Multiple sequence alignment - TraesCS2D01G125000

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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 TraesCS2D01G125000 chr2D 100.000 4912 0 0 2643 7554 73103193 73098282 0.000000e+00 9071.0
1 TraesCS2D01G125000 chr2D 100.000 2460 0 0 1 2460 73105835 73103376 0.000000e+00 4543.0
2 TraesCS2D01G125000 chr2D 98.180 824 14 1 1 823 400508089 400508912 0.000000e+00 1437.0
3 TraesCS2D01G125000 chr2D 98.058 824 13 3 1 822 507627811 507626989 0.000000e+00 1430.0
4 TraesCS2D01G125000 chr2D 98.600 643 6 2 6912 7554 487266469 487267108 0.000000e+00 1134.0
5 TraesCS2D01G125000 chr2D 82.328 696 70 22 4074 4745 467061377 467062043 8.560000e-154 555.0
6 TraesCS2D01G125000 chr2D 84.375 288 35 10 4730 5016 310718442 310718164 2.690000e-69 274.0
7 TraesCS2D01G125000 chr2D 85.388 219 22 4 6050 6267 467064600 467064809 1.280000e-52 219.0
8 TraesCS2D01G125000 chr2D 79.692 325 49 10 2074 2383 628656378 628656056 1.280000e-52 219.0
9 TraesCS2D01G125000 chr2D 78.529 340 38 17 5146 5473 467062614 467062930 2.780000e-44 191.0
10 TraesCS2D01G125000 chr2D 80.105 191 22 8 5807 5992 467063294 467063473 2.210000e-25 128.0
11 TraesCS2D01G125000 chr2B 94.352 4320 154 26 2644 6911 110483488 110479207 0.000000e+00 6543.0
12 TraesCS2D01G125000 chr2B 90.044 1577 107 26 828 2379 110485276 110483725 0.000000e+00 1997.0
13 TraesCS2D01G125000 chr2B 81.720 651 78 21 4190 4817 110468364 110467732 8.750000e-139 505.0
14 TraesCS2D01G125000 chr2B 85.519 366 51 2 5489 5854 129315907 129315544 1.540000e-101 381.0
15 TraesCS2D01G125000 chr2B 82.337 368 39 14 5112 5473 545760515 545760862 5.730000e-76 296.0
16 TraesCS2D01G125000 chr2B 84.393 173 25 2 5489 5661 545761050 545761220 1.300000e-37 169.0
17 TraesCS2D01G125000 chr2A 91.818 1760 98 22 4887 6615 71667479 71665735 0.000000e+00 2410.0
18 TraesCS2D01G125000 chr2A 94.951 1327 54 6 2644 3969 71669776 71668462 0.000000e+00 2067.0
19 TraesCS2D01G125000 chr2A 90.267 1048 48 14 1419 2460 71670809 71669810 0.000000e+00 1321.0
20 TraesCS2D01G125000 chr2A 92.094 936 45 8 3980 4902 71668416 71667497 0.000000e+00 1291.0
21 TraesCS2D01G125000 chr2A 84.879 1078 127 18 2819 3884 607911661 607912714 0.000000e+00 1055.0
22 TraesCS2D01G125000 chr2A 88.075 587 27 12 827 1383 71671380 71670807 0.000000e+00 656.0
23 TraesCS2D01G125000 chr2A 80.186 646 74 22 4840 5471 71629083 71628478 1.160000e-117 435.0
24 TraesCS2D01G125000 chr2A 79.036 477 48 21 5806 6268 607914614 607915052 5.770000e-71 279.0
25 TraesCS2D01G125000 chr2A 82.736 307 27 9 4494 4793 71629514 71629227 4.530000e-62 250.0
26 TraesCS2D01G125000 chr2A 87.500 128 15 1 6604 6730 71664922 71664795 6.110000e-31 147.0
27 TraesCS2D01G125000 chr2A 83.133 83 11 2 2303 2383 758709140 758709221 1.050000e-08 73.1
28 TraesCS2D01G125000 chr1D 98.905 822 8 1 1 821 391843588 391842767 0.000000e+00 1467.0
29 TraesCS2D01G125000 chr1D 97.947 828 15 2 1 827 127014428 127013602 0.000000e+00 1434.0
30 TraesCS2D01G125000 chr1D 84.028 288 36 9 4730 5016 428589279 428589557 1.250000e-67 268.0
31 TraesCS2D01G125000 chr1D 85.906 149 16 3 2239 2383 252477055 252477202 3.650000e-33 154.0
32 TraesCS2D01G125000 chr3D 98.293 820 11 3 1 819 61940053 61940870 0.000000e+00 1434.0
33 TraesCS2D01G125000 chr3D 97.947 828 11 6 1 826 376094085 376093262 0.000000e+00 1430.0
34 TraesCS2D01G125000 chr3D 97.596 832 17 3 1 830 554307621 554306791 0.000000e+00 1423.0
35 TraesCS2D01G125000 chr3D 98.445 643 7 2 6912 7554 288046789 288046150 0.000000e+00 1129.0
36 TraesCS2D01G125000 chr3D 98.145 647 9 2 6908 7554 297447789 297448432 0.000000e+00 1125.0
37 TraesCS2D01G125000 chr3D 100.000 28 0 0 6592 6619 281004521 281004548 1.400000e-02 52.8
38 TraesCS2D01G125000 chr5D 97.942 826 13 4 1 824 113175015 113174192 0.000000e+00 1428.0
39 TraesCS2D01G125000 chr5D 97.831 830 11 6 1 827 162251488 162252313 0.000000e+00 1426.0
40 TraesCS2D01G125000 chr5D 98.142 646 9 2 6909 7554 233054209 233053567 0.000000e+00 1123.0
41 TraesCS2D01G125000 chr5D 98.142 646 9 2 6909 7554 482686111 482685469 0.000000e+00 1123.0
42 TraesCS2D01G125000 chr5D 82.329 1211 159 29 2655 3839 496980314 496981495 0.000000e+00 1000.0
43 TraesCS2D01G125000 chr5D 83.032 442 56 5 5489 5930 496981751 496982173 4.280000e-102 383.0
44 TraesCS2D01G125000 chr5D 84.722 288 32 11 4730 5016 325879483 325879207 2.080000e-70 278.0
45 TraesCS2D01G125000 chr6D 98.600 643 6 2 6912 7554 11163420 11162781 0.000000e+00 1134.0
46 TraesCS2D01G125000 chr6D 98.145 647 9 2 6908 7554 291373907 291374550 0.000000e+00 1125.0
47 TraesCS2D01G125000 chr6D 98.289 643 8 2 6912 7554 290248107 290248746 0.000000e+00 1123.0
48 TraesCS2D01G125000 chr7D 98.445 643 7 2 6912 7554 7723859 7724498 0.000000e+00 1129.0
49 TraesCS2D01G125000 chr5B 83.836 928 126 13 2865 3782 615840815 615841728 0.000000e+00 861.0
50 TraesCS2D01G125000 chr5B 84.916 358 52 2 5489 5845 271210672 271211028 2.000000e-95 361.0
51 TraesCS2D01G125000 chr5B 83.117 308 42 8 4730 5036 231713571 231713869 9.660000e-69 272.0
52 TraesCS2D01G125000 chr5B 88.312 77 9 0 5854 5930 615842220 615842296 8.070000e-15 93.5
53 TraesCS2D01G125000 chr6A 80.558 1147 169 22 2643 3782 539181137 539182236 0.000000e+00 833.0
54 TraesCS2D01G125000 chr6A 85.286 367 50 4 5489 5854 588794900 588795263 7.160000e-100 375.0
55 TraesCS2D01G125000 chr6A 84.426 366 55 2 5489 5854 606402263 606401900 7.210000e-95 359.0
56 TraesCS2D01G125000 chr5A 81.799 945 142 15 2643 3580 621194894 621195815 0.000000e+00 765.0
57 TraesCS2D01G125000 chr5A 84.163 442 58 8 5489 5930 621196362 621196791 1.170000e-112 418.0
58 TraesCS2D01G125000 chr5A 86.721 369 44 4 3416 3782 621195825 621196190 9.130000e-109 405.0
59 TraesCS2D01G125000 chr4D 83.442 308 41 10 4730 5036 23118851 23118553 2.080000e-70 278.0
60 TraesCS2D01G125000 chr1B 83.442 308 41 10 4730 5036 498712642 498712940 2.080000e-70 278.0
61 TraesCS2D01G125000 chr7B 82.143 308 45 8 4730 5036 92829652 92829354 9.730000e-64 255.0
62 TraesCS2D01G125000 chr4B 96.774 31 1 0 6588 6618 24831456 24831426 1.400000e-02 52.8


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 TraesCS2D01G125000 chr2D 73098282 73105835 7553 True 6807.000000 9071 100.000000 1 7554 2 chr2D.!!$R4 7553
1 TraesCS2D01G125000 chr2D 400508089 400508912 823 False 1437.000000 1437 98.180000 1 823 1 chr2D.!!$F1 822
2 TraesCS2D01G125000 chr2D 507626989 507627811 822 True 1430.000000 1430 98.058000 1 822 1 chr2D.!!$R2 821
3 TraesCS2D01G125000 chr2D 487266469 487267108 639 False 1134.000000 1134 98.600000 6912 7554 1 chr2D.!!$F2 642
4 TraesCS2D01G125000 chr2D 467061377 467064809 3432 False 273.250000 555 81.587500 4074 6267 4 chr2D.!!$F3 2193
5 TraesCS2D01G125000 chr2B 110479207 110485276 6069 True 4270.000000 6543 92.198000 828 6911 2 chr2B.!!$R3 6083
6 TraesCS2D01G125000 chr2B 110467732 110468364 632 True 505.000000 505 81.720000 4190 4817 1 chr2B.!!$R1 627
7 TraesCS2D01G125000 chr2B 545760515 545761220 705 False 232.500000 296 83.365000 5112 5661 2 chr2B.!!$F1 549
8 TraesCS2D01G125000 chr2A 71664795 71671380 6585 True 1315.333333 2410 90.784167 827 6730 6 chr2A.!!$R2 5903
9 TraesCS2D01G125000 chr2A 607911661 607915052 3391 False 667.000000 1055 81.957500 2819 6268 2 chr2A.!!$F2 3449
10 TraesCS2D01G125000 chr2A 71628478 71629514 1036 True 342.500000 435 81.461000 4494 5471 2 chr2A.!!$R1 977
11 TraesCS2D01G125000 chr1D 391842767 391843588 821 True 1467.000000 1467 98.905000 1 821 1 chr1D.!!$R2 820
12 TraesCS2D01G125000 chr1D 127013602 127014428 826 True 1434.000000 1434 97.947000 1 827 1 chr1D.!!$R1 826
13 TraesCS2D01G125000 chr3D 61940053 61940870 817 False 1434.000000 1434 98.293000 1 819 1 chr3D.!!$F1 818
14 TraesCS2D01G125000 chr3D 376093262 376094085 823 True 1430.000000 1430 97.947000 1 826 1 chr3D.!!$R2 825
15 TraesCS2D01G125000 chr3D 554306791 554307621 830 True 1423.000000 1423 97.596000 1 830 1 chr3D.!!$R3 829
16 TraesCS2D01G125000 chr3D 288046150 288046789 639 True 1129.000000 1129 98.445000 6912 7554 1 chr3D.!!$R1 642
17 TraesCS2D01G125000 chr3D 297447789 297448432 643 False 1125.000000 1125 98.145000 6908 7554 1 chr3D.!!$F3 646
18 TraesCS2D01G125000 chr5D 113174192 113175015 823 True 1428.000000 1428 97.942000 1 824 1 chr5D.!!$R1 823
19 TraesCS2D01G125000 chr5D 162251488 162252313 825 False 1426.000000 1426 97.831000 1 827 1 chr5D.!!$F1 826
20 TraesCS2D01G125000 chr5D 233053567 233054209 642 True 1123.000000 1123 98.142000 6909 7554 1 chr5D.!!$R2 645
21 TraesCS2D01G125000 chr5D 482685469 482686111 642 True 1123.000000 1123 98.142000 6909 7554 1 chr5D.!!$R4 645
22 TraesCS2D01G125000 chr5D 496980314 496982173 1859 False 691.500000 1000 82.680500 2655 5930 2 chr5D.!!$F2 3275
23 TraesCS2D01G125000 chr6D 11162781 11163420 639 True 1134.000000 1134 98.600000 6912 7554 1 chr6D.!!$R1 642
24 TraesCS2D01G125000 chr6D 291373907 291374550 643 False 1125.000000 1125 98.145000 6908 7554 1 chr6D.!!$F2 646
25 TraesCS2D01G125000 chr6D 290248107 290248746 639 False 1123.000000 1123 98.289000 6912 7554 1 chr6D.!!$F1 642
26 TraesCS2D01G125000 chr7D 7723859 7724498 639 False 1129.000000 1129 98.445000 6912 7554 1 chr7D.!!$F1 642
27 TraesCS2D01G125000 chr5B 615840815 615842296 1481 False 477.250000 861 86.074000 2865 5930 2 chr5B.!!$F3 3065
28 TraesCS2D01G125000 chr6A 539181137 539182236 1099 False 833.000000 833 80.558000 2643 3782 1 chr6A.!!$F1 1139
29 TraesCS2D01G125000 chr5A 621194894 621196791 1897 False 529.333333 765 84.227667 2643 5930 3 chr5A.!!$F1 3287

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
984 1013 0.688087 ACCTTCTCCCATCTCCGTCC 60.688 60.000 0.00 0.0 0.0 4.79 F
1412 1446 0.037697 TTTGTGCCGCTACGAGATGT 60.038 50.000 0.00 0.0 0.0 3.06 F
1417 1451 0.100682 GCCGCTACGAGATGTCAGAA 59.899 55.000 0.00 0.0 0.0 3.02 F
1625 1661 0.519961 CGGACGGATTTTGGTGGTTC 59.480 55.000 0.00 0.0 0.0 3.62 F
1821 1862 0.610174 GCCAGGTGATGTCAGACTCA 59.390 55.000 1.31 0.6 0.0 3.41 F
1842 1883 1.197721 GAGATGACAGTGCAAAACCCG 59.802 52.381 0.00 0.0 0.0 5.28 F
3707 4085 0.609957 TTGGTCATGAGGCTGCAAGG 60.610 55.000 0.50 0.0 0.0 3.61 F
5631 6655 0.385974 AAACAGCGCGATGAACAAGC 60.386 50.000 33.25 0.0 0.0 4.01 F
6226 8346 0.601057 GGGTTGGACAAACAATCCGG 59.399 55.000 0.00 0.0 41.4 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1829 1870 0.318107 CTTGCTCGGGTTTTGCACTG 60.318 55.000 0.00 0.00 36.37 3.66 R
2769 2935 1.689959 GCACTTGCATTGTTTCCTCG 58.310 50.000 0.00 0.00 41.59 4.63 R
2957 3129 3.423123 CGTACAACGGCAGTGAGATTTTC 60.423 47.826 0.00 0.00 38.08 2.29 R
3601 3979 5.796424 ATACCTGGAAATGCATTCAATCC 57.204 39.130 18.10 18.10 39.98 3.01 R
3707 4085 1.077123 CAGCATCGATAGCATCCTGC 58.923 55.000 17.94 8.55 45.46 4.85 R
4062 4481 1.236616 TGTTGCTGCACCGATCTTGG 61.237 55.000 0.00 0.00 0.00 3.61 R
5681 6705 1.218047 CGGATCTTGGCGTTCCTGA 59.782 57.895 0.00 0.00 30.62 3.86 R
6506 8648 0.525668 CTCATGTCCAGGACGTACGC 60.526 60.000 16.72 8.19 34.95 4.42 R
7028 10003 8.819974 CATGAAAACTGAATAAAACTGTTGCTT 58.180 29.630 0.00 0.00 31.79 3.91 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
597 600 4.024641 GCTCGATGTTGATTCATGTATGCA 60.025 41.667 0.00 0.00 0.00 3.96
897 900 5.982890 TTCAGGGATTTGAAATTCAGGAC 57.017 39.130 0.00 0.00 34.32 3.85
898 901 4.344104 TCAGGGATTTGAAATTCAGGACC 58.656 43.478 0.00 1.39 0.00 4.46
899 902 4.088634 CAGGGATTTGAAATTCAGGACCA 58.911 43.478 13.16 0.00 0.00 4.02
900 903 4.159135 CAGGGATTTGAAATTCAGGACCAG 59.841 45.833 13.16 0.00 0.00 4.00
916 944 3.488553 GGACCAGTTCAAACTTCAAACCG 60.489 47.826 0.00 0.00 37.08 4.44
917 945 3.349022 ACCAGTTCAAACTTCAAACCGA 58.651 40.909 0.00 0.00 37.08 4.69
984 1013 0.688087 ACCTTCTCCCATCTCCGTCC 60.688 60.000 0.00 0.00 0.00 4.79
1164 1198 0.397254 TCCGAGATGAGGTTCCTCCC 60.397 60.000 15.20 7.99 36.75 4.30
1194 1228 1.437160 CCGCTGTTTTTGCTGTGGT 59.563 52.632 0.00 0.00 34.58 4.16
1221 1255 1.153289 GCGACAGGCTCATGGATGT 60.153 57.895 0.00 0.00 39.11 3.06
1280 1314 1.787012 TTCTTCGTTTCGTACCTGGC 58.213 50.000 0.00 0.00 0.00 4.85
1352 1386 3.943691 TGGTCCGTTTCGTGGGGG 61.944 66.667 0.00 0.00 0.00 5.40
1363 1397 3.966543 GTGGGGGACTGGGTGGTG 61.967 72.222 0.00 0.00 0.00 4.17
1374 1408 4.660938 GGTGGTGCTGGGGTGGAC 62.661 72.222 0.00 0.00 0.00 4.02
1397 1431 2.032681 GTCGGGCTCTGGCTTTGT 59.967 61.111 0.00 0.00 38.73 2.83
1399 1433 3.741476 CGGGCTCTGGCTTTGTGC 61.741 66.667 0.00 0.00 41.94 4.57
1409 1443 1.736645 GCTTTGTGCCGCTACGAGA 60.737 57.895 0.00 0.00 35.15 4.04
1411 1445 0.647410 CTTTGTGCCGCTACGAGATG 59.353 55.000 0.00 0.00 0.00 2.90
1412 1446 0.037697 TTTGTGCCGCTACGAGATGT 60.038 50.000 0.00 0.00 0.00 3.06
1413 1447 0.457853 TTGTGCCGCTACGAGATGTC 60.458 55.000 0.00 0.00 0.00 3.06
1414 1448 1.138883 GTGCCGCTACGAGATGTCA 59.861 57.895 0.00 0.00 0.00 3.58
1415 1449 0.867753 GTGCCGCTACGAGATGTCAG 60.868 60.000 0.00 0.00 0.00 3.51
1416 1450 1.029947 TGCCGCTACGAGATGTCAGA 61.030 55.000 0.00 0.00 0.00 3.27
1417 1451 0.100682 GCCGCTACGAGATGTCAGAA 59.899 55.000 0.00 0.00 0.00 3.02
1450 1484 1.811965 CAGAATTGACGAATGGTGGCA 59.188 47.619 0.00 0.00 0.00 4.92
1464 1498 1.270550 GGTGGCAGTTGAATCCAGTTG 59.729 52.381 0.00 0.00 0.00 3.16
1500 1534 3.364764 GCCGATGCTCTGCTGATTAATTC 60.365 47.826 0.00 0.00 33.53 2.17
1515 1549 1.562672 AATTCGTGGGAGGTGAGGGG 61.563 60.000 0.00 0.00 0.00 4.79
1532 1568 2.024414 GGGGAATCGGTTTGATCAAGG 58.976 52.381 8.41 2.81 35.84 3.61
1577 1613 1.001293 TGTCCTGTGTGCAGATCAGTC 59.999 52.381 10.83 6.10 45.28 3.51
1588 1624 5.640783 TGTGCAGATCAGTCAGATTTACTTG 59.359 40.000 0.00 0.00 37.00 3.16
1625 1661 0.519961 CGGACGGATTTTGGTGGTTC 59.480 55.000 0.00 0.00 0.00 3.62
1636 1672 6.070251 GGATTTTGGTGGTTCAGGGATTTTAT 60.070 38.462 0.00 0.00 0.00 1.40
1639 1676 6.844097 TTGGTGGTTCAGGGATTTTATTAC 57.156 37.500 0.00 0.00 0.00 1.89
1656 1693 4.926860 ATTACGGGTTTGCGTTAACTAC 57.073 40.909 3.71 0.00 0.00 2.73
1707 1748 1.269448 GAAGTGAATTTGCGGCTTGGA 59.731 47.619 0.00 0.00 0.00 3.53
1732 1773 3.431572 GTGATCAGTCTGTCAAAGTCTGC 59.568 47.826 0.00 0.00 40.60 4.26
1734 1775 3.541996 TCAGTCTGTCAAAGTCTGCAA 57.458 42.857 0.00 0.00 40.60 4.08
1741 1782 2.866156 TGTCAAAGTCTGCAAGTCTTCG 59.134 45.455 0.00 0.00 41.40 3.79
1743 1784 3.309954 GTCAAAGTCTGCAAGTCTTCGTT 59.690 43.478 0.00 0.00 41.40 3.85
1744 1785 3.309682 TCAAAGTCTGCAAGTCTTCGTTG 59.690 43.478 0.00 0.00 41.40 4.10
1746 1787 3.728076 AGTCTGCAAGTCTTCGTTGTA 57.272 42.857 0.00 0.00 33.76 2.41
1800 1841 4.225208 GCTCAACTGAATTTTCTCTGTGC 58.775 43.478 0.00 0.00 0.00 4.57
1815 1856 1.302752 GTGCTGCCAGGTGATGTCA 60.303 57.895 0.00 0.00 0.00 3.58
1821 1862 0.610174 GCCAGGTGATGTCAGACTCA 59.390 55.000 1.31 0.60 0.00 3.41
1829 1870 4.439974 GGTGATGTCAGACTCAGAGATGAC 60.440 50.000 23.07 23.07 41.89 3.06
1834 1875 2.491298 TCAGACTCAGAGATGACAGTGC 59.509 50.000 3.79 0.00 0.00 4.40
1842 1883 1.197721 GAGATGACAGTGCAAAACCCG 59.802 52.381 0.00 0.00 0.00 5.28
1874 1915 1.815003 CAGGTGGATCTGAAAACTGGC 59.185 52.381 0.00 0.00 36.93 4.85
1917 1958 2.046892 CCCTCCTGGTTCAGTGCG 60.047 66.667 0.00 0.00 0.00 5.34
1964 2005 2.684843 CGCAAGCCAGGAAGTGCTC 61.685 63.158 0.00 0.00 36.66 4.26
2209 2250 1.609208 CACCCCCAGTTCTGAAACAG 58.391 55.000 1.00 0.00 37.88 3.16
2324 2365 8.890718 GGGAATAGTAATGTTTGTTTAGACTCC 58.109 37.037 0.00 0.00 0.00 3.85
2337 2378 8.995027 TTGTTTAGACTCCATGGCATATAATT 57.005 30.769 6.96 0.00 0.00 1.40
2340 2381 8.299570 GTTTAGACTCCATGGCATATAATTTGG 58.700 37.037 6.96 0.00 0.00 3.28
2393 2559 6.734532 TGGTAACTACCTACTAGGACATTGA 58.265 40.000 9.28 0.00 46.58 2.57
2453 2619 7.041098 AGCTGGTATTCTGTGTTTCAAAGTTAG 60.041 37.037 0.00 0.00 0.00 2.34
2733 2899 2.288825 GGAATGCTCGATATCCGTGGAA 60.289 50.000 0.00 0.00 35.86 3.53
2737 2903 2.029918 TGCTCGATATCCGTGGAATGAG 60.030 50.000 0.00 0.00 39.75 2.90
2769 2935 2.839486 TCCACAGACAGGACATCAAC 57.161 50.000 0.00 0.00 0.00 3.18
2957 3129 6.435430 TTTACTGTATATTGCTTGCTGTGG 57.565 37.500 0.00 0.00 0.00 4.17
3028 3213 4.002982 TGCTTTCTGTAATGTACTGCTGG 58.997 43.478 0.00 0.00 0.00 4.85
3299 3494 8.651588 CGTCTTGCACTATCAGGATAATTAATC 58.348 37.037 0.00 0.00 0.00 1.75
3394 3591 7.116805 CCAAATTGATTGAGGTTCTAGTTTTGC 59.883 37.037 0.00 0.00 41.85 3.68
3489 3687 4.980434 CCTTCTTTCTGAACACTTGCATTG 59.020 41.667 0.00 0.00 0.00 2.82
3490 3688 5.450965 CCTTCTTTCTGAACACTTGCATTGT 60.451 40.000 0.00 0.00 0.00 2.71
3523 3895 7.039714 ACTCCTTTTGTTCTTTCAAGTCAGTTT 60.040 33.333 0.00 0.00 0.00 2.66
3601 3979 9.219603 TCATAAAGTTCTACTGATTGGTCTTTG 57.780 33.333 0.00 0.00 0.00 2.77
3645 4023 2.358582 TGTGAGTGTTTTGCATCAGGTG 59.641 45.455 0.00 0.00 0.00 4.00
3707 4085 0.609957 TTGGTCATGAGGCTGCAAGG 60.610 55.000 0.50 0.00 0.00 3.61
3872 4256 1.699634 TCTAGTTGCTGAAGGGCTTGT 59.300 47.619 0.00 0.00 0.00 3.16
4062 4481 9.076596 GGATTTTGTCTTTCATGCTATGTTAAC 57.923 33.333 0.00 0.00 0.00 2.01
4117 4536 5.898120 TCAAATCCCCCTTTTGTCATCTAA 58.102 37.500 0.00 0.00 35.90 2.10
4124 4543 5.304357 CCCCCTTTTGTCATCTAAAAGTTGT 59.696 40.000 0.00 0.00 41.34 3.32
4125 4544 6.447162 CCCCTTTTGTCATCTAAAAGTTGTC 58.553 40.000 0.00 0.00 41.34 3.18
4126 4545 6.265422 CCCCTTTTGTCATCTAAAAGTTGTCT 59.735 38.462 0.00 0.00 41.34 3.41
4127 4546 7.201911 CCCCTTTTGTCATCTAAAAGTTGTCTT 60.202 37.037 0.00 0.00 41.34 3.01
4238 4673 7.286508 CGTTCTGCTAGCACTTAATAATCATG 58.713 38.462 14.93 0.00 0.00 3.07
4278 4730 7.160049 ACCATGAGTCAATTGCTATATGAGAG 58.840 38.462 17.90 10.38 0.00 3.20
4434 4886 1.066908 GAGATCCGAGTGCCTGAAGAG 59.933 57.143 0.00 0.00 0.00 2.85
4655 5108 2.351111 GCAGAAAAGCTCTCCAATCTCG 59.649 50.000 0.00 0.00 29.07 4.04
4990 5636 3.259374 TCTTTGCTCACTCCTGTTCCTAG 59.741 47.826 0.00 0.00 0.00 3.02
5018 5664 3.873529 CACTAAAAGTGCCGTCAAAGTC 58.126 45.455 0.00 0.00 39.62 3.01
5147 5969 2.821969 AGGCCACTTTTAGCTGATGTTG 59.178 45.455 5.01 0.00 0.00 3.33
5241 6066 7.695055 TCCATAGGTATTGTTCTCTCCAAAAA 58.305 34.615 0.00 0.00 0.00 1.94
5294 6119 8.385111 GTGATTCATTATGCTGAATTGTTTTGG 58.615 33.333 0.96 0.00 44.00 3.28
5328 6153 1.538512 CATTCTTCTATGGCCATGCGG 59.461 52.381 29.04 17.23 0.00 5.69
5336 6165 2.363306 ATGGCCATGCGGAGATTTTA 57.637 45.000 20.04 0.00 0.00 1.52
5394 6237 3.059884 CGTAGAGCACAGTGACATTGTT 58.940 45.455 4.15 0.00 0.00 2.83
5406 6251 6.073369 CAGTGACATTGTTACATTCAGTTCG 58.927 40.000 13.46 0.00 0.00 3.95
5482 6327 8.596781 AGTAGAACTCACTATCAGGTGTATTT 57.403 34.615 0.00 0.00 38.28 1.40
5596 6620 4.706476 TGCCTTTCTTCCATAAACCATGAG 59.294 41.667 0.00 0.00 36.69 2.90
5631 6655 0.385974 AAACAGCGCGATGAACAAGC 60.386 50.000 33.25 0.00 0.00 4.01
5681 6705 5.368989 CAGTTCCTGTTTCTGAAGTAAGGT 58.631 41.667 12.16 0.00 0.00 3.50
5724 6748 5.072329 ACCCTTCTGATACATGGAAGTATGG 59.928 44.000 0.00 0.08 34.95 2.74
5779 6803 3.119637 TGATGTGTAACGAGCAAGATCGA 60.120 43.478 15.06 0.00 45.56 3.59
5834 6866 0.951040 CTCGGCCACCAAACAGAGAC 60.951 60.000 2.24 0.00 0.00 3.36
5839 6871 1.230635 CCACCAAACAGAGACTGCCG 61.231 60.000 0.00 0.00 34.37 5.69
5872 6904 4.464069 AGAGCAAGAGAAGCGTATTCTT 57.536 40.909 6.50 0.00 37.01 2.52
5980 7012 5.363868 AGTTCTGTAGATGCAATAGTAGCCA 59.636 40.000 0.00 0.00 0.00 4.75
6116 8233 4.322080 TTCGTTTCTGCAGAAGAGAAGA 57.678 40.909 29.07 20.84 35.91 2.87
6226 8346 0.601057 GGGTTGGACAAACAATCCGG 59.399 55.000 0.00 0.00 41.40 5.14
6272 8392 2.028930 GTCAAGTCACCAGGTCTGTAGG 60.029 54.545 0.00 0.00 0.00 3.18
6506 8648 2.061028 GCCTTGCCAATTGAAGTTTCG 58.939 47.619 7.12 0.00 0.00 3.46
6555 8697 2.202797 CGCCCGTGATCACCTGAG 60.203 66.667 20.03 9.17 0.00 3.35
6556 8698 2.710902 CGCCCGTGATCACCTGAGA 61.711 63.158 20.03 0.00 0.00 3.27
6615 9583 9.668497 ATTACTCCCTCTGTAAAGAAATGTAAC 57.332 33.333 0.00 0.00 34.20 2.50
6619 9587 7.685481 TCCCTCTGTAAAGAAATGTAACATCA 58.315 34.615 0.00 0.00 0.00 3.07
6627 9595 9.922305 GTAAAGAAATGTAACATCATACAGAGC 57.078 33.333 0.00 0.00 39.04 4.09
6629 9597 6.341316 AGAAATGTAACATCATACAGAGCGT 58.659 36.000 0.00 0.00 39.04 5.07
6631 9599 3.780902 TGTAACATCATACAGAGCGTGG 58.219 45.455 0.00 0.00 32.24 4.94
6671 9643 1.227380 CACCATAGAGGCTGGCGTC 60.227 63.158 7.12 7.12 43.14 5.19
6730 9702 2.672996 GCCGGGCTGCTTCTGAAA 60.673 61.111 12.87 0.00 0.00 2.69
6744 9718 4.791974 CTTCTGAAATTGACAGCTGGAAC 58.208 43.478 19.93 9.63 35.61 3.62
6764 9738 2.301870 ACTTGCAGTTCCCGAAGTGATA 59.698 45.455 14.98 1.99 42.77 2.15
6765 9739 2.672961 TGCAGTTCCCGAAGTGATAG 57.327 50.000 14.98 0.00 42.77 2.08
6766 9740 2.176045 TGCAGTTCCCGAAGTGATAGA 58.824 47.619 14.98 0.00 42.77 1.98
6768 9742 3.197766 TGCAGTTCCCGAAGTGATAGATT 59.802 43.478 14.98 0.00 42.77 2.40
6769 9743 4.404394 TGCAGTTCCCGAAGTGATAGATTA 59.596 41.667 14.98 0.00 42.77 1.75
6770 9744 4.985409 GCAGTTCCCGAAGTGATAGATTAG 59.015 45.833 14.98 0.00 42.77 1.73
6771 9745 4.985409 CAGTTCCCGAAGTGATAGATTAGC 59.015 45.833 6.44 0.00 42.77 3.09
6772 9746 4.039366 AGTTCCCGAAGTGATAGATTAGCC 59.961 45.833 0.00 0.00 0.00 3.93
6773 9747 2.557056 TCCCGAAGTGATAGATTAGCCG 59.443 50.000 0.00 0.00 0.00 5.52
6774 9748 2.329379 CCGAAGTGATAGATTAGCCGC 58.671 52.381 0.00 0.00 0.00 6.53
6775 9749 2.288213 CCGAAGTGATAGATTAGCCGCA 60.288 50.000 0.00 0.00 0.00 5.69
6776 9750 2.983136 CGAAGTGATAGATTAGCCGCAG 59.017 50.000 0.00 0.00 0.00 5.18
6777 9751 2.447244 AGTGATAGATTAGCCGCAGC 57.553 50.000 0.00 0.00 40.32 5.25
6778 9752 1.001406 AGTGATAGATTAGCCGCAGCC 59.999 52.381 0.00 0.00 41.25 4.85
6801 9775 4.660938 GCGGTGCCCCTGGTTCTT 62.661 66.667 0.00 0.00 0.00 2.52
6827 9802 1.460699 GGACCTGAACCTTGCCCTT 59.539 57.895 0.00 0.00 0.00 3.95
6830 9805 2.278330 CCTGAACCTTGCCCTTGCC 61.278 63.158 0.00 0.00 36.33 4.52
6845 9820 4.479993 GCCTGGCCAGATCGCAGT 62.480 66.667 34.91 0.00 0.00 4.40
6846 9821 2.513204 CCTGGCCAGATCGCAGTG 60.513 66.667 34.91 10.80 0.00 3.66
6847 9822 3.200593 CTGGCCAGATCGCAGTGC 61.201 66.667 29.88 4.58 0.00 4.40
6848 9823 3.963687 CTGGCCAGATCGCAGTGCA 62.964 63.158 29.88 2.61 0.00 4.57
6849 9824 2.515523 GGCCAGATCGCAGTGCAT 60.516 61.111 16.83 7.82 0.00 3.96
6850 9825 2.713770 GCCAGATCGCAGTGCATG 59.286 61.111 16.83 7.71 0.00 4.06
6880 9855 2.046892 CCCCTGAGCAGTCAACCG 60.047 66.667 0.00 0.00 30.14 4.44
6941 9916 9.352191 AGAGTAGTCATTATGGTATACGACTTT 57.648 33.333 12.23 4.42 35.47 2.66
6968 9943 4.600111 TCCAAGTCAGTTTTGTACCCCTAT 59.400 41.667 0.00 0.00 0.00 2.57
6971 9946 4.436079 AGTCAGTTTTGTACCCCTATCCT 58.564 43.478 0.00 0.00 0.00 3.24
7027 10002 2.957680 TGCCGCACCAAATCATCAATAT 59.042 40.909 0.00 0.00 0.00 1.28
7028 10003 4.140536 TGCCGCACCAAATCATCAATATA 58.859 39.130 0.00 0.00 0.00 0.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
597 600 1.208776 GGCACTAACTTACGGGGACAT 59.791 52.381 0.00 0.00 0.00 3.06
896 899 3.349022 TCGGTTTGAAGTTTGAACTGGT 58.651 40.909 0.00 0.00 39.66 4.00
897 900 4.568152 ATCGGTTTGAAGTTTGAACTGG 57.432 40.909 0.00 1.85 39.66 4.00
898 901 6.885735 AAAATCGGTTTGAAGTTTGAACTG 57.114 33.333 0.00 5.29 39.66 3.16
899 902 8.989653 TTTAAAATCGGTTTGAAGTTTGAACT 57.010 26.923 0.00 0.00 42.04 3.01
916 944 7.242079 GGCCGAGAAAAGTCTACTTTAAAATC 58.758 38.462 8.45 3.29 44.69 2.17
917 945 6.128363 CGGCCGAGAAAAGTCTACTTTAAAAT 60.128 38.462 24.07 0.00 44.69 1.82
984 1013 1.610554 TTTCTAGGGGCCGGAGAACG 61.611 60.000 16.00 0.00 43.80 3.95
1164 1198 2.070654 AACAGCGGCGAAAAGTTGGG 62.071 55.000 12.98 0.00 0.00 4.12
1194 1228 0.032130 GAGCCTGTCGCGGATAATCA 59.968 55.000 6.13 0.00 44.76 2.57
1280 1314 1.462283 CTCACACGATCCACAGCAAAG 59.538 52.381 0.00 0.00 0.00 2.77
1339 1373 2.358247 CAGTCCCCCACGAAACGG 60.358 66.667 0.00 0.00 0.00 4.44
1352 1386 4.351054 CCCCAGCACCACCCAGTC 62.351 72.222 0.00 0.00 0.00 3.51
1363 1397 1.303317 ACATTTCGTCCACCCCAGC 60.303 57.895 0.00 0.00 0.00 4.85
1372 1406 1.084370 CCAGAGCCCGACATTTCGTC 61.084 60.000 0.00 0.00 44.28 4.20
1374 1408 2.464459 GCCAGAGCCCGACATTTCG 61.464 63.158 0.00 0.00 45.44 3.46
1397 1431 1.029947 TCTGACATCTCGTAGCGGCA 61.030 55.000 1.45 0.00 0.00 5.69
1399 1433 1.402259 ACTTCTGACATCTCGTAGCGG 59.598 52.381 0.00 0.00 0.00 5.52
1409 1443 5.538053 TCTGAAGAGTTCTGACTTCTGACAT 59.462 40.000 0.00 0.00 42.01 3.06
1411 1445 5.446143 TCTGAAGAGTTCTGACTTCTGAC 57.554 43.478 0.00 2.31 42.01 3.51
1412 1446 6.662865 ATTCTGAAGAGTTCTGACTTCTGA 57.337 37.500 0.00 0.00 43.67 3.27
1413 1447 6.927936 TCAATTCTGAAGAGTTCTGACTTCTG 59.072 38.462 0.00 0.00 41.79 3.02
1414 1448 6.928492 GTCAATTCTGAAGAGTTCTGACTTCT 59.072 38.462 0.00 0.00 41.79 2.85
1415 1449 6.128956 CGTCAATTCTGAAGAGTTCTGACTTC 60.129 42.308 0.00 0.00 41.67 3.01
1416 1450 5.694006 CGTCAATTCTGAAGAGTTCTGACTT 59.306 40.000 0.00 0.00 37.36 3.01
1417 1451 5.010112 TCGTCAATTCTGAAGAGTTCTGACT 59.990 40.000 0.00 0.00 35.47 3.41
1450 1484 2.884639 CCGAAACCAACTGGATTCAACT 59.115 45.455 16.29 0.00 44.36 3.16
1500 1534 1.972660 GATTCCCCTCACCTCCCACG 61.973 65.000 0.00 0.00 0.00 4.94
1515 1549 2.999331 TCCCCTTGATCAAACCGATTC 58.001 47.619 9.88 0.00 33.17 2.52
1532 1568 1.146263 CACCCAGCGTATCCTTCCC 59.854 63.158 0.00 0.00 0.00 3.97
1577 1613 6.252015 CCATGAAACATTCGCAAGTAAATCTG 59.748 38.462 0.00 0.00 39.48 2.90
1588 1624 1.467374 CCGGTTCCATGAAACATTCGC 60.467 52.381 0.00 0.00 0.00 4.70
1625 1661 4.678622 GCAAACCCGTAATAAAATCCCTG 58.321 43.478 0.00 0.00 0.00 4.45
1636 1672 2.728839 CGTAGTTAACGCAAACCCGTAA 59.271 45.455 0.00 0.00 46.10 3.18
1639 1676 3.933118 CGTAGTTAACGCAAACCCG 57.067 52.632 0.00 0.00 46.10 5.28
1656 1693 7.098074 ACTGGAAGGAAAATAGACTACTACG 57.902 40.000 0.00 0.00 39.30 3.51
1665 1704 8.579863 ACTTCAATCAAACTGGAAGGAAAATAG 58.420 33.333 0.00 0.00 40.72 1.73
1707 1748 5.757320 CAGACTTTGACAGACTGATCACTTT 59.243 40.000 10.08 0.00 45.24 2.66
1717 1758 3.462021 AGACTTGCAGACTTTGACAGAC 58.538 45.455 0.00 0.00 0.00 3.51
1732 1773 7.381408 TGAAGTGTTATCTACAACGAAGACTTG 59.619 37.037 0.00 0.00 38.80 3.16
1734 1775 6.978338 TGAAGTGTTATCTACAACGAAGACT 58.022 36.000 0.00 0.00 38.80 3.24
1770 1811 7.339721 AGAGAAAATTCAGTTGAGCATGATGAT 59.660 33.333 0.00 0.00 0.00 2.45
1771 1812 6.657966 AGAGAAAATTCAGTTGAGCATGATGA 59.342 34.615 0.00 0.00 0.00 2.92
1772 1813 6.747739 CAGAGAAAATTCAGTTGAGCATGATG 59.252 38.462 0.00 0.00 0.00 3.07
1815 1856 2.523245 TGCACTGTCATCTCTGAGTCT 58.477 47.619 4.32 0.00 30.18 3.24
1821 1862 2.508526 GGGTTTTGCACTGTCATCTCT 58.491 47.619 0.00 0.00 0.00 3.10
1829 1870 0.318107 CTTGCTCGGGTTTTGCACTG 60.318 55.000 0.00 0.00 36.37 3.66
1834 1875 2.650778 GGCCTTGCTCGGGTTTTG 59.349 61.111 0.00 0.00 0.00 2.44
1842 1883 4.748144 CACCTGGGGGCCTTGCTC 62.748 72.222 0.84 0.00 35.63 4.26
2050 2091 0.391263 CTGCGGGTTGAGTAGGGAAC 60.391 60.000 0.00 0.00 0.00 3.62
2053 2094 1.327690 TAGCTGCGGGTTGAGTAGGG 61.328 60.000 0.81 0.00 0.00 3.53
2127 2168 1.667151 GCAACTTGCAATGCCTCCA 59.333 52.632 13.01 0.00 44.26 3.86
2209 2250 2.027625 CTCCGTCTTGGGCAACGAC 61.028 63.158 0.00 0.00 41.29 4.34
2321 2362 4.221262 CCCACCAAATTATATGCCATGGAG 59.779 45.833 18.40 0.00 0.00 3.86
2324 2365 5.246656 ACATCCCACCAAATTATATGCCATG 59.753 40.000 0.00 0.00 0.00 3.66
2337 2378 2.461300 TCAACCAAACATCCCACCAA 57.539 45.000 0.00 0.00 0.00 3.67
2340 2381 2.593026 TCCTTCAACCAAACATCCCAC 58.407 47.619 0.00 0.00 0.00 4.61
2733 2899 3.136763 GTGGATTCGCATGATGTCTCAT 58.863 45.455 0.00 0.00 43.02 2.90
2737 2903 2.286294 GTCTGTGGATTCGCATGATGTC 59.714 50.000 0.00 0.00 32.43 3.06
2769 2935 1.689959 GCACTTGCATTGTTTCCTCG 58.310 50.000 0.00 0.00 41.59 4.63
2957 3129 3.423123 CGTACAACGGCAGTGAGATTTTC 60.423 47.826 0.00 0.00 38.08 2.29
3457 3655 6.097412 AGTGTTCAGAAAGAAGGCAAAATCTT 59.903 34.615 0.00 0.00 36.78 2.40
3489 3687 7.257722 TGAAAGAACAAAAGGAGTTCATCAAC 58.742 34.615 8.54 0.00 45.93 3.18
3490 3688 7.403312 TGAAAGAACAAAAGGAGTTCATCAA 57.597 32.000 8.54 0.00 45.93 2.57
3582 3960 6.655003 TCAATCCAAAGACCAATCAGTAGAAC 59.345 38.462 0.00 0.00 0.00 3.01
3601 3979 5.796424 ATACCTGGAAATGCATTCAATCC 57.204 39.130 18.10 18.10 39.98 3.01
3707 4085 1.077123 CAGCATCGATAGCATCCTGC 58.923 55.000 17.94 8.55 45.46 4.85
4062 4481 1.236616 TGTTGCTGCACCGATCTTGG 61.237 55.000 0.00 0.00 0.00 3.61
4125 4544 9.309516 CCATGATTAATTTCTGACATTGGAAAG 57.690 33.333 0.00 0.00 35.37 2.62
4126 4545 9.033711 TCCATGATTAATTTCTGACATTGGAAA 57.966 29.630 0.00 0.00 36.17 3.13
4127 4546 8.592529 TCCATGATTAATTTCTGACATTGGAA 57.407 30.769 0.00 0.00 0.00 3.53
4238 4673 1.071385 CATGGTATGGGCTCAGAGTCC 59.929 57.143 14.90 14.90 41.40 3.85
4278 4730 2.293399 ACAACTCGGAATTTGGCTTGTC 59.707 45.455 4.55 0.00 0.00 3.18
4434 4886 4.677584 AGATCGAAAGCACTCACAGTATC 58.322 43.478 0.00 0.00 0.00 2.24
4592 5045 3.290948 TGGTCCAGTAATACCCATTGC 57.709 47.619 0.00 0.00 0.00 3.56
4655 5108 1.584380 CTGCCTGAAGAAGCCACTGC 61.584 60.000 0.00 0.00 37.95 4.40
4795 5299 1.741706 CCACATGTTCTTGGCTGCTAG 59.258 52.381 0.00 0.00 0.00 3.42
4938 5583 5.480073 TCACCTGAAATGGGATAAAAACCAG 59.520 40.000 0.00 0.00 40.67 4.00
5018 5664 1.722011 AAGTAACTCCATGCGGTTCG 58.278 50.000 5.09 0.00 0.00 3.95
5147 5969 5.695816 GCTCATTGACATTCTCTATCTGGAC 59.304 44.000 0.00 0.00 0.00 4.02
5294 6119 3.005155 AGAAGAATGTGAGCAAGCAAACC 59.995 43.478 0.00 0.00 0.00 3.27
5328 6153 9.468532 GATGGAAAACCAGCAATATAAAATCTC 57.531 33.333 0.00 0.00 0.00 2.75
5336 6165 7.902920 ATAGTTGATGGAAAACCAGCAATAT 57.097 32.000 19.84 14.79 45.55 1.28
5394 6237 3.681594 GCAATCCCTCCGAACTGAATGTA 60.682 47.826 0.00 0.00 0.00 2.29
5406 6251 3.017442 GGAGTAACAAAGCAATCCCTCC 58.983 50.000 0.00 0.00 0.00 4.30
5443 6288 7.889073 AGTGAGTTCTACTTCTAAGGTATGTGA 59.111 37.037 0.00 0.00 0.00 3.58
5455 6300 6.518208 ACACCTGATAGTGAGTTCTACTTC 57.482 41.667 0.00 0.00 40.34 3.01
5500 6519 9.918630 CCTGAAAATGAAACAGTAATGAGATTT 57.081 29.630 0.00 0.00 0.00 2.17
5546 6569 7.870445 ACTATCAGCTCGATCTAATTTTCTTCC 59.130 37.037 2.47 0.00 35.39 3.46
5596 6620 2.210116 TGTTTCTCAACTGCTTCCGTC 58.790 47.619 0.00 0.00 33.58 4.79
5631 6655 6.253512 GGTTAAACTGTTTTCTGTTGAGCAAG 59.746 38.462 11.48 0.00 40.78 4.01
5681 6705 1.218047 CGGATCTTGGCGTTCCTGA 59.782 57.895 0.00 0.00 30.62 3.86
5724 6748 2.047179 GGGACACCGGTCTTCTGC 60.047 66.667 2.59 0.00 43.77 4.26
5779 6803 1.308998 CGCTTGGTGTCAGGAAAAGT 58.691 50.000 0.00 0.00 0.00 2.66
5834 6866 2.069273 CTCTTTGTAAGTGTCCGGCAG 58.931 52.381 0.00 0.00 0.00 4.85
5839 6871 4.632153 TCTCTTGCTCTTTGTAAGTGTCC 58.368 43.478 0.00 0.00 39.07 4.02
5872 6904 4.764823 CCAAGGTAGTCATGCAAGGTTTTA 59.235 41.667 0.00 0.00 0.00 1.52
5980 7012 8.189460 GCGTCTCGTATTAGGATTTAGGATAAT 58.811 37.037 0.00 0.00 0.00 1.28
6226 8346 2.899339 GGAGAATGGAGCGCCTGC 60.899 66.667 8.34 0.00 43.24 4.85
6272 8392 1.202417 TCATCCCACTTCTCGAATCGC 60.202 52.381 0.00 0.00 0.00 4.58
6364 8505 3.097614 TCAGGTTCTCTAGGTTAGCACC 58.902 50.000 0.00 0.00 44.67 5.01
6506 8648 0.525668 CTCATGTCCAGGACGTACGC 60.526 60.000 16.72 8.19 34.95 4.42
6611 9579 2.540101 GCCACGCTCTGTATGATGTTAC 59.460 50.000 0.00 0.00 0.00 2.50
6615 9583 1.217585 CGGCCACGCTCTGTATGATG 61.218 60.000 2.24 0.00 0.00 3.07
6619 9587 2.494918 GACGGCCACGCTCTGTAT 59.505 61.111 2.24 0.00 46.04 2.29
6716 9688 1.888512 TGTCAATTTCAGAAGCAGCCC 59.111 47.619 0.00 0.00 0.00 5.19
6730 9702 1.884579 CTGCAAGTTCCAGCTGTCAAT 59.115 47.619 13.81 0.00 0.00 2.57
6744 9718 1.813513 ATCACTTCGGGAACTGCAAG 58.186 50.000 0.00 0.00 42.29 4.01
6754 9728 2.288213 TGCGGCTAATCTATCACTTCGG 60.288 50.000 0.00 0.00 0.00 4.30
6764 9738 2.507944 CAGGGCTGCGGCTAATCT 59.492 61.111 18.85 7.40 38.73 2.40
6765 9739 2.592861 CCAGGGCTGCGGCTAATC 60.593 66.667 18.85 0.00 38.73 1.75
6766 9740 3.411517 ACCAGGGCTGCGGCTAAT 61.412 61.111 18.85 0.11 38.73 1.73
6796 9770 0.605589 CAGGTCCCCGTCCAAAGAAC 60.606 60.000 0.00 0.00 0.00 3.01
6801 9775 2.522367 GGTTCAGGTCCCCGTCCAA 61.522 63.158 0.00 0.00 0.00 3.53
6827 9802 4.478371 CTGCGATCTGGCCAGGCA 62.478 66.667 32.23 29.22 0.00 4.75
6830 9805 3.200593 GCACTGCGATCTGGCCAG 61.201 66.667 27.87 27.87 0.00 4.85
6855 9830 2.044650 TGCTCAGGGGCTTCATGC 60.045 61.111 0.00 0.00 41.94 4.06
6856 9831 0.747283 GACTGCTCAGGGGCTTCATG 60.747 60.000 1.66 0.00 0.00 3.07
6857 9832 1.203441 TGACTGCTCAGGGGCTTCAT 61.203 55.000 1.66 0.00 0.00 2.57
6858 9833 1.418097 TTGACTGCTCAGGGGCTTCA 61.418 55.000 1.66 0.00 0.00 3.02
6865 9840 1.151668 CTTTCGGTTGACTGCTCAGG 58.848 55.000 1.66 0.00 0.00 3.86
6900 9875 5.359009 TGACTACTCTAACAATTACCCCTCG 59.641 44.000 0.00 0.00 0.00 4.63
6904 9879 9.490379 CCATAATGACTACTCTAACAATTACCC 57.510 37.037 0.00 0.00 0.00 3.69
6941 9916 5.370679 GGGTACAAAACTGACTTGGACTAA 58.629 41.667 0.00 0.00 37.69 2.24
7028 10003 8.819974 CATGAAAACTGAATAAAACTGTTGCTT 58.180 29.630 0.00 0.00 31.79 3.91


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

AutoCloner maintained by Alex Coulton.