Multiple sequence alignment - TraesCS3A01G332400

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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 TraesCS3A01G332400 chr3A 100.000 3232 0 0 1 3232 577066943 577063712 0.000000e+00 5969.0
1 TraesCS3A01G332400 chr3A 90.777 824 68 8 2410 3228 826737 827557 0.000000e+00 1094.0
2 TraesCS3A01G332400 chr3A 92.481 665 33 4 2416 3078 712590177 712590826 0.000000e+00 935.0
3 TraesCS3A01G332400 chr3A 93.996 483 26 3 2406 2887 20656877 20656397 0.000000e+00 728.0
4 TraesCS3A01G332400 chr3A 89.841 502 33 9 2409 2895 185444789 185444291 2.120000e-176 628.0
5 TraesCS3A01G332400 chr3A 100.000 49 0 0 2361 2409 577040456 577040408 1.230000e-14 91.6
6 TraesCS3A01G332400 chr3D 91.531 1417 96 12 3 1403 438471728 438470320 0.000000e+00 1930.0
7 TraesCS3A01G332400 chr3D 90.049 824 43 23 1400 2192 438470204 438469389 0.000000e+00 1031.0
8 TraesCS3A01G332400 chr3B 88.934 985 77 13 427 1404 574266878 574265919 0.000000e+00 1186.0
9 TraesCS3A01G332400 chr3B 88.364 911 50 22 1400 2272 574265816 574264924 0.000000e+00 1044.0
10 TraesCS3A01G332400 chr3B 95.707 396 16 1 3 397 574267270 574266875 1.260000e-178 636.0
11 TraesCS3A01G332400 chr5A 92.615 826 42 6 2410 3232 602196936 602197745 0.000000e+00 1170.0
12 TraesCS3A01G332400 chr5A 91.362 602 48 4 2633 3232 652960506 652961105 0.000000e+00 821.0
13 TraesCS3A01G332400 chr7A 92.354 824 43 6 2410 3232 126924306 126923502 0.000000e+00 1155.0
14 TraesCS3A01G332400 chr7A 88.976 508 39 9 2410 2903 41598392 41598896 2.130000e-171 612.0
15 TraesCS3A01G332400 chr1A 91.834 845 40 3 2416 3232 8237527 8236684 0.000000e+00 1151.0
16 TraesCS3A01G332400 chr1A 90.769 65 3 2 2289 2350 328844800 328844864 2.070000e-12 84.2
17 TraesCS3A01G332400 chr4A 91.598 845 41 4 2416 3232 549780144 549780986 0.000000e+00 1140.0
18 TraesCS3A01G332400 chr5D 86.215 827 93 15 2410 3232 331673362 331674171 0.000000e+00 876.0
19 TraesCS3A01G332400 chr5D 85.645 829 99 14 2410 3232 521824998 521824184 0.000000e+00 854.0
20 TraesCS3A01G332400 chr5D 89.217 575 55 7 2662 3232 305205490 305204919 0.000000e+00 712.0
21 TraesCS3A01G332400 chr5D 88.571 70 6 1 2282 2349 539513943 539514012 2.070000e-12 84.2
22 TraesCS3A01G332400 chr5D 95.918 49 2 0 2361 2409 563211168 563211216 2.670000e-11 80.5
23 TraesCS3A01G332400 chr7D 86.473 828 72 22 2410 3232 81808068 81807276 0.000000e+00 872.0
24 TraesCS3A01G332400 chr7D 93.443 61 4 0 2289 2349 621306716 621306776 1.230000e-14 91.6
25 TraesCS3A01G332400 chr7D 95.918 49 2 0 2360 2408 44573055 44573103 2.670000e-11 80.5
26 TraesCS3A01G332400 chr7D 91.837 49 4 0 2361 2409 117890786 117890834 5.790000e-08 69.4
27 TraesCS3A01G332400 chr6A 97.706 436 9 1 2798 3232 13656728 13656293 0.000000e+00 749.0
28 TraesCS3A01G332400 chr6A 94.658 468 21 4 2769 3232 22128229 22128696 0.000000e+00 723.0
29 TraesCS3A01G332400 chr6A 97.959 49 1 0 2361 2409 13533460 13533412 5.750000e-13 86.1
30 TraesCS3A01G332400 chr6A 93.878 49 3 0 2361 2409 13566242 13566194 1.240000e-09 75.0
31 TraesCS3A01G332400 chr4D 88.581 578 55 11 2662 3232 455284574 455284001 0.000000e+00 691.0
32 TraesCS3A01G332400 chr1D 93.846 65 1 2 2289 2350 41460332 41460396 9.550000e-16 95.3
33 TraesCS3A01G332400 chr1D 90.769 65 2 3 2289 2349 110987460 110987524 2.070000e-12 84.2
34 TraesCS3A01G332400 chr4B 92.308 65 1 3 2289 2349 107085563 107085499 4.440000e-14 89.8
35 TraesCS3A01G332400 chr6B 87.500 72 7 1 2280 2349 17410822 17410893 7.430000e-12 82.4
36 TraesCS3A01G332400 chr5B 95.918 49 2 0 2361 2409 487498400 487498448 2.670000e-11 80.5
37 TraesCS3A01G332400 chr5B 88.406 69 5 2 2284 2349 662562953 662563021 2.670000e-11 80.5
38 TraesCS3A01G332400 chr7B 83.951 81 10 2 2269 2347 413108967 413108888 1.240000e-09 75.0


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 TraesCS3A01G332400 chr3A 577063712 577066943 3231 True 5969.000000 5969 100.000000 1 3232 1 chr3A.!!$R4 3231
1 TraesCS3A01G332400 chr3A 826737 827557 820 False 1094.000000 1094 90.777000 2410 3228 1 chr3A.!!$F1 818
2 TraesCS3A01G332400 chr3A 712590177 712590826 649 False 935.000000 935 92.481000 2416 3078 1 chr3A.!!$F2 662
3 TraesCS3A01G332400 chr3D 438469389 438471728 2339 True 1480.500000 1930 90.790000 3 2192 2 chr3D.!!$R1 2189
4 TraesCS3A01G332400 chr3B 574264924 574267270 2346 True 955.333333 1186 91.001667 3 2272 3 chr3B.!!$R1 2269
5 TraesCS3A01G332400 chr5A 602196936 602197745 809 False 1170.000000 1170 92.615000 2410 3232 1 chr5A.!!$F1 822
6 TraesCS3A01G332400 chr5A 652960506 652961105 599 False 821.000000 821 91.362000 2633 3232 1 chr5A.!!$F2 599
7 TraesCS3A01G332400 chr7A 126923502 126924306 804 True 1155.000000 1155 92.354000 2410 3232 1 chr7A.!!$R1 822
8 TraesCS3A01G332400 chr7A 41598392 41598896 504 False 612.000000 612 88.976000 2410 2903 1 chr7A.!!$F1 493
9 TraesCS3A01G332400 chr1A 8236684 8237527 843 True 1151.000000 1151 91.834000 2416 3232 1 chr1A.!!$R1 816
10 TraesCS3A01G332400 chr4A 549780144 549780986 842 False 1140.000000 1140 91.598000 2416 3232 1 chr4A.!!$F1 816
11 TraesCS3A01G332400 chr5D 331673362 331674171 809 False 876.000000 876 86.215000 2410 3232 1 chr5D.!!$F1 822
12 TraesCS3A01G332400 chr5D 521824184 521824998 814 True 854.000000 854 85.645000 2410 3232 1 chr5D.!!$R2 822
13 TraesCS3A01G332400 chr5D 305204919 305205490 571 True 712.000000 712 89.217000 2662 3232 1 chr5D.!!$R1 570
14 TraesCS3A01G332400 chr7D 81807276 81808068 792 True 872.000000 872 86.473000 2410 3232 1 chr7D.!!$R1 822
15 TraesCS3A01G332400 chr4D 455284001 455284574 573 True 691.000000 691 88.581000 2662 3232 1 chr4D.!!$R1 570

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
786 790 0.545646 AGGAGGAAGAAGCCATGAGC 59.454 55.0 0.0 0.0 44.25 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2383 2678 0.036732 TGGTTCAGCCACCTGATGAC 59.963 55.0 0.0 0.0 46.84 3.06 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
158 159 2.511600 CGGTTGGTGAGGCGGATC 60.512 66.667 0.00 0.00 0.00 3.36
248 249 1.603455 GCACTTGGGCTGGCAGTAA 60.603 57.895 17.16 8.40 0.00 2.24
308 309 2.268920 GGCGGCAGGATGAACTCA 59.731 61.111 3.07 0.00 39.69 3.41
353 355 6.757897 TTTCATGACAAAACTCAACTCAGT 57.242 33.333 0.00 0.00 0.00 3.41
424 426 4.858850 ACAAGGAACAATGCATGGAGATA 58.141 39.130 8.45 0.00 0.00 1.98
443 447 6.921307 GGAGATAGCTAGAAAGTAGCAAGAAC 59.079 42.308 0.00 0.00 42.68 3.01
627 631 2.608988 ACCAGCTCCCTCCTGTGG 60.609 66.667 0.00 0.00 0.00 4.17
630 634 1.687146 CAGCTCCCTCCTGTGGCTA 60.687 63.158 0.00 0.00 0.00 3.93
631 635 1.382420 AGCTCCCTCCTGTGGCTAG 60.382 63.158 0.00 0.00 0.00 3.42
694 698 1.735920 GCAGACACAGCGTGGAGAG 60.736 63.158 12.18 2.49 37.94 3.20
765 769 2.283676 AGCGGGGAGAAGACGGAA 60.284 61.111 0.00 0.00 0.00 4.30
783 787 2.421248 GGAAGAGGAGGAAGAAGCCATG 60.421 54.545 0.00 0.00 0.00 3.66
784 788 2.260639 AGAGGAGGAAGAAGCCATGA 57.739 50.000 0.00 0.00 0.00 3.07
785 789 2.117865 AGAGGAGGAAGAAGCCATGAG 58.882 52.381 0.00 0.00 0.00 2.90
786 790 0.545646 AGGAGGAAGAAGCCATGAGC 59.454 55.000 0.00 0.00 44.25 4.26
887 898 4.253273 GTCGACGCGCTCGCATTC 62.253 66.667 20.94 8.65 42.62 2.67
891 902 2.432456 ACGCGCTCGCATTCTTGA 60.432 55.556 5.73 0.00 42.06 3.02
892 903 1.756375 GACGCGCTCGCATTCTTGAT 61.756 55.000 5.73 0.00 42.06 2.57
1002 1013 4.202182 CGTCGAGGATAAGGTGGGATAAAA 60.202 45.833 0.00 0.00 0.00 1.52
1046 1061 2.034879 CGAGCAGCAACGGTGGAAT 61.035 57.895 0.90 0.00 0.00 3.01
1103 1118 2.687805 CGTCCTTCGCGTCTCTCCA 61.688 63.158 5.77 0.00 0.00 3.86
1105 1120 1.602605 TCCTTCGCGTCTCTCCACA 60.603 57.895 5.77 0.00 0.00 4.17
1106 1121 1.153939 CCTTCGCGTCTCTCCACAG 60.154 63.158 5.77 0.00 0.00 3.66
1112 1127 2.336478 CGTCTCTCCACAGTCGGCT 61.336 63.158 0.00 0.00 0.00 5.52
1115 1130 1.979155 CTCTCCACAGTCGGCTGGA 60.979 63.158 22.98 10.08 46.62 3.86
1194 1212 1.141053 ACTCCGGCCATTCTGGTATTC 59.859 52.381 2.24 0.00 40.46 1.75
1216 1239 1.271762 TGCTTCTGCTCCATGCTCTTT 60.272 47.619 0.00 0.00 43.37 2.52
1218 1241 2.159407 GCTTCTGCTCCATGCTCTTTTC 60.159 50.000 0.00 0.00 43.37 2.29
1219 1242 3.345414 CTTCTGCTCCATGCTCTTTTCT 58.655 45.455 0.00 0.00 43.37 2.52
1220 1243 3.430042 TCTGCTCCATGCTCTTTTCTT 57.570 42.857 0.00 0.00 43.37 2.52
1221 1244 3.079578 TCTGCTCCATGCTCTTTTCTTG 58.920 45.455 0.00 0.00 43.37 3.02
1222 1245 2.818432 CTGCTCCATGCTCTTTTCTTGT 59.182 45.455 0.00 0.00 43.37 3.16
1223 1246 2.555325 TGCTCCATGCTCTTTTCTTGTG 59.445 45.455 0.00 0.00 43.37 3.33
1224 1247 2.670509 GCTCCATGCTCTTTTCTTGTGC 60.671 50.000 0.00 0.00 38.95 4.57
1299 1323 4.141846 TGTTATGTTCTGCAAAAGGCCAAA 60.142 37.500 5.01 0.00 43.89 3.28
1301 1325 1.134551 TGTTCTGCAAAAGGCCAAACC 60.135 47.619 5.01 0.00 43.89 3.27
1318 1342 2.507102 CGTGCTGCGATCGAAGGT 60.507 61.111 24.43 0.00 44.77 3.50
1517 1771 6.827762 CCTCCTCTTCATTTCTCTAGCAAAAT 59.172 38.462 0.00 0.00 0.00 1.82
1526 1780 0.253044 TCTAGCAAAATCCGGCAGCT 59.747 50.000 0.00 3.76 39.22 4.24
1540 1794 1.878070 CAGCTGCTCGATTTGCCAA 59.122 52.632 0.00 0.00 0.00 4.52
1547 1801 1.331756 GCTCGATTTGCCAACGATGAT 59.668 47.619 0.00 0.00 35.58 2.45
1555 1812 2.777094 TGCCAACGATGATGAAGAACA 58.223 42.857 0.00 0.00 0.00 3.18
1556 1813 3.346315 TGCCAACGATGATGAAGAACAT 58.654 40.909 0.00 0.00 42.47 2.71
1559 1816 4.379813 GCCAACGATGATGAAGAACATGTT 60.380 41.667 11.78 11.78 39.56 2.71
1563 1820 7.297391 CAACGATGATGAAGAACATGTTTGTA 58.703 34.615 13.36 0.53 39.56 2.41
1582 1839 6.978343 TTGTATTTTACCTGAACCTGATCG 57.022 37.500 0.00 0.00 0.00 3.69
1783 2046 1.331399 GGAGGTGAGCTAGTGACCCC 61.331 65.000 0.00 0.00 0.00 4.95
1785 2048 0.324830 AGGTGAGCTAGTGACCCCTC 60.325 60.000 0.00 0.00 0.00 4.30
1787 2050 0.820871 GTGAGCTAGTGACCCCTCTG 59.179 60.000 0.00 0.00 0.00 3.35
1788 2051 0.972983 TGAGCTAGTGACCCCTCTGC 60.973 60.000 0.00 0.00 0.00 4.26
1790 2053 1.990060 GCTAGTGACCCCTCTGCCA 60.990 63.158 0.00 0.00 0.00 4.92
1791 2054 1.341156 GCTAGTGACCCCTCTGCCAT 61.341 60.000 0.00 0.00 0.00 4.40
1793 2056 0.042581 TAGTGACCCCTCTGCCATCA 59.957 55.000 0.00 0.00 0.00 3.07
1794 2057 0.842030 AGTGACCCCTCTGCCATCAA 60.842 55.000 0.00 0.00 0.00 2.57
1796 2059 1.133181 TGACCCCTCTGCCATCAACA 61.133 55.000 0.00 0.00 0.00 3.33
1797 2060 0.038166 GACCCCTCTGCCATCAACAA 59.962 55.000 0.00 0.00 0.00 2.83
1799 2062 0.329261 CCCCTCTGCCATCAACAAGA 59.671 55.000 0.00 0.00 0.00 3.02
1801 2064 2.517959 CCCTCTGCCATCAACAAGAAA 58.482 47.619 0.00 0.00 0.00 2.52
1802 2065 2.229784 CCCTCTGCCATCAACAAGAAAC 59.770 50.000 0.00 0.00 0.00 2.78
1805 2084 4.543692 CTCTGCCATCAACAAGAAACAAG 58.456 43.478 0.00 0.00 0.00 3.16
1812 2091 5.516339 CCATCAACAAGAAACAAGTTGTGAC 59.484 40.000 9.79 6.91 42.33 3.67
1840 2122 4.787551 ACTTGTGACTGACCACCATTAAA 58.212 39.130 0.00 0.00 36.26 1.52
1841 2123 5.197451 ACTTGTGACTGACCACCATTAAAA 58.803 37.500 0.00 0.00 36.26 1.52
1955 2237 0.178950 CGATGAGGAGGGATCAGGGA 60.179 60.000 0.00 0.00 0.00 4.20
2013 2295 5.069781 ACTGCCAACTAATAGCTCCTAGAAG 59.930 44.000 8.60 0.00 0.00 2.85
2042 2326 5.126222 CGATCATGATACTAGCCCAGTACAT 59.874 44.000 8.54 2.92 42.56 2.29
2148 2437 4.219944 AGCAACACTGAGTTATACTCCGAA 59.780 41.667 4.52 0.00 44.44 4.30
2149 2438 4.563184 GCAACACTGAGTTATACTCCGAAG 59.437 45.833 4.52 0.00 44.44 3.79
2150 2439 5.621555 GCAACACTGAGTTATACTCCGAAGA 60.622 44.000 4.52 0.00 44.44 2.87
2151 2440 6.387465 CAACACTGAGTTATACTCCGAAGAA 58.613 40.000 4.52 0.00 44.44 2.52
2152 2441 6.777213 ACACTGAGTTATACTCCGAAGAAT 57.223 37.500 4.52 0.00 44.44 2.40
2153 2442 7.876936 ACACTGAGTTATACTCCGAAGAATA 57.123 36.000 4.52 0.00 44.44 1.75
2154 2443 7.932335 ACACTGAGTTATACTCCGAAGAATAG 58.068 38.462 4.52 0.00 44.44 1.73
2155 2444 7.556996 ACACTGAGTTATACTCCGAAGAATAGT 59.443 37.037 4.52 0.00 44.44 2.12
2160 2455 8.757982 AGTTATACTCCGAAGAATAGTTACCA 57.242 34.615 0.00 0.00 0.00 3.25
2175 2470 9.778741 GAATAGTTACCAAGATTCACATGGATA 57.221 33.333 0.00 0.00 39.44 2.59
2176 2471 9.784531 AATAGTTACCAAGATTCACATGGATAG 57.215 33.333 0.00 0.00 39.44 2.08
2178 2473 7.861629 AGTTACCAAGATTCACATGGATAGAA 58.138 34.615 0.00 0.00 39.44 2.10
2181 2476 4.518211 CCAAGATTCACATGGATAGAAGCC 59.482 45.833 0.00 0.00 39.44 4.35
2192 2487 9.017509 CACATGGATAGAAGCCATACATAAATT 57.982 33.333 0.00 0.00 44.08 1.82
2201 2496 8.812972 AGAAGCCATACATAAATTATCTACGGA 58.187 33.333 0.00 0.00 0.00 4.69
2202 2497 9.088512 GAAGCCATACATAAATTATCTACGGAG 57.911 37.037 0.00 0.00 0.00 4.63
2203 2498 7.556844 AGCCATACATAAATTATCTACGGAGG 58.443 38.462 0.00 0.00 0.00 4.30
2207 2502 9.073368 CATACATAAATTATCTACGGAGGAACG 57.927 37.037 0.00 0.00 40.31 3.95
2219 2514 3.744426 ACGGAGGAACGTGACAATAAAAG 59.256 43.478 0.00 0.00 46.64 2.27
2223 2518 5.107065 GGAGGAACGTGACAATAAAAGTCAG 60.107 44.000 0.00 0.00 45.77 3.51
2232 2527 6.259550 GACAATAAAAGTCAGGCATTGTCT 57.740 37.500 15.10 0.00 46.09 3.41
2256 2551 4.150098 ACACAAGACTCGCTCGAAAAATAC 59.850 41.667 0.00 0.00 0.00 1.89
2259 2554 2.924290 AGACTCGCTCGAAAAATACTGC 59.076 45.455 0.00 0.00 0.00 4.40
2275 2570 3.393360 GCACCAGCACTACTCCCT 58.607 61.111 0.00 0.00 41.58 4.20
2276 2571 1.219393 GCACCAGCACTACTCCCTC 59.781 63.158 0.00 0.00 41.58 4.30
2277 2572 1.901085 CACCAGCACTACTCCCTCC 59.099 63.158 0.00 0.00 0.00 4.30
2278 2573 1.682684 ACCAGCACTACTCCCTCCG 60.683 63.158 0.00 0.00 0.00 4.63
2279 2574 1.682684 CCAGCACTACTCCCTCCGT 60.683 63.158 0.00 0.00 0.00 4.69
2280 2575 1.258445 CCAGCACTACTCCCTCCGTT 61.258 60.000 0.00 0.00 0.00 4.44
2281 2576 0.608640 CAGCACTACTCCCTCCGTTT 59.391 55.000 0.00 0.00 0.00 3.60
2282 2577 1.002087 CAGCACTACTCCCTCCGTTTT 59.998 52.381 0.00 0.00 0.00 2.43
2283 2578 2.232941 CAGCACTACTCCCTCCGTTTTA 59.767 50.000 0.00 0.00 0.00 1.52
2284 2579 2.496470 AGCACTACTCCCTCCGTTTTAG 59.504 50.000 0.00 0.00 0.00 1.85
2285 2580 2.494870 GCACTACTCCCTCCGTTTTAGA 59.505 50.000 0.00 0.00 0.00 2.10
2286 2581 3.675502 GCACTACTCCCTCCGTTTTAGAC 60.676 52.174 0.00 0.00 0.00 2.59
2287 2582 3.508793 CACTACTCCCTCCGTTTTAGACA 59.491 47.826 0.00 0.00 0.00 3.41
2288 2583 4.159879 CACTACTCCCTCCGTTTTAGACAT 59.840 45.833 0.00 0.00 0.00 3.06
2289 2584 4.776308 ACTACTCCCTCCGTTTTAGACATT 59.224 41.667 0.00 0.00 0.00 2.71
2290 2585 4.635699 ACTCCCTCCGTTTTAGACATTT 57.364 40.909 0.00 0.00 0.00 2.32
2291 2586 4.981812 ACTCCCTCCGTTTTAGACATTTT 58.018 39.130 0.00 0.00 0.00 1.82
2292 2587 6.117975 ACTCCCTCCGTTTTAGACATTTTA 57.882 37.500 0.00 0.00 0.00 1.52
2293 2588 6.171213 ACTCCCTCCGTTTTAGACATTTTAG 58.829 40.000 0.00 0.00 0.00 1.85
2294 2589 6.013984 ACTCCCTCCGTTTTAGACATTTTAGA 60.014 38.462 0.00 0.00 0.00 2.10
2295 2590 6.771573 TCCCTCCGTTTTAGACATTTTAGAA 58.228 36.000 0.00 0.00 0.00 2.10
2296 2591 7.225725 TCCCTCCGTTTTAGACATTTTAGAAA 58.774 34.615 0.00 0.00 0.00 2.52
2297 2592 7.886446 TCCCTCCGTTTTAGACATTTTAGAAAT 59.114 33.333 0.00 0.00 0.00 2.17
2298 2593 8.520351 CCCTCCGTTTTAGACATTTTAGAAATT 58.480 33.333 0.00 0.00 0.00 1.82
2299 2594 9.556030 CCTCCGTTTTAGACATTTTAGAAATTC 57.444 33.333 0.00 0.00 0.00 2.17
2300 2595 9.556030 CTCCGTTTTAGACATTTTAGAAATTCC 57.444 33.333 0.00 0.00 0.00 3.01
2301 2596 9.069082 TCCGTTTTAGACATTTTAGAAATTCCA 57.931 29.630 0.00 0.00 0.00 3.53
2302 2597 9.685828 CCGTTTTAGACATTTTAGAAATTCCAA 57.314 29.630 0.00 0.00 0.00 3.53
2309 2604 9.696917 AGACATTTTAGAAATTCCAACATTGAC 57.303 29.630 0.00 0.00 0.00 3.18
2310 2605 9.696917 GACATTTTAGAAATTCCAACATTGACT 57.303 29.630 0.00 0.00 0.00 3.41
2314 2609 9.959749 TTTTAGAAATTCCAACATTGACTACAC 57.040 29.630 0.00 0.00 0.00 2.90
2315 2610 8.684386 TTAGAAATTCCAACATTGACTACACA 57.316 30.769 0.00 0.00 0.00 3.72
2316 2611 7.581213 AGAAATTCCAACATTGACTACACAA 57.419 32.000 0.00 0.00 0.00 3.33
2317 2612 8.006298 AGAAATTCCAACATTGACTACACAAA 57.994 30.769 0.00 0.00 33.44 2.83
2318 2613 8.137437 AGAAATTCCAACATTGACTACACAAAG 58.863 33.333 0.00 0.00 33.44 2.77
2319 2614 4.829064 TCCAACATTGACTACACAAAGC 57.171 40.909 0.00 0.00 33.44 3.51
2320 2615 4.203226 TCCAACATTGACTACACAAAGCA 58.797 39.130 0.00 0.00 33.44 3.91
2321 2616 4.642437 TCCAACATTGACTACACAAAGCAA 59.358 37.500 0.00 0.00 33.44 3.91
2322 2617 5.126222 TCCAACATTGACTACACAAAGCAAA 59.874 36.000 0.00 0.00 33.44 3.68
2323 2618 5.809562 CCAACATTGACTACACAAAGCAAAA 59.190 36.000 0.00 0.00 33.44 2.44
2324 2619 6.479660 CCAACATTGACTACACAAAGCAAAAT 59.520 34.615 0.00 0.00 33.44 1.82
2325 2620 7.339207 CAACATTGACTACACAAAGCAAAATG 58.661 34.615 0.00 0.00 33.44 2.32
2326 2621 6.804677 ACATTGACTACACAAAGCAAAATGA 58.195 32.000 0.00 0.00 33.44 2.57
2327 2622 7.264221 ACATTGACTACACAAAGCAAAATGAA 58.736 30.769 0.00 0.00 33.44 2.57
2328 2623 7.927629 ACATTGACTACACAAAGCAAAATGAAT 59.072 29.630 0.00 0.00 33.44 2.57
2329 2624 7.697352 TTGACTACACAAAGCAAAATGAATG 57.303 32.000 0.00 0.00 0.00 2.67
2330 2625 7.036996 TGACTACACAAAGCAAAATGAATGA 57.963 32.000 0.00 0.00 0.00 2.57
2331 2626 7.487484 TGACTACACAAAGCAAAATGAATGAA 58.513 30.769 0.00 0.00 0.00 2.57
2332 2627 8.143193 TGACTACACAAAGCAAAATGAATGAAT 58.857 29.630 0.00 0.00 0.00 2.57
2333 2628 8.524870 ACTACACAAAGCAAAATGAATGAATC 57.475 30.769 0.00 0.00 0.00 2.52
2334 2629 8.362639 ACTACACAAAGCAAAATGAATGAATCT 58.637 29.630 0.00 0.00 0.00 2.40
2335 2630 9.844790 CTACACAAAGCAAAATGAATGAATCTA 57.155 29.630 0.00 0.00 0.00 1.98
2336 2631 8.524870 ACACAAAGCAAAATGAATGAATCTAC 57.475 30.769 0.00 0.00 0.00 2.59
2337 2632 8.143193 ACACAAAGCAAAATGAATGAATCTACA 58.857 29.630 0.00 0.00 0.00 2.74
2338 2633 8.430063 CACAAAGCAAAATGAATGAATCTACAC 58.570 33.333 0.00 0.00 0.00 2.90
2339 2634 8.362639 ACAAAGCAAAATGAATGAATCTACACT 58.637 29.630 0.00 0.00 0.00 3.55
2340 2635 8.857216 CAAAGCAAAATGAATGAATCTACACTC 58.143 33.333 0.00 0.00 0.00 3.51
2341 2636 7.934855 AGCAAAATGAATGAATCTACACTCT 57.065 32.000 0.00 0.00 0.00 3.24
2342 2637 9.453572 AAGCAAAATGAATGAATCTACACTCTA 57.546 29.630 0.00 0.00 0.00 2.43
2343 2638 9.453572 AGCAAAATGAATGAATCTACACTCTAA 57.546 29.630 0.00 0.00 0.00 2.10
2371 2666 5.262588 ACATCTGTATATGTTCGACTGCA 57.737 39.130 0.00 0.00 36.71 4.41
2372 2667 5.043903 ACATCTGTATATGTTCGACTGCAC 58.956 41.667 0.00 0.00 36.71 4.57
2373 2668 3.691498 TCTGTATATGTTCGACTGCACG 58.309 45.455 0.00 0.00 0.00 5.34
2374 2669 2.190161 TGTATATGTTCGACTGCACGC 58.810 47.619 0.00 0.00 0.00 5.34
2375 2670 2.190161 GTATATGTTCGACTGCACGCA 58.810 47.619 0.00 0.00 0.00 5.24
2376 2671 0.999406 ATATGTTCGACTGCACGCAC 59.001 50.000 0.00 0.00 0.00 5.34
2377 2672 0.038618 TATGTTCGACTGCACGCACT 60.039 50.000 1.73 0.00 31.59 4.40
2378 2673 1.284982 ATGTTCGACTGCACGCACTC 61.285 55.000 1.73 0.00 31.59 3.51
2379 2674 1.661821 GTTCGACTGCACGCACTCT 60.662 57.895 0.00 0.00 0.00 3.24
2380 2675 1.371758 TTCGACTGCACGCACTCTC 60.372 57.895 0.00 0.00 0.00 3.20
2381 2676 2.749110 TTCGACTGCACGCACTCTCC 62.749 60.000 0.00 0.00 0.00 3.71
2382 2677 2.340078 GACTGCACGCACTCTCCA 59.660 61.111 0.00 0.00 0.00 3.86
2383 2678 1.735920 GACTGCACGCACTCTCCAG 60.736 63.158 0.00 0.00 0.00 3.86
2384 2679 2.341543 CTGCACGCACTCTCCAGT 59.658 61.111 0.00 0.00 0.00 4.00
2385 2680 1.735920 CTGCACGCACTCTCCAGTC 60.736 63.158 0.00 0.00 0.00 3.51
2386 2681 2.340078 GCACGCACTCTCCAGTCA 59.660 61.111 0.00 0.00 0.00 3.41
2387 2682 1.079543 GCACGCACTCTCCAGTCAT 60.080 57.895 0.00 0.00 0.00 3.06
2388 2683 1.080995 GCACGCACTCTCCAGTCATC 61.081 60.000 0.00 0.00 0.00 2.92
2389 2684 0.244721 CACGCACTCTCCAGTCATCA 59.755 55.000 0.00 0.00 0.00 3.07
2390 2685 0.529833 ACGCACTCTCCAGTCATCAG 59.470 55.000 0.00 0.00 0.00 2.90
2391 2686 0.179116 CGCACTCTCCAGTCATCAGG 60.179 60.000 0.00 0.00 0.00 3.86
2392 2687 0.901124 GCACTCTCCAGTCATCAGGT 59.099 55.000 0.00 0.00 0.00 4.00
2393 2688 1.405256 GCACTCTCCAGTCATCAGGTG 60.405 57.143 0.00 0.00 0.00 4.00
2394 2689 1.206610 CACTCTCCAGTCATCAGGTGG 59.793 57.143 0.00 0.00 0.00 4.61
2395 2690 0.177604 CTCTCCAGTCATCAGGTGGC 59.822 60.000 0.00 0.00 0.00 5.01
2396 2691 0.252421 TCTCCAGTCATCAGGTGGCT 60.252 55.000 0.00 0.00 45.67 4.75
2400 2695 3.944476 AGTCATCAGGTGGCTGAAC 57.056 52.632 0.00 0.00 42.38 3.18
2401 2696 0.326264 AGTCATCAGGTGGCTGAACC 59.674 55.000 0.00 0.00 42.38 3.62
2468 2765 8.860780 ATTTGCACAAATATTACACCCAAAAT 57.139 26.923 6.82 0.00 39.08 1.82
2561 2858 1.342496 CTGAGATCCTATCGGCTTGCA 59.658 52.381 0.00 0.00 0.00 4.08
2741 3059 3.670625 TCATTTTTGTCCCGAACGATCT 58.329 40.909 0.00 0.00 0.00 2.75
2794 3113 2.503382 GCAACCCTTTCCCCGCAAA 61.503 57.895 0.00 0.00 0.00 3.68
2827 3173 0.238289 ATGTTCGCGCCAACTCTTTG 59.762 50.000 18.62 0.00 0.00 2.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
248 249 1.747206 GCCAACATACTCTCCGGCAAT 60.747 52.381 0.00 0.00 39.38 3.56
257 258 0.391130 TGCGAGTGGCCAACATACTC 60.391 55.000 7.24 8.84 42.61 2.59
308 309 3.668141 TCAGGCAATGTGGAACCATAT 57.332 42.857 0.00 0.00 34.36 1.78
353 355 1.621317 TGCACCCTGTCGATTAGTCAA 59.379 47.619 0.00 0.00 0.00 3.18
400 402 4.661222 TCTCCATGCATTGTTCCTTGTTA 58.339 39.130 0.00 0.00 0.00 2.41
404 406 3.887716 GCTATCTCCATGCATTGTTCCTT 59.112 43.478 0.00 0.00 0.00 3.36
424 426 3.510360 TCGGTTCTTGCTACTTTCTAGCT 59.490 43.478 0.00 0.00 40.95 3.32
443 447 2.187946 GGGCTGGTGATCACTCGG 59.812 66.667 24.50 19.15 0.00 4.63
468 472 3.182996 ACCACCAAGGACACCCCC 61.183 66.667 0.00 0.00 41.22 5.40
627 631 2.583593 CCTCTCGCGGTTGCTAGC 60.584 66.667 8.10 8.10 39.65 3.42
676 680 1.735920 CTCTCCACGCTGTGTCTGC 60.736 63.158 7.68 0.00 0.00 4.26
678 682 2.152297 CTGCTCTCCACGCTGTGTCT 62.152 60.000 7.68 0.00 0.00 3.41
691 695 4.127040 CACGCGCTCCTCTGCTCT 62.127 66.667 5.73 0.00 0.00 4.09
765 769 2.117865 CTCATGGCTTCTTCCTCCTCT 58.882 52.381 0.00 0.00 0.00 3.69
825 832 2.168728 GGATAAGAGTGGCCGTTCTTCT 59.831 50.000 20.98 13.75 35.42 2.85
887 898 3.648528 TCGCCACATCGAGATCAAG 57.351 52.632 0.00 0.00 34.09 3.02
1046 1061 1.743623 CGCCATGGTTGCCGAGTAA 60.744 57.895 14.67 0.00 0.00 2.24
1103 1118 4.021925 GCCCTTCCAGCCGACTGT 62.022 66.667 0.00 0.00 42.81 3.55
1184 1202 4.256920 GAGCAGAAGCAAGAATACCAGAA 58.743 43.478 0.00 0.00 45.49 3.02
1224 1247 2.543012 CTGGATTCGTGCAGCTCATTAG 59.457 50.000 0.00 0.00 0.00 1.73
1287 1311 2.243957 GCACGGTTTGGCCTTTTGC 61.244 57.895 3.32 0.09 40.16 3.68
1299 1323 2.507102 CTTCGATCGCAGCACGGT 60.507 61.111 11.09 0.00 43.89 4.83
1301 1325 2.507102 ACCTTCGATCGCAGCACG 60.507 61.111 11.09 0.00 45.62 5.34
1517 1771 3.315142 AAATCGAGCAGCTGCCGGA 62.315 57.895 33.83 30.18 43.38 5.14
1526 1780 0.447406 CATCGTTGGCAAATCGAGCA 59.553 50.000 16.36 0.00 37.04 4.26
1540 1794 5.947228 ACAAACATGTTCTTCATCATCGT 57.053 34.783 12.39 0.00 34.09 3.73
1547 1801 9.126151 TCAGGTAAAATACAAACATGTTCTTCA 57.874 29.630 12.39 0.00 0.00 3.02
1555 1812 8.650143 ATCAGGTTCAGGTAAAATACAAACAT 57.350 30.769 0.00 0.00 0.00 2.71
1556 1813 7.094975 CGATCAGGTTCAGGTAAAATACAAACA 60.095 37.037 0.00 0.00 0.00 2.83
1559 1816 5.353123 GCGATCAGGTTCAGGTAAAATACAA 59.647 40.000 0.00 0.00 0.00 2.41
1563 1820 3.950397 TGCGATCAGGTTCAGGTAAAAT 58.050 40.909 0.00 0.00 0.00 1.82
1582 1839 1.524008 CGGTCAGGGAAAGGGTTTGC 61.524 60.000 0.00 0.00 0.00 3.68
1783 2046 4.037208 ACTTGTTTCTTGTTGATGGCAGAG 59.963 41.667 0.00 0.00 0.00 3.35
1785 2048 4.311816 ACTTGTTTCTTGTTGATGGCAG 57.688 40.909 0.00 0.00 0.00 4.85
1787 2050 4.268405 CACAACTTGTTTCTTGTTGATGGC 59.732 41.667 11.30 0.00 42.35 4.40
1788 2051 5.516339 GTCACAACTTGTTTCTTGTTGATGG 59.484 40.000 11.30 2.33 42.35 3.51
1790 2053 6.515272 AGTCACAACTTGTTTCTTGTTGAT 57.485 33.333 11.30 0.00 42.35 2.57
1791 2054 5.957842 AGTCACAACTTGTTTCTTGTTGA 57.042 34.783 11.30 0.00 42.35 3.18
1805 2084 3.684788 AGTCACAAGTCACAAGTCACAAC 59.315 43.478 0.00 0.00 0.00 3.32
1812 2091 2.609459 GTGGTCAGTCACAAGTCACAAG 59.391 50.000 0.00 0.00 37.57 3.16
1819 2098 5.299279 AGTTTTAATGGTGGTCAGTCACAAG 59.701 40.000 0.00 0.00 39.27 3.16
1939 2221 1.294986 TGATTCCCTGATCCCTCCTCA 59.705 52.381 0.00 0.00 0.00 3.86
1955 2237 3.338249 CGTCTTCCTGTTGATGGTGATT 58.662 45.455 0.00 0.00 0.00 2.57
2013 2295 3.129638 GGGCTAGTATCATGATCGAGGTC 59.870 52.174 12.53 3.29 0.00 3.85
2042 2326 4.400529 TCGATGCAAGCTATCCTAACAA 57.599 40.909 0.00 0.00 0.00 2.83
2120 2409 6.037786 AGTATAACTCAGTGTTGCTGCTAA 57.962 37.500 0.00 0.00 44.66 3.09
2129 2418 6.777213 ATTCTTCGGAGTATAACTCAGTGT 57.223 37.500 9.15 0.00 46.79 3.55
2148 2437 7.861629 TCCATGTGAATCTTGGTAACTATTCT 58.138 34.615 0.00 0.00 40.77 2.40
2149 2438 8.682936 ATCCATGTGAATCTTGGTAACTATTC 57.317 34.615 0.00 0.00 40.77 1.75
2150 2439 9.784531 CTATCCATGTGAATCTTGGTAACTATT 57.215 33.333 0.00 0.00 40.77 1.73
2151 2440 9.159254 TCTATCCATGTGAATCTTGGTAACTAT 57.841 33.333 0.00 0.00 40.77 2.12
2152 2441 8.547481 TCTATCCATGTGAATCTTGGTAACTA 57.453 34.615 0.00 0.00 40.77 2.24
2153 2442 7.437713 TCTATCCATGTGAATCTTGGTAACT 57.562 36.000 0.00 0.00 40.77 2.24
2154 2443 7.254932 GCTTCTATCCATGTGAATCTTGGTAAC 60.255 40.741 0.00 0.00 40.77 2.50
2155 2444 6.767902 GCTTCTATCCATGTGAATCTTGGTAA 59.232 38.462 0.00 0.00 40.77 2.85
2160 2455 5.378230 TGGCTTCTATCCATGTGAATCTT 57.622 39.130 0.00 0.00 0.00 2.40
2175 2470 8.812972 TCCGTAGATAATTTATGTATGGCTTCT 58.187 33.333 19.86 2.64 39.62 2.85
2176 2471 8.997621 TCCGTAGATAATTTATGTATGGCTTC 57.002 34.615 19.86 0.00 39.62 3.86
2178 2473 7.399191 TCCTCCGTAGATAATTTATGTATGGCT 59.601 37.037 19.86 3.66 39.62 4.75
2181 2476 9.073368 CGTTCCTCCGTAGATAATTTATGTATG 57.927 37.037 6.02 6.02 0.00 2.39
2192 2487 2.989909 TGTCACGTTCCTCCGTAGATA 58.010 47.619 0.00 0.00 39.45 1.98
2193 2488 1.830279 TGTCACGTTCCTCCGTAGAT 58.170 50.000 0.00 0.00 39.45 1.98
2194 2489 1.608055 TTGTCACGTTCCTCCGTAGA 58.392 50.000 0.00 0.00 39.45 2.59
2195 2490 2.649331 ATTGTCACGTTCCTCCGTAG 57.351 50.000 0.00 0.00 39.45 3.51
2196 2491 4.517952 TTTATTGTCACGTTCCTCCGTA 57.482 40.909 0.00 0.00 39.45 4.02
2197 2492 3.389925 TTTATTGTCACGTTCCTCCGT 57.610 42.857 0.00 0.00 42.87 4.69
2198 2493 3.744426 ACTTTTATTGTCACGTTCCTCCG 59.256 43.478 0.00 0.00 0.00 4.63
2199 2494 4.753107 TGACTTTTATTGTCACGTTCCTCC 59.247 41.667 0.00 0.00 39.23 4.30
2200 2495 5.107065 CCTGACTTTTATTGTCACGTTCCTC 60.107 44.000 0.00 0.00 39.23 3.71
2201 2496 4.755123 CCTGACTTTTATTGTCACGTTCCT 59.245 41.667 0.00 0.00 39.23 3.36
2202 2497 4.612939 GCCTGACTTTTATTGTCACGTTCC 60.613 45.833 0.00 0.00 39.23 3.62
2203 2498 4.024387 TGCCTGACTTTTATTGTCACGTTC 60.024 41.667 0.00 0.00 39.23 3.95
2207 2502 5.772521 ACAATGCCTGACTTTTATTGTCAC 58.227 37.500 0.00 0.00 37.39 3.67
2214 2509 5.616270 TGTGTAGACAATGCCTGACTTTTA 58.384 37.500 0.00 0.00 32.10 1.52
2219 2514 3.664107 TCTTGTGTAGACAATGCCTGAC 58.336 45.455 5.83 0.00 41.33 3.51
2232 2527 3.358707 TTTTCGAGCGAGTCTTGTGTA 57.641 42.857 0.00 0.00 0.00 2.90
2241 2536 2.222819 GGTGCAGTATTTTTCGAGCGAG 60.223 50.000 0.00 0.00 0.00 5.03
2247 2542 2.987413 TGCTGGTGCAGTATTTTTCG 57.013 45.000 0.00 0.00 45.31 3.46
2259 2554 1.901085 GGAGGGAGTAGTGCTGGTG 59.099 63.158 0.00 0.00 0.00 4.17
2268 2563 5.750352 AAATGTCTAAAACGGAGGGAGTA 57.250 39.130 0.00 0.00 0.00 2.59
2272 2567 7.443259 TTTCTAAAATGTCTAAAACGGAGGG 57.557 36.000 0.00 0.00 0.00 4.30
2273 2568 9.556030 GAATTTCTAAAATGTCTAAAACGGAGG 57.444 33.333 0.00 0.00 0.00 4.30
2274 2569 9.556030 GGAATTTCTAAAATGTCTAAAACGGAG 57.444 33.333 0.00 0.00 0.00 4.63
2275 2570 9.069082 TGGAATTTCTAAAATGTCTAAAACGGA 57.931 29.630 0.00 0.00 0.00 4.69
2276 2571 9.685828 TTGGAATTTCTAAAATGTCTAAAACGG 57.314 29.630 0.00 0.00 0.00 4.44
2283 2578 9.696917 GTCAATGTTGGAATTTCTAAAATGTCT 57.303 29.630 0.00 0.00 0.00 3.41
2284 2579 9.696917 AGTCAATGTTGGAATTTCTAAAATGTC 57.303 29.630 0.00 0.00 0.00 3.06
2288 2583 9.959749 GTGTAGTCAATGTTGGAATTTCTAAAA 57.040 29.630 0.00 0.00 0.00 1.52
2289 2584 9.126151 TGTGTAGTCAATGTTGGAATTTCTAAA 57.874 29.630 0.00 0.00 0.00 1.85
2290 2585 8.684386 TGTGTAGTCAATGTTGGAATTTCTAA 57.316 30.769 0.00 0.00 0.00 2.10
2291 2586 8.684386 TTGTGTAGTCAATGTTGGAATTTCTA 57.316 30.769 0.00 0.00 0.00 2.10
2292 2587 7.581213 TTGTGTAGTCAATGTTGGAATTTCT 57.419 32.000 0.00 0.00 0.00 2.52
2293 2588 7.096065 GCTTTGTGTAGTCAATGTTGGAATTTC 60.096 37.037 0.00 0.00 0.00 2.17
2294 2589 6.701400 GCTTTGTGTAGTCAATGTTGGAATTT 59.299 34.615 0.00 0.00 0.00 1.82
2295 2590 6.183360 TGCTTTGTGTAGTCAATGTTGGAATT 60.183 34.615 0.00 0.00 0.00 2.17
2296 2591 5.301551 TGCTTTGTGTAGTCAATGTTGGAAT 59.698 36.000 0.00 0.00 0.00 3.01
2297 2592 4.642437 TGCTTTGTGTAGTCAATGTTGGAA 59.358 37.500 0.00 0.00 0.00 3.53
2298 2593 4.203226 TGCTTTGTGTAGTCAATGTTGGA 58.797 39.130 0.00 0.00 0.00 3.53
2299 2594 4.566545 TGCTTTGTGTAGTCAATGTTGG 57.433 40.909 0.00 0.00 0.00 3.77
2300 2595 6.884096 TTTTGCTTTGTGTAGTCAATGTTG 57.116 33.333 0.00 0.00 0.00 3.33
2301 2596 7.264221 TCATTTTGCTTTGTGTAGTCAATGTT 58.736 30.769 0.00 0.00 0.00 2.71
2302 2597 6.804677 TCATTTTGCTTTGTGTAGTCAATGT 58.195 32.000 0.00 0.00 0.00 2.71
2303 2598 7.697352 TTCATTTTGCTTTGTGTAGTCAATG 57.303 32.000 0.00 0.00 0.00 2.82
2304 2599 8.143193 TCATTCATTTTGCTTTGTGTAGTCAAT 58.857 29.630 0.00 0.00 0.00 2.57
2305 2600 7.487484 TCATTCATTTTGCTTTGTGTAGTCAA 58.513 30.769 0.00 0.00 0.00 3.18
2306 2601 7.036996 TCATTCATTTTGCTTTGTGTAGTCA 57.963 32.000 0.00 0.00 0.00 3.41
2307 2602 7.928908 TTCATTCATTTTGCTTTGTGTAGTC 57.071 32.000 0.00 0.00 0.00 2.59
2308 2603 8.362639 AGATTCATTCATTTTGCTTTGTGTAGT 58.637 29.630 0.00 0.00 0.00 2.73
2309 2604 8.752766 AGATTCATTCATTTTGCTTTGTGTAG 57.247 30.769 0.00 0.00 0.00 2.74
2310 2605 9.624697 GTAGATTCATTCATTTTGCTTTGTGTA 57.375 29.630 0.00 0.00 0.00 2.90
2311 2606 8.143193 TGTAGATTCATTCATTTTGCTTTGTGT 58.857 29.630 0.00 0.00 0.00 3.72
2312 2607 8.430063 GTGTAGATTCATTCATTTTGCTTTGTG 58.570 33.333 0.00 0.00 0.00 3.33
2313 2608 8.362639 AGTGTAGATTCATTCATTTTGCTTTGT 58.637 29.630 0.00 0.00 0.00 2.83
2314 2609 8.752766 AGTGTAGATTCATTCATTTTGCTTTG 57.247 30.769 0.00 0.00 0.00 2.77
2315 2610 8.800332 AGAGTGTAGATTCATTCATTTTGCTTT 58.200 29.630 0.00 0.00 0.00 3.51
2316 2611 8.345724 AGAGTGTAGATTCATTCATTTTGCTT 57.654 30.769 0.00 0.00 0.00 3.91
2317 2612 7.934855 AGAGTGTAGATTCATTCATTTTGCT 57.065 32.000 0.00 0.00 0.00 3.91
2344 2639 9.574458 GCAGTCGAACATATACAGATGTATATT 57.426 33.333 18.54 9.62 46.46 1.28
2346 2641 8.021396 GTGCAGTCGAACATATACAGATGTATA 58.979 37.037 13.56 13.56 44.66 1.47
2347 2642 6.863645 GTGCAGTCGAACATATACAGATGTAT 59.136 38.462 10.19 10.19 39.16 2.29
2348 2643 6.206498 GTGCAGTCGAACATATACAGATGTA 58.794 40.000 0.00 0.00 39.16 2.29
2349 2644 5.043903 GTGCAGTCGAACATATACAGATGT 58.956 41.667 0.00 0.00 41.92 3.06
2350 2645 4.147133 CGTGCAGTCGAACATATACAGATG 59.853 45.833 0.00 0.00 0.00 2.90
2351 2646 4.290969 CGTGCAGTCGAACATATACAGAT 58.709 43.478 0.00 0.00 0.00 2.90
2352 2647 3.691498 CGTGCAGTCGAACATATACAGA 58.309 45.455 0.00 0.00 0.00 3.41
2353 2648 2.216488 GCGTGCAGTCGAACATATACAG 59.784 50.000 0.24 0.00 0.00 2.74
2354 2649 2.190161 GCGTGCAGTCGAACATATACA 58.810 47.619 0.24 0.00 0.00 2.29
2355 2650 2.034842 GTGCGTGCAGTCGAACATATAC 60.035 50.000 3.07 0.00 39.00 1.47
2356 2651 2.159296 AGTGCGTGCAGTCGAACATATA 60.159 45.455 10.19 0.00 41.34 0.86
2357 2652 0.999406 GTGCGTGCAGTCGAACATAT 59.001 50.000 3.07 0.00 39.00 1.78
2358 2653 0.038618 AGTGCGTGCAGTCGAACATA 60.039 50.000 10.19 0.00 41.34 2.29
2359 2654 1.284982 GAGTGCGTGCAGTCGAACAT 61.285 55.000 13.40 0.00 41.34 2.71
2360 2655 1.949133 GAGTGCGTGCAGTCGAACA 60.949 57.895 13.40 0.00 41.34 3.18
2361 2656 2.846918 GAGTGCGTGCAGTCGAAC 59.153 61.111 13.40 0.00 39.42 3.95
2365 2660 1.735920 CTGGAGAGTGCGTGCAGTC 60.736 63.158 19.49 19.49 44.40 3.51
2366 2661 2.341543 CTGGAGAGTGCGTGCAGT 59.658 61.111 0.97 0.97 0.00 4.40
2367 2662 1.735920 GACTGGAGAGTGCGTGCAG 60.736 63.158 0.00 0.00 39.17 4.41
2368 2663 1.820010 ATGACTGGAGAGTGCGTGCA 61.820 55.000 0.00 0.00 30.16 4.57
2369 2664 1.079543 ATGACTGGAGAGTGCGTGC 60.080 57.895 0.00 0.00 30.16 5.34
2370 2665 0.244721 TGATGACTGGAGAGTGCGTG 59.755 55.000 0.00 0.00 30.16 5.34
2371 2666 0.529833 CTGATGACTGGAGAGTGCGT 59.470 55.000 0.00 0.00 30.16 5.24
2372 2667 0.179116 CCTGATGACTGGAGAGTGCG 60.179 60.000 0.00 0.00 37.31 5.34
2373 2668 0.901124 ACCTGATGACTGGAGAGTGC 59.099 55.000 0.00 0.00 38.29 4.40
2374 2669 1.206610 CCACCTGATGACTGGAGAGTG 59.793 57.143 0.00 0.00 38.29 3.51
2375 2670 1.566211 CCACCTGATGACTGGAGAGT 58.434 55.000 0.00 0.00 38.29 3.24
2376 2671 0.177604 GCCACCTGATGACTGGAGAG 59.822 60.000 0.00 0.00 38.29 3.20
2377 2672 0.252421 AGCCACCTGATGACTGGAGA 60.252 55.000 0.00 0.00 38.29 3.71
2378 2673 0.107800 CAGCCACCTGATGACTGGAG 60.108 60.000 0.00 0.00 41.77 3.86
2379 2674 0.545071 TCAGCCACCTGATGACTGGA 60.545 55.000 0.00 0.00 42.98 3.86
2380 2675 0.325933 TTCAGCCACCTGATGACTGG 59.674 55.000 0.00 0.00 46.84 4.00
2381 2676 1.446907 GTTCAGCCACCTGATGACTG 58.553 55.000 0.00 0.00 46.84 3.51
2382 2677 0.326264 GGTTCAGCCACCTGATGACT 59.674 55.000 0.00 0.00 46.84 3.41
2383 2678 0.036732 TGGTTCAGCCACCTGATGAC 59.963 55.000 0.00 0.00 46.84 3.06
2384 2679 2.462301 TGGTTCAGCCACCTGATGA 58.538 52.632 0.00 0.00 46.84 2.92
2392 2687 2.425592 CGTCAGGTGGTTCAGCCA 59.574 61.111 0.00 0.00 46.95 4.75
2393 2688 2.167398 TAGCGTCAGGTGGTTCAGCC 62.167 60.000 0.00 0.00 37.90 4.85
2394 2689 0.320421 TTAGCGTCAGGTGGTTCAGC 60.320 55.000 0.00 0.00 0.00 4.26
2395 2690 2.386661 ATTAGCGTCAGGTGGTTCAG 57.613 50.000 0.00 0.00 0.00 3.02
2396 2691 2.851263 AATTAGCGTCAGGTGGTTCA 57.149 45.000 0.00 0.00 0.00 3.18
2397 2692 4.499037 AAAAATTAGCGTCAGGTGGTTC 57.501 40.909 0.00 0.00 0.00 3.62
2578 2875 0.824759 GACCTGAACTGGTAGCCGAT 59.175 55.000 3.50 0.00 41.00 4.18
2646 2962 2.879756 GCAGGCCAATTAGTCCTTGTCA 60.880 50.000 5.01 0.00 0.00 3.58
2708 3024 2.303600 ACAAAAATGATGGCATGCACCT 59.696 40.909 21.36 2.39 34.26 4.00
2794 3113 3.489059 CGCGAACATATGGCAGGAAAATT 60.489 43.478 0.00 0.00 32.22 1.82
3189 3693 6.538742 GCATGCAACCTAAGAAGTTCTATACA 59.461 38.462 14.21 0.00 0.00 2.29


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

AutoCloner maintained by Alex Coulton.