Multiple sequence alignment - TraesCS6B01G433500

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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 TraesCS6B01G433500 chr6B 100.000 3231 0 0 1 3231 702245263 702248493 0.000000e+00 5967.0
1 TraesCS6B01G433500 chr6A 95.601 1773 59 7 1 1758 607056643 607058411 0.000000e+00 2824.0
2 TraesCS6B01G433500 chr6A 89.676 649 62 5 1770 2417 607058390 607059034 0.000000e+00 822.0
3 TraesCS6B01G433500 chr6A 92.271 207 15 1 2935 3140 607059814 607060020 3.150000e-75 292.0
4 TraesCS6B01G433500 chr6A 87.912 182 20 2 2662 2843 607056801 607056980 2.530000e-51 213.0
5 TraesCS6B01G433500 chr6A 85.366 205 17 9 159 360 607059415 607059609 1.970000e-47 200.0
6 TraesCS6B01G433500 chr6A 78.548 303 43 13 2646 2929 607059399 607059698 2.560000e-41 180.0
7 TraesCS6B01G433500 chr6D 89.336 994 76 20 792 1759 460791160 460792149 0.000000e+00 1221.0
8 TraesCS6B01G433500 chr6D 91.004 767 56 8 1 763 460790414 460791171 0.000000e+00 1022.0
9 TraesCS6B01G433500 chr6D 87.308 717 69 13 1771 2475 460792128 460792834 0.000000e+00 800.0
10 TraesCS6B01G433500 chr6D 84.971 346 44 7 455 795 460792915 460793257 8.580000e-91 344.0
11 TraesCS6B01G433500 chr6D 89.388 245 22 4 2937 3178 460793032 460793275 4.050000e-79 305.0
12 TraesCS6B01G433500 chr6D 91.096 146 12 1 2510 2654 460792764 460792909 2.540000e-46 196.0
13 TraesCS6B01G433500 chr6D 85.806 155 21 1 2689 2843 460790597 460790750 2.580000e-36 163.0
14 TraesCS6B01G433500 chr6D 96.875 64 2 0 3168 3231 380136973 380137036 1.230000e-19 108.0
15 TraesCS6B01G433500 chr3B 94.074 405 22 2 2 406 739118136 739117734 5.920000e-172 614.0
16 TraesCS6B01G433500 chr3B 93.827 405 23 2 2 406 13127326 13127728 2.760000e-170 608.0
17 TraesCS6B01G433500 chr3B 83.396 265 38 5 1037 1300 13127819 13128078 1.160000e-59 241.0
18 TraesCS6B01G433500 chr3B 83.333 270 35 9 1040 1306 739117639 739117377 1.160000e-59 241.0
19 TraesCS6B01G433500 chr3B 94.565 92 3 2 539 630 739117733 739117644 1.210000e-29 141.0
20 TraesCS6B01G433500 chr3B 90.526 95 6 2 536 630 13127726 13127817 4.380000e-24 122.0
21 TraesCS6B01G433500 chr2B 98.333 60 1 0 3172 3231 461570162 461570103 4.410000e-19 106.0
22 TraesCS6B01G433500 chr4B 98.305 59 1 0 3173 3231 633769958 633769900 1.590000e-18 104.0
23 TraesCS6B01G433500 chr5B 95.385 65 2 1 3167 3231 511838007 511838070 5.700000e-18 102.0
24 TraesCS6B01G433500 chr5A 96.721 61 2 0 3171 3231 472311029 472310969 5.700000e-18 102.0
25 TraesCS6B01G433500 chr2D 94.030 67 2 2 3166 3231 589522244 589522309 2.050000e-17 100.0
26 TraesCS6B01G433500 chr5D 91.429 70 5 1 3162 3230 452219495 452219426 9.540000e-16 95.3
27 TraesCS6B01G433500 chr5D 92.537 67 4 1 3166 3231 501123012 501122946 9.540000e-16 95.3
28 TraesCS6B01G433500 chr1D 89.041 73 6 2 3158 3230 470750030 470749960 4.440000e-14 89.8


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 TraesCS6B01G433500 chr6B 702245263 702248493 3230 False 5967.000000 5967 100.000000 1 3231 1 chr6B.!!$F1 3230
1 TraesCS6B01G433500 chr6A 607056643 607060020 3377 False 755.166667 2824 88.229000 1 3140 6 chr6A.!!$F1 3139
2 TraesCS6B01G433500 chr6D 460790414 460793275 2861 False 578.714286 1221 88.415571 1 3178 7 chr6D.!!$F2 3177
3 TraesCS6B01G433500 chr3B 739117377 739118136 759 True 332.000000 614 90.657333 2 1306 3 chr3B.!!$R1 1304
4 TraesCS6B01G433500 chr3B 13127326 13128078 752 False 323.666667 608 89.249667 2 1300 3 chr3B.!!$F1 1298

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
338 339 2.165167 CTTGCATGGACAACTGGTGAT 58.835 47.619 0.0 0.0 0.0 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2311 2360 0.038343 TTGGCGGAAAATGCTTGAGC 60.038 50.0 0.0 0.0 42.5 4.26 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
58 59 5.377478 GTTATAGGCCTCAAACCTAAGCAT 58.623 41.667 9.68 0.00 42.93 3.79
153 154 3.330701 AGATGGTTTCTGTAGCCTTTGGA 59.669 43.478 0.00 0.00 31.79 3.53
264 265 4.825422 TCTGTGAAGATTTACAGCAGAGG 58.175 43.478 11.50 0.00 43.02 3.69
276 277 8.668510 ATTTACAGCAGAGGTATATGTTTGAG 57.331 34.615 0.00 0.00 0.00 3.02
338 339 2.165167 CTTGCATGGACAACTGGTGAT 58.835 47.619 0.00 0.00 0.00 3.06
486 487 4.082125 AGATCCAAAACAATCCACCTGTC 58.918 43.478 0.00 0.00 0.00 3.51
495 496 6.723298 AACAATCCACCTGTCAAACATAAA 57.277 33.333 0.00 0.00 0.00 1.40
528 529 9.260002 GATCAAAACCAACAACTCACAATTTAT 57.740 29.630 0.00 0.00 0.00 1.40
904 919 2.627699 GGTGATGACCAACCACAACAAT 59.372 45.455 0.00 0.00 42.59 2.71
916 931 6.462347 CCAACCACAACAATAGCTACCTTTTT 60.462 38.462 0.00 0.00 0.00 1.94
969 997 5.928976 TCACACTCTTTCTGGAGAATCAAA 58.071 37.500 0.00 0.00 36.25 2.69
1026 1054 5.798125 TCATGGCAAAGGTATGTTTTTCA 57.202 34.783 0.00 0.00 0.00 2.69
1104 1132 6.542821 TGAGGTTGAGGTGTTCTTATGAATT 58.457 36.000 0.00 0.00 34.40 2.17
1154 1183 8.450578 ACATGTCAAAGACTTATGTTCTGAAA 57.549 30.769 0.00 0.00 29.05 2.69
1422 1451 0.537188 CGGCAGAGGTGATAGTGGTT 59.463 55.000 0.00 0.00 0.00 3.67
1585 1614 6.948309 ACCATTGTTTTCAGGCTAATAAGTCT 59.052 34.615 0.00 0.00 38.57 3.24
1608 1637 9.023967 GTCTATTGTCCATCAAAATTACAATGC 57.976 33.333 9.66 0.00 40.13 3.56
1672 1705 2.618709 ACAGAGCTGGCTGTTGTTAAAC 59.381 45.455 2.30 0.00 46.42 2.01
1678 1711 1.134037 TGGCTGTTGTTAAACCGGTCT 60.134 47.619 8.04 0.00 35.25 3.85
1686 1719 4.274602 TGTTAAACCGGTCTAGCATTCA 57.725 40.909 8.04 0.00 0.00 2.57
1706 1739 6.602410 TTCATTTTGGTCCTATTGATGCAA 57.398 33.333 0.00 0.00 0.00 4.08
1758 1791 7.403813 TGGGTAAACAATAGGTACATAGGAGTT 59.596 37.037 0.00 0.00 0.00 3.01
1759 1792 8.270030 GGGTAAACAATAGGTACATAGGAGTTT 58.730 37.037 14.71 14.71 0.00 2.66
1760 1793 9.676861 GGTAAACAATAGGTACATAGGAGTTTT 57.323 33.333 15.22 4.77 0.00 2.43
1788 1821 6.442541 TTTTGAAACAGGAGGTACATAGGA 57.557 37.500 0.00 0.00 0.00 2.94
1789 1822 5.677319 TTGAAACAGGAGGTACATAGGAG 57.323 43.478 0.00 0.00 0.00 3.69
1790 1823 4.684724 TGAAACAGGAGGTACATAGGAGT 58.315 43.478 0.00 0.00 0.00 3.85
1797 1830 3.819902 GGAGGTACATAGGAGTTAGGACG 59.180 52.174 0.00 0.00 0.00 4.79
1874 1907 5.996219 TCTTGTAATCGATGTTGTTTGTGG 58.004 37.500 0.00 0.00 0.00 4.17
1904 1952 6.425417 ACACACACACATCATGTTCGTATTTA 59.575 34.615 0.00 0.00 40.64 1.40
1908 1956 6.653320 ACACACATCATGTTCGTATTTACCTT 59.347 34.615 0.00 0.00 40.64 3.50
1926 1974 3.997021 ACCTTCATTTCTCAACTGCTACG 59.003 43.478 0.00 0.00 0.00 3.51
1941 1989 1.146358 CTACGCGCCAAGTAGGAAGC 61.146 60.000 5.73 0.00 41.22 3.86
1963 2011 4.261825 GCTAGTAGGTCACCAGCTATGAAG 60.262 50.000 0.00 0.00 35.08 3.02
2000 2048 4.710324 TGCACTGCATGATCATCTCAATA 58.290 39.130 4.86 0.00 37.44 1.90
2029 2077 3.040147 TGAACCTTTCAGGCTACTTCG 57.960 47.619 0.00 0.00 39.63 3.79
2035 2083 1.563924 TTCAGGCTACTTCGGGCTTA 58.436 50.000 0.00 0.00 37.49 3.09
2043 2091 2.109425 ACTTCGGGCTTATTCGCTTT 57.891 45.000 0.00 0.00 0.00 3.51
2048 2096 1.459450 GGGCTTATTCGCTTTGGACA 58.541 50.000 0.00 0.00 0.00 4.02
2049 2097 1.132453 GGGCTTATTCGCTTTGGACAC 59.868 52.381 0.00 0.00 0.00 3.67
2051 2099 2.423538 GGCTTATTCGCTTTGGACACAT 59.576 45.455 0.00 0.00 0.00 3.21
2056 2104 2.542020 TCGCTTTGGACACATCAGAA 57.458 45.000 0.00 0.00 0.00 3.02
2162 2210 0.527565 TTACCGTTGGTCGCTACCTC 59.472 55.000 9.09 1.49 46.91 3.85
2237 2285 3.614616 GGTGTACGATCTCTGAAAGCTTG 59.385 47.826 0.00 0.00 0.00 4.01
2250 2298 3.056962 TGAAAGCTTGTTCAACAGCACAA 60.057 39.130 0.00 0.00 34.59 3.33
2259 2307 0.029834 CAACAGCACAACCAGCAGAC 59.970 55.000 0.00 0.00 0.00 3.51
2276 2325 2.356673 CGCTGCTGCACTCTGTCA 60.357 61.111 16.29 0.00 39.64 3.58
2301 2350 1.392853 CTTCGCTTTGTGCTAGCTGAG 59.607 52.381 17.23 9.24 40.11 3.35
2344 2394 1.369625 CGCCAAGAGCTTTAACCGAT 58.630 50.000 0.00 0.00 40.39 4.18
2351 2401 3.335579 AGAGCTTTAACCGATGTGTTCC 58.664 45.455 0.00 0.00 0.00 3.62
2417 2467 3.363970 GCTTCGTTGTTCATTCGTGATGT 60.364 43.478 2.43 0.00 37.06 3.06
2419 2469 4.127233 TCGTTGTTCATTCGTGATGTTG 57.873 40.909 2.43 0.00 37.06 3.33
2422 2472 3.266541 TGTTCATTCGTGATGTTGTGC 57.733 42.857 2.43 0.00 37.06 4.57
2424 2474 3.228749 GTTCATTCGTGATGTTGTGCAG 58.771 45.455 0.00 0.00 37.06 4.41
2425 2475 2.493035 TCATTCGTGATGTTGTGCAGT 58.507 42.857 0.00 0.00 37.06 4.40
2427 2477 3.679502 TCATTCGTGATGTTGTGCAGTAG 59.320 43.478 0.00 0.00 37.06 2.57
2428 2478 3.378911 TTCGTGATGTTGTGCAGTAGA 57.621 42.857 0.00 0.00 0.00 2.59
2429 2479 3.592898 TCGTGATGTTGTGCAGTAGAT 57.407 42.857 0.00 0.00 0.00 1.98
2430 2480 4.712122 TCGTGATGTTGTGCAGTAGATA 57.288 40.909 0.00 0.00 0.00 1.98
2431 2481 4.672409 TCGTGATGTTGTGCAGTAGATAG 58.328 43.478 0.00 0.00 0.00 2.08
2432 2482 3.798878 CGTGATGTTGTGCAGTAGATAGG 59.201 47.826 0.00 0.00 0.00 2.57
2433 2483 4.440112 CGTGATGTTGTGCAGTAGATAGGA 60.440 45.833 0.00 0.00 0.00 2.94
2434 2484 5.419542 GTGATGTTGTGCAGTAGATAGGAA 58.580 41.667 0.00 0.00 0.00 3.36
2435 2485 6.051717 GTGATGTTGTGCAGTAGATAGGAAT 58.948 40.000 0.00 0.00 0.00 3.01
2436 2486 6.201806 GTGATGTTGTGCAGTAGATAGGAATC 59.798 42.308 0.00 0.00 0.00 2.52
2437 2487 5.023533 TGTTGTGCAGTAGATAGGAATCC 57.976 43.478 0.00 0.00 31.98 3.01
2438 2488 4.469586 TGTTGTGCAGTAGATAGGAATCCA 59.530 41.667 0.61 0.00 31.98 3.41
2439 2489 4.944619 TGTGCAGTAGATAGGAATCCAG 57.055 45.455 0.61 0.00 31.98 3.86
2440 2490 3.643320 TGTGCAGTAGATAGGAATCCAGG 59.357 47.826 0.61 0.00 31.98 4.45
2441 2491 3.007398 GTGCAGTAGATAGGAATCCAGGG 59.993 52.174 0.61 0.00 31.98 4.45
2442 2492 2.569404 GCAGTAGATAGGAATCCAGGGG 59.431 54.545 0.61 0.00 31.98 4.79
2443 2493 3.758787 GCAGTAGATAGGAATCCAGGGGA 60.759 52.174 0.61 0.00 35.55 4.81
2444 2494 4.093011 CAGTAGATAGGAATCCAGGGGAG 58.907 52.174 0.61 0.00 34.05 4.30
2445 2495 3.997856 AGTAGATAGGAATCCAGGGGAGA 59.002 47.826 0.61 0.00 34.05 3.71
2446 2496 3.558608 AGATAGGAATCCAGGGGAGAG 57.441 52.381 0.61 0.00 34.05 3.20
2447 2497 2.113414 AGATAGGAATCCAGGGGAGAGG 59.887 54.545 0.61 0.00 34.05 3.69
2448 2498 1.330155 TAGGAATCCAGGGGAGAGGT 58.670 55.000 0.61 0.00 34.05 3.85
2449 2499 0.327000 AGGAATCCAGGGGAGAGGTG 60.327 60.000 0.61 0.00 34.05 4.00
2450 2500 0.621862 GGAATCCAGGGGAGAGGTGT 60.622 60.000 0.00 0.00 34.05 4.16
2451 2501 1.344087 GGAATCCAGGGGAGAGGTGTA 60.344 57.143 0.00 0.00 34.05 2.90
2452 2502 2.043227 GAATCCAGGGGAGAGGTGTAG 58.957 57.143 0.00 0.00 34.05 2.74
2453 2503 0.266152 ATCCAGGGGAGAGGTGTAGG 59.734 60.000 0.00 0.00 34.05 3.18
2454 2504 0.854039 TCCAGGGGAGAGGTGTAGGA 60.854 60.000 0.00 0.00 0.00 2.94
2455 2505 0.042731 CCAGGGGAGAGGTGTAGGAA 59.957 60.000 0.00 0.00 0.00 3.36
2456 2506 1.196012 CAGGGGAGAGGTGTAGGAAC 58.804 60.000 0.00 0.00 0.00 3.62
2457 2507 1.094269 AGGGGAGAGGTGTAGGAACT 58.906 55.000 0.00 0.00 46.37 3.01
2458 2508 1.196012 GGGGAGAGGTGTAGGAACTG 58.804 60.000 0.00 0.00 41.52 3.16
2459 2509 1.196012 GGGAGAGGTGTAGGAACTGG 58.804 60.000 0.00 0.00 41.52 4.00
2460 2510 1.196012 GGAGAGGTGTAGGAACTGGG 58.804 60.000 0.00 0.00 41.52 4.45
2461 2511 0.537653 GAGAGGTGTAGGAACTGGGC 59.462 60.000 0.00 0.00 41.52 5.36
2462 2512 0.178903 AGAGGTGTAGGAACTGGGCA 60.179 55.000 0.00 0.00 41.52 5.36
2463 2513 0.912486 GAGGTGTAGGAACTGGGCAT 59.088 55.000 0.00 0.00 41.52 4.40
2464 2514 0.620556 AGGTGTAGGAACTGGGCATG 59.379 55.000 0.00 0.00 41.52 4.06
2465 2515 0.394352 GGTGTAGGAACTGGGCATGG 60.394 60.000 0.00 0.00 41.52 3.66
2466 2516 0.618458 GTGTAGGAACTGGGCATGGA 59.382 55.000 0.00 0.00 41.52 3.41
2467 2517 1.004277 GTGTAGGAACTGGGCATGGAA 59.996 52.381 0.00 0.00 41.52 3.53
2468 2518 1.922447 TGTAGGAACTGGGCATGGAAT 59.078 47.619 0.00 0.00 41.52 3.01
2469 2519 2.092429 TGTAGGAACTGGGCATGGAATC 60.092 50.000 0.00 0.00 41.52 2.52
2470 2520 0.259938 AGGAACTGGGCATGGAATCC 59.740 55.000 0.00 0.00 37.18 3.01
2471 2521 0.756815 GGAACTGGGCATGGAATCCC 60.757 60.000 0.00 0.00 42.93 3.85
2493 2543 4.304110 CAAGTTTCATCAGCATTGCTTGT 58.696 39.130 8.83 0.00 36.40 3.16
2496 2546 7.252708 CAAGTTTCATCAGCATTGCTTGTATA 58.747 34.615 8.83 0.00 36.40 1.47
2499 2549 7.756722 AGTTTCATCAGCATTGCTTGTATAAAC 59.243 33.333 8.83 14.60 36.40 2.01
2531 2581 5.639506 AGATTGTCATGTTGTGCAGTAGTAC 59.360 40.000 0.00 0.00 0.00 2.73
2549 2599 2.124560 ACATAGGAATCCAGGGGAGG 57.875 55.000 0.61 0.00 34.05 4.30
2574 2624 1.302907 AGGAACTGGGCATGGAATCT 58.697 50.000 0.00 0.00 37.18 2.40
2584 2634 3.073650 GGGCATGGAATCTCAAGTCCTAT 59.926 47.826 0.00 0.00 40.40 2.57
2589 2639 5.762179 TGGAATCTCAAGTCCTATGTGTT 57.238 39.130 0.00 0.00 40.40 3.32
2607 2657 0.704076 TTAATGGGCTGGCTGGAGTT 59.296 50.000 0.00 0.00 0.00 3.01
2645 2695 2.886523 TGCTGCTCTGTTTTATTGCTGT 59.113 40.909 0.00 0.00 0.00 4.40
2655 2705 5.771469 TGTTTTATTGCTGTGATGAGTTGG 58.229 37.500 0.00 0.00 0.00 3.77
2668 2922 5.634859 GTGATGAGTTGGGCAAGTAAATTTG 59.365 40.000 0.00 0.00 0.00 2.32
2672 2926 3.323691 AGTTGGGCAAGTAAATTTGGTCC 59.676 43.478 0.00 0.00 0.00 4.46
2675 2929 3.323403 TGGGCAAGTAAATTTGGTCCAAG 59.677 43.478 4.09 0.00 0.00 3.61
2682 2936 2.532250 AATTTGGTCCAAGGCCCTAG 57.468 50.000 4.09 0.00 0.00 3.02
2684 2938 1.681229 TTTGGTCCAAGGCCCTAGAT 58.319 50.000 4.09 0.00 0.00 1.98
2687 2941 3.074857 TGGTCCAAGGCCCTAGATTAT 57.925 47.619 0.00 0.00 0.00 1.28
2690 2944 3.394606 GGTCCAAGGCCCTAGATTATCAA 59.605 47.826 0.00 0.00 0.00 2.57
2736 2990 5.394443 GGATGCATGCTGGTTTTCATTCTTA 60.394 40.000 20.33 0.00 0.00 2.10
2739 2993 6.465948 TGCATGCTGGTTTTCATTCTTATTT 58.534 32.000 20.33 0.00 0.00 1.40
2775 3029 9.713740 GTTGAAGATTTACAGCAGAGATATTTG 57.286 33.333 0.00 0.00 0.00 2.32
2784 3038 7.692460 ACAGCAGAGATATTTGTTTGAATGA 57.308 32.000 0.00 0.00 0.00 2.57
2785 3039 8.289939 ACAGCAGAGATATTTGTTTGAATGAT 57.710 30.769 0.00 0.00 0.00 2.45
2786 3040 8.188799 ACAGCAGAGATATTTGTTTGAATGATG 58.811 33.333 0.00 0.00 0.00 3.07
2788 3042 7.558807 AGCAGAGATATTTGTTTGAATGATGGA 59.441 33.333 0.00 0.00 0.00 3.41
2790 3044 9.512435 CAGAGATATTTGTTTGAATGATGGAAC 57.488 33.333 0.00 0.00 0.00 3.62
2791 3045 8.689972 AGAGATATTTGTTTGAATGATGGAACC 58.310 33.333 0.00 0.00 0.00 3.62
2793 3047 8.472413 AGATATTTGTTTGAATGATGGAACCAG 58.528 33.333 0.00 0.00 0.00 4.00
2794 3048 4.870123 TTGTTTGAATGATGGAACCAGG 57.130 40.909 0.00 0.00 0.00 4.45
2795 3049 2.562298 TGTTTGAATGATGGAACCAGGC 59.438 45.455 0.00 0.00 0.00 4.85
2796 3050 2.827921 GTTTGAATGATGGAACCAGGCT 59.172 45.455 0.00 0.00 0.00 4.58
2797 3051 2.425143 TGAATGATGGAACCAGGCTC 57.575 50.000 0.00 0.00 0.00 4.70
2798 3052 1.064463 TGAATGATGGAACCAGGCTCC 60.064 52.381 1.27 1.27 0.00 4.70
2799 3053 1.002069 AATGATGGAACCAGGCTCCA 58.998 50.000 14.35 14.35 46.86 3.86
2802 3056 4.248908 TGGAACCAGGCTCCATGA 57.751 55.556 7.59 0.00 38.07 3.07
2803 3057 2.473768 TGGAACCAGGCTCCATGAA 58.526 52.632 7.59 0.00 38.07 2.57
2804 3058 0.776810 TGGAACCAGGCTCCATGAAA 59.223 50.000 7.59 0.00 38.07 2.69
2805 3059 1.177401 GGAACCAGGCTCCATGAAAC 58.823 55.000 3.72 0.00 32.77 2.78
2815 3069 2.351738 GCTCCATGAAACGAAACAAGGG 60.352 50.000 0.00 0.00 0.00 3.95
2816 3070 1.611491 TCCATGAAACGAAACAAGGGC 59.389 47.619 0.00 0.00 0.00 5.19
2831 3085 1.225373 AGGGCCATGCTCTTCCATTA 58.775 50.000 6.18 0.00 34.72 1.90
2855 3134 4.951715 ACAACTGGTGATGCATGACATTAT 59.048 37.500 18.25 0.00 39.84 1.28
2864 3143 7.221452 GGTGATGCATGACATTATTTGTTTCTC 59.779 37.037 18.25 0.00 39.84 2.87
2991 3381 0.603975 AAGAGAGTGAGGGCGCAAAC 60.604 55.000 10.83 0.73 0.00 2.93
2999 3389 1.518903 GAGGGCGCAAACAGAAGCTT 61.519 55.000 10.83 0.00 0.00 3.74
3103 3495 8.702438 CCTGCATTTTCAAATTACTTGTACAAG 58.298 33.333 29.76 29.76 43.79 3.16
3140 3532 2.529780 TTGCATTGCCTTGTTTCCAG 57.470 45.000 6.12 0.00 0.00 3.86
3143 3535 3.164268 TGCATTGCCTTGTTTCCAGTAT 58.836 40.909 6.12 0.00 0.00 2.12
3180 3572 9.551734 TCTTTTCTTTTGTTAGTTACTACTCCC 57.448 33.333 0.00 0.00 35.78 4.30
3181 3573 9.557061 CTTTTCTTTTGTTAGTTACTACTCCCT 57.443 33.333 0.00 0.00 35.78 4.20
3182 3574 9.551734 TTTTCTTTTGTTAGTTACTACTCCCTC 57.448 33.333 0.00 0.00 35.78 4.30
3183 3575 7.237209 TCTTTTGTTAGTTACTACTCCCTCC 57.763 40.000 0.00 0.00 35.78 4.30
3184 3576 5.649782 TTTGTTAGTTACTACTCCCTCCG 57.350 43.478 0.00 0.00 35.78 4.63
3185 3577 4.307032 TGTTAGTTACTACTCCCTCCGT 57.693 45.455 0.00 0.00 35.78 4.69
3186 3578 5.435686 TGTTAGTTACTACTCCCTCCGTA 57.564 43.478 0.00 0.00 35.78 4.02
3187 3579 5.815581 TGTTAGTTACTACTCCCTCCGTAA 58.184 41.667 0.00 0.00 35.78 3.18
3188 3580 6.245408 TGTTAGTTACTACTCCCTCCGTAAA 58.755 40.000 0.00 0.00 35.78 2.01
3189 3581 6.375455 TGTTAGTTACTACTCCCTCCGTAAAG 59.625 42.308 0.00 0.00 35.78 1.85
3190 3582 5.184892 AGTTACTACTCCCTCCGTAAAGA 57.815 43.478 0.00 0.00 0.00 2.52
3191 3583 5.574188 AGTTACTACTCCCTCCGTAAAGAA 58.426 41.667 0.00 0.00 0.00 2.52
3192 3584 6.012745 AGTTACTACTCCCTCCGTAAAGAAA 58.987 40.000 0.00 0.00 0.00 2.52
3193 3585 6.666980 AGTTACTACTCCCTCCGTAAAGAAAT 59.333 38.462 0.00 0.00 0.00 2.17
3194 3586 7.836183 AGTTACTACTCCCTCCGTAAAGAAATA 59.164 37.037 0.00 0.00 0.00 1.40
3195 3587 8.637099 GTTACTACTCCCTCCGTAAAGAAATAT 58.363 37.037 0.00 0.00 0.00 1.28
3196 3588 9.866655 TTACTACTCCCTCCGTAAAGAAATATA 57.133 33.333 0.00 0.00 0.00 0.86
3197 3589 8.773033 ACTACTCCCTCCGTAAAGAAATATAA 57.227 34.615 0.00 0.00 0.00 0.98
3198 3590 8.858094 ACTACTCCCTCCGTAAAGAAATATAAG 58.142 37.037 0.00 0.00 0.00 1.73
3199 3591 7.909485 ACTCCCTCCGTAAAGAAATATAAGA 57.091 36.000 0.00 0.00 0.00 2.10
3200 3592 7.953752 ACTCCCTCCGTAAAGAAATATAAGAG 58.046 38.462 0.00 0.00 0.00 2.85
3201 3593 7.564292 ACTCCCTCCGTAAAGAAATATAAGAGT 59.436 37.037 0.00 0.00 0.00 3.24
3202 3594 7.723324 TCCCTCCGTAAAGAAATATAAGAGTG 58.277 38.462 0.00 0.00 0.00 3.51
3203 3595 7.343833 TCCCTCCGTAAAGAAATATAAGAGTGT 59.656 37.037 0.00 0.00 0.00 3.55
3204 3596 7.985752 CCCTCCGTAAAGAAATATAAGAGTGTT 59.014 37.037 0.00 0.00 0.00 3.32
3205 3597 9.379791 CCTCCGTAAAGAAATATAAGAGTGTTT 57.620 33.333 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
58 59 4.247267 ACACTGCTACTTTGTACGCTTA 57.753 40.909 0.00 0.00 0.00 3.09
153 154 9.654919 TTAGGGCCTTAGAATAAATTTAGCAAT 57.345 29.630 13.45 0.00 0.00 3.56
264 265 6.260936 CCTGGTTCCATCACTCAAACATATAC 59.739 42.308 0.00 0.00 0.00 1.47
276 277 1.685224 TGGAGCCTGGTTCCATCAC 59.315 57.895 26.25 2.67 37.99 3.06
372 373 4.177165 TGCCTGCAATTTGTGAACATAG 57.823 40.909 0.00 0.00 0.00 2.23
486 487 9.258826 TGGTTTTGATCAACTCATTTATGTTTG 57.741 29.630 7.89 0.00 32.72 2.93
495 496 6.469782 AGTTGTTGGTTTTGATCAACTCAT 57.530 33.333 7.89 0.00 42.98 2.90
528 529 1.072806 AGGTCAGCTGTCAATCTGCAA 59.927 47.619 14.67 0.00 42.26 4.08
573 574 2.886523 ACAACACATTGACCATGGAGTG 59.113 45.455 21.47 18.94 39.30 3.51
611 617 7.047891 TGAGCTTCTCTCAGTGTTTTCTTTTA 58.952 34.615 0.00 0.00 46.34 1.52
614 620 5.028549 TGAGCTTCTCTCAGTGTTTTCTT 57.971 39.130 0.00 0.00 46.34 2.52
615 621 4.679373 TGAGCTTCTCTCAGTGTTTTCT 57.321 40.909 0.00 0.00 46.34 2.52
904 919 5.130350 AGAGCACAAACAAAAAGGTAGCTA 58.870 37.500 0.00 0.00 0.00 3.32
916 931 8.011844 AGTATGATATACAGAGAGCACAAACA 57.988 34.615 2.24 0.00 0.00 2.83
969 997 3.704566 TGTCTTAAGCCTGGTCGTGATAT 59.295 43.478 0.00 0.00 0.00 1.63
1026 1054 8.803235 TGGATCTGTATATACGTTTAGATGCTT 58.197 33.333 22.05 3.99 35.09 3.91
1084 1112 7.591426 GTCACAAATTCATAAGAACACCTCAAC 59.409 37.037 0.00 0.00 36.39 3.18
1104 1132 4.594123 TCTCGTATTGTTCCTGTCACAA 57.406 40.909 0.00 0.00 38.49 3.33
1588 1617 9.941325 ATTTTAGCATTGTAATTTTGATGGACA 57.059 25.926 0.00 0.00 0.00 4.02
1664 1697 4.643463 TGAATGCTAGACCGGTTTAACAA 58.357 39.130 9.42 0.00 0.00 2.83
1672 1705 3.016736 ACCAAAATGAATGCTAGACCGG 58.983 45.455 0.00 0.00 0.00 5.28
1678 1711 7.470424 GCATCAATAGGACCAAAATGAATGCTA 60.470 37.037 0.00 0.00 0.00 3.49
1686 1719 9.768662 GAATAATTGCATCAATAGGACCAAAAT 57.231 29.630 0.00 0.00 32.43 1.82
1706 1739 7.284034 AGCGAAAGATGAACATGAAGGAATAAT 59.716 33.333 0.00 0.00 0.00 1.28
1764 1797 6.843752 TCCTATGTACCTCCTGTTTCAAAAA 58.156 36.000 0.00 0.00 0.00 1.94
1765 1798 6.043938 ACTCCTATGTACCTCCTGTTTCAAAA 59.956 38.462 0.00 0.00 0.00 2.44
1766 1799 5.546499 ACTCCTATGTACCTCCTGTTTCAAA 59.454 40.000 0.00 0.00 0.00 2.69
1767 1800 5.091552 ACTCCTATGTACCTCCTGTTTCAA 58.908 41.667 0.00 0.00 0.00 2.69
1768 1801 4.684724 ACTCCTATGTACCTCCTGTTTCA 58.315 43.478 0.00 0.00 0.00 2.69
1769 1802 5.678955 AACTCCTATGTACCTCCTGTTTC 57.321 43.478 0.00 0.00 0.00 2.78
1770 1803 5.661759 CCTAACTCCTATGTACCTCCTGTTT 59.338 44.000 0.00 0.00 0.00 2.83
1771 1804 5.043582 TCCTAACTCCTATGTACCTCCTGTT 60.044 44.000 0.00 0.00 0.00 3.16
1772 1805 4.481280 TCCTAACTCCTATGTACCTCCTGT 59.519 45.833 0.00 0.00 0.00 4.00
1773 1806 4.828387 GTCCTAACTCCTATGTACCTCCTG 59.172 50.000 0.00 0.00 0.00 3.86
1774 1807 4.446023 CGTCCTAACTCCTATGTACCTCCT 60.446 50.000 0.00 0.00 0.00 3.69
1775 1808 3.819902 CGTCCTAACTCCTATGTACCTCC 59.180 52.174 0.00 0.00 0.00 4.30
1776 1809 3.252944 GCGTCCTAACTCCTATGTACCTC 59.747 52.174 0.00 0.00 0.00 3.85
1777 1810 3.220940 GCGTCCTAACTCCTATGTACCT 58.779 50.000 0.00 0.00 0.00 3.08
1778 1811 2.954318 TGCGTCCTAACTCCTATGTACC 59.046 50.000 0.00 0.00 0.00 3.34
1779 1812 3.881688 TCTGCGTCCTAACTCCTATGTAC 59.118 47.826 0.00 0.00 0.00 2.90
1780 1813 4.160642 TCTGCGTCCTAACTCCTATGTA 57.839 45.455 0.00 0.00 0.00 2.29
1781 1814 3.014304 TCTGCGTCCTAACTCCTATGT 57.986 47.619 0.00 0.00 0.00 2.29
1782 1815 4.202161 ACATTCTGCGTCCTAACTCCTATG 60.202 45.833 0.00 0.00 0.00 2.23
1783 1816 3.961408 ACATTCTGCGTCCTAACTCCTAT 59.039 43.478 0.00 0.00 0.00 2.57
1784 1817 3.362706 ACATTCTGCGTCCTAACTCCTA 58.637 45.455 0.00 0.00 0.00 2.94
1785 1818 2.180276 ACATTCTGCGTCCTAACTCCT 58.820 47.619 0.00 0.00 0.00 3.69
1786 1819 2.674796 ACATTCTGCGTCCTAACTCC 57.325 50.000 0.00 0.00 0.00 3.85
1787 1820 3.858238 GTGTACATTCTGCGTCCTAACTC 59.142 47.826 0.00 0.00 0.00 3.01
1788 1821 3.257375 TGTGTACATTCTGCGTCCTAACT 59.743 43.478 0.00 0.00 0.00 2.24
1789 1822 3.581755 TGTGTACATTCTGCGTCCTAAC 58.418 45.455 0.00 0.00 0.00 2.34
1790 1823 3.945981 TGTGTACATTCTGCGTCCTAA 57.054 42.857 0.00 0.00 0.00 2.69
1797 1830 2.228582 TGGTGCAATGTGTACATTCTGC 59.771 45.455 15.32 15.32 44.10 4.26
1874 1907 2.223782 ACATGATGTGTGTGTGTTTGGC 60.224 45.455 0.00 0.00 40.28 4.52
1904 1952 3.997021 CGTAGCAGTTGAGAAATGAAGGT 59.003 43.478 0.00 0.00 0.00 3.50
1926 1974 0.175989 ACTAGCTTCCTACTTGGCGC 59.824 55.000 0.00 0.00 35.26 6.53
1941 1989 4.261825 GCTTCATAGCTGGTGACCTACTAG 60.262 50.000 2.11 0.00 44.27 2.57
1963 2011 0.302890 GTGCATCGTACATCAGCTGC 59.697 55.000 9.47 0.00 0.00 5.25
1966 2014 0.302890 GCAGTGCATCGTACATCAGC 59.697 55.000 11.09 0.00 0.00 4.26
2022 2070 2.510768 AGCGAATAAGCCCGAAGTAG 57.489 50.000 0.00 0.00 38.01 2.57
2029 2077 1.132453 GTGTCCAAAGCGAATAAGCCC 59.868 52.381 0.00 0.00 38.01 5.19
2035 2083 3.057969 TCTGATGTGTCCAAAGCGAAT 57.942 42.857 0.00 0.00 0.00 3.34
2043 2091 2.553028 GGGCTTTCTTCTGATGTGTCCA 60.553 50.000 0.00 0.00 0.00 4.02
2048 2096 4.202461 TGTTACTGGGCTTTCTTCTGATGT 60.202 41.667 0.00 0.00 0.00 3.06
2049 2097 4.154918 GTGTTACTGGGCTTTCTTCTGATG 59.845 45.833 0.00 0.00 0.00 3.07
2051 2099 3.496160 GGTGTTACTGGGCTTTCTTCTGA 60.496 47.826 0.00 0.00 0.00 3.27
2056 2104 1.774856 ACAGGTGTTACTGGGCTTTCT 59.225 47.619 0.00 0.00 42.75 2.52
2096 2144 2.190578 CCTCCATGCCTCGGGAAC 59.809 66.667 0.00 0.00 31.58 3.62
2224 2272 3.313526 GCTGTTGAACAAGCTTTCAGAGA 59.686 43.478 0.00 0.00 36.84 3.10
2232 2280 2.566952 GTTGTGCTGTTGAACAAGCT 57.433 45.000 16.50 0.00 42.00 3.74
2237 2285 0.455410 TGCTGGTTGTGCTGTTGAAC 59.545 50.000 0.00 0.00 0.00 3.18
2259 2307 1.694018 GATGACAGAGTGCAGCAGCG 61.694 60.000 0.00 0.00 46.23 5.18
2311 2360 0.038343 TTGGCGGAAAATGCTTGAGC 60.038 50.000 0.00 0.00 42.50 4.26
2313 2363 1.541147 CTCTTGGCGGAAAATGCTTGA 59.459 47.619 0.00 0.00 0.00 3.02
2344 2394 4.062293 CACGGATAGAAACAAGGAACACA 58.938 43.478 0.00 0.00 0.00 3.72
2351 2401 5.584649 TCATTAAGCCACGGATAGAAACAAG 59.415 40.000 0.00 0.00 0.00 3.16
2417 2467 4.101585 CCTGGATTCCTATCTACTGCACAA 59.898 45.833 3.95 0.00 0.00 3.33
2419 2469 3.007398 CCCTGGATTCCTATCTACTGCAC 59.993 52.174 3.95 0.00 0.00 4.57
2422 2472 4.093011 CTCCCCTGGATTCCTATCTACTG 58.907 52.174 3.95 0.00 0.00 2.74
2424 2474 4.349365 CTCTCCCCTGGATTCCTATCTAC 58.651 52.174 3.95 0.00 0.00 2.59
2425 2475 3.338214 CCTCTCCCCTGGATTCCTATCTA 59.662 52.174 3.95 0.00 0.00 1.98
2427 2477 2.158081 ACCTCTCCCCTGGATTCCTATC 60.158 54.545 3.95 0.00 0.00 2.08
2428 2478 1.876473 ACCTCTCCCCTGGATTCCTAT 59.124 52.381 3.95 0.00 0.00 2.57
2429 2479 1.062121 CACCTCTCCCCTGGATTCCTA 60.062 57.143 3.95 0.00 0.00 2.94
2430 2480 0.327000 CACCTCTCCCCTGGATTCCT 60.327 60.000 3.95 0.00 0.00 3.36
2431 2481 0.621862 ACACCTCTCCCCTGGATTCC 60.622 60.000 0.00 0.00 0.00 3.01
2432 2482 2.043227 CTACACCTCTCCCCTGGATTC 58.957 57.143 0.00 0.00 0.00 2.52
2433 2483 1.344496 CCTACACCTCTCCCCTGGATT 60.344 57.143 0.00 0.00 0.00 3.01
2434 2484 0.266152 CCTACACCTCTCCCCTGGAT 59.734 60.000 0.00 0.00 0.00 3.41
2435 2485 0.854039 TCCTACACCTCTCCCCTGGA 60.854 60.000 0.00 0.00 0.00 3.86
2436 2486 0.042731 TTCCTACACCTCTCCCCTGG 59.957 60.000 0.00 0.00 0.00 4.45
2437 2487 1.196012 GTTCCTACACCTCTCCCCTG 58.804 60.000 0.00 0.00 0.00 4.45
2438 2488 1.094269 AGTTCCTACACCTCTCCCCT 58.906 55.000 0.00 0.00 0.00 4.79
2439 2489 1.196012 CAGTTCCTACACCTCTCCCC 58.804 60.000 0.00 0.00 0.00 4.81
2440 2490 1.196012 CCAGTTCCTACACCTCTCCC 58.804 60.000 0.00 0.00 0.00 4.30
2441 2491 1.196012 CCCAGTTCCTACACCTCTCC 58.804 60.000 0.00 0.00 0.00 3.71
2442 2492 0.537653 GCCCAGTTCCTACACCTCTC 59.462 60.000 0.00 0.00 0.00 3.20
2443 2493 0.178903 TGCCCAGTTCCTACACCTCT 60.179 55.000 0.00 0.00 0.00 3.69
2444 2494 0.912486 ATGCCCAGTTCCTACACCTC 59.088 55.000 0.00 0.00 0.00 3.85
2445 2495 0.620556 CATGCCCAGTTCCTACACCT 59.379 55.000 0.00 0.00 0.00 4.00
2446 2496 0.394352 CCATGCCCAGTTCCTACACC 60.394 60.000 0.00 0.00 0.00 4.16
2447 2497 0.618458 TCCATGCCCAGTTCCTACAC 59.382 55.000 0.00 0.00 0.00 2.90
2448 2498 1.367346 TTCCATGCCCAGTTCCTACA 58.633 50.000 0.00 0.00 0.00 2.74
2449 2499 2.576615 GATTCCATGCCCAGTTCCTAC 58.423 52.381 0.00 0.00 0.00 3.18
2450 2500 1.494721 GGATTCCATGCCCAGTTCCTA 59.505 52.381 0.00 0.00 0.00 2.94
2451 2501 0.259938 GGATTCCATGCCCAGTTCCT 59.740 55.000 0.00 0.00 0.00 3.36
2452 2502 0.756815 GGGATTCCATGCCCAGTTCC 60.757 60.000 4.80 0.00 44.07 3.62
2453 2503 2.812664 GGGATTCCATGCCCAGTTC 58.187 57.895 4.80 0.00 44.07 3.01
2458 2508 1.482182 GAAACTTGGGATTCCATGCCC 59.518 52.381 5.82 0.00 43.63 5.36
2459 2509 2.178580 TGAAACTTGGGATTCCATGCC 58.821 47.619 5.82 0.00 43.63 4.40
2460 2510 3.448301 TGATGAAACTTGGGATTCCATGC 59.552 43.478 5.82 0.00 43.63 4.06
2461 2511 4.441079 GCTGATGAAACTTGGGATTCCATG 60.441 45.833 4.80 4.32 43.63 3.66
2462 2512 3.703052 GCTGATGAAACTTGGGATTCCAT 59.297 43.478 4.80 0.00 43.63 3.41
2463 2513 3.091545 GCTGATGAAACTTGGGATTCCA 58.908 45.455 4.80 0.00 42.25 3.53
2464 2514 3.091545 TGCTGATGAAACTTGGGATTCC 58.908 45.455 0.00 0.00 0.00 3.01
2465 2515 4.996788 ATGCTGATGAAACTTGGGATTC 57.003 40.909 0.00 0.00 0.00 2.52
2466 2516 4.622220 GCAATGCTGATGAAACTTGGGATT 60.622 41.667 0.00 0.00 0.00 3.01
2467 2517 3.118884 GCAATGCTGATGAAACTTGGGAT 60.119 43.478 0.00 0.00 0.00 3.85
2468 2518 2.231964 GCAATGCTGATGAAACTTGGGA 59.768 45.455 0.00 0.00 0.00 4.37
2469 2519 2.232941 AGCAATGCTGATGAAACTTGGG 59.767 45.455 7.07 0.00 37.57 4.12
2470 2520 3.587797 AGCAATGCTGATGAAACTTGG 57.412 42.857 7.07 0.00 37.57 3.61
2471 2521 4.304110 ACAAGCAATGCTGATGAAACTTG 58.696 39.130 9.14 2.03 39.62 3.16
2472 2522 4.595762 ACAAGCAATGCTGATGAAACTT 57.404 36.364 9.14 0.00 39.62 2.66
2473 2523 5.909621 ATACAAGCAATGCTGATGAAACT 57.090 34.783 9.14 0.00 39.62 2.66
2474 2524 7.253420 CGTTTATACAAGCAATGCTGATGAAAC 60.253 37.037 9.14 14.12 39.62 2.78
2475 2525 6.746822 CGTTTATACAAGCAATGCTGATGAAA 59.253 34.615 9.14 3.61 39.62 2.69
2476 2526 6.257423 CGTTTATACAAGCAATGCTGATGAA 58.743 36.000 9.14 3.48 39.62 2.57
2493 2543 5.008619 TGACAATCTAACCCGCGTTTATA 57.991 39.130 4.92 0.00 33.17 0.98
2496 2546 2.172851 TGACAATCTAACCCGCGTTT 57.827 45.000 4.92 0.00 33.17 3.60
2499 2549 1.651987 ACATGACAATCTAACCCGCG 58.348 50.000 0.00 0.00 0.00 6.46
2531 2581 2.264455 CTCCTCCCCTGGATTCCTATG 58.736 57.143 3.95 0.00 35.30 2.23
2549 2599 1.407437 CCATGCCCAGTTCCTACACTC 60.407 57.143 0.00 0.00 0.00 3.51
2574 2624 4.227300 AGCCCATTAACACATAGGACTTGA 59.773 41.667 0.00 0.00 0.00 3.02
2584 2634 0.611618 CCAGCCAGCCCATTAACACA 60.612 55.000 0.00 0.00 0.00 3.72
2589 2639 1.490490 CTAACTCCAGCCAGCCCATTA 59.510 52.381 0.00 0.00 0.00 1.90
2607 2657 0.324943 GCAGCAAAGACTCCCCACTA 59.675 55.000 0.00 0.00 0.00 2.74
2645 2695 5.279406 CCAAATTTACTTGCCCAACTCATCA 60.279 40.000 0.00 0.00 0.00 3.07
2655 2705 3.864540 GCCTTGGACCAAATTTACTTGCC 60.865 47.826 8.59 0.00 0.00 4.52
2668 2922 2.979678 TGATAATCTAGGGCCTTGGACC 59.020 50.000 13.45 2.61 0.00 4.46
2697 2951 5.739070 GCATGCATCCAAAGATCAATGACAT 60.739 40.000 14.21 0.00 29.39 3.06
2703 2957 2.429250 CCAGCATGCATCCAAAGATCAA 59.571 45.455 21.98 0.00 31.97 2.57
2705 2959 2.029623 ACCAGCATGCATCCAAAGATC 58.970 47.619 21.98 0.00 31.97 2.75
2711 2965 1.630223 TGAAAACCAGCATGCATCCA 58.370 45.000 21.98 4.74 31.97 3.41
2712 2966 2.973694 ATGAAAACCAGCATGCATCC 57.026 45.000 21.98 0.00 31.97 3.51
2739 2993 9.719355 TGCTGTAAATCTTCAACAGATACTTAA 57.281 29.630 5.91 0.00 41.93 1.85
2747 3001 6.981762 ATCTCTGCTGTAAATCTTCAACAG 57.018 37.500 0.00 0.00 42.80 3.16
2748 3002 9.453572 AAATATCTCTGCTGTAAATCTTCAACA 57.546 29.630 0.00 0.00 0.00 3.33
2750 3004 9.453572 ACAAATATCTCTGCTGTAAATCTTCAA 57.546 29.630 0.00 0.00 0.00 2.69
2775 3029 2.827921 AGCCTGGTTCCATCATTCAAAC 59.172 45.455 0.00 0.00 0.00 2.93
2785 3039 0.776810 TTTCATGGAGCCTGGTTCCA 59.223 50.000 30.80 30.80 46.22 3.53
2786 3040 1.177401 GTTTCATGGAGCCTGGTTCC 58.823 55.000 21.51 21.51 33.44 3.62
2788 3042 0.400213 TCGTTTCATGGAGCCTGGTT 59.600 50.000 0.00 0.00 0.00 3.67
2790 3044 1.200020 GTTTCGTTTCATGGAGCCTGG 59.800 52.381 0.00 0.00 0.00 4.45
2791 3045 1.879380 TGTTTCGTTTCATGGAGCCTG 59.121 47.619 0.00 0.00 0.00 4.85
2793 3047 2.351738 CCTTGTTTCGTTTCATGGAGCC 60.352 50.000 0.00 0.00 32.78 4.70
2794 3048 2.351738 CCCTTGTTTCGTTTCATGGAGC 60.352 50.000 0.00 0.00 32.78 4.70
2795 3049 2.351738 GCCCTTGTTTCGTTTCATGGAG 60.352 50.000 0.00 0.00 32.78 3.86
2796 3050 1.611491 GCCCTTGTTTCGTTTCATGGA 59.389 47.619 0.00 0.00 32.78 3.41
2797 3051 1.336795 GGCCCTTGTTTCGTTTCATGG 60.337 52.381 0.00 0.00 0.00 3.66
2798 3052 1.339610 TGGCCCTTGTTTCGTTTCATG 59.660 47.619 0.00 0.00 0.00 3.07
2799 3053 1.698506 TGGCCCTTGTTTCGTTTCAT 58.301 45.000 0.00 0.00 0.00 2.57
2800 3054 1.339610 CATGGCCCTTGTTTCGTTTCA 59.660 47.619 0.00 0.00 0.00 2.69
2801 3055 1.934849 GCATGGCCCTTGTTTCGTTTC 60.935 52.381 0.00 0.00 0.00 2.78
2802 3056 0.033366 GCATGGCCCTTGTTTCGTTT 59.967 50.000 0.00 0.00 0.00 3.60
2803 3057 0.827507 AGCATGGCCCTTGTTTCGTT 60.828 50.000 0.00 0.00 0.00 3.85
2804 3058 1.228552 AGCATGGCCCTTGTTTCGT 60.229 52.632 0.00 0.00 0.00 3.85
2805 3059 0.962356 AGAGCATGGCCCTTGTTTCG 60.962 55.000 0.00 0.00 0.00 3.46
2815 3069 3.445096 AGTTGTTAATGGAAGAGCATGGC 59.555 43.478 0.00 0.00 0.00 4.40
2816 3070 4.142315 CCAGTTGTTAATGGAAGAGCATGG 60.142 45.833 0.00 0.00 39.02 3.66
2826 3080 4.158209 TCATGCATCACCAGTTGTTAATGG 59.842 41.667 0.00 0.00 42.60 3.16
2831 3085 2.585330 TGTCATGCATCACCAGTTGTT 58.415 42.857 0.00 0.00 0.00 2.83
2855 3134 3.181497 GCACTGCACAGAAGAGAAACAAA 60.181 43.478 4.31 0.00 0.00 2.83
2864 3143 1.277739 CACACGCACTGCACAGAAG 59.722 57.895 4.31 0.00 0.00 2.85
2925 3204 3.758023 CCATGATGAGTTTAACAGGTGCA 59.242 43.478 0.00 0.00 0.00 4.57
2926 3205 3.758554 ACCATGATGAGTTTAACAGGTGC 59.241 43.478 0.00 0.00 0.00 5.01
2927 3206 5.003160 TGACCATGATGAGTTTAACAGGTG 58.997 41.667 0.00 0.00 0.00 4.00
2928 3207 5.241403 TGACCATGATGAGTTTAACAGGT 57.759 39.130 0.00 0.00 0.00 4.00
2929 3208 6.151648 ACATTGACCATGATGAGTTTAACAGG 59.848 38.462 0.00 0.00 36.24 4.00
2932 3211 5.801947 GCACATTGACCATGATGAGTTTAAC 59.198 40.000 0.00 0.00 36.24 2.01
2933 3212 5.711506 AGCACATTGACCATGATGAGTTTAA 59.288 36.000 0.00 0.00 36.24 1.52
2939 3329 3.076079 ACAGCACATTGACCATGATGA 57.924 42.857 0.00 0.00 36.24 2.92
2941 3331 5.477984 AGTTTAACAGCACATTGACCATGAT 59.522 36.000 0.00 0.00 36.24 2.45
2969 3359 0.108585 TGCGCCCTCACTCTCTTTTT 59.891 50.000 4.18 0.00 0.00 1.94
2973 3363 1.004440 GTTTGCGCCCTCACTCTCT 60.004 57.895 4.18 0.00 0.00 3.10
2983 3373 0.875059 AGTAAGCTTCTGTTTGCGCC 59.125 50.000 0.00 0.00 0.00 6.53
3164 3556 4.307032 ACGGAGGGAGTAGTAACTAACA 57.693 45.455 0.00 0.00 35.56 2.41
3165 3557 6.599638 TCTTTACGGAGGGAGTAGTAACTAAC 59.400 42.308 0.00 0.00 35.56 2.34
3167 3559 6.313519 TCTTTACGGAGGGAGTAGTAACTA 57.686 41.667 0.00 0.00 35.56 2.24
3168 3560 5.184892 TCTTTACGGAGGGAGTAGTAACT 57.815 43.478 0.00 0.00 39.21 2.24
3169 3561 5.904362 TTCTTTACGGAGGGAGTAGTAAC 57.096 43.478 0.00 0.00 0.00 2.50
3170 3562 8.773033 ATATTTCTTTACGGAGGGAGTAGTAA 57.227 34.615 0.00 0.00 0.00 2.24
3171 3563 9.866655 TTATATTTCTTTACGGAGGGAGTAGTA 57.133 33.333 0.00 0.00 0.00 1.82
3172 3564 8.773033 TTATATTTCTTTACGGAGGGAGTAGT 57.227 34.615 0.00 0.00 0.00 2.73
3173 3565 9.075678 TCTTATATTTCTTTACGGAGGGAGTAG 57.924 37.037 0.00 0.00 0.00 2.57
3178 3570 7.498443 ACACTCTTATATTTCTTTACGGAGGG 58.502 38.462 0.00 0.00 0.00 4.30
3179 3571 8.943909 AACACTCTTATATTTCTTTACGGAGG 57.056 34.615 0.00 0.00 0.00 4.30


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

AutoCloner maintained by Alex Coulton.