCAAATGATTCAAAGTCA 60.561 40.000 0.00 0.00 0.00 3.41
2212 2738 4.848299 GCGAGTGTCAAATGATTCAAAGTC 59.152 41.667 0.00 0.00 0.00 3.01
2213 2739 4.611355 CGCGAGTGTCAAATGATTCAAAGT 60.611 41.667 0.00 0.00 0.00 2.66
2214 2740 3.842428 CGCGAGTGTCAAATGATTCAAAG 59.158 43.478 0.00 0.00 0.00 2.77
2215 2741 3.496507 TCGCGAGTGTCAAATGATTCAAA 59.503 39.130 3.71 0.00 0.00 2.69
2216 2742 3.063485 TCGCGAGTGTCAAATGATTCAA 58.937 40.909 3.71 0.00 0.00 2.69
2217 2743 2.682836 TCGCGAGTGTCAAATGATTCA 58.317 42.857 3.71 0.00 0.00 2.57
2218 2744 3.123621 AGTTCGCGAGTGTCAAATGATTC 59.876 43.478 9.59 0.00 0.00 2.52
2219 2745 3.067106 AGTTCGCGAGTGTCAAATGATT 58.933 40.909 9.59 0.00 0.00 2.57
2220 2746 2.688507 AGTTCGCGAGTGTCAAATGAT 58.311 42.857 9.59 0.00 0.00 2.45
2221 2747 2.148916 AGTTCGCGAGTGTCAAATGA 57.851 45.000 9.59 0.00 0.00 2.57
2222 2748 2.949714 AAGTTCGCGAGTGTCAAATG 57.050 45.000 9.59 0.00 0.00 2.32
2223 2749 3.064820 ACAAAAGTTCGCGAGTGTCAAAT 59.935 39.130 9.59 0.00 0.00 2.32
2224 2750 2.417239 ACAAAAGTTCGCGAGTGTCAAA 59.583 40.909 9.59 0.00 0.00 2.69
2225 2751 2.004017 ACAAAAGTTCGCGAGTGTCAA 58.996 42.857 9.59 0.00 0.00 3.18
2226 2752 1.326245 CACAAAAGTTCGCGAGTGTCA 59.674 47.619 9.59 0.00 0.00 3.58
2227 2753 1.326548 ACACAAAAGTTCGCGAGTGTC 59.673 47.619 19.93 8.66 35.50 3.67
2228 2754 1.365699 ACACAAAAGTTCGCGAGTGT 58.634 45.000 19.93 19.93 35.58 3.55
2229 2755 3.579147 TTACACAAAAGTTCGCGAGTG 57.421 42.857 18.79 18.79 0.00 3.51
2230 2756 4.603231 TTTTACACAAAAGTTCGCGAGT 57.397 36.364 9.59 3.51 0.00 4.18
2231 2757 6.490877 AAATTTTACACAAAAGTTCGCGAG 57.509 33.333 9.59 0.00 37.35 5.03
2232 2758 6.633634 CCTAAATTTTACACAAAAGTTCGCGA 59.366 34.615 3.71 3.71 40.15 5.87
2233 2759 6.415573 ACCTAAATTTTACACAAAAGTTCGCG 59.584 34.615 0.00 0.00 40.15 5.87
2234 2760 7.432838 TCACCTAAATTTTACACAAAAGTTCGC 59.567 33.333 0.00 0.00 40.15 4.70
2235 2761 8.739461 GTCACCTAAATTTTACACAAAAGTTCG 58.261 33.333 0.00 0.00 40.15 3.95
2236 2762 9.797556 AGTCACCTAAATTTTACACAAAAGTTC 57.202 29.630 0.00 0.00 40.15 3.01
2243 2769 8.658609 GCGTATTAGTCACCTAAATTTTACACA 58.341 33.333 0.00 0.00 36.76 3.72
2244 2770 8.118607 GGCGTATTAGTCACCTAAATTTTACAC 58.881 37.037 0.00 0.00 36.76 2.90
2245 2771 7.010367 CGGCGTATTAGTCACCTAAATTTTACA 59.990 37.037 0.00 0.00 36.76 2.41
2246 2772 7.010460 ACGGCGTATTAGTCACCTAAATTTTAC 59.990 37.037 12.58 0.00 36.76 2.01
2247 2773 7.041107 ACGGCGTATTAGTCACCTAAATTTTA 58.959 34.615 12.58 0.00 36.76 1.52
2248 2774 5.876460 ACGGCGTATTAGTCACCTAAATTTT 59.124 36.000 12.58 0.00 36.76 1.82
2249 2775 5.422145 ACGGCGTATTAGTCACCTAAATTT 58.578 37.500 12.58 0.00 36.76 1.82
2250 2776 5.014808 ACGGCGTATTAGTCACCTAAATT 57.985 39.130 12.58 0.00 36.76 1.82
2251 2777 4.660789 ACGGCGTATTAGTCACCTAAAT 57.339 40.909 12.58 0.00 36.76 1.40
2252 2778 4.082300 TGAACGGCGTATTAGTCACCTAAA 60.082 41.667 15.20 0.00 36.76 1.85
2253 2779 3.443329 TGAACGGCGTATTAGTCACCTAA 59.557 43.478 15.20 0.00 37.56 2.69
2254 2780 3.016031 TGAACGGCGTATTAGTCACCTA 58.984 45.455 15.20 0.00 0.00 3.08
2255 2781 1.820519 TGAACGGCGTATTAGTCACCT 59.179 47.619 15.20 0.00 0.00 4.00
2256 2782 1.922545 GTGAACGGCGTATTAGTCACC 59.077 52.381 24.02 11.19 0.00 4.02
2257 2783 1.580704 CGTGAACGGCGTATTAGTCAC 59.419 52.381 24.39 24.39 35.37 3.67
2258 2784 1.898938 CGTGAACGGCGTATTAGTCA 58.101 50.000 15.20 10.51 35.37 3.41
2270 2796 0.391927 TTCCTTATGGCCCGTGAACG 60.392 55.000 0.00 0.00 39.44 3.95
2271 2797 1.092348 GTTCCTTATGGCCCGTGAAC 58.908 55.000 0.00 2.56 0.00 3.18
2272 2798 0.391927 CGTTCCTTATGGCCCGTGAA 60.392 55.000 0.00 0.00 0.00 3.18
2273 2799 1.219664 CGTTCCTTATGGCCCGTGA 59.780 57.895 0.00 0.00 0.00 4.35
2274 2800 0.810031 CTCGTTCCTTATGGCCCGTG 60.810 60.000 0.00 0.00 0.00 4.94
2275 2801 1.520666 CTCGTTCCTTATGGCCCGT 59.479 57.895 0.00 0.00 0.00 5.28
2276 2802 1.887707 GCTCGTTCCTTATGGCCCG 60.888 63.158 0.00 0.00 0.00 6.13
2277 2803 0.393808 TTGCTCGTTCCTTATGGCCC 60.394 55.000 0.00 0.00 0.00 5.80
2278 2804 0.733150 GTTGCTCGTTCCTTATGGCC 59.267 55.000 0.00 0.00 0.00 5.36
2279 2805 1.739067 AGTTGCTCGTTCCTTATGGC 58.261 50.000 0.00 0.00 0.00 4.40
2280 2806 4.504858 AGTTAGTTGCTCGTTCCTTATGG 58.495 43.478 0.00 0.00 0.00 2.74
2281 2807 7.772332 ATAAGTTAGTTGCTCGTTCCTTATG 57.228 36.000 0.00 0.00 0.00 1.90
2282 2808 7.201617 GCAATAAGTTAGTTGCTCGTTCCTTAT 60.202 37.037 16.36 0.00 45.41 1.73
2283 2809 6.091713 GCAATAAGTTAGTTGCTCGTTCCTTA 59.908 38.462 16.36 0.00 45.41 2.69
2284 2810 5.106673 GCAATAAGTTAGTTGCTCGTTCCTT 60.107 40.000 16.36 0.00 45.41 3.36
2285 2811 4.392138 GCAATAAGTTAGTTGCTCGTTCCT 59.608 41.667 16.36 0.00 45.41 3.36
2286 2812 4.648970 GCAATAAGTTAGTTGCTCGTTCC 58.351 43.478 16.36 0.00 45.41 3.62
2303 2829 9.895138 ACACATCTATATGCATGATTAGCAATA 57.105 29.630 10.16 0.00 46.27 1.90
2304 2830 8.674607 CACACATCTATATGCATGATTAGCAAT 58.325 33.333 10.16 0.00 46.27 3.56
2305 2831 7.361457 GCACACATCTATATGCATGATTAGCAA 60.361 37.037 10.16 0.00 46.27 3.91
2307 2833 6.484540 GCACACATCTATATGCATGATTAGC 58.515 40.000 10.16 1.74 38.00 3.09
2308 2834 6.532657 TCGCACACATCTATATGCATGATTAG 59.467 38.462 10.16 8.00 37.97 1.73
2309 2835 6.397272 TCGCACACATCTATATGCATGATTA 58.603 36.000 10.16 0.00 37.97 1.75
2310 2836 5.240121 TCGCACACATCTATATGCATGATT 58.760 37.500 10.16 0.00 37.97 2.57
2311 2837 4.824289 TCGCACACATCTATATGCATGAT 58.176 39.130 10.16 0.20 37.97 2.45
2312 2838 4.255833 TCGCACACATCTATATGCATGA 57.744 40.909 10.16 0.00 37.97 3.07
2313 2839 4.033702 GGATCGCACACATCTATATGCATG 59.966 45.833 10.16 0.00 37.97 4.06
2314 2840 4.186926 GGATCGCACACATCTATATGCAT 58.813 43.478 3.79 3.79 37.97 3.96
2315 2841 3.006752 TGGATCGCACACATCTATATGCA 59.993 43.478 0.00 0.00 37.97 3.96
2316 2842 3.588955 TGGATCGCACACATCTATATGC 58.411 45.455 0.00 0.00 36.50 3.14


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

AutoCloner maintained by Alex Coulton.