Multiple sequence alignment - TraesCS2D01G458000

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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 TraesCS2D01G458000 chr2D 100.000 6429 0 0 1 6429 565178320 565171892 0.000000e+00 11873.0
1 TraesCS2D01G458000 chr2D 80.451 133 25 1 415 546 469887926 469887794 4.100000e-17 100.0
2 TraesCS2D01G458000 chr6D 98.263 1324 22 1 2161 3483 18703699 18705022 0.000000e+00 2316.0
3 TraesCS2D01G458000 chr6D 90.854 831 68 6 5600 6429 408146915 408146092 0.000000e+00 1107.0
4 TraesCS2D01G458000 chr6D 95.588 272 7 1 3462 3733 18708184 18708450 1.280000e-116 431.0
5 TraesCS2D01G458000 chr6D 82.437 279 41 6 3879 4157 381360656 381360926 3.000000e-58 237.0
6 TraesCS2D01G458000 chr2B 93.546 1131 61 8 4414 5540 677200815 677199693 0.000000e+00 1674.0
7 TraesCS2D01G458000 chr2B 88.635 1355 90 32 3 1325 677208973 677207651 0.000000e+00 1591.0
8 TraesCS2D01G458000 chr2B 90.892 1054 52 15 974 2019 677049290 677048273 0.000000e+00 1375.0
9 TraesCS2D01G458000 chr2B 92.693 698 34 4 3733 4413 677047553 677046856 0.000000e+00 990.0
10 TraesCS2D01G458000 chr2B 90.846 721 26 13 1313 2019 677207492 677206798 0.000000e+00 929.0
11 TraesCS2D01G458000 chr2B 90.883 691 35 5 3735 4413 677204636 677203962 0.000000e+00 902.0
12 TraesCS2D01G458000 chr2B 88.368 533 31 10 5061 5578 677046076 677045560 4.260000e-171 612.0
13 TraesCS2D01G458000 chr2B 81.503 346 35 12 4450 4787 677046397 677046073 2.300000e-64 257.0
14 TraesCS2D01G458000 chr2B 97.727 132 3 0 2018 2149 677204771 677204640 1.800000e-55 228.0
15 TraesCS2D01G458000 chr2B 97.143 105 3 0 2018 2122 677047695 677047591 1.840000e-40 178.0
16 TraesCS2D01G458000 chr2B 94.231 52 3 0 5527 5578 677199676 677199625 5.340000e-11 80.5
17 TraesCS2D01G458000 chr2B 100.000 36 0 0 2114 2149 677047587 677047552 4.160000e-07 67.6
18 TraesCS2D01G458000 chr2A 90.828 1014 57 11 4481 5486 705769116 705768131 0.000000e+00 1325.0
19 TraesCS2D01G458000 chr2A 91.063 828 72 2 5604 6429 733579302 733578475 0.000000e+00 1118.0
20 TraesCS2D01G458000 chr2A 94.255 557 22 2 3733 4279 705769671 705769115 0.000000e+00 843.0
21 TraesCS2D01G458000 chr2A 88.468 633 36 13 88 686 705778984 705778355 0.000000e+00 730.0
22 TraesCS2D01G458000 chr2A 91.182 499 17 7 1521 2019 705771130 705770659 0.000000e+00 652.0
23 TraesCS2D01G458000 chr2A 92.621 393 17 7 974 1366 705776970 705776590 7.280000e-154 555.0
24 TraesCS2D01G458000 chr2A 86.914 405 38 7 974 1366 705771538 705771137 2.130000e-119 440.0
25 TraesCS2D01G458000 chr2A 76.367 622 94 32 2464 3036 755778114 755778731 1.050000e-72 285.0
26 TraesCS2D01G458000 chr2A 97.727 132 3 0 2018 2149 705769801 705769670 1.800000e-55 228.0
27 TraesCS2D01G458000 chr2A 77.778 135 26 4 415 546 589500201 589500068 5.340000e-11 80.5
28 TraesCS2D01G458000 chr7D 91.336 831 60 4 5605 6429 207552114 207551290 0.000000e+00 1125.0
29 TraesCS2D01G458000 chr7D 91.029 836 70 4 5597 6429 564199800 564200633 0.000000e+00 1123.0
30 TraesCS2D01G458000 chr5D 91.262 824 71 1 5605 6428 430971327 430970505 0.000000e+00 1122.0
31 TraesCS2D01G458000 chr5D 90.678 826 74 3 5605 6429 411744422 411745245 0.000000e+00 1096.0
32 TraesCS2D01G458000 chr5D 79.938 324 46 13 415 735 409440487 409440180 3.020000e-53 220.0
33 TraesCS2D01G458000 chr3D 91.041 826 71 3 5605 6429 562356464 562357287 0.000000e+00 1112.0
34 TraesCS2D01G458000 chr3D 91.041 826 71 3 5605 6429 562438058 562438881 0.000000e+00 1112.0
35 TraesCS2D01G458000 chr3D 90.700 828 76 1 5603 6429 607413212 607412385 0.000000e+00 1101.0
36 TraesCS2D01G458000 chr3D 82.243 107 19 0 2148 2254 597456930 597456824 6.860000e-15 93.5
37 TraesCS2D01G458000 chr3B 83.841 953 87 29 34 932 171820525 171819586 0.000000e+00 845.0
38 TraesCS2D01G458000 chr3B 80.925 692 64 23 3 661 22589912 22590568 9.690000e-133 484.0
39 TraesCS2D01G458000 chr3B 96.875 32 1 0 215 246 823859215 823859184 3.000000e-03 54.7
40 TraesCS2D01G458000 chr3B 96.970 33 0 1 215 247 825520669 825520638 3.000000e-03 54.7
41 TraesCS2D01G458000 chr7B 83.295 868 105 23 3 851 670101961 670102807 0.000000e+00 763.0
42 TraesCS2D01G458000 chr7B 84.137 788 83 19 186 935 158540119 158539336 0.000000e+00 725.0
43 TraesCS2D01G458000 chr7B 80.779 822 86 37 2259 3014 568967663 568966848 1.550000e-160 577.0
44 TraesCS2D01G458000 chr7B 80.559 823 87 38 2259 3014 568964317 568963501 3.360000e-157 566.0
45 TraesCS2D01G458000 chr7B 85.782 211 23 5 3 208 158540267 158540059 3.900000e-52 217.0
46 TraesCS2D01G458000 chr7B 75.632 435 67 17 2406 2838 655572766 655573163 5.120000e-41 180.0
47 TraesCS2D01G458000 chr7B 84.713 157 16 6 2259 2408 658745483 658745638 4.020000e-32 150.0
48 TraesCS2D01G458000 chr7B 83.439 157 18 6 2259 2408 658878012 658878167 8.690000e-29 139.0
49 TraesCS2D01G458000 chr3A 84.539 802 70 23 3 758 20782489 20781696 0.000000e+00 745.0
50 TraesCS2D01G458000 chr3A 80.874 183 12 9 769 933 20780724 20780547 8.750000e-24 122.0
51 TraesCS2D01G458000 chr6B 80.947 824 86 31 2259 3014 522507367 522506547 2.580000e-163 586.0
52 TraesCS2D01G458000 chr6B 82.339 436 62 6 2412 2838 408409250 408408821 1.320000e-96 364.0
53 TraesCS2D01G458000 chr6B 91.139 158 11 2 3499 3653 522431221 522431064 1.820000e-50 211.0
54 TraesCS2D01G458000 chr6B 80.488 287 45 8 3879 4163 569885951 569885674 6.530000e-50 209.0
55 TraesCS2D01G458000 chr6B 72.371 970 160 63 4 924 663656094 663657004 2.350000e-49 207.0
56 TraesCS2D01G458000 chr7A 83.372 427 45 11 2654 3058 664515013 664514591 7.870000e-99 372.0
57 TraesCS2D01G458000 chr7A 91.566 83 7 0 3650 3732 664514161 664514079 1.460000e-21 115.0
58 TraesCS2D01G458000 chr7A 91.549 71 6 0 3650 3720 518589209 518589139 1.480000e-16 99.0
59 TraesCS2D01G458000 chr5B 74.453 685 102 30 183 824 523410529 523411183 1.800000e-55 228.0
60 TraesCS2D01G458000 chr5B 90.141 71 7 0 3650 3720 461875376 461875446 6.860000e-15 93.5
61 TraesCS2D01G458000 chrUn 84.713 157 16 6 2259 2408 354102775 354102620 4.020000e-32 150.0
62 TraesCS2D01G458000 chrUn 84.713 157 16 6 2259 2408 367767596 367767751 4.020000e-32 150.0
63 TraesCS2D01G458000 chrUn 84.713 157 16 6 2259 2408 424755796 424755641 4.020000e-32 150.0
64 TraesCS2D01G458000 chrUn 84.713 157 16 6 2259 2408 467081292 467081137 4.020000e-32 150.0
65 TraesCS2D01G458000 chrUn 83.439 157 18 6 2259 2408 336506177 336506022 8.690000e-29 139.0
66 TraesCS2D01G458000 chrUn 83.439 157 18 6 2259 2408 366298491 366298646 8.690000e-29 139.0
67 TraesCS2D01G458000 chr5A 89.130 92 10 0 2161 2252 330730506 330730597 1.460000e-21 115.0
68 TraesCS2D01G458000 chr5A 88.095 84 10 0 3650 3733 32942793 32942876 4.100000e-17 100.0
69 TraesCS2D01G458000 chr5A 91.549 71 6 0 3650 3720 577801119 577801189 1.480000e-16 99.0
70 TraesCS2D01G458000 chr5A 83.333 84 14 0 3650 3733 647586721 647586638 1.920000e-10 78.7


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 TraesCS2D01G458000 chr2D 565171892 565178320 6428 True 11873.000000 11873 100.000000 1 6429 1 chr2D.!!$R2 6428
1 TraesCS2D01G458000 chr6D 18703699 18708450 4751 False 1373.500000 2316 96.925500 2161 3733 2 chr6D.!!$F2 1572
2 TraesCS2D01G458000 chr6D 408146092 408146915 823 True 1107.000000 1107 90.854000 5600 6429 1 chr6D.!!$R1 829
3 TraesCS2D01G458000 chr2B 677199625 677208973 9348 True 900.750000 1674 92.644667 3 5578 6 chr2B.!!$R2 5575
4 TraesCS2D01G458000 chr2B 677045560 677049290 3730 True 579.933333 1375 91.766500 974 5578 6 chr2B.!!$R1 4604
5 TraesCS2D01G458000 chr2A 733578475 733579302 827 True 1118.000000 1118 91.063000 5604 6429 1 chr2A.!!$R2 825
6 TraesCS2D01G458000 chr2A 705768131 705771538 3407 True 697.600000 1325 92.181200 974 5486 5 chr2A.!!$R3 4512
7 TraesCS2D01G458000 chr2A 705776590 705778984 2394 True 642.500000 730 90.544500 88 1366 2 chr2A.!!$R4 1278
8 TraesCS2D01G458000 chr2A 755778114 755778731 617 False 285.000000 285 76.367000 2464 3036 1 chr2A.!!$F1 572
9 TraesCS2D01G458000 chr7D 207551290 207552114 824 True 1125.000000 1125 91.336000 5605 6429 1 chr7D.!!$R1 824
10 TraesCS2D01G458000 chr7D 564199800 564200633 833 False 1123.000000 1123 91.029000 5597 6429 1 chr7D.!!$F1 832
11 TraesCS2D01G458000 chr5D 430970505 430971327 822 True 1122.000000 1122 91.262000 5605 6428 1 chr5D.!!$R2 823
12 TraesCS2D01G458000 chr5D 411744422 411745245 823 False 1096.000000 1096 90.678000 5605 6429 1 chr5D.!!$F1 824
13 TraesCS2D01G458000 chr3D 562356464 562357287 823 False 1112.000000 1112 91.041000 5605 6429 1 chr3D.!!$F1 824
14 TraesCS2D01G458000 chr3D 562438058 562438881 823 False 1112.000000 1112 91.041000 5605 6429 1 chr3D.!!$F2 824
15 TraesCS2D01G458000 chr3D 607412385 607413212 827 True 1101.000000 1101 90.700000 5603 6429 1 chr3D.!!$R2 826
16 TraesCS2D01G458000 chr3B 171819586 171820525 939 True 845.000000 845 83.841000 34 932 1 chr3B.!!$R1 898
17 TraesCS2D01G458000 chr3B 22589912 22590568 656 False 484.000000 484 80.925000 3 661 1 chr3B.!!$F1 658
18 TraesCS2D01G458000 chr7B 670101961 670102807 846 False 763.000000 763 83.295000 3 851 1 chr7B.!!$F4 848
19 TraesCS2D01G458000 chr7B 568963501 568967663 4162 True 571.500000 577 80.669000 2259 3014 2 chr7B.!!$R2 755
20 TraesCS2D01G458000 chr7B 158539336 158540267 931 True 471.000000 725 84.959500 3 935 2 chr7B.!!$R1 932
21 TraesCS2D01G458000 chr3A 20780547 20782489 1942 True 433.500000 745 82.706500 3 933 2 chr3A.!!$R1 930
22 TraesCS2D01G458000 chr6B 522506547 522507367 820 True 586.000000 586 80.947000 2259 3014 1 chr6B.!!$R3 755
23 TraesCS2D01G458000 chr6B 663656094 663657004 910 False 207.000000 207 72.371000 4 924 1 chr6B.!!$F1 920
24 TraesCS2D01G458000 chr7A 664514079 664515013 934 True 243.500000 372 87.469000 2654 3732 2 chr7A.!!$R2 1078
25 TraesCS2D01G458000 chr5B 523410529 523411183 654 False 228.000000 228 74.453000 183 824 1 chr5B.!!$F2 641

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
778 1922 1.067142 TGCTAACAAGGTCGTGGCTAG 60.067 52.381 0.00 0.00 0.00 3.42 F
1261 3375 0.110328 ACAACGAGTACAGAGACGCG 60.110 55.000 3.53 3.53 46.42 6.01 F
2154 6788 0.102120 CTTCACTAGCCTGAGAGCGG 59.898 60.000 0.00 0.00 38.01 5.52 F
3059 7793 0.175302 CTGAATCTCTGTCGCCTGCT 59.825 55.000 0.00 0.00 0.00 4.24 F
3562 12381 0.036164 TGCCTCAGTGCAACGGTAAT 59.964 50.000 0.00 0.00 45.86 1.89 F
5068 18044 0.172578 TCTGGTGCTGTACGAATCGG 59.827 55.000 7.80 0.00 0.00 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1939 4254 0.034863 GTACCCGGAAGCAATGGGAA 60.035 55.000 0.73 0.0 46.41 3.97 R
2943 7677 1.207085 GCAACTCGAGACGACGACT 59.793 57.895 21.68 0.0 37.37 4.18 R
3562 12381 0.744874 CAGGGCGAGAGGACGAAATA 59.255 55.000 0.00 0.0 35.09 1.40 R
4784 17755 0.901827 TTCGCCCTCATGCTTACTCA 59.098 50.000 0.00 0.0 0.00 3.41 R
5145 18121 1.027357 CAGCACAATACCCTGGCATC 58.973 55.000 0.00 0.0 0.00 3.91 R
6301 19347 0.318120 CGAAGCAAAAAGGCCCACAT 59.682 50.000 0.00 0.0 0.00 3.21 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
93 94 7.600752 TGTTCTTGTTTTCGAAATTTTGTTCCT 59.399 29.630 12.12 0.00 0.00 3.36
225 229 9.933723 CAGGAATTTCAAATTATGTTCTCCTTT 57.066 29.630 0.00 0.00 0.00 3.11
333 357 9.823098 TCAAATTTTATTCGCATTTCCAAAATG 57.177 25.926 7.82 7.82 0.00 2.32
408 468 9.103861 TGAAAAAGGTTATTGTTTCCATGTTTC 57.896 29.630 0.00 0.00 0.00 2.78
409 469 9.325198 GAAAAAGGTTATTGTTTCCATGTTTCT 57.675 29.630 0.00 0.00 0.00 2.52
758 941 5.563475 CGAGAAGCTGATGTTTGTTGGATTT 60.563 40.000 0.00 0.00 0.00 2.17
778 1922 1.067142 TGCTAACAAGGTCGTGGCTAG 60.067 52.381 0.00 0.00 0.00 3.42
803 1965 1.112916 TGTGTTGGCGAGGTCTCTGA 61.113 55.000 0.00 0.00 0.00 3.27
924 2536 2.924185 CAGAATGCGGCAGATAGGG 58.076 57.895 9.25 0.00 0.00 3.53
1009 3111 2.672996 CTCCCCCAAACTGTGCCG 60.673 66.667 0.00 0.00 0.00 5.69
1261 3375 0.110328 ACAACGAGTACAGAGACGCG 60.110 55.000 3.53 3.53 46.42 6.01
1270 3390 2.546195 ACAGAGACGCGTCTTCATAC 57.454 50.000 39.38 26.68 40.61 2.39
1293 3413 2.159462 CGCTTCTCTTCATCAAAAGGGC 60.159 50.000 0.00 0.00 0.00 5.19
1298 3418 3.253188 TCTCTTCATCAAAAGGGCAAACG 59.747 43.478 0.00 0.00 0.00 3.60
1300 3420 3.004315 TCTTCATCAAAAGGGCAAACGAC 59.996 43.478 0.00 0.00 0.00 4.34
1301 3421 1.611491 TCATCAAAAGGGCAAACGACC 59.389 47.619 0.00 0.00 0.00 4.79
1304 3424 1.825474 TCAAAAGGGCAAACGACCAAA 59.175 42.857 0.00 0.00 31.68 3.28
1305 3425 2.432510 TCAAAAGGGCAAACGACCAAAT 59.567 40.909 0.00 0.00 31.68 2.32
1306 3426 2.524569 AAAGGGCAAACGACCAAATG 57.475 45.000 0.00 0.00 31.68 2.32
1350 3650 2.671370 CTATGCGATGCCCTGCAGGT 62.671 60.000 30.63 13.43 45.52 4.00
1488 3792 1.136336 GTCACAAGAGCTTTTACGCCG 60.136 52.381 0.00 0.00 0.00 6.46
1667 3978 2.683867 CGACCGTTTCAGGTATCTCTCT 59.316 50.000 0.00 0.00 46.09 3.10
1668 3979 3.242804 CGACCGTTTCAGGTATCTCTCTC 60.243 52.174 0.00 0.00 46.09 3.20
1669 3980 3.949113 GACCGTTTCAGGTATCTCTCTCT 59.051 47.826 0.00 0.00 46.09 3.10
1670 3981 3.949113 ACCGTTTCAGGTATCTCTCTCTC 59.051 47.826 0.00 0.00 43.89 3.20
1715 4026 3.299585 CGGAGCGTGCATTCTACG 58.700 61.111 8.14 8.14 43.93 3.51
1716 4027 2.230940 CGGAGCGTGCATTCTACGG 61.231 63.158 13.15 0.00 41.56 4.02
1788 4099 4.354725 CACGTGTGTGTGCGTATATATG 57.645 45.455 7.58 0.00 41.34 1.78
1789 4100 3.794564 CACGTGTGTGTGCGTATATATGT 59.205 43.478 7.58 0.00 41.34 2.29
1791 4102 4.971830 ACGTGTGTGTGCGTATATATGTAC 59.028 41.667 14.33 14.33 39.72 2.90
1792 4103 4.380678 CGTGTGTGTGCGTATATATGTACC 59.619 45.833 17.39 10.91 0.00 3.34
1793 4104 5.283294 GTGTGTGTGCGTATATATGTACCA 58.717 41.667 17.39 12.81 0.00 3.25
1794 4105 5.749588 GTGTGTGTGCGTATATATGTACCAA 59.250 40.000 17.39 5.96 0.00 3.67
1795 4106 5.749588 TGTGTGTGCGTATATATGTACCAAC 59.250 40.000 17.39 15.32 0.00 3.77
1796 4107 4.977347 TGTGTGCGTATATATGTACCAACG 59.023 41.667 17.39 3.80 0.00 4.10
1798 4109 3.876210 GCGTATATATGTACCAACGCG 57.124 47.619 3.53 3.53 44.88 6.01
1866 4181 1.073216 CTTGTCTACACGCTGGCTCG 61.073 60.000 0.00 0.00 0.00 5.03
1922 4237 4.636435 CCACCGGCTTCAACCCGT 62.636 66.667 0.00 0.00 44.13 5.28
1938 4253 0.322098 CCGTGCCATGTACTTCCCAA 60.322 55.000 0.00 0.00 0.00 4.12
1939 4254 1.681780 CCGTGCCATGTACTTCCCAAT 60.682 52.381 0.00 0.00 0.00 3.16
1940 4255 2.091541 CGTGCCATGTACTTCCCAATT 58.908 47.619 0.00 0.00 0.00 2.32
1941 4256 2.097466 CGTGCCATGTACTTCCCAATTC 59.903 50.000 0.00 0.00 0.00 2.17
1942 4257 2.427095 GTGCCATGTACTTCCCAATTCC 59.573 50.000 0.00 0.00 0.00 3.01
1943 4258 2.031870 GCCATGTACTTCCCAATTCCC 58.968 52.381 0.00 0.00 0.00 3.97
1944 4259 2.622977 GCCATGTACTTCCCAATTCCCA 60.623 50.000 0.00 0.00 0.00 4.37
1968 4283 1.466950 CTTCCGGGTACGTACGTAACA 59.533 52.381 36.44 19.47 39.88 2.41
2013 4332 0.755686 GCTCCTCCATCACCTACCAG 59.244 60.000 0.00 0.00 0.00 4.00
2016 4335 3.643237 CTCCTCCATCACCTACCAGTAA 58.357 50.000 0.00 0.00 0.00 2.24
2105 6727 7.147915 ACAGGATCAGAAAAACAAAAAGCTGTA 60.148 33.333 0.00 0.00 0.00 2.74
2149 6783 4.991153 TGTACATCTTCACTAGCCTGAG 57.009 45.455 0.00 0.00 0.00 3.35
2150 6784 4.600062 TGTACATCTTCACTAGCCTGAGA 58.400 43.478 0.00 0.00 0.00 3.27
2151 6785 4.642437 TGTACATCTTCACTAGCCTGAGAG 59.358 45.833 0.00 0.00 0.00 3.20
2152 6786 2.430332 ACATCTTCACTAGCCTGAGAGC 59.570 50.000 0.00 0.00 0.00 4.09
2153 6787 1.098869 TCTTCACTAGCCTGAGAGCG 58.901 55.000 0.00 0.00 38.01 5.03
2154 6788 0.102120 CTTCACTAGCCTGAGAGCGG 59.898 60.000 0.00 0.00 38.01 5.52
2155 6789 0.323451 TTCACTAGCCTGAGAGCGGA 60.323 55.000 0.00 0.00 38.01 5.54
2156 6790 1.032657 TCACTAGCCTGAGAGCGGAC 61.033 60.000 0.00 0.00 38.01 4.79
2157 6791 2.115911 ACTAGCCTGAGAGCGGACG 61.116 63.158 0.00 0.00 38.01 4.79
2158 6792 2.045242 TAGCCTGAGAGCGGACGT 60.045 61.111 0.00 0.00 38.01 4.34
2159 6793 2.054140 CTAGCCTGAGAGCGGACGTC 62.054 65.000 7.13 7.13 38.01 4.34
2256 6890 6.466413 GTGAATATACATCGCTCGATACAGTC 59.534 42.308 4.33 1.12 32.93 3.51
2487 7143 3.241530 TGGTCCGCCTTGCTCTGT 61.242 61.111 0.00 0.00 35.27 3.41
2585 7241 8.321353 TGTTCTTCCTTGAAATCTATAGCTCAA 58.679 33.333 0.00 3.65 0.00 3.02
2636 7292 0.678048 GACCTTGGCGGCAAGAGATT 60.678 55.000 42.97 27.29 35.61 2.40
2651 7314 1.139734 GATTCAGAGGCGCGTGAGA 59.860 57.895 7.63 1.62 0.00 3.27
3059 7793 0.175302 CTGAATCTCTGTCGCCTGCT 59.825 55.000 0.00 0.00 0.00 4.24
3146 8767 1.819305 GCACAGTGTTCAGGATTGGGT 60.819 52.381 1.61 0.00 0.00 4.51
3153 8774 2.621055 TGTTCAGGATTGGGTTTCGTTG 59.379 45.455 0.00 0.00 0.00 4.10
3334 8955 3.502211 CAGCCCGGGTGATTTATTACATC 59.498 47.826 24.63 0.00 32.22 3.06
3435 9056 6.305272 ACATATGATTCAAGCGAGGGATAT 57.695 37.500 10.38 0.00 0.00 1.63
3550 12369 5.061808 GTGTTTACGTTATACAGTGCCTCAG 59.938 44.000 0.00 0.00 0.00 3.35
3551 12370 5.166398 GTTTACGTTATACAGTGCCTCAGT 58.834 41.667 0.00 0.00 0.00 3.41
3552 12371 3.232213 ACGTTATACAGTGCCTCAGTG 57.768 47.619 0.00 0.48 40.31 3.66
3553 12372 1.927174 CGTTATACAGTGCCTCAGTGC 59.073 52.381 1.86 0.00 38.26 4.40
3554 12373 2.673893 CGTTATACAGTGCCTCAGTGCA 60.674 50.000 1.86 0.00 38.26 4.57
3562 12381 0.036164 TGCCTCAGTGCAACGGTAAT 59.964 50.000 0.00 0.00 45.86 1.89
3637 12456 1.800586 TCTGTCAGCGCATTGTTCTTC 59.199 47.619 11.47 0.00 0.00 2.87
3733 12584 1.807165 GCAGCGATGCACTTCTCGA 60.807 57.895 22.72 0.00 37.05 4.04
3837 12700 8.234546 ACGTCATATGAGTTCAAAAATTGGTAC 58.765 33.333 5.42 0.00 0.00 3.34
3890 12753 6.775939 ATACGATTAAGCACATCTGTGATG 57.224 37.500 14.31 3.46 44.74 3.07
3929 12792 0.749454 AATCAATGGGCAGAGTCGGC 60.749 55.000 6.73 6.73 0.00 5.54
4325 13245 1.317613 GTGCTGTTGGATTGTGGTCA 58.682 50.000 0.00 0.00 0.00 4.02
4398 13355 3.132646 AGCAGCAAAGTTCATGGTCAAAA 59.867 39.130 0.00 0.00 0.00 2.44
4403 13360 7.474190 CAGCAAAGTTCATGGTCAAAATTTTT 58.526 30.769 0.00 0.00 0.00 1.94
4432 17395 0.319405 AGCTGCCATTTCAAACTGCC 59.681 50.000 0.00 0.00 0.00 4.85
4509 17472 1.887956 GCAGGTGCTCAATTCCTCCAA 60.888 52.381 0.00 0.00 38.21 3.53
4636 17599 0.599558 TAACACTACCGCAAGCGACT 59.400 50.000 16.97 2.95 42.83 4.18
4637 17600 0.666577 AACACTACCGCAAGCGACTC 60.667 55.000 16.97 0.00 42.83 3.36
4682 17652 8.768957 ACATTGATCTTATCATGGACTAATCG 57.231 34.615 0.00 0.00 39.39 3.34
4784 17755 1.005097 TCTTCATTCTGGTGCAGGCAT 59.995 47.619 0.00 0.00 31.51 4.40
4920 17894 2.566010 CAACGGTCAAATGGGGCG 59.434 61.111 0.00 0.00 0.00 6.13
4961 17936 7.813148 TCTGGTAAGAATAAGACAAAGAGTTCG 59.187 37.037 0.00 0.00 0.00 3.95
4997 17973 6.183361 ACTGGGCTTAGTAGGTTTCCTTTTAA 60.183 38.462 0.00 0.00 34.61 1.52
5037 18013 2.731572 ACTGGCAAAATCCATCCTGAG 58.268 47.619 0.00 0.00 35.22 3.35
5068 18044 0.172578 TCTGGTGCTGTACGAATCGG 59.827 55.000 7.80 0.00 0.00 4.18
5091 18067 3.007398 CCTGAAGCCTGAAGTTACTGTCT 59.993 47.826 0.00 0.00 0.00 3.41
5092 18068 3.993081 CTGAAGCCTGAAGTTACTGTCTG 59.007 47.826 0.00 0.00 0.00 3.51
5093 18069 3.388024 TGAAGCCTGAAGTTACTGTCTGT 59.612 43.478 0.00 0.00 0.00 3.41
5094 18070 3.669251 AGCCTGAAGTTACTGTCTGTC 57.331 47.619 0.00 0.00 0.00 3.51
5105 18081 2.728007 ACTGTCTGTCTCGGATGATGA 58.272 47.619 0.00 0.00 0.00 2.92
5114 18090 6.266330 TCTGTCTCGGATGATGATCATTAACT 59.734 38.462 10.14 0.00 37.20 2.24
5220 18196 1.220749 GGCCGCTCCATGAAGTACA 59.779 57.895 0.00 0.00 34.01 2.90
5221 18197 0.179045 GGCCGCTCCATGAAGTACAT 60.179 55.000 0.00 0.00 40.17 2.29
5252 18228 1.281656 CGTTTGGCTGACCCGTTTC 59.718 57.895 0.00 0.00 35.87 2.78
5338 18326 6.741992 TTATGATGCAACTCTGTTACCAAG 57.258 37.500 0.00 0.00 0.00 3.61
5362 18352 5.388408 ACTAGTGCTTGTGTTAGGACTAC 57.612 43.478 0.00 0.00 43.85 2.73
5364 18354 6.243900 ACTAGTGCTTGTGTTAGGACTACTA 58.756 40.000 0.00 0.00 43.85 1.82
5465 18468 1.978454 CTGCTGGAATGGGAAGATCC 58.022 55.000 0.00 0.00 35.23 3.36
5472 18475 2.618045 GGAATGGGAAGATCCGTGTTGT 60.618 50.000 0.00 0.00 37.43 3.32
5568 18606 7.904022 AGTAATGGAAATTGGGGGATCTTTTAA 59.096 33.333 0.00 0.00 0.00 1.52
5579 18617 8.240267 TGGGGGATCTTTTAATAAAAATACGG 57.760 34.615 0.00 0.00 34.18 4.02
5580 18618 8.060075 TGGGGGATCTTTTAATAAAAATACGGA 58.940 33.333 0.00 0.00 34.18 4.69
5581 18619 8.573885 GGGGGATCTTTTAATAAAAATACGGAG 58.426 37.037 0.00 0.00 34.18 4.63
5582 18620 9.128404 GGGGATCTTTTAATAAAAATACGGAGT 57.872 33.333 0.00 0.00 36.03 3.85
5598 18636 5.000012 ACGGAGTAGAATGTAAGCTCTTG 58.000 43.478 0.00 0.00 41.94 3.02
5599 18637 4.463186 ACGGAGTAGAATGTAAGCTCTTGT 59.537 41.667 0.00 0.00 41.94 3.16
5600 18638 5.047235 ACGGAGTAGAATGTAAGCTCTTGTT 60.047 40.000 0.00 0.00 41.94 2.83
5601 18639 6.152323 ACGGAGTAGAATGTAAGCTCTTGTTA 59.848 38.462 0.00 0.00 41.94 2.41
5616 18654 9.614792 AAGCTCTTGTTATTCGGAAATACTAAT 57.385 29.630 0.00 0.00 0.00 1.73
5618 18656 8.827677 GCTCTTGTTATTCGGAAATACTAATGT 58.172 33.333 0.00 0.00 0.00 2.71
5627 18665 7.114866 TCGGAAATACTAATGTCCACATGTA 57.885 36.000 0.00 0.00 39.27 2.29
5695 18737 3.002656 CAGTTTGCACGAATCTTGACACT 59.997 43.478 0.00 0.00 0.00 3.55
5696 18738 3.248602 AGTTTGCACGAATCTTGACACTC 59.751 43.478 0.00 0.00 0.00 3.51
5702 18746 4.810790 CACGAATCTTGACACTCTAAGGT 58.189 43.478 0.00 0.00 0.00 3.50
5758 18802 1.600916 GGCGTTGGAGAGTTTGCCT 60.601 57.895 0.00 0.00 39.38 4.75
5802 18846 4.873810 AGCTGCGTTGTGTGGGCA 62.874 61.111 0.00 0.00 35.07 5.36
5827 18871 1.153524 TTTCTGCCCACACAGCCAT 59.846 52.632 0.00 0.00 37.59 4.40
5840 18884 2.092753 CACAGCCATCACCTAGTCCATT 60.093 50.000 0.00 0.00 0.00 3.16
5931 18975 3.412237 ACGTGGCAACTAGGTAAACAT 57.588 42.857 0.00 0.00 37.61 2.71
5979 19023 2.557805 CAACTGCAGTCGCGCATT 59.442 55.556 21.95 0.00 42.06 3.56
6013 19057 5.181056 CAGATAAACACACATGGCAACTGTA 59.819 40.000 0.00 0.00 37.61 2.74
6073 19117 3.818773 GGCAACTAGGTAAACACACATGT 59.181 43.478 0.00 0.00 42.46 3.21
6074 19118 6.715522 TGGCAACTAGGTAAACACACATGTG 61.716 44.000 24.25 24.25 44.88 3.21
6144 19188 1.225908 GGTTTGATTACACGCGGCG 60.226 57.895 22.36 22.36 0.00 6.46
6180 19224 9.899661 AATTAGACATGGCAACTATAGTTAACA 57.100 29.630 17.62 18.01 36.32 2.41
6301 19347 4.435436 CGTAGCTGCGCCAGGACA 62.435 66.667 12.24 0.00 31.21 4.02
6338 19384 3.696676 TGCCACACGCACGGGATA 61.697 61.111 0.00 0.00 44.64 2.59
6353 19399 5.306394 CACGGGATAGAGATGAGTAGTACA 58.694 45.833 2.52 0.00 0.00 2.90
6388 19439 0.250166 ACGAAGTAGTTGTGCCCACC 60.250 55.000 0.00 0.00 41.94 4.61
6422 19473 0.108774 TAATGTCCGCCCACACACAA 59.891 50.000 0.00 0.00 0.00 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
105 107 8.824159 TTCTGAACTTTTTGAAACATGAACAA 57.176 26.923 0.00 0.00 0.00 2.83
256 261 6.642950 TGAATAAAATGTTCAAACCGCGAAAT 59.357 30.769 8.23 0.00 32.98 2.17
257 262 5.977725 TGAATAAAATGTTCAAACCGCGAAA 59.022 32.000 8.23 0.00 32.98 3.46
316 340 7.437793 AAATTCACATTTTGGAAATGCGAAT 57.562 28.000 17.36 17.36 39.62 3.34
332 356 9.994432 AAAAATTAAATGCGAACAAAATTCACA 57.006 22.222 0.00 0.00 0.00 3.58
408 468 5.049474 TGAGATCACGAACAATTTTGGACAG 60.049 40.000 0.00 0.00 0.00 3.51
409 469 4.819088 TGAGATCACGAACAATTTTGGACA 59.181 37.500 0.00 0.00 0.00 4.02
512 592 5.046910 ACAGTTTCCTAAATGCGAACATG 57.953 39.130 0.00 0.00 36.36 3.21
631 717 1.866063 GCGAACCGTTTTGAAATGCCA 60.866 47.619 0.00 0.00 0.00 4.92
758 941 0.970640 TAGCCACGACCTTGTTAGCA 59.029 50.000 0.00 0.00 0.00 3.49
803 1965 1.131126 CGCAACTTGCAGGATTCGATT 59.869 47.619 14.10 0.00 45.36 3.34
841 2054 4.712425 CCCACCGACGTCGACACC 62.712 72.222 37.65 5.23 43.02 4.16
924 2536 1.652012 CTCTCTCTCGCGGGACATC 59.348 63.158 3.45 0.00 0.00 3.06
981 3083 4.565850 GGGGGAGAGAGCGGGGAT 62.566 72.222 0.00 0.00 0.00 3.85
1009 3111 2.508526 GCTGGTGATTGGGATGGATAC 58.491 52.381 0.00 0.00 0.00 2.24
1117 3231 3.560251 CCATTCCCCTCGCCGGAT 61.560 66.667 5.05 0.00 33.16 4.18
1261 3375 4.486090 TGAAGAGAAGCGTGTATGAAGAC 58.514 43.478 0.00 0.00 0.00 3.01
1270 3390 3.120060 CCCTTTTGATGAAGAGAAGCGTG 60.120 47.826 0.00 0.00 0.00 5.34
1300 3420 2.817258 TGCGTTAGGAAAGACCATTTGG 59.183 45.455 0.00 0.00 42.04 3.28
1301 3421 3.365969 GGTGCGTTAGGAAAGACCATTTG 60.366 47.826 0.00 0.00 42.04 2.32
1304 3424 1.674817 CGGTGCGTTAGGAAAGACCAT 60.675 52.381 0.00 0.00 42.04 3.55
1305 3425 0.320073 CGGTGCGTTAGGAAAGACCA 60.320 55.000 0.00 0.00 42.04 4.02
1306 3426 1.632948 GCGGTGCGTTAGGAAAGACC 61.633 60.000 0.00 0.00 39.35 3.85
1350 3650 1.491127 CGCGCGTCTTGTTCATGAA 59.509 52.632 24.19 3.38 0.00 2.57
1488 3792 2.528041 AGGAAGTGACGGAAGACAAC 57.472 50.000 0.00 0.00 37.55 3.32
1667 3978 1.806496 ATTGGTGGATCATCGGGAGA 58.194 50.000 0.00 0.00 46.90 3.71
1668 3979 2.645838 AATTGGTGGATCATCGGGAG 57.354 50.000 0.00 0.00 0.00 4.30
1669 3980 2.240921 TGAAATTGGTGGATCATCGGGA 59.759 45.455 0.00 0.00 0.00 5.14
1670 3981 2.620115 CTGAAATTGGTGGATCATCGGG 59.380 50.000 0.00 0.00 0.00 5.14
1784 4095 1.487452 CTGCGCGCGTTGGTACATAT 61.487 55.000 32.35 0.00 39.30 1.78
1798 4109 3.372730 TTCATGTTGGCCCTGCGC 61.373 61.111 0.00 0.00 0.00 6.09
1866 4181 3.482783 GCAGCTCTGGAACGCGAC 61.483 66.667 15.93 6.28 0.00 5.19
1922 4237 2.622977 GGGAATTGGGAAGTACATGGCA 60.623 50.000 0.00 0.00 0.00 4.92
1938 4253 0.923358 TACCCGGAAGCAATGGGAAT 59.077 50.000 0.73 0.00 46.41 3.01
1939 4254 0.034863 GTACCCGGAAGCAATGGGAA 60.035 55.000 0.73 0.00 46.41 3.97
1940 4255 1.605453 GTACCCGGAAGCAATGGGA 59.395 57.895 0.73 0.00 46.41 4.37
1942 4257 0.176219 TACGTACCCGGAAGCAATGG 59.824 55.000 0.73 0.00 38.78 3.16
1943 4258 1.283736 GTACGTACCCGGAAGCAATG 58.716 55.000 15.00 0.00 38.78 2.82
1944 4259 0.179129 CGTACGTACCCGGAAGCAAT 60.179 55.000 19.67 0.00 38.78 3.56
1968 4283 5.069516 GGATAAAGTTTGGATGATGCATGGT 59.930 40.000 2.46 0.00 0.00 3.55
2013 4332 9.757227 AGCAGAGAGATCAAATACAGTAATTAC 57.243 33.333 7.57 7.57 0.00 1.89
2016 4335 9.142014 ACTAGCAGAGAGATCAAATACAGTAAT 57.858 33.333 0.00 0.00 0.00 1.89
2157 6791 1.884926 GGATAGCTGCGTGCAGGAC 60.885 63.158 22.22 7.59 45.94 3.85
2158 6792 2.501128 GGATAGCTGCGTGCAGGA 59.499 61.111 22.22 0.00 45.94 3.86
2159 6793 2.963854 CGGATAGCTGCGTGCAGG 60.964 66.667 22.22 1.01 45.94 4.85
2487 7143 1.742146 CTCCGGAGATCGCCATGAA 59.258 57.895 28.21 0.00 37.59 2.57
2636 7292 3.443925 CCTCTCACGCGCCTCTGA 61.444 66.667 5.73 0.46 0.00 3.27
2943 7677 1.207085 GCAACTCGAGACGACGACT 59.793 57.895 21.68 0.00 37.37 4.18
2996 7730 1.228003 CGGGTGGTGGTGTTTGCTA 60.228 57.895 0.00 0.00 0.00 3.49
3146 8767 4.992511 CCCCCGGCGTCAACGAAA 62.993 66.667 6.01 0.00 43.02 3.46
3334 8955 9.825972 CGCCACTTTAATGTAATATTCCATTAG 57.174 33.333 11.80 7.46 35.57 1.73
3435 9056 2.821546 CATCTCGCGTTAGAATCCCAA 58.178 47.619 5.77 0.00 0.00 4.12
3550 12369 3.619929 AGGACGAAATATTACCGTTGCAC 59.380 43.478 14.38 7.95 36.60 4.57
3551 12370 3.864243 AGGACGAAATATTACCGTTGCA 58.136 40.909 14.38 0.00 36.60 4.08
3552 12371 4.117685 AGAGGACGAAATATTACCGTTGC 58.882 43.478 14.38 8.85 36.60 4.17
3553 12372 4.440103 CGAGAGGACGAAATATTACCGTTG 59.560 45.833 14.38 0.00 36.60 4.10
3554 12373 4.604976 CGAGAGGACGAAATATTACCGTT 58.395 43.478 14.38 3.29 36.60 4.44
3562 12381 0.744874 CAGGGCGAGAGGACGAAATA 59.255 55.000 0.00 0.00 35.09 1.40
3637 12456 3.795101 ACTTGGAGTATTTCGCGTATTCG 59.205 43.478 5.77 0.00 40.37 3.34
3733 12584 4.323868 GCAGGATTGAGGAAAGGTCTAGTT 60.324 45.833 0.00 0.00 0.00 2.24
3837 12700 5.168569 TCTTTGCAAGTACAGAGGTTATCG 58.831 41.667 0.00 0.00 0.00 2.92
3890 12753 7.164230 TGATTGGAACACATGGTTAATAACC 57.836 36.000 14.96 14.96 46.62 2.85
4016 12879 6.299141 TCTTGTATTCTGGAAGCTTTTGAGT 58.701 36.000 0.00 0.00 0.00 3.41
4296 13216 2.441164 AACAGCACGCCCAAACCA 60.441 55.556 0.00 0.00 0.00 3.67
4325 13245 5.239306 TCGAAATTCAAACAGCACTGATTCT 59.761 36.000 4.31 0.00 0.00 2.40
4403 13360 8.748412 AGTTTGAAATGGCAGCTACATTAAATA 58.252 29.630 14.14 2.08 37.55 1.40
4432 17395 7.533900 CAGTTATGAATTAACACGACAAGTTGG 59.466 37.037 7.96 0.00 42.30 3.77
4509 17472 2.535317 AAGGTGCCTGGGATGGGT 60.535 61.111 0.00 0.00 0.00 4.51
4546 17509 1.314534 CCTGCATTTGTCGATGGCCA 61.315 55.000 8.56 8.56 0.00 5.36
4666 17630 9.537192 ACGTTTATTTCGATTAGTCCATGATAA 57.463 29.630 0.00 0.00 0.00 1.75
4682 17652 5.009310 AGGACCAAAGGTGAACGTTTATTTC 59.991 40.000 0.46 0.00 35.25 2.17
4760 17731 3.349927 CCTGCACCAGAATGAAGATTGA 58.650 45.455 0.00 0.00 39.69 2.57
4784 17755 0.901827 TTCGCCCTCATGCTTACTCA 59.098 50.000 0.00 0.00 0.00 3.41
4920 17894 1.239968 CCAGAGTTGCTTCACCAGGC 61.240 60.000 0.00 0.00 0.00 4.85
5068 18044 2.079925 CAGTAACTTCAGGCTTCAGGC 58.920 52.381 0.00 0.00 41.43 4.85
5091 18067 6.218746 CAGTTAATGATCATCATCCGAGACA 58.781 40.000 9.06 0.00 35.76 3.41
5092 18068 5.636965 CCAGTTAATGATCATCATCCGAGAC 59.363 44.000 9.06 0.00 35.76 3.36
5093 18069 5.787380 CCAGTTAATGATCATCATCCGAGA 58.213 41.667 9.06 0.00 35.76 4.04
5094 18070 4.391216 GCCAGTTAATGATCATCATCCGAG 59.609 45.833 9.06 0.00 35.76 4.63
5105 18081 1.714899 GCACCGCGCCAGTTAATGAT 61.715 55.000 0.00 0.00 32.94 2.45
5114 18090 4.927782 AAGACAAGCACCGCGCCA 62.928 61.111 0.00 0.00 44.04 5.69
5145 18121 1.027357 CAGCACAATACCCTGGCATC 58.973 55.000 0.00 0.00 0.00 3.91
5187 18163 2.584391 GGCCGTCTCTCCACCACTT 61.584 63.158 0.00 0.00 0.00 3.16
5220 18196 2.292267 CCAAACGCTCCAGCAGAATAT 58.708 47.619 0.00 0.00 42.21 1.28
5221 18197 1.737838 CCAAACGCTCCAGCAGAATA 58.262 50.000 0.00 0.00 42.21 1.75
5247 18223 2.410730 AGGTAAAACGATCAGCGAAACG 59.589 45.455 0.00 0.00 44.57 3.60
5338 18326 5.388408 AGTCCTAACACAAGCACTAGTAC 57.612 43.478 0.00 0.00 0.00 2.73
5355 18345 9.386010 GTCATATAAGTGATCGATAGTAGTCCT 57.614 37.037 0.00 0.00 37.40 3.85
5380 18370 7.106239 ACTCAGCAGCTTACATATTTTAGTGT 58.894 34.615 0.00 0.00 0.00 3.55
5388 18378 5.072329 ACCCATTACTCAGCAGCTTACATAT 59.928 40.000 0.00 0.00 0.00 1.78
5465 18468 1.164041 GGAACCTGGGACACAACACG 61.164 60.000 0.00 0.00 0.00 4.49
5554 18592 8.060075 TCCGTATTTTTATTAAAAGATCCCCCA 58.940 33.333 2.12 0.00 36.73 4.96
5555 18593 8.467963 TCCGTATTTTTATTAAAAGATCCCCC 57.532 34.615 2.12 0.00 36.73 5.40
5578 18616 8.950208 AATAACAAGAGCTTACATTCTACTCC 57.050 34.615 0.00 0.00 0.00 3.85
5579 18617 8.747666 CGAATAACAAGAGCTTACATTCTACTC 58.252 37.037 0.00 0.00 0.00 2.59
5580 18618 7.707035 CCGAATAACAAGAGCTTACATTCTACT 59.293 37.037 0.00 0.00 0.00 2.57
5581 18619 7.705325 TCCGAATAACAAGAGCTTACATTCTAC 59.295 37.037 0.00 0.00 0.00 2.59
5582 18620 7.778083 TCCGAATAACAAGAGCTTACATTCTA 58.222 34.615 0.00 0.00 0.00 2.10
5583 18621 6.640518 TCCGAATAACAAGAGCTTACATTCT 58.359 36.000 0.00 0.00 0.00 2.40
5584 18622 6.903883 TCCGAATAACAAGAGCTTACATTC 57.096 37.500 0.00 0.00 0.00 2.67
5585 18623 7.681939 TTTCCGAATAACAAGAGCTTACATT 57.318 32.000 0.00 0.00 0.00 2.71
5586 18624 7.865706 ATTTCCGAATAACAAGAGCTTACAT 57.134 32.000 0.00 0.00 0.00 2.29
5587 18625 8.038944 AGTATTTCCGAATAACAAGAGCTTACA 58.961 33.333 0.00 0.00 29.89 2.41
5588 18626 8.421673 AGTATTTCCGAATAACAAGAGCTTAC 57.578 34.615 0.00 0.00 29.89 2.34
5590 18628 9.614792 ATTAGTATTTCCGAATAACAAGAGCTT 57.385 29.630 0.00 0.00 29.89 3.74
5591 18629 9.046296 CATTAGTATTTCCGAATAACAAGAGCT 57.954 33.333 0.00 0.00 29.89 4.09
5592 18630 8.827677 ACATTAGTATTTCCGAATAACAAGAGC 58.172 33.333 0.00 0.00 29.89 4.09
5594 18632 9.321562 GGACATTAGTATTTCCGAATAACAAGA 57.678 33.333 0.00 0.00 29.89 3.02
5595 18633 9.104965 TGGACATTAGTATTTCCGAATAACAAG 57.895 33.333 0.00 0.00 33.99 3.16
5596 18634 8.885722 GTGGACATTAGTATTTCCGAATAACAA 58.114 33.333 0.00 0.00 33.99 2.83
5597 18635 8.041919 TGTGGACATTAGTATTTCCGAATAACA 58.958 33.333 0.00 0.00 33.99 2.41
5598 18636 8.428186 TGTGGACATTAGTATTTCCGAATAAC 57.572 34.615 0.00 0.00 33.99 1.89
5599 18637 9.051679 CATGTGGACATTAGTATTTCCGAATAA 57.948 33.333 0.00 0.00 33.99 1.40
5600 18638 8.208224 ACATGTGGACATTAGTATTTCCGAATA 58.792 33.333 0.00 0.00 33.99 1.75
5601 18639 7.054124 ACATGTGGACATTAGTATTTCCGAAT 58.946 34.615 0.00 0.00 33.99 3.34
5616 18654 2.877097 AACTGCCATACATGTGGACA 57.123 45.000 9.11 4.24 42.02 4.02
5618 18656 2.230992 GCAAAACTGCCATACATGTGGA 59.769 45.455 9.11 0.00 42.02 4.02
5627 18665 0.318955 GCGAGTTGCAAAACTGCCAT 60.319 50.000 0.00 0.00 45.45 4.40
5695 18737 4.640201 GTGGCATGCAAATTCTACCTTAGA 59.360 41.667 21.36 0.00 0.00 2.10
5696 18738 4.496341 CGTGGCATGCAAATTCTACCTTAG 60.496 45.833 21.36 0.00 0.00 2.18
5702 18746 2.942376 CCTACGTGGCATGCAAATTCTA 59.058 45.455 21.36 0.00 0.00 2.10
5758 18802 4.769063 CATGGTGCGGGGCGTGTA 62.769 66.667 0.00 0.00 0.00 2.90
5802 18846 3.214328 CTGTGTGGGCAGAAACTAGTTT 58.786 45.455 20.67 20.67 38.70 2.66
5827 18871 0.172578 CACGCGAATGGACTAGGTGA 59.827 55.000 15.93 0.00 0.00 4.02
5863 18907 1.532078 TAGGAGTGTCGTGTGGGCA 60.532 57.895 0.00 0.00 0.00 5.36
5972 19016 2.202171 GGTTGTCACGAATGCGCG 60.202 61.111 0.00 0.00 42.48 6.86
5977 19021 5.049680 GTGTGTTTATCTGGTTGTCACGAAT 60.050 40.000 0.00 0.00 0.00 3.34
5979 19023 3.805422 GTGTGTTTATCTGGTTGTCACGA 59.195 43.478 0.00 0.00 0.00 4.35
6073 19117 5.937540 CCACATATGGTCAAACAGTAGTTCA 59.062 40.000 7.80 0.00 41.64 3.18
6074 19118 6.422776 CCACATATGGTCAAACAGTAGTTC 57.577 41.667 7.80 0.00 41.64 3.01
6144 19188 7.499232 AGTTGCCATGTCTAATTTATGGTAGTC 59.501 37.037 0.00 0.00 42.60 2.59
6196 19241 5.507315 GGCAAGTGTAGTTGTAAAAGCATGT 60.507 40.000 0.00 0.00 0.00 3.21
6301 19347 0.318120 CGAAGCAAAAAGGCCCACAT 59.682 50.000 0.00 0.00 0.00 3.21
6338 19384 5.239744 CGCCTAACATGTACTACTCATCTCT 59.760 44.000 0.00 0.00 0.00 3.10
6353 19399 3.981308 GTGCCACACGCCTAACAT 58.019 55.556 0.00 0.00 36.24 2.71
6388 19439 2.091541 ACATTAGAATTGCCCACACGG 58.908 47.619 0.00 0.00 0.00 4.94


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

AutoCloner maintained by Alex Coulton.