Multiple sequence alignment - TraesCS5A01G081100

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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 TraesCS5A01G081100 chr5A 100.000 4374 0 0 1 4374 104146360 104150733 0.000000e+00 8078.0
1 TraesCS5A01G081100 chr5A 88.202 356 33 6 349 701 104145019 104144670 2.430000e-112 416.0
2 TraesCS5A01G081100 chr5A 86.842 76 10 0 700 775 648964365 648964440 7.790000e-13 86.1
3 TraesCS5A01G081100 chr5B 96.671 2133 70 1 1149 3281 107946829 107944698 0.000000e+00 3544.0
4 TraesCS5A01G081100 chr5B 96.624 2133 71 1 1149 3281 108052718 108050587 0.000000e+00 3539.0
5 TraesCS5A01G081100 chr5B 96.725 977 19 5 3411 4374 108050598 108049622 0.000000e+00 1615.0
6 TraesCS5A01G081100 chr5B 96.213 977 21 6 3411 4374 107944709 107943736 0.000000e+00 1585.0
7 TraesCS5A01G081100 chr5B 91.684 469 26 10 699 1162 107947364 107946904 4.770000e-179 638.0
8 TraesCS5A01G081100 chr5B 91.064 470 28 11 699 1162 108053254 108052793 1.340000e-174 623.0
9 TraesCS5A01G081100 chr1D 85.560 1392 166 25 1908 3280 45695123 45693748 0.000000e+00 1424.0
10 TraesCS5A01G081100 chr1D 81.635 795 103 21 2156 2939 46236510 46237272 1.730000e-173 619.0
11 TraesCS5A01G081100 chr1D 90.819 403 20 5 296 698 335407128 335407513 1.390000e-144 523.0
12 TraesCS5A01G081100 chr1D 94.672 244 10 3 56 298 335406672 335406913 4.130000e-100 375.0
13 TraesCS5A01G081100 chr1D 85.153 229 31 3 1933 2160 46234747 46234973 9.460000e-57 231.0
14 TraesCS5A01G081100 chr1D 94.079 152 8 1 3410 3561 45693758 45693608 3.400000e-56 230.0
15 TraesCS5A01G081100 chr1D 86.154 195 24 2 924 1118 45718198 45718007 1.590000e-49 207.0
16 TraesCS5A01G081100 chr1D 93.478 46 3 0 1 46 335406382 335406427 7.850000e-08 69.4
17 TraesCS5A01G081100 chr1D 93.478 46 3 0 1 46 418575273 418575228 7.850000e-08 69.4
18 TraesCS5A01G081100 chr3D 92.450 649 33 8 56 698 541199984 541200622 0.000000e+00 913.0
19 TraesCS5A01G081100 chr3D 92.236 644 40 6 56 698 123621627 123622261 0.000000e+00 904.0
20 TraesCS5A01G081100 chr3D 93.596 406 23 1 296 701 186623320 186623722 1.740000e-168 603.0
21 TraesCS5A01G081100 chr3D 93.827 243 13 2 56 298 186622865 186623105 8.940000e-97 364.0
22 TraesCS5A01G081100 chr3D 93.478 46 3 0 1 46 186622575 186622620 7.850000e-08 69.4
23 TraesCS5A01G081100 chr7D 90.895 648 47 8 56 698 72121102 72121742 0.000000e+00 859.0
24 TraesCS5A01G081100 chr6B 92.759 580 30 10 56 628 31017305 31016731 0.000000e+00 828.0
25 TraesCS5A01G081100 chr6B 88.669 353 32 5 349 698 31018506 31018853 1.450000e-114 424.0
26 TraesCS5A01G081100 chr6B 95.238 126 6 0 3286 3411 157768125 157768000 2.670000e-47 200.0
27 TraesCS5A01G081100 chr6B 95.238 126 6 0 3286 3411 157768792 157768667 2.670000e-47 200.0
28 TraesCS5A01G081100 chr1A 84.418 584 64 11 1908 2485 45756539 45755977 2.300000e-152 549.0
29 TraesCS5A01G081100 chr1A 94.355 124 7 0 3286 3409 357812087 357811964 1.610000e-44 191.0
30 TraesCS5A01G081100 chr4B 88.952 353 31 5 349 698 45787795 45788142 3.130000e-116 429.0
31 TraesCS5A01G081100 chr4B 92.460 252 15 4 56 307 45786591 45786344 1.500000e-94 357.0
32 TraesCS5A01G081100 chr4B 92.105 38 3 0 9 46 58255198 58255235 2.000000e-03 54.7
33 TraesCS5A01G081100 chr5D 94.239 243 12 2 56 298 362935338 362935098 1.920000e-98 370.0
34 TraesCS5A01G081100 chr5D 85.542 83 12 0 699 781 419036203 419036121 2.170000e-13 87.9
35 TraesCS5A01G081100 chr5D 95.652 46 2 0 1 46 362935628 362935583 1.690000e-09 75.0
36 TraesCS5A01G081100 chr3A 82.888 374 46 13 56 421 635180094 635179731 1.960000e-83 320.0
37 TraesCS5A01G081100 chr3A 86.667 90 12 0 687 776 31797124 31797213 2.780000e-17 100.0
38 TraesCS5A01G081100 chr6A 93.452 168 11 0 221 388 4921292 4921459 2.610000e-62 250.0
39 TraesCS5A01G081100 chr2D 98.413 126 2 0 3281 3406 131048733 131048608 5.690000e-54 222.0
40 TraesCS5A01G081100 chr2D 93.333 45 3 0 1 45 44892869 44892913 2.820000e-07 67.6
41 TraesCS5A01G081100 chr7A 88.800 125 10 1 3284 3408 38362609 38362489 2.730000e-32 150.0
42 TraesCS5A01G081100 chr2A 89.157 83 9 0 699 781 23484314 23484232 2.150000e-18 104.0
43 TraesCS5A01G081100 chr3B 87.500 80 10 0 702 781 156620429 156620350 4.660000e-15 93.5


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 TraesCS5A01G081100 chr5A 104146360 104150733 4373 False 8078.000000 8078 100.000000 1 4374 1 chr5A.!!$F1 4373
1 TraesCS5A01G081100 chr5B 108049622 108053254 3632 True 1925.666667 3539 94.804333 699 4374 3 chr5B.!!$R2 3675
2 TraesCS5A01G081100 chr5B 107943736 107947364 3628 True 1922.333333 3544 94.856000 699 4374 3 chr5B.!!$R1 3675
3 TraesCS5A01G081100 chr1D 45693608 45695123 1515 True 827.000000 1424 89.819500 1908 3561 2 chr1D.!!$R3 1653
4 TraesCS5A01G081100 chr1D 46234747 46237272 2525 False 425.000000 619 83.394000 1933 2939 2 chr1D.!!$F1 1006
5 TraesCS5A01G081100 chr1D 335406382 335407513 1131 False 322.466667 523 92.989667 1 698 3 chr1D.!!$F2 697
6 TraesCS5A01G081100 chr3D 541199984 541200622 638 False 913.000000 913 92.450000 56 698 1 chr3D.!!$F2 642
7 TraesCS5A01G081100 chr3D 123621627 123622261 634 False 904.000000 904 92.236000 56 698 1 chr3D.!!$F1 642
8 TraesCS5A01G081100 chr3D 186622575 186623722 1147 False 345.466667 603 93.633667 1 701 3 chr3D.!!$F3 700
9 TraesCS5A01G081100 chr7D 72121102 72121742 640 False 859.000000 859 90.895000 56 698 1 chr7D.!!$F1 642
10 TraesCS5A01G081100 chr6B 31016731 31017305 574 True 828.000000 828 92.759000 56 628 1 chr6B.!!$R1 572
11 TraesCS5A01G081100 chr1A 45755977 45756539 562 True 549.000000 549 84.418000 1908 2485 1 chr1A.!!$R1 577
12 TraesCS5A01G081100 chr5D 362935098 362935628 530 True 222.500000 370 94.945500 1 298 2 chr5D.!!$R2 297

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
779 1251 0.030908 CGAGGCACGGGATCTTAGTC 59.969 60.0 0.00 0.00 38.46 2.59 F
782 1254 0.179081 GGCACGGGATCTTAGTCCAC 60.179 60.0 0.00 0.00 40.17 4.02 F
1043 1529 0.459237 GACGACCATCAGGCTGTCAG 60.459 60.0 15.27 6.63 40.33 3.51 F
1162 1648 0.544697 TTCCCGAGTAAATCAGCCCC 59.455 55.0 0.00 0.00 0.00 5.80 F
1727 2301 0.762418 TTCAACTTCGAGGCCCTTCA 59.238 50.0 0.00 0.00 0.00 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2691 4814 1.946768 TCTGACTTTGAAAGTTGCCCG 59.053 47.619 12.37 0.00 43.03 6.13 R
2744 4872 3.954200 TCACCACATGTGCATGAATAGT 58.046 40.909 20.81 7.28 45.03 2.12 R
3017 5153 2.352960 GAGTTTCGATGAATGGTCCTGC 59.647 50.000 0.00 0.00 0.00 4.85 R
3049 5185 0.392998 CCAATCCACACTTCTCCCCG 60.393 60.000 0.00 0.00 0.00 5.73 R
3380 5516 0.249398 TGAAAAGACGGCCCTAGAGC 59.751 55.000 0.00 0.00 0.00 4.09 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
46 47 3.259592 TCGACTCCGAACTCATCCA 57.740 52.632 0.00 0.00 42.51 3.41
47 48 1.095600 TCGACTCCGAACTCATCCAG 58.904 55.000 0.00 0.00 42.51 3.86
48 49 1.095600 CGACTCCGAACTCATCCAGA 58.904 55.000 0.00 0.00 38.22 3.86
49 50 1.678627 CGACTCCGAACTCATCCAGAT 59.321 52.381 0.00 0.00 38.22 2.90
50 51 2.879026 CGACTCCGAACTCATCCAGATA 59.121 50.000 0.00 0.00 38.22 1.98
51 52 3.504134 CGACTCCGAACTCATCCAGATAT 59.496 47.826 0.00 0.00 38.22 1.63
52 53 4.695928 CGACTCCGAACTCATCCAGATATA 59.304 45.833 0.00 0.00 38.22 0.86
53 54 5.355630 CGACTCCGAACTCATCCAGATATAT 59.644 44.000 0.00 0.00 38.22 0.86
54 55 6.522625 ACTCCGAACTCATCCAGATATATG 57.477 41.667 0.00 0.00 0.00 1.78
68 304 9.872684 ATCCAGATATATGTTTTGTTTGGATCT 57.127 29.630 0.00 0.00 38.21 2.75
224 460 7.150783 TGGTCAAGAGATCATCTCATATACG 57.849 40.000 17.27 0.00 45.73 3.06
329 787 4.672587 TGAGGTAACCATACATGCTCTC 57.327 45.455 0.00 0.00 33.45 3.20
435 906 6.868339 GTGCATGTAGCCTTTTCTTTGTTTAT 59.132 34.615 0.00 0.00 44.83 1.40
436 907 7.384932 GTGCATGTAGCCTTTTCTTTGTTTATT 59.615 33.333 0.00 0.00 44.83 1.40
437 908 8.580720 TGCATGTAGCCTTTTCTTTGTTTATTA 58.419 29.630 0.00 0.00 44.83 0.98
495 967 0.619255 TTCCCCCAGACGCCAAGATA 60.619 55.000 0.00 0.00 0.00 1.98
653 1125 6.479990 GGAAATCTTTTCAAAACCAGGTCAAG 59.520 38.462 0.00 0.00 0.00 3.02
655 1127 5.993748 TCTTTTCAAAACCAGGTCAAGTT 57.006 34.783 0.00 0.00 0.00 2.66
768 1240 4.147449 TGGATCTGGCGAGGCACG 62.147 66.667 0.00 0.00 45.66 5.34
769 1241 4.899239 GGATCTGGCGAGGCACGG 62.899 72.222 6.44 0.00 42.83 4.94
770 1242 4.899239 GATCTGGCGAGGCACGGG 62.899 72.222 6.44 0.00 42.83 5.28
773 1245 4.899239 CTGGCGAGGCACGGGATC 62.899 72.222 6.44 0.00 42.83 3.36
775 1247 4.162690 GGCGAGGCACGGGATCTT 62.163 66.667 6.44 0.00 42.83 2.40
776 1248 2.792947 GGCGAGGCACGGGATCTTA 61.793 63.158 6.44 0.00 42.83 2.10
777 1249 1.300233 GCGAGGCACGGGATCTTAG 60.300 63.158 6.44 0.00 42.83 2.18
778 1250 2.017559 GCGAGGCACGGGATCTTAGT 62.018 60.000 6.44 0.00 42.83 2.24
779 1251 0.030908 CGAGGCACGGGATCTTAGTC 59.969 60.000 0.00 0.00 38.46 2.59
780 1252 0.389757 GAGGCACGGGATCTTAGTCC 59.610 60.000 0.00 0.00 37.56 3.85
781 1253 0.325296 AGGCACGGGATCTTAGTCCA 60.325 55.000 0.00 0.00 40.17 4.02
782 1254 0.179081 GGCACGGGATCTTAGTCCAC 60.179 60.000 0.00 0.00 40.17 4.02
786 1258 1.200519 CGGGATCTTAGTCCACCCAA 58.799 55.000 0.00 0.00 40.17 4.12
854 1336 1.256376 GCGCATATGTCTCTGACAACG 59.744 52.381 0.30 7.66 45.96 4.10
898 1381 2.028567 CCTTGCTTTCTCTTCCTCTCGT 60.029 50.000 0.00 0.00 0.00 4.18
920 1406 4.961511 GGCGGCGGCATCGATGTA 62.962 66.667 29.41 0.00 42.47 2.29
1043 1529 0.459237 GACGACCATCAGGCTGTCAG 60.459 60.000 15.27 6.63 40.33 3.51
1044 1530 1.812922 CGACCATCAGGCTGTCAGC 60.813 63.158 16.93 16.93 41.46 4.26
1056 1542 0.791238 CTGTCAGCGACGACGAAGAG 60.791 60.000 12.29 0.00 42.66 2.85
1099 1585 3.008813 GGCTCCATGTGTATCCTGATGAT 59.991 47.826 0.00 0.00 37.49 2.45
1159 1645 5.757850 ATTTGATTCCCGAGTAAATCAGC 57.242 39.130 0.00 0.00 41.50 4.26
1162 1648 0.544697 TTCCCGAGTAAATCAGCCCC 59.455 55.000 0.00 0.00 0.00 5.80
1229 1803 2.819608 ACCGGAGCAGTTACTACGTTAA 59.180 45.455 9.46 0.00 42.69 2.01
1343 1917 7.014230 GGTGACCATGTTTGTAATATAGGCATT 59.986 37.037 0.00 0.00 0.00 3.56
1389 1963 5.997129 TCCTATGCATGTATACAACCATGTG 59.003 40.000 22.17 12.45 40.84 3.21
1397 1971 1.697284 TACAACCATGTGGCTTGCAA 58.303 45.000 0.00 0.00 40.84 4.08
1454 2028 8.713708 TCATCAAGGGATTTTAAACCAACTTA 57.286 30.769 0.00 0.00 0.00 2.24
1540 2114 9.747293 CTTCTATGAATATATCGATGCTCATGT 57.253 33.333 8.54 0.00 0.00 3.21
1687 2261 5.353400 GTGAGTTTGATGAGCAATCTGATGA 59.647 40.000 0.00 0.00 36.82 2.92
1727 2301 0.762418 TTCAACTTCGAGGCCCTTCA 59.238 50.000 0.00 0.00 0.00 3.02
1744 2318 4.202243 CCCTTCAGCAATGTTTCTTTTCCA 60.202 41.667 0.00 0.00 0.00 3.53
1746 2320 5.221303 CCTTCAGCAATGTTTCTTTTCCAGA 60.221 40.000 0.00 0.00 0.00 3.86
1755 2329 5.577835 TGTTTCTTTTCCAGACATTCAACG 58.422 37.500 0.00 0.00 0.00 4.10
1764 2338 3.118408 CCAGACATTCAACGATCCCCTTA 60.118 47.826 0.00 0.00 0.00 2.69
2144 2720 1.346365 TTCGCAGTACGTGAGAATGC 58.654 50.000 0.00 0.00 39.76 3.56
2182 4301 1.268066 TGTGTACAGGCGTGGGATTA 58.732 50.000 11.67 0.00 0.00 1.75
2256 4375 2.080286 TCTTTCTACCTGCACGCTTC 57.920 50.000 0.00 0.00 0.00 3.86
2444 4563 2.351455 GCCTTCAGCCAGTTAAGAGAC 58.649 52.381 0.00 0.00 34.35 3.36
2526 4645 3.492102 TGAGGAGTAAAGCAAGCAAGT 57.508 42.857 0.00 0.00 0.00 3.16
2613 4736 7.113825 CACAACACATGTTAATCAATGACACAG 59.886 37.037 0.00 0.00 41.46 3.66
2691 4814 7.150783 AGCTCAAACTTATCTTTCATTCACC 57.849 36.000 0.00 0.00 0.00 4.02
3001 5137 5.100943 GGATGTACCGAGTTTACTGAGTTC 58.899 45.833 0.00 0.00 0.00 3.01
3017 5153 7.194607 ACTGAGTTCATGAACATGTACAAAG 57.805 36.000 33.92 21.20 43.47 2.77
3049 5185 0.110056 TCGAAACTCGGCGTCTGTAC 60.110 55.000 6.85 2.87 40.88 2.90
3089 5225 5.875224 TGGATATGAAGTTTCTGGTGTTGA 58.125 37.500 0.00 0.00 0.00 3.18
3139 5275 2.826128 TGAGATACTTCGTGCTCCTGTT 59.174 45.455 0.00 0.00 0.00 3.16
3172 5308 6.610741 AATCTGAATCTTTATGCGAAGACC 57.389 37.500 0.00 0.00 38.39 3.85
3194 5330 3.106054 AGTGGCTTCAGAGATGTGATCT 58.894 45.455 0.00 0.00 43.70 2.75
3283 5419 8.928270 ACAGTTACCTTATTCTTTGTATCTCG 57.072 34.615 0.00 0.00 0.00 4.04
3284 5420 7.491696 ACAGTTACCTTATTCTTTGTATCTCGC 59.508 37.037 0.00 0.00 0.00 5.03
3285 5421 7.707035 CAGTTACCTTATTCTTTGTATCTCGCT 59.293 37.037 0.00 0.00 0.00 4.93
3286 5422 7.707035 AGTTACCTTATTCTTTGTATCTCGCTG 59.293 37.037 0.00 0.00 0.00 5.18
3287 5423 5.978814 ACCTTATTCTTTGTATCTCGCTGT 58.021 37.500 0.00 0.00 0.00 4.40
3288 5424 7.108841 ACCTTATTCTTTGTATCTCGCTGTA 57.891 36.000 0.00 0.00 0.00 2.74
3289 5425 7.727181 ACCTTATTCTTTGTATCTCGCTGTAT 58.273 34.615 0.00 0.00 0.00 2.29
3290 5426 8.204836 ACCTTATTCTTTGTATCTCGCTGTATT 58.795 33.333 0.00 0.00 0.00 1.89
3291 5427 9.046296 CCTTATTCTTTGTATCTCGCTGTATTT 57.954 33.333 0.00 0.00 0.00 1.40
3295 5431 8.547967 TTCTTTGTATCTCGCTGTATTTTTCT 57.452 30.769 0.00 0.00 0.00 2.52
3296 5432 7.963981 TCTTTGTATCTCGCTGTATTTTTCTG 58.036 34.615 0.00 0.00 0.00 3.02
3297 5433 6.662414 TTGTATCTCGCTGTATTTTTCTGG 57.338 37.500 0.00 0.00 0.00 3.86
3298 5434 5.972935 TGTATCTCGCTGTATTTTTCTGGA 58.027 37.500 0.00 0.00 0.00 3.86
3299 5435 6.582636 TGTATCTCGCTGTATTTTTCTGGAT 58.417 36.000 0.00 0.00 0.00 3.41
3300 5436 5.998454 ATCTCGCTGTATTTTTCTGGATG 57.002 39.130 0.00 0.00 0.00 3.51
3301 5437 3.623060 TCTCGCTGTATTTTTCTGGATGC 59.377 43.478 0.00 0.00 0.00 3.91
3302 5438 2.682856 TCGCTGTATTTTTCTGGATGCC 59.317 45.455 0.00 0.00 0.00 4.40
3303 5439 2.423185 CGCTGTATTTTTCTGGATGCCA 59.577 45.455 0.00 0.00 0.00 4.92
3311 5447 4.237445 CTGGATGCCAGCTTCAGG 57.763 61.111 0.00 0.00 45.13 3.86
3324 5460 2.784347 GCTTCAGGCTTTTCACCTAGT 58.216 47.619 0.00 0.00 35.10 2.57
3325 5461 2.744741 GCTTCAGGCTTTTCACCTAGTC 59.255 50.000 0.00 0.00 35.10 2.59
3326 5462 3.558109 GCTTCAGGCTTTTCACCTAGTCT 60.558 47.826 0.00 0.00 35.10 3.24
3327 5463 3.963428 TCAGGCTTTTCACCTAGTCTC 57.037 47.619 0.00 0.00 35.10 3.36
3328 5464 3.511477 TCAGGCTTTTCACCTAGTCTCT 58.489 45.455 0.00 0.00 35.10 3.10
3329 5465 4.673968 TCAGGCTTTTCACCTAGTCTCTA 58.326 43.478 0.00 0.00 35.10 2.43
3330 5466 5.084519 TCAGGCTTTTCACCTAGTCTCTAA 58.915 41.667 0.00 0.00 35.10 2.10
3331 5467 5.047235 TCAGGCTTTTCACCTAGTCTCTAAC 60.047 44.000 0.00 0.00 35.10 2.34
3332 5468 5.046950 CAGGCTTTTCACCTAGTCTCTAACT 60.047 44.000 0.00 0.00 42.33 2.24
3333 5469 5.186215 AGGCTTTTCACCTAGTCTCTAACTC 59.814 44.000 0.00 0.00 39.55 3.01
3334 5470 5.186215 GGCTTTTCACCTAGTCTCTAACTCT 59.814 44.000 0.00 0.00 39.55 3.24
3335 5471 6.377712 GGCTTTTCACCTAGTCTCTAACTCTA 59.622 42.308 0.00 0.00 39.55 2.43
3336 5472 7.093858 GGCTTTTCACCTAGTCTCTAACTCTAA 60.094 40.741 0.00 0.00 39.55 2.10
3337 5473 8.305317 GCTTTTCACCTAGTCTCTAACTCTAAA 58.695 37.037 0.00 0.00 39.55 1.85
3338 5474 9.849166 CTTTTCACCTAGTCTCTAACTCTAAAG 57.151 37.037 0.00 0.00 39.55 1.85
3339 5475 8.937207 TTTCACCTAGTCTCTAACTCTAAAGT 57.063 34.615 0.00 0.00 39.55 2.66
3340 5476 8.564509 TTCACCTAGTCTCTAACTCTAAAGTC 57.435 38.462 0.00 0.00 39.55 3.01
3341 5477 7.920227 TCACCTAGTCTCTAACTCTAAAGTCT 58.080 38.462 0.00 0.00 39.55 3.24
3342 5478 8.384718 TCACCTAGTCTCTAACTCTAAAGTCTT 58.615 37.037 0.00 0.00 39.55 3.01
3343 5479 9.016438 CACCTAGTCTCTAACTCTAAAGTCTTT 57.984 37.037 2.81 2.81 39.55 2.52
3344 5480 9.016438 ACCTAGTCTCTAACTCTAAAGTCTTTG 57.984 37.037 8.14 0.00 39.55 2.77
3345 5481 9.016438 CCTAGTCTCTAACTCTAAAGTCTTTGT 57.984 37.037 8.14 0.00 39.55 2.83
3355 5491 9.628500 AACTCTAAAGTCTTTGTATTTGTTCCT 57.372 29.630 8.14 0.00 33.48 3.36
3356 5492 9.274206 ACTCTAAAGTCTTTGTATTTGTTCCTC 57.726 33.333 8.14 0.00 0.00 3.71
3357 5493 9.495572 CTCTAAAGTCTTTGTATTTGTTCCTCT 57.504 33.333 8.14 0.00 0.00 3.69
3358 5494 9.490379 TCTAAAGTCTTTGTATTTGTTCCTCTC 57.510 33.333 8.14 0.00 0.00 3.20
3359 5495 7.511959 AAAGTCTTTGTATTTGTTCCTCTCC 57.488 36.000 0.00 0.00 0.00 3.71
3360 5496 6.441088 AGTCTTTGTATTTGTTCCTCTCCT 57.559 37.500 0.00 0.00 0.00 3.69
3361 5497 6.234177 AGTCTTTGTATTTGTTCCTCTCCTG 58.766 40.000 0.00 0.00 0.00 3.86
3362 5498 6.043243 AGTCTTTGTATTTGTTCCTCTCCTGA 59.957 38.462 0.00 0.00 0.00 3.86
3363 5499 6.881602 GTCTTTGTATTTGTTCCTCTCCTGAT 59.118 38.462 0.00 0.00 0.00 2.90
3364 5500 7.391833 GTCTTTGTATTTGTTCCTCTCCTGATT 59.608 37.037 0.00 0.00 0.00 2.57
3365 5501 8.602424 TCTTTGTATTTGTTCCTCTCCTGATTA 58.398 33.333 0.00 0.00 0.00 1.75
3366 5502 9.231297 CTTTGTATTTGTTCCTCTCCTGATTAA 57.769 33.333 0.00 0.00 0.00 1.40
3367 5503 9.753674 TTTGTATTTGTTCCTCTCCTGATTAAT 57.246 29.630 0.00 0.00 0.00 1.40
3368 5504 8.964476 TGTATTTGTTCCTCTCCTGATTAATC 57.036 34.615 8.60 8.60 0.00 1.75
3369 5505 8.548025 TGTATTTGTTCCTCTCCTGATTAATCA 58.452 33.333 17.07 17.07 35.16 2.57
3370 5506 9.396022 GTATTTGTTCCTCTCCTGATTAATCAA 57.604 33.333 18.47 4.77 36.18 2.57
3372 5508 7.870509 TTGTTCCTCTCCTGATTAATCAATG 57.129 36.000 18.47 12.67 36.18 2.82
3373 5509 7.199167 TGTTCCTCTCCTGATTAATCAATGA 57.801 36.000 18.47 15.75 36.18 2.57
3374 5510 7.632861 TGTTCCTCTCCTGATTAATCAATGAA 58.367 34.615 18.47 9.72 36.18 2.57
3375 5511 8.108999 TGTTCCTCTCCTGATTAATCAATGAAA 58.891 33.333 18.47 5.29 36.18 2.69
3376 5512 9.129532 GTTCCTCTCCTGATTAATCAATGAAAT 57.870 33.333 18.47 0.00 36.18 2.17
3377 5513 8.687292 TCCTCTCCTGATTAATCAATGAAATG 57.313 34.615 18.47 5.74 36.18 2.32
3378 5514 7.230108 TCCTCTCCTGATTAATCAATGAAATGC 59.770 37.037 18.47 0.00 36.18 3.56
3379 5515 6.962686 TCTCCTGATTAATCAATGAAATGCG 58.037 36.000 18.47 4.41 36.18 4.73
3380 5516 6.016860 TCTCCTGATTAATCAATGAAATGCGG 60.017 38.462 18.47 12.57 36.18 5.69
3381 5517 4.682860 CCTGATTAATCAATGAAATGCGGC 59.317 41.667 18.47 0.00 36.18 6.53
3382 5518 5.508489 CCTGATTAATCAATGAAATGCGGCT 60.508 40.000 18.47 0.00 36.18 5.52
3383 5519 5.522456 TGATTAATCAATGAAATGCGGCTC 58.478 37.500 15.82 0.00 33.08 4.70
3384 5520 5.300034 TGATTAATCAATGAAATGCGGCTCT 59.700 36.000 15.82 0.00 33.08 4.09
3385 5521 6.486320 TGATTAATCAATGAAATGCGGCTCTA 59.514 34.615 15.82 0.00 33.08 2.43
3386 5522 4.825546 AATCAATGAAATGCGGCTCTAG 57.174 40.909 0.00 0.00 0.00 2.43
3387 5523 2.564771 TCAATGAAATGCGGCTCTAGG 58.435 47.619 0.00 0.00 0.00 3.02
3388 5524 1.605710 CAATGAAATGCGGCTCTAGGG 59.394 52.381 0.00 0.00 0.00 3.53
3389 5525 0.536006 ATGAAATGCGGCTCTAGGGC 60.536 55.000 5.86 5.86 37.12 5.19
3396 5532 3.310652 GGCTCTAGGGCCGTCTTT 58.689 61.111 20.25 0.00 42.82 2.52
3397 5533 1.602771 GGCTCTAGGGCCGTCTTTT 59.397 57.895 20.25 0.00 42.82 2.27
3398 5534 0.462225 GGCTCTAGGGCCGTCTTTTC 60.462 60.000 20.25 0.00 42.82 2.29
3399 5535 0.249398 GCTCTAGGGCCGTCTTTTCA 59.751 55.000 2.02 0.00 0.00 2.69
3400 5536 1.134371 GCTCTAGGGCCGTCTTTTCAT 60.134 52.381 2.02 0.00 0.00 2.57
3401 5537 2.827652 CTCTAGGGCCGTCTTTTCATC 58.172 52.381 0.00 0.00 0.00 2.92
3402 5538 2.168521 CTCTAGGGCCGTCTTTTCATCA 59.831 50.000 0.00 0.00 0.00 3.07
3403 5539 2.569853 TCTAGGGCCGTCTTTTCATCAA 59.430 45.455 0.00 0.00 0.00 2.57
3404 5540 2.286365 AGGGCCGTCTTTTCATCAAA 57.714 45.000 0.00 0.00 0.00 2.69
3405 5541 2.593026 AGGGCCGTCTTTTCATCAAAA 58.407 42.857 0.00 0.00 0.00 2.44
3406 5542 2.962421 AGGGCCGTCTTTTCATCAAAAA 59.038 40.909 0.00 0.00 35.56 1.94
3474 5610 1.548719 AGAGCTGCCGTGTTGTATGTA 59.451 47.619 0.00 0.00 0.00 2.29
3732 5868 7.390718 AGAAGAATACGGACATAAGCAAAACTT 59.609 33.333 0.00 0.00 42.76 2.66
3881 6017 9.151471 GTTCACTGCAATCTTCACTAAGTAATA 57.849 33.333 0.00 0.00 34.13 0.98
3925 6072 2.301577 AGCAGTAGAGTCCATTTCGC 57.698 50.000 0.00 0.00 0.00 4.70
4102 6250 5.627780 CGGAAACCATTTTTAACCTTCTTCG 59.372 40.000 0.00 0.00 0.00 3.79
4103 6251 6.509656 GGAAACCATTTTTAACCTTCTTCGT 58.490 36.000 0.00 0.00 0.00 3.85
4246 6394 1.411216 CCTCCATACGGGTCAGTAGGT 60.411 57.143 0.00 0.00 38.11 3.08
4331 6480 1.428869 AAGCCTCCTTATGCTCGGAT 58.571 50.000 0.00 0.00 36.66 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 2.896685 GACGGATCTGGAGATGAAGGAT 59.103 50.000 6.47 0.00 34.37 3.24
16 17 0.464013 GGAGTCGACGGATCTGGAGA 60.464 60.000 10.46 1.74 0.00 3.71
52 53 9.393512 TCAAAATTCAAGATCCAAACAAAACAT 57.606 25.926 0.00 0.00 0.00 2.71
53 54 8.783833 TCAAAATTCAAGATCCAAACAAAACA 57.216 26.923 0.00 0.00 0.00 2.83
194 430 6.896883 TGAGATGATCTCTTGACCAAATCAT 58.103 36.000 21.83 7.67 43.73 2.45
285 522 2.945008 CCTGATTTGGTATCATGCACGT 59.055 45.455 0.00 0.00 0.00 4.49
329 787 2.670934 GATAGCCCAGCCCATGCG 60.671 66.667 0.00 0.00 44.33 4.73
435 906 5.878116 CGTTTGGTCCTATTCCATCACTTAA 59.122 40.000 0.00 0.00 34.75 1.85
436 907 5.424757 CGTTTGGTCCTATTCCATCACTTA 58.575 41.667 0.00 0.00 34.75 2.24
437 908 4.261801 CGTTTGGTCCTATTCCATCACTT 58.738 43.478 0.00 0.00 34.75 3.16
447 918 0.034477 CCCTTGGCGTTTGGTCCTAT 60.034 55.000 0.00 0.00 0.00 2.57
645 1117 7.925993 TGTAAACTTAATCACAACTTGACCTG 58.074 34.615 0.00 0.00 36.92 4.00
653 1125 9.797556 AACCTTTTCTGTAAACTTAATCACAAC 57.202 29.630 0.00 0.00 0.00 3.32
684 1156 3.055963 TCCTACGGCGGACAAAATTTCTA 60.056 43.478 13.24 0.00 0.00 2.10
741 1213 2.659063 CCAGATCCAGGTCACGCCA 61.659 63.158 0.00 0.00 40.61 5.69
743 1215 2.512515 GCCAGATCCAGGTCACGC 60.513 66.667 3.95 0.00 0.00 5.34
768 1240 2.576648 ACTTTGGGTGGACTAAGATCCC 59.423 50.000 0.00 0.00 38.06 3.85
769 1241 3.610911 CACTTTGGGTGGACTAAGATCC 58.389 50.000 0.00 0.00 41.90 3.36
780 1252 2.871253 GCCAAGGCCACTTTGGGTG 61.871 63.158 20.61 0.14 44.96 4.61
781 1253 2.524148 GCCAAGGCCACTTTGGGT 60.524 61.111 20.61 0.00 38.19 4.51
803 1285 0.738975 GGAAATTCTAACCGGCTGGC 59.261 55.000 12.89 0.00 39.70 4.85
854 1336 1.927174 CGAGTTCGATTGGTGGATCAC 59.073 52.381 0.00 0.00 43.02 3.06
920 1406 1.994507 CTCCGATTCGTCTCCGCTGT 61.995 60.000 5.20 0.00 0.00 4.40
990 1476 0.103208 CGGTAGACATGGCTGAGTCC 59.897 60.000 12.69 7.54 35.38 3.85
996 1482 2.903357 CTGGCGGTAGACATGGCT 59.097 61.111 6.20 6.20 33.03 4.75
1043 1529 1.716826 ATCCTCCTCTTCGTCGTCGC 61.717 60.000 0.00 0.00 36.96 5.19
1044 1530 0.028242 CATCCTCCTCTTCGTCGTCG 59.972 60.000 0.00 0.00 38.55 5.12
1056 1542 2.962421 CTCACCTAGGTCTTCATCCTCC 59.038 54.545 12.84 0.00 36.60 4.30
1099 1585 5.657745 ACATGTATTCAGGGATCAAATTGCA 59.342 36.000 0.00 0.00 0.00 4.08
1159 1645 3.766545 TGAAAGTTTCTTGGATCAGGGG 58.233 45.455 16.33 0.00 0.00 4.79
1162 1648 6.261826 AGTCACTTGAAAGTTTCTTGGATCAG 59.738 38.462 16.33 4.33 37.08 2.90
1196 1770 0.815615 GCTCCGGTGAAATAGCCAGG 60.816 60.000 7.92 0.00 0.00 4.45
1256 1830 9.810545 CAATTCAAGAAACTTAAACCAGGTTAA 57.189 29.630 4.87 0.00 0.00 2.01
1261 1835 7.978975 TGGTTCAATTCAAGAAACTTAAACCAG 59.021 33.333 0.00 0.00 37.94 4.00
1275 1849 5.048083 GGAACTGCACTATGGTTCAATTCAA 60.048 40.000 15.23 0.00 40.48 2.69
1343 1917 8.924511 AGGAATCTATGTTTCTCAAGACAAAA 57.075 30.769 0.00 0.00 0.00 2.44
1382 1956 0.322322 CCAATTGCAAGCCACATGGT 59.678 50.000 4.94 0.00 37.57 3.55
1389 1963 3.988819 TCTGTTAAACCAATTGCAAGCC 58.011 40.909 4.94 0.00 0.00 4.35
1397 1971 8.635765 TGAGAAAGCTTATCTGTTAAACCAAT 57.364 30.769 13.60 0.00 0.00 3.16
1687 2261 7.959658 TGAATATCAGGATTTTGGAACACAT 57.040 32.000 0.00 0.00 39.29 3.21
1727 2301 5.796424 ATGTCTGGAAAAGAAACATTGCT 57.204 34.783 0.00 0.00 36.40 3.91
1744 2318 5.104527 TCAATAAGGGGATCGTTGAATGTCT 60.105 40.000 0.00 0.00 0.00 3.41
1746 2320 5.110814 TCAATAAGGGGATCGTTGAATGT 57.889 39.130 0.00 0.00 0.00 2.71
1755 2329 5.869344 GCTTGTGTTTTTCAATAAGGGGATC 59.131 40.000 0.00 0.00 0.00 3.36
1764 2338 6.018832 CCGAAGAAATGCTTGTGTTTTTCAAT 60.019 34.615 0.00 0.00 36.83 2.57
1845 2419 9.193806 AGAGTATGCCACAATTGAAATTAATCT 57.806 29.630 13.59 8.07 0.00 2.40
1857 2431 9.461312 TTCAAATTAGTAAGAGTATGCCACAAT 57.539 29.630 0.00 0.00 0.00 2.71
2144 2720 2.226437 ACATAGTTGCGCAAAGGTTCAG 59.774 45.455 26.87 13.27 0.00 3.02
2182 4301 9.630098 CTTCACATTTACAGCTTCATAATTGTT 57.370 29.630 0.00 0.00 0.00 2.83
2256 4375 5.974158 CGACTACATCTGGTGTGATAAAGAG 59.026 44.000 3.28 0.00 42.24 2.85
2691 4814 1.946768 TCTGACTTTGAAAGTTGCCCG 59.053 47.619 12.37 0.00 43.03 6.13
2742 4870 5.683681 TCACCACATGTGCATGAATAGTAT 58.316 37.500 20.81 0.00 45.03 2.12
2744 4872 3.954200 TCACCACATGTGCATGAATAGT 58.046 40.909 20.81 7.28 45.03 2.12
2813 4942 3.525537 AGGATCAACAAGCACTACATCG 58.474 45.455 0.00 0.00 0.00 3.84
2820 4956 5.066505 CCCTACATTAAGGATCAACAAGCAC 59.933 44.000 0.00 0.00 39.15 4.40
3001 5137 4.379813 GGTCCTGCTTTGTACATGTTCATG 60.380 45.833 2.30 10.72 0.00 3.07
3017 5153 2.352960 GAGTTTCGATGAATGGTCCTGC 59.647 50.000 0.00 0.00 0.00 4.85
3049 5185 0.392998 CCAATCCACACTTCTCCCCG 60.393 60.000 0.00 0.00 0.00 5.73
3089 5225 2.298163 CCTTTGCTTGAACTGCATTCCT 59.702 45.455 0.00 0.00 40.34 3.36
3139 5275 7.040201 GCATAAAGATTCAGATTAAGGCCATCA 60.040 37.037 5.01 0.00 0.00 3.07
3172 5308 2.756840 TCACATCTCTGAAGCCACTG 57.243 50.000 0.00 0.00 0.00 3.66
3194 5330 3.646162 TCTGTAACTCCAGAAAAGAGGCA 59.354 43.478 0.00 0.00 38.49 4.75
3281 5417 2.682856 GGCATCCAGAAAAATACAGCGA 59.317 45.455 0.00 0.00 0.00 4.93
3282 5418 2.423185 TGGCATCCAGAAAAATACAGCG 59.577 45.455 0.00 0.00 0.00 5.18
3295 5431 2.044650 GCCTGAAGCTGGCATCCA 60.045 61.111 8.63 0.00 45.75 3.41
3304 5440 2.744741 GACTAGGTGAAAAGCCTGAAGC 59.255 50.000 0.00 0.00 44.25 3.86
3305 5441 4.020662 AGAGACTAGGTGAAAAGCCTGAAG 60.021 45.833 0.00 0.00 37.54 3.02
3306 5442 3.904339 AGAGACTAGGTGAAAAGCCTGAA 59.096 43.478 0.00 0.00 37.54 3.02
3307 5443 3.511477 AGAGACTAGGTGAAAAGCCTGA 58.489 45.455 0.00 0.00 37.54 3.86
3308 5444 3.971245 AGAGACTAGGTGAAAAGCCTG 57.029 47.619 0.00 0.00 37.54 4.85
3309 5445 5.088026 AGTTAGAGACTAGGTGAAAAGCCT 58.912 41.667 0.00 0.00 36.65 4.58
3310 5446 5.186215 AGAGTTAGAGACTAGGTGAAAAGCC 59.814 44.000 0.00 0.00 39.19 4.35
3311 5447 6.275494 AGAGTTAGAGACTAGGTGAAAAGC 57.725 41.667 0.00 0.00 39.19 3.51
3312 5448 9.849166 CTTTAGAGTTAGAGACTAGGTGAAAAG 57.151 37.037 0.00 0.00 39.19 2.27
3313 5449 9.364653 ACTTTAGAGTTAGAGACTAGGTGAAAA 57.635 33.333 0.00 0.00 39.19 2.29
3314 5450 8.937207 ACTTTAGAGTTAGAGACTAGGTGAAA 57.063 34.615 0.00 0.00 39.19 2.69
3315 5451 8.384718 AGACTTTAGAGTTAGAGACTAGGTGAA 58.615 37.037 0.00 0.00 39.19 3.18
3316 5452 7.920227 AGACTTTAGAGTTAGAGACTAGGTGA 58.080 38.462 0.00 0.00 39.19 4.02
3317 5453 8.570068 AAGACTTTAGAGTTAGAGACTAGGTG 57.430 38.462 0.00 0.00 39.19 4.00
3318 5454 9.016438 CAAAGACTTTAGAGTTAGAGACTAGGT 57.984 37.037 0.00 0.00 39.19 3.08
3319 5455 9.016438 ACAAAGACTTTAGAGTTAGAGACTAGG 57.984 37.037 0.00 0.00 39.19 3.02
3329 5465 9.628500 AGGAACAAATACAAAGACTTTAGAGTT 57.372 29.630 0.00 0.97 35.88 3.01
3330 5466 9.274206 GAGGAACAAATACAAAGACTTTAGAGT 57.726 33.333 0.00 0.00 39.32 3.24
3331 5467 9.495572 AGAGGAACAAATACAAAGACTTTAGAG 57.504 33.333 0.00 0.00 0.00 2.43
3332 5468 9.490379 GAGAGGAACAAATACAAAGACTTTAGA 57.510 33.333 0.00 0.00 0.00 2.10
3333 5469 8.722394 GGAGAGGAACAAATACAAAGACTTTAG 58.278 37.037 0.00 0.00 0.00 1.85
3334 5470 8.437575 AGGAGAGGAACAAATACAAAGACTTTA 58.562 33.333 0.00 0.00 0.00 1.85
3335 5471 7.229506 CAGGAGAGGAACAAATACAAAGACTTT 59.770 37.037 0.00 0.00 0.00 2.66
3336 5472 6.712547 CAGGAGAGGAACAAATACAAAGACTT 59.287 38.462 0.00 0.00 0.00 3.01
3337 5473 6.043243 TCAGGAGAGGAACAAATACAAAGACT 59.957 38.462 0.00 0.00 0.00 3.24
3338 5474 6.231211 TCAGGAGAGGAACAAATACAAAGAC 58.769 40.000 0.00 0.00 0.00 3.01
3339 5475 6.433847 TCAGGAGAGGAACAAATACAAAGA 57.566 37.500 0.00 0.00 0.00 2.52
3340 5476 7.693969 AATCAGGAGAGGAACAAATACAAAG 57.306 36.000 0.00 0.00 0.00 2.77
3341 5477 9.753674 ATTAATCAGGAGAGGAACAAATACAAA 57.246 29.630 0.00 0.00 0.00 2.83
3342 5478 9.396022 GATTAATCAGGAGAGGAACAAATACAA 57.604 33.333 10.68 0.00 0.00 2.41
3343 5479 8.548025 TGATTAATCAGGAGAGGAACAAATACA 58.452 33.333 14.23 0.00 32.11 2.29
3344 5480 8.964476 TGATTAATCAGGAGAGGAACAAATAC 57.036 34.615 14.23 0.00 32.11 1.89
3346 5482 8.910944 CATTGATTAATCAGGAGAGGAACAAAT 58.089 33.333 17.28 2.02 38.19 2.32
3347 5483 8.108999 TCATTGATTAATCAGGAGAGGAACAAA 58.891 33.333 17.28 0.00 38.19 2.83
3348 5484 7.632861 TCATTGATTAATCAGGAGAGGAACAA 58.367 34.615 17.28 0.00 38.19 2.83
3349 5485 7.199167 TCATTGATTAATCAGGAGAGGAACA 57.801 36.000 17.28 0.36 38.19 3.18
3350 5486 8.511604 TTTCATTGATTAATCAGGAGAGGAAC 57.488 34.615 17.28 0.00 38.19 3.62
3351 5487 9.128404 CATTTCATTGATTAATCAGGAGAGGAA 57.872 33.333 17.28 13.03 38.19 3.36
3352 5488 7.230108 GCATTTCATTGATTAATCAGGAGAGGA 59.770 37.037 17.28 7.99 38.19 3.71
3353 5489 7.368833 GCATTTCATTGATTAATCAGGAGAGG 58.631 38.462 17.28 15.62 38.19 3.69
3354 5490 7.076362 CGCATTTCATTGATTAATCAGGAGAG 58.924 38.462 17.28 12.74 38.19 3.20
3355 5491 6.016860 CCGCATTTCATTGATTAATCAGGAGA 60.017 38.462 17.28 14.20 38.19 3.71
3356 5492 6.147581 CCGCATTTCATTGATTAATCAGGAG 58.852 40.000 17.28 11.62 38.19 3.69
3357 5493 5.507817 GCCGCATTTCATTGATTAATCAGGA 60.508 40.000 17.28 15.68 38.19 3.86
3358 5494 4.682860 GCCGCATTTCATTGATTAATCAGG 59.317 41.667 17.28 13.84 38.19 3.86
3359 5495 5.526115 AGCCGCATTTCATTGATTAATCAG 58.474 37.500 17.28 8.12 38.19 2.90
3360 5496 5.300034 AGAGCCGCATTTCATTGATTAATCA 59.700 36.000 14.23 14.23 34.44 2.57
3361 5497 5.766222 AGAGCCGCATTTCATTGATTAATC 58.234 37.500 8.60 8.60 0.00 1.75
3362 5498 5.779529 AGAGCCGCATTTCATTGATTAAT 57.220 34.783 0.00 0.00 0.00 1.40
3363 5499 5.239306 CCTAGAGCCGCATTTCATTGATTAA 59.761 40.000 0.00 0.00 0.00 1.40
3364 5500 4.756642 CCTAGAGCCGCATTTCATTGATTA 59.243 41.667 0.00 0.00 0.00 1.75
3365 5501 3.567164 CCTAGAGCCGCATTTCATTGATT 59.433 43.478 0.00 0.00 0.00 2.57
3366 5502 3.144506 CCTAGAGCCGCATTTCATTGAT 58.855 45.455 0.00 0.00 0.00 2.57
3367 5503 2.564771 CCTAGAGCCGCATTTCATTGA 58.435 47.619 0.00 0.00 0.00 2.57
3368 5504 1.605710 CCCTAGAGCCGCATTTCATTG 59.394 52.381 0.00 0.00 0.00 2.82
3369 5505 1.972872 CCCTAGAGCCGCATTTCATT 58.027 50.000 0.00 0.00 0.00 2.57
3370 5506 0.536006 GCCCTAGAGCCGCATTTCAT 60.536 55.000 0.00 0.00 0.00 2.57
3371 5507 1.153168 GCCCTAGAGCCGCATTTCA 60.153 57.895 0.00 0.00 0.00 2.69
3372 5508 1.894282 GGCCCTAGAGCCGCATTTC 60.894 63.158 0.00 0.00 44.57 2.17
3373 5509 2.193248 GGCCCTAGAGCCGCATTT 59.807 61.111 0.00 0.00 44.57 2.32
3380 5516 0.249398 TGAAAAGACGGCCCTAGAGC 59.751 55.000 0.00 0.00 0.00 4.09
3381 5517 2.168521 TGATGAAAAGACGGCCCTAGAG 59.831 50.000 0.00 0.00 0.00 2.43
3382 5518 2.184533 TGATGAAAAGACGGCCCTAGA 58.815 47.619 0.00 0.00 0.00 2.43
3383 5519 2.691409 TGATGAAAAGACGGCCCTAG 57.309 50.000 0.00 0.00 0.00 3.02
3384 5520 3.426787 TTTGATGAAAAGACGGCCCTA 57.573 42.857 0.00 0.00 0.00 3.53
3385 5521 2.286365 TTTGATGAAAAGACGGCCCT 57.714 45.000 0.00 0.00 0.00 5.19
3386 5522 3.378911 TTTTTGATGAAAAGACGGCCC 57.621 42.857 0.00 0.00 32.44 5.80
3406 5542 8.321353 GGGGATCCTTCAATACAAAGAATTTTT 58.679 33.333 12.58 0.00 35.03 1.94
3407 5543 7.363793 CGGGGATCCTTCAATACAAAGAATTTT 60.364 37.037 12.58 0.00 35.03 1.82
3408 5544 6.096846 CGGGGATCCTTCAATACAAAGAATTT 59.903 38.462 12.58 0.00 40.26 1.82
3409 5545 5.594317 CGGGGATCCTTCAATACAAAGAATT 59.406 40.000 12.58 0.00 0.00 2.17
3410 5546 5.104109 TCGGGGATCCTTCAATACAAAGAAT 60.104 40.000 12.58 0.00 0.00 2.40
3411 5547 4.226394 TCGGGGATCCTTCAATACAAAGAA 59.774 41.667 12.58 0.00 0.00 2.52
3412 5548 3.778075 TCGGGGATCCTTCAATACAAAGA 59.222 43.478 12.58 0.00 0.00 2.52
3413 5549 4.150897 TCGGGGATCCTTCAATACAAAG 57.849 45.455 12.58 0.00 0.00 2.77
3414 5550 4.577988 TTCGGGGATCCTTCAATACAAA 57.422 40.909 12.58 0.00 0.00 2.83
3415 5551 4.226394 TCTTTCGGGGATCCTTCAATACAA 59.774 41.667 12.58 0.00 0.00 2.41
3416 5552 3.778075 TCTTTCGGGGATCCTTCAATACA 59.222 43.478 12.58 0.00 0.00 2.29
3417 5553 4.417426 TCTTTCGGGGATCCTTCAATAC 57.583 45.455 12.58 0.00 0.00 1.89
3418 5554 4.202461 CCATCTTTCGGGGATCCTTCAATA 60.202 45.833 12.58 0.00 0.00 1.90
3419 5555 3.435601 CCATCTTTCGGGGATCCTTCAAT 60.436 47.826 12.58 0.00 0.00 2.57
3420 5556 2.092429 CCATCTTTCGGGGATCCTTCAA 60.092 50.000 12.58 0.00 0.00 2.69
3421 5557 1.490490 CCATCTTTCGGGGATCCTTCA 59.510 52.381 12.58 0.00 0.00 3.02
3474 5610 1.338769 CCGAACCAAATCGACCTTCCT 60.339 52.381 0.00 0.00 45.48 3.36
3881 6017 9.277783 CTAGCACTATTTCCATTACTATGCTTT 57.722 33.333 0.00 0.00 41.02 3.51
4186 6334 8.889717 GGAATCGAATGGAAAACTGATAACTAA 58.110 33.333 0.00 0.00 0.00 2.24
4246 6394 4.100653 TGATGTGGAAAATTTGGTGAAGCA 59.899 37.500 0.00 0.00 0.00 3.91
4331 6480 4.792068 AGGATGAGAACAAAAAGGTCACA 58.208 39.130 0.00 0.00 38.90 3.58


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

AutoCloner maintained by Alex Coulton.