Multiple sequence alignment - TraesCS6B01G306500

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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 TraesCS6B01G306500 chr6B 100.000 3256 0 0 1 3256 550053944 550050689 0.000000e+00 6013
1 TraesCS6B01G306500 chr6A 95.079 1463 46 7 889 2330 506228219 506226762 0.000000e+00 2279
2 TraesCS6B01G306500 chr6A 90.196 867 71 12 1 857 506231902 506231040 0.000000e+00 1118
3 TraesCS6B01G306500 chr6A 73.118 930 209 31 1249 2168 570726306 570727204 8.830000e-76 294
4 TraesCS6B01G306500 chr6D 97.315 782 18 3 1460 2241 365029439 365028661 0.000000e+00 1325
5 TraesCS6B01G306500 chr6D 93.007 858 52 7 1 855 365269008 365268156 0.000000e+00 1245
6 TraesCS6B01G306500 chr6D 95.645 643 19 1 843 1476 365031006 365030364 0.000000e+00 1024
7 TraesCS6B01G306500 chr6D 88.360 756 54 12 2527 3256 51336419 51335672 0.000000e+00 878
8 TraesCS6B01G306500 chr6D 90.444 450 39 4 2527 2973 51339682 51339234 1.010000e-164 590
9 TraesCS6B01G306500 chr6D 86.681 473 35 13 2527 2973 51337742 51337272 1.740000e-137 499
10 TraesCS6B01G306500 chr6D 86.681 473 35 14 2527 2973 51339043 51338573 1.740000e-137 499
11 TraesCS6B01G306500 chr6D 86.345 476 38 12 2527 2976 51337081 51336607 8.120000e-136 494
12 TraesCS6B01G306500 chr6D 95.563 293 12 1 2238 2530 365012052 365011761 4.920000e-128 468
13 TraesCS6B01G306500 chr5B 91.281 734 46 11 2531 3256 706383313 706384036 0.000000e+00 985
14 TraesCS6B01G306500 chr5D 90.553 741 44 13 2527 3243 417614422 417615160 0.000000e+00 957
15 TraesCS6B01G306500 chr5D 90.082 736 45 17 2531 3243 8184101 8183371 0.000000e+00 929
16 TraesCS6B01G306500 chr5D 88.649 696 47 16 2590 3256 313785891 313785199 0.000000e+00 819
17 TraesCS6B01G306500 chr1A 89.538 736 51 12 2531 3243 143320527 143321259 0.000000e+00 909
18 TraesCS6B01G306500 chr1A 84.298 121 18 1 304 423 580102151 580102031 2.050000e-22 117
19 TraesCS6B01G306500 chr2B 88.992 754 52 13 2530 3256 691269036 691269785 0.000000e+00 904
20 TraesCS6B01G306500 chr2B 87.899 752 49 21 2531 3243 644514747 644513999 0.000000e+00 846
21 TraesCS6B01G306500 chr2B 84.946 186 26 2 660 844 601893264 601893080 1.540000e-43 187
22 TraesCS6B01G306500 chr1B 79.745 1254 232 14 1007 2258 524154886 524153653 0.000000e+00 889
23 TraesCS6B01G306500 chr1B 79.473 1252 239 10 1007 2258 524162025 524160792 0.000000e+00 872
24 TraesCS6B01G306500 chr7A 90.131 689 56 9 2576 3256 729282796 729282112 0.000000e+00 885
25 TraesCS6B01G306500 chr7A 86.634 202 25 2 651 851 727006670 727006870 4.230000e-54 222
26 TraesCS6B01G306500 chr2A 89.843 699 58 9 2562 3256 446671940 446672629 0.000000e+00 885
27 TraesCS6B01G306500 chr3D 88.026 760 62 15 2523 3256 584475622 584476378 0.000000e+00 872
28 TraesCS6B01G306500 chrUn 86.567 201 25 2 651 850 83678154 83678353 1.520000e-53 220
29 TraesCS6B01G306500 chr7D 86.154 195 25 2 651 844 83866645 83866838 3.290000e-50 209
30 TraesCS6B01G306500 chr7D 83.871 217 32 3 639 853 83865752 83865537 1.530000e-48 204
31 TraesCS6B01G306500 chr4A 84.946 186 25 3 660 844 56417443 56417260 5.550000e-43 185
32 TraesCS6B01G306500 chr3A 83.684 190 29 2 656 844 746141211 746141023 9.280000e-41 178
33 TraesCS6B01G306500 chr7B 77.385 283 36 16 27 281 639490799 639491081 3.390000e-30 143


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 TraesCS6B01G306500 chr6B 550050689 550053944 3255 True 6013.0 6013 100.0000 1 3256 1 chr6B.!!$R1 3255
1 TraesCS6B01G306500 chr6A 506226762 506231902 5140 True 1698.5 2279 92.6375 1 2330 2 chr6A.!!$R1 2329
2 TraesCS6B01G306500 chr6A 570726306 570727204 898 False 294.0 294 73.1180 1249 2168 1 chr6A.!!$F1 919
3 TraesCS6B01G306500 chr6D 365268156 365269008 852 True 1245.0 1245 93.0070 1 855 1 chr6D.!!$R2 854
4 TraesCS6B01G306500 chr6D 365028661 365031006 2345 True 1174.5 1325 96.4800 843 2241 2 chr6D.!!$R4 1398
5 TraesCS6B01G306500 chr6D 51335672 51339682 4010 True 592.0 878 87.7022 2527 3256 5 chr6D.!!$R3 729
6 TraesCS6B01G306500 chr5B 706383313 706384036 723 False 985.0 985 91.2810 2531 3256 1 chr5B.!!$F1 725
7 TraesCS6B01G306500 chr5D 417614422 417615160 738 False 957.0 957 90.5530 2527 3243 1 chr5D.!!$F1 716
8 TraesCS6B01G306500 chr5D 8183371 8184101 730 True 929.0 929 90.0820 2531 3243 1 chr5D.!!$R1 712
9 TraesCS6B01G306500 chr5D 313785199 313785891 692 True 819.0 819 88.6490 2590 3256 1 chr5D.!!$R2 666
10 TraesCS6B01G306500 chr1A 143320527 143321259 732 False 909.0 909 89.5380 2531 3243 1 chr1A.!!$F1 712
11 TraesCS6B01G306500 chr2B 691269036 691269785 749 False 904.0 904 88.9920 2530 3256 1 chr2B.!!$F1 726
12 TraesCS6B01G306500 chr2B 644513999 644514747 748 True 846.0 846 87.8990 2531 3243 1 chr2B.!!$R2 712
13 TraesCS6B01G306500 chr1B 524153653 524154886 1233 True 889.0 889 79.7450 1007 2258 1 chr1B.!!$R1 1251
14 TraesCS6B01G306500 chr1B 524160792 524162025 1233 True 872.0 872 79.4730 1007 2258 1 chr1B.!!$R2 1251
15 TraesCS6B01G306500 chr7A 729282112 729282796 684 True 885.0 885 90.1310 2576 3256 1 chr7A.!!$R1 680
16 TraesCS6B01G306500 chr2A 446671940 446672629 689 False 885.0 885 89.8430 2562 3256 1 chr2A.!!$F1 694
17 TraesCS6B01G306500 chr3D 584475622 584476378 756 False 872.0 872 88.0260 2523 3256 1 chr3D.!!$F1 733

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
25 26 0.179040 ATGACGTGACCCGGTTTTGT 60.179 50.0 0.00 0.0 42.24 2.83 F
366 374 0.182775 AACCTCGGCCAGTTCAAGTT 59.817 50.0 2.24 0.0 0.00 2.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1853 5610 0.762842 AGGTCCAGTGCACACAGGTA 60.763 55.0 21.04 5.50 38.87 3.08 R
2341 6106 0.318441 TTCTGCTTGGTCGACCTGAG 59.682 55.0 33.39 28.65 36.82 3.35 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
25 26 0.179040 ATGACGTGACCCGGTTTTGT 60.179 50.000 0.00 0.00 42.24 2.83
47 48 0.402504 AAAACCGTCCACATGGCCTA 59.597 50.000 3.32 0.00 34.44 3.93
52 54 2.240160 ACCGTCCACATGGCCTATTTTA 59.760 45.455 3.32 0.00 34.44 1.52
185 191 3.014085 GCCCGGTGGAGATTCACGA 62.014 63.158 0.00 0.00 38.46 4.35
283 289 2.123897 GGTGGTGGTTGGCTGTGT 60.124 61.111 0.00 0.00 0.00 3.72
290 296 2.345991 GTTGGCTGTGTAGGGCGA 59.654 61.111 0.00 0.00 0.00 5.54
292 298 2.512355 TTGGCTGTGTAGGGCGACA 61.512 57.895 0.00 0.00 0.00 4.35
302 308 2.881539 TAGGGCGACACCGACGATCT 62.882 60.000 0.00 0.00 46.99 2.75
313 321 4.779733 ACGATCTGGCGGGGGTCT 62.780 66.667 0.00 0.00 35.12 3.85
366 374 0.182775 AACCTCGGCCAGTTCAAGTT 59.817 50.000 2.24 0.00 0.00 2.66
374 382 1.299541 CCAGTTCAAGTTGCTCACGT 58.700 50.000 0.00 0.00 0.00 4.49
400 408 4.150804 GTCTTCTTGTTCTTCACCATCGAC 59.849 45.833 0.00 0.00 0.00 4.20
451 459 1.749258 GTGAGGGGCCGTTGGATTC 60.749 63.158 0.00 0.00 0.00 2.52
457 465 0.744771 GGGCCGTTGGATTCTCAGTC 60.745 60.000 0.00 0.00 0.00 3.51
510 518 6.881065 GGCAACTAGATGGATATCATAAAGCA 59.119 38.462 4.83 0.00 35.97 3.91
534 542 4.566837 TGCTAATCCTGGAAGAAGGGATA 58.433 43.478 0.00 0.00 37.96 2.59
551 559 6.305272 AGGGATATGAAATGTATGCGAGAT 57.695 37.500 0.00 0.00 0.00 2.75
571 579 5.204292 AGATCAGGTGCACTTAGTCATCTA 58.796 41.667 17.98 0.00 0.00 1.98
633 641 4.078516 GAGCCGGCGGGTACACTT 62.079 66.667 32.54 0.00 31.55 3.16
638 646 1.597797 CCGGCGGGTACACTTAGTCA 61.598 60.000 20.56 0.00 0.00 3.41
658 666 0.320374 CTTAAGTGAGGTGGCGGTCA 59.680 55.000 0.00 0.00 0.00 4.02
737 745 6.900941 CACTACAAGTGTTACGAGGGACGG 62.901 54.167 0.00 0.00 42.64 4.79
764 772 6.053650 AGTATCCGGTTTAAATAGTTGAGGC 58.946 40.000 0.00 0.00 0.00 4.70
767 775 3.128068 CCGGTTTAAATAGTTGAGGCACC 59.872 47.826 0.00 0.00 0.00 5.01
768 776 4.007659 CGGTTTAAATAGTTGAGGCACCT 58.992 43.478 0.00 0.00 0.00 4.00
770 778 4.157840 GGTTTAAATAGTTGAGGCACCTGG 59.842 45.833 0.00 0.00 0.00 4.45
783 791 3.323691 AGGCACCTGGTTTTAATGGTTTC 59.676 43.478 0.00 0.00 0.00 2.78
796 804 2.249844 TGGTTTCGAAGTTGAGGGAC 57.750 50.000 0.00 0.00 0.00 4.46
807 815 6.264744 TCGAAGTTGAGGGACGATTTCTATAT 59.735 38.462 0.00 0.00 0.00 0.86
828 836 5.941948 ATTTTGGACAGAGTTAAAGGACG 57.058 39.130 0.00 0.00 0.00 4.79
887 2582 1.066908 CAAAACATGTGCTCCACCGTT 59.933 47.619 0.00 0.00 32.82 4.44
903 3701 2.038033 ACCGTTGCCTCTAAAGCACTAA 59.962 45.455 0.00 0.00 40.69 2.24
915 3713 2.332654 GCACTAACTGTTGGGCCCG 61.333 63.158 19.37 4.81 0.00 6.13
955 3753 6.858478 GGAAATCTTTTTGAGAAGAACGGAAG 59.142 38.462 0.00 0.00 38.98 3.46
1468 5225 1.515519 CGTCATGGACACGTACCCG 60.516 63.158 8.20 1.94 40.83 5.28
2182 5947 4.806330 TCTGAATGAGTAACCTGTCGAAC 58.194 43.478 0.00 0.00 0.00 3.95
2192 5957 2.490991 ACCTGTCGAACTTGTTAAGCC 58.509 47.619 0.00 0.00 0.00 4.35
2244 6009 7.215085 AGTAGGTCTATTTGCGTAATTAAGGG 58.785 38.462 0.52 0.00 0.00 3.95
2246 6011 6.053650 AGGTCTATTTGCGTAATTAAGGGTC 58.946 40.000 0.52 0.00 0.00 4.46
2290 6055 7.962964 TGTAAAGAGAACATTGTAACAGAGG 57.037 36.000 0.00 0.00 0.00 3.69
2293 6058 5.808366 AGAGAACATTGTAACAGAGGTGA 57.192 39.130 0.00 0.00 0.00 4.02
2294 6059 5.542779 AGAGAACATTGTAACAGAGGTGAC 58.457 41.667 0.00 0.00 0.00 3.67
2302 6067 0.597637 AACAGAGGTGACAACGCTCG 60.598 55.000 0.00 0.00 32.16 5.03
2305 6070 1.007734 GAGGTGACAACGCTCGTGA 60.008 57.895 0.00 0.00 0.00 4.35
2309 6074 0.985549 GTGACAACGCTCGTGATCTC 59.014 55.000 0.00 0.00 0.00 2.75
2321 6086 2.093075 TCGTGATCTCGGAGGTTAGAGT 60.093 50.000 16.41 0.00 36.03 3.24
2327 6092 4.564782 TCTCGGAGGTTAGAGTAACTGA 57.435 45.455 4.96 0.00 38.68 3.41
2328 6093 5.113446 TCTCGGAGGTTAGAGTAACTGAT 57.887 43.478 4.96 0.00 38.68 2.90
2329 6094 4.882427 TCTCGGAGGTTAGAGTAACTGATG 59.118 45.833 4.96 0.00 38.68 3.07
2330 6095 4.851843 TCGGAGGTTAGAGTAACTGATGA 58.148 43.478 0.00 0.00 38.68 2.92
2331 6096 5.258841 TCGGAGGTTAGAGTAACTGATGAA 58.741 41.667 0.00 0.00 38.68 2.57
2332 6097 5.892119 TCGGAGGTTAGAGTAACTGATGAAT 59.108 40.000 0.00 0.00 38.68 2.57
2333 6098 5.980116 CGGAGGTTAGAGTAACTGATGAATG 59.020 44.000 0.00 0.00 38.68 2.67
2334 6099 5.755861 GGAGGTTAGAGTAACTGATGAATGC 59.244 44.000 0.00 0.00 38.68 3.56
2335 6100 5.675538 AGGTTAGAGTAACTGATGAATGCC 58.324 41.667 0.00 0.00 38.68 4.40
2336 6101 5.189736 AGGTTAGAGTAACTGATGAATGCCA 59.810 40.000 0.00 0.00 38.68 4.92
2337 6102 5.880332 GGTTAGAGTAACTGATGAATGCCAA 59.120 40.000 0.00 0.00 38.68 4.52
2338 6103 6.183360 GGTTAGAGTAACTGATGAATGCCAAC 60.183 42.308 0.00 0.00 38.68 3.77
2339 6104 3.935203 AGAGTAACTGATGAATGCCAACG 59.065 43.478 0.00 0.00 0.00 4.10
2340 6105 3.932710 GAGTAACTGATGAATGCCAACGA 59.067 43.478 0.00 0.00 0.00 3.85
2341 6106 3.684788 AGTAACTGATGAATGCCAACGAC 59.315 43.478 0.00 0.00 0.00 4.34
2342 6107 2.479566 ACTGATGAATGCCAACGACT 57.520 45.000 0.00 0.00 0.00 4.18
2343 6108 2.350522 ACTGATGAATGCCAACGACTC 58.649 47.619 0.00 0.00 0.00 3.36
2344 6109 2.289631 ACTGATGAATGCCAACGACTCA 60.290 45.455 0.00 0.00 0.00 3.41
2345 6110 2.349590 TGATGAATGCCAACGACTCAG 58.650 47.619 0.00 0.00 0.00 3.35
2346 6111 1.667724 GATGAATGCCAACGACTCAGG 59.332 52.381 0.00 0.00 0.00 3.86
2347 6112 0.396435 TGAATGCCAACGACTCAGGT 59.604 50.000 0.00 0.00 0.00 4.00
2348 6113 1.079503 GAATGCCAACGACTCAGGTC 58.920 55.000 0.00 0.00 38.97 3.85
2356 6121 4.580835 GACTCAGGTCGACCAAGC 57.419 61.111 35.00 21.37 38.89 4.01
2357 6122 1.666011 GACTCAGGTCGACCAAGCA 59.334 57.895 35.00 15.00 38.89 3.91
2358 6123 0.389166 GACTCAGGTCGACCAAGCAG 60.389 60.000 35.00 24.39 38.89 4.24
2359 6124 0.827925 ACTCAGGTCGACCAAGCAGA 60.828 55.000 35.00 21.52 38.89 4.26
2360 6125 0.318441 CTCAGGTCGACCAAGCAGAA 59.682 55.000 35.00 11.00 38.89 3.02
2361 6126 0.318441 TCAGGTCGACCAAGCAGAAG 59.682 55.000 35.00 14.12 38.89 2.85
2362 6127 0.318441 CAGGTCGACCAAGCAGAAGA 59.682 55.000 35.00 0.00 38.89 2.87
2363 6128 0.318762 AGGTCGACCAAGCAGAAGAC 59.681 55.000 35.00 4.63 38.89 3.01
2364 6129 0.318762 GGTCGACCAAGCAGAAGACT 59.681 55.000 29.75 0.00 35.64 3.24
2365 6130 1.670380 GGTCGACCAAGCAGAAGACTC 60.670 57.143 29.75 0.00 35.64 3.36
2366 6131 0.603569 TCGACCAAGCAGAAGACTCC 59.396 55.000 0.00 0.00 0.00 3.85
2367 6132 0.390472 CGACCAAGCAGAAGACTCCC 60.390 60.000 0.00 0.00 0.00 4.30
2368 6133 0.687354 GACCAAGCAGAAGACTCCCA 59.313 55.000 0.00 0.00 0.00 4.37
2369 6134 1.280421 GACCAAGCAGAAGACTCCCAT 59.720 52.381 0.00 0.00 0.00 4.00
2370 6135 1.004044 ACCAAGCAGAAGACTCCCATG 59.996 52.381 0.00 0.00 0.00 3.66
2371 6136 1.280133 CCAAGCAGAAGACTCCCATGA 59.720 52.381 0.00 0.00 0.00 3.07
2372 6137 2.092538 CCAAGCAGAAGACTCCCATGAT 60.093 50.000 0.00 0.00 0.00 2.45
2373 6138 3.204526 CAAGCAGAAGACTCCCATGATC 58.795 50.000 0.00 0.00 0.00 2.92
2374 6139 2.761809 AGCAGAAGACTCCCATGATCT 58.238 47.619 0.00 0.00 0.00 2.75
2375 6140 3.113824 AGCAGAAGACTCCCATGATCTT 58.886 45.455 0.00 0.00 35.39 2.40
2376 6141 3.134442 AGCAGAAGACTCCCATGATCTTC 59.866 47.826 15.51 15.51 45.77 2.87
2379 6144 3.976169 GAAGACTCCCATGATCTTCTCG 58.024 50.000 15.80 0.00 43.29 4.04
2380 6145 3.304911 AGACTCCCATGATCTTCTCGA 57.695 47.619 0.00 0.00 0.00 4.04
2381 6146 3.221771 AGACTCCCATGATCTTCTCGAG 58.778 50.000 5.93 5.93 0.00 4.04
2382 6147 1.686052 ACTCCCATGATCTTCTCGAGC 59.314 52.381 7.81 0.00 0.00 5.03
2383 6148 1.962807 CTCCCATGATCTTCTCGAGCT 59.037 52.381 7.81 0.00 0.00 4.09
2384 6149 1.959985 TCCCATGATCTTCTCGAGCTC 59.040 52.381 7.81 2.73 0.00 4.09
2385 6150 1.685517 CCCATGATCTTCTCGAGCTCA 59.314 52.381 15.40 8.28 35.19 4.26
2386 6151 2.299582 CCCATGATCTTCTCGAGCTCAT 59.700 50.000 15.40 10.18 40.84 2.90
2388 6153 3.663995 ATGATCTTCTCGAGCTCATGG 57.336 47.619 15.40 2.86 39.21 3.66
2389 6154 2.659428 TGATCTTCTCGAGCTCATGGA 58.341 47.619 15.40 5.37 0.00 3.41
2390 6155 2.622470 TGATCTTCTCGAGCTCATGGAG 59.378 50.000 15.40 12.30 35.20 3.86
2391 6156 1.397672 TCTTCTCGAGCTCATGGAGG 58.602 55.000 15.40 8.69 34.67 4.30
2392 6157 1.110442 CTTCTCGAGCTCATGGAGGT 58.890 55.000 15.40 0.00 43.43 3.85
2393 6158 2.092375 TCTTCTCGAGCTCATGGAGGTA 60.092 50.000 15.40 4.10 40.67 3.08
2394 6159 2.666272 TCTCGAGCTCATGGAGGTAT 57.334 50.000 15.40 0.00 40.67 2.73
2395 6160 2.950781 TCTCGAGCTCATGGAGGTATT 58.049 47.619 15.40 0.00 40.67 1.89
2396 6161 2.887783 TCTCGAGCTCATGGAGGTATTC 59.112 50.000 15.40 0.00 40.67 1.75
2397 6162 1.609072 TCGAGCTCATGGAGGTATTCG 59.391 52.381 15.40 0.00 40.67 3.34
2398 6163 1.789506 GAGCTCATGGAGGTATTCGC 58.210 55.000 9.40 0.00 40.67 4.70
2399 6164 0.394565 AGCTCATGGAGGTATTCGCC 59.605 55.000 0.00 0.00 38.70 5.54
2400 6165 0.394565 GCTCATGGAGGTATTCGCCT 59.605 55.000 0.00 0.00 42.53 5.52
2401 6166 1.202698 GCTCATGGAGGTATTCGCCTT 60.203 52.381 0.00 0.00 39.34 4.35
2402 6167 2.487934 CTCATGGAGGTATTCGCCTTG 58.512 52.381 0.00 0.00 39.34 3.61
2403 6168 0.947244 CATGGAGGTATTCGCCTTGC 59.053 55.000 0.00 0.00 39.34 4.01
2404 6169 0.179018 ATGGAGGTATTCGCCTTGCC 60.179 55.000 0.00 0.00 39.34 4.52
2405 6170 1.271840 TGGAGGTATTCGCCTTGCCT 61.272 55.000 0.00 0.00 39.34 4.75
2406 6171 0.533085 GGAGGTATTCGCCTTGCCTC 60.533 60.000 0.00 0.00 43.56 4.70
2407 6172 0.876342 GAGGTATTCGCCTTGCCTCG 60.876 60.000 0.00 0.00 39.34 4.63
2408 6173 1.153429 GGTATTCGCCTTGCCTCGT 60.153 57.895 0.00 0.00 0.00 4.18
2409 6174 1.429148 GGTATTCGCCTTGCCTCGTG 61.429 60.000 0.00 0.00 0.00 4.35
2410 6175 1.813753 TATTCGCCTTGCCTCGTGC 60.814 57.895 0.00 0.00 41.77 5.34
2421 6186 4.081030 CTCGTGCACTTGCCGCTG 62.081 66.667 16.19 0.00 41.18 5.18
2422 6187 4.600576 TCGTGCACTTGCCGCTGA 62.601 61.111 16.19 0.00 41.18 4.26
2423 6188 3.648982 CGTGCACTTGCCGCTGAA 61.649 61.111 16.19 0.00 41.18 3.02
2424 6189 2.050985 GTGCACTTGCCGCTGAAC 60.051 61.111 10.32 0.00 41.18 3.18
2425 6190 2.515757 TGCACTTGCCGCTGAACA 60.516 55.556 0.00 0.00 41.18 3.18
2426 6191 1.898094 TGCACTTGCCGCTGAACAT 60.898 52.632 0.00 0.00 41.18 2.71
2427 6192 1.154150 GCACTTGCCGCTGAACATC 60.154 57.895 0.00 0.00 34.31 3.06
2428 6193 1.855213 GCACTTGCCGCTGAACATCA 61.855 55.000 0.00 0.00 34.31 3.07
2429 6194 0.110056 CACTTGCCGCTGAACATCAC 60.110 55.000 0.00 0.00 0.00 3.06
2430 6195 0.250467 ACTTGCCGCTGAACATCACT 60.250 50.000 0.00 0.00 0.00 3.41
2431 6196 0.167470 CTTGCCGCTGAACATCACTG 59.833 55.000 0.00 0.00 0.00 3.66
2432 6197 0.534877 TTGCCGCTGAACATCACTGT 60.535 50.000 0.00 0.00 37.12 3.55
2433 6198 0.950555 TGCCGCTGAACATCACTGTC 60.951 55.000 0.00 0.00 33.36 3.51
2434 6199 1.959899 GCCGCTGAACATCACTGTCG 61.960 60.000 0.00 0.00 33.36 4.35
2435 6200 0.667487 CCGCTGAACATCACTGTCGT 60.667 55.000 0.00 0.00 33.36 4.34
2436 6201 1.139989 CGCTGAACATCACTGTCGTT 58.860 50.000 0.00 0.00 33.36 3.85
2437 6202 1.136529 CGCTGAACATCACTGTCGTTG 60.137 52.381 0.00 0.00 33.36 4.10
2438 6203 1.195448 GCTGAACATCACTGTCGTTGG 59.805 52.381 0.00 0.00 33.36 3.77
2439 6204 1.195448 CTGAACATCACTGTCGTTGGC 59.805 52.381 0.00 0.00 33.36 4.52
2440 6205 0.163788 GAACATCACTGTCGTTGGCG 59.836 55.000 0.00 0.00 33.36 5.69
2441 6206 1.227999 AACATCACTGTCGTTGGCGG 61.228 55.000 0.00 0.00 38.89 6.13
2442 6207 2.047274 ATCACTGTCGTTGGCGGG 60.047 61.111 0.00 0.00 38.89 6.13
2443 6208 4.980805 TCACTGTCGTTGGCGGGC 62.981 66.667 0.00 0.00 38.89 6.13
2460 6225 2.853210 CGCTGTGGTGTGCGTTAG 59.147 61.111 0.00 0.00 46.09 2.34
2461 6226 1.663388 CGCTGTGGTGTGCGTTAGA 60.663 57.895 0.00 0.00 46.09 2.10
2462 6227 1.617755 CGCTGTGGTGTGCGTTAGAG 61.618 60.000 0.00 0.00 46.09 2.43
2463 6228 1.901650 GCTGTGGTGTGCGTTAGAGC 61.902 60.000 0.00 0.00 37.71 4.09
2464 6229 0.599991 CTGTGGTGTGCGTTAGAGCA 60.600 55.000 0.00 0.00 45.96 4.26
2472 6237 1.148310 TGCGTTAGAGCAAGTTCAGC 58.852 50.000 0.00 0.00 45.06 4.26
2473 6238 1.148310 GCGTTAGAGCAAGTTCAGCA 58.852 50.000 0.00 0.00 37.05 4.41
2474 6239 1.127582 GCGTTAGAGCAAGTTCAGCAG 59.872 52.381 0.00 0.00 37.05 4.24
2475 6240 2.408050 CGTTAGAGCAAGTTCAGCAGT 58.592 47.619 0.00 0.00 0.00 4.40
2476 6241 2.802816 CGTTAGAGCAAGTTCAGCAGTT 59.197 45.455 0.00 0.00 0.00 3.16
2477 6242 3.248602 CGTTAGAGCAAGTTCAGCAGTTT 59.751 43.478 0.00 0.00 0.00 2.66
2478 6243 4.609336 CGTTAGAGCAAGTTCAGCAGTTTC 60.609 45.833 0.00 0.00 0.00 2.78
2479 6244 2.225467 AGAGCAAGTTCAGCAGTTTCC 58.775 47.619 0.00 0.00 0.00 3.13
2480 6245 1.268079 GAGCAAGTTCAGCAGTTTCCC 59.732 52.381 0.00 0.00 0.00 3.97
2481 6246 1.133668 AGCAAGTTCAGCAGTTTCCCT 60.134 47.619 0.00 0.00 0.00 4.20
2482 6247 1.683385 GCAAGTTCAGCAGTTTCCCTT 59.317 47.619 0.00 0.00 0.00 3.95
2483 6248 2.884639 GCAAGTTCAGCAGTTTCCCTTA 59.115 45.455 0.00 0.00 0.00 2.69
2484 6249 3.317993 GCAAGTTCAGCAGTTTCCCTTAA 59.682 43.478 0.00 0.00 0.00 1.85
2485 6250 4.202111 GCAAGTTCAGCAGTTTCCCTTAAA 60.202 41.667 0.00 0.00 0.00 1.52
2486 6251 5.681179 GCAAGTTCAGCAGTTTCCCTTAAAA 60.681 40.000 0.00 0.00 0.00 1.52
2487 6252 6.337356 CAAGTTCAGCAGTTTCCCTTAAAAA 58.663 36.000 0.00 0.00 0.00 1.94
2510 6275 8.909423 AAAAATTCCCCTATATCTCAAAACCA 57.091 30.769 0.00 0.00 0.00 3.67
2511 6276 8.539117 AAAATTCCCCTATATCTCAAAACCAG 57.461 34.615 0.00 0.00 0.00 4.00
2512 6277 5.646692 TTCCCCTATATCTCAAAACCAGG 57.353 43.478 0.00 0.00 0.00 4.45
2513 6278 3.980698 TCCCCTATATCTCAAAACCAGGG 59.019 47.826 0.00 0.00 40.86 4.45
2514 6279 3.980698 CCCCTATATCTCAAAACCAGGGA 59.019 47.826 5.32 0.00 43.36 4.20
2515 6280 4.202472 CCCCTATATCTCAAAACCAGGGAC 60.202 50.000 5.32 0.00 43.36 4.46
2516 6281 4.660771 CCCTATATCTCAAAACCAGGGACT 59.339 45.833 0.00 0.00 43.36 3.85
2517 6282 5.221742 CCCTATATCTCAAAACCAGGGACTC 60.222 48.000 0.00 0.00 43.36 3.36
2518 6283 4.779993 ATATCTCAAAACCAGGGACTCC 57.220 45.455 0.00 0.00 34.60 3.85
2519 6284 1.064825 TCTCAAAACCAGGGACTCCC 58.935 55.000 5.90 5.90 45.90 4.30
2570 6335 2.983791 CCGGCCGGAACTTTAGGA 59.016 61.111 41.82 0.00 37.50 2.94
2610 6375 2.941453 GATCTGTCTAACACGGAGCA 57.059 50.000 0.00 0.00 44.98 4.26
2643 6408 1.478137 GATCACGCACGTATCAGACC 58.522 55.000 0.00 0.00 0.00 3.85
2658 6424 4.129737 ACCGGCTCGATGTGGACG 62.130 66.667 0.00 0.00 0.00 4.79
2660 6426 4.498520 CGGCTCGATGTGGACGCT 62.499 66.667 0.00 0.00 0.00 5.07
2661 6427 2.125512 GGCTCGATGTGGACGCTT 60.126 61.111 0.00 0.00 0.00 4.68
2662 6428 2.167861 GGCTCGATGTGGACGCTTC 61.168 63.158 0.00 0.00 0.00 3.86
2663 6429 1.153745 GCTCGATGTGGACGCTTCT 60.154 57.895 0.00 0.00 0.00 2.85
2735 7799 4.988598 CACACCCCGCGTTGCTCT 62.989 66.667 4.92 0.00 0.00 4.09
2881 8626 0.606401 CACCAGTTCCAGCATCCGTT 60.606 55.000 0.00 0.00 0.00 4.44
2930 8678 4.695993 TGCATCAACGGCTCGCCA 62.696 61.111 8.87 0.00 35.37 5.69
3043 10116 1.207593 CGCCGGTTGAAGCTTTCTG 59.792 57.895 1.90 0.00 0.00 3.02
3110 10185 0.248866 CGCCGGTTGCAACTTTTCTT 60.249 50.000 27.64 0.00 41.33 2.52
3190 10265 2.760092 AGCAAACATTCTGTGTGGTTGT 59.240 40.909 12.01 0.00 43.14 3.32
3192 10267 4.400884 AGCAAACATTCTGTGTGGTTGTAA 59.599 37.500 12.01 0.00 43.14 2.41
3216 10293 1.369209 CGTTGTTGCGGCTGTCAAG 60.369 57.895 0.00 0.00 0.00 3.02
3219 10296 2.594592 GTTGCGGCTGTCAAGGGT 60.595 61.111 0.00 0.00 0.00 4.34
3220 10297 2.193536 GTTGCGGCTGTCAAGGGTT 61.194 57.895 0.00 0.00 0.00 4.11
3221 10298 2.192861 TTGCGGCTGTCAAGGGTTG 61.193 57.895 0.00 0.00 0.00 3.77
3222 10299 4.043200 GCGGCTGTCAAGGGTTGC 62.043 66.667 0.00 0.00 0.00 4.17
3223 10300 2.594303 CGGCTGTCAAGGGTTGCA 60.594 61.111 0.00 0.00 0.00 4.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 1.612199 GGCCATGTGGACGGTTTTAGA 60.612 52.381 0.00 0.00 37.39 2.10
47 48 5.754890 ACTTAAGTGACGTGACGGTTAAAAT 59.245 36.000 10.66 0.00 0.00 1.82
52 54 2.877043 ACTTAAGTGACGTGACGGTT 57.123 45.000 10.66 0.00 0.00 4.44
150 154 2.671070 CCATGCTCCACTTCCGGT 59.329 61.111 0.00 0.00 0.00 5.28
151 155 2.825836 GCCATGCTCCACTTCCGG 60.826 66.667 0.00 0.00 0.00 5.14
185 191 3.289834 CAGCCAGCAACCAACGCT 61.290 61.111 0.00 0.00 41.47 5.07
251 257 1.012486 CCACCGCCTAAGTCGTTGTC 61.012 60.000 0.00 0.00 0.00 3.18
283 289 2.438975 ATCGTCGGTGTCGCCCTA 60.439 61.111 0.00 0.00 36.13 3.53
290 296 4.129737 CCGCCAGATCGTCGGTGT 62.130 66.667 12.95 0.00 38.47 4.16
295 301 4.222847 GACCCCCGCCAGATCGTC 62.223 72.222 0.00 0.00 0.00 4.20
296 302 4.779733 AGACCCCCGCCAGATCGT 62.780 66.667 0.00 0.00 0.00 3.73
302 308 4.954118 ACTGTGAGACCCCCGCCA 62.954 66.667 0.00 0.00 0.00 5.69
366 374 0.249868 CAAGAAGACCCACGTGAGCA 60.250 55.000 19.30 0.00 0.00 4.26
374 382 2.507886 TGGTGAAGAACAAGAAGACCCA 59.492 45.455 0.00 0.00 0.00 4.51
451 459 3.374402 ACTCCACCGCCGACTGAG 61.374 66.667 0.00 0.00 0.00 3.35
457 465 3.991051 ACTCACACTCCACCGCCG 61.991 66.667 0.00 0.00 0.00 6.46
505 513 4.603131 TCTTCCAGGATTAGCATTGCTTT 58.397 39.130 17.71 4.94 40.44 3.51
506 514 4.240881 TCTTCCAGGATTAGCATTGCTT 57.759 40.909 17.71 0.00 40.44 3.91
510 518 3.788142 TCCCTTCTTCCAGGATTAGCATT 59.212 43.478 0.00 0.00 35.71 3.56
534 542 4.753610 CACCTGATCTCGCATACATTTCAT 59.246 41.667 0.00 0.00 0.00 2.57
551 559 5.450550 CGATTAGATGACTAAGTGCACCTGA 60.451 44.000 14.63 0.00 41.12 3.86
571 579 4.026744 TCCTCCTTCTCTCATTCACGATT 58.973 43.478 0.00 0.00 0.00 3.34
638 646 0.320697 GACCGCCACCTCACTTAAGT 59.679 55.000 1.12 1.12 0.00 2.24
648 656 2.561037 CCTGGTTTTGACCGCCACC 61.561 63.158 0.00 0.00 0.00 4.61
658 666 0.812412 CGTCCACGTGACCTGGTTTT 60.812 55.000 19.30 0.00 41.18 2.43
728 736 3.961576 GGATACTTTCCGTCCCTCG 57.038 57.895 0.00 0.00 33.93 4.63
737 745 8.610035 CCTCAACTATTTAAACCGGATACTTTC 58.390 37.037 9.46 0.00 0.00 2.62
747 755 4.157840 CCAGGTGCCTCAACTATTTAAACC 59.842 45.833 0.00 0.00 26.43 3.27
764 772 4.839668 TCGAAACCATTAAAACCAGGTG 57.160 40.909 0.00 0.00 33.93 4.00
767 775 6.500041 TCAACTTCGAAACCATTAAAACCAG 58.500 36.000 0.00 0.00 0.00 4.00
768 776 6.452494 TCAACTTCGAAACCATTAAAACCA 57.548 33.333 0.00 0.00 0.00 3.67
770 778 5.918576 CCCTCAACTTCGAAACCATTAAAAC 59.081 40.000 0.00 0.00 0.00 2.43
783 791 2.960819 AGAAATCGTCCCTCAACTTCG 58.039 47.619 0.00 0.00 0.00 3.79
807 815 5.026038 TCGTCCTTTAACTCTGTCCAAAA 57.974 39.130 0.00 0.00 0.00 2.44
887 2582 4.065088 CAACAGTTAGTGCTTTAGAGGCA 58.935 43.478 0.00 0.00 37.36 4.75
1744 5501 1.303309 CATGCTTCCATTCCTCCGAC 58.697 55.000 0.00 0.00 0.00 4.79
1853 5610 0.762842 AGGTCCAGTGCACACAGGTA 60.763 55.000 21.04 5.50 38.87 3.08
2182 5947 7.308782 AGAAAATAGATGACGGCTTAACAAG 57.691 36.000 0.00 0.00 0.00 3.16
2192 5957 8.364142 AGGAATCTAGGAAGAAAATAGATGACG 58.636 37.037 0.00 0.00 36.59 4.35
2244 6009 3.859411 AGAGGAACGAATCTCACAGAC 57.141 47.619 0.00 0.00 32.76 3.51
2246 6011 4.310769 ACAAAGAGGAACGAATCTCACAG 58.689 43.478 0.00 0.00 32.76 3.66
2290 6055 0.985549 GAGATCACGAGCGTTGTCAC 59.014 55.000 0.00 0.00 0.00 3.67
2293 6058 1.154016 CCGAGATCACGAGCGTTGT 60.154 57.895 14.43 0.00 35.09 3.32
2294 6059 0.863538 CTCCGAGATCACGAGCGTTG 60.864 60.000 14.43 0.00 35.09 4.10
2302 6067 4.883006 AGTTACTCTAACCTCCGAGATCAC 59.117 45.833 0.00 0.00 39.47 3.06
2305 6070 5.113446 TCAGTTACTCTAACCTCCGAGAT 57.887 43.478 0.00 0.00 39.47 2.75
2309 6074 5.578005 TTCATCAGTTACTCTAACCTCCG 57.422 43.478 0.00 0.00 39.47 4.63
2321 6086 3.932710 GAGTCGTTGGCATTCATCAGTTA 59.067 43.478 0.00 0.00 0.00 2.24
2327 6092 1.003580 ACCTGAGTCGTTGGCATTCAT 59.996 47.619 0.00 0.00 0.00 2.57
2328 6093 0.396435 ACCTGAGTCGTTGGCATTCA 59.604 50.000 0.00 0.00 0.00 2.57
2329 6094 1.079503 GACCTGAGTCGTTGGCATTC 58.920 55.000 0.00 0.00 32.18 2.67
2330 6095 3.233355 GACCTGAGTCGTTGGCATT 57.767 52.632 0.00 0.00 32.18 3.56
2339 6104 0.389166 CTGCTTGGTCGACCTGAGTC 60.389 60.000 33.39 23.43 39.83 3.36
2340 6105 0.827925 TCTGCTTGGTCGACCTGAGT 60.828 55.000 33.39 0.00 36.82 3.41
2341 6106 0.318441 TTCTGCTTGGTCGACCTGAG 59.682 55.000 33.39 28.65 36.82 3.35
2342 6107 0.318441 CTTCTGCTTGGTCGACCTGA 59.682 55.000 33.39 21.13 36.82 3.86
2343 6108 0.318441 TCTTCTGCTTGGTCGACCTG 59.682 55.000 33.39 25.55 36.82 4.00
2344 6109 0.318762 GTCTTCTGCTTGGTCGACCT 59.681 55.000 33.39 0.00 36.82 3.85
2345 6110 0.318762 AGTCTTCTGCTTGGTCGACC 59.681 55.000 28.17 28.17 0.00 4.79
2346 6111 1.670380 GGAGTCTTCTGCTTGGTCGAC 60.670 57.143 7.13 7.13 0.00 4.20
2347 6112 0.603569 GGAGTCTTCTGCTTGGTCGA 59.396 55.000 0.00 0.00 0.00 4.20
2348 6113 0.390472 GGGAGTCTTCTGCTTGGTCG 60.390 60.000 0.00 0.00 32.53 4.79
2349 6114 0.687354 TGGGAGTCTTCTGCTTGGTC 59.313 55.000 0.00 0.00 32.53 4.02
2350 6115 1.004044 CATGGGAGTCTTCTGCTTGGT 59.996 52.381 0.00 0.00 32.53 3.67
2351 6116 1.280133 TCATGGGAGTCTTCTGCTTGG 59.720 52.381 0.00 0.00 32.53 3.61
2352 6117 2.775911 TCATGGGAGTCTTCTGCTTG 57.224 50.000 0.00 0.00 32.53 4.01
2353 6118 3.113824 AGATCATGGGAGTCTTCTGCTT 58.886 45.455 0.00 0.00 32.53 3.91
2354 6119 2.761809 AGATCATGGGAGTCTTCTGCT 58.238 47.619 0.00 0.00 32.53 4.24
2355 6120 3.465871 GAAGATCATGGGAGTCTTCTGC 58.534 50.000 16.67 0.00 42.73 4.26
2358 6123 3.634448 TCGAGAAGATCATGGGAGTCTTC 59.366 47.826 16.41 16.41 45.08 2.87
2359 6124 3.636300 CTCGAGAAGATCATGGGAGTCTT 59.364 47.826 6.58 0.00 35.06 3.01
2360 6125 3.221771 CTCGAGAAGATCATGGGAGTCT 58.778 50.000 6.58 0.00 0.00 3.24
2361 6126 2.288152 GCTCGAGAAGATCATGGGAGTC 60.288 54.545 18.75 0.00 0.00 3.36
2362 6127 1.686052 GCTCGAGAAGATCATGGGAGT 59.314 52.381 18.75 0.00 0.00 3.85
2363 6128 1.962807 AGCTCGAGAAGATCATGGGAG 59.037 52.381 18.75 0.00 0.00 4.30
2364 6129 1.959985 GAGCTCGAGAAGATCATGGGA 59.040 52.381 18.75 0.00 40.27 4.37
2365 6130 1.685517 TGAGCTCGAGAAGATCATGGG 59.314 52.381 18.75 0.00 45.24 4.00
2370 6135 2.030007 CCTCCATGAGCTCGAGAAGATC 60.030 54.545 18.75 8.44 40.96 2.75
2371 6136 1.962807 CCTCCATGAGCTCGAGAAGAT 59.037 52.381 18.75 0.20 0.00 2.40
2372 6137 1.341482 ACCTCCATGAGCTCGAGAAGA 60.341 52.381 18.75 0.00 0.00 2.87
2373 6138 1.110442 ACCTCCATGAGCTCGAGAAG 58.890 55.000 18.75 8.41 0.00 2.85
2374 6139 2.437085 TACCTCCATGAGCTCGAGAA 57.563 50.000 18.75 0.24 0.00 2.87
2375 6140 2.666272 ATACCTCCATGAGCTCGAGA 57.334 50.000 18.75 8.85 0.00 4.04
2376 6141 2.351253 CGAATACCTCCATGAGCTCGAG 60.351 54.545 8.45 8.45 0.00 4.04
2377 6142 1.609072 CGAATACCTCCATGAGCTCGA 59.391 52.381 9.64 0.00 0.00 4.04
2378 6143 1.932604 GCGAATACCTCCATGAGCTCG 60.933 57.143 9.64 0.00 0.00 5.03
2379 6144 1.606737 GGCGAATACCTCCATGAGCTC 60.607 57.143 6.82 6.82 0.00 4.09
2380 6145 0.394565 GGCGAATACCTCCATGAGCT 59.605 55.000 0.00 0.00 0.00 4.09
2381 6146 0.394565 AGGCGAATACCTCCATGAGC 59.605 55.000 0.00 0.00 33.62 4.26
2382 6147 2.487934 CAAGGCGAATACCTCCATGAG 58.512 52.381 0.00 0.00 39.93 2.90
2383 6148 1.475034 GCAAGGCGAATACCTCCATGA 60.475 52.381 0.00 0.00 39.93 3.07
2384 6149 0.947244 GCAAGGCGAATACCTCCATG 59.053 55.000 0.00 0.00 39.93 3.66
2385 6150 0.179018 GGCAAGGCGAATACCTCCAT 60.179 55.000 0.00 0.00 39.93 3.41
2386 6151 1.223487 GGCAAGGCGAATACCTCCA 59.777 57.895 0.00 0.00 39.93 3.86
2387 6152 0.533085 GAGGCAAGGCGAATACCTCC 60.533 60.000 0.00 0.00 39.93 4.30
2388 6153 0.876342 CGAGGCAAGGCGAATACCTC 60.876 60.000 0.00 0.00 39.93 3.85
2389 6154 1.144057 CGAGGCAAGGCGAATACCT 59.856 57.895 0.00 0.00 43.91 3.08
2390 6155 1.153429 ACGAGGCAAGGCGAATACC 60.153 57.895 0.00 0.00 0.00 2.73
2391 6156 2.006772 CACGAGGCAAGGCGAATAC 58.993 57.895 0.00 0.00 0.00 1.89
2392 6157 1.813753 GCACGAGGCAAGGCGAATA 60.814 57.895 0.00 0.00 43.97 1.75
2393 6158 3.127533 GCACGAGGCAAGGCGAAT 61.128 61.111 0.00 0.00 43.97 3.34
2404 6169 4.081030 CAGCGGCAAGTGCACGAG 62.081 66.667 12.01 9.24 44.36 4.18
2405 6170 4.600576 TCAGCGGCAAGTGCACGA 62.601 61.111 12.01 0.00 44.36 4.35
2406 6171 3.648982 TTCAGCGGCAAGTGCACG 61.649 61.111 12.01 7.60 44.36 5.34
2407 6172 2.050985 GTTCAGCGGCAAGTGCAC 60.051 61.111 9.40 9.40 44.36 4.57
2408 6173 1.855213 GATGTTCAGCGGCAAGTGCA 61.855 55.000 1.45 0.00 44.36 4.57
2409 6174 1.154150 GATGTTCAGCGGCAAGTGC 60.154 57.895 1.45 0.00 41.14 4.40
2410 6175 0.110056 GTGATGTTCAGCGGCAAGTG 60.110 55.000 1.45 0.00 0.00 3.16
2411 6176 0.250467 AGTGATGTTCAGCGGCAAGT 60.250 50.000 1.45 0.00 0.00 3.16
2412 6177 0.167470 CAGTGATGTTCAGCGGCAAG 59.833 55.000 1.45 0.00 0.00 4.01
2413 6178 0.534877 ACAGTGATGTTCAGCGGCAA 60.535 50.000 1.45 0.00 0.00 4.52
2414 6179 0.950555 GACAGTGATGTTCAGCGGCA 60.951 55.000 1.45 0.00 0.00 5.69
2415 6180 1.790387 GACAGTGATGTTCAGCGGC 59.210 57.895 0.00 0.00 0.00 6.53
2416 6181 0.667487 ACGACAGTGATGTTCAGCGG 60.667 55.000 0.00 0.00 0.00 5.52
2417 6182 1.136529 CAACGACAGTGATGTTCAGCG 60.137 52.381 0.00 0.00 0.00 5.18
2418 6183 1.195448 CCAACGACAGTGATGTTCAGC 59.805 52.381 0.00 0.00 0.00 4.26
2419 6184 1.195448 GCCAACGACAGTGATGTTCAG 59.805 52.381 0.00 0.00 0.00 3.02
2420 6185 1.225855 GCCAACGACAGTGATGTTCA 58.774 50.000 0.00 0.00 0.00 3.18
2421 6186 0.163788 CGCCAACGACAGTGATGTTC 59.836 55.000 0.00 0.00 43.93 3.18
2422 6187 1.227999 CCGCCAACGACAGTGATGTT 61.228 55.000 0.00 0.00 43.93 2.71
2423 6188 1.667830 CCGCCAACGACAGTGATGT 60.668 57.895 0.00 0.00 43.93 3.06
2424 6189 2.390599 CCCGCCAACGACAGTGATG 61.391 63.158 0.00 0.00 43.93 3.07
2425 6190 2.047274 CCCGCCAACGACAGTGAT 60.047 61.111 0.00 0.00 43.93 3.06
2426 6191 4.980805 GCCCGCCAACGACAGTGA 62.981 66.667 0.00 0.00 43.93 3.41
2444 6209 1.901650 GCTCTAACGCACACCACAGC 61.902 60.000 0.00 0.00 0.00 4.40
2445 6210 0.599991 TGCTCTAACGCACACCACAG 60.600 55.000 0.00 0.00 34.44 3.66
2446 6211 0.179070 TTGCTCTAACGCACACCACA 60.179 50.000 0.00 0.00 40.09 4.17
2447 6212 0.512952 CTTGCTCTAACGCACACCAC 59.487 55.000 0.00 0.00 40.09 4.16
2448 6213 0.105964 ACTTGCTCTAACGCACACCA 59.894 50.000 0.00 0.00 40.09 4.17
2449 6214 1.194772 GAACTTGCTCTAACGCACACC 59.805 52.381 0.00 0.00 40.09 4.16
2450 6215 1.864711 TGAACTTGCTCTAACGCACAC 59.135 47.619 0.00 0.00 40.09 3.82
2451 6216 2.135139 CTGAACTTGCTCTAACGCACA 58.865 47.619 0.00 0.00 40.09 4.57
2452 6217 1.136224 GCTGAACTTGCTCTAACGCAC 60.136 52.381 0.00 0.00 40.09 5.34
2453 6218 1.148310 GCTGAACTTGCTCTAACGCA 58.852 50.000 0.00 0.00 38.31 5.24
2454 6219 1.127582 CTGCTGAACTTGCTCTAACGC 59.872 52.381 0.00 0.00 0.00 4.84
2455 6220 2.408050 ACTGCTGAACTTGCTCTAACG 58.592 47.619 0.00 0.00 0.00 3.18
2456 6221 4.319839 GGAAACTGCTGAACTTGCTCTAAC 60.320 45.833 0.00 0.00 0.00 2.34
2457 6222 3.815401 GGAAACTGCTGAACTTGCTCTAA 59.185 43.478 0.00 0.00 0.00 2.10
2458 6223 3.403038 GGAAACTGCTGAACTTGCTCTA 58.597 45.455 0.00 0.00 0.00 2.43
2459 6224 2.225467 GGAAACTGCTGAACTTGCTCT 58.775 47.619 0.00 0.00 0.00 4.09
2460 6225 1.268079 GGGAAACTGCTGAACTTGCTC 59.732 52.381 0.00 0.00 0.00 4.26
2461 6226 1.133668 AGGGAAACTGCTGAACTTGCT 60.134 47.619 0.00 0.00 0.00 3.91
2462 6227 1.322442 AGGGAAACTGCTGAACTTGC 58.678 50.000 0.00 0.00 0.00 4.01
2463 6228 5.514274 TTTAAGGGAAACTGCTGAACTTG 57.486 39.130 0.00 0.00 0.00 3.16
2464 6229 6.538945 TTTTTAAGGGAAACTGCTGAACTT 57.461 33.333 0.00 0.00 0.00 2.66
2485 6250 8.909423 TGGTTTTGAGATATAGGGGAATTTTT 57.091 30.769 0.00 0.00 0.00 1.94
2486 6251 7.565029 CCTGGTTTTGAGATATAGGGGAATTTT 59.435 37.037 0.00 0.00 0.00 1.82
2487 6252 7.069344 CCTGGTTTTGAGATATAGGGGAATTT 58.931 38.462 0.00 0.00 0.00 1.82
2488 6253 6.412024 CCCTGGTTTTGAGATATAGGGGAATT 60.412 42.308 0.00 0.00 39.73 2.17
2489 6254 5.075067 CCCTGGTTTTGAGATATAGGGGAAT 59.925 44.000 0.00 0.00 39.73 3.01
2490 6255 4.415512 CCCTGGTTTTGAGATATAGGGGAA 59.584 45.833 0.00 0.00 39.73 3.97
2491 6256 3.980698 CCCTGGTTTTGAGATATAGGGGA 59.019 47.826 0.00 0.00 39.73 4.81
2492 6257 3.980698 TCCCTGGTTTTGAGATATAGGGG 59.019 47.826 0.00 0.00 42.85 4.79
2493 6258 4.660771 AGTCCCTGGTTTTGAGATATAGGG 59.339 45.833 0.00 0.00 43.75 3.53
2494 6259 5.221742 GGAGTCCCTGGTTTTGAGATATAGG 60.222 48.000 0.00 0.00 0.00 2.57
2495 6260 5.221742 GGGAGTCCCTGGTTTTGAGATATAG 60.222 48.000 22.04 0.00 41.34 1.31
2496 6261 4.658901 GGGAGTCCCTGGTTTTGAGATATA 59.341 45.833 22.04 0.00 41.34 0.86
2497 6262 3.459969 GGGAGTCCCTGGTTTTGAGATAT 59.540 47.826 22.04 0.00 41.34 1.63
2498 6263 2.844348 GGGAGTCCCTGGTTTTGAGATA 59.156 50.000 22.04 0.00 41.34 1.98
2499 6264 1.636003 GGGAGTCCCTGGTTTTGAGAT 59.364 52.381 22.04 0.00 41.34 2.75
2500 6265 1.064825 GGGAGTCCCTGGTTTTGAGA 58.935 55.000 22.04 0.00 41.34 3.27
2501 6266 3.652581 GGGAGTCCCTGGTTTTGAG 57.347 57.895 22.04 0.00 41.34 3.02
2511 6276 3.566351 CCCATATTTTCAAGGGAGTCCC 58.434 50.000 21.81 21.81 44.30 4.46
2512 6277 2.959030 GCCCATATTTTCAAGGGAGTCC 59.041 50.000 0.00 0.00 44.30 3.85
2513 6278 2.618709 CGCCCATATTTTCAAGGGAGTC 59.381 50.000 0.00 0.00 44.30 3.36
2514 6279 2.654863 CGCCCATATTTTCAAGGGAGT 58.345 47.619 0.00 0.00 44.30 3.85
2515 6280 1.338020 GCGCCCATATTTTCAAGGGAG 59.662 52.381 0.00 0.00 44.30 4.30
2516 6281 1.064017 AGCGCCCATATTTTCAAGGGA 60.064 47.619 2.29 0.00 44.30 4.20
2517 6282 1.402787 AGCGCCCATATTTTCAAGGG 58.597 50.000 2.29 0.00 44.37 3.95
2518 6283 4.853924 ATTAGCGCCCATATTTTCAAGG 57.146 40.909 2.29 0.00 0.00 3.61
2519 6284 5.619981 GCCTATTAGCGCCCATATTTTCAAG 60.620 44.000 2.29 0.00 0.00 3.02
2520 6285 4.217550 GCCTATTAGCGCCCATATTTTCAA 59.782 41.667 2.29 0.00 0.00 2.69
2521 6286 3.756434 GCCTATTAGCGCCCATATTTTCA 59.244 43.478 2.29 0.00 0.00 2.69
2522 6287 4.357018 GCCTATTAGCGCCCATATTTTC 57.643 45.455 2.29 0.00 0.00 2.29
2560 6325 0.738762 GCGGGACCGTCCTAAAGTTC 60.739 60.000 17.27 0.00 42.09 3.01
2584 6349 4.405680 TCCGTGTTAGACAGATCCAATGAT 59.594 41.667 0.00 0.00 0.00 2.45
2585 6350 3.767131 TCCGTGTTAGACAGATCCAATGA 59.233 43.478 0.00 0.00 0.00 2.57
2610 6375 2.181021 GATCGAGTGGTTCCGCGT 59.819 61.111 4.92 0.00 0.00 6.01
2620 6385 0.730840 TGATACGTGCGTGATCGAGT 59.269 50.000 7.55 0.00 39.71 4.18
2643 6408 3.989698 AAGCGTCCACATCGAGCCG 62.990 63.158 0.00 0.00 0.00 5.52
2658 6424 2.535331 GATGAGGAAGACGACAGAAGC 58.465 52.381 0.00 0.00 0.00 3.86
2660 6426 1.472878 CGGATGAGGAAGACGACAGAA 59.527 52.381 0.00 0.00 0.00 3.02
2661 6427 1.095600 CGGATGAGGAAGACGACAGA 58.904 55.000 0.00 0.00 0.00 3.41
2662 6428 0.526524 GCGGATGAGGAAGACGACAG 60.527 60.000 0.00 0.00 0.00 3.51
2663 6429 1.511305 GCGGATGAGGAAGACGACA 59.489 57.895 0.00 0.00 0.00 4.35
2863 8608 0.606401 CAACGGATGCTGGAACTGGT 60.606 55.000 0.00 0.00 0.00 4.00
2881 8626 1.179814 TGTGCACCAATGATGCTGCA 61.180 50.000 15.69 4.13 43.94 4.41
2899 8644 4.224433 GTTGATGCACATGACTGTTTCTG 58.776 43.478 0.00 0.00 31.62 3.02
2930 8678 1.279840 GCGACGAAAAAGCTGCAGT 59.720 52.632 16.64 0.00 0.00 4.40
3110 10185 1.276989 GGTGACCGGTGACTGGAAATA 59.723 52.381 23.72 0.00 0.00 1.40
3137 10212 8.956426 CATAGACAGTAATTGTTACCACCATTT 58.044 33.333 0.00 0.00 41.05 2.32
3204 10281 2.594303 CAACCCTTGACAGCCGCA 60.594 61.111 0.00 0.00 0.00 5.69
3216 10293 4.098960 ACATCATTCATGAAGATGCAACCC 59.901 41.667 28.74 0.00 42.12 4.11
3219 10296 5.591067 TGCTACATCATTCATGAAGATGCAA 59.409 36.000 28.74 21.69 42.12 4.08
3220 10297 5.127491 TGCTACATCATTCATGAAGATGCA 58.873 37.500 28.74 23.06 42.12 3.96
3221 10298 5.684550 TGCTACATCATTCATGAAGATGC 57.315 39.130 28.74 21.67 42.12 3.91
3222 10299 7.808381 GGATTTGCTACATCATTCATGAAGATG 59.192 37.037 27.97 27.97 43.56 2.90
3223 10300 7.724506 AGGATTTGCTACATCATTCATGAAGAT 59.275 33.333 14.54 13.05 40.69 2.40


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

AutoCloner maintained by Alex Coulton.