Multiple sequence alignment - TraesCS2B01G181300

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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 TraesCS2B01G181300 chr2B 100.000 2747 0 0 1 2747 155828416 155831162 0.000000e+00 5073.0
1 TraesCS2B01G181300 chr2B 97.042 1251 22 6 979 2228 155868083 155869319 0.000000e+00 2091.0
2 TraesCS2B01G181300 chr2B 96.123 619 21 2 1 617 155867474 155868091 0.000000e+00 1007.0
3 TraesCS2B01G181300 chr2B 98.485 330 5 0 2418 2747 155869312 155869641 1.420000e-162 582.0
4 TraesCS2B01G181300 chr2B 89.080 348 32 6 2404 2747 528245438 528245783 7.030000e-116 427.0
5 TraesCS2B01G181300 chr2B 85.442 419 41 10 1817 2222 528245044 528245455 4.230000e-113 418.0
6 TraesCS2B01G181300 chr2B 96.000 200 6 2 758 956 155879511 155879709 9.490000e-85 324.0
7 TraesCS2B01G181300 chr2D 98.165 981 12 3 1077 2056 91791083 91792058 0.000000e+00 1707.0
8 TraesCS2B01G181300 chr2D 93.548 1116 22 19 1077 2191 105668444 105667378 0.000000e+00 1616.0
9 TraesCS2B01G181300 chr2D 96.373 579 19 1 3 579 380781408 380780830 0.000000e+00 952.0
10 TraesCS2B01G181300 chr2D 96.200 579 20 1 3 579 380940974 380940396 0.000000e+00 946.0
11 TraesCS2B01G181300 chr2D 98.182 330 6 0 2418 2747 91792192 91792521 6.600000e-161 577.0
12 TraesCS2B01G181300 chr2D 97.492 319 6 2 758 1075 91790730 91791047 6.690000e-151 544.0
13 TraesCS2B01G181300 chr2D 94.671 319 10 4 758 1075 105668792 105668480 3.180000e-134 488.0
14 TraesCS2B01G181300 chr2D 97.436 234 6 0 343 576 380788931 380788698 1.530000e-107 399.0
15 TraesCS2B01G181300 chr2D 96.581 234 8 0 343 576 380948380 380948147 3.320000e-104 388.0
16 TraesCS2B01G181300 chr2D 96.500 200 5 2 758 956 91797529 91797727 2.040000e-86 329.0
17 TraesCS2B01G181300 chr2D 96.500 200 5 2 758 956 105660308 105660110 2.040000e-86 329.0
18 TraesCS2B01G181300 chr2D 85.321 327 33 13 758 1072 603638716 603638393 9.490000e-85 324.0
19 TraesCS2B01G181300 chr2D 97.283 184 5 0 577 760 105669017 105668834 2.050000e-81 313.0
20 TraesCS2B01G181300 chr2D 94.022 184 6 1 577 760 91790510 91790688 9.690000e-70 274.0
21 TraesCS2B01G181300 chr2D 99.310 145 1 0 2084 2228 91792055 91792199 2.100000e-66 263.0
22 TraesCS2B01G181300 chr2D 88.835 206 18 5 758 960 603633119 603632916 5.870000e-62 248.0
23 TraesCS2B01G181300 chr2D 83.750 160 25 1 1136 1294 603638299 603638140 1.700000e-32 150.0
24 TraesCS2B01G181300 chr2D 100.000 29 0 0 2200 2228 105667380 105667352 1.000000e-03 54.7
25 TraesCS2B01G181300 chr4B 82.353 1428 159 53 866 2228 169921614 169920215 0.000000e+00 1155.0
26 TraesCS2B01G181300 chr4B 93.030 330 22 1 2418 2747 169920222 169919894 5.320000e-132 481.0
27 TraesCS2B01G181300 chr1B 82.160 1435 159 50 866 2228 263265697 263267106 0.000000e+00 1142.0
28 TraesCS2B01G181300 chr1B 92.424 330 24 1 2418 2747 263267099 263267427 1.150000e-128 470.0
29 TraesCS2B01G181300 chr4A 82.008 1434 162 50 866 2228 324028842 324027434 0.000000e+00 1131.0
30 TraesCS2B01G181300 chr4A 78.746 1308 171 57 983 2228 22710149 22711411 0.000000e+00 776.0
31 TraesCS2B01G181300 chr4A 93.656 331 20 1 2418 2747 22711404 22711734 6.830000e-136 494.0
32 TraesCS2B01G181300 chr4A 92.424 330 24 1 2418 2747 324027441 324027113 1.150000e-128 470.0
33 TraesCS2B01G181300 chr4A 94.634 205 8 3 2228 2432 124235628 124235427 5.710000e-82 315.0
34 TraesCS2B01G181300 chr5A 83.644 1125 132 30 1132 2227 343061300 343060199 0.000000e+00 1011.0
35 TraesCS2B01G181300 chr5A 92.424 330 25 0 2418 2747 343060205 343059876 3.200000e-129 472.0
36 TraesCS2B01G181300 chr5A 97.423 194 4 1 2229 2422 358172886 358173078 2.040000e-86 329.0
37 TraesCS2B01G181300 chr5A 79.372 223 30 10 866 1075 343061619 343061400 2.850000e-30 143.0
38 TraesCS2B01G181300 chr2A 96.713 578 17 2 1 576 677818444 677817867 0.000000e+00 961.0
39 TraesCS2B01G181300 chr2A 94.258 209 9 3 2212 2418 673952520 673952727 1.590000e-82 316.0
40 TraesCS2B01G181300 chr7B 94.810 578 27 2 1 576 107944756 107945332 0.000000e+00 898.0
41 TraesCS2B01G181300 chr7B 91.781 219 14 4 2226 2443 539392432 539392217 4.450000e-78 302.0
42 TraesCS2B01G181300 chr7B 76.882 372 43 25 988 1346 199272893 199272552 1.310000e-38 171.0
43 TraesCS2B01G181300 chr7B 100.000 34 0 0 577 610 727762848 727762881 2.280000e-06 63.9
44 TraesCS2B01G181300 chr3D 93.576 576 34 3 3 576 28742163 28742737 0.000000e+00 856.0
45 TraesCS2B01G181300 chr3D 93.229 576 35 4 3 576 122573052 122572479 0.000000e+00 845.0
46 TraesCS2B01G181300 chr3D 86.486 481 47 8 1126 1594 264727467 264726993 1.890000e-141 512.0
47 TraesCS2B01G181300 chr3D 86.016 379 35 9 1859 2226 264726907 264726536 9.220000e-105 390.0
48 TraesCS2B01G181300 chr6A 86.347 542 50 12 1705 2228 112519324 112518789 1.100000e-158 569.0
49 TraesCS2B01G181300 chr7A 80.709 762 103 24 866 1594 577827464 577826714 1.110000e-153 553.0
50 TraesCS2B01G181300 chr7A 94.562 331 17 1 2418 2747 577826102 577825772 6.790000e-141 510.0
51 TraesCS2B01G181300 chr7A 86.017 472 45 11 1771 2228 577826559 577826095 1.140000e-133 486.0
52 TraesCS2B01G181300 chr1D 91.389 360 21 9 4 358 408558419 408558065 4.110000e-133 484.0
53 TraesCS2B01G181300 chr1D 91.053 190 13 4 758 946 28817793 28817979 1.260000e-63 254.0
54 TraesCS2B01G181300 chr1D 100.000 34 0 0 577 610 492148229 492148196 2.280000e-06 63.9
55 TraesCS2B01G181300 chr1D 100.000 34 0 0 577 610 492152485 492152452 2.280000e-06 63.9
56 TraesCS2B01G181300 chr1D 100.000 34 0 0 577 610 492168465 492168432 2.280000e-06 63.9
57 TraesCS2B01G181300 chr5D 87.961 407 39 10 1 403 240857607 240857207 3.200000e-129 472.0
58 TraesCS2B01G181300 chr5D 88.169 355 42 0 1311 1665 575746 576100 9.090000e-115 424.0
59 TraesCS2B01G181300 chr5D 90.338 207 16 2 2017 2222 582634 582837 4.510000e-68 268.0
60 TraesCS2B01G181300 chr3B 97.917 192 3 1 2228 2419 697349153 697349343 5.670000e-87 331.0
61 TraesCS2B01G181300 chr3B 96.891 193 4 2 2225 2417 87950855 87951045 3.410000e-84 322.0
62 TraesCS2B01G181300 chr5B 97.895 190 3 1 2228 2417 326088848 326088660 7.330000e-86 327.0
63 TraesCS2B01G181300 chr1A 96.875 192 5 1 2229 2420 9765657 9765847 1.230000e-83 320.0
64 TraesCS2B01G181300 chr1A 93.301 209 12 2 2221 2429 13656148 13655942 9.560000e-80 307.0
65 TraesCS2B01G181300 chr1A 100.000 34 0 0 577 610 590293422 590293389 2.280000e-06 63.9
66 TraesCS2B01G181300 chr1A 100.000 34 0 0 577 610 590333128 590333095 2.280000e-06 63.9
67 TraesCS2B01G181300 chr3A 88.166 169 18 2 790 956 325311060 325310892 1.670000e-47 200.0


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 TraesCS2B01G181300 chr2B 155828416 155831162 2746 False 5073.000000 5073 100.000000 1 2747 1 chr2B.!!$F1 2746
1 TraesCS2B01G181300 chr2B 155867474 155869641 2167 False 1226.666667 2091 97.216667 1 2747 3 chr2B.!!$F3 2746
2 TraesCS2B01G181300 chr2B 528245044 528245783 739 False 422.500000 427 87.261000 1817 2747 2 chr2B.!!$F4 930
3 TraesCS2B01G181300 chr2D 380780830 380781408 578 True 952.000000 952 96.373000 3 579 1 chr2D.!!$R2 576
4 TraesCS2B01G181300 chr2D 380940396 380940974 578 True 946.000000 946 96.200000 3 579 1 chr2D.!!$R4 576
5 TraesCS2B01G181300 chr2D 91790510 91792521 2011 False 673.000000 1707 97.434200 577 2747 5 chr2D.!!$F2 2170
6 TraesCS2B01G181300 chr2D 105667352 105669017 1665 True 617.925000 1616 96.375500 577 2228 4 chr2D.!!$R7 1651
7 TraesCS2B01G181300 chr2D 603638140 603638716 576 True 237.000000 324 84.535500 758 1294 2 chr2D.!!$R8 536
8 TraesCS2B01G181300 chr4B 169919894 169921614 1720 True 818.000000 1155 87.691500 866 2747 2 chr4B.!!$R1 1881
9 TraesCS2B01G181300 chr1B 263265697 263267427 1730 False 806.000000 1142 87.292000 866 2747 2 chr1B.!!$F1 1881
10 TraesCS2B01G181300 chr4A 324027113 324028842 1729 True 800.500000 1131 87.216000 866 2747 2 chr4A.!!$R2 1881
11 TraesCS2B01G181300 chr4A 22710149 22711734 1585 False 635.000000 776 86.201000 983 2747 2 chr4A.!!$F1 1764
12 TraesCS2B01G181300 chr5A 343059876 343061619 1743 True 542.000000 1011 85.146667 866 2747 3 chr5A.!!$R1 1881
13 TraesCS2B01G181300 chr2A 677817867 677818444 577 True 961.000000 961 96.713000 1 576 1 chr2A.!!$R1 575
14 TraesCS2B01G181300 chr7B 107944756 107945332 576 False 898.000000 898 94.810000 1 576 1 chr7B.!!$F1 575
15 TraesCS2B01G181300 chr3D 28742163 28742737 574 False 856.000000 856 93.576000 3 576 1 chr3D.!!$F1 573
16 TraesCS2B01G181300 chr3D 122572479 122573052 573 True 845.000000 845 93.229000 3 576 1 chr3D.!!$R1 573
17 TraesCS2B01G181300 chr3D 264726536 264727467 931 True 451.000000 512 86.251000 1126 2226 2 chr3D.!!$R2 1100
18 TraesCS2B01G181300 chr6A 112518789 112519324 535 True 569.000000 569 86.347000 1705 2228 1 chr6A.!!$R1 523
19 TraesCS2B01G181300 chr7A 577825772 577827464 1692 True 516.333333 553 87.096000 866 2747 3 chr7A.!!$R1 1881

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
628 634 3.573967 GTGAGGGCCTCTTTGATTTGAAA 59.426 43.478 32.28 6.4 0.0 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2227 2443 0.179215 CGCGATTCTGACAACCTTGC 60.179 55.0 0.0 0.0 0.0 4.01 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
361 367 6.720748 GGGGAGTGTTAAAACTAATTAACCCA 59.279 38.462 16.20 0.00 42.46 4.51
550 556 9.865321 ATAAAGATGACACTTGAATCATTTTGG 57.135 29.630 0.00 0.00 35.67 3.28
624 630 4.870021 ATAGTGAGGGCCTCTTTGATTT 57.130 40.909 32.28 13.09 0.00 2.17
628 634 3.573967 GTGAGGGCCTCTTTGATTTGAAA 59.426 43.478 32.28 6.40 0.00 2.69
905 956 5.127693 ACGCATCTCTTCCAGTCATATAC 57.872 43.478 0.00 0.00 0.00 1.47
941 992 8.999431 TCTTTCTACCAATCAATACAAGTTGAC 58.001 33.333 10.54 0.00 40.60 3.18
1112 1244 3.862402 CGAGTCGGACGACCCTCG 61.862 72.222 19.92 18.63 45.59 4.63
1113 1245 2.435586 GAGTCGGACGACCCTCGA 60.436 66.667 19.92 0.00 43.74 4.04
1115 1247 4.157958 GTCGGACGACCCTCGACG 62.158 72.222 13.49 3.31 43.74 5.12
1116 1248 4.687215 TCGGACGACCCTCGACGT 62.687 66.667 0.00 0.00 43.74 4.34
1117 1249 4.456253 CGGACGACCCTCGACGTG 62.456 72.222 3.34 0.00 43.74 4.49
1118 1250 3.052082 GGACGACCCTCGACGTGA 61.052 66.667 3.34 0.00 43.74 4.35
1265 1409 2.280797 GTGCTCACGGCTCCAACA 60.281 61.111 0.00 0.00 42.39 3.33
2222 2438 6.481954 GTCAGTTCGACAAATGATTACCTT 57.518 37.500 0.00 0.00 44.69 3.50
2223 2439 6.307155 GTCAGTTCGACAAATGATTACCTTG 58.693 40.000 0.00 0.00 44.69 3.61
2224 2440 6.147164 GTCAGTTCGACAAATGATTACCTTGA 59.853 38.462 0.00 0.00 44.69 3.02
2225 2441 6.708502 TCAGTTCGACAAATGATTACCTTGAA 59.291 34.615 0.00 0.00 31.69 2.69
2226 2442 7.390440 TCAGTTCGACAAATGATTACCTTGAAT 59.610 33.333 0.00 0.00 31.69 2.57
2227 2443 7.482743 CAGTTCGACAAATGATTACCTTGAATG 59.517 37.037 0.00 0.00 28.42 2.67
2228 2444 5.879237 TCGACAAATGATTACCTTGAATGC 58.121 37.500 0.00 0.00 0.00 3.56
2229 2445 5.414144 TCGACAAATGATTACCTTGAATGCA 59.586 36.000 0.00 0.00 0.00 3.96
2230 2446 6.072230 TCGACAAATGATTACCTTGAATGCAA 60.072 34.615 0.00 0.00 0.00 4.08
2241 2457 4.572985 CTTGAATGCAAGGTTGTCAGAA 57.427 40.909 5.41 0.00 46.13 3.02
2242 2458 5.130292 CTTGAATGCAAGGTTGTCAGAAT 57.870 39.130 5.41 0.00 46.13 2.40
2243 2459 4.771590 TGAATGCAAGGTTGTCAGAATC 57.228 40.909 0.00 0.00 0.00 2.52
2244 2460 3.189080 TGAATGCAAGGTTGTCAGAATCG 59.811 43.478 0.00 0.00 0.00 3.34
2245 2461 0.874390 TGCAAGGTTGTCAGAATCGC 59.126 50.000 0.00 0.00 0.00 4.58
2246 2462 0.179215 GCAAGGTTGTCAGAATCGCG 60.179 55.000 0.00 0.00 0.00 5.87
2247 2463 1.428448 CAAGGTTGTCAGAATCGCGA 58.572 50.000 13.09 13.09 0.00 5.87
2248 2464 2.002586 CAAGGTTGTCAGAATCGCGAT 58.997 47.619 17.62 17.62 0.00 4.58
2249 2465 2.386661 AGGTTGTCAGAATCGCGATT 57.613 45.000 32.97 32.97 0.00 3.34
2250 2466 2.271800 AGGTTGTCAGAATCGCGATTC 58.728 47.619 41.15 41.15 45.66 2.52
2261 2477 5.994235 GAATCGCGATTCTGTTATACGAT 57.006 39.130 40.72 16.39 42.85 3.73
2263 2479 5.994235 ATCGCGATTCTGTTATACGATTC 57.006 39.130 17.62 0.00 35.44 2.52
2264 2480 5.104562 TCGCGATTCTGTTATACGATTCT 57.895 39.130 3.71 0.00 0.00 2.40
2265 2481 6.232139 TCGCGATTCTGTTATACGATTCTA 57.768 37.500 3.71 0.00 0.00 2.10
2266 2482 6.075918 TCGCGATTCTGTTATACGATTCTAC 58.924 40.000 3.71 0.00 0.00 2.59
2267 2483 5.001359 CGCGATTCTGTTATACGATTCTACG 59.999 44.000 0.00 0.00 39.31 3.51
2268 2484 6.075918 GCGATTCTGTTATACGATTCTACGA 58.924 40.000 0.00 0.00 37.03 3.43
2269 2485 6.031210 GCGATTCTGTTATACGATTCTACGAC 59.969 42.308 0.00 0.00 37.03 4.34
2270 2486 7.289395 CGATTCTGTTATACGATTCTACGACT 58.711 38.462 0.00 0.00 37.03 4.18
2271 2487 7.797587 CGATTCTGTTATACGATTCTACGACTT 59.202 37.037 0.00 0.00 37.03 3.01
2272 2488 9.448294 GATTCTGTTATACGATTCTACGACTTT 57.552 33.333 0.00 0.00 37.03 2.66
2274 2490 9.708222 TTCTGTTATACGATTCTACGACTTTAC 57.292 33.333 0.00 0.00 37.03 2.01
2275 2491 8.058328 TCTGTTATACGATTCTACGACTTTACG 58.942 37.037 0.00 0.00 37.03 3.18
2276 2492 7.905126 TGTTATACGATTCTACGACTTTACGA 58.095 34.615 0.00 0.00 37.03 3.43
2277 2493 8.551205 TGTTATACGATTCTACGACTTTACGAT 58.449 33.333 0.00 0.00 37.03 3.73
2278 2494 9.035338 GTTATACGATTCTACGACTTTACGATC 57.965 37.037 0.00 0.00 37.03 3.69
2279 2495 4.842029 ACGATTCTACGACTTTACGATCC 58.158 43.478 0.00 0.00 37.03 3.36
2280 2496 4.333649 ACGATTCTACGACTTTACGATCCA 59.666 41.667 0.00 0.00 37.03 3.41
2281 2497 5.163723 ACGATTCTACGACTTTACGATCCAA 60.164 40.000 0.00 0.00 37.03 3.53
2282 2498 5.740569 CGATTCTACGACTTTACGATCCAAA 59.259 40.000 0.00 0.00 37.03 3.28
2283 2499 6.252015 CGATTCTACGACTTTACGATCCAAAA 59.748 38.462 0.00 0.00 37.03 2.44
2284 2500 6.695292 TTCTACGACTTTACGATCCAAAAC 57.305 37.500 0.00 0.00 37.03 2.43
2285 2501 6.017400 TCTACGACTTTACGATCCAAAACT 57.983 37.500 0.00 0.00 37.03 2.66
2286 2502 7.144722 TCTACGACTTTACGATCCAAAACTA 57.855 36.000 0.00 0.00 37.03 2.24
2287 2503 7.592938 TCTACGACTTTACGATCCAAAACTAA 58.407 34.615 0.00 0.00 37.03 2.24
2288 2504 6.457851 ACGACTTTACGATCCAAAACTAAC 57.542 37.500 0.00 0.00 37.03 2.34
2289 2505 5.406477 ACGACTTTACGATCCAAAACTAACC 59.594 40.000 0.00 0.00 37.03 2.85
2290 2506 5.163923 CGACTTTACGATCCAAAACTAACCC 60.164 44.000 0.00 0.00 35.09 4.11
2291 2507 5.005740 ACTTTACGATCCAAAACTAACCCC 58.994 41.667 0.00 0.00 0.00 4.95
2292 2508 4.914177 TTACGATCCAAAACTAACCCCT 57.086 40.909 0.00 0.00 0.00 4.79
2293 2509 6.013466 ACTTTACGATCCAAAACTAACCCCTA 60.013 38.462 0.00 0.00 0.00 3.53
2294 2510 6.564557 TTACGATCCAAAACTAACCCCTAT 57.435 37.500 0.00 0.00 0.00 2.57
2295 2511 4.777463 ACGATCCAAAACTAACCCCTATG 58.223 43.478 0.00 0.00 0.00 2.23
2296 2512 4.472108 ACGATCCAAAACTAACCCCTATGA 59.528 41.667 0.00 0.00 0.00 2.15
2297 2513 5.132144 ACGATCCAAAACTAACCCCTATGAT 59.868 40.000 0.00 0.00 0.00 2.45
2298 2514 6.062095 CGATCCAAAACTAACCCCTATGATT 58.938 40.000 0.00 0.00 0.00 2.57
2299 2515 6.204882 CGATCCAAAACTAACCCCTATGATTC 59.795 42.308 0.00 0.00 0.00 2.52
2300 2516 6.652205 TCCAAAACTAACCCCTATGATTCT 57.348 37.500 0.00 0.00 0.00 2.40
2301 2517 7.758820 TCCAAAACTAACCCCTATGATTCTA 57.241 36.000 0.00 0.00 0.00 2.10
2302 2518 7.571025 TCCAAAACTAACCCCTATGATTCTAC 58.429 38.462 0.00 0.00 0.00 2.59
2303 2519 6.482308 CCAAAACTAACCCCTATGATTCTACG 59.518 42.308 0.00 0.00 0.00 3.51
2304 2520 7.270047 CAAAACTAACCCCTATGATTCTACGA 58.730 38.462 0.00 0.00 0.00 3.43
2305 2521 7.613551 AAACTAACCCCTATGATTCTACGAT 57.386 36.000 0.00 0.00 0.00 3.73
2306 2522 7.613551 AACTAACCCCTATGATTCTACGATT 57.386 36.000 0.00 0.00 0.00 3.34
2307 2523 7.613551 ACTAACCCCTATGATTCTACGATTT 57.386 36.000 0.00 0.00 0.00 2.17
2308 2524 8.030913 ACTAACCCCTATGATTCTACGATTTT 57.969 34.615 0.00 0.00 0.00 1.82
2309 2525 9.151177 ACTAACCCCTATGATTCTACGATTTTA 57.849 33.333 0.00 0.00 0.00 1.52
2310 2526 9.420551 CTAACCCCTATGATTCTACGATTTTAC 57.579 37.037 0.00 0.00 0.00 2.01
2311 2527 7.613551 ACCCCTATGATTCTACGATTTTACT 57.386 36.000 0.00 0.00 0.00 2.24
2312 2528 8.030913 ACCCCTATGATTCTACGATTTTACTT 57.969 34.615 0.00 0.00 0.00 2.24
2313 2529 8.148999 ACCCCTATGATTCTACGATTTTACTTC 58.851 37.037 0.00 0.00 0.00 3.01
2314 2530 8.148351 CCCCTATGATTCTACGATTTTACTTCA 58.852 37.037 0.00 0.00 0.00 3.02
2315 2531 9.712305 CCCTATGATTCTACGATTTTACTTCAT 57.288 33.333 0.00 0.00 0.00 2.57
2349 2565 7.028926 GTTTCTACGATCCTGATAGTGAAGA 57.971 40.000 3.52 0.00 0.00 2.87
2350 2566 7.653647 GTTTCTACGATCCTGATAGTGAAGAT 58.346 38.462 3.52 0.00 0.00 2.40
2351 2567 7.825331 TTCTACGATCCTGATAGTGAAGATT 57.175 36.000 3.52 0.00 0.00 2.40
2352 2568 7.441890 TCTACGATCCTGATAGTGAAGATTC 57.558 40.000 3.52 0.00 0.00 2.52
2353 2569 7.227873 TCTACGATCCTGATAGTGAAGATTCT 58.772 38.462 3.52 0.00 0.00 2.40
2354 2570 8.376270 TCTACGATCCTGATAGTGAAGATTCTA 58.624 37.037 3.52 0.00 0.00 2.10
2355 2571 7.209471 ACGATCCTGATAGTGAAGATTCTAC 57.791 40.000 0.00 0.00 0.00 2.59
2356 2572 6.072948 ACGATCCTGATAGTGAAGATTCTACG 60.073 42.308 0.00 0.00 0.00 3.51
2357 2573 6.147985 CGATCCTGATAGTGAAGATTCTACGA 59.852 42.308 0.00 0.00 0.00 3.43
2358 2574 7.148323 CGATCCTGATAGTGAAGATTCTACGAT 60.148 40.741 0.00 0.00 0.00 3.73
2359 2575 7.825331 TCCTGATAGTGAAGATTCTACGATT 57.175 36.000 0.00 0.00 0.00 3.34
2360 2576 8.239038 TCCTGATAGTGAAGATTCTACGATTT 57.761 34.615 0.00 0.00 0.00 2.17
2361 2577 8.138074 TCCTGATAGTGAAGATTCTACGATTTG 58.862 37.037 0.00 0.00 0.00 2.32
2362 2578 7.095857 CCTGATAGTGAAGATTCTACGATTTGC 60.096 40.741 0.00 0.00 0.00 3.68
2364 2580 4.744570 AGTGAAGATTCTACGATTTGCGA 58.255 39.130 0.00 0.00 44.57 5.10
2365 2581 5.352284 AGTGAAGATTCTACGATTTGCGAT 58.648 37.500 0.00 0.00 44.57 4.58
2366 2582 5.460419 AGTGAAGATTCTACGATTTGCGATC 59.540 40.000 0.00 0.00 44.57 3.69
2367 2583 5.232202 GTGAAGATTCTACGATTTGCGATCA 59.768 40.000 0.00 0.00 44.57 2.92
2368 2584 5.985530 TGAAGATTCTACGATTTGCGATCAT 59.014 36.000 0.00 0.00 44.57 2.45
2369 2585 7.114953 GTGAAGATTCTACGATTTGCGATCATA 59.885 37.037 0.00 0.00 44.57 2.15
2370 2586 6.936222 AGATTCTACGATTTGCGATCATAC 57.064 37.500 0.00 0.00 44.57 2.39
2371 2587 5.864474 AGATTCTACGATTTGCGATCATACC 59.136 40.000 0.00 0.00 44.57 2.73
2372 2588 4.577834 TCTACGATTTGCGATCATACCA 57.422 40.909 0.00 0.00 44.57 3.25
2373 2589 5.134202 TCTACGATTTGCGATCATACCAT 57.866 39.130 0.00 0.00 44.57 3.55
2374 2590 5.538118 TCTACGATTTGCGATCATACCATT 58.462 37.500 0.00 0.00 44.57 3.16
2375 2591 4.472691 ACGATTTGCGATCATACCATTG 57.527 40.909 0.00 0.00 44.57 2.82
2376 2592 3.250762 ACGATTTGCGATCATACCATTGG 59.749 43.478 0.00 0.00 44.57 3.16
2377 2593 3.498018 CGATTTGCGATCATACCATTGGA 59.502 43.478 10.37 0.00 44.57 3.53
2378 2594 4.377738 CGATTTGCGATCATACCATTGGAG 60.378 45.833 10.37 0.00 44.57 3.86
2379 2595 1.882912 TGCGATCATACCATTGGAGC 58.117 50.000 10.37 3.90 0.00 4.70
2380 2596 1.417517 TGCGATCATACCATTGGAGCT 59.582 47.619 10.37 0.00 0.00 4.09
2381 2597 2.072298 GCGATCATACCATTGGAGCTC 58.928 52.381 10.37 4.71 0.00 4.09
2382 2598 2.693069 CGATCATACCATTGGAGCTCC 58.307 52.381 26.78 26.78 0.00 4.70
2383 2599 2.693069 GATCATACCATTGGAGCTCCG 58.307 52.381 27.43 15.55 39.43 4.63
2384 2600 1.788229 TCATACCATTGGAGCTCCGA 58.212 50.000 25.33 25.33 39.43 4.55
2385 2601 2.329267 TCATACCATTGGAGCTCCGAT 58.671 47.619 27.48 27.48 40.79 4.18
2386 2602 2.300152 TCATACCATTGGAGCTCCGATC 59.700 50.000 29.83 6.64 38.05 3.69
2387 2603 1.048601 TACCATTGGAGCTCCGATCC 58.951 55.000 29.83 7.28 38.05 3.36
2388 2604 1.301244 CCATTGGAGCTCCGATCCG 60.301 63.158 29.83 20.14 38.05 4.18
2389 2605 1.742146 CATTGGAGCTCCGATCCGA 59.258 57.895 29.83 8.38 38.05 4.55
2390 2606 0.319728 CATTGGAGCTCCGATCCGAT 59.680 55.000 29.83 9.84 40.94 4.18
2391 2607 1.051812 ATTGGAGCTCCGATCCGATT 58.948 50.000 27.48 7.68 37.64 3.34
2392 2608 0.389391 TTGGAGCTCCGATCCGATTC 59.611 55.000 27.43 0.11 39.91 2.52
2393 2609 0.755327 TGGAGCTCCGATCCGATTCA 60.755 55.000 27.43 2.92 39.91 2.57
2394 2610 0.389391 GGAGCTCCGATCCGATTCAA 59.611 55.000 19.06 0.00 0.00 2.69
2395 2611 1.202533 GGAGCTCCGATCCGATTCAAA 60.203 52.381 19.06 0.00 0.00 2.69
2396 2612 2.550978 GAGCTCCGATCCGATTCAAAA 58.449 47.619 0.87 0.00 0.00 2.44
2397 2613 3.134458 GAGCTCCGATCCGATTCAAAAT 58.866 45.455 0.87 0.00 0.00 1.82
2398 2614 3.134458 AGCTCCGATCCGATTCAAAATC 58.866 45.455 0.00 0.00 0.00 2.17
2399 2615 2.872245 GCTCCGATCCGATTCAAAATCA 59.128 45.455 1.07 0.00 0.00 2.57
2400 2616 3.303395 GCTCCGATCCGATTCAAAATCAC 60.303 47.826 1.07 0.00 0.00 3.06
2401 2617 2.863740 TCCGATCCGATTCAAAATCACG 59.136 45.455 1.07 0.00 0.00 4.35
2402 2618 2.863740 CCGATCCGATTCAAAATCACGA 59.136 45.455 0.00 0.00 0.00 4.35
2403 2619 3.494626 CCGATCCGATTCAAAATCACGAT 59.505 43.478 0.00 1.08 0.00 3.73
2404 2620 4.024893 CCGATCCGATTCAAAATCACGATT 60.025 41.667 0.00 0.00 0.00 3.34
2405 2621 5.133264 CGATCCGATTCAAAATCACGATTC 58.867 41.667 0.00 0.00 0.00 2.52
2406 2622 5.050769 CGATCCGATTCAAAATCACGATTCT 60.051 40.000 0.00 0.00 0.00 2.40
2407 2623 5.469373 TCCGATTCAAAATCACGATTCTG 57.531 39.130 0.00 0.00 0.00 3.02
2408 2624 5.175127 TCCGATTCAAAATCACGATTCTGA 58.825 37.500 0.00 0.00 0.00 3.27
2409 2625 5.063438 TCCGATTCAAAATCACGATTCTGAC 59.937 40.000 0.00 0.00 28.41 3.51
2410 2626 5.163864 CCGATTCAAAATCACGATTCTGACA 60.164 40.000 0.00 0.00 28.41 3.58
2411 2627 6.306397 CGATTCAAAATCACGATTCTGACAA 58.694 36.000 0.00 0.00 28.41 3.18
2412 2628 6.247165 CGATTCAAAATCACGATTCTGACAAC 59.753 38.462 0.00 0.00 28.41 3.32
2413 2629 5.356882 TCAAAATCACGATTCTGACAACC 57.643 39.130 0.00 0.00 0.00 3.77
2414 2630 5.063204 TCAAAATCACGATTCTGACAACCT 58.937 37.500 0.00 0.00 0.00 3.50
2415 2631 5.530915 TCAAAATCACGATTCTGACAACCTT 59.469 36.000 0.00 0.00 0.00 3.50
2416 2632 5.362556 AAATCACGATTCTGACAACCTTG 57.637 39.130 0.00 0.00 0.00 3.61
2436 2652 2.034939 TGCTTGAATGTGCACTTCCTTG 59.965 45.455 19.41 11.68 33.94 3.61
2496 2714 2.672874 GCGCATCTACTGACATTGTCAA 59.327 45.455 19.44 6.19 42.26 3.18
2678 2896 7.862274 ATTATCTCTGGTTCATCCATGTAGA 57.138 36.000 0.00 0.00 46.12 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
70 71 5.070685 GGTGGGAAAACAGAAAGTATGACT 58.929 41.667 0.00 0.00 0.00 3.41
201 204 6.384305 TCAAACCCAGTTGGAAAAATAAGGAA 59.616 34.615 0.00 0.00 37.39 3.36
335 341 6.950041 GGGTTAATTAGTTTTAACACTCCCCT 59.050 38.462 0.00 0.00 40.66 4.79
361 367 2.172082 GGATTCCCCTAACTAACCGCTT 59.828 50.000 0.00 0.00 0.00 4.68
550 556 7.137426 TGTTTAGAGTAGAACGAGAGACAAAC 58.863 38.462 0.00 0.00 0.00 2.93
624 630 5.255710 TCCTGCGTTTTGAAAATCTTTCA 57.744 34.783 0.00 0.00 0.00 2.69
628 634 4.338118 TCTGTTCCTGCGTTTTGAAAATCT 59.662 37.500 0.00 0.00 0.00 2.40
728 734 5.869888 CCGCTGGATTATGTAGGAATAGTTC 59.130 44.000 0.00 0.00 0.00 3.01
750 756 5.954335 AGGCAAAAAGTAGATTCAAATCCG 58.046 37.500 0.00 0.00 36.04 4.18
905 956 7.962964 TGATTGGTAGAAAGAGTACAACTTG 57.037 36.000 0.00 0.00 0.00 3.16
941 992 5.272167 TGATAACGTGTTTAAGCGAAAGG 57.728 39.130 0.00 0.00 0.00 3.11
1108 1240 2.126307 CAGCCTGTCACGTCGAGG 60.126 66.667 3.03 3.03 0.00 4.63
1109 1241 2.807045 GCAGCCTGTCACGTCGAG 60.807 66.667 0.00 0.00 0.00 4.04
1110 1242 3.295273 AGCAGCCTGTCACGTCGA 61.295 61.111 0.00 0.00 0.00 4.20
1111 1243 3.108289 CAGCAGCCTGTCACGTCG 61.108 66.667 0.00 0.00 34.31 5.12
1112 1244 2.740055 CCAGCAGCCTGTCACGTC 60.740 66.667 0.00 0.00 37.38 4.34
1113 1245 4.996434 GCCAGCAGCCTGTCACGT 62.996 66.667 0.00 0.00 37.38 4.49
2221 2437 4.320421 CGATTCTGACAACCTTGCATTCAA 60.320 41.667 0.00 0.00 0.00 2.69
2222 2438 3.189080 CGATTCTGACAACCTTGCATTCA 59.811 43.478 0.00 0.00 0.00 2.57
2223 2439 3.751621 CGATTCTGACAACCTTGCATTC 58.248 45.455 0.00 0.00 0.00 2.67
2224 2440 2.095059 GCGATTCTGACAACCTTGCATT 60.095 45.455 0.00 0.00 0.00 3.56
2225 2441 1.470098 GCGATTCTGACAACCTTGCAT 59.530 47.619 0.00 0.00 0.00 3.96
2226 2442 0.874390 GCGATTCTGACAACCTTGCA 59.126 50.000 0.00 0.00 0.00 4.08
2227 2443 0.179215 CGCGATTCTGACAACCTTGC 60.179 55.000 0.00 0.00 0.00 4.01
2228 2444 1.428448 TCGCGATTCTGACAACCTTG 58.572 50.000 3.71 0.00 0.00 3.61
2229 2445 2.386661 ATCGCGATTCTGACAACCTT 57.613 45.000 17.62 0.00 0.00 3.50
2230 2446 2.271800 GAATCGCGATTCTGACAACCT 58.728 47.619 40.72 17.09 42.85 3.50
2231 2447 2.721129 GAATCGCGATTCTGACAACC 57.279 50.000 40.72 21.74 42.85 3.77
2239 2455 5.994235 ATCGTATAACAGAATCGCGATTC 57.006 39.130 41.15 41.15 45.66 2.52
2240 2456 6.150318 AGAATCGTATAACAGAATCGCGATT 58.850 36.000 32.97 32.97 45.90 3.34
2241 2457 5.700846 AGAATCGTATAACAGAATCGCGAT 58.299 37.500 17.62 17.62 38.92 4.58
2242 2458 5.104562 AGAATCGTATAACAGAATCGCGA 57.895 39.130 13.09 13.09 0.00 5.87
2243 2459 5.001359 CGTAGAATCGTATAACAGAATCGCG 59.999 44.000 0.00 0.00 0.00 5.87
2244 2460 6.031210 GTCGTAGAATCGTATAACAGAATCGC 59.969 42.308 0.00 0.00 39.69 4.58
2245 2461 7.289395 AGTCGTAGAATCGTATAACAGAATCG 58.711 38.462 0.00 0.00 39.69 3.34
2246 2462 9.448294 AAAGTCGTAGAATCGTATAACAGAATC 57.552 33.333 0.00 0.00 39.69 2.52
2248 2464 9.708222 GTAAAGTCGTAGAATCGTATAACAGAA 57.292 33.333 0.00 0.00 39.69 3.02
2249 2465 8.058328 CGTAAAGTCGTAGAATCGTATAACAGA 58.942 37.037 0.00 0.00 39.69 3.41
2250 2466 8.058328 TCGTAAAGTCGTAGAATCGTATAACAG 58.942 37.037 0.00 0.00 39.69 3.16
2251 2467 7.905126 TCGTAAAGTCGTAGAATCGTATAACA 58.095 34.615 0.00 0.00 39.69 2.41
2252 2468 8.925788 ATCGTAAAGTCGTAGAATCGTATAAC 57.074 34.615 0.00 0.00 39.69 1.89
2253 2469 8.223769 GGATCGTAAAGTCGTAGAATCGTATAA 58.776 37.037 0.00 0.00 39.69 0.98
2254 2470 7.384932 TGGATCGTAAAGTCGTAGAATCGTATA 59.615 37.037 0.00 0.00 39.69 1.47
2255 2471 6.203530 TGGATCGTAAAGTCGTAGAATCGTAT 59.796 38.462 0.00 0.00 39.69 3.06
2256 2472 5.523552 TGGATCGTAAAGTCGTAGAATCGTA 59.476 40.000 0.00 0.00 39.69 3.43
2257 2473 4.333649 TGGATCGTAAAGTCGTAGAATCGT 59.666 41.667 0.00 0.00 39.69 3.73
2258 2474 4.840911 TGGATCGTAAAGTCGTAGAATCG 58.159 43.478 0.00 0.00 39.69 3.34
2259 2475 7.275123 AGTTTTGGATCGTAAAGTCGTAGAATC 59.725 37.037 0.00 0.00 39.69 2.52
2260 2476 7.095270 AGTTTTGGATCGTAAAGTCGTAGAAT 58.905 34.615 0.00 0.00 39.69 2.40
2261 2477 6.449698 AGTTTTGGATCGTAAAGTCGTAGAA 58.550 36.000 0.00 0.00 39.69 2.10
2262 2478 6.017400 AGTTTTGGATCGTAAAGTCGTAGA 57.983 37.500 0.00 0.00 0.00 2.59
2263 2479 7.201384 GGTTAGTTTTGGATCGTAAAGTCGTAG 60.201 40.741 2.77 0.00 0.00 3.51
2264 2480 6.586082 GGTTAGTTTTGGATCGTAAAGTCGTA 59.414 38.462 2.77 0.00 0.00 3.43
2265 2481 5.406477 GGTTAGTTTTGGATCGTAAAGTCGT 59.594 40.000 2.77 0.00 0.00 4.34
2266 2482 5.163923 GGGTTAGTTTTGGATCGTAAAGTCG 60.164 44.000 2.77 0.00 0.00 4.18
2267 2483 5.122869 GGGGTTAGTTTTGGATCGTAAAGTC 59.877 44.000 2.77 0.00 0.00 3.01
2268 2484 5.005740 GGGGTTAGTTTTGGATCGTAAAGT 58.994 41.667 4.54 4.54 0.00 2.66
2269 2485 5.250982 AGGGGTTAGTTTTGGATCGTAAAG 58.749 41.667 0.00 0.00 0.00 1.85
2270 2486 5.245584 AGGGGTTAGTTTTGGATCGTAAA 57.754 39.130 0.00 0.00 0.00 2.01
2271 2487 4.914177 AGGGGTTAGTTTTGGATCGTAA 57.086 40.909 0.00 0.00 0.00 3.18
2272 2488 5.662208 TCATAGGGGTTAGTTTTGGATCGTA 59.338 40.000 0.00 0.00 0.00 3.43
2273 2489 4.472108 TCATAGGGGTTAGTTTTGGATCGT 59.528 41.667 0.00 0.00 0.00 3.73
2274 2490 5.031066 TCATAGGGGTTAGTTTTGGATCG 57.969 43.478 0.00 0.00 0.00 3.69
2275 2491 7.290813 AGAATCATAGGGGTTAGTTTTGGATC 58.709 38.462 0.00 0.00 0.00 3.36
2276 2492 7.226059 AGAATCATAGGGGTTAGTTTTGGAT 57.774 36.000 0.00 0.00 0.00 3.41
2277 2493 6.652205 AGAATCATAGGGGTTAGTTTTGGA 57.348 37.500 0.00 0.00 0.00 3.53
2278 2494 6.482308 CGTAGAATCATAGGGGTTAGTTTTGG 59.518 42.308 0.00 0.00 0.00 3.28
2279 2495 7.270047 TCGTAGAATCATAGGGGTTAGTTTTG 58.730 38.462 0.00 0.00 0.00 2.44
2280 2496 7.427989 TCGTAGAATCATAGGGGTTAGTTTT 57.572 36.000 0.00 0.00 0.00 2.43
2281 2497 7.613551 ATCGTAGAATCATAGGGGTTAGTTT 57.386 36.000 0.00 0.00 43.58 2.66
2282 2498 7.613551 AATCGTAGAATCATAGGGGTTAGTT 57.386 36.000 0.00 0.00 43.58 2.24
2283 2499 7.613551 AAATCGTAGAATCATAGGGGTTAGT 57.386 36.000 0.00 0.00 43.58 2.24
2284 2500 9.420551 GTAAAATCGTAGAATCATAGGGGTTAG 57.579 37.037 0.00 0.00 43.58 2.34
2285 2501 9.151177 AGTAAAATCGTAGAATCATAGGGGTTA 57.849 33.333 0.00 0.00 43.58 2.85
2286 2502 8.030913 AGTAAAATCGTAGAATCATAGGGGTT 57.969 34.615 0.00 0.00 43.58 4.11
2287 2503 7.613551 AGTAAAATCGTAGAATCATAGGGGT 57.386 36.000 0.00 0.00 43.58 4.95
2288 2504 8.148351 TGAAGTAAAATCGTAGAATCATAGGGG 58.852 37.037 0.00 0.00 43.58 4.79
2289 2505 9.712305 ATGAAGTAAAATCGTAGAATCATAGGG 57.288 33.333 0.00 0.00 43.58 3.53
2325 2541 7.028926 TCTTCACTATCAGGATCGTAGAAAC 57.971 40.000 0.00 0.00 43.58 2.78
2326 2542 7.825331 ATCTTCACTATCAGGATCGTAGAAA 57.175 36.000 0.00 0.00 43.58 2.52
2327 2543 7.721842 AGAATCTTCACTATCAGGATCGTAGAA 59.278 37.037 0.00 0.00 43.58 2.10
2328 2544 7.227873 AGAATCTTCACTATCAGGATCGTAGA 58.772 38.462 0.00 0.00 45.75 2.59
2329 2545 7.447374 AGAATCTTCACTATCAGGATCGTAG 57.553 40.000 0.00 0.00 0.00 3.51
2330 2546 7.117956 CGTAGAATCTTCACTATCAGGATCGTA 59.882 40.741 0.00 0.00 0.00 3.43
2331 2547 6.072948 CGTAGAATCTTCACTATCAGGATCGT 60.073 42.308 0.00 0.00 0.00 3.73
2332 2548 6.147985 TCGTAGAATCTTCACTATCAGGATCG 59.852 42.308 0.00 0.00 0.00 3.69
2333 2549 7.441890 TCGTAGAATCTTCACTATCAGGATC 57.558 40.000 0.00 0.00 0.00 3.36
2334 2550 8.415950 AATCGTAGAATCTTCACTATCAGGAT 57.584 34.615 0.00 0.00 43.58 3.24
2335 2551 7.825331 AATCGTAGAATCTTCACTATCAGGA 57.175 36.000 0.00 0.00 43.58 3.86
2336 2552 7.095857 GCAAATCGTAGAATCTTCACTATCAGG 60.096 40.741 0.00 0.00 43.58 3.86
2337 2553 7.357941 CGCAAATCGTAGAATCTTCACTATCAG 60.358 40.741 0.00 0.00 43.58 2.90
2338 2554 6.417930 CGCAAATCGTAGAATCTTCACTATCA 59.582 38.462 0.00 0.00 43.58 2.15
2339 2555 6.637254 TCGCAAATCGTAGAATCTTCACTATC 59.363 38.462 0.00 0.00 43.58 2.08
2340 2556 6.504398 TCGCAAATCGTAGAATCTTCACTAT 58.496 36.000 0.00 0.00 43.58 2.12
2341 2557 5.886992 TCGCAAATCGTAGAATCTTCACTA 58.113 37.500 0.00 0.00 43.58 2.74
2342 2558 4.744570 TCGCAAATCGTAGAATCTTCACT 58.255 39.130 0.00 0.00 43.58 3.41
2343 2559 5.232202 TGATCGCAAATCGTAGAATCTTCAC 59.768 40.000 0.00 0.00 43.58 3.18
2344 2560 5.348164 TGATCGCAAATCGTAGAATCTTCA 58.652 37.500 0.00 0.00 43.58 3.02
2345 2561 5.890110 TGATCGCAAATCGTAGAATCTTC 57.110 39.130 0.00 0.00 43.58 2.87
2346 2562 6.366332 GGTATGATCGCAAATCGTAGAATCTT 59.634 38.462 0.00 0.00 43.58 2.40
2347 2563 5.864474 GGTATGATCGCAAATCGTAGAATCT 59.136 40.000 0.00 0.00 43.58 2.40
2348 2564 5.633601 TGGTATGATCGCAAATCGTAGAATC 59.366 40.000 0.00 0.00 43.58 2.52
2349 2565 5.538118 TGGTATGATCGCAAATCGTAGAAT 58.462 37.500 0.00 0.00 43.58 2.40
2350 2566 4.939271 TGGTATGATCGCAAATCGTAGAA 58.061 39.130 0.00 0.00 43.58 2.10
2351 2567 4.577834 TGGTATGATCGCAAATCGTAGA 57.422 40.909 0.00 0.00 45.75 2.59
2352 2568 5.389830 CCAATGGTATGATCGCAAATCGTAG 60.390 44.000 0.00 0.00 39.67 3.51
2353 2569 4.450757 CCAATGGTATGATCGCAAATCGTA 59.549 41.667 0.00 0.00 39.67 3.43
2354 2570 3.250762 CCAATGGTATGATCGCAAATCGT 59.749 43.478 0.00 0.00 39.67 3.73
2355 2571 3.498018 TCCAATGGTATGATCGCAAATCG 59.502 43.478 0.00 0.00 40.15 3.34
2356 2572 4.614535 GCTCCAATGGTATGATCGCAAATC 60.615 45.833 0.00 0.00 0.00 2.17
2357 2573 3.254166 GCTCCAATGGTATGATCGCAAAT 59.746 43.478 0.00 0.00 0.00 2.32
2358 2574 2.618241 GCTCCAATGGTATGATCGCAAA 59.382 45.455 0.00 0.00 0.00 3.68
2359 2575 2.158769 AGCTCCAATGGTATGATCGCAA 60.159 45.455 0.00 0.00 0.00 4.85
2360 2576 1.417517 AGCTCCAATGGTATGATCGCA 59.582 47.619 0.00 0.00 0.00 5.10
2361 2577 2.072298 GAGCTCCAATGGTATGATCGC 58.928 52.381 0.87 0.00 0.00 4.58
2362 2578 2.693069 GGAGCTCCAATGGTATGATCG 58.307 52.381 28.43 0.00 35.64 3.69
2363 2579 2.300152 TCGGAGCTCCAATGGTATGATC 59.700 50.000 31.67 0.53 35.14 2.92
2364 2580 2.329267 TCGGAGCTCCAATGGTATGAT 58.671 47.619 31.67 0.00 35.14 2.45
2365 2581 1.788229 TCGGAGCTCCAATGGTATGA 58.212 50.000 31.67 15.40 35.14 2.15
2366 2582 2.613977 GGATCGGAGCTCCAATGGTATG 60.614 54.545 31.67 13.24 35.14 2.39
2367 2583 1.625818 GGATCGGAGCTCCAATGGTAT 59.374 52.381 31.67 14.27 35.14 2.73
2368 2584 1.048601 GGATCGGAGCTCCAATGGTA 58.951 55.000 31.67 10.13 35.14 3.25
2369 2585 1.832912 GGATCGGAGCTCCAATGGT 59.167 57.895 31.67 12.76 35.14 3.55
2370 2586 1.301244 CGGATCGGAGCTCCAATGG 60.301 63.158 31.67 15.86 35.14 3.16
2371 2587 0.319728 ATCGGATCGGAGCTCCAATG 59.680 55.000 31.67 16.23 35.14 2.82
2372 2588 1.001406 GAATCGGATCGGAGCTCCAAT 59.999 52.381 31.67 20.82 35.14 3.16
2373 2589 0.389391 GAATCGGATCGGAGCTCCAA 59.611 55.000 31.67 16.03 35.14 3.53
2374 2590 0.755327 TGAATCGGATCGGAGCTCCA 60.755 55.000 31.67 19.07 35.14 3.86
2375 2591 0.389391 TTGAATCGGATCGGAGCTCC 59.611 55.000 23.79 23.79 0.00 4.70
2376 2592 2.225068 TTTGAATCGGATCGGAGCTC 57.775 50.000 4.71 4.71 0.00 4.09
2377 2593 2.691409 TTTTGAATCGGATCGGAGCT 57.309 45.000 9.03 0.00 0.00 4.09
2378 2594 2.872245 TGATTTTGAATCGGATCGGAGC 59.128 45.455 9.03 4.40 0.00 4.70
2379 2595 3.060272 CGTGATTTTGAATCGGATCGGAG 60.060 47.826 9.03 0.00 0.00 4.63
2380 2596 2.863740 CGTGATTTTGAATCGGATCGGA 59.136 45.455 5.34 5.34 0.00 4.55
2381 2597 2.863740 TCGTGATTTTGAATCGGATCGG 59.136 45.455 0.00 0.00 0.00 4.18
2382 2598 4.715520 ATCGTGATTTTGAATCGGATCG 57.284 40.909 0.00 0.00 0.00 3.69
2383 2599 6.018751 TCAGAATCGTGATTTTGAATCGGATC 60.019 38.462 11.97 0.00 38.47 3.36
2384 2600 5.817296 TCAGAATCGTGATTTTGAATCGGAT 59.183 36.000 11.97 0.00 38.47 4.18
2385 2601 5.063438 GTCAGAATCGTGATTTTGAATCGGA 59.937 40.000 15.00 0.00 41.57 4.55
2386 2602 5.163864 TGTCAGAATCGTGATTTTGAATCGG 60.164 40.000 15.00 0.00 41.57 4.18
2387 2603 5.857394 TGTCAGAATCGTGATTTTGAATCG 58.143 37.500 15.00 0.00 41.57 3.34
2388 2604 6.524586 GGTTGTCAGAATCGTGATTTTGAATC 59.475 38.462 15.00 6.96 41.57 2.52
2389 2605 6.207417 AGGTTGTCAGAATCGTGATTTTGAAT 59.793 34.615 15.00 0.99 41.57 2.57
2390 2606 5.530915 AGGTTGTCAGAATCGTGATTTTGAA 59.469 36.000 15.00 5.93 41.57 2.69
2391 2607 5.063204 AGGTTGTCAGAATCGTGATTTTGA 58.937 37.500 10.71 10.71 38.91 2.69
2392 2608 5.362556 AGGTTGTCAGAATCGTGATTTTG 57.637 39.130 6.75 6.75 35.10 2.44
2393 2609 5.762045 CAAGGTTGTCAGAATCGTGATTTT 58.238 37.500 0.00 0.00 0.00 1.82
2394 2610 4.320494 GCAAGGTTGTCAGAATCGTGATTT 60.320 41.667 0.00 0.00 0.00 2.17
2395 2611 3.189287 GCAAGGTTGTCAGAATCGTGATT 59.811 43.478 0.00 0.00 0.00 2.57
2396 2612 2.744202 GCAAGGTTGTCAGAATCGTGAT 59.256 45.455 0.00 0.00 0.00 3.06
2397 2613 2.143122 GCAAGGTTGTCAGAATCGTGA 58.857 47.619 0.00 0.00 0.00 4.35
2398 2614 2.146342 AGCAAGGTTGTCAGAATCGTG 58.854 47.619 0.00 0.00 0.00 4.35
2399 2615 2.549754 CAAGCAAGGTTGTCAGAATCGT 59.450 45.455 3.95 0.00 0.00 3.73
2400 2616 2.807967 TCAAGCAAGGTTGTCAGAATCG 59.192 45.455 11.26 0.00 0.00 3.34
2401 2617 4.836125 TTCAAGCAAGGTTGTCAGAATC 57.164 40.909 11.26 0.00 0.00 2.52
2402 2618 4.586001 ACATTCAAGCAAGGTTGTCAGAAT 59.414 37.500 11.26 2.26 0.00 2.40
2403 2619 3.953612 ACATTCAAGCAAGGTTGTCAGAA 59.046 39.130 11.26 0.08 0.00 3.02
2404 2620 3.316029 CACATTCAAGCAAGGTTGTCAGA 59.684 43.478 11.26 0.00 0.00 3.27
2405 2621 3.635331 CACATTCAAGCAAGGTTGTCAG 58.365 45.455 11.26 5.63 0.00 3.51
2406 2622 2.223782 GCACATTCAAGCAAGGTTGTCA 60.224 45.455 11.26 1.44 0.00 3.58
2407 2623 2.223782 TGCACATTCAAGCAAGGTTGTC 60.224 45.455 11.26 0.00 37.90 3.18
2408 2624 1.755959 TGCACATTCAAGCAAGGTTGT 59.244 42.857 11.26 0.00 37.90 3.32
2409 2625 2.129607 GTGCACATTCAAGCAAGGTTG 58.870 47.619 13.17 5.68 43.20 3.77
2410 2626 2.034124 AGTGCACATTCAAGCAAGGTT 58.966 42.857 21.04 0.00 43.20 3.50
2411 2627 1.696063 AGTGCACATTCAAGCAAGGT 58.304 45.000 21.04 0.00 43.20 3.50
2412 2628 2.608752 GGAAGTGCACATTCAAGCAAGG 60.609 50.000 21.04 0.00 43.20 3.61
2413 2629 2.295349 AGGAAGTGCACATTCAAGCAAG 59.705 45.455 21.04 0.00 43.20 4.01
2414 2630 2.309613 AGGAAGTGCACATTCAAGCAA 58.690 42.857 21.04 0.00 43.20 3.91
2415 2631 1.985473 AGGAAGTGCACATTCAAGCA 58.015 45.000 21.04 0.00 38.65 3.91
2416 2632 2.035066 ACAAGGAAGTGCACATTCAAGC 59.965 45.455 21.04 7.46 0.00 4.01
2678 2896 5.560966 ATTCTTTTGCGGTCATCGTTTAT 57.439 34.783 0.00 0.00 41.72 1.40


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

AutoCloner maintained by Alex Coulton.