Multiple sequence alignment - TraesCS6A01G350500

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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 TraesCS6A01G350500 chr6A 100.000 2759 0 0 1 2759 582263814 582266572 0.000000e+00 5096.0
1 TraesCS6A01G350500 chr6A 79.264 516 51 33 981 1449 582516492 582516998 2.670000e-80 309.0
2 TraesCS6A01G350500 chr6A 90.588 170 15 1 1242 1411 582920869 582920701 9.940000e-55 224.0
3 TraesCS6A01G350500 chr6A 93.793 145 5 4 1447 1590 582265173 582265314 5.980000e-52 215.0
4 TraesCS6A01G350500 chr6A 93.793 145 5 4 1360 1501 582265260 582265403 5.980000e-52 215.0
5 TraesCS6A01G350500 chr6A 93.478 92 6 0 1091 1182 582638693 582638602 1.330000e-28 137.0
6 TraesCS6A01G350500 chr6A 84.536 97 12 1 1083 1179 31584245 31584152 2.930000e-15 93.5
7 TraesCS6A01G350500 chr6A 88.710 62 5 2 1602 1663 582265212 582265271 1.060000e-09 75.0
8 TraesCS6A01G350500 chr6D 93.969 1028 40 7 1067 2081 435351213 435352231 0.000000e+00 1535.0
9 TraesCS6A01G350500 chr6D 93.682 459 18 6 624 1081 435350749 435351197 0.000000e+00 676.0
10 TraesCS6A01G350500 chr6D 86.082 388 33 11 2096 2467 435352320 435352702 5.540000e-107 398.0
11 TraesCS6A01G350500 chr6D 82.369 363 30 16 1072 1411 435963122 435962771 4.500000e-73 285.0
12 TraesCS6A01G350500 chr6D 74.525 789 120 53 670 1411 435832616 435831862 4.530000e-68 268.0
13 TraesCS6A01G350500 chr6D 87.831 189 13 5 2525 2706 435352785 435352970 2.150000e-51 213.0
14 TraesCS6A01G350500 chr6D 93.103 145 6 3 1447 1590 435351499 435351640 2.780000e-50 209.0
15 TraesCS6A01G350500 chr6D 83.929 224 31 4 1241 1459 435764108 435764331 2.780000e-50 209.0
16 TraesCS6A01G350500 chr6D 93.617 141 6 3 1360 1497 435351586 435351726 1.000000e-49 207.0
17 TraesCS6A01G350500 chr6D 88.506 174 16 4 1241 1411 435712034 435712206 1.000000e-49 207.0
18 TraesCS6A01G350500 chr6D 78.716 296 31 20 1538 1831 435750239 435750504 4.730000e-38 169.0
19 TraesCS6A01G350500 chr6D 78.716 296 28 19 1538 1832 435712154 435712415 6.110000e-37 165.0
20 TraesCS6A01G350500 chr6D 77.538 325 30 22 1544 1863 435962814 435962528 3.680000e-34 156.0
21 TraesCS6A01G350500 chr6D 74.762 420 54 39 671 1081 435711443 435711819 1.030000e-29 141.0
22 TraesCS6A01G350500 chr6D 77.510 249 25 22 849 1081 435763661 435763894 1.340000e-23 121.0
23 TraesCS6A01G350500 chr6D 93.506 77 4 1 2514 2589 435352708 435352784 2.250000e-21 113.0
24 TraesCS6A01G350500 chr6D 98.276 58 0 1 1030 1086 435749907 435749964 1.750000e-17 100.0
25 TraesCS6A01G350500 chr6D 86.316 95 4 5 996 1081 435963243 435963149 8.130000e-16 95.3
26 TraesCS6A01G350500 chr6D 87.097 62 6 2 1602 1663 435351538 435351597 4.930000e-08 69.4
27 TraesCS6A01G350500 chr6D 92.857 42 2 1 882 923 435963340 435963300 2.970000e-05 60.2
28 TraesCS6A01G350500 chr6B 92.149 968 55 9 1067 2026 658403165 658404119 0.000000e+00 1347.0
29 TraesCS6A01G350500 chr6B 87.866 478 30 15 624 1081 658402680 658403149 1.120000e-148 536.0
30 TraesCS6A01G350500 chr6B 93.064 173 11 1 1241 1413 658578135 658577964 4.560000e-63 252.0
31 TraesCS6A01G350500 chr6B 90.000 190 15 4 1360 1546 658403495 658403683 2.750000e-60 243.0
32 TraesCS6A01G350500 chr6B 89.583 192 16 2 1402 1592 658403453 658403641 9.870000e-60 241.0
33 TraesCS6A01G350500 chr6B 73.711 795 101 64 675 1411 658477131 658477875 7.740000e-51 211.0
34 TraesCS6A01G350500 chr6B 92.517 147 7 4 1360 1503 658403540 658403685 1.000000e-49 207.0
35 TraesCS6A01G350500 chr6B 89.796 147 11 3 1447 1592 658403453 658403596 4.690000e-43 185.0
36 TraesCS6A01G350500 chr6B 76.331 338 40 18 1538 1873 658515759 658516058 7.960000e-31 145.0
37 TraesCS6A01G350500 chr6B 76.036 338 41 18 1538 1873 658477823 658478122 3.710000e-29 139.0
38 TraesCS6A01G350500 chr6B 76.036 338 41 18 1538 1873 658496608 658496907 3.710000e-29 139.0
39 TraesCS6A01G350500 chr6B 76.415 318 33 22 1544 1857 658578009 658577730 1.720000e-27 134.0
40 TraesCS6A01G350500 chr6B 82.500 120 21 0 671 790 658530322 658530441 3.760000e-19 106.0
41 TraesCS6A01G350500 chr6B 84.694 98 3 4 996 1081 658578433 658578336 1.360000e-13 87.9
42 TraesCS6A01G350500 chr6B 88.710 62 5 2 1602 1663 658403537 658403596 1.060000e-09 75.0
43 TraesCS6A01G350500 chr7A 86.411 677 38 18 1 623 604647987 604647311 0.000000e+00 691.0
44 TraesCS6A01G350500 chr7A 85.819 684 37 28 1 624 41634625 41635308 0.000000e+00 671.0
45 TraesCS6A01G350500 chr3A 86.458 672 41 17 1 624 723500741 723501410 0.000000e+00 691.0
46 TraesCS6A01G350500 chr5A 84.592 662 58 21 1 624 666155216 666155871 3.900000e-173 617.0
47 TraesCS6A01G350500 chr5A 85.995 407 38 16 232 623 547041421 547041823 4.250000e-113 418.0
48 TraesCS6A01G350500 chr5A 79.864 442 44 17 1 407 452427575 452427144 5.820000e-72 281.0
49 TraesCS6A01G350500 chr5A 79.770 435 44 26 1 406 363426684 363426265 2.710000e-70 276.0
50 TraesCS6A01G350500 chr5A 77.652 264 34 20 1089 1345 610078941 610078696 1.330000e-28 137.0
51 TraesCS6A01G350500 chr5A 80.734 109 15 4 1072 1177 569677568 569677673 2.280000e-11 80.5
52 TraesCS6A01G350500 chr1A 84.756 656 57 25 1 623 261434005 261433360 3.900000e-173 617.0
53 TraesCS6A01G350500 chr1A 84.475 657 53 23 1 623 309453190 309453831 1.090000e-168 603.0
54 TraesCS6A01G350500 chr1A 80.918 697 53 36 1 623 434582341 434581651 6.910000e-131 477.0
55 TraesCS6A01G350500 chr1A 81.081 518 78 14 118 620 298653534 298654046 1.990000e-106 396.0
56 TraesCS6A01G350500 chr1A 78.019 323 28 19 1 305 464843272 464843569 2.200000e-36 163.0
57 TraesCS6A01G350500 chr1A 96.552 58 2 0 1 58 261433400 261433457 2.260000e-16 97.1
58 TraesCS6A01G350500 chr2A 82.212 669 65 32 1 624 523808216 523808875 6.770000e-146 527.0
59 TraesCS6A01G350500 chr2A 80.256 704 54 46 1 624 469639183 469638485 4.190000e-123 451.0
60 TraesCS6A01G350500 chr4A 81.406 683 63 23 1 625 482515495 482516171 1.480000e-137 499.0
61 TraesCS6A01G350500 chr4A 95.082 61 3 0 1 61 266937505 266937445 2.260000e-16 97.1
62 TraesCS6A01G350500 chrUn 81.096 365 40 15 1067 1411 389577647 389577292 5.860000e-67 265.0
63 TraesCS6A01G350500 chrUn 73.711 795 101 64 675 1411 465805808 465805064 7.740000e-51 211.0
64 TraesCS6A01G350500 chrUn 82.906 117 18 2 675 790 389578036 389577921 1.350000e-18 104.0
65 TraesCS6A01G350500 chrUn 78.065 155 29 3 1026 1179 76960931 76961081 2.930000e-15 93.5
66 TraesCS6A01G350500 chrUn 84.536 97 12 1 1083 1179 104042022 104041929 2.930000e-15 93.5
67 TraesCS6A01G350500 chr2B 82.178 202 16 8 2260 2448 71298332 71298526 3.680000e-34 156.0
68 TraesCS6A01G350500 chr5B 78.030 264 30 22 1089 1345 602649204 602648962 1.030000e-29 141.0
69 TraesCS6A01G350500 chr5D 90.667 75 6 1 1261 1335 450374020 450374093 6.290000e-17 99.0


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 TraesCS6A01G350500 chr6A 582263814 582266572 2758 False 1400.250000 5096 94.074000 1 2759 4 chr6A.!!$F2 2758
1 TraesCS6A01G350500 chr6A 582516492 582516998 506 False 309.000000 309 79.264000 981 1449 1 chr6A.!!$F1 468
2 TraesCS6A01G350500 chr6D 435350749 435352970 2221 False 427.550000 1535 91.110875 624 2706 8 chr6D.!!$F1 2082
3 TraesCS6A01G350500 chr6D 435831862 435832616 754 True 268.000000 268 74.525000 670 1411 1 chr6D.!!$R1 741
4 TraesCS6A01G350500 chr6B 658402680 658404119 1439 False 404.857143 1347 90.088714 624 2026 7 chr6B.!!$F4 1402
5 TraesCS6A01G350500 chr7A 604647311 604647987 676 True 691.000000 691 86.411000 1 623 1 chr7A.!!$R1 622
6 TraesCS6A01G350500 chr7A 41634625 41635308 683 False 671.000000 671 85.819000 1 624 1 chr7A.!!$F1 623
7 TraesCS6A01G350500 chr3A 723500741 723501410 669 False 691.000000 691 86.458000 1 624 1 chr3A.!!$F1 623
8 TraesCS6A01G350500 chr5A 666155216 666155871 655 False 617.000000 617 84.592000 1 624 1 chr5A.!!$F3 623
9 TraesCS6A01G350500 chr1A 261433360 261434005 645 True 617.000000 617 84.756000 1 623 1 chr1A.!!$R1 622
10 TraesCS6A01G350500 chr1A 309453190 309453831 641 False 603.000000 603 84.475000 1 623 1 chr1A.!!$F3 622
11 TraesCS6A01G350500 chr1A 434581651 434582341 690 True 477.000000 477 80.918000 1 623 1 chr1A.!!$R2 622
12 TraesCS6A01G350500 chr1A 298653534 298654046 512 False 396.000000 396 81.081000 118 620 1 chr1A.!!$F2 502
13 TraesCS6A01G350500 chr2A 523808216 523808875 659 False 527.000000 527 82.212000 1 624 1 chr2A.!!$F1 623
14 TraesCS6A01G350500 chr2A 469638485 469639183 698 True 451.000000 451 80.256000 1 624 1 chr2A.!!$R1 623
15 TraesCS6A01G350500 chr4A 482515495 482516171 676 False 499.000000 499 81.406000 1 625 1 chr4A.!!$F1 624
16 TraesCS6A01G350500 chrUn 465805064 465805808 744 True 211.000000 211 73.711000 675 1411 1 chrUn.!!$R2 736

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
221 255 0.376852 TGCGTGTGTGTTTGCTTCTC 59.623 50.0 0.0 0.0 0.0 2.87 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2094 2532 0.953471 CGGTTTCATCACAAGGCCGA 60.953 55.0 0.0 0.0 40.04 5.54 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
85 102 8.732531 CCGTCCATTTTAAACCTAAATGACTTA 58.267 33.333 9.26 0.00 42.72 2.24
221 255 0.376852 TGCGTGTGTGTTTGCTTCTC 59.623 50.000 0.00 0.00 0.00 2.87
328 495 2.012414 GCATGTGTGTTGCTGCGTG 61.012 57.895 0.00 0.00 37.14 5.34
372 573 1.348938 GTGCGTGTTGTTGCGTGTA 59.651 52.632 0.00 0.00 0.00 2.90
444 646 2.171079 GCTGGTGCGTGCGCTATTA 61.171 57.895 17.49 0.00 42.51 0.98
445 648 1.498865 GCTGGTGCGTGCGCTATTAT 61.499 55.000 17.49 0.00 42.51 1.28
480 685 3.165071 CCACATAAGGGGCAAAAGAGTT 58.835 45.455 0.00 0.00 0.00 3.01
659 869 0.744874 TCCCGGACGAAAGATAGCTG 59.255 55.000 0.73 0.00 0.00 4.24
847 1069 1.897137 CGAGATCCATCCGACCCGA 60.897 63.158 0.00 0.00 0.00 5.14
851 1073 3.726558 ATCCATCCGACCCGACCGA 62.727 63.158 0.00 0.00 0.00 4.69
963 1246 7.206687 AGAAGTAAACAGCAGCATACTAGATC 58.793 38.462 0.00 0.00 0.00 2.75
1191 1561 2.083002 TCGGTGCGTATACACAGTACA 58.917 47.619 3.32 0.00 42.55 2.90
1192 1562 2.159531 TCGGTGCGTATACACAGTACAC 60.160 50.000 3.32 1.43 42.55 2.90
1193 1563 2.414426 CGGTGCGTATACACAGTACACA 60.414 50.000 3.32 0.00 42.55 3.72
1194 1564 3.176708 GGTGCGTATACACAGTACACAG 58.823 50.000 3.32 0.00 42.55 3.66
1195 1565 3.366679 GGTGCGTATACACAGTACACAGT 60.367 47.826 3.32 0.00 42.55 3.55
1196 1566 4.142622 GGTGCGTATACACAGTACACAGTA 60.143 45.833 3.32 0.00 42.55 2.74
1197 1567 4.790140 GTGCGTATACACAGTACACAGTAC 59.210 45.833 3.32 0.00 40.40 2.73
1211 1581 2.802816 CACAGTACTTCTTGCTGACACC 59.197 50.000 0.00 0.00 40.27 4.16
1220 1592 0.953727 TTGCTGACACCACTTGCATC 59.046 50.000 0.00 0.00 33.50 3.91
1221 1593 0.109153 TGCTGACACCACTTGCATCT 59.891 50.000 0.00 0.00 0.00 2.90
1228 1600 4.019771 TGACACCACTTGCATCTATGGTTA 60.020 41.667 8.52 0.00 42.98 2.85
1238 1610 6.252967 TGCATCTATGGTTAGTGTTTTGTG 57.747 37.500 0.00 0.00 0.00 3.33
1248 1648 7.699566 TGGTTAGTGTTTTGTGTACTGATTTC 58.300 34.615 0.00 0.00 0.00 2.17
1257 1657 5.707242 TGTGTACTGATTTCTCTCGTTCT 57.293 39.130 0.00 0.00 0.00 3.01
1269 1669 3.622163 TCTCTCGTTCTTCGTGATAGTCC 59.378 47.826 0.00 0.00 40.41 3.85
1357 1757 4.314440 GCCACGGTGACCAGCAGA 62.314 66.667 10.28 0.00 0.00 4.26
1755 2161 3.345028 AAGCTCCCAGGCCAGCAT 61.345 61.111 14.66 0.04 38.18 3.79
1835 2241 7.547227 ACCACCTTTGCAGAATCAATAATAAC 58.453 34.615 0.00 0.00 0.00 1.89
1875 2286 1.078709 CACCATACAACGTGAGCCTG 58.921 55.000 0.00 0.00 31.36 4.85
1883 2294 2.738521 CGTGAGCCTGGTTCACCG 60.739 66.667 30.09 22.67 39.92 4.94
1940 2351 3.311596 AGGCTCAAGTTTACGTGAACAAC 59.688 43.478 23.17 9.30 34.18 3.32
2026 2440 5.352016 TGGTTAAACCGTGTATGTATGCTTC 59.648 40.000 0.00 0.00 42.58 3.86
2027 2441 5.486706 GTTAAACCGTGTATGTATGCTTCG 58.513 41.667 0.00 0.00 0.00 3.79
2028 2442 1.567504 ACCGTGTATGTATGCTTCGC 58.432 50.000 0.00 0.00 0.00 4.70
2042 2466 2.228582 TGCTTCGCGTACAGGTAAGTTA 59.771 45.455 5.77 0.00 0.00 2.24
2050 2474 7.257003 TCGCGTACAGGTAAGTTATTTTATCA 58.743 34.615 5.77 0.00 0.00 2.15
2051 2475 7.758980 TCGCGTACAGGTAAGTTATTTTATCAA 59.241 33.333 5.77 0.00 0.00 2.57
2134 2636 2.669569 CACTGGGTCCGTGCCTTG 60.670 66.667 0.00 0.00 0.00 3.61
2193 2695 7.775053 AAAAGAAGAAAATACATACAGGGCA 57.225 32.000 0.00 0.00 0.00 5.36
2195 2697 9.474313 AAAAGAAGAAAATACATACAGGGCATA 57.526 29.630 0.00 0.00 0.00 3.14
2314 2823 2.205074 GCCACAGTGGAATACATCTCG 58.795 52.381 24.96 0.00 40.96 4.04
2316 2825 2.430694 CCACAGTGGAATACATCTCGGA 59.569 50.000 15.35 0.00 40.96 4.55
2328 2837 0.181350 ATCTCGGATTGAACCAGCCC 59.819 55.000 0.00 0.00 0.00 5.19
2331 2840 2.046285 CGGATTGAACCAGCCCCAC 61.046 63.158 0.00 0.00 0.00 4.61
2332 2841 1.076549 GGATTGAACCAGCCCCACA 59.923 57.895 0.00 0.00 0.00 4.17
2333 2842 1.250840 GGATTGAACCAGCCCCACAC 61.251 60.000 0.00 0.00 0.00 3.82
2334 2843 1.586154 GATTGAACCAGCCCCACACG 61.586 60.000 0.00 0.00 0.00 4.49
2351 2860 2.642254 CGTGGCGTCCCTGACCTAA 61.642 63.158 0.00 0.00 0.00 2.69
2359 2868 2.424601 CGTCCCTGACCTAACGAATGTA 59.575 50.000 0.00 0.00 37.31 2.29
2364 2873 5.702209 TCCCTGACCTAACGAATGTAAAAAC 59.298 40.000 0.00 0.00 0.00 2.43
2370 2879 7.095102 TGACCTAACGAATGTAAAAACTTAGCC 60.095 37.037 0.00 0.00 0.00 3.93
2375 2884 7.448748 ACGAATGTAAAAACTTAGCCAGATT 57.551 32.000 0.00 0.00 0.00 2.40
2380 2889 7.202016 TGTAAAAACTTAGCCAGATTGTGAG 57.798 36.000 0.00 0.00 0.00 3.51
2400 2909 6.169800 GTGAGCCTCTTTATTTGTCTCTCTT 58.830 40.000 0.00 0.00 0.00 2.85
2401 2910 7.039011 TGTGAGCCTCTTTATTTGTCTCTCTTA 60.039 37.037 0.00 0.00 0.00 2.10
2402 2911 7.984617 GTGAGCCTCTTTATTTGTCTCTCTTAT 59.015 37.037 0.00 0.00 0.00 1.73
2403 2912 8.200792 TGAGCCTCTTTATTTGTCTCTCTTATC 58.799 37.037 0.00 0.00 0.00 1.75
2405 2914 8.767436 AGCCTCTTTATTTGTCTCTCTTATCTT 58.233 33.333 0.00 0.00 0.00 2.40
2406 2915 9.040939 GCCTCTTTATTTGTCTCTCTTATCTTC 57.959 37.037 0.00 0.00 0.00 2.87
2428 2948 9.263538 TCTTCAAAAATAAAACTAGTAGCACGA 57.736 29.630 0.00 0.00 0.00 4.35
2429 2949 9.872757 CTTCAAAAATAAAACTAGTAGCACGAA 57.127 29.630 0.00 0.00 0.00 3.85
2430 2950 9.654417 TTCAAAAATAAAACTAGTAGCACGAAC 57.346 29.630 0.00 0.00 0.00 3.95
2431 2951 8.005466 TCAAAAATAAAACTAGTAGCACGAACG 58.995 33.333 0.00 0.00 0.00 3.95
2450 2970 6.253727 ACGAACGAAGCTTAATCTCACTAATG 59.746 38.462 0.00 0.00 0.00 1.90
2452 2972 7.513814 CGAACGAAGCTTAATCTCACTAATGAC 60.514 40.741 0.00 0.00 0.00 3.06
2457 2977 9.757227 GAAGCTTAATCTCACTAATGACACTAT 57.243 33.333 0.00 0.00 0.00 2.12
2473 2993 8.907829 ATGACACTATCATATCTCCCTTATGT 57.092 34.615 0.00 0.00 46.80 2.29
2474 2994 8.127150 TGACACTATCATATCTCCCTTATGTG 57.873 38.462 0.00 0.00 29.99 3.21
2475 2995 6.940739 ACACTATCATATCTCCCTTATGTGC 58.059 40.000 0.00 0.00 0.00 4.57
2476 2996 6.070538 ACACTATCATATCTCCCTTATGTGCC 60.071 42.308 0.00 0.00 0.00 5.01
2477 2997 4.851639 ATCATATCTCCCTTATGTGCCC 57.148 45.455 0.00 0.00 0.00 5.36
2478 2998 3.874316 TCATATCTCCCTTATGTGCCCT 58.126 45.455 0.00 0.00 0.00 5.19
2479 2999 4.242811 TCATATCTCCCTTATGTGCCCTT 58.757 43.478 0.00 0.00 0.00 3.95
2480 3000 4.287067 TCATATCTCCCTTATGTGCCCTTC 59.713 45.833 0.00 0.00 0.00 3.46
2481 3001 2.270434 TCTCCCTTATGTGCCCTTCT 57.730 50.000 0.00 0.00 0.00 2.85
2482 3002 1.839994 TCTCCCTTATGTGCCCTTCTG 59.160 52.381 0.00 0.00 0.00 3.02
2483 3003 0.918983 TCCCTTATGTGCCCTTCTGG 59.081 55.000 0.00 0.00 37.09 3.86
2484 3004 0.918983 CCCTTATGTGCCCTTCTGGA 59.081 55.000 0.00 0.00 35.39 3.86
2485 3005 1.496429 CCCTTATGTGCCCTTCTGGAT 59.504 52.381 0.00 0.00 35.39 3.41
2486 3006 2.579873 CCTTATGTGCCCTTCTGGATG 58.420 52.381 0.00 0.00 35.39 3.51
2487 3007 2.092212 CCTTATGTGCCCTTCTGGATGT 60.092 50.000 0.00 0.00 35.39 3.06
2488 3008 3.209410 CTTATGTGCCCTTCTGGATGTC 58.791 50.000 0.00 0.00 35.39 3.06
2489 3009 1.293062 ATGTGCCCTTCTGGATGTCT 58.707 50.000 0.00 0.00 35.39 3.41
2490 3010 1.067295 TGTGCCCTTCTGGATGTCTT 58.933 50.000 0.00 0.00 35.39 3.01
2491 3011 1.003580 TGTGCCCTTCTGGATGTCTTC 59.996 52.381 0.00 0.00 35.39 2.87
2492 3012 1.280421 GTGCCCTTCTGGATGTCTTCT 59.720 52.381 0.00 0.00 35.39 2.85
2493 3013 2.501723 GTGCCCTTCTGGATGTCTTCTA 59.498 50.000 0.00 0.00 35.39 2.10
2494 3014 2.501723 TGCCCTTCTGGATGTCTTCTAC 59.498 50.000 0.00 0.00 35.39 2.59
2495 3015 2.501723 GCCCTTCTGGATGTCTTCTACA 59.498 50.000 0.00 0.00 37.23 2.74
2496 3016 3.055094 GCCCTTCTGGATGTCTTCTACAA 60.055 47.826 0.00 0.00 36.65 2.41
2497 3017 4.508662 CCCTTCTGGATGTCTTCTACAAC 58.491 47.826 0.00 0.00 42.70 3.32
2498 3018 4.223923 CCCTTCTGGATGTCTTCTACAACT 59.776 45.833 0.00 0.00 42.70 3.16
2499 3019 5.280215 CCCTTCTGGATGTCTTCTACAACTT 60.280 44.000 0.00 0.00 42.70 2.66
2500 3020 5.641209 CCTTCTGGATGTCTTCTACAACTTG 59.359 44.000 0.00 0.00 42.70 3.16
2501 3021 4.569943 TCTGGATGTCTTCTACAACTTGC 58.430 43.478 0.00 0.00 42.70 4.01
2502 3022 4.284490 TCTGGATGTCTTCTACAACTTGCT 59.716 41.667 0.00 0.00 42.70 3.91
2503 3023 4.973168 TGGATGTCTTCTACAACTTGCTT 58.027 39.130 0.00 0.00 42.70 3.91
2504 3024 4.756642 TGGATGTCTTCTACAACTTGCTTG 59.243 41.667 0.00 0.00 42.70 4.01
2505 3025 4.154918 GGATGTCTTCTACAACTTGCTTGG 59.845 45.833 0.00 0.00 42.70 3.61
2506 3026 4.415881 TGTCTTCTACAACTTGCTTGGA 57.584 40.909 0.00 0.00 34.29 3.53
2507 3027 4.776349 TGTCTTCTACAACTTGCTTGGAA 58.224 39.130 0.00 0.00 34.29 3.53
2508 3028 5.376625 TGTCTTCTACAACTTGCTTGGAAT 58.623 37.500 0.00 0.00 34.29 3.01
2509 3029 5.470098 TGTCTTCTACAACTTGCTTGGAATC 59.530 40.000 0.00 0.00 34.29 2.52
2510 3030 5.703130 GTCTTCTACAACTTGCTTGGAATCT 59.297 40.000 0.00 0.00 33.66 2.40
2511 3031 6.874134 GTCTTCTACAACTTGCTTGGAATCTA 59.126 38.462 0.00 0.00 33.66 1.98
2512 3032 6.874134 TCTTCTACAACTTGCTTGGAATCTAC 59.126 38.462 0.00 0.00 33.66 2.59
2513 3033 6.109156 TCTACAACTTGCTTGGAATCTACA 57.891 37.500 0.00 0.00 33.66 2.74
2514 3034 6.166279 TCTACAACTTGCTTGGAATCTACAG 58.834 40.000 0.00 0.00 33.66 2.74
2515 3035 3.503748 ACAACTTGCTTGGAATCTACAGC 59.496 43.478 0.00 0.00 33.66 4.40
2522 3042 5.252547 TGCTTGGAATCTACAGCAACAATA 58.747 37.500 0.00 0.00 0.00 1.90
2557 3077 2.942376 CAGATCGTCTGCTAGAGAGTGT 59.058 50.000 0.00 0.00 37.72 3.55
2565 3085 1.356059 TGCTAGAGAGTGTCTCCCTGT 59.644 52.381 0.00 0.00 44.42 4.00
2611 3198 3.777106 ATCACGGATGCCATGTATCTT 57.223 42.857 7.02 0.00 0.00 2.40
2616 3203 2.221749 CGGATGCCATGTATCTTCAACG 59.778 50.000 7.02 0.00 0.00 4.10
2617 3204 3.466836 GGATGCCATGTATCTTCAACGA 58.533 45.455 0.00 0.00 0.00 3.85
2618 3205 4.067896 GGATGCCATGTATCTTCAACGAT 58.932 43.478 0.00 0.00 0.00 3.73
2649 3236 5.482878 CCCAAGTAGTTACCTTGGTCTCTAA 59.517 44.000 15.66 0.00 44.35 2.10
2650 3237 6.156429 CCCAAGTAGTTACCTTGGTCTCTAAT 59.844 42.308 15.66 0.00 44.35 1.73
2663 3256 2.281762 GTCTCTAATTGCCGCTAACACG 59.718 50.000 0.00 0.00 0.00 4.49
2666 3259 3.847542 TCTAATTGCCGCTAACACGTAA 58.152 40.909 0.00 0.00 0.00 3.18
2667 3260 4.435425 TCTAATTGCCGCTAACACGTAAT 58.565 39.130 0.00 0.00 0.00 1.89
2676 3269 4.441415 CCGCTAACACGTAATTTTGCAAAA 59.559 37.500 25.76 25.76 0.00 2.44
2679 3272 5.232414 GCTAACACGTAATTTTGCAAAACCA 59.768 36.000 26.05 14.12 0.00 3.67
2706 3299 1.080501 CGCCTTCTGTCTTCGCTCA 60.081 57.895 0.00 0.00 0.00 4.26
2707 3300 1.347817 CGCCTTCTGTCTTCGCTCAC 61.348 60.000 0.00 0.00 0.00 3.51
2708 3301 0.319900 GCCTTCTGTCTTCGCTCACA 60.320 55.000 0.00 0.00 0.00 3.58
2709 3302 1.674221 GCCTTCTGTCTTCGCTCACAT 60.674 52.381 0.00 0.00 0.00 3.21
2710 3303 2.693069 CCTTCTGTCTTCGCTCACATT 58.307 47.619 0.00 0.00 0.00 2.71
2711 3304 2.414481 CCTTCTGTCTTCGCTCACATTG 59.586 50.000 0.00 0.00 0.00 2.82
2712 3305 3.320626 CTTCTGTCTTCGCTCACATTGA 58.679 45.455 0.00 0.00 0.00 2.57
2713 3306 3.599730 TCTGTCTTCGCTCACATTGAT 57.400 42.857 0.00 0.00 0.00 2.57
2714 3307 3.930336 TCTGTCTTCGCTCACATTGATT 58.070 40.909 0.00 0.00 0.00 2.57
2715 3308 4.318332 TCTGTCTTCGCTCACATTGATTT 58.682 39.130 0.00 0.00 0.00 2.17
2716 3309 4.756642 TCTGTCTTCGCTCACATTGATTTT 59.243 37.500 0.00 0.00 0.00 1.82
2717 3310 5.239306 TCTGTCTTCGCTCACATTGATTTTT 59.761 36.000 0.00 0.00 0.00 1.94
2739 3332 2.234300 TTTTTGAGTCCGTCTTCGCT 57.766 45.000 0.00 0.00 35.54 4.93
2740 3333 1.779569 TTTTGAGTCCGTCTTCGCTC 58.220 50.000 0.00 0.00 35.54 5.03
2741 3334 0.671796 TTTGAGTCCGTCTTCGCTCA 59.328 50.000 0.00 0.00 35.56 4.26
2742 3335 0.671796 TTGAGTCCGTCTTCGCTCAA 59.328 50.000 0.00 0.00 40.74 3.02
2743 3336 0.888619 TGAGTCCGTCTTCGCTCAAT 59.111 50.000 0.00 0.00 34.87 2.57
2744 3337 1.272781 GAGTCCGTCTTCGCTCAATG 58.727 55.000 0.00 0.00 35.54 2.82
2745 3338 0.603569 AGTCCGTCTTCGCTCAATGT 59.396 50.000 0.00 0.00 35.54 2.71
2746 3339 0.992802 GTCCGTCTTCGCTCAATGTC 59.007 55.000 0.00 0.00 35.54 3.06
2747 3340 0.888619 TCCGTCTTCGCTCAATGTCT 59.111 50.000 0.00 0.00 35.54 3.41
2748 3341 1.272490 TCCGTCTTCGCTCAATGTCTT 59.728 47.619 0.00 0.00 35.54 3.01
2749 3342 1.656095 CCGTCTTCGCTCAATGTCTTC 59.344 52.381 0.00 0.00 35.54 2.87
2750 3343 1.318785 CGTCTTCGCTCAATGTCTTCG 59.681 52.381 0.00 0.00 0.00 3.79
2751 3344 1.059835 GTCTTCGCTCAATGTCTTCGC 59.940 52.381 0.00 0.00 0.00 4.70
2752 3345 1.067565 TCTTCGCTCAATGTCTTCGCT 60.068 47.619 0.00 0.00 0.00 4.93
2753 3346 1.322936 CTTCGCTCAATGTCTTCGCTC 59.677 52.381 0.00 0.00 0.00 5.03
2754 3347 0.243636 TCGCTCAATGTCTTCGCTCA 59.756 50.000 0.00 0.00 0.00 4.26
2755 3348 0.368227 CGCTCAATGTCTTCGCTCAC 59.632 55.000 0.00 0.00 0.00 3.51
2756 3349 1.432514 GCTCAATGTCTTCGCTCACA 58.567 50.000 0.00 0.00 0.00 3.58
2757 3350 2.005451 GCTCAATGTCTTCGCTCACAT 58.995 47.619 0.00 0.00 34.58 3.21
2758 3351 2.417933 GCTCAATGTCTTCGCTCACATT 59.582 45.455 0.00 0.00 42.73 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
85 102 4.559153 CATGAGGGCAAAATCGTCTTTTT 58.441 39.130 0.00 0.00 0.00 1.94
266 392 0.879090 CACACAGCATCAGCACACAT 59.121 50.000 0.00 0.00 45.49 3.21
372 573 3.156293 ACACATACACATGCACCAACAT 58.844 40.909 0.00 0.00 35.39 2.71
433 635 1.260561 GTGTGGGAATAATAGCGCACG 59.739 52.381 11.47 0.00 46.94 5.34
444 646 3.737559 ATGTGGTATGTGTGTGGGAAT 57.262 42.857 0.00 0.00 0.00 3.01
445 648 4.566697 CCTTATGTGGTATGTGTGTGGGAA 60.567 45.833 0.00 0.00 0.00 3.97
480 685 7.589958 TTAAGCCTAAATGACACCTGAAAAA 57.410 32.000 0.00 0.00 0.00 1.94
564 774 9.912634 TTTGCTTCCTTATTTGATACTGAAAAG 57.087 29.630 0.00 0.00 0.00 2.27
659 869 1.625818 ACACACAGGGAAGAGGATGAC 59.374 52.381 0.00 0.00 0.00 3.06
754 965 0.253044 TGGTGACTAGCCCATGAAGC 59.747 55.000 0.00 0.00 0.00 3.86
825 1047 1.392710 GGTCGGATGGATCTCGGTGT 61.393 60.000 0.00 0.00 0.00 4.16
827 1049 1.833049 GGGTCGGATGGATCTCGGT 60.833 63.158 0.00 0.00 0.00 4.69
828 1050 2.920645 CGGGTCGGATGGATCTCGG 61.921 68.421 0.00 0.00 0.00 4.63
829 1051 1.897137 TCGGGTCGGATGGATCTCG 60.897 63.158 0.00 0.00 0.00 4.04
830 1052 1.660917 GTCGGGTCGGATGGATCTC 59.339 63.158 0.00 0.00 0.00 2.75
831 1053 1.833049 GGTCGGGTCGGATGGATCT 60.833 63.158 0.00 0.00 0.00 2.75
847 1069 1.618487 GAGGGATAAGGATCGTCGGT 58.382 55.000 0.00 0.00 32.28 4.69
851 1073 1.524863 CGGCGAGGGATAAGGATCGT 61.525 60.000 0.00 0.00 37.49 3.73
930 1171 4.636249 CTGCTGTTTACTTCTCTTGGTCT 58.364 43.478 0.00 0.00 0.00 3.85
931 1172 3.187432 GCTGCTGTTTACTTCTCTTGGTC 59.813 47.826 0.00 0.00 0.00 4.02
963 1246 1.806542 CTTGTCACACGGGGAATCAAG 59.193 52.381 0.00 0.00 0.00 3.02
1191 1561 2.434336 TGGTGTCAGCAAGAAGTACTGT 59.566 45.455 1.29 0.00 33.12 3.55
1192 1562 2.802816 GTGGTGTCAGCAAGAAGTACTG 59.197 50.000 6.24 0.00 0.00 2.74
1193 1563 2.700897 AGTGGTGTCAGCAAGAAGTACT 59.299 45.455 6.24 0.00 0.00 2.73
1194 1564 3.113260 AGTGGTGTCAGCAAGAAGTAC 57.887 47.619 6.24 0.00 0.00 2.73
1195 1565 3.466836 CAAGTGGTGTCAGCAAGAAGTA 58.533 45.455 6.24 0.00 0.00 2.24
1196 1566 2.292267 CAAGTGGTGTCAGCAAGAAGT 58.708 47.619 6.24 0.00 0.00 3.01
1197 1567 1.002033 GCAAGTGGTGTCAGCAAGAAG 60.002 52.381 6.24 0.00 0.00 2.85
1211 1581 6.500684 AAACACTAACCATAGATGCAAGTG 57.499 37.500 7.63 7.63 36.84 3.16
1220 1592 7.956420 TCAGTACACAAAACACTAACCATAG 57.044 36.000 0.00 0.00 35.14 2.23
1221 1593 8.911918 AATCAGTACACAAAACACTAACCATA 57.088 30.769 0.00 0.00 0.00 2.74
1228 1600 6.201044 CGAGAGAAATCAGTACACAAAACACT 59.799 38.462 0.00 0.00 0.00 3.55
1238 1610 5.284188 CACGAAGAACGAGAGAAATCAGTAC 59.716 44.000 0.00 0.00 45.77 2.73
1248 1648 3.544440 CGGACTATCACGAAGAACGAGAG 60.544 52.174 0.00 0.00 43.65 3.20
1257 1657 1.012086 CGTCCTCGGACTATCACGAA 58.988 55.000 13.74 0.00 42.54 3.85
1269 1669 2.280389 CCCATGCCATCGTCCTCG 60.280 66.667 0.00 0.00 38.55 4.63
1357 1757 2.428622 GTAGGTGCCACCGGTGTT 59.571 61.111 31.80 14.53 44.90 3.32
1632 2038 3.770040 CCTGTCATCCCGGCGTGA 61.770 66.667 6.01 0.00 0.00 4.35
1636 2042 4.408821 TGTGCCTGTCATCCCGGC 62.409 66.667 0.00 0.00 44.02 6.13
1755 2161 2.433838 GCTCTGCTCAGCGCTCAA 60.434 61.111 7.13 0.00 40.11 3.02
1816 2222 6.696583 CGCCATGTTATTATTGATTCTGCAAA 59.303 34.615 0.00 0.00 0.00 3.68
1835 2241 5.920273 GGTGGAATTTTATTGTATCGCCATG 59.080 40.000 0.00 0.00 0.00 3.66
1875 2286 1.569479 GCAAGTGAGCTCGGTGAACC 61.569 60.000 9.64 0.00 0.00 3.62
1911 2322 4.733887 CACGTAAACTTGAGCCTAGATACG 59.266 45.833 15.81 15.81 37.64 3.06
1940 2351 5.925969 AGAAACTCAAAACAAACAACACTGG 59.074 36.000 0.00 0.00 0.00 4.00
2026 2440 7.453980 TGATAAAATAACTTACCTGTACGCG 57.546 36.000 3.53 3.53 0.00 6.01
2092 2530 1.611491 GGTTTCATCACAAGGCCGAAA 59.389 47.619 0.00 0.00 0.00 3.46
2094 2532 0.953471 CGGTTTCATCACAAGGCCGA 60.953 55.000 0.00 0.00 40.04 5.54
2127 2629 2.352323 CCAAATACGGAAACCAAGGCAC 60.352 50.000 0.00 0.00 0.00 5.01
2152 2654 6.824704 TCTTCTTTTTGTAGAACCTTCCGAAA 59.175 34.615 0.00 0.00 31.19 3.46
2193 2695 9.998106 GGTATTGTGTATTCACTGGTCTTATAT 57.002 33.333 4.01 0.00 44.14 0.86
2195 2697 7.857456 TGGTATTGTGTATTCACTGGTCTTAT 58.143 34.615 4.01 0.00 44.14 1.73
2274 2779 7.259882 TGTGGCATTTGATCAATAAAGCTTAG 58.740 34.615 9.40 0.00 0.00 2.18
2279 2784 5.808540 CCACTGTGGCATTTGATCAATAAAG 59.191 40.000 14.87 3.57 0.00 1.85
2294 2799 2.205074 CGAGATGTATTCCACTGTGGC 58.795 52.381 22.02 8.51 37.47 5.01
2314 2823 1.076549 TGTGGGGCTGGTTCAATCC 59.923 57.895 0.00 0.00 0.00 3.01
2316 2825 1.603455 CGTGTGGGGCTGGTTCAAT 60.603 57.895 0.00 0.00 0.00 2.57
2332 2841 3.873679 TAGGTCAGGGACGCCACGT 62.874 63.158 0.00 0.00 45.10 4.49
2333 2842 2.642254 TTAGGTCAGGGACGCCACG 61.642 63.158 0.00 0.00 32.65 4.94
2334 2843 1.079336 GTTAGGTCAGGGACGCCAC 60.079 63.158 0.00 0.00 32.65 5.01
2345 2854 7.095102 TGGCTAAGTTTTTACATTCGTTAGGTC 60.095 37.037 0.00 0.00 0.00 3.85
2351 2860 7.040686 ACAATCTGGCTAAGTTTTTACATTCGT 60.041 33.333 0.00 0.00 0.00 3.85
2359 2868 4.021981 GGCTCACAATCTGGCTAAGTTTTT 60.022 41.667 0.00 0.00 0.00 1.94
2364 2873 2.170187 AGAGGCTCACAATCTGGCTAAG 59.830 50.000 18.26 0.00 36.73 2.18
2370 2879 6.373774 AGACAAATAAAGAGGCTCACAATCTG 59.626 38.462 18.26 9.37 0.00 2.90
2375 2884 5.247110 AGAGAGACAAATAAAGAGGCTCACA 59.753 40.000 18.26 0.87 0.00 3.58
2380 2889 8.956533 AAGATAAGAGAGACAAATAAAGAGGC 57.043 34.615 0.00 0.00 0.00 4.70
2402 2911 9.263538 TCGTGCTACTAGTTTTATTTTTGAAGA 57.736 29.630 0.00 0.00 0.00 2.87
2403 2912 9.872757 TTCGTGCTACTAGTTTTATTTTTGAAG 57.127 29.630 0.00 0.00 0.00 3.02
2405 2914 8.005466 CGTTCGTGCTACTAGTTTTATTTTTGA 58.995 33.333 0.00 0.00 0.00 2.69
2406 2915 8.005466 TCGTTCGTGCTACTAGTTTTATTTTTG 58.995 33.333 0.00 0.00 0.00 2.44
2411 2931 5.287992 GCTTCGTTCGTGCTACTAGTTTTAT 59.712 40.000 0.00 0.00 0.00 1.40
2427 2947 7.275779 TGTCATTAGTGAGATTAAGCTTCGTTC 59.724 37.037 0.00 0.00 34.36 3.95
2428 2948 7.063544 GTGTCATTAGTGAGATTAAGCTTCGTT 59.936 37.037 0.00 0.00 34.36 3.85
2429 2949 6.531948 GTGTCATTAGTGAGATTAAGCTTCGT 59.468 38.462 0.00 0.00 34.36 3.85
2430 2950 6.754209 AGTGTCATTAGTGAGATTAAGCTTCG 59.246 38.462 0.00 0.00 34.36 3.79
2431 2951 9.757227 ATAGTGTCATTAGTGAGATTAAGCTTC 57.243 33.333 0.00 0.00 34.36 3.86
2450 2970 7.038659 GCACATAAGGGAGATATGATAGTGTC 58.961 42.308 0.89 0.00 35.28 3.67
2452 2972 6.344500 GGCACATAAGGGAGATATGATAGTG 58.656 44.000 0.89 0.00 35.28 2.74
2457 2977 3.874316 AGGGCACATAAGGGAGATATGA 58.126 45.455 0.00 0.00 35.28 2.15
2460 2980 3.648067 CAGAAGGGCACATAAGGGAGATA 59.352 47.826 0.00 0.00 0.00 1.98
2467 2987 3.118112 AGACATCCAGAAGGGCACATAAG 60.118 47.826 0.00 0.00 36.21 1.73
2468 2988 2.846206 AGACATCCAGAAGGGCACATAA 59.154 45.455 0.00 0.00 36.21 1.90
2470 2990 1.293062 AGACATCCAGAAGGGCACAT 58.707 50.000 0.00 0.00 36.21 3.21
2471 2991 1.003580 GAAGACATCCAGAAGGGCACA 59.996 52.381 0.00 0.00 36.21 4.57
2472 2992 1.280421 AGAAGACATCCAGAAGGGCAC 59.720 52.381 0.00 0.00 36.21 5.01
2473 2993 1.661463 AGAAGACATCCAGAAGGGCA 58.339 50.000 0.00 0.00 36.21 5.36
2474 2994 2.501723 TGTAGAAGACATCCAGAAGGGC 59.498 50.000 0.00 0.00 31.83 5.19
2475 2995 4.223923 AGTTGTAGAAGACATCCAGAAGGG 59.776 45.833 0.00 0.00 38.07 3.95
2476 2996 5.413309 AGTTGTAGAAGACATCCAGAAGG 57.587 43.478 0.00 0.00 38.07 3.46
2477 2997 5.121454 GCAAGTTGTAGAAGACATCCAGAAG 59.879 44.000 4.48 0.00 38.07 2.85
2478 2998 4.997395 GCAAGTTGTAGAAGACATCCAGAA 59.003 41.667 4.48 0.00 38.07 3.02
2479 2999 4.284490 AGCAAGTTGTAGAAGACATCCAGA 59.716 41.667 4.48 0.00 38.07 3.86
2480 3000 4.573900 AGCAAGTTGTAGAAGACATCCAG 58.426 43.478 4.48 0.00 38.07 3.86
2481 3001 4.623932 AGCAAGTTGTAGAAGACATCCA 57.376 40.909 4.48 0.00 38.07 3.41
2482 3002 4.154918 CCAAGCAAGTTGTAGAAGACATCC 59.845 45.833 4.48 0.00 38.07 3.51
2483 3003 4.997395 TCCAAGCAAGTTGTAGAAGACATC 59.003 41.667 4.48 0.00 38.07 3.06
2484 3004 4.973168 TCCAAGCAAGTTGTAGAAGACAT 58.027 39.130 4.48 0.00 38.07 3.06
2485 3005 4.415881 TCCAAGCAAGTTGTAGAAGACA 57.584 40.909 4.48 0.00 33.87 3.41
2486 3006 5.703130 AGATTCCAAGCAAGTTGTAGAAGAC 59.297 40.000 4.48 2.76 33.87 3.01
2487 3007 5.869579 AGATTCCAAGCAAGTTGTAGAAGA 58.130 37.500 4.48 0.00 33.87 2.87
2488 3008 6.650807 TGTAGATTCCAAGCAAGTTGTAGAAG 59.349 38.462 4.48 0.00 33.87 2.85
2489 3009 6.530120 TGTAGATTCCAAGCAAGTTGTAGAA 58.470 36.000 4.48 3.50 33.87 2.10
2490 3010 6.109156 TGTAGATTCCAAGCAAGTTGTAGA 57.891 37.500 4.48 0.00 33.87 2.59
2491 3011 5.163814 GCTGTAGATTCCAAGCAAGTTGTAG 60.164 44.000 4.48 0.00 33.87 2.74
2492 3012 4.695455 GCTGTAGATTCCAAGCAAGTTGTA 59.305 41.667 4.48 0.00 33.87 2.41
2493 3013 3.503748 GCTGTAGATTCCAAGCAAGTTGT 59.496 43.478 4.48 0.00 33.87 3.32
2494 3014 3.503363 TGCTGTAGATTCCAAGCAAGTTG 59.497 43.478 0.00 0.00 35.71 3.16
2495 3015 3.754965 TGCTGTAGATTCCAAGCAAGTT 58.245 40.909 3.73 0.00 0.00 2.66
2496 3016 3.423539 TGCTGTAGATTCCAAGCAAGT 57.576 42.857 3.73 0.00 0.00 3.16
2497 3017 3.503363 TGTTGCTGTAGATTCCAAGCAAG 59.497 43.478 14.90 0.00 41.89 4.01
2498 3018 3.485394 TGTTGCTGTAGATTCCAAGCAA 58.515 40.909 11.94 11.94 39.51 3.91
2499 3019 3.138884 TGTTGCTGTAGATTCCAAGCA 57.861 42.857 0.00 0.00 0.00 3.91
2500 3020 4.708726 ATTGTTGCTGTAGATTCCAAGC 57.291 40.909 0.00 0.00 0.00 4.01
2501 3021 7.820648 ACTTTATTGTTGCTGTAGATTCCAAG 58.179 34.615 0.00 0.00 0.00 3.61
2502 3022 7.759489 ACTTTATTGTTGCTGTAGATTCCAA 57.241 32.000 0.00 0.00 0.00 3.53
2503 3023 7.759489 AACTTTATTGTTGCTGTAGATTCCA 57.241 32.000 0.00 0.00 0.00 3.53
2504 3024 8.915654 CAAAACTTTATTGTTGCTGTAGATTCC 58.084 33.333 0.00 0.00 0.00 3.01
2505 3025 8.427774 GCAAAACTTTATTGTTGCTGTAGATTC 58.572 33.333 0.00 0.00 42.41 2.52
2506 3026 7.925483 TGCAAAACTTTATTGTTGCTGTAGATT 59.075 29.630 8.51 0.00 45.21 2.40
2507 3027 7.432869 TGCAAAACTTTATTGTTGCTGTAGAT 58.567 30.769 8.51 0.00 45.21 1.98
2508 3028 6.800543 TGCAAAACTTTATTGTTGCTGTAGA 58.199 32.000 8.51 0.00 45.21 2.59
2509 3029 6.917477 TCTGCAAAACTTTATTGTTGCTGTAG 59.083 34.615 8.51 0.00 45.21 2.74
2510 3030 6.800543 TCTGCAAAACTTTATTGTTGCTGTA 58.199 32.000 8.51 0.00 45.21 2.74
2511 3031 5.659463 TCTGCAAAACTTTATTGTTGCTGT 58.341 33.333 8.51 0.00 45.21 4.40
2512 3032 5.332808 GCTCTGCAAAACTTTATTGTTGCTG 60.333 40.000 8.51 7.99 45.21 4.41
2513 3033 4.746611 GCTCTGCAAAACTTTATTGTTGCT 59.253 37.500 8.51 0.00 45.21 3.91
2514 3034 4.507388 TGCTCTGCAAAACTTTATTGTTGC 59.493 37.500 0.40 0.40 45.19 4.17
2515 3035 5.978919 TCTGCTCTGCAAAACTTTATTGTTG 59.021 36.000 0.00 0.00 38.41 3.33
2522 3042 2.880890 ACGATCTGCTCTGCAAAACTTT 59.119 40.909 0.00 0.00 38.41 2.66
2557 3077 1.220749 GCCATTGCGTACAGGGAGA 59.779 57.895 0.00 0.00 0.00 3.71
2565 3085 2.942376 CAATACTGGAAGCCATTGCGTA 59.058 45.455 0.00 0.00 44.33 4.42
2611 3198 1.697432 ACTTGGGGACTTCATCGTTGA 59.303 47.619 0.00 0.00 0.00 3.18
2616 3203 4.767478 GGTAACTACTTGGGGACTTCATC 58.233 47.826 0.00 0.00 0.00 2.92
2617 3204 4.838904 GGTAACTACTTGGGGACTTCAT 57.161 45.455 0.00 0.00 0.00 2.57
2649 3236 4.162812 CAAAATTACGTGTTAGCGGCAAT 58.837 39.130 1.45 0.00 35.98 3.56
2650 3237 3.556513 CAAAATTACGTGTTAGCGGCAA 58.443 40.909 1.45 0.00 35.98 4.52
2663 3256 6.419710 GTCACCTACTGGTTTTGCAAAATTAC 59.580 38.462 26.24 19.09 46.05 1.89
2666 3259 4.499019 CGTCACCTACTGGTTTTGCAAAAT 60.499 41.667 26.24 13.62 46.05 1.82
2667 3260 3.181495 CGTCACCTACTGGTTTTGCAAAA 60.181 43.478 20.46 20.46 46.05 2.44
2720 3313 2.132762 GAGCGAAGACGGACTCAAAAA 58.867 47.619 0.00 0.00 40.15 1.94
2721 3314 1.067974 TGAGCGAAGACGGACTCAAAA 59.932 47.619 0.00 0.00 36.36 2.44
2722 3315 0.671796 TGAGCGAAGACGGACTCAAA 59.328 50.000 0.00 0.00 36.36 2.69
2723 3316 0.671796 TTGAGCGAAGACGGACTCAA 59.328 50.000 0.00 0.00 41.98 3.02
2724 3317 0.888619 ATTGAGCGAAGACGGACTCA 59.111 50.000 0.00 0.00 37.06 3.41
2725 3318 1.272781 CATTGAGCGAAGACGGACTC 58.727 55.000 0.00 0.00 40.15 3.36
2726 3319 0.603569 ACATTGAGCGAAGACGGACT 59.396 50.000 0.00 0.00 40.15 3.85
2727 3320 0.992802 GACATTGAGCGAAGACGGAC 59.007 55.000 0.00 0.00 40.15 4.79
2728 3321 0.888619 AGACATTGAGCGAAGACGGA 59.111 50.000 0.00 0.00 40.15 4.69
2729 3322 1.656095 GAAGACATTGAGCGAAGACGG 59.344 52.381 0.00 0.00 40.15 4.79
2730 3323 1.318785 CGAAGACATTGAGCGAAGACG 59.681 52.381 0.00 0.00 42.93 4.18
2731 3324 1.059835 GCGAAGACATTGAGCGAAGAC 59.940 52.381 0.00 0.00 0.00 3.01
2732 3325 1.067565 AGCGAAGACATTGAGCGAAGA 60.068 47.619 0.00 0.00 0.00 2.87
2733 3326 1.322936 GAGCGAAGACATTGAGCGAAG 59.677 52.381 0.00 0.00 0.00 3.79
2734 3327 1.336795 TGAGCGAAGACATTGAGCGAA 60.337 47.619 0.00 0.00 0.00 4.70
2735 3328 0.243636 TGAGCGAAGACATTGAGCGA 59.756 50.000 0.00 0.00 0.00 4.93
2736 3329 0.368227 GTGAGCGAAGACATTGAGCG 59.632 55.000 0.00 0.00 0.00 5.03
2737 3330 1.432514 TGTGAGCGAAGACATTGAGC 58.567 50.000 0.00 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.