Multiple sequence alignment - TraesCS3D01G384000

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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 TraesCS3D01G384000 chr3D 100.000 3903 0 0 1 3903 499629489 499633391 0.000000e+00 7208.0
1 TraesCS3D01G384000 chr3D 89.657 1634 117 28 1547 3174 499844655 499846242 0.000000e+00 2034.0
2 TraesCS3D01G384000 chr3D 96.636 1100 34 2 1807 2906 499040484 499041580 0.000000e+00 1823.0
3 TraesCS3D01G384000 chr3D 88.278 819 78 12 5 815 155686964 155686156 0.000000e+00 965.0
4 TraesCS3D01G384000 chr3D 84.589 863 84 27 889 1725 499843821 499844660 0.000000e+00 811.0
5 TraesCS3D01G384000 chr3D 81.933 238 20 16 868 1089 499039449 499039679 3.100000e-41 180.0
6 TraesCS3D01G384000 chr3B 90.319 1942 128 38 1300 3202 660027440 660029360 0.000000e+00 2490.0
7 TraesCS3D01G384000 chr3B 91.419 1445 96 15 1557 2999 660699966 660701384 0.000000e+00 1956.0
8 TraesCS3D01G384000 chr3B 94.632 652 34 1 2595 3246 660381125 660381775 0.000000e+00 1009.0
9 TraesCS3D01G384000 chr3B 84.204 785 72 29 857 1613 660698360 660699120 0.000000e+00 715.0
10 TraesCS3D01G384000 chr3B 86.699 624 74 5 3 620 771634671 771635291 0.000000e+00 684.0
11 TraesCS3D01G384000 chr3B 91.917 433 27 4 3341 3769 660381971 660382399 2.010000e-167 599.0
12 TraesCS3D01G384000 chr3B 87.379 412 26 13 2786 3197 660030756 660031141 2.140000e-122 449.0
13 TraesCS3D01G384000 chr3B 93.082 159 10 1 3603 3760 660029735 660029893 8.430000e-57 231.0
14 TraesCS3D01G384000 chr3B 75.786 318 35 22 881 1170 660027024 660027327 5.300000e-24 122.0
15 TraesCS3D01G384000 chr3B 95.082 61 2 1 3843 3903 660029884 660029943 1.150000e-15 95.3
16 TraesCS3D01G384000 chr3A 87.556 2226 181 48 972 3174 639250506 639248354 0.000000e+00 2488.0
17 TraesCS3D01G384000 chr3A 95.694 1440 46 6 1807 3246 639085817 639087240 0.000000e+00 2302.0
18 TraesCS3D01G384000 chr3A 93.460 367 19 3 3458 3822 639087820 639088183 1.230000e-149 540.0
19 TraesCS3D01G384000 chr3A 78.099 242 24 16 868 1087 639084822 639085056 4.090000e-25 126.0
20 TraesCS3D01G384000 chr5B 91.372 1217 76 18 1684 2893 22092896 22094090 0.000000e+00 1639.0
21 TraesCS3D01G384000 chr5B 86.686 353 33 8 3521 3863 425353744 425354092 2.850000e-101 379.0
22 TraesCS3D01G384000 chr5B 78.571 112 17 6 664 771 639124213 639124321 2.520000e-07 67.6
23 TraesCS3D01G384000 chr7A 87.775 818 77 9 3 814 109762693 109763493 0.000000e+00 935.0
24 TraesCS3D01G384000 chr1A 87.591 822 72 15 2 815 560842998 560843797 0.000000e+00 926.0
25 TraesCS3D01G384000 chr1A 84.933 823 93 14 4 815 278159308 278158506 0.000000e+00 804.0
26 TraesCS3D01G384000 chr1A 89.203 389 33 7 459 843 586956962 586956579 9.810000e-131 477.0
27 TraesCS3D01G384000 chr1A 86.429 420 34 13 3 422 586957354 586956958 4.630000e-119 438.0
28 TraesCS3D01G384000 chr1A 80.806 521 64 27 1173 1682 10196810 10196315 3.680000e-100 375.0
29 TraesCS3D01G384000 chr5A 93.878 539 31 2 2355 2893 6523015 6523551 0.000000e+00 811.0
30 TraesCS3D01G384000 chr5A 94.821 251 7 2 2082 2326 6522772 6523022 1.700000e-103 387.0
31 TraesCS3D01G384000 chr5A 79.769 519 73 24 1173 1682 675836421 675836916 8.030000e-92 348.0
32 TraesCS3D01G384000 chr5A 87.273 275 29 3 1411 1682 441126552 441126281 3.790000e-80 309.0
33 TraesCS3D01G384000 chr5A 87.764 237 23 3 1449 1682 707686030 707686263 4.970000e-69 272.0
34 TraesCS3D01G384000 chr5A 83.388 307 21 8 3405 3691 708551136 708551432 1.390000e-64 257.0
35 TraesCS3D01G384000 chr5A 90.533 169 12 4 3694 3861 708551482 708551647 1.830000e-53 220.0
36 TraesCS3D01G384000 chr5A 83.929 56 9 0 705 760 316098630 316098685 2.000000e-03 54.7
37 TraesCS3D01G384000 chr5A 100.000 28 0 0 3876 3903 708551699 708551726 7.000000e-03 52.8
38 TraesCS3D01G384000 chr6D 86.225 755 84 16 4 753 469378289 469377550 0.000000e+00 800.0
39 TraesCS3D01G384000 chr2B 83.293 820 109 21 3 815 418775853 418775055 0.000000e+00 730.0
40 TraesCS3D01G384000 chr2B 82.270 705 68 20 997 1682 131907311 131906645 1.230000e-154 556.0
41 TraesCS3D01G384000 chr7B 87.838 370 32 5 3502 3861 314914272 314913906 4.660000e-114 422.0
42 TraesCS3D01G384000 chr1B 83.023 483 46 12 3405 3863 63913381 63913851 4.700000e-109 405.0
43 TraesCS3D01G384000 chr2A 79.356 528 57 18 1173 1682 742470274 742469781 1.350000e-84 324.0
44 TraesCS3D01G384000 chr4A 88.186 237 22 3 1449 1682 632369935 632370168 1.070000e-70 278.0
45 TraesCS3D01G384000 chr5D 83.974 156 22 3 268 422 388538466 388538619 3.140000e-31 147.0
46 TraesCS3D01G384000 chr6B 100.000 29 0 0 3318 3346 563324762 563324790 2.000000e-03 54.7


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 TraesCS3D01G384000 chr3D 499629489 499633391 3902 False 7208.000000 7208 100.000000 1 3903 1 chr3D.!!$F1 3902
1 TraesCS3D01G384000 chr3D 499843821 499846242 2421 False 1422.500000 2034 87.123000 889 3174 2 chr3D.!!$F3 2285
2 TraesCS3D01G384000 chr3D 499039449 499041580 2131 False 1001.500000 1823 89.284500 868 2906 2 chr3D.!!$F2 2038
3 TraesCS3D01G384000 chr3D 155686156 155686964 808 True 965.000000 965 88.278000 5 815 1 chr3D.!!$R1 810
4 TraesCS3D01G384000 chr3B 660698360 660701384 3024 False 1335.500000 1956 87.811500 857 2999 2 chr3B.!!$F4 2142
5 TraesCS3D01G384000 chr3B 660381125 660382399 1274 False 804.000000 1009 93.274500 2595 3769 2 chr3B.!!$F3 1174
6 TraesCS3D01G384000 chr3B 771634671 771635291 620 False 684.000000 684 86.699000 3 620 1 chr3B.!!$F1 617
7 TraesCS3D01G384000 chr3B 660027024 660031141 4117 False 677.460000 2490 88.329600 881 3903 5 chr3B.!!$F2 3022
8 TraesCS3D01G384000 chr3A 639248354 639250506 2152 True 2488.000000 2488 87.556000 972 3174 1 chr3A.!!$R1 2202
9 TraesCS3D01G384000 chr3A 639084822 639088183 3361 False 989.333333 2302 89.084333 868 3822 3 chr3A.!!$F1 2954
10 TraesCS3D01G384000 chr5B 22092896 22094090 1194 False 1639.000000 1639 91.372000 1684 2893 1 chr5B.!!$F1 1209
11 TraesCS3D01G384000 chr7A 109762693 109763493 800 False 935.000000 935 87.775000 3 814 1 chr7A.!!$F1 811
12 TraesCS3D01G384000 chr1A 560842998 560843797 799 False 926.000000 926 87.591000 2 815 1 chr1A.!!$F1 813
13 TraesCS3D01G384000 chr1A 278158506 278159308 802 True 804.000000 804 84.933000 4 815 1 chr1A.!!$R2 811
14 TraesCS3D01G384000 chr1A 586956579 586957354 775 True 457.500000 477 87.816000 3 843 2 chr1A.!!$R3 840
15 TraesCS3D01G384000 chr5A 6522772 6523551 779 False 599.000000 811 94.349500 2082 2893 2 chr5A.!!$F4 811
16 TraesCS3D01G384000 chr6D 469377550 469378289 739 True 800.000000 800 86.225000 4 753 1 chr6D.!!$R1 749
17 TraesCS3D01G384000 chr2B 418775055 418775853 798 True 730.000000 730 83.293000 3 815 1 chr2B.!!$R2 812
18 TraesCS3D01G384000 chr2B 131906645 131907311 666 True 556.000000 556 82.270000 997 1682 1 chr2B.!!$R1 685

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
426 436 0.033504 CTCACCGGCCTACGCATAAT 59.966 55.000 0.0 0.0 42.52 1.28 F
1060 1127 0.105709 CTCCCTCCTTCCTCCTCCTC 60.106 65.000 0.0 0.0 0.00 3.71 F
1216 1339 0.655733 GCGCCGTGCTTTGTACATAT 59.344 50.000 0.0 0.0 41.73 1.78 F
1924 3094 1.079612 CGCTGCTGATGAGTCCACA 60.080 57.895 0.0 0.0 0.00 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1343 1475 0.461961 GGACCTACAGCAGTAGCAGG 59.538 60.0 10.63 3.0 45.15 4.85 R
1865 3035 0.729116 CCAATGTAGGCAGCGTTCTG 59.271 55.0 0.00 0.0 43.16 3.02 R
2371 3546 0.807667 CAACAAGGATCTCGGGCTCG 60.808 60.0 0.00 0.0 37.82 5.03 R
3383 5072 0.108804 GATTTGCTGGACGAGGACGA 60.109 55.0 0.00 0.0 42.66 4.20 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
30 31 0.179100 CTCCGGCTCGTTCATGTGAT 60.179 55.000 0.00 0.00 0.00 3.06
118 119 8.918202 TGTTCACTGTCCTCTACAATATTTTT 57.082 30.769 0.00 0.00 37.74 1.94
148 149 8.356533 ACAAGCTATATGTTGCAATAAAATGC 57.643 30.769 0.59 4.39 46.58 3.56
301 311 3.658709 TGTAACATGACTCGTGATGCAA 58.341 40.909 0.00 0.00 0.00 4.08
333 343 4.996113 CACGACCTGTGTTGCAAC 57.004 55.556 22.83 22.83 43.88 4.17
368 378 2.543861 GCTCGATCGCTCAATCCACTTA 60.544 50.000 11.09 0.00 0.00 2.24
381 391 2.115427 TCCACTTAATCCGATGGCTCA 58.885 47.619 0.00 0.00 31.87 4.26
386 396 3.389329 ACTTAATCCGATGGCTCATGAGT 59.611 43.478 23.38 4.19 0.00 3.41
392 402 0.382158 GATGGCTCATGAGTCGACGA 59.618 55.000 21.79 5.17 35.37 4.20
407 417 6.040962 AGTCGACGAACCTTTTTAAAAGAC 57.959 37.500 17.91 6.56 0.00 3.01
426 436 0.033504 CTCACCGGCCTACGCATAAT 59.966 55.000 0.00 0.00 42.52 1.28
445 455 2.587322 TAGCCGTTGGATCGCCTTGG 62.587 60.000 0.00 0.00 34.31 3.61
452 462 1.224592 GGATCGCCTTGGTCCATGT 59.775 57.895 0.00 0.00 32.23 3.21
463 473 1.372997 GTCCATGTGTCGTCACGCT 60.373 57.895 8.24 0.00 46.49 5.07
507 521 0.828022 TTGTCAACCACGTGTCCTCT 59.172 50.000 15.65 0.00 0.00 3.69
508 522 1.694844 TGTCAACCACGTGTCCTCTA 58.305 50.000 15.65 0.00 0.00 2.43
522 536 5.447954 CGTGTCCTCTATATCTTATCCTGCG 60.448 48.000 0.00 0.00 0.00 5.18
605 631 9.781834 TTTGTAACATCAACTCTGTTGTAAAAG 57.218 29.630 9.78 1.42 37.41 2.27
693 724 8.757982 AAAATCCTGCAACACATTCTATATCT 57.242 30.769 0.00 0.00 0.00 1.98
694 725 9.851686 AAAATCCTGCAACACATTCTATATCTA 57.148 29.630 0.00 0.00 0.00 1.98
771 802 7.807977 TCTTTGTTGCAAAGTAAAGAGAGAT 57.192 32.000 21.40 0.00 36.13 2.75
783 814 7.372260 AGTAAAGAGAGATATTGAGCCACAT 57.628 36.000 0.00 0.00 0.00 3.21
785 816 4.620589 AGAGAGATATTGAGCCACATGG 57.379 45.455 0.00 0.00 38.53 3.66
804 835 2.297701 GGTTATGCCACATCCAACGAT 58.702 47.619 0.00 0.00 37.17 3.73
864 895 2.711542 CCAGGTGGCTAAAAATCGAGT 58.288 47.619 0.00 0.00 0.00 4.18
865 896 3.081804 CCAGGTGGCTAAAAATCGAGTT 58.918 45.455 0.00 0.00 0.00 3.01
866 897 4.258543 CCAGGTGGCTAAAAATCGAGTTA 58.741 43.478 0.00 0.00 0.00 2.24
867 898 4.094442 CCAGGTGGCTAAAAATCGAGTTAC 59.906 45.833 0.00 0.00 0.00 2.50
868 899 4.094442 CAGGTGGCTAAAAATCGAGTTACC 59.906 45.833 0.00 1.41 0.00 2.85
869 900 3.376234 GGTGGCTAAAAATCGAGTTACCC 59.624 47.826 0.00 0.00 0.00 3.69
870 901 4.259356 GTGGCTAAAAATCGAGTTACCCT 58.741 43.478 0.00 0.00 0.00 4.34
871 902 4.698780 GTGGCTAAAAATCGAGTTACCCTT 59.301 41.667 0.00 0.00 0.00 3.95
872 903 5.182570 GTGGCTAAAAATCGAGTTACCCTTT 59.817 40.000 0.00 0.00 0.00 3.11
873 904 5.771165 TGGCTAAAAATCGAGTTACCCTTTT 59.229 36.000 0.00 0.00 0.00 2.27
874 905 6.072342 TGGCTAAAAATCGAGTTACCCTTTTC 60.072 38.462 0.00 0.00 0.00 2.29
875 906 6.150641 GGCTAAAAATCGAGTTACCCTTTTCT 59.849 38.462 0.00 0.00 0.00 2.52
876 907 7.309012 GGCTAAAAATCGAGTTACCCTTTTCTT 60.309 37.037 0.00 0.00 0.00 2.52
877 908 8.080417 GCTAAAAATCGAGTTACCCTTTTCTTT 58.920 33.333 0.00 0.00 0.00 2.52
878 909 9.608617 CTAAAAATCGAGTTACCCTTTTCTTTC 57.391 33.333 0.00 0.00 0.00 2.62
879 910 6.570672 AAATCGAGTTACCCTTTTCTTTCC 57.429 37.500 0.00 0.00 0.00 3.13
880 911 4.011966 TCGAGTTACCCTTTTCTTTCCC 57.988 45.455 0.00 0.00 0.00 3.97
881 912 3.079578 CGAGTTACCCTTTTCTTTCCCC 58.920 50.000 0.00 0.00 0.00 4.81
882 913 3.497227 CGAGTTACCCTTTTCTTTCCCCA 60.497 47.826 0.00 0.00 0.00 4.96
883 914 4.476297 GAGTTACCCTTTTCTTTCCCCAA 58.524 43.478 0.00 0.00 0.00 4.12
884 915 4.480115 AGTTACCCTTTTCTTTCCCCAAG 58.520 43.478 0.00 0.00 0.00 3.61
885 916 1.717032 ACCCTTTTCTTTCCCCAAGC 58.283 50.000 0.00 0.00 31.70 4.01
886 917 0.976641 CCCTTTTCTTTCCCCAAGCC 59.023 55.000 0.00 0.00 31.70 4.35
887 918 1.483118 CCCTTTTCTTTCCCCAAGCCT 60.483 52.381 0.00 0.00 31.70 4.58
888 919 1.895798 CCTTTTCTTTCCCCAAGCCTC 59.104 52.381 0.00 0.00 31.70 4.70
889 920 1.895798 CTTTTCTTTCCCCAAGCCTCC 59.104 52.381 0.00 0.00 31.70 4.30
890 921 1.158007 TTTCTTTCCCCAAGCCTCCT 58.842 50.000 0.00 0.00 31.70 3.69
891 922 0.698818 TTCTTTCCCCAAGCCTCCTC 59.301 55.000 0.00 0.00 31.70 3.71
892 923 1.078143 CTTTCCCCAAGCCTCCTCG 60.078 63.158 0.00 0.00 0.00 4.63
893 924 2.543067 CTTTCCCCAAGCCTCCTCGG 62.543 65.000 0.00 0.00 0.00 4.63
906 937 4.674281 CCTCCTCGGCTTCTTTATAACT 57.326 45.455 0.00 0.00 0.00 2.24
921 952 3.745678 ATAACTCCCACCCCCTAATCT 57.254 47.619 0.00 0.00 0.00 2.40
937 968 0.893727 ATCTTGCCCGTCCACCAAAC 60.894 55.000 0.00 0.00 0.00 2.93
985 1049 3.375299 CCAAATTCCGCTCTCGAATCTTT 59.625 43.478 0.00 0.00 38.10 2.52
1059 1126 0.556380 TCTCCCTCCTTCCTCCTCCT 60.556 60.000 0.00 0.00 0.00 3.69
1060 1127 0.105709 CTCCCTCCTTCCTCCTCCTC 60.106 65.000 0.00 0.00 0.00 3.71
1061 1128 1.074850 CCCTCCTTCCTCCTCCTCC 60.075 68.421 0.00 0.00 0.00 4.30
1062 1129 1.598856 CCCTCCTTCCTCCTCCTCCT 61.599 65.000 0.00 0.00 0.00 3.69
1171 1273 1.588861 GATCTACCTTTGCTCGCGAAC 59.411 52.381 11.33 6.37 0.00 3.95
1211 1334 1.688422 CGTATGCGCCGTGCTTTGTA 61.688 55.000 4.18 0.00 46.63 2.41
1213 1336 0.670854 TATGCGCCGTGCTTTGTACA 60.671 50.000 4.18 0.00 46.63 2.90
1214 1337 1.305219 ATGCGCCGTGCTTTGTACAT 61.305 50.000 4.18 0.00 46.63 2.29
1215 1338 0.670854 TGCGCCGTGCTTTGTACATA 60.671 50.000 4.18 0.00 46.63 2.29
1216 1339 0.655733 GCGCCGTGCTTTGTACATAT 59.344 50.000 0.00 0.00 41.73 1.78
1217 1340 1.862201 GCGCCGTGCTTTGTACATATA 59.138 47.619 0.00 0.00 41.73 0.86
1282 1408 5.120830 GGCACTGCCTGTTATTATTAGATCG 59.879 44.000 13.28 0.00 46.69 3.69
1287 1413 7.050970 TGCCTGTTATTATTAGATCGAGTGT 57.949 36.000 0.00 0.00 0.00 3.55
1327 1459 1.683365 AGGTGATGGGTTGCATGCC 60.683 57.895 16.68 0.00 0.00 4.40
1343 1475 3.305964 CATGCCGATGATTCTGCAATTC 58.694 45.455 0.00 0.00 43.91 2.17
1344 1476 1.677576 TGCCGATGATTCTGCAATTCC 59.322 47.619 0.00 0.00 38.88 3.01
1369 1504 2.187958 ACTGCTGTAGGTCCATGCTAA 58.812 47.619 0.00 0.00 0.00 3.09
1377 1513 6.314896 GCTGTAGGTCCATGCTAATGATTATC 59.685 42.308 0.00 0.00 35.67 1.75
1383 1519 7.880195 AGGTCCATGCTAATGATTATCTTGTAC 59.120 37.037 0.00 0.00 35.67 2.90
1384 1520 7.880195 GGTCCATGCTAATGATTATCTTGTACT 59.120 37.037 0.00 0.00 35.67 2.73
1385 1521 9.929180 GTCCATGCTAATGATTATCTTGTACTA 57.071 33.333 0.00 0.00 35.67 1.82
1453 1608 6.817184 ACTACGTTGCTCCATCTTTACATAT 58.183 36.000 0.00 0.00 0.00 1.78
1516 1678 7.593825 AGTTATTGAAGATTGCACCTGTAAAC 58.406 34.615 0.00 0.00 0.00 2.01
1527 1689 6.406692 TGCACCTGTAAACCTAGATCTATC 57.593 41.667 2.11 0.00 0.00 2.08
1702 2798 8.641499 TGTCAAAATTTTGTAATCACTTGTCC 57.359 30.769 25.98 0.00 39.18 4.02
1756 2857 5.513495 TGTTGTTTGCTAAACGTTGTGAATC 59.487 36.000 0.00 0.00 44.28 2.52
1790 2913 7.275341 TCAACTTGTGCAGTTTTGTAGATTTTG 59.725 33.333 0.00 0.00 43.89 2.44
1831 2999 9.183368 TGTTATGGCAATTCATTGTAATACTGA 57.817 29.630 0.00 0.00 39.88 3.41
1834 3002 6.506147 TGGCAATTCATTGTAATACTGATGC 58.494 36.000 1.59 0.00 39.88 3.91
1836 3004 6.639686 GGCAATTCATTGTAATACTGATGCTG 59.360 38.462 1.59 5.00 39.88 4.41
1837 3005 7.420002 GCAATTCATTGTAATACTGATGCTGA 58.580 34.615 1.59 0.00 39.88 4.26
1838 3006 8.080417 GCAATTCATTGTAATACTGATGCTGAT 58.920 33.333 1.59 0.00 39.88 2.90
1839 3007 9.394477 CAATTCATTGTAATACTGATGCTGATG 57.606 33.333 0.00 0.00 33.22 3.07
1840 3008 6.549912 TCATTGTAATACTGATGCTGATGC 57.450 37.500 0.00 0.00 40.20 3.91
1841 3009 6.293698 TCATTGTAATACTGATGCTGATGCT 58.706 36.000 0.00 0.00 40.48 3.79
1924 3094 1.079612 CGCTGCTGATGAGTCCACA 60.080 57.895 0.00 0.00 0.00 4.17
2371 3546 0.323725 ATGGTCTGGTGCCCATTGTC 60.324 55.000 0.00 0.00 38.28 3.18
2377 3552 3.134127 GTGCCCATTGTCGAGCCC 61.134 66.667 0.00 0.00 0.00 5.19
2432 3607 1.645034 CTGTGCTTATGTCACCGAGG 58.355 55.000 0.00 0.00 33.71 4.63
2566 3741 2.899900 TGAGGTGATTGCTGAGTACACT 59.100 45.455 0.00 0.00 0.00 3.55
2812 3987 1.607467 GGTGAGGTGCAAGGCCAAT 60.607 57.895 5.01 0.00 0.00 3.16
3185 4379 2.337583 CTGAGTACACATGTGTTCCGG 58.662 52.381 34.66 23.02 41.83 5.14
3280 4964 1.550524 TCCTTGATGTCAACTCCCTCG 59.449 52.381 0.00 0.00 0.00 4.63
3329 5018 8.726870 TTCCACTTCTATTTATTTAGGAACGG 57.273 34.615 0.00 0.00 0.00 4.44
3330 5019 8.081517 TCCACTTCTATTTATTTAGGAACGGA 57.918 34.615 0.00 0.00 0.00 4.69
3331 5020 8.202137 TCCACTTCTATTTATTTAGGAACGGAG 58.798 37.037 0.00 0.00 0.00 4.63
3332 5021 7.441458 CCACTTCTATTTATTTAGGAACGGAGG 59.559 40.741 0.00 0.00 0.00 4.30
3333 5022 8.202137 CACTTCTATTTATTTAGGAACGGAGGA 58.798 37.037 0.00 0.00 0.00 3.71
3334 5023 8.765517 ACTTCTATTTATTTAGGAACGGAGGAA 58.234 33.333 0.00 0.00 0.00 3.36
3335 5024 9.262358 CTTCTATTTATTTAGGAACGGAGGAAG 57.738 37.037 0.00 0.00 0.00 3.46
3336 5025 8.315220 TCTATTTATTTAGGAACGGAGGAAGT 57.685 34.615 0.00 0.00 0.00 3.01
3337 5026 9.425248 TCTATTTATTTAGGAACGGAGGAAGTA 57.575 33.333 0.00 0.00 0.00 2.24
3338 5027 9.473640 CTATTTATTTAGGAACGGAGGAAGTAC 57.526 37.037 0.00 0.00 0.00 2.73
3339 5028 7.486407 TTTATTTAGGAACGGAGGAAGTACT 57.514 36.000 0.00 0.00 0.00 2.73
3361 5050 2.093658 ACAGATTTGAAGGCGGTATCGT 60.094 45.455 0.00 0.00 38.89 3.73
3374 5063 1.272781 GTATCGTCACAGCAGCAGAC 58.727 55.000 0.00 0.00 0.00 3.51
3383 5072 0.390866 CAGCAGCAGACTCCAATCGT 60.391 55.000 0.00 0.00 0.00 3.73
3391 5080 0.248134 GACTCCAATCGTCGTCCTCG 60.248 60.000 0.00 0.00 38.55 4.63
3477 5169 1.740025 GGCACAGCATCTACAGGTTTC 59.260 52.381 0.00 0.00 0.00 2.78
3652 5345 2.372264 CATCACCCTGCAGCTTTGTAT 58.628 47.619 8.66 0.00 0.00 2.29
3751 5445 8.335356 CCCATGTAAGAATATTTTGTCAGTACG 58.665 37.037 0.00 0.00 0.00 3.67
3790 5485 2.168728 GGGGGTAACTCAGTGATCTCAC 59.831 54.545 2.01 2.01 46.77 3.51
3824 5519 3.831651 TCCCGGTGGAAAATTGTGT 57.168 47.368 0.00 0.00 37.86 3.72
3825 5520 1.611519 TCCCGGTGGAAAATTGTGTC 58.388 50.000 0.00 0.00 37.86 3.67
3826 5521 1.144093 TCCCGGTGGAAAATTGTGTCT 59.856 47.619 0.00 0.00 37.86 3.41
3827 5522 2.372504 TCCCGGTGGAAAATTGTGTCTA 59.627 45.455 0.00 0.00 37.86 2.59
3828 5523 2.486592 CCCGGTGGAAAATTGTGTCTAC 59.513 50.000 0.00 0.00 0.00 2.59
3829 5524 3.142951 CCGGTGGAAAATTGTGTCTACA 58.857 45.455 0.00 0.00 34.31 2.74
3830 5525 3.756434 CCGGTGGAAAATTGTGTCTACAT 59.244 43.478 0.00 0.00 36.53 2.29
3831 5526 4.938832 CCGGTGGAAAATTGTGTCTACATA 59.061 41.667 0.00 0.00 36.53 2.29
3832 5527 5.588648 CCGGTGGAAAATTGTGTCTACATAT 59.411 40.000 0.00 0.00 36.53 1.78
3833 5528 6.764085 CCGGTGGAAAATTGTGTCTACATATA 59.236 38.462 0.00 0.00 36.53 0.86
3834 5529 7.444183 CCGGTGGAAAATTGTGTCTACATATAT 59.556 37.037 0.00 0.00 36.53 0.86
3835 5530 9.483916 CGGTGGAAAATTGTGTCTACATATATA 57.516 33.333 3.90 0.00 36.53 0.86
3871 5566 7.065324 ACTCAAACACGAACATCTTACTGAAAA 59.935 33.333 0.00 0.00 0.00 2.29
3873 5568 5.324739 ACACGAACATCTTACTGAAAACG 57.675 39.130 0.00 0.00 0.00 3.60
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 2.280797 GTCCAGGCAAGACACGCA 60.281 61.111 2.42 0.00 34.27 5.24
84 85 1.151668 GACAGTGAACAGCGCTCAAT 58.848 50.000 7.13 0.00 34.43 2.57
141 142 8.201554 TGCAATACAAGTTTTGTTGCATTTTA 57.798 26.923 18.64 0.48 46.55 1.52
291 301 4.424061 CAGGAAATTTCTTGCATCACGA 57.576 40.909 16.28 0.00 0.00 4.35
301 311 2.293399 GGTCGTGTTGCAGGAAATTTCT 59.707 45.455 17.42 1.61 30.04 2.52
333 343 3.359816 CGATCGAGCGTCACTTTTTATCG 60.360 47.826 16.15 0.00 0.00 2.92
368 378 1.269988 CGACTCATGAGCCATCGGATT 60.270 52.381 22.83 0.00 0.00 3.01
381 391 6.480981 TCTTTTAAAAAGGTTCGTCGACTCAT 59.519 34.615 14.70 0.00 0.00 2.90
386 396 5.811613 TGAGTCTTTTAAAAAGGTTCGTCGA 59.188 36.000 1.66 0.00 0.00 4.20
392 402 4.202080 GCCGGTGAGTCTTTTAAAAAGGTT 60.202 41.667 1.90 0.00 0.00 3.50
407 417 0.033504 ATTATGCGTAGGCCGGTGAG 59.966 55.000 1.90 0.00 38.85 3.51
445 455 1.344942 GAGCGTGACGACACATGGAC 61.345 60.000 17.71 2.07 46.20 4.02
452 462 4.258932 TGTGCGAGCGTGACGACA 62.259 61.111 10.10 0.00 0.00 4.35
463 473 5.670485 AGAAATAATGGAGTATGTGTGCGA 58.330 37.500 0.00 0.00 0.00 5.10
507 521 6.398095 CACCATTGTCGCAGGATAAGATATA 58.602 40.000 0.00 0.00 0.00 0.86
508 522 5.240891 CACCATTGTCGCAGGATAAGATAT 58.759 41.667 0.00 0.00 0.00 1.63
522 536 1.265905 GTTCGGAACACCACCATTGTC 59.734 52.381 15.70 0.00 0.00 3.18
605 631 6.292328 GCAATAGAGGTTTTGTTGCAGTTTTC 60.292 38.462 3.76 0.00 43.33 2.29
672 700 9.679661 TTTTTAGATATAGAATGTGTTGCAGGA 57.320 29.630 0.00 0.00 0.00 3.86
771 802 3.221771 GGCATAACCATGTGGCTCAATA 58.778 45.455 0.00 0.00 39.67 1.90
783 814 4.240662 GATCGTTGGATGTGGCATAACCA 61.241 47.826 9.16 9.16 38.63 3.67
785 816 2.290641 GGATCGTTGGATGTGGCATAAC 59.709 50.000 0.00 0.00 31.51 1.89
816 847 1.577421 CGTCGGCCGGTGAATTTTT 59.423 52.632 27.83 0.00 0.00 1.94
844 875 2.711542 ACTCGATTTTTAGCCACCTGG 58.288 47.619 0.00 0.00 38.53 4.45
845 876 4.094442 GGTAACTCGATTTTTAGCCACCTG 59.906 45.833 0.00 0.00 0.00 4.00
846 877 4.259356 GGTAACTCGATTTTTAGCCACCT 58.741 43.478 0.00 0.00 0.00 4.00
847 878 3.376234 GGGTAACTCGATTTTTAGCCACC 59.624 47.826 18.13 8.79 42.84 4.61
848 879 4.259356 AGGGTAACTCGATTTTTAGCCAC 58.741 43.478 22.11 4.62 44.82 5.01
849 880 4.563140 AGGGTAACTCGATTTTTAGCCA 57.437 40.909 22.11 0.00 44.82 4.75
850 881 5.892160 AAAGGGTAACTCGATTTTTAGCC 57.108 39.130 16.44 16.44 43.39 3.93
851 882 7.142306 AGAAAAGGGTAACTCGATTTTTAGC 57.858 36.000 0.00 0.00 0.00 3.09
852 883 9.608617 GAAAGAAAAGGGTAACTCGATTTTTAG 57.391 33.333 0.00 0.00 0.00 1.85
853 884 8.570488 GGAAAGAAAAGGGTAACTCGATTTTTA 58.430 33.333 0.00 0.00 0.00 1.52
854 885 7.431249 GGAAAGAAAAGGGTAACTCGATTTTT 58.569 34.615 0.00 0.00 0.00 1.94
855 886 6.015688 GGGAAAGAAAAGGGTAACTCGATTTT 60.016 38.462 0.00 0.00 0.00 1.82
856 887 5.475909 GGGAAAGAAAAGGGTAACTCGATTT 59.524 40.000 0.00 0.00 0.00 2.17
857 888 5.008331 GGGAAAGAAAAGGGTAACTCGATT 58.992 41.667 0.00 0.00 0.00 3.34
858 889 4.567116 GGGGAAAGAAAAGGGTAACTCGAT 60.567 45.833 0.00 0.00 0.00 3.59
859 890 3.244665 GGGGAAAGAAAAGGGTAACTCGA 60.245 47.826 0.00 0.00 0.00 4.04
860 891 3.079578 GGGGAAAGAAAAGGGTAACTCG 58.920 50.000 0.00 0.00 0.00 4.18
861 892 4.108501 TGGGGAAAGAAAAGGGTAACTC 57.891 45.455 0.00 0.00 0.00 3.01
862 893 4.480115 CTTGGGGAAAGAAAAGGGTAACT 58.520 43.478 0.00 0.00 38.24 2.24
863 894 3.006537 GCTTGGGGAAAGAAAAGGGTAAC 59.993 47.826 0.00 0.00 38.24 2.50
864 895 3.236047 GCTTGGGGAAAGAAAAGGGTAA 58.764 45.455 0.00 0.00 38.24 2.85
865 896 2.492010 GGCTTGGGGAAAGAAAAGGGTA 60.492 50.000 0.00 0.00 38.24 3.69
866 897 1.717032 GCTTGGGGAAAGAAAAGGGT 58.283 50.000 0.00 0.00 38.24 4.34
867 898 0.976641 GGCTTGGGGAAAGAAAAGGG 59.023 55.000 0.00 0.00 38.24 3.95
868 899 1.895798 GAGGCTTGGGGAAAGAAAAGG 59.104 52.381 0.00 0.00 38.24 3.11
869 900 1.895798 GGAGGCTTGGGGAAAGAAAAG 59.104 52.381 0.00 0.00 38.24 2.27
870 901 1.503347 AGGAGGCTTGGGGAAAGAAAA 59.497 47.619 0.00 0.00 38.24 2.29
871 902 1.075536 GAGGAGGCTTGGGGAAAGAAA 59.924 52.381 0.00 0.00 38.24 2.52
872 903 0.698818 GAGGAGGCTTGGGGAAAGAA 59.301 55.000 0.00 0.00 38.24 2.52
873 904 1.553690 CGAGGAGGCTTGGGGAAAGA 61.554 60.000 0.00 0.00 38.24 2.52
874 905 1.078143 CGAGGAGGCTTGGGGAAAG 60.078 63.158 0.00 0.00 39.07 2.62
875 906 2.602676 CCGAGGAGGCTTGGGGAAA 61.603 63.158 0.00 0.00 0.00 3.13
876 907 3.009115 CCGAGGAGGCTTGGGGAA 61.009 66.667 0.00 0.00 0.00 3.97
885 916 4.501743 GGAGTTATAAAGAAGCCGAGGAGG 60.502 50.000 0.00 0.00 44.97 4.30
886 917 4.501743 GGGAGTTATAAAGAAGCCGAGGAG 60.502 50.000 0.00 0.00 0.00 3.69
887 918 3.387050 GGGAGTTATAAAGAAGCCGAGGA 59.613 47.826 0.00 0.00 0.00 3.71
888 919 3.134081 TGGGAGTTATAAAGAAGCCGAGG 59.866 47.826 0.00 0.00 0.00 4.63
889 920 4.120589 GTGGGAGTTATAAAGAAGCCGAG 58.879 47.826 0.00 0.00 0.00 4.63
890 921 3.118519 GGTGGGAGTTATAAAGAAGCCGA 60.119 47.826 0.00 0.00 0.00 5.54
891 922 3.203716 GGTGGGAGTTATAAAGAAGCCG 58.796 50.000 0.00 0.00 0.00 5.52
892 923 3.552875 GGGTGGGAGTTATAAAGAAGCC 58.447 50.000 0.00 0.00 0.00 4.35
893 924 3.552875 GGGGTGGGAGTTATAAAGAAGC 58.447 50.000 0.00 0.00 0.00 3.86
894 925 3.786450 AGGGGGTGGGAGTTATAAAGAAG 59.214 47.826 0.00 0.00 0.00 2.85
895 926 3.822880 AGGGGGTGGGAGTTATAAAGAA 58.177 45.455 0.00 0.00 0.00 2.52
906 937 1.286305 GGCAAGATTAGGGGGTGGGA 61.286 60.000 0.00 0.00 0.00 4.37
921 952 2.519780 GGTTTGGTGGACGGGCAA 60.520 61.111 0.00 0.00 0.00 4.52
985 1049 2.016393 GACATGGTCGATGCTCGGGA 62.016 60.000 0.00 0.00 40.88 5.14
1059 1126 2.363361 GACGAGGGAGGGGAAGGA 59.637 66.667 0.00 0.00 0.00 3.36
1060 1127 3.148279 CGACGAGGGAGGGGAAGG 61.148 72.222 0.00 0.00 0.00 3.46
1061 1128 1.946475 GAACGACGAGGGAGGGGAAG 61.946 65.000 0.00 0.00 0.00 3.46
1062 1129 1.980772 GAACGACGAGGGAGGGGAA 60.981 63.158 0.00 0.00 0.00 3.97
1113 1203 3.490419 GCGAACAGGTAACGGATCTACAT 60.490 47.826 0.00 0.00 46.39 2.29
1171 1273 0.387929 ACGGCATACACTACATCGGG 59.612 55.000 0.00 0.00 0.00 5.14
1211 1334 4.040461 ACCGCTAGAACCAAGCATATATGT 59.960 41.667 14.14 0.00 40.08 2.29
1213 1336 4.891992 ACCGCTAGAACCAAGCATATAT 57.108 40.909 0.00 0.00 40.08 0.86
1214 1337 4.682778 AACCGCTAGAACCAAGCATATA 57.317 40.909 0.00 0.00 40.08 0.86
1215 1338 3.560636 AACCGCTAGAACCAAGCATAT 57.439 42.857 0.00 0.00 40.08 1.78
1216 1339 3.735820 CGTAACCGCTAGAACCAAGCATA 60.736 47.826 0.00 0.00 40.08 3.14
1217 1340 2.629051 GTAACCGCTAGAACCAAGCAT 58.371 47.619 0.00 0.00 40.08 3.79
1243 1368 0.931005 GTGCCTAAATCCGCTCGAAG 59.069 55.000 0.00 0.00 0.00 3.79
1282 1408 1.084289 CCGGGGAATCGAAAACACTC 58.916 55.000 0.00 0.00 0.00 3.51
1287 1413 1.742510 GCGACCGGGGAATCGAAAA 60.743 57.895 15.60 0.00 40.86 2.29
1343 1475 0.461961 GGACCTACAGCAGTAGCAGG 59.538 60.000 10.63 3.00 45.15 4.85
1344 1476 1.186200 TGGACCTACAGCAGTAGCAG 58.814 55.000 10.63 1.37 45.15 4.24
1349 1481 1.866015 TAGCATGGACCTACAGCAGT 58.134 50.000 0.00 0.00 0.00 4.40
1377 1513 9.283420 CGCTAGTATCATCATTCATAGTACAAG 57.717 37.037 0.00 0.00 0.00 3.16
1383 1519 8.026026 AGTGAACGCTAGTATCATCATTCATAG 58.974 37.037 0.00 0.00 0.00 2.23
1384 1520 7.886338 AGTGAACGCTAGTATCATCATTCATA 58.114 34.615 0.00 0.00 0.00 2.15
1385 1521 6.753180 AGTGAACGCTAGTATCATCATTCAT 58.247 36.000 0.00 0.00 0.00 2.57
1432 1587 6.823689 AGAAATATGTAAAGATGGAGCAACGT 59.176 34.615 0.00 0.00 0.00 3.99
1453 1608 5.391097 CCACTACAACGAACACAAACAGAAA 60.391 40.000 0.00 0.00 0.00 2.52
1527 1689 5.104735 AGCAAAAGAACCCACTAGGATCTAG 60.105 44.000 0.00 0.83 46.64 2.43
1577 1746 5.873712 ACAGATCAAACTCATACAGCTTGAG 59.126 40.000 11.56 11.56 39.94 3.02
1637 2729 1.602377 GTACAACAGCACAAGGTGGTC 59.398 52.381 0.00 0.00 42.24 4.02
1696 2792 5.661458 ACTGACTACCATAATTCGGACAAG 58.339 41.667 0.93 0.00 0.00 3.16
1702 2798 7.015289 CACAACAAACTGACTACCATAATTCG 58.985 38.462 0.00 0.00 0.00 3.34
1756 2857 2.607635 ACTGCACAAGTTGAGTGTAACG 59.392 45.455 10.54 0.00 37.77 3.18
1790 2913 4.567959 GCCATAACAAATTCAGATTGTGCC 59.432 41.667 0.00 0.00 39.98 5.01
1805 2928 9.183368 TCAGTATTACAATGAATTGCCATAACA 57.817 29.630 2.92 0.00 41.38 2.41
1831 2999 2.228059 GCAGGATAACAGCATCAGCAT 58.772 47.619 0.00 0.00 45.49 3.79
1834 3002 3.189618 TCTGCAGGATAACAGCATCAG 57.810 47.619 15.13 0.00 37.68 2.90
1836 3004 3.736720 TCATCTGCAGGATAACAGCATC 58.263 45.455 15.13 0.00 37.68 3.91
1837 3005 3.741249 CTCATCTGCAGGATAACAGCAT 58.259 45.455 15.13 0.00 37.68 3.79
1838 3006 2.744166 GCTCATCTGCAGGATAACAGCA 60.744 50.000 15.13 0.00 34.00 4.41
1839 3007 1.872313 GCTCATCTGCAGGATAACAGC 59.128 52.381 15.13 9.27 33.80 4.40
1840 3008 3.181468 TGAGCTCATCTGCAGGATAACAG 60.181 47.826 13.74 3.00 32.64 3.16
1841 3009 2.767960 TGAGCTCATCTGCAGGATAACA 59.232 45.455 13.74 3.58 32.64 2.41
1865 3035 0.729116 CCAATGTAGGCAGCGTTCTG 59.271 55.000 0.00 0.00 43.16 3.02
2092 3262 1.215382 CGCCTTGAGGATGTCGACA 59.785 57.895 22.48 22.48 37.39 4.35
2371 3546 0.807667 CAACAAGGATCTCGGGCTCG 60.808 60.000 0.00 0.00 37.82 5.03
2377 3552 2.169352 AGGTCCATCAACAAGGATCTCG 59.831 50.000 0.00 0.00 41.50 4.04
2432 3607 3.426568 GCAGGCAGCAAGGACGAC 61.427 66.667 0.00 0.00 44.79 4.34
2566 3741 2.997315 CTCTGGAGGGTGCGGACA 60.997 66.667 9.96 0.00 0.00 4.02
3033 4219 9.583765 ACTCCAAAAAGAAACTACTACGATATC 57.416 33.333 0.00 0.00 0.00 1.63
3037 4223 7.267128 TCAACTCCAAAAAGAAACTACTACGA 58.733 34.615 0.00 0.00 0.00 3.43
3210 4404 3.005791 AGCCATTTGACAGCTTAAACCAC 59.994 43.478 0.00 0.00 31.27 4.16
3312 5001 9.473640 GTACTTCCTCCGTTCCTAAATAAATAG 57.526 37.037 0.00 0.00 0.00 1.73
3319 5008 5.324409 TGTAGTACTTCCTCCGTTCCTAAA 58.676 41.667 0.00 0.00 0.00 1.85
3320 5009 4.922206 TGTAGTACTTCCTCCGTTCCTAA 58.078 43.478 0.00 0.00 0.00 2.69
3321 5010 4.225942 TCTGTAGTACTTCCTCCGTTCCTA 59.774 45.833 0.00 0.00 0.00 2.94
3322 5011 3.009916 TCTGTAGTACTTCCTCCGTTCCT 59.990 47.826 0.00 0.00 0.00 3.36
3323 5012 3.350833 TCTGTAGTACTTCCTCCGTTCC 58.649 50.000 0.00 0.00 0.00 3.62
3324 5013 5.579564 AATCTGTAGTACTTCCTCCGTTC 57.420 43.478 0.00 0.00 0.00 3.95
3325 5014 5.479375 TCAAATCTGTAGTACTTCCTCCGTT 59.521 40.000 0.00 0.00 0.00 4.44
3326 5015 5.014858 TCAAATCTGTAGTACTTCCTCCGT 58.985 41.667 0.00 0.00 0.00 4.69
3327 5016 5.578005 TCAAATCTGTAGTACTTCCTCCG 57.422 43.478 0.00 0.00 0.00 4.63
3328 5017 6.342111 CCTTCAAATCTGTAGTACTTCCTCC 58.658 44.000 0.00 0.00 0.00 4.30
3329 5018 5.813157 GCCTTCAAATCTGTAGTACTTCCTC 59.187 44.000 0.00 0.00 0.00 3.71
3330 5019 5.624738 CGCCTTCAAATCTGTAGTACTTCCT 60.625 44.000 0.00 0.00 0.00 3.36
3331 5020 4.567159 CGCCTTCAAATCTGTAGTACTTCC 59.433 45.833 0.00 0.00 0.00 3.46
3332 5021 4.567159 CCGCCTTCAAATCTGTAGTACTTC 59.433 45.833 0.00 0.00 0.00 3.01
3333 5022 4.020485 ACCGCCTTCAAATCTGTAGTACTT 60.020 41.667 0.00 0.00 0.00 2.24
3334 5023 3.514309 ACCGCCTTCAAATCTGTAGTACT 59.486 43.478 0.00 0.00 0.00 2.73
3335 5024 3.858247 ACCGCCTTCAAATCTGTAGTAC 58.142 45.455 0.00 0.00 0.00 2.73
3336 5025 5.506815 CGATACCGCCTTCAAATCTGTAGTA 60.507 44.000 0.00 0.00 0.00 1.82
3337 5026 4.694339 GATACCGCCTTCAAATCTGTAGT 58.306 43.478 0.00 0.00 0.00 2.73
3338 5027 3.736252 CGATACCGCCTTCAAATCTGTAG 59.264 47.826 0.00 0.00 0.00 2.74
3339 5028 3.131577 ACGATACCGCCTTCAAATCTGTA 59.868 43.478 0.00 0.00 39.95 2.74
3361 5050 0.689055 ATTGGAGTCTGCTGCTGTGA 59.311 50.000 0.00 0.00 33.91 3.58
3374 5063 0.248134 GACGAGGACGACGATTGGAG 60.248 60.000 0.00 0.00 42.66 3.86
3383 5072 0.108804 GATTTGCTGGACGAGGACGA 60.109 55.000 0.00 0.00 42.66 4.20
3391 5080 1.017387 GGTCGATGGATTTGCTGGAC 58.983 55.000 0.00 0.00 0.00 4.02
3477 5169 5.323900 CGTTTATTACTTCATGGCACTGTG 58.676 41.667 2.76 2.76 0.00 3.66
3511 5204 3.071023 CAGGTCCGGTTCATGTACCATAT 59.929 47.826 20.10 0.03 38.12 1.78
3652 5345 6.764085 TCCACTCGTTTCTAATTTGTCTTTGA 59.236 34.615 0.00 0.00 0.00 2.69
3673 5367 9.744468 ATTTAGTGTTATTGAACAACTTTCCAC 57.256 29.630 0.00 0.00 46.99 4.02
3751 5445 3.066203 CCCCCTTATCATGTTTTGCGTAC 59.934 47.826 0.00 0.00 0.00 3.67
3833 5528 8.941977 TGTTCGTGTTTGAGTTATTTGCTATAT 58.058 29.630 0.00 0.00 0.00 0.86
3834 5529 8.312896 TGTTCGTGTTTGAGTTATTTGCTATA 57.687 30.769 0.00 0.00 0.00 1.31
3835 5530 7.197071 TGTTCGTGTTTGAGTTATTTGCTAT 57.803 32.000 0.00 0.00 0.00 2.97
3836 5531 6.606234 TGTTCGTGTTTGAGTTATTTGCTA 57.394 33.333 0.00 0.00 0.00 3.49
3837 5532 5.493133 TGTTCGTGTTTGAGTTATTTGCT 57.507 34.783 0.00 0.00 0.00 3.91
3838 5533 6.142817 AGATGTTCGTGTTTGAGTTATTTGC 58.857 36.000 0.00 0.00 0.00 3.68
3839 5534 9.103048 GTAAGATGTTCGTGTTTGAGTTATTTG 57.897 33.333 0.00 0.00 0.00 2.32
3840 5535 9.052759 AGTAAGATGTTCGTGTTTGAGTTATTT 57.947 29.630 0.00 0.00 0.00 1.40
3841 5536 8.495949 CAGTAAGATGTTCGTGTTTGAGTTATT 58.504 33.333 0.00 0.00 0.00 1.40
3842 5537 7.870954 TCAGTAAGATGTTCGTGTTTGAGTTAT 59.129 33.333 0.00 0.00 0.00 1.89
3843 5538 7.204604 TCAGTAAGATGTTCGTGTTTGAGTTA 58.795 34.615 0.00 0.00 0.00 2.24
3844 5539 6.046593 TCAGTAAGATGTTCGTGTTTGAGTT 58.953 36.000 0.00 0.00 0.00 3.01
3845 5540 5.597806 TCAGTAAGATGTTCGTGTTTGAGT 58.402 37.500 0.00 0.00 0.00 3.41
3846 5541 6.525121 TTCAGTAAGATGTTCGTGTTTGAG 57.475 37.500 0.00 0.00 0.00 3.02
3847 5542 6.912203 TTTCAGTAAGATGTTCGTGTTTGA 57.088 33.333 0.00 0.00 0.00 2.69
3848 5543 6.138546 CGTTTTCAGTAAGATGTTCGTGTTTG 59.861 38.462 0.00 0.00 0.00 2.93
3849 5544 6.189567 CGTTTTCAGTAAGATGTTCGTGTTT 58.810 36.000 0.00 0.00 0.00 2.83
3850 5545 5.734311 CGTTTTCAGTAAGATGTTCGTGTT 58.266 37.500 0.00 0.00 0.00 3.32
3851 5546 4.318546 GCGTTTTCAGTAAGATGTTCGTGT 60.319 41.667 0.00 0.00 0.00 4.49
3871 5566 4.573900 AGATGATTCAGAAGAACTTGCGT 58.426 39.130 0.00 0.00 36.39 5.24
3873 5568 5.094134 GCAAGATGATTCAGAAGAACTTGC 58.906 41.667 20.60 20.60 44.98 4.01


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

AutoCloner maintained by Alex Coulton.