Multiple sequence alignment - TraesCS5D01G043000

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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 TraesCS5D01G043000 chr5D 100.000 2723 0 0 1 2723 42725281 42728003 0.000000e+00 5029
1 TraesCS5D01G043000 chr5D 95.632 2427 68 14 1 2405 249911988 249914398 0.000000e+00 3860
2 TraesCS5D01G043000 chr5D 89.177 462 31 6 1967 2411 42725535 42725076 2.370000e-155 558
3 TraesCS5D01G043000 chr5D 97.152 316 8 1 2409 2723 500008220 500007905 1.440000e-147 532
4 TraesCS5D01G043000 chr5D 96.835 316 9 1 2409 2723 190294733 190294418 6.680000e-146 527
5 TraesCS5D01G043000 chr5D 94.186 258 12 3 1 255 249914198 249913941 9.140000e-105 390
6 TraesCS5D01G043000 chr5D 88.673 309 17 2 1963 2253 249912248 249911940 7.170000e-96 361
7 TraesCS5D01G043000 chr5D 89.062 256 10 5 1 255 42727485 42727247 4.410000e-78 302
8 TraesCS5D01G043000 chr2A 92.687 2434 127 18 3 2415 768058724 768061127 0.000000e+00 3461
9 TraesCS5D01G043000 chr2A 84.889 450 47 11 1963 2408 768058953 768058521 4.160000e-118 435
10 TraesCS5D01G043000 chr2A 94.163 257 13 2 1 255 768060918 768060662 9.140000e-105 390
11 TraesCS5D01G043000 chr2D 94.279 2080 83 9 1 2071 185365698 185367750 0.000000e+00 3149
12 TraesCS5D01G043000 chr2D 97.468 316 7 1 2409 2723 377358377 377358062 3.090000e-149 538
13 TraesCS5D01G043000 chr2D 87.007 431 29 9 1963 2374 185365952 185365530 6.870000e-126 460
14 TraesCS5D01G043000 chr2D 95.031 161 6 2 1 159 185369174 185369014 4.500000e-63 252
15 TraesCS5D01G043000 chr1D 94.483 1885 94 5 96 1970 375990046 375991930 0.000000e+00 2896
16 TraesCS5D01G043000 chr1D 96.835 316 9 1 2409 2723 78300776 78301091 6.680000e-146 527
17 TraesCS5D01G043000 chr1D 94.872 156 8 0 1967 2122 375990205 375990050 7.530000e-61 244
18 TraesCS5D01G043000 chr1A 92.581 1887 114 12 96 1962 474791960 474793840 0.000000e+00 2686
19 TraesCS5D01G043000 chr1A 94.261 1481 80 5 1 1478 59211789 59210311 0.000000e+00 2259
20 TraesCS5D01G043000 chr1A 87.554 466 36 6 1960 2407 59211526 59211987 1.120000e-143 520
21 TraesCS5D01G043000 chr1A 93.750 160 10 0 1963 2122 474792123 474791964 9.740000e-60 241
22 TraesCS5D01G043000 chr1A 89.655 87 8 1 19 104 474794393 474794307 2.870000e-20 110
23 TraesCS5D01G043000 chr1B 91.973 1906 107 16 96 1970 502218345 502220235 0.000000e+00 2630
24 TraesCS5D01G043000 chr1B 97.152 316 8 1 2409 2723 42533058 42532743 1.440000e-147 532
25 TraesCS5D01G043000 chr1B 92.411 224 14 3 2189 2410 443489885 443490107 1.570000e-82 316
26 TraesCS5D01G043000 chr1B 94.231 156 9 0 1967 2122 502218504 502218349 3.500000e-59 239
27 TraesCS5D01G043000 chr3D 74.439 1694 312 70 110 1723 473482667 473484319 3.850000e-173 617
28 TraesCS5D01G043000 chr3D 97.468 316 7 1 2409 2723 36662989 36662674 3.090000e-149 538
29 TraesCS5D01G043000 chr3D 97.152 316 8 1 2409 2723 489074031 489074346 1.440000e-147 532
30 TraesCS5D01G043000 chr3B 74.377 1686 318 69 110 1723 629194803 629193160 1.390000e-172 616
31 TraesCS5D01G043000 chr3A 74.902 1526 277 65 110 1573 615938966 615940447 1.400000e-167 599
32 TraesCS5D01G043000 chr3A 91.928 223 17 1 2189 2411 681696527 681696306 7.320000e-81 311
33 TraesCS5D01G043000 chr6D 96.835 316 8 2 2409 2723 270430354 270430040 6.680000e-146 527
34 TraesCS5D01G043000 chr4A 96.835 316 9 1 2409 2723 260073375 260073690 6.680000e-146 527
35 TraesCS5D01G043000 chr7D 93.213 221 13 2 2189 2408 207790145 207790364 9.400000e-85 324
36 TraesCS5D01G043000 chr5B 93.182 220 15 0 2189 2408 524222743 524222962 9.400000e-85 324
37 TraesCS5D01G043000 chr7B 92.694 219 16 0 2190 2408 88338508 88338290 1.570000e-82 316


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 TraesCS5D01G043000 chr5D 42725281 42728003 2722 False 5029.0 5029 100.0000 1 2723 1 chr5D.!!$F1 2722
1 TraesCS5D01G043000 chr5D 249911988 249914398 2410 False 3860.0 3860 95.6320 1 2405 1 chr5D.!!$F2 2404
2 TraesCS5D01G043000 chr5D 42725076 42727485 2409 True 430.0 558 89.1195 1 2411 2 chr5D.!!$R3 2410
3 TraesCS5D01G043000 chr5D 249911940 249914198 2258 True 375.5 390 91.4295 1 2253 2 chr5D.!!$R4 2252
4 TraesCS5D01G043000 chr2A 768058724 768061127 2403 False 3461.0 3461 92.6870 3 2415 1 chr2A.!!$F1 2412
5 TraesCS5D01G043000 chr2A 768058521 768060918 2397 True 412.5 435 89.5260 1 2408 2 chr2A.!!$R1 2407
6 TraesCS5D01G043000 chr2D 185365698 185367750 2052 False 3149.0 3149 94.2790 1 2071 1 chr2D.!!$F1 2070
7 TraesCS5D01G043000 chr2D 185365530 185369174 3644 True 356.0 460 91.0190 1 2374 2 chr2D.!!$R2 2373
8 TraesCS5D01G043000 chr1D 375990046 375991930 1884 False 2896.0 2896 94.4830 96 1970 1 chr1D.!!$F2 1874
9 TraesCS5D01G043000 chr1A 474791960 474793840 1880 False 2686.0 2686 92.5810 96 1962 1 chr1A.!!$F2 1866
10 TraesCS5D01G043000 chr1A 59210311 59211789 1478 True 2259.0 2259 94.2610 1 1478 1 chr1A.!!$R1 1477
11 TraesCS5D01G043000 chr1B 502218345 502220235 1890 False 2630.0 2630 91.9730 96 1970 1 chr1B.!!$F2 1874
12 TraesCS5D01G043000 chr3D 473482667 473484319 1652 False 617.0 617 74.4390 110 1723 1 chr3D.!!$F1 1613
13 TraesCS5D01G043000 chr3B 629193160 629194803 1643 True 616.0 616 74.3770 110 1723 1 chr3B.!!$R1 1613
14 TraesCS5D01G043000 chr3A 615938966 615940447 1481 False 599.0 599 74.9020 110 1573 1 chr3A.!!$F1 1463

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
920 3227 0.527817 CGCTCCGACGGCTAAATTCT 60.528 55.0 9.66 0.0 0.0 2.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2506 4999 0.109086 AGGATCGACGTTGCTCACAG 60.109 55.0 8.8 0.0 0.0 3.66 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
257 1584 1.377725 CCGAATTCCACCAGCTGCT 60.378 57.895 8.66 0.00 0.00 4.24
920 3227 0.527817 CGCTCCGACGGCTAAATTCT 60.528 55.000 9.66 0.00 0.00 2.40
939 3252 2.037121 TCTTGTGGAAGATGACTCGCAA 59.963 45.455 0.00 0.00 32.98 4.85
1813 4267 9.122779 AGTAGTAGTGATTAAGGCTTAGTAGTG 57.877 37.037 7.09 0.00 0.00 2.74
1825 4282 5.720041 AGGCTTAGTAGTGTGATTAAGGTCA 59.280 40.000 0.00 0.00 0.00 4.02
1826 4283 6.384305 AGGCTTAGTAGTGTGATTAAGGTCAT 59.616 38.462 0.00 0.00 0.00 3.06
1947 4420 1.135859 CGTGCTGTTCTTCTGCCATTC 60.136 52.381 0.00 0.00 39.70 2.67
2022 4495 1.757340 GGAGGACGAGACGGGGAAT 60.757 63.158 0.00 0.00 0.00 3.01
2215 4707 3.058085 GCGGGTTGATTAAAGAAAACGGA 60.058 43.478 0.00 0.00 0.00 4.69
2216 4708 4.380128 GCGGGTTGATTAAAGAAAACGGAT 60.380 41.667 0.00 0.00 0.00 4.18
2220 4712 5.184287 GGTTGATTAAAGAAAACGGATGGGA 59.816 40.000 0.00 0.00 0.00 4.37
2327 4820 1.538512 CATGAGGTGCAAGTTGAGGTG 59.461 52.381 7.16 0.00 0.00 4.00
2337 4830 1.213296 AGTTGAGGTGTGGTGGAGTT 58.787 50.000 0.00 0.00 0.00 3.01
2367 4860 4.990526 ACAAGTTTGGGACTGAATCATCT 58.009 39.130 0.00 0.00 39.00 2.90
2389 4882 5.189736 TCTCATTCTGTGCAAGTTAGGGTAT 59.810 40.000 0.00 0.00 0.00 2.73
2411 4904 4.223953 TCTGGGGTGCTATTACCTCTTAG 58.776 47.826 0.00 0.00 41.99 2.18
2414 4907 4.786454 TGGGGTGCTATTACCTCTTAGTTT 59.214 41.667 0.00 0.00 41.99 2.66
2415 4908 5.965705 TGGGGTGCTATTACCTCTTAGTTTA 59.034 40.000 0.00 0.00 41.99 2.01
2416 4909 6.444493 TGGGGTGCTATTACCTCTTAGTTTAA 59.556 38.462 0.00 0.00 41.99 1.52
2417 4910 7.128263 TGGGGTGCTATTACCTCTTAGTTTAAT 59.872 37.037 0.00 0.00 41.99 1.40
2418 4911 8.654094 GGGGTGCTATTACCTCTTAGTTTAATA 58.346 37.037 0.00 0.00 38.23 0.98
2442 4935 5.885449 ATTGGAATTGGAAAACCTTGTCA 57.115 34.783 0.00 0.00 0.00 3.58
2443 4936 5.683876 TTGGAATTGGAAAACCTTGTCAA 57.316 34.783 0.00 0.00 0.00 3.18
2444 4937 5.683876 TGGAATTGGAAAACCTTGTCAAA 57.316 34.783 0.00 0.00 0.00 2.69
2445 4938 6.245890 TGGAATTGGAAAACCTTGTCAAAT 57.754 33.333 0.00 0.00 0.00 2.32
2446 4939 6.657875 TGGAATTGGAAAACCTTGTCAAATT 58.342 32.000 0.00 0.00 31.39 1.82
2447 4940 7.115414 TGGAATTGGAAAACCTTGTCAAATTT 58.885 30.769 0.00 0.00 29.33 1.82
2448 4941 7.613411 TGGAATTGGAAAACCTTGTCAAATTTT 59.387 29.630 6.84 6.84 29.33 1.82
2449 4942 7.914871 GGAATTGGAAAACCTTGTCAAATTTTG 59.085 33.333 10.48 2.59 29.33 2.44
2450 4943 5.809719 TGGAAAACCTTGTCAAATTTTGC 57.190 34.783 14.43 14.43 34.20 3.68
2451 4944 5.495640 TGGAAAACCTTGTCAAATTTTGCT 58.504 33.333 18.74 0.00 34.56 3.91
2452 4945 5.584251 TGGAAAACCTTGTCAAATTTTGCTC 59.416 36.000 18.74 1.59 34.56 4.26
2453 4946 5.584251 GGAAAACCTTGTCAAATTTTGCTCA 59.416 36.000 14.20 3.98 31.82 4.26
2454 4947 6.260714 GGAAAACCTTGTCAAATTTTGCTCAT 59.739 34.615 14.20 0.00 31.82 2.90
2455 4948 7.201723 GGAAAACCTTGTCAAATTTTGCTCATT 60.202 33.333 14.20 0.00 31.82 2.57
2456 4949 6.607735 AACCTTGTCAAATTTTGCTCATTG 57.392 33.333 4.19 4.08 0.00 2.82
2457 4950 5.916318 ACCTTGTCAAATTTTGCTCATTGA 58.084 33.333 4.19 0.00 0.00 2.57
2458 4951 6.527423 ACCTTGTCAAATTTTGCTCATTGAT 58.473 32.000 4.19 0.00 34.62 2.57
2459 4952 6.425721 ACCTTGTCAAATTTTGCTCATTGATG 59.574 34.615 4.19 0.00 34.62 3.07
2460 4953 6.425721 CCTTGTCAAATTTTGCTCATTGATGT 59.574 34.615 4.19 0.00 34.62 3.06
2461 4954 7.041644 CCTTGTCAAATTTTGCTCATTGATGTT 60.042 33.333 4.19 0.00 34.62 2.71
2462 4955 8.883954 TTGTCAAATTTTGCTCATTGATGTTA 57.116 26.923 4.19 0.00 34.62 2.41
2463 4956 8.523523 TGTCAAATTTTGCTCATTGATGTTAG 57.476 30.769 4.19 0.00 34.62 2.34
2464 4957 7.116662 TGTCAAATTTTGCTCATTGATGTTAGC 59.883 33.333 4.19 0.00 34.62 3.09
2465 4958 6.591062 TCAAATTTTGCTCATTGATGTTAGCC 59.409 34.615 4.19 0.00 33.99 3.93
2466 4959 5.664294 ATTTTGCTCATTGATGTTAGCCA 57.336 34.783 0.00 0.00 33.99 4.75
2467 4960 4.707030 TTTGCTCATTGATGTTAGCCAG 57.293 40.909 0.00 0.00 33.99 4.85
2468 4961 3.632643 TGCTCATTGATGTTAGCCAGA 57.367 42.857 0.00 0.00 33.99 3.86
2469 4962 3.954200 TGCTCATTGATGTTAGCCAGAA 58.046 40.909 0.00 0.00 33.99 3.02
2470 4963 3.943381 TGCTCATTGATGTTAGCCAGAAG 59.057 43.478 0.00 0.00 33.99 2.85
2471 4964 4.194640 GCTCATTGATGTTAGCCAGAAGA 58.805 43.478 0.00 0.00 0.00 2.87
2472 4965 4.034975 GCTCATTGATGTTAGCCAGAAGAC 59.965 45.833 0.00 0.00 0.00 3.01
2473 4966 5.164620 TCATTGATGTTAGCCAGAAGACA 57.835 39.130 0.00 0.00 0.00 3.41
2474 4967 5.748402 TCATTGATGTTAGCCAGAAGACAT 58.252 37.500 0.00 0.00 35.57 3.06
2475 4968 5.587443 TCATTGATGTTAGCCAGAAGACATG 59.413 40.000 0.00 0.00 33.21 3.21
2476 4969 3.273434 TGATGTTAGCCAGAAGACATGC 58.727 45.455 0.00 0.00 33.21 4.06
2477 4970 2.857186 TGTTAGCCAGAAGACATGCA 57.143 45.000 0.00 0.00 0.00 3.96
2478 4971 3.354948 TGTTAGCCAGAAGACATGCAT 57.645 42.857 0.00 0.00 0.00 3.96
2479 4972 3.689347 TGTTAGCCAGAAGACATGCATT 58.311 40.909 0.00 0.00 0.00 3.56
2480 4973 4.081406 TGTTAGCCAGAAGACATGCATTT 58.919 39.130 0.00 0.00 0.00 2.32
2481 4974 4.082625 TGTTAGCCAGAAGACATGCATTTG 60.083 41.667 0.00 0.00 0.00 2.32
2482 4975 2.799017 AGCCAGAAGACATGCATTTGA 58.201 42.857 0.00 0.00 0.00 2.69
2483 4976 3.362706 AGCCAGAAGACATGCATTTGAT 58.637 40.909 0.00 0.00 0.00 2.57
2484 4977 4.529897 AGCCAGAAGACATGCATTTGATA 58.470 39.130 0.00 0.00 0.00 2.15
2485 4978 5.138276 AGCCAGAAGACATGCATTTGATAT 58.862 37.500 0.00 0.00 0.00 1.63
2486 4979 5.597182 AGCCAGAAGACATGCATTTGATATT 59.403 36.000 0.00 0.00 0.00 1.28
2487 4980 6.097839 AGCCAGAAGACATGCATTTGATATTT 59.902 34.615 0.00 0.00 0.00 1.40
2488 4981 6.759827 GCCAGAAGACATGCATTTGATATTTT 59.240 34.615 0.00 0.00 0.00 1.82
2489 4982 7.279313 GCCAGAAGACATGCATTTGATATTTTT 59.721 33.333 0.00 0.00 0.00 1.94
2490 4983 8.600625 CCAGAAGACATGCATTTGATATTTTTG 58.399 33.333 0.00 0.00 0.00 2.44
2491 4984 9.361315 CAGAAGACATGCATTTGATATTTTTGA 57.639 29.630 0.00 0.00 0.00 2.69
2492 4985 9.582431 AGAAGACATGCATTTGATATTTTTGAG 57.418 29.630 0.00 0.00 0.00 3.02
2493 4986 9.362539 GAAGACATGCATTTGATATTTTTGAGT 57.637 29.630 0.00 0.00 0.00 3.41
2494 4987 8.697846 AGACATGCATTTGATATTTTTGAGTG 57.302 30.769 0.00 0.00 0.00 3.51
2495 4988 7.762615 AGACATGCATTTGATATTTTTGAGTGG 59.237 33.333 0.00 0.00 0.00 4.00
2496 4989 6.819649 ACATGCATTTGATATTTTTGAGTGGG 59.180 34.615 0.00 0.00 0.00 4.61
2497 4990 6.602410 TGCATTTGATATTTTTGAGTGGGA 57.398 33.333 0.00 0.00 0.00 4.37
2498 4991 6.397272 TGCATTTGATATTTTTGAGTGGGAC 58.603 36.000 0.00 0.00 0.00 4.46
2499 4992 5.812127 GCATTTGATATTTTTGAGTGGGACC 59.188 40.000 0.00 0.00 0.00 4.46
2500 4993 5.993748 TTTGATATTTTTGAGTGGGACCC 57.006 39.130 2.45 2.45 0.00 4.46
2501 4994 3.976015 TGATATTTTTGAGTGGGACCCC 58.024 45.455 8.45 2.69 0.00 4.95
2502 4995 3.596046 TGATATTTTTGAGTGGGACCCCT 59.404 43.478 8.45 4.46 36.94 4.79
2503 4996 4.045334 TGATATTTTTGAGTGGGACCCCTT 59.955 41.667 8.45 0.00 36.94 3.95
2504 4997 2.858787 TTTTTGAGTGGGACCCCTTT 57.141 45.000 8.45 0.00 36.94 3.11
2505 4998 2.080654 TTTTGAGTGGGACCCCTTTG 57.919 50.000 8.45 0.00 36.94 2.77
2506 4999 0.469144 TTTGAGTGGGACCCCTTTGC 60.469 55.000 8.45 0.00 36.94 3.68
2507 5000 1.360393 TTGAGTGGGACCCCTTTGCT 61.360 55.000 8.45 0.00 36.94 3.91
2508 5001 1.303643 GAGTGGGACCCCTTTGCTG 60.304 63.158 8.45 0.00 36.94 4.41
2509 5002 2.069165 GAGTGGGACCCCTTTGCTGT 62.069 60.000 8.45 0.00 36.94 4.40
2510 5003 1.903404 GTGGGACCCCTTTGCTGTG 60.903 63.158 8.45 0.00 36.94 3.66
2511 5004 2.081787 TGGGACCCCTTTGCTGTGA 61.082 57.895 8.45 0.00 36.94 3.58
2512 5005 1.303643 GGGACCCCTTTGCTGTGAG 60.304 63.158 0.00 0.00 0.00 3.51
2513 5006 1.973812 GGACCCCTTTGCTGTGAGC 60.974 63.158 0.00 0.00 42.82 4.26
2522 5015 3.862124 GCTGTGAGCAACGTCGAT 58.138 55.556 0.00 0.00 41.89 3.59
2523 5016 1.704582 GCTGTGAGCAACGTCGATC 59.295 57.895 0.00 0.00 41.89 3.69
2524 5017 1.687494 GCTGTGAGCAACGTCGATCC 61.687 60.000 0.00 0.00 41.89 3.36
2525 5018 0.109086 CTGTGAGCAACGTCGATCCT 60.109 55.000 0.00 0.00 0.00 3.24
2526 5019 0.317160 TGTGAGCAACGTCGATCCTT 59.683 50.000 0.00 0.00 0.00 3.36
2527 5020 1.270094 TGTGAGCAACGTCGATCCTTT 60.270 47.619 0.00 0.00 0.00 3.11
2528 5021 1.798813 GTGAGCAACGTCGATCCTTTT 59.201 47.619 0.00 0.00 0.00 2.27
2529 5022 2.223377 GTGAGCAACGTCGATCCTTTTT 59.777 45.455 0.00 0.00 0.00 1.94
2548 5041 4.884668 TTTTCCTATTCCAGTCGTCAGT 57.115 40.909 0.00 0.00 0.00 3.41
2549 5042 4.884668 TTTCCTATTCCAGTCGTCAGTT 57.115 40.909 0.00 0.00 0.00 3.16
2550 5043 4.451629 TTCCTATTCCAGTCGTCAGTTC 57.548 45.455 0.00 0.00 0.00 3.01
2551 5044 3.427573 TCCTATTCCAGTCGTCAGTTCA 58.572 45.455 0.00 0.00 0.00 3.18
2552 5045 3.444034 TCCTATTCCAGTCGTCAGTTCAG 59.556 47.826 0.00 0.00 0.00 3.02
2553 5046 3.444034 CCTATTCCAGTCGTCAGTTCAGA 59.556 47.826 0.00 0.00 0.00 3.27
2554 5047 4.082190 CCTATTCCAGTCGTCAGTTCAGAA 60.082 45.833 0.00 0.00 0.00 3.02
2555 5048 3.812156 TTCCAGTCGTCAGTTCAGAAA 57.188 42.857 0.00 0.00 0.00 2.52
2556 5049 4.336889 TTCCAGTCGTCAGTTCAGAAAT 57.663 40.909 0.00 0.00 0.00 2.17
2557 5050 5.462530 TTCCAGTCGTCAGTTCAGAAATA 57.537 39.130 0.00 0.00 0.00 1.40
2558 5051 5.661056 TCCAGTCGTCAGTTCAGAAATAT 57.339 39.130 0.00 0.00 0.00 1.28
2559 5052 6.037786 TCCAGTCGTCAGTTCAGAAATATT 57.962 37.500 0.00 0.00 0.00 1.28
2560 5053 6.464222 TCCAGTCGTCAGTTCAGAAATATTT 58.536 36.000 0.00 0.00 0.00 1.40
2561 5054 7.608153 TCCAGTCGTCAGTTCAGAAATATTTA 58.392 34.615 0.00 0.00 0.00 1.40
2562 5055 7.544566 TCCAGTCGTCAGTTCAGAAATATTTAC 59.455 37.037 0.00 0.00 0.00 2.01
2563 5056 7.545965 CCAGTCGTCAGTTCAGAAATATTTACT 59.454 37.037 0.00 0.00 0.00 2.24
2564 5057 8.587950 CAGTCGTCAGTTCAGAAATATTTACTC 58.412 37.037 0.00 0.00 0.00 2.59
2565 5058 8.524487 AGTCGTCAGTTCAGAAATATTTACTCT 58.476 33.333 0.00 0.00 0.00 3.24
2566 5059 8.587950 GTCGTCAGTTCAGAAATATTTACTCTG 58.412 37.037 0.00 5.07 38.34 3.35
2567 5060 7.275779 TCGTCAGTTCAGAAATATTTACTCTGC 59.724 37.037 9.79 0.12 37.17 4.26
2568 5061 7.276658 CGTCAGTTCAGAAATATTTACTCTGCT 59.723 37.037 9.79 1.99 37.17 4.24
2569 5062 8.386606 GTCAGTTCAGAAATATTTACTCTGCTG 58.613 37.037 9.79 11.34 37.17 4.41
2570 5063 8.314021 TCAGTTCAGAAATATTTACTCTGCTGA 58.686 33.333 15.12 15.12 35.63 4.26
2571 5064 8.602328 CAGTTCAGAAATATTTACTCTGCTGAG 58.398 37.037 18.15 18.15 45.43 3.35
2572 5065 8.535335 AGTTCAGAAATATTTACTCTGCTGAGA 58.465 33.333 25.49 5.33 42.73 3.27
2573 5066 9.323985 GTTCAGAAATATTTACTCTGCTGAGAT 57.676 33.333 25.49 12.06 42.73 2.75
2574 5067 8.883954 TCAGAAATATTTACTCTGCTGAGATG 57.116 34.615 25.49 2.28 42.73 2.90
2575 5068 7.440556 TCAGAAATATTTACTCTGCTGAGATGC 59.559 37.037 25.49 6.08 42.73 3.91
2576 5069 7.226128 CAGAAATATTTACTCTGCTGAGATGCA 59.774 37.037 25.49 8.03 42.73 3.96
2577 5070 7.937942 AGAAATATTTACTCTGCTGAGATGCAT 59.062 33.333 25.49 0.00 42.73 3.96
2578 5071 9.212641 GAAATATTTACTCTGCTGAGATGCATA 57.787 33.333 25.49 15.10 42.73 3.14
2579 5072 8.774890 AATATTTACTCTGCTGAGATGCATAG 57.225 34.615 25.49 0.00 42.73 2.23
2580 5073 5.604758 TTTACTCTGCTGAGATGCATAGT 57.395 39.130 25.49 11.18 46.87 2.12
2581 5074 3.731652 ACTCTGCTGAGATGCATAGTC 57.268 47.619 25.49 0.00 43.66 2.59
2582 5075 3.029570 ACTCTGCTGAGATGCATAGTCA 58.970 45.455 25.49 5.04 43.66 3.41
2583 5076 3.181477 ACTCTGCTGAGATGCATAGTCAC 60.181 47.826 25.49 2.27 43.66 3.67
2584 5077 2.762327 TCTGCTGAGATGCATAGTCACA 59.238 45.455 0.00 6.44 42.48 3.58
2585 5078 3.387050 TCTGCTGAGATGCATAGTCACAT 59.613 43.478 0.00 0.00 42.48 3.21
2586 5079 3.463944 TGCTGAGATGCATAGTCACATG 58.536 45.455 0.00 0.00 38.12 3.21
2587 5080 3.133362 TGCTGAGATGCATAGTCACATGA 59.867 43.478 0.00 0.00 38.12 3.07
2588 5081 4.124970 GCTGAGATGCATAGTCACATGAA 58.875 43.478 0.00 0.00 0.00 2.57
2589 5082 4.755629 GCTGAGATGCATAGTCACATGAAT 59.244 41.667 0.00 0.00 0.00 2.57
2590 5083 5.334182 GCTGAGATGCATAGTCACATGAATG 60.334 44.000 0.00 0.00 0.00 2.67
2591 5084 5.677567 TGAGATGCATAGTCACATGAATGT 58.322 37.500 0.00 0.00 42.84 2.71
2592 5085 6.117488 TGAGATGCATAGTCACATGAATGTT 58.883 36.000 0.00 0.00 39.39 2.71
2593 5086 6.037830 TGAGATGCATAGTCACATGAATGTTG 59.962 38.462 0.00 0.00 39.39 3.33
2594 5087 6.117488 AGATGCATAGTCACATGAATGTTGA 58.883 36.000 0.00 0.00 39.39 3.18
2595 5088 5.550232 TGCATAGTCACATGAATGTTGAC 57.450 39.130 0.00 2.09 39.39 3.18
2596 5089 5.247862 TGCATAGTCACATGAATGTTGACT 58.752 37.500 21.36 21.36 44.02 3.41
2597 5090 5.706833 TGCATAGTCACATGAATGTTGACTT 59.293 36.000 22.14 13.45 41.68 3.01
2598 5091 6.878389 TGCATAGTCACATGAATGTTGACTTA 59.122 34.615 22.14 14.08 41.68 2.24
2599 5092 7.553760 TGCATAGTCACATGAATGTTGACTTAT 59.446 33.333 22.14 15.02 41.68 1.73
2600 5093 7.854422 GCATAGTCACATGAATGTTGACTTATG 59.146 37.037 22.14 21.05 41.68 1.90
2601 5094 8.886719 CATAGTCACATGAATGTTGACTTATGT 58.113 33.333 22.14 11.37 41.68 2.29
2603 5096 8.846943 AGTCACATGAATGTTGACTTATGTAA 57.153 30.769 16.24 0.00 41.68 2.41
2604 5097 8.939929 AGTCACATGAATGTTGACTTATGTAAG 58.060 33.333 16.24 0.00 41.68 2.34
2605 5098 8.177663 GTCACATGAATGTTGACTTATGTAAGG 58.822 37.037 0.00 0.00 39.39 2.69
2606 5099 7.882791 TCACATGAATGTTGACTTATGTAAGGT 59.117 33.333 0.00 0.00 39.39 3.50
2607 5100 9.161629 CACATGAATGTTGACTTATGTAAGGTA 57.838 33.333 0.00 0.00 39.39 3.08
2608 5101 9.905713 ACATGAATGTTGACTTATGTAAGGTAT 57.094 29.630 0.00 0.00 37.90 2.73
2634 5127 9.567848 TTTTAAGAGTTTGTTCTGAATGTTGTC 57.432 29.630 0.00 0.00 0.00 3.18
2635 5128 8.506168 TTAAGAGTTTGTTCTGAATGTTGTCT 57.494 30.769 0.00 0.00 0.00 3.41
2636 5129 9.607988 TTAAGAGTTTGTTCTGAATGTTGTCTA 57.392 29.630 0.00 0.00 0.00 2.59
2637 5130 8.682936 AAGAGTTTGTTCTGAATGTTGTCTAT 57.317 30.769 0.00 0.00 0.00 1.98
2638 5131 8.092521 AGAGTTTGTTCTGAATGTTGTCTATG 57.907 34.615 0.00 0.00 0.00 2.23
2639 5132 7.716998 AGAGTTTGTTCTGAATGTTGTCTATGT 59.283 33.333 0.00 0.00 0.00 2.29
2640 5133 8.902540 AGTTTGTTCTGAATGTTGTCTATGTA 57.097 30.769 0.00 0.00 0.00 2.29
2641 5134 9.337396 AGTTTGTTCTGAATGTTGTCTATGTAA 57.663 29.630 0.00 0.00 0.00 2.41
2644 5137 7.751732 TGTTCTGAATGTTGTCTATGTAATGC 58.248 34.615 0.00 0.00 0.00 3.56
2645 5138 6.925610 TCTGAATGTTGTCTATGTAATGCC 57.074 37.500 0.00 0.00 0.00 4.40
2646 5139 6.413892 TCTGAATGTTGTCTATGTAATGCCA 58.586 36.000 0.00 0.00 0.00 4.92
2647 5140 6.539826 TCTGAATGTTGTCTATGTAATGCCAG 59.460 38.462 0.00 0.00 0.00 4.85
2648 5141 5.589855 TGAATGTTGTCTATGTAATGCCAGG 59.410 40.000 0.00 0.00 0.00 4.45
2649 5142 3.278574 TGTTGTCTATGTAATGCCAGGC 58.721 45.455 3.66 3.66 0.00 4.85
2650 5143 2.618709 GTTGTCTATGTAATGCCAGGCC 59.381 50.000 9.64 0.00 0.00 5.19
2651 5144 2.126882 TGTCTATGTAATGCCAGGCCT 58.873 47.619 9.64 0.00 0.00 5.19
2652 5145 2.509548 TGTCTATGTAATGCCAGGCCTT 59.490 45.455 9.64 8.26 0.00 4.35
2653 5146 2.880890 GTCTATGTAATGCCAGGCCTTG 59.119 50.000 9.64 0.00 0.00 3.61
2654 5147 2.509548 TCTATGTAATGCCAGGCCTTGT 59.490 45.455 9.64 0.00 0.00 3.16
2655 5148 1.477553 ATGTAATGCCAGGCCTTGTG 58.522 50.000 9.64 0.00 0.00 3.33
2656 5149 0.403655 TGTAATGCCAGGCCTTGTGA 59.596 50.000 9.64 0.00 0.00 3.58
2657 5150 1.098050 GTAATGCCAGGCCTTGTGAG 58.902 55.000 9.64 0.00 0.00 3.51
2658 5151 0.698238 TAATGCCAGGCCTTGTGAGT 59.302 50.000 9.64 0.00 0.00 3.41
2659 5152 0.178953 AATGCCAGGCCTTGTGAGTT 60.179 50.000 9.64 0.00 0.00 3.01
2660 5153 0.178953 ATGCCAGGCCTTGTGAGTTT 60.179 50.000 9.64 0.00 0.00 2.66
2661 5154 1.108727 TGCCAGGCCTTGTGAGTTTG 61.109 55.000 9.64 0.00 0.00 2.93
2662 5155 0.823356 GCCAGGCCTTGTGAGTTTGA 60.823 55.000 0.00 0.00 0.00 2.69
2663 5156 1.915141 CCAGGCCTTGTGAGTTTGAT 58.085 50.000 0.00 0.00 0.00 2.57
2664 5157 2.242043 CCAGGCCTTGTGAGTTTGATT 58.758 47.619 0.00 0.00 0.00 2.57
2665 5158 2.029649 CCAGGCCTTGTGAGTTTGATTG 60.030 50.000 0.00 0.00 0.00 2.67
2666 5159 1.615392 AGGCCTTGTGAGTTTGATTGC 59.385 47.619 0.00 0.00 0.00 3.56
2667 5160 1.340889 GGCCTTGTGAGTTTGATTGCA 59.659 47.619 0.00 0.00 0.00 4.08
2668 5161 2.224018 GGCCTTGTGAGTTTGATTGCAA 60.224 45.455 0.00 0.00 0.00 4.08
2669 5162 3.456280 GCCTTGTGAGTTTGATTGCAAA 58.544 40.909 1.71 0.00 41.47 3.68
2670 5163 3.492011 GCCTTGTGAGTTTGATTGCAAAG 59.508 43.478 1.71 0.00 44.12 2.77
2672 5165 5.111293 CCTTGTGAGTTTGATTGCAAAGTT 58.889 37.500 1.71 0.00 45.25 2.66
2673 5166 5.005971 CCTTGTGAGTTTGATTGCAAAGTTG 59.994 40.000 1.71 0.00 45.25 3.16
2674 5167 5.321959 TGTGAGTTTGATTGCAAAGTTGA 57.678 34.783 1.71 0.00 45.25 3.18
2675 5168 5.342433 TGTGAGTTTGATTGCAAAGTTGAG 58.658 37.500 1.71 0.00 45.25 3.02
2676 5169 4.207841 GTGAGTTTGATTGCAAAGTTGAGC 59.792 41.667 1.71 0.00 45.25 4.26
2677 5170 4.098349 TGAGTTTGATTGCAAAGTTGAGCT 59.902 37.500 1.71 0.00 45.25 4.09
2678 5171 5.014808 AGTTTGATTGCAAAGTTGAGCTT 57.985 34.783 1.71 0.00 43.34 3.74
2679 5172 4.807304 AGTTTGATTGCAAAGTTGAGCTTG 59.193 37.500 1.71 0.00 43.34 4.01
2680 5173 3.374220 TGATTGCAAAGTTGAGCTTGG 57.626 42.857 1.71 0.00 37.52 3.61
2681 5174 2.957680 TGATTGCAAAGTTGAGCTTGGA 59.042 40.909 1.71 0.00 37.52 3.53
2682 5175 3.384146 TGATTGCAAAGTTGAGCTTGGAA 59.616 39.130 1.71 0.00 37.52 3.53
2683 5176 4.039488 TGATTGCAAAGTTGAGCTTGGAAT 59.961 37.500 1.71 0.77 37.52 3.01
2684 5177 3.374220 TGCAAAGTTGAGCTTGGAATG 57.626 42.857 0.00 0.00 37.52 2.67
2685 5178 2.064014 GCAAAGTTGAGCTTGGAATGC 58.936 47.619 0.00 0.00 37.52 3.56
2691 5184 3.690745 AGCTTGGAATGCTGTGGC 58.309 55.556 0.00 0.00 46.52 5.01
2707 5200 2.024305 GCATGCAGCATCACGAGC 59.976 61.111 14.21 1.41 44.79 5.03
2708 5201 2.470362 GCATGCAGCATCACGAGCT 61.470 57.895 14.21 0.00 44.79 4.09
2714 5207 2.832931 AGCATCACGAGCTGTTCAC 58.167 52.632 0.00 0.00 41.61 3.18
2715 5208 0.671781 AGCATCACGAGCTGTTCACC 60.672 55.000 0.00 0.00 41.61 4.02
2716 5209 1.959899 GCATCACGAGCTGTTCACCG 61.960 60.000 0.00 0.00 0.00 4.94
2717 5210 0.667487 CATCACGAGCTGTTCACCGT 60.667 55.000 0.00 0.00 35.46 4.83
2718 5211 3.234390 CACGAGCTGTTCACCGTG 58.766 61.111 8.69 8.69 44.66 4.94
2719 5212 2.661866 ACGAGCTGTTCACCGTGC 60.662 61.111 0.00 0.00 33.69 5.34
2720 5213 3.414700 CGAGCTGTTCACCGTGCC 61.415 66.667 0.00 0.00 0.00 5.01
2721 5214 2.031163 GAGCTGTTCACCGTGCCT 59.969 61.111 0.00 0.00 0.00 4.75
2722 5215 2.029844 GAGCTGTTCACCGTGCCTC 61.030 63.158 0.00 0.00 0.00 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
617 2728 0.922626 AAGGAAGGAGGGCTTGGATC 59.077 55.000 0.00 0.00 0.00 3.36
786 2960 4.143333 GCGCCGAAGAGGTAGCCA 62.143 66.667 0.00 0.00 43.70 4.75
913 3220 5.351465 GCGAGTCATCTTCCACAAGAATTTA 59.649 40.000 0.00 0.00 42.14 1.40
920 3227 2.143122 GTTGCGAGTCATCTTCCACAA 58.857 47.619 0.00 0.00 0.00 3.33
1252 3628 4.250305 ACGCCGTGGCTTCTTGGT 62.250 61.111 9.55 0.00 39.32 3.67
1397 3791 3.664025 CTCTGCATCCCGGCGTTGA 62.664 63.158 6.01 1.91 36.28 3.18
1446 3840 2.564975 GCGCTGTTGCTGCTGAAT 59.435 55.556 0.00 0.00 36.40 2.57
1813 4267 7.817418 TTGCCCTTAATATGACCTTAATCAC 57.183 36.000 0.00 0.00 0.00 3.06
2055 4528 1.111116 TCTTCCACCAAGACGACCGT 61.111 55.000 0.00 0.00 36.08 4.83
2064 4537 1.118965 TCTGGACGCTCTTCCACCAA 61.119 55.000 0.00 0.00 41.00 3.67
2123 4597 1.815421 GTGGCGCGATGGATGAAGT 60.815 57.895 12.10 0.00 0.00 3.01
2215 4707 2.629617 CACTTTTGCAGAAACCTCCCAT 59.370 45.455 0.00 0.00 0.00 4.00
2216 4708 2.031120 CACTTTTGCAGAAACCTCCCA 58.969 47.619 0.00 0.00 0.00 4.37
2327 4820 6.688637 ACTTGTAAAACTTAACTCCACCAC 57.311 37.500 0.00 0.00 0.00 4.16
2337 4830 7.941431 TTCAGTCCCAAACTTGTAAAACTTA 57.059 32.000 0.00 0.00 35.45 2.24
2367 4860 3.788227 ACCCTAACTTGCACAGAATGA 57.212 42.857 0.00 0.00 39.69 2.57
2389 4882 2.868964 AGAGGTAATAGCACCCCAGA 57.131 50.000 0.00 0.00 39.62 3.86
2416 4909 9.265862 TGACAAGGTTTTCCAATTCCAATATAT 57.734 29.630 0.00 0.00 43.73 0.86
2417 4910 8.657387 TGACAAGGTTTTCCAATTCCAATATA 57.343 30.769 0.00 0.00 43.73 0.86
2418 4911 7.552050 TGACAAGGTTTTCCAATTCCAATAT 57.448 32.000 0.00 0.00 43.73 1.28
2419 4912 6.985653 TGACAAGGTTTTCCAATTCCAATA 57.014 33.333 0.00 0.00 43.73 1.90
2420 4913 5.885449 TGACAAGGTTTTCCAATTCCAAT 57.115 34.783 0.00 0.00 43.73 3.16
2421 4914 5.683876 TTGACAAGGTTTTCCAATTCCAA 57.316 34.783 0.00 0.00 43.73 3.53
2422 4915 5.683876 TTTGACAAGGTTTTCCAATTCCA 57.316 34.783 0.00 0.00 43.73 3.53
2423 4916 7.566760 AAATTTGACAAGGTTTTCCAATTCC 57.433 32.000 0.00 0.00 43.73 3.01
2424 4917 7.431960 GCAAAATTTGACAAGGTTTTCCAATTC 59.568 33.333 10.26 0.00 43.73 2.17
2425 4918 7.122501 AGCAAAATTTGACAAGGTTTTCCAATT 59.877 29.630 10.26 0.00 43.73 2.32
2426 4919 6.602803 AGCAAAATTTGACAAGGTTTTCCAAT 59.397 30.769 10.26 0.00 43.73 3.16
2427 4920 5.942826 AGCAAAATTTGACAAGGTTTTCCAA 59.057 32.000 10.26 0.00 43.73 3.53
2428 4921 5.495640 AGCAAAATTTGACAAGGTTTTCCA 58.504 33.333 10.26 0.00 43.73 3.53
2429 4922 5.584251 TGAGCAAAATTTGACAAGGTTTTCC 59.416 36.000 10.26 3.36 41.05 3.13
2430 4923 6.660887 TGAGCAAAATTTGACAAGGTTTTC 57.339 33.333 10.26 0.90 0.00 2.29
2431 4924 7.336427 TCAATGAGCAAAATTTGACAAGGTTTT 59.664 29.630 10.26 7.27 0.00 2.43
2432 4925 6.822676 TCAATGAGCAAAATTTGACAAGGTTT 59.177 30.769 10.26 0.00 0.00 3.27
2433 4926 6.347696 TCAATGAGCAAAATTTGACAAGGTT 58.652 32.000 10.26 0.00 0.00 3.50
2434 4927 5.916318 TCAATGAGCAAAATTTGACAAGGT 58.084 33.333 10.26 0.00 0.00 3.50
2435 4928 6.425721 ACATCAATGAGCAAAATTTGACAAGG 59.574 34.615 10.26 5.82 31.45 3.61
2436 4929 7.416154 ACATCAATGAGCAAAATTTGACAAG 57.584 32.000 10.26 6.42 31.45 3.16
2437 4930 7.789273 AACATCAATGAGCAAAATTTGACAA 57.211 28.000 10.26 0.00 31.45 3.18
2438 4931 7.116662 GCTAACATCAATGAGCAAAATTTGACA 59.883 33.333 10.26 8.92 34.96 3.58
2439 4932 7.412237 GGCTAACATCAATGAGCAAAATTTGAC 60.412 37.037 10.26 3.40 36.63 3.18
2440 4933 6.591062 GGCTAACATCAATGAGCAAAATTTGA 59.409 34.615 10.26 0.00 36.63 2.69
2441 4934 6.369340 TGGCTAACATCAATGAGCAAAATTTG 59.631 34.615 0.57 0.57 36.63 2.32
2442 4935 6.465948 TGGCTAACATCAATGAGCAAAATTT 58.534 32.000 0.00 0.00 36.63 1.82
2443 4936 6.040209 TGGCTAACATCAATGAGCAAAATT 57.960 33.333 0.00 0.00 36.63 1.82
2444 4937 5.419788 TCTGGCTAACATCAATGAGCAAAAT 59.580 36.000 0.00 0.00 36.63 1.82
2445 4938 4.766373 TCTGGCTAACATCAATGAGCAAAA 59.234 37.500 0.00 0.00 36.63 2.44
2446 4939 4.334552 TCTGGCTAACATCAATGAGCAAA 58.665 39.130 0.00 0.00 36.63 3.68
2447 4940 3.954200 TCTGGCTAACATCAATGAGCAA 58.046 40.909 0.00 0.00 36.63 3.91
2448 4941 3.632643 TCTGGCTAACATCAATGAGCA 57.367 42.857 0.00 0.00 36.63 4.26
2449 4942 4.034975 GTCTTCTGGCTAACATCAATGAGC 59.965 45.833 0.00 0.00 0.00 4.26
2450 4943 5.181009 TGTCTTCTGGCTAACATCAATGAG 58.819 41.667 0.00 0.00 0.00 2.90
2451 4944 5.164620 TGTCTTCTGGCTAACATCAATGA 57.835 39.130 0.00 0.00 0.00 2.57
2452 4945 5.732528 GCATGTCTTCTGGCTAACATCAATG 60.733 44.000 0.00 0.00 30.16 2.82
2453 4946 4.337555 GCATGTCTTCTGGCTAACATCAAT 59.662 41.667 0.00 0.00 30.16 2.57
2454 4947 3.691118 GCATGTCTTCTGGCTAACATCAA 59.309 43.478 0.00 0.00 30.16 2.57
2455 4948 3.273434 GCATGTCTTCTGGCTAACATCA 58.727 45.455 0.00 0.00 30.16 3.07
2456 4949 3.273434 TGCATGTCTTCTGGCTAACATC 58.727 45.455 0.00 0.00 30.16 3.06
2457 4950 3.354948 TGCATGTCTTCTGGCTAACAT 57.645 42.857 0.00 0.00 32.73 2.71
2458 4951 2.857186 TGCATGTCTTCTGGCTAACA 57.143 45.000 0.00 0.00 0.00 2.41
2459 4952 4.156556 TCAAATGCATGTCTTCTGGCTAAC 59.843 41.667 0.00 0.00 0.00 2.34
2460 4953 4.334552 TCAAATGCATGTCTTCTGGCTAA 58.665 39.130 0.00 0.00 0.00 3.09
2461 4954 3.954200 TCAAATGCATGTCTTCTGGCTA 58.046 40.909 0.00 0.00 0.00 3.93
2462 4955 2.799017 TCAAATGCATGTCTTCTGGCT 58.201 42.857 0.00 0.00 0.00 4.75
2463 4956 3.795623 ATCAAATGCATGTCTTCTGGC 57.204 42.857 0.00 0.00 0.00 4.85
2464 4957 8.600625 CAAAAATATCAAATGCATGTCTTCTGG 58.399 33.333 0.00 0.00 0.00 3.86
2465 4958 9.361315 TCAAAAATATCAAATGCATGTCTTCTG 57.639 29.630 0.00 0.00 0.00 3.02
2466 4959 9.582431 CTCAAAAATATCAAATGCATGTCTTCT 57.418 29.630 0.00 0.00 0.00 2.85
2467 4960 9.362539 ACTCAAAAATATCAAATGCATGTCTTC 57.637 29.630 0.00 0.00 0.00 2.87
2468 4961 9.146984 CACTCAAAAATATCAAATGCATGTCTT 57.853 29.630 0.00 0.00 0.00 3.01
2469 4962 7.762615 CCACTCAAAAATATCAAATGCATGTCT 59.237 33.333 0.00 0.00 0.00 3.41
2470 4963 7.010738 CCCACTCAAAAATATCAAATGCATGTC 59.989 37.037 0.00 0.00 0.00 3.06
2471 4964 6.819649 CCCACTCAAAAATATCAAATGCATGT 59.180 34.615 0.00 0.00 0.00 3.21
2472 4965 7.010738 GTCCCACTCAAAAATATCAAATGCATG 59.989 37.037 0.00 0.00 0.00 4.06
2473 4966 7.043565 GTCCCACTCAAAAATATCAAATGCAT 58.956 34.615 0.00 0.00 0.00 3.96
2474 4967 6.397272 GTCCCACTCAAAAATATCAAATGCA 58.603 36.000 0.00 0.00 0.00 3.96
2475 4968 5.812127 GGTCCCACTCAAAAATATCAAATGC 59.188 40.000 0.00 0.00 0.00 3.56
2476 4969 6.340522 GGGTCCCACTCAAAAATATCAAATG 58.659 40.000 1.78 0.00 0.00 2.32
2477 4970 5.425217 GGGGTCCCACTCAAAAATATCAAAT 59.575 40.000 10.98 0.00 35.81 2.32
2478 4971 4.775253 GGGGTCCCACTCAAAAATATCAAA 59.225 41.667 10.98 0.00 35.81 2.69
2479 4972 4.045334 AGGGGTCCCACTCAAAAATATCAA 59.955 41.667 10.98 0.00 38.92 2.57
2480 4973 3.596046 AGGGGTCCCACTCAAAAATATCA 59.404 43.478 10.98 0.00 38.92 2.15
2481 4974 4.251103 AGGGGTCCCACTCAAAAATATC 57.749 45.455 10.98 0.00 38.92 1.63
2482 4975 4.692523 AAGGGGTCCCACTCAAAAATAT 57.307 40.909 10.98 0.00 38.92 1.28
2483 4976 4.156477 CAAAGGGGTCCCACTCAAAAATA 58.844 43.478 10.98 0.00 38.92 1.40
2484 4977 2.972021 CAAAGGGGTCCCACTCAAAAAT 59.028 45.455 10.98 0.00 38.92 1.82
2485 4978 2.393646 CAAAGGGGTCCCACTCAAAAA 58.606 47.619 10.98 0.00 38.92 1.94
2486 4979 2.032151 GCAAAGGGGTCCCACTCAAAA 61.032 52.381 10.98 0.00 38.92 2.44
2487 4980 0.469144 GCAAAGGGGTCCCACTCAAA 60.469 55.000 10.98 0.00 38.92 2.69
2488 4981 1.152830 GCAAAGGGGTCCCACTCAA 59.847 57.895 10.98 0.00 38.92 3.02
2489 4982 1.774217 AGCAAAGGGGTCCCACTCA 60.774 57.895 10.98 0.00 38.92 3.41
2490 4983 1.303643 CAGCAAAGGGGTCCCACTC 60.304 63.158 10.98 0.00 38.92 3.51
2491 4984 2.084930 ACAGCAAAGGGGTCCCACT 61.085 57.895 10.98 1.24 38.92 4.00
2492 4985 1.903404 CACAGCAAAGGGGTCCCAC 60.903 63.158 10.98 0.00 38.92 4.61
2493 4986 2.067932 CTCACAGCAAAGGGGTCCCA 62.068 60.000 10.98 0.00 38.92 4.37
2494 4987 1.303643 CTCACAGCAAAGGGGTCCC 60.304 63.158 0.00 0.00 0.00 4.46
2495 4988 1.973812 GCTCACAGCAAAGGGGTCC 60.974 63.158 0.00 0.00 41.89 4.46
2496 4989 3.673599 GCTCACAGCAAAGGGGTC 58.326 61.111 0.00 0.00 41.89 4.46
2505 4998 1.687494 GGATCGACGTTGCTCACAGC 61.687 60.000 8.80 0.00 42.82 4.40
2506 4999 0.109086 AGGATCGACGTTGCTCACAG 60.109 55.000 8.80 0.00 0.00 3.66
2507 5000 0.317160 AAGGATCGACGTTGCTCACA 59.683 50.000 8.80 0.00 0.00 3.58
2508 5001 1.429463 AAAGGATCGACGTTGCTCAC 58.571 50.000 8.80 0.00 0.00 3.51
2509 5002 2.163818 AAAAGGATCGACGTTGCTCA 57.836 45.000 8.80 0.00 0.00 4.26
2526 5019 5.223449 ACTGACGACTGGAATAGGAAAAA 57.777 39.130 0.00 0.00 0.00 1.94
2527 5020 4.884668 ACTGACGACTGGAATAGGAAAA 57.115 40.909 0.00 0.00 0.00 2.29
2528 5021 4.282449 TGAACTGACGACTGGAATAGGAAA 59.718 41.667 0.00 0.00 0.00 3.13
2529 5022 3.830178 TGAACTGACGACTGGAATAGGAA 59.170 43.478 0.00 0.00 0.00 3.36
2530 5023 3.427573 TGAACTGACGACTGGAATAGGA 58.572 45.455 0.00 0.00 0.00 2.94
2531 5024 3.444034 TCTGAACTGACGACTGGAATAGG 59.556 47.826 0.00 0.00 0.00 2.57
2532 5025 4.703645 TCTGAACTGACGACTGGAATAG 57.296 45.455 0.00 0.00 0.00 1.73
2533 5026 5.462530 TTTCTGAACTGACGACTGGAATA 57.537 39.130 0.00 0.00 0.00 1.75
2534 5027 4.336889 TTTCTGAACTGACGACTGGAAT 57.663 40.909 0.00 0.00 0.00 3.01
2535 5028 3.812156 TTTCTGAACTGACGACTGGAA 57.188 42.857 0.00 0.00 0.00 3.53
2536 5029 5.661056 ATATTTCTGAACTGACGACTGGA 57.339 39.130 0.00 0.00 0.00 3.86
2537 5030 6.727824 AAATATTTCTGAACTGACGACTGG 57.272 37.500 0.00 0.00 0.00 4.00
2538 5031 8.467402 AGTAAATATTTCTGAACTGACGACTG 57.533 34.615 3.39 0.00 0.00 3.51
2539 5032 8.524487 AGAGTAAATATTTCTGAACTGACGACT 58.476 33.333 3.39 0.00 0.00 4.18
2540 5033 8.587950 CAGAGTAAATATTTCTGAACTGACGAC 58.412 37.037 3.39 0.00 40.54 4.34
2541 5034 7.275779 GCAGAGTAAATATTTCTGAACTGACGA 59.724 37.037 16.44 0.00 40.54 4.20
2542 5035 7.276658 AGCAGAGTAAATATTTCTGAACTGACG 59.723 37.037 16.44 3.44 40.54 4.35
2543 5036 8.386606 CAGCAGAGTAAATATTTCTGAACTGAC 58.613 37.037 16.44 3.33 40.54 3.51
2544 5037 8.314021 TCAGCAGAGTAAATATTTCTGAACTGA 58.686 33.333 16.44 15.68 40.54 3.41
2545 5038 8.484641 TCAGCAGAGTAAATATTTCTGAACTG 57.515 34.615 16.44 14.21 40.54 3.16
2546 5039 8.535335 TCTCAGCAGAGTAAATATTTCTGAACT 58.465 33.333 16.44 9.68 42.66 3.01
2547 5040 8.709386 TCTCAGCAGAGTAAATATTTCTGAAC 57.291 34.615 16.44 5.51 42.66 3.18
2548 5041 9.322773 CATCTCAGCAGAGTAAATATTTCTGAA 57.677 33.333 16.44 8.62 42.66 3.02
2549 5042 7.440556 GCATCTCAGCAGAGTAAATATTTCTGA 59.559 37.037 16.44 14.14 42.66 3.27
2550 5043 7.226128 TGCATCTCAGCAGAGTAAATATTTCTG 59.774 37.037 3.39 7.56 42.66 3.02
2551 5044 7.278135 TGCATCTCAGCAGAGTAAATATTTCT 58.722 34.615 3.39 2.14 42.66 2.52
2552 5045 7.488187 TGCATCTCAGCAGAGTAAATATTTC 57.512 36.000 3.39 0.00 42.66 2.17
2565 5058 9.944802 ACATTCATGTGACTATGCATCTCAGCA 62.945 40.741 0.19 7.15 43.76 4.41
2566 5059 3.725490 TCATGTGACTATGCATCTCAGC 58.275 45.455 0.19 1.86 0.00 4.26
2567 5060 5.758784 ACATTCATGTGACTATGCATCTCAG 59.241 40.000 0.19 0.00 40.03 3.35
2568 5061 5.677567 ACATTCATGTGACTATGCATCTCA 58.322 37.500 0.19 2.24 40.03 3.27
2569 5062 6.259387 TCAACATTCATGTGACTATGCATCTC 59.741 38.462 0.19 0.00 41.61 2.75
2570 5063 6.037940 GTCAACATTCATGTGACTATGCATCT 59.962 38.462 0.19 0.00 41.61 2.90
2571 5064 6.037940 AGTCAACATTCATGTGACTATGCATC 59.962 38.462 12.77 0.00 42.12 3.91
2572 5065 5.884232 AGTCAACATTCATGTGACTATGCAT 59.116 36.000 12.77 3.79 42.12 3.96
2573 5066 5.247862 AGTCAACATTCATGTGACTATGCA 58.752 37.500 12.77 0.00 42.12 3.96
2574 5067 5.808042 AGTCAACATTCATGTGACTATGC 57.192 39.130 12.77 0.00 42.12 3.14
2575 5068 8.886719 ACATAAGTCAACATTCATGTGACTATG 58.113 33.333 14.29 16.87 42.58 2.23
2577 5070 9.936759 TTACATAAGTCAACATTCATGTGACTA 57.063 29.630 14.29 5.96 42.58 2.59
2578 5071 8.846943 TTACATAAGTCAACATTCATGTGACT 57.153 30.769 9.48 9.48 43.85 3.41
2579 5072 8.177663 CCTTACATAAGTCAACATTCATGTGAC 58.822 37.037 5.49 5.49 41.61 3.67
2580 5073 7.882791 ACCTTACATAAGTCAACATTCATGTGA 59.117 33.333 0.00 0.00 41.61 3.58
2581 5074 8.044060 ACCTTACATAAGTCAACATTCATGTG 57.956 34.615 0.00 0.00 41.61 3.21
2582 5075 9.905713 ATACCTTACATAAGTCAACATTCATGT 57.094 29.630 0.00 0.00 44.20 3.21
2608 5101 9.567848 GACAACATTCAGAACAAACTCTTAAAA 57.432 29.630 0.00 0.00 0.00 1.52
2609 5102 8.956426 AGACAACATTCAGAACAAACTCTTAAA 58.044 29.630 0.00 0.00 0.00 1.52
2610 5103 8.506168 AGACAACATTCAGAACAAACTCTTAA 57.494 30.769 0.00 0.00 0.00 1.85
2611 5104 9.778741 ATAGACAACATTCAGAACAAACTCTTA 57.221 29.630 0.00 0.00 0.00 2.10
2612 5105 8.562892 CATAGACAACATTCAGAACAAACTCTT 58.437 33.333 0.00 0.00 0.00 2.85
2613 5106 7.716998 ACATAGACAACATTCAGAACAAACTCT 59.283 33.333 0.00 0.00 0.00 3.24
2614 5107 7.865707 ACATAGACAACATTCAGAACAAACTC 58.134 34.615 0.00 0.00 0.00 3.01
2615 5108 7.807977 ACATAGACAACATTCAGAACAAACT 57.192 32.000 0.00 0.00 0.00 2.66
2618 5111 8.236586 GCATTACATAGACAACATTCAGAACAA 58.763 33.333 0.00 0.00 0.00 2.83
2619 5112 7.148255 GGCATTACATAGACAACATTCAGAACA 60.148 37.037 0.00 0.00 0.00 3.18
2620 5113 7.148255 TGGCATTACATAGACAACATTCAGAAC 60.148 37.037 0.00 0.00 0.00 3.01
2621 5114 6.883756 TGGCATTACATAGACAACATTCAGAA 59.116 34.615 0.00 0.00 0.00 3.02
2622 5115 6.413892 TGGCATTACATAGACAACATTCAGA 58.586 36.000 0.00 0.00 0.00 3.27
2623 5116 6.238566 CCTGGCATTACATAGACAACATTCAG 60.239 42.308 0.00 0.00 0.00 3.02
2624 5117 5.589855 CCTGGCATTACATAGACAACATTCA 59.410 40.000 0.00 0.00 0.00 2.57
2625 5118 5.506317 GCCTGGCATTACATAGACAACATTC 60.506 44.000 15.17 0.00 0.00 2.67
2626 5119 4.339247 GCCTGGCATTACATAGACAACATT 59.661 41.667 15.17 0.00 0.00 2.71
2627 5120 3.885297 GCCTGGCATTACATAGACAACAT 59.115 43.478 15.17 0.00 0.00 2.71
2628 5121 3.278574 GCCTGGCATTACATAGACAACA 58.721 45.455 15.17 0.00 0.00 3.33
2629 5122 2.618709 GGCCTGGCATTACATAGACAAC 59.381 50.000 22.05 0.00 0.00 3.32
2630 5123 2.509548 AGGCCTGGCATTACATAGACAA 59.490 45.455 22.05 0.00 0.00 3.18
2631 5124 2.126882 AGGCCTGGCATTACATAGACA 58.873 47.619 22.05 0.00 0.00 3.41
2632 5125 2.880890 CAAGGCCTGGCATTACATAGAC 59.119 50.000 19.13 0.00 29.32 2.59
2633 5126 2.509548 ACAAGGCCTGGCATTACATAGA 59.490 45.455 19.13 0.00 29.32 1.98
2634 5127 2.620115 CACAAGGCCTGGCATTACATAG 59.380 50.000 19.13 8.48 29.32 2.23
2635 5128 2.240921 TCACAAGGCCTGGCATTACATA 59.759 45.455 19.13 2.00 29.32 2.29
2636 5129 1.005805 TCACAAGGCCTGGCATTACAT 59.994 47.619 19.13 4.57 29.32 2.29
2637 5130 0.403655 TCACAAGGCCTGGCATTACA 59.596 50.000 19.13 2.46 29.32 2.41
2638 5131 1.098050 CTCACAAGGCCTGGCATTAC 58.902 55.000 19.13 0.86 29.32 1.89
2639 5132 0.698238 ACTCACAAGGCCTGGCATTA 59.302 50.000 19.13 2.33 29.32 1.90
2640 5133 0.178953 AACTCACAAGGCCTGGCATT 60.179 50.000 22.05 17.94 30.89 3.56
2641 5134 0.178953 AAACTCACAAGGCCTGGCAT 60.179 50.000 22.05 11.43 0.00 4.40
2642 5135 1.108727 CAAACTCACAAGGCCTGGCA 61.109 55.000 22.05 0.00 0.00 4.92
2643 5136 0.823356 TCAAACTCACAAGGCCTGGC 60.823 55.000 5.69 11.05 0.00 4.85
2644 5137 1.915141 ATCAAACTCACAAGGCCTGG 58.085 50.000 5.69 5.45 0.00 4.45
2645 5138 2.608752 GCAATCAAACTCACAAGGCCTG 60.609 50.000 5.69 2.82 0.00 4.85
2646 5139 1.615392 GCAATCAAACTCACAAGGCCT 59.385 47.619 0.00 0.00 0.00 5.19
2647 5140 1.340889 TGCAATCAAACTCACAAGGCC 59.659 47.619 0.00 0.00 0.00 5.19
2648 5141 2.798976 TGCAATCAAACTCACAAGGC 57.201 45.000 0.00 0.00 0.00 4.35
2649 5142 4.685924 ACTTTGCAATCAAACTCACAAGG 58.314 39.130 0.00 0.00 37.28 3.61
2650 5143 5.806502 TCAACTTTGCAATCAAACTCACAAG 59.193 36.000 0.00 0.00 37.28 3.16
2651 5144 5.718146 TCAACTTTGCAATCAAACTCACAA 58.282 33.333 0.00 0.00 37.28 3.33
2652 5145 5.321959 TCAACTTTGCAATCAAACTCACA 57.678 34.783 0.00 0.00 37.28 3.58
2653 5146 4.207841 GCTCAACTTTGCAATCAAACTCAC 59.792 41.667 0.00 0.00 37.28 3.51
2654 5147 4.098349 AGCTCAACTTTGCAATCAAACTCA 59.902 37.500 0.00 0.00 37.28 3.41
2655 5148 4.614946 AGCTCAACTTTGCAATCAAACTC 58.385 39.130 0.00 0.00 37.28 3.01
2656 5149 4.660789 AGCTCAACTTTGCAATCAAACT 57.339 36.364 0.00 0.00 37.28 2.66
2657 5150 4.025480 CCAAGCTCAACTTTGCAATCAAAC 60.025 41.667 0.00 0.00 37.28 2.93
2658 5151 4.121317 CCAAGCTCAACTTTGCAATCAAA 58.879 39.130 0.00 0.00 39.67 2.69
2659 5152 3.384146 TCCAAGCTCAACTTTGCAATCAA 59.616 39.130 0.00 0.00 36.04 2.57
2660 5153 2.957680 TCCAAGCTCAACTTTGCAATCA 59.042 40.909 0.00 0.00 36.04 2.57
2661 5154 3.648339 TCCAAGCTCAACTTTGCAATC 57.352 42.857 0.00 0.00 36.04 2.67
2662 5155 4.312443 CATTCCAAGCTCAACTTTGCAAT 58.688 39.130 0.00 0.00 36.04 3.56
2663 5156 3.719924 CATTCCAAGCTCAACTTTGCAA 58.280 40.909 0.00 0.00 36.04 4.08
2664 5157 2.546373 GCATTCCAAGCTCAACTTTGCA 60.546 45.455 0.00 0.00 38.00 4.08
2665 5158 2.064014 GCATTCCAAGCTCAACTTTGC 58.936 47.619 0.00 0.00 36.04 3.68
2666 5159 3.243636 ACAGCATTCCAAGCTCAACTTTG 60.244 43.478 0.00 0.00 41.14 2.77
2667 5160 2.961062 ACAGCATTCCAAGCTCAACTTT 59.039 40.909 0.00 0.00 41.14 2.66
2668 5161 2.295349 CACAGCATTCCAAGCTCAACTT 59.705 45.455 0.00 0.00 41.14 2.66
2669 5162 1.884579 CACAGCATTCCAAGCTCAACT 59.115 47.619 0.00 0.00 41.14 3.16
2670 5163 1.068055 CCACAGCATTCCAAGCTCAAC 60.068 52.381 0.00 0.00 41.14 3.18
2671 5164 1.250328 CCACAGCATTCCAAGCTCAA 58.750 50.000 0.00 0.00 41.14 3.02
2672 5165 1.246056 GCCACAGCATTCCAAGCTCA 61.246 55.000 0.00 0.00 41.14 4.26
2673 5166 1.246056 TGCCACAGCATTCCAAGCTC 61.246 55.000 0.00 0.00 46.52 4.09
2674 5167 1.228644 TGCCACAGCATTCCAAGCT 60.229 52.632 0.00 0.00 46.52 3.74
2675 5168 3.368822 TGCCACAGCATTCCAAGC 58.631 55.556 0.00 0.00 46.52 4.01
2685 5178 1.138883 GTGATGCTGCATGCCACAG 59.861 57.895 21.53 7.23 42.00 3.66
2686 5179 2.692766 CGTGATGCTGCATGCCACA 61.693 57.895 24.94 13.83 42.00 4.17
2687 5180 2.101575 CGTGATGCTGCATGCCAC 59.898 61.111 21.53 20.03 42.00 5.01
2688 5181 2.046120 TCGTGATGCTGCATGCCA 60.046 55.556 21.53 9.96 42.00 4.92
2689 5182 2.713770 CTCGTGATGCTGCATGCC 59.286 61.111 21.53 7.14 42.00 4.40
2690 5183 2.024305 GCTCGTGATGCTGCATGC 59.976 61.111 21.53 11.82 43.25 4.06
2691 5184 3.809423 AGCTCGTGATGCTGCATG 58.191 55.556 21.53 5.96 39.56 4.06
2696 5189 0.671781 GGTGAACAGCTCGTGATGCT 60.672 55.000 2.12 0.00 42.06 3.79
2697 5190 1.790387 GGTGAACAGCTCGTGATGC 59.210 57.895 2.12 0.00 31.91 3.91
2698 5191 0.667487 ACGGTGAACAGCTCGTGATG 60.667 55.000 0.47 0.47 34.40 3.07
2699 5192 1.666011 ACGGTGAACAGCTCGTGAT 59.334 52.632 0.00 0.00 34.40 3.06
2700 5193 3.125607 ACGGTGAACAGCTCGTGA 58.874 55.556 0.00 0.00 34.40 4.35
2701 5194 3.234390 CACGGTGAACAGCTCGTG 58.766 61.111 0.74 8.69 44.98 4.35
2702 5195 2.661866 GCACGGTGAACAGCTCGT 60.662 61.111 13.29 0.00 36.19 4.18
2703 5196 3.414700 GGCACGGTGAACAGCTCG 61.415 66.667 13.29 0.00 0.00 5.03
2704 5197 2.029844 GAGGCACGGTGAACAGCTC 61.030 63.158 13.29 0.00 0.00 4.09
2705 5198 2.031163 GAGGCACGGTGAACAGCT 59.969 61.111 13.29 0.00 0.00 4.24


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

AutoCloner maintained by Alex Coulton.