Multiple sequence alignment - TraesCS1D01G345000

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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 TraesCS1D01G345000 chr1D 100.000 5876 0 0 1 5876 433270566 433264691 0.000000e+00 10852.0
1 TraesCS1D01G345000 chr1D 78.465 469 72 17 268 723 256204558 256204106 4.480000e-71 279.0
2 TraesCS1D01G345000 chr1D 74.661 738 121 38 188 881 40323342 40324057 3.490000e-67 267.0
3 TraesCS1D01G345000 chr1D 80.800 250 43 3 631 880 88183491 88183247 2.160000e-44 191.0
4 TraesCS1D01G345000 chr1B 95.673 2519 70 13 2019 4518 585242499 585240001 0.000000e+00 4012.0
5 TraesCS1D01G345000 chr1B 86.038 1590 94 48 1 1573 585244690 585243212 0.000000e+00 1589.0
6 TraesCS1D01G345000 chr1B 88.559 236 15 3 1784 2007 585242856 585242621 5.800000e-70 276.0
7 TraesCS1D01G345000 chr1B 90.952 210 12 3 1572 1780 585243096 585242893 5.800000e-70 276.0
8 TraesCS1D01G345000 chr1A 95.260 1772 41 17 2779 4512 531664371 531662605 0.000000e+00 2767.0
9 TraesCS1D01G345000 chr1A 83.346 1291 137 33 3018 4252 531680143 531678875 0.000000e+00 1122.0
10 TraesCS1D01G345000 chr1A 82.886 894 96 31 4993 5872 21833756 21834606 0.000000e+00 750.0
11 TraesCS1D01G345000 chr1A 82.449 792 102 20 1 777 531667258 531666489 0.000000e+00 658.0
12 TraesCS1D01G345000 chr1A 88.095 462 29 9 2262 2721 531664795 531664358 5.220000e-145 525.0
13 TraesCS1D01G345000 chr1A 92.086 278 19 1 2782 3056 531680424 531680147 7.140000e-104 388.0
14 TraesCS1D01G345000 chr1A 88.308 325 8 10 1216 1540 531666194 531665900 4.330000e-96 363.0
15 TraesCS1D01G345000 chr1A 90.129 233 15 2 1784 2016 531665510 531665286 4.450000e-76 296.0
16 TraesCS1D01G345000 chr1A 88.281 128 9 2 1653 1780 531665668 531665547 1.320000e-31 148.0
17 TraesCS1D01G345000 chr2A 96.340 1366 40 8 4517 5876 639945435 639946796 0.000000e+00 2237.0
18 TraesCS1D01G345000 chr4A 84.522 1318 157 30 4578 5874 335517443 335518734 0.000000e+00 1260.0
19 TraesCS1D01G345000 chr4A 85.792 915 95 24 4517 5414 631657981 631658877 0.000000e+00 937.0
20 TraesCS1D01G345000 chr4A 85.714 56 5 3 2725 2779 597142337 597142284 8.230000e-04 56.5
21 TraesCS1D01G345000 chr5A 82.442 1384 172 43 4508 5872 119959985 119961316 0.000000e+00 1144.0
22 TraesCS1D01G345000 chr5A 85.039 127 17 2 2887 3012 484439142 484439017 1.720000e-25 128.0
23 TraesCS1D01G345000 chr6B 83.927 1039 121 26 4514 5540 680815612 680814608 0.000000e+00 952.0
24 TraesCS1D01G345000 chr2D 83.734 1039 114 26 4511 5540 612613919 612614911 0.000000e+00 931.0
25 TraesCS1D01G345000 chr2D 77.763 751 94 28 187 881 590062212 590061479 1.530000e-105 394.0
26 TraesCS1D01G345000 chr2D 82.768 354 43 11 280 630 513452176 513451838 3.440000e-77 300.0
27 TraesCS1D01G345000 chr2D 78.732 489 58 16 193 667 247789247 247789703 9.640000e-73 285.0
28 TraesCS1D01G345000 chr2D 82.018 228 25 7 184 404 133249487 133249269 4.680000e-41 180.0
29 TraesCS1D01G345000 chr2B 83.784 999 115 33 4895 5872 534221083 534222055 0.000000e+00 904.0
30 TraesCS1D01G345000 chr2B 80.741 810 102 27 4742 5542 639278672 639279436 3.050000e-162 582.0
31 TraesCS1D01G345000 chr2B 80.693 808 104 25 4742 5542 14623504 14622742 1.100000e-161 580.0
32 TraesCS1D01G345000 chr2B 82.031 256 32 9 631 880 775765515 775765762 7.720000e-49 206.0
33 TraesCS1D01G345000 chr6D 80.747 1044 162 30 4507 5528 404615822 404614796 0.000000e+00 778.0
34 TraesCS1D01G345000 chr6D 79.899 995 129 35 4518 5496 290905046 290905985 0.000000e+00 664.0
35 TraesCS1D01G345000 chr6D 78.452 1021 177 26 4511 5517 384302671 384303662 1.390000e-175 627.0
36 TraesCS1D01G345000 chr6D 81.909 503 55 18 186 667 14600984 14600497 5.520000e-105 392.0
37 TraesCS1D01G345000 chr6D 95.238 42 1 1 2742 2783 12614461 12614501 1.370000e-06 65.8
38 TraesCS1D01G345000 chr7A 80.322 808 130 22 4518 5305 86149209 86150007 8.490000e-163 584.0
39 TraesCS1D01G345000 chr7A 78.889 360 42 20 187 538 563604989 563605322 4.610000e-51 213.0
40 TraesCS1D01G345000 chr4D 77.763 751 96 32 187 881 404224353 404225088 4.270000e-106 396.0
41 TraesCS1D01G345000 chr4D 91.379 58 5 0 2725 2782 497189947 497189890 4.880000e-11 80.5
42 TraesCS1D01G345000 chr7D 77.568 740 90 38 187 881 530642107 530642815 1.550000e-100 377.0
43 TraesCS1D01G345000 chr7D 75.474 738 89 36 186 879 78320291 78320980 5.800000e-70 276.0
44 TraesCS1D01G345000 chr7D 83.562 292 40 8 491 777 1596397 1596109 3.490000e-67 267.0
45 TraesCS1D01G345000 chr7D 84.524 252 33 6 378 627 4698795 4698548 1.640000e-60 244.0
46 TraesCS1D01G345000 chr7D 85.859 198 25 3 682 878 510446971 510446776 2.150000e-49 207.0
47 TraesCS1D01G345000 chr7D 80.952 252 46 2 631 881 120261836 120262086 1.290000e-46 198.0
48 TraesCS1D01G345000 chr7D 93.103 58 4 0 2722 2779 75292799 75292856 1.050000e-12 86.1
49 TraesCS1D01G345000 chr5D 78.378 481 78 18 280 752 43247618 43247156 7.450000e-74 289.0
50 TraesCS1D01G345000 chr5D 82.213 253 38 6 633 881 386102968 386103217 1.660000e-50 211.0
51 TraesCS1D01G345000 chr5D 84.000 150 19 5 2866 3012 384019608 384019461 7.940000e-29 139.0
52 TraesCS1D01G345000 chr5D 89.091 55 6 0 2727 2781 545122690 545122744 1.060000e-07 69.4
53 TraesCS1D01G345000 chr5B 76.131 641 76 31 186 777 656033092 656033704 1.260000e-66 265.0
54 TraesCS1D01G345000 chr5B 82.186 247 39 5 631 874 270630865 270630621 2.150000e-49 207.0
55 TraesCS1D01G345000 chr5B 83.628 226 25 8 631 851 22532119 22531901 9.980000e-48 202.0
56 TraesCS1D01G345000 chr5B 84.000 150 19 5 2866 3012 460495367 460495220 7.940000e-29 139.0
57 TraesCS1D01G345000 chr5B 80.000 130 18 6 3398 3523 465591881 465591756 8.110000e-14 89.8
58 TraesCS1D01G345000 chr3B 80.080 251 35 11 273 521 499802849 499802612 7.830000e-39 172.0
59 TraesCS1D01G345000 chr4B 89.831 59 4 2 2722 2779 18453889 18453946 2.270000e-09 75.0
60 TraesCS1D01G345000 chr4B 89.831 59 4 2 2722 2779 18777211 18777154 2.270000e-09 75.0
61 TraesCS1D01G345000 chr7B 92.000 50 3 1 2722 2771 747333434 747333482 1.060000e-07 69.4


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 TraesCS1D01G345000 chr1D 433264691 433270566 5875 True 10852.000000 10852 100.000000 1 5876 1 chr1D.!!$R3 5875
1 TraesCS1D01G345000 chr1D 40323342 40324057 715 False 267.000000 267 74.661000 188 881 1 chr1D.!!$F1 693
2 TraesCS1D01G345000 chr1B 585240001 585244690 4689 True 1538.250000 4012 90.305500 1 4518 4 chr1B.!!$R1 4517
3 TraesCS1D01G345000 chr1A 531662605 531667258 4653 True 792.833333 2767 88.753667 1 4512 6 chr1A.!!$R1 4511
4 TraesCS1D01G345000 chr1A 531678875 531680424 1549 True 755.000000 1122 87.716000 2782 4252 2 chr1A.!!$R2 1470
5 TraesCS1D01G345000 chr1A 21833756 21834606 850 False 750.000000 750 82.886000 4993 5872 1 chr1A.!!$F1 879
6 TraesCS1D01G345000 chr2A 639945435 639946796 1361 False 2237.000000 2237 96.340000 4517 5876 1 chr2A.!!$F1 1359
7 TraesCS1D01G345000 chr4A 335517443 335518734 1291 False 1260.000000 1260 84.522000 4578 5874 1 chr4A.!!$F1 1296
8 TraesCS1D01G345000 chr4A 631657981 631658877 896 False 937.000000 937 85.792000 4517 5414 1 chr4A.!!$F2 897
9 TraesCS1D01G345000 chr5A 119959985 119961316 1331 False 1144.000000 1144 82.442000 4508 5872 1 chr5A.!!$F1 1364
10 TraesCS1D01G345000 chr6B 680814608 680815612 1004 True 952.000000 952 83.927000 4514 5540 1 chr6B.!!$R1 1026
11 TraesCS1D01G345000 chr2D 612613919 612614911 992 False 931.000000 931 83.734000 4511 5540 1 chr2D.!!$F2 1029
12 TraesCS1D01G345000 chr2D 590061479 590062212 733 True 394.000000 394 77.763000 187 881 1 chr2D.!!$R3 694
13 TraesCS1D01G345000 chr2B 534221083 534222055 972 False 904.000000 904 83.784000 4895 5872 1 chr2B.!!$F1 977
14 TraesCS1D01G345000 chr2B 639278672 639279436 764 False 582.000000 582 80.741000 4742 5542 1 chr2B.!!$F2 800
15 TraesCS1D01G345000 chr2B 14622742 14623504 762 True 580.000000 580 80.693000 4742 5542 1 chr2B.!!$R1 800
16 TraesCS1D01G345000 chr6D 404614796 404615822 1026 True 778.000000 778 80.747000 4507 5528 1 chr6D.!!$R2 1021
17 TraesCS1D01G345000 chr6D 290905046 290905985 939 False 664.000000 664 79.899000 4518 5496 1 chr6D.!!$F2 978
18 TraesCS1D01G345000 chr6D 384302671 384303662 991 False 627.000000 627 78.452000 4511 5517 1 chr6D.!!$F3 1006
19 TraesCS1D01G345000 chr7A 86149209 86150007 798 False 584.000000 584 80.322000 4518 5305 1 chr7A.!!$F1 787
20 TraesCS1D01G345000 chr4D 404224353 404225088 735 False 396.000000 396 77.763000 187 881 1 chr4D.!!$F1 694
21 TraesCS1D01G345000 chr7D 530642107 530642815 708 False 377.000000 377 77.568000 187 881 1 chr7D.!!$F4 694
22 TraesCS1D01G345000 chr7D 78320291 78320980 689 False 276.000000 276 75.474000 186 879 1 chr7D.!!$F2 693
23 TraesCS1D01G345000 chr5B 656033092 656033704 612 False 265.000000 265 76.131000 186 777 1 chr5B.!!$F1 591

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
839 1154 0.320160 GCGAAAGGACAACCGTACCT 60.320 55.000 0.00 0.0 41.83 3.08 F
1222 1579 0.027455 CGCAGAACGCACAAGTCAAA 59.973 50.000 0.00 0.0 42.60 2.69 F
1272 1629 0.030908 CGACGCTGGTTCTATCTCCC 59.969 60.000 0.00 0.0 0.00 4.30 F
1275 1632 0.030908 CGCTGGTTCTATCTCCCGTC 59.969 60.000 0.00 0.0 0.00 4.79 F
1480 1837 0.035343 GGTGAGAACCAACCCTAGCC 60.035 60.000 0.00 0.0 0.00 3.93 F
1780 2296 0.958822 GGTTTGGTTGCTCACGGATT 59.041 50.000 0.00 0.0 0.00 3.01 F
1864 2413 1.394917 CCGCGGAGAAGATGAAAGTTG 59.605 52.381 24.07 0.0 0.00 3.16 F
2314 3264 1.667724 CATCGTCCAATCCAGAACAGC 59.332 52.381 0.00 0.0 0.00 4.40 F
4221 5282 0.387494 TTCACATCGCAACGTCGCTA 60.387 50.000 0.00 0.0 0.00 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2606 3558 0.107654 GGGTGTGCCTACTTAGCTGG 60.108 60.000 0.00 0.00 34.45 4.85 R
2726 3678 0.179132 TGCATCGGAACAATGCATGC 60.179 50.000 11.82 11.82 45.14 4.06 R
2734 3686 2.268920 GGCCTCTGCATCGGAACA 59.731 61.111 0.00 0.00 40.13 3.18 R
2735 3687 2.892425 CGGCCTCTGCATCGGAAC 60.892 66.667 0.00 0.00 40.13 3.62 R
2830 3788 3.382546 GGCATACCGTTAGTTCTACTGGA 59.617 47.826 0.00 0.00 0.00 3.86 R
3649 4656 0.327924 AACGCCAGGACAATCCATGA 59.672 50.000 0.00 0.00 39.61 3.07 R
4221 5282 3.069729 GGGTGTCCAATATAAGCGACTCT 59.930 47.826 0.00 0.00 0.00 3.24 R
4248 5309 2.521547 AGAAGATTTCCCTTGGCCTG 57.478 50.000 3.32 0.00 0.00 4.85 R
5451 6631 3.646715 AGGTTGCAGCGCCCCTAA 61.647 61.111 2.29 0.00 29.19 2.69 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
128 138 4.243270 AGAAACTACGCTCGTTTTGCTAT 58.757 39.130 0.00 0.00 34.94 2.97
129 139 4.326548 AGAAACTACGCTCGTTTTGCTATC 59.673 41.667 0.00 0.00 34.94 2.08
248 271 1.195448 CACCTTCTCATGTTGCGACAC 59.805 52.381 9.51 0.00 38.91 3.67
254 277 3.277133 ATGTTGCGACACATGGCC 58.723 55.556 9.51 0.00 38.91 5.36
271 301 3.991051 CCACTCGCCACCTGTCGT 61.991 66.667 0.00 0.00 0.00 4.34
291 322 3.881089 CGTAACCTGTGAGTTTTCCCTTT 59.119 43.478 0.00 0.00 0.00 3.11
369 435 5.237779 TCTCAAACCGTTTTCACCATTAGAC 59.762 40.000 0.00 0.00 0.00 2.59
370 436 4.276431 TCAAACCGTTTTCACCATTAGACC 59.724 41.667 0.00 0.00 0.00 3.85
371 437 3.495434 ACCGTTTTCACCATTAGACCA 57.505 42.857 0.00 0.00 0.00 4.02
372 438 4.028993 ACCGTTTTCACCATTAGACCAT 57.971 40.909 0.00 0.00 0.00 3.55
373 439 4.403734 ACCGTTTTCACCATTAGACCATT 58.596 39.130 0.00 0.00 0.00 3.16
374 440 5.562635 ACCGTTTTCACCATTAGACCATTA 58.437 37.500 0.00 0.00 0.00 1.90
375 441 5.646360 ACCGTTTTCACCATTAGACCATTAG 59.354 40.000 0.00 0.00 0.00 1.73
376 442 5.065988 CCGTTTTCACCATTAGACCATTAGG 59.934 44.000 0.00 0.00 42.21 2.69
826 1141 4.139420 CTGTGCCTCGCGCGAAAG 62.139 66.667 33.99 27.08 42.51 2.62
831 1146 2.736995 CCTCGCGCGAAAGGACAA 60.737 61.111 33.99 8.84 34.35 3.18
832 1147 2.470286 CTCGCGCGAAAGGACAAC 59.530 61.111 33.99 0.00 0.00 3.32
833 1148 3.011760 CTCGCGCGAAAGGACAACC 62.012 63.158 33.99 0.00 0.00 3.77
834 1149 4.424430 CGCGCGAAAGGACAACCG 62.424 66.667 28.94 0.00 41.83 4.44
835 1150 3.343421 GCGCGAAAGGACAACCGT 61.343 61.111 12.10 0.00 41.83 4.83
836 1151 2.023223 GCGCGAAAGGACAACCGTA 61.023 57.895 12.10 0.00 41.83 4.02
837 1152 1.777199 CGCGAAAGGACAACCGTAC 59.223 57.895 0.00 0.00 41.83 3.67
838 1153 1.620413 CGCGAAAGGACAACCGTACC 61.620 60.000 0.00 0.00 41.83 3.34
839 1154 0.320160 GCGAAAGGACAACCGTACCT 60.320 55.000 0.00 0.00 41.83 3.08
840 1155 1.706443 CGAAAGGACAACCGTACCTC 58.294 55.000 0.00 0.00 41.83 3.85
841 1156 1.271656 CGAAAGGACAACCGTACCTCT 59.728 52.381 0.00 0.00 41.83 3.69
842 1157 2.670509 CGAAAGGACAACCGTACCTCTC 60.671 54.545 0.00 0.00 41.83 3.20
843 1158 2.005370 AAGGACAACCGTACCTCTCA 57.995 50.000 0.00 0.00 41.83 3.27
851 1166 0.458025 CCGTACCTCTCACGAAAGCC 60.458 60.000 0.00 0.00 41.91 4.35
872 1227 3.691342 CCGTGCCTCTCGTGGGAA 61.691 66.667 0.00 0.00 0.00 3.97
1054 1410 3.041940 GACACGTGGTGGCGAAGG 61.042 66.667 21.57 0.00 37.94 3.46
1080 1436 1.687494 CGCCAACTAGTTGCTCTCGC 61.687 60.000 27.05 22.23 39.16 5.03
1081 1437 0.390472 GCCAACTAGTTGCTCTCGCT 60.390 55.000 27.05 0.00 39.16 4.93
1082 1438 1.135083 GCCAACTAGTTGCTCTCGCTA 60.135 52.381 27.05 0.00 39.16 4.26
1096 1452 3.640029 CTCTCGCTATACACCCCCTAAAA 59.360 47.826 0.00 0.00 0.00 1.52
1107 1463 4.343814 ACACCCCCTAAAAATGTTTGTCTG 59.656 41.667 0.00 0.00 0.00 3.51
1141 1498 1.065851 GAAGTGGCTAGGTCTCGCTAC 59.934 57.143 3.45 3.45 37.82 3.58
1187 1544 6.096282 CGTTAATGGTCCATTCCATACCTTTT 59.904 38.462 20.65 0.00 46.14 2.27
1220 1577 3.318875 CGCAGAACGCACAAGTCA 58.681 55.556 0.00 0.00 42.60 3.41
1221 1578 1.641140 CGCAGAACGCACAAGTCAA 59.359 52.632 0.00 0.00 42.60 3.18
1222 1579 0.027455 CGCAGAACGCACAAGTCAAA 59.973 50.000 0.00 0.00 42.60 2.69
1223 1580 1.746760 GCAGAACGCACAAGTCAAAG 58.253 50.000 0.00 0.00 41.79 2.77
1236 1593 2.044946 CAAAGGGGGCCGAGAAGG 60.045 66.667 0.00 0.00 44.97 3.46
1272 1629 0.030908 CGACGCTGGTTCTATCTCCC 59.969 60.000 0.00 0.00 0.00 4.30
1273 1630 0.030908 GACGCTGGTTCTATCTCCCG 59.969 60.000 0.00 0.00 0.00 5.14
1274 1631 0.683504 ACGCTGGTTCTATCTCCCGT 60.684 55.000 0.00 0.00 0.00 5.28
1275 1632 0.030908 CGCTGGTTCTATCTCCCGTC 59.969 60.000 0.00 0.00 0.00 4.79
1276 1633 1.404843 GCTGGTTCTATCTCCCGTCT 58.595 55.000 0.00 0.00 0.00 4.18
1277 1634 1.338655 GCTGGTTCTATCTCCCGTCTC 59.661 57.143 0.00 0.00 0.00 3.36
1279 1636 1.286849 TGGTTCTATCTCCCGTCTCCA 59.713 52.381 0.00 0.00 0.00 3.86
1280 1637 2.291996 TGGTTCTATCTCCCGTCTCCAA 60.292 50.000 0.00 0.00 0.00 3.53
1281 1638 2.966516 GGTTCTATCTCCCGTCTCCAAT 59.033 50.000 0.00 0.00 0.00 3.16
1282 1639 3.006003 GGTTCTATCTCCCGTCTCCAATC 59.994 52.174 0.00 0.00 0.00 2.67
1283 1640 3.595190 TCTATCTCCCGTCTCCAATCA 57.405 47.619 0.00 0.00 0.00 2.57
1284 1641 3.910989 TCTATCTCCCGTCTCCAATCAA 58.089 45.455 0.00 0.00 0.00 2.57
1285 1642 4.483950 TCTATCTCCCGTCTCCAATCAAT 58.516 43.478 0.00 0.00 0.00 2.57
1286 1643 3.760580 ATCTCCCGTCTCCAATCAATC 57.239 47.619 0.00 0.00 0.00 2.67
1287 1644 2.752030 TCTCCCGTCTCCAATCAATCT 58.248 47.619 0.00 0.00 0.00 2.40
1288 1645 2.432146 TCTCCCGTCTCCAATCAATCTG 59.568 50.000 0.00 0.00 0.00 2.90
1289 1646 1.486310 TCCCGTCTCCAATCAATCTGG 59.514 52.381 0.00 0.00 35.05 3.86
1290 1647 1.210478 CCCGTCTCCAATCAATCTGGT 59.790 52.381 0.00 0.00 35.30 4.00
1291 1648 2.356125 CCCGTCTCCAATCAATCTGGTT 60.356 50.000 0.00 0.00 35.30 3.67
1441 1798 1.808343 CATACAGCAACAGCAAGAGCA 59.192 47.619 0.00 0.00 45.49 4.26
1444 1801 0.949397 CAGCAACAGCAAGAGCAAGA 59.051 50.000 0.00 0.00 45.49 3.02
1445 1802 1.069159 CAGCAACAGCAAGAGCAAGAG 60.069 52.381 0.00 0.00 45.49 2.85
1446 1803 0.386985 GCAACAGCAAGAGCAAGAGC 60.387 55.000 0.00 0.00 45.49 4.09
1447 1804 0.240411 CAACAGCAAGAGCAAGAGCC 59.760 55.000 0.00 0.00 45.49 4.70
1448 1805 0.179009 AACAGCAAGAGCAAGAGCCA 60.179 50.000 0.00 0.00 45.49 4.75
1449 1806 0.605860 ACAGCAAGAGCAAGAGCCAG 60.606 55.000 0.00 0.00 45.49 4.85
1450 1807 1.674980 AGCAAGAGCAAGAGCCAGC 60.675 57.895 0.00 0.00 45.49 4.85
1451 1808 2.698763 GCAAGAGCAAGAGCCAGCC 61.699 63.158 0.00 0.00 43.56 4.85
1452 1809 2.046507 AAGAGCAAGAGCCAGCCG 60.047 61.111 0.00 0.00 43.56 5.52
1480 1837 0.035343 GGTGAGAACCAACCCTAGCC 60.035 60.000 0.00 0.00 0.00 3.93
1606 2121 6.072175 TGCAGTCAAGTTAAAACTGAAACTGT 60.072 34.615 21.28 0.00 42.37 3.55
1624 2139 5.489792 ACTGTAACAGATTGGACTCATGT 57.510 39.130 0.00 0.00 35.18 3.21
1677 2193 6.662414 TTTTCTGTTACTGTCTGTTCTGTG 57.338 37.500 0.00 0.00 0.00 3.66
1709 2225 2.757894 TGGTGTGTTTTACCACCCAT 57.242 45.000 6.37 0.00 43.00 4.00
1738 2254 1.713932 GATTGCTTCGCGAAACAAACC 59.286 47.619 33.38 25.10 0.00 3.27
1780 2296 0.958822 GGTTTGGTTGCTCACGGATT 59.041 50.000 0.00 0.00 0.00 3.01
1782 2298 2.752903 GGTTTGGTTGCTCACGGATTAT 59.247 45.455 0.00 0.00 0.00 1.28
1830 2379 1.997606 CGGTTGATTTACGGACTGACC 59.002 52.381 0.00 0.00 0.00 4.02
1864 2413 1.394917 CCGCGGAGAAGATGAAAGTTG 59.605 52.381 24.07 0.00 0.00 3.16
1873 2422 3.864789 AGATGAAAGTTGTCAGGGTGT 57.135 42.857 0.00 0.00 0.00 4.16
1876 2425 3.644966 TGAAAGTTGTCAGGGTGTTCT 57.355 42.857 0.00 0.00 0.00 3.01
1950 2511 5.089970 ACTAATGCAGTGCTTATGTCTCA 57.910 39.130 17.60 0.00 35.62 3.27
1983 2544 5.670485 TCACCATGACAGTTATATGACACC 58.330 41.667 0.00 0.00 0.00 4.16
2007 2568 5.250235 TCTCTTAACTGCAATCTCCTACG 57.750 43.478 0.00 0.00 0.00 3.51
2023 2694 3.682858 TCCTACGTCATTACTTGCTTTGC 59.317 43.478 0.00 0.00 0.00 3.68
2031 2702 2.543777 TACTTGCTTTGCCTCGTTCT 57.456 45.000 0.00 0.00 0.00 3.01
2041 2712 5.506317 GCTTTGCCTCGTTCTAATTGCATAT 60.506 40.000 0.00 0.00 0.00 1.78
2059 2730 5.743117 GCATATGCAGATTTATCTCTCCCT 58.257 41.667 22.84 0.00 41.59 4.20
2060 2731 5.816777 GCATATGCAGATTTATCTCTCCCTC 59.183 44.000 22.84 0.00 41.59 4.30
2061 2732 4.906747 ATGCAGATTTATCTCTCCCTCC 57.093 45.455 0.00 0.00 34.22 4.30
2071 2742 9.579932 GATTTATCTCTCCCTCCAACAAATAAT 57.420 33.333 0.00 0.00 0.00 1.28
2076 2747 4.026052 CTCCCTCCAACAAATAATTGCCT 58.974 43.478 0.00 0.00 40.34 4.75
2081 2752 6.461509 CCCTCCAACAAATAATTGCCTATCAC 60.462 42.308 0.00 0.00 40.34 3.06
2087 2758 6.112734 ACAAATAATTGCCTATCACGACTCA 58.887 36.000 0.00 0.00 40.34 3.41
2161 2832 6.208402 TGCCTATCATGACTCTTGTATCTCTC 59.792 42.308 0.00 0.00 0.00 3.20
2313 3263 2.977914 ACATCGTCCAATCCAGAACAG 58.022 47.619 0.00 0.00 0.00 3.16
2314 3264 1.667724 CATCGTCCAATCCAGAACAGC 59.332 52.381 0.00 0.00 0.00 4.40
2389 3339 5.386958 TTGATACCTGATACGTATGAGGC 57.613 43.478 32.98 20.84 40.25 4.70
2394 3344 3.244215 ACCTGATACGTATGAGGCCATTG 60.244 47.826 32.98 14.48 40.25 2.82
2411 3361 4.093556 GCCATTGTTGCTACTGTTAGAGTC 59.906 45.833 0.00 0.00 35.96 3.36
2416 3366 5.529791 TGTTGCTACTGTTAGAGTCTGAAC 58.470 41.667 1.86 4.46 35.96 3.18
2451 3401 9.144747 CTGCCAGATATCAATAGTATGTACAAC 57.855 37.037 5.32 0.00 0.00 3.32
2473 3423 9.003658 ACAACTATTGGTTCTGTTTCATAGAAG 57.996 33.333 0.00 0.00 35.03 2.85
2614 3566 4.279420 AGGCTTCTTGTTTTTCCAGCTAAG 59.721 41.667 0.00 0.00 0.00 2.18
2616 3568 5.240844 GGCTTCTTGTTTTTCCAGCTAAGTA 59.759 40.000 0.00 0.00 0.00 2.24
2703 3655 7.122501 TGCCACAAATGTACACTATCAATCATT 59.877 33.333 0.00 0.00 0.00 2.57
2726 3678 3.682292 GAGCACCTAGGGTTGGCCG 62.682 68.421 14.81 0.00 31.02 6.13
2734 3686 2.852563 TAGGGTTGGCCGCATGCATT 62.853 55.000 19.57 0.00 43.89 3.56
2735 3687 2.509786 GGTTGGCCGCATGCATTG 60.510 61.111 19.57 6.50 43.89 2.82
2739 3691 2.202783 GGCCGCATGCATTGTTCC 60.203 61.111 19.57 4.90 43.89 3.62
3649 4656 7.774157 AGCATCATCTCAAATGAAGAGTGTATT 59.226 33.333 0.00 0.00 34.73 1.89
3772 4800 2.860009 CCGGTGACTATAGACTAGCCA 58.140 52.381 6.78 0.00 0.00 4.75
3773 4801 3.422796 CCGGTGACTATAGACTAGCCAT 58.577 50.000 6.78 0.00 0.00 4.40
3776 4804 5.066634 CCGGTGACTATAGACTAGCCATATG 59.933 48.000 6.78 0.00 0.00 1.78
3932 4988 5.981088 TGATTATCTCTCTCTGGCATCTC 57.019 43.478 0.00 0.00 0.00 2.75
4221 5282 0.387494 TTCACATCGCAACGTCGCTA 60.387 50.000 0.00 0.00 0.00 4.26
4248 5309 3.391049 GCTTATATTGGACACCCGAGAC 58.609 50.000 0.00 0.00 34.29 3.36
4835 5916 0.803117 TCTCACTTCGACCTAGCGTG 59.197 55.000 0.00 0.00 0.00 5.34
4892 5978 8.612619 CCAGAATAAACATAGTTGTGTATGGAC 58.387 37.037 0.00 0.00 36.56 4.02
5232 6350 5.730802 TCGCGAACATTTATTTCAAATCGTC 59.269 36.000 6.20 0.00 0.00 4.20
5333 6465 9.950496 ACAAACAGTTTATGATCTCTCAATACT 57.050 29.630 0.00 0.00 34.37 2.12
5481 6662 2.117206 AACCTGCAAATGGGCCGA 59.883 55.556 0.00 0.00 0.00 5.54
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
71 72 9.796120 TCTTTCAATTTGTTGTTATCTTTTCGT 57.204 25.926 0.00 0.00 0.00 3.85
265 295 3.493503 GGAAAACTCACAGGTTACGACAG 59.506 47.826 0.00 0.00 0.00 3.51
291 322 9.119329 CGTTTTGAATAAATGGATGTACGAAAA 57.881 29.630 0.00 0.00 0.00 2.29
369 435 0.870307 CGACGCGAGGAACCTAATGG 60.870 60.000 15.93 0.00 39.83 3.16
370 436 0.099968 TCGACGCGAGGAACCTAATG 59.900 55.000 15.93 0.00 0.00 1.90
371 437 2.485677 TCGACGCGAGGAACCTAAT 58.514 52.632 15.93 0.00 0.00 1.73
372 438 3.985877 TCGACGCGAGGAACCTAA 58.014 55.556 15.93 0.00 0.00 2.69
461 542 1.766625 TTGGCTTTCCCGTCCGGTTA 61.767 55.000 0.00 0.00 35.87 2.85
561 756 2.251642 GCGAGAGGCACGGTTTTGT 61.252 57.895 0.00 0.00 42.87 2.83
740 1043 2.358898 AGATGCACAGTTTTGCTTTCGT 59.641 40.909 0.00 0.00 43.41 3.85
818 1133 2.023223 TACGGTTGTCCTTTCGCGC 61.023 57.895 0.00 0.00 0.00 6.86
821 1136 1.271656 AGAGGTACGGTTGTCCTTTCG 59.728 52.381 0.00 0.00 0.00 3.46
822 1137 2.298163 TGAGAGGTACGGTTGTCCTTTC 59.702 50.000 8.93 8.93 34.42 2.62
823 1138 2.036862 GTGAGAGGTACGGTTGTCCTTT 59.963 50.000 0.00 0.00 0.00 3.11
824 1139 1.617357 GTGAGAGGTACGGTTGTCCTT 59.383 52.381 0.00 0.00 0.00 3.36
825 1140 1.254954 GTGAGAGGTACGGTTGTCCT 58.745 55.000 0.00 0.00 0.00 3.85
826 1141 0.109412 CGTGAGAGGTACGGTTGTCC 60.109 60.000 0.00 0.00 37.86 4.02
827 1142 0.877071 TCGTGAGAGGTACGGTTGTC 59.123 55.000 0.00 0.00 41.58 3.18
828 1143 1.321474 TTCGTGAGAGGTACGGTTGT 58.679 50.000 0.00 0.00 43.69 3.32
829 1144 2.325761 CTTTCGTGAGAGGTACGGTTG 58.674 52.381 0.00 0.00 43.69 3.77
830 1145 1.336609 GCTTTCGTGAGAGGTACGGTT 60.337 52.381 0.00 0.00 43.69 4.44
831 1146 0.243095 GCTTTCGTGAGAGGTACGGT 59.757 55.000 0.00 0.00 43.69 4.83
832 1147 0.458025 GGCTTTCGTGAGAGGTACGG 60.458 60.000 0.00 0.00 43.69 4.02
833 1148 0.242825 TGGCTTTCGTGAGAGGTACG 59.757 55.000 0.00 0.00 43.69 3.67
834 1149 2.450609 TTGGCTTTCGTGAGAGGTAC 57.549 50.000 0.00 0.00 43.69 3.34
835 1150 2.549349 GGTTTGGCTTTCGTGAGAGGTA 60.549 50.000 0.00 0.00 43.69 3.08
836 1151 1.594331 GTTTGGCTTTCGTGAGAGGT 58.406 50.000 0.00 0.00 43.69 3.85
837 1152 0.875059 GGTTTGGCTTTCGTGAGAGG 59.125 55.000 0.00 0.00 43.69 3.69
838 1153 0.512952 CGGTTTGGCTTTCGTGAGAG 59.487 55.000 0.00 0.00 43.69 3.20
839 1154 0.179067 ACGGTTTGGCTTTCGTGAGA 60.179 50.000 0.00 0.00 34.40 3.27
840 1155 2.317230 ACGGTTTGGCTTTCGTGAG 58.683 52.632 0.00 0.00 34.40 3.51
841 1156 4.544001 ACGGTTTGGCTTTCGTGA 57.456 50.000 0.00 0.00 34.40 4.35
842 1157 4.607024 CACGGTTTGGCTTTCGTG 57.393 55.556 0.00 0.00 44.98 4.35
843 1158 2.719354 GCACGGTTTGGCTTTCGT 59.281 55.556 0.00 0.00 36.19 3.85
851 1166 2.317609 CCACGAGAGGCACGGTTTG 61.318 63.158 0.00 0.00 34.93 2.93
912 1268 8.879227 TCTTCCATATCTTTTGGACCAATTTTT 58.121 29.630 7.99 0.00 42.88 1.94
916 1272 5.893824 GGTCTTCCATATCTTTTGGACCAAT 59.106 40.000 7.99 0.00 42.88 3.16
917 1273 5.261216 GGTCTTCCATATCTTTTGGACCAA 58.739 41.667 1.69 1.69 42.88 3.67
918 1274 4.625324 CGGTCTTCCATATCTTTTGGACCA 60.625 45.833 0.00 0.00 42.88 4.02
966 1322 5.230306 CACGTGTTTTCGGCTTTTTAAATGA 59.770 36.000 7.58 0.00 34.94 2.57
970 1326 2.853003 GCACGTGTTTTCGGCTTTTTAA 59.147 40.909 18.38 0.00 34.94 1.52
1036 1392 3.403057 CTTCGCCACCACGTGTCG 61.403 66.667 15.65 11.96 36.22 4.35
1054 1410 0.438830 CAACTAGTTGGCGAGCGTTC 59.561 55.000 25.19 0.00 36.95 3.95
1080 1436 7.614192 AGACAAACATTTTTAGGGGGTGTATAG 59.386 37.037 0.00 0.00 0.00 1.31
1081 1437 7.394923 CAGACAAACATTTTTAGGGGGTGTATA 59.605 37.037 0.00 0.00 0.00 1.47
1082 1438 6.210584 CAGACAAACATTTTTAGGGGGTGTAT 59.789 38.462 0.00 0.00 0.00 2.29
1141 1498 1.565305 GCCAGACTATGTCTCGCTTG 58.435 55.000 9.43 0.00 42.04 4.01
1210 1567 2.919494 GCCCCCTTTGACTTGTGCG 61.919 63.158 0.00 0.00 0.00 5.34
1211 1568 2.574018 GGCCCCCTTTGACTTGTGC 61.574 63.158 0.00 0.00 0.00 4.57
1214 1571 1.675641 CTCGGCCCCCTTTGACTTG 60.676 63.158 0.00 0.00 0.00 3.16
1216 1573 1.842381 CTTCTCGGCCCCCTTTGACT 61.842 60.000 0.00 0.00 0.00 3.41
1217 1574 1.377333 CTTCTCGGCCCCCTTTGAC 60.377 63.158 0.00 0.00 0.00 3.18
1218 1575 2.602676 CCTTCTCGGCCCCCTTTGA 61.603 63.158 0.00 0.00 0.00 2.69
1219 1576 2.044946 CCTTCTCGGCCCCCTTTG 60.045 66.667 0.00 0.00 0.00 2.77
1236 1593 4.828925 GGACTCCTCTGCTGCGGC 62.829 72.222 11.65 11.65 39.26 6.53
1272 1629 2.939103 GGAACCAGATTGATTGGAGACG 59.061 50.000 0.00 0.00 39.08 4.18
1273 1630 4.227864 AGGAACCAGATTGATTGGAGAC 57.772 45.455 0.00 0.00 39.08 3.36
1274 1631 4.592942 CAAGGAACCAGATTGATTGGAGA 58.407 43.478 0.00 0.00 39.08 3.71
1275 1632 3.129988 GCAAGGAACCAGATTGATTGGAG 59.870 47.826 0.00 0.00 39.08 3.86
1276 1633 3.091545 GCAAGGAACCAGATTGATTGGA 58.908 45.455 0.00 0.00 39.08 3.53
1277 1634 2.167075 GGCAAGGAACCAGATTGATTGG 59.833 50.000 0.00 0.00 41.60 3.16
1279 1636 2.043526 AGGGCAAGGAACCAGATTGATT 59.956 45.455 0.00 0.00 0.00 2.57
1280 1637 1.642762 AGGGCAAGGAACCAGATTGAT 59.357 47.619 0.00 0.00 0.00 2.57
1281 1638 1.075601 AGGGCAAGGAACCAGATTGA 58.924 50.000 0.00 0.00 0.00 2.57
1282 1639 1.547372 CAAGGGCAAGGAACCAGATTG 59.453 52.381 0.00 0.00 0.00 2.67
1283 1640 1.147817 ACAAGGGCAAGGAACCAGATT 59.852 47.619 0.00 0.00 0.00 2.40
1284 1641 0.779997 ACAAGGGCAAGGAACCAGAT 59.220 50.000 0.00 0.00 0.00 2.90
1285 1642 0.555769 AACAAGGGCAAGGAACCAGA 59.444 50.000 0.00 0.00 0.00 3.86
1286 1643 0.675633 CAACAAGGGCAAGGAACCAG 59.324 55.000 0.00 0.00 0.00 4.00
1287 1644 0.032615 ACAACAAGGGCAAGGAACCA 60.033 50.000 0.00 0.00 0.00 3.67
1288 1645 1.119684 AACAACAAGGGCAAGGAACC 58.880 50.000 0.00 0.00 0.00 3.62
1289 1646 1.202521 CCAACAACAAGGGCAAGGAAC 60.203 52.381 0.00 0.00 0.00 3.62
1290 1647 1.118838 CCAACAACAAGGGCAAGGAA 58.881 50.000 0.00 0.00 0.00 3.36
1291 1648 1.398958 GCCAACAACAAGGGCAAGGA 61.399 55.000 0.00 0.00 46.92 3.36
1411 1768 2.125147 GCTGTATGGCCACGAGCA 60.125 61.111 21.93 12.25 46.50 4.26
1449 1806 4.767255 CTCACCACTGGCTCCGGC 62.767 72.222 0.00 0.00 37.82 6.13
1450 1807 2.583441 TTCTCACCACTGGCTCCGG 61.583 63.158 0.00 0.00 0.00 5.14
1451 1808 1.374758 GTTCTCACCACTGGCTCCG 60.375 63.158 0.00 0.00 0.00 4.63
1452 1809 1.003233 GGTTCTCACCACTGGCTCC 60.003 63.158 0.00 0.00 43.61 4.70
1480 1837 3.576861 AGAAAGAAAAAGGTTGGAGGGG 58.423 45.455 0.00 0.00 0.00 4.79
1606 2121 4.558226 AGCACATGAGTCCAATCTGTTA 57.442 40.909 0.00 0.00 0.00 2.41
1660 2176 5.107065 GGTAATGCACAGAACAGACAGTAAC 60.107 44.000 0.00 0.00 0.00 2.50
1703 2219 1.538512 GCAATCGATCCATCATGGGTG 59.461 52.381 3.05 0.00 38.32 4.61
1704 2220 1.422781 AGCAATCGATCCATCATGGGT 59.577 47.619 3.05 0.00 38.32 4.51
1705 2221 2.195741 AGCAATCGATCCATCATGGG 57.804 50.000 3.05 0.00 38.32 4.00
1706 2222 3.826236 GAAGCAATCGATCCATCATGG 57.174 47.619 0.00 0.00 39.43 3.66
1830 2379 2.709475 GCGGGCTGTGCGATTTAG 59.291 61.111 0.00 0.00 0.00 1.85
1848 2397 4.006319 CCCTGACAACTTTCATCTTCTCC 58.994 47.826 0.00 0.00 0.00 3.71
1849 2398 4.453819 CACCCTGACAACTTTCATCTTCTC 59.546 45.833 0.00 0.00 0.00 2.87
1864 2413 2.038557 TCCTTTGCTAGAACACCCTGAC 59.961 50.000 0.00 0.00 0.00 3.51
1873 2422 4.384208 GCCCTGAATAGTCCTTTGCTAGAA 60.384 45.833 0.00 0.00 0.00 2.10
1876 2425 2.172717 GGCCCTGAATAGTCCTTTGCTA 59.827 50.000 0.00 0.00 0.00 3.49
1935 2496 8.807667 AAAATTTTCTTGAGACATAAGCACTG 57.192 30.769 0.00 0.00 0.00 3.66
1983 2544 5.689514 CGTAGGAGATTGCAGTTAAGAGATG 59.310 44.000 0.00 0.00 0.00 2.90
2007 2568 2.484264 ACGAGGCAAAGCAAGTAATGAC 59.516 45.455 0.00 0.00 0.00 3.06
2041 2712 3.657610 TGGAGGGAGAGATAAATCTGCA 58.342 45.455 0.00 0.00 39.25 4.41
2058 2729 6.038161 TCGTGATAGGCAATTATTTGTTGGAG 59.962 38.462 0.00 0.00 35.17 3.86
2059 2730 5.883115 TCGTGATAGGCAATTATTTGTTGGA 59.117 36.000 0.00 0.00 35.17 3.53
2060 2731 5.971202 GTCGTGATAGGCAATTATTTGTTGG 59.029 40.000 0.00 0.00 35.17 3.77
2061 2732 6.785191 AGTCGTGATAGGCAATTATTTGTTG 58.215 36.000 0.00 0.00 35.17 3.33
2071 2742 4.584743 AGATACATGAGTCGTGATAGGCAA 59.415 41.667 19.28 0.00 0.00 4.52
2076 2747 5.004448 GGGAGAGATACATGAGTCGTGATA 58.996 45.833 19.28 8.00 0.00 2.15
2081 2752 4.862902 ATTGGGAGAGATACATGAGTCG 57.137 45.455 0.00 0.00 0.00 4.18
2087 2758 5.709164 GCTTATGCAATTGGGAGAGATACAT 59.291 40.000 7.72 1.46 39.41 2.29
2133 2804 4.134379 ACAAGAGTCATGATAGGCAGTG 57.866 45.455 1.66 0.00 0.00 3.66
2161 2832 3.248363 TGCAGACTTTTCGTGACAAGATG 59.752 43.478 2.96 3.10 0.00 2.90
2313 3263 4.082245 ACAAAATAAGTGCATAGTGTGGGC 60.082 41.667 0.00 0.00 0.00 5.36
2314 3264 5.643379 ACAAAATAAGTGCATAGTGTGGG 57.357 39.130 0.00 0.00 0.00 4.61
2363 3313 6.015350 CCTCATACGTATCAGGTATCAAAGGT 60.015 42.308 16.80 0.00 27.75 3.50
2368 3318 3.762288 GGCCTCATACGTATCAGGTATCA 59.238 47.826 24.34 0.00 27.75 2.15
2369 3319 3.762288 TGGCCTCATACGTATCAGGTATC 59.238 47.826 24.34 15.32 27.75 2.24
2370 3320 3.774734 TGGCCTCATACGTATCAGGTAT 58.225 45.455 24.34 0.00 30.10 2.73
2371 3321 3.232720 TGGCCTCATACGTATCAGGTA 57.767 47.619 24.34 12.76 0.00 3.08
2372 3322 2.082140 TGGCCTCATACGTATCAGGT 57.918 50.000 24.34 0.00 0.00 4.00
2373 3323 3.244215 ACAATGGCCTCATACGTATCAGG 60.244 47.826 20.31 20.31 32.44 3.86
2374 3324 3.995199 ACAATGGCCTCATACGTATCAG 58.005 45.455 4.74 1.47 32.44 2.90
2375 3325 4.126437 CAACAATGGCCTCATACGTATCA 58.874 43.478 4.74 0.43 32.44 2.15
2389 3339 5.349817 CAGACTCTAACAGTAGCAACAATGG 59.650 44.000 0.00 0.00 34.41 3.16
2394 3344 4.617645 CGTTCAGACTCTAACAGTAGCAAC 59.382 45.833 0.00 0.00 34.41 4.17
2411 3361 3.325870 TCTGGCAGACATAAACGTTCAG 58.674 45.455 14.43 1.12 0.00 3.02
2416 3366 6.791887 ATTGATATCTGGCAGACATAAACG 57.208 37.500 21.37 0.00 0.00 3.60
2444 3394 9.214957 CTATGAAACAGAACCAATAGTTGTACA 57.785 33.333 0.00 0.00 39.40 2.90
2451 3401 8.660373 GTGACTTCTATGAAACAGAACCAATAG 58.340 37.037 0.00 0.00 0.00 1.73
2453 3403 7.227156 AGTGACTTCTATGAAACAGAACCAAT 58.773 34.615 0.00 0.00 0.00 3.16
2606 3558 0.107654 GGGTGTGCCTACTTAGCTGG 60.108 60.000 0.00 0.00 34.45 4.85
2614 3566 0.251165 ATGGTTGTGGGTGTGCCTAC 60.251 55.000 0.00 0.00 45.33 3.18
2616 3568 0.398381 AAATGGTTGTGGGTGTGCCT 60.398 50.000 0.00 0.00 34.45 4.75
2703 3655 2.398588 CCAACCCTAGGTGCTCTATGA 58.601 52.381 8.29 0.00 35.34 2.15
2726 3678 0.179132 TGCATCGGAACAATGCATGC 60.179 50.000 11.82 11.82 45.14 4.06
2734 3686 2.268920 GGCCTCTGCATCGGAACA 59.731 61.111 0.00 0.00 40.13 3.18
2735 3687 2.892425 CGGCCTCTGCATCGGAAC 60.892 66.667 0.00 0.00 40.13 3.62
2749 3701 4.111053 GGAGGAAAGACCCCCGGC 62.111 72.222 0.00 0.00 40.05 6.13
2830 3788 3.382546 GGCATACCGTTAGTTCTACTGGA 59.617 47.826 0.00 0.00 0.00 3.86
3649 4656 0.327924 AACGCCAGGACAATCCATGA 59.672 50.000 0.00 0.00 39.61 3.07
4221 5282 3.069729 GGGTGTCCAATATAAGCGACTCT 59.930 47.826 0.00 0.00 0.00 3.24
4248 5309 2.521547 AGAAGATTTCCCTTGGCCTG 57.478 50.000 3.32 0.00 0.00 4.85
4652 5720 6.376864 CCCTTATCTCGTCATGATATCACTCT 59.623 42.308 7.78 0.00 0.00 3.24
4835 5916 7.387948 ACATTACTGATTATGATAAACCGAGGC 59.612 37.037 0.00 0.00 0.00 4.70
5210 6327 6.846870 TGACGATTTGAAATAAATGTTCGC 57.153 33.333 0.00 0.00 0.00 4.70
5353 6485 8.491331 TTTCCAGAAGAACCAAATTTCAAAAG 57.509 30.769 0.00 0.00 32.95 2.27
5451 6631 3.646715 AGGTTGCAGCGCCCCTAA 61.647 61.111 2.29 0.00 29.19 2.69


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

AutoCloner maintained by Alex Coulton.