Multiple sequence alignment - TraesCS3D01G165000

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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 TraesCS3D01G165000 chr3D 100.000 2591 0 0 1 2591 136569494 136566904 0.000000e+00 4785
1 TraesCS3D01G165000 chr3D 93.013 229 15 1 2363 2591 429297885 429298112 1.490000e-87 333
2 TraesCS3D01G165000 chr3A 90.360 1556 91 21 864 2372 154384297 154382754 0.000000e+00 1988
3 TraesCS3D01G165000 chr3A 90.982 876 44 9 1 873 154386341 154385498 0.000000e+00 1147
4 TraesCS3D01G165000 chr3B 92.016 1215 59 17 710 1899 199226899 199225698 0.000000e+00 1672
5 TraesCS3D01G165000 chr3B 94.567 589 27 5 141 727 199228010 199227425 0.000000e+00 905
6 TraesCS3D01G165000 chr3B 99.301 143 1 0 1 143 199228291 199228149 2.560000e-65 259
7 TraesCS3D01G165000 chr3B 80.090 221 25 12 2083 2285 199222967 199222748 2.080000e-31 147
8 TraesCS3D01G165000 chr2D 94.545 220 12 0 2372 2591 445395918 445395699 8.880000e-90 340
9 TraesCS3D01G165000 chr2D 94.495 218 12 0 2372 2589 200808999 200808782 1.150000e-88 337
10 TraesCS3D01G165000 chr5D 94.931 217 10 1 2374 2590 397030357 397030142 3.190000e-89 339
11 TraesCS3D01G165000 chr1D 94.091 220 13 0 2372 2591 250740830 250741049 4.130000e-88 335
12 TraesCS3D01G165000 chr1D 92.920 226 16 0 2366 2591 61444785 61445010 1.920000e-86 329
13 TraesCS3D01G165000 chr7D 94.064 219 13 0 2373 2591 320285484 320285702 1.490000e-87 333
14 TraesCS3D01G165000 chr6D 94.064 219 13 0 2372 2590 81392146 81391928 1.490000e-87 333
15 TraesCS3D01G165000 chr4D 94.064 219 13 0 2373 2591 329659303 329659521 1.490000e-87 333


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 TraesCS3D01G165000 chr3D 136566904 136569494 2590 True 4785.00 4785 100.0000 1 2591 1 chr3D.!!$R1 2590
1 TraesCS3D01G165000 chr3A 154382754 154386341 3587 True 1567.50 1988 90.6710 1 2372 2 chr3A.!!$R1 2371
2 TraesCS3D01G165000 chr3B 199222748 199228291 5543 True 745.75 1672 91.4935 1 2285 4 chr3B.!!$R1 2284

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
811 1499 0.462581 CGTGGATGGCTGTATGTGCT 60.463 55.0 0.0 0.0 0.0 4.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2435 6939 0.036765 AAGGTCAGCCGCGTGAAATA 60.037 50.0 4.92 0.0 40.5 1.4 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
80 81 9.374711 ACCATTTAAAATTTAGGGAGACAAAGA 57.625 29.630 0.00 0.00 0.00 2.52
256 398 4.022068 GCTGGTCAAAAGATGGTTTGATGA 60.022 41.667 3.88 0.00 46.31 2.92
356 500 4.067972 TCCCTTATTCTGCCGTACAATC 57.932 45.455 0.00 0.00 0.00 2.67
366 510 4.096231 TCTGCCGTACAATCATTTCCATTG 59.904 41.667 0.00 0.00 37.29 2.82
399 543 1.265905 AGGCGTGAATCCGTTGTTTTC 59.734 47.619 0.00 0.00 0.00 2.29
587 732 3.149436 TGCTTAATTGGCGAATTCAGC 57.851 42.857 24.95 24.95 44.20 4.26
609 754 8.248253 TCAGCGTAACTTAGATTGTTAGATTCA 58.752 33.333 0.00 0.00 31.54 2.57
672 817 1.882198 CATTGTTGCTCGCTTAACGG 58.118 50.000 0.00 0.00 43.89 4.44
717 862 2.169352 ACATTGCTTCGACTATGAGGCT 59.831 45.455 4.85 0.00 41.18 4.58
721 1408 3.262420 TGCTTCGACTATGAGGCTTTTC 58.738 45.455 0.00 0.00 41.18 2.29
732 1419 2.172505 TGAGGCTTTTCTGGTGACTTCA 59.827 45.455 0.00 0.00 0.00 3.02
761 1448 1.171308 ACATGTGATGTTGGCTCAGC 58.829 50.000 0.00 0.00 41.63 4.26
786 1474 5.648330 TTAGAGGTGCTCATAGGACTAGA 57.352 43.478 0.00 0.00 36.73 2.43
790 1478 2.035321 GGTGCTCATAGGACTAGAGTGC 59.965 54.545 0.00 0.00 36.73 4.40
801 1489 3.716539 TAGAGTGCGCGTGGATGGC 62.717 63.158 8.43 0.00 0.00 4.40
811 1499 0.462581 CGTGGATGGCTGTATGTGCT 60.463 55.000 0.00 0.00 0.00 4.40
958 2859 3.985925 CCTCGAGCTTTTACGTACACTTT 59.014 43.478 6.99 0.00 0.00 2.66
1011 2912 1.504912 CTCACCTCACATGATCCCCT 58.495 55.000 0.00 0.00 0.00 4.79
1068 2979 1.449778 GAGCCCACCGAGCTAAACC 60.450 63.158 0.00 0.00 41.75 3.27
1125 3036 0.035317 TCACATGGCTCGCTCAAAGT 59.965 50.000 0.00 0.00 0.00 2.66
1178 3089 1.821332 CTCAATCCAAGCCGAGGCC 60.821 63.158 10.95 0.00 43.17 5.19
1199 3110 2.661537 CGGCTCACAACTGCGACA 60.662 61.111 0.00 0.00 0.00 4.35
1413 3324 5.184892 AGGGAAGATCAACAACTAGCAAT 57.815 39.130 0.00 0.00 0.00 3.56
1618 3531 5.009410 GTGAGGGATTGCCAGAATTTATCAG 59.991 44.000 0.00 0.00 35.15 2.90
1638 3551 2.613691 GCATGTGCTTCCATTTTGAGG 58.386 47.619 0.00 0.00 38.21 3.86
1650 3563 3.256631 CCATTTTGAGGTGGTTCTCCTTG 59.743 47.826 0.00 0.00 35.20 3.61
1651 3564 3.943671 TTTTGAGGTGGTTCTCCTTGA 57.056 42.857 0.00 0.00 35.20 3.02
1652 3565 3.943671 TTTGAGGTGGTTCTCCTTGAA 57.056 42.857 0.00 0.00 35.20 2.69
1653 3566 4.453480 TTTGAGGTGGTTCTCCTTGAAT 57.547 40.909 0.00 0.00 36.99 2.57
1654 3567 3.423539 TGAGGTGGTTCTCCTTGAATG 57.576 47.619 0.00 0.00 36.99 2.67
1658 3571 2.820197 GGTGGTTCTCCTTGAATGTTCC 59.180 50.000 0.00 0.00 36.99 3.62
1659 3572 3.498661 GGTGGTTCTCCTTGAATGTTCCT 60.499 47.826 0.00 0.00 36.99 3.36
1660 3573 3.503748 GTGGTTCTCCTTGAATGTTCCTG 59.496 47.826 0.00 0.00 36.99 3.86
1661 3574 3.394274 TGGTTCTCCTTGAATGTTCCTGA 59.606 43.478 0.00 0.00 36.99 3.86
1662 3575 4.006319 GGTTCTCCTTGAATGTTCCTGAG 58.994 47.826 0.00 0.00 36.99 3.35
1719 3643 2.443260 TATGGTTGTCGCGGTGTGCT 62.443 55.000 6.13 0.00 43.27 4.40
1736 3660 6.401153 CGGTGTGCTCTTATTTCTTAAGTCAC 60.401 42.308 1.63 10.54 39.74 3.67
1741 3665 6.147821 TGCTCTTATTTCTTAAGTCACTGCAC 59.852 38.462 1.63 0.00 38.76 4.57
1842 3766 2.666272 TGTTTTGGCTACATCACCCA 57.334 45.000 0.00 0.00 0.00 4.51
1859 3783 2.042569 ACCCATTAGAACTCCAAACCCC 59.957 50.000 0.00 0.00 0.00 4.95
1874 3798 4.142026 CCAAACCCCGAATTTTAATCCTCC 60.142 45.833 0.00 0.00 0.00 4.30
1875 3799 4.325084 AACCCCGAATTTTAATCCTCCA 57.675 40.909 0.00 0.00 0.00 3.86
1909 3833 1.062488 ACATCACCCCCTAGCCCATC 61.062 60.000 0.00 0.00 0.00 3.51
1913 3837 2.039405 CCCCCTAGCCCATCTGGT 60.039 66.667 0.00 0.00 36.04 4.00
1931 3855 6.978674 TCTGGTATCGAATAGTCAAAGGAT 57.021 37.500 0.00 0.00 0.00 3.24
1932 3856 7.361457 TCTGGTATCGAATAGTCAAAGGATT 57.639 36.000 0.00 0.00 0.00 3.01
1933 3857 7.792032 TCTGGTATCGAATAGTCAAAGGATTT 58.208 34.615 0.00 0.00 40.26 2.17
1934 3858 7.926555 TCTGGTATCGAATAGTCAAAGGATTTC 59.073 37.037 0.00 0.00 35.03 2.17
1935 3859 7.792032 TGGTATCGAATAGTCAAAGGATTTCT 58.208 34.615 0.00 0.00 35.03 2.52
1936 3860 8.265055 TGGTATCGAATAGTCAAAGGATTTCTT 58.735 33.333 0.00 0.00 35.03 2.52
1963 3891 2.602676 GCCACCTTGGAGCTGGGTA 61.603 63.158 0.00 0.00 40.96 3.69
2008 3972 3.064987 GACGCCGGAGCAAGCTCTA 62.065 63.158 20.26 0.00 42.38 2.43
2015 3979 1.537776 CGGAGCAAGCTCTACCTCATG 60.538 57.143 20.26 0.00 42.38 3.07
2042 4006 1.636988 CCGTTACCACCTTCGACATC 58.363 55.000 0.00 0.00 0.00 3.06
2043 4007 1.067425 CCGTTACCACCTTCGACATCA 60.067 52.381 0.00 0.00 0.00 3.07
2059 4023 3.842923 CATCCTCTCCGGCTGCGT 61.843 66.667 0.00 0.00 0.00 5.24
2071 4035 1.696832 GGCTGCGTTGACTTCCGATC 61.697 60.000 0.00 0.00 0.00 3.69
2152 6637 2.180769 CCATTCTCGCGGTCGACA 59.819 61.111 18.91 0.00 40.21 4.35
2153 6638 1.445410 CCATTCTCGCGGTCGACAA 60.445 57.895 18.91 1.66 40.21 3.18
2160 6645 2.029964 GCGGTCGACAAACCAGGA 59.970 61.111 18.91 0.00 39.43 3.86
2161 6646 1.375523 GCGGTCGACAAACCAGGAT 60.376 57.895 18.91 0.00 39.43 3.24
2188 6673 1.224039 GAGAGGCCAAGAGCAGCAT 59.776 57.895 5.01 0.00 46.50 3.79
2244 6746 3.795150 GCCAAAACATTCTTTCTCGCACA 60.795 43.478 0.00 0.00 0.00 4.57
2248 6750 6.088085 CCAAAACATTCTTTCTCGCACATTAC 59.912 38.462 0.00 0.00 0.00 1.89
2252 6754 7.792374 ACATTCTTTCTCGCACATTACATAT 57.208 32.000 0.00 0.00 0.00 1.78
2260 6762 6.943981 TCTCGCACATTACATATAAAGCAAC 58.056 36.000 0.00 0.00 0.00 4.17
2341 6844 4.999311 TGCATCATCATCATACAACCTAGC 59.001 41.667 0.00 0.00 0.00 3.42
2346 6849 7.315066 TCATCATCATACAACCTAGCCATAA 57.685 36.000 0.00 0.00 0.00 1.90
2359 6863 6.426587 ACCTAGCCATAAAACTCACATCATT 58.573 36.000 0.00 0.00 0.00 2.57
2373 6877 1.075542 ATCATTACACACGCACACGG 58.924 50.000 0.00 0.00 46.04 4.94
2374 6878 1.154488 CATTACACACGCACACGGC 60.154 57.895 0.00 0.00 46.04 5.68
2375 6879 1.595655 ATTACACACGCACACGGCA 60.596 52.632 0.00 0.00 46.04 5.69
2376 6880 1.160946 ATTACACACGCACACGGCAA 61.161 50.000 0.00 0.00 46.04 4.52
2377 6881 1.366854 TTACACACGCACACGGCAAA 61.367 50.000 0.00 0.00 46.04 3.68
2378 6882 1.160946 TACACACGCACACGGCAAAT 61.161 50.000 0.00 0.00 46.04 2.32
2379 6883 1.299014 CACACGCACACGGCAAATT 60.299 52.632 0.00 0.00 46.04 1.82
2380 6884 0.869454 CACACGCACACGGCAAATTT 60.869 50.000 0.00 0.00 46.04 1.82
2381 6885 0.869454 ACACGCACACGGCAAATTTG 60.869 50.000 14.03 14.03 46.04 2.32
2382 6886 0.593518 CACGCACACGGCAAATTTGA 60.594 50.000 22.31 0.00 46.04 2.69
2383 6887 0.593773 ACGCACACGGCAAATTTGAC 60.594 50.000 22.31 18.50 46.04 3.18
2384 6888 0.593518 CGCACACGGCAAATTTGACA 60.594 50.000 23.49 0.00 45.17 3.58
2385 6889 1.565305 GCACACGGCAAATTTGACAA 58.435 45.000 23.49 0.00 43.97 3.18
2386 6890 1.929836 GCACACGGCAAATTTGACAAA 59.070 42.857 23.49 2.48 43.97 2.83
2387 6891 2.543430 GCACACGGCAAATTTGACAAAT 59.457 40.909 23.49 7.62 43.97 2.32
2388 6892 3.002144 GCACACGGCAAATTTGACAAATT 59.998 39.130 23.49 18.41 42.62 1.82
2389 6893 7.684145 CGCACACGGCAAATTTGACAAATTT 62.684 40.000 26.12 26.12 45.17 1.82
2398 6902 6.923928 AAATTTGACAAATTTGACCTGTGG 57.076 33.333 29.31 0.00 46.30 4.17
2399 6903 5.867903 ATTTGACAAATTTGACCTGTGGA 57.132 34.783 24.64 0.00 0.00 4.02
2400 6904 4.647424 TTGACAAATTTGACCTGTGGAC 57.353 40.909 24.64 5.11 0.00 4.02
2401 6905 2.616376 TGACAAATTTGACCTGTGGACG 59.384 45.455 24.64 0.00 0.00 4.79
2402 6906 2.875933 GACAAATTTGACCTGTGGACGA 59.124 45.455 24.64 0.00 0.00 4.20
2403 6907 3.283751 ACAAATTTGACCTGTGGACGAA 58.716 40.909 24.64 0.00 0.00 3.85
2404 6908 3.697045 ACAAATTTGACCTGTGGACGAAA 59.303 39.130 24.64 0.00 0.00 3.46
2405 6909 4.340950 ACAAATTTGACCTGTGGACGAAAT 59.659 37.500 24.64 0.00 0.00 2.17
2406 6910 4.766404 AATTTGACCTGTGGACGAAATC 57.234 40.909 0.00 0.00 0.00 2.17
2407 6911 2.920724 TTGACCTGTGGACGAAATCA 57.079 45.000 0.00 0.00 0.00 2.57
2408 6912 2.920724 TGACCTGTGGACGAAATCAA 57.079 45.000 0.00 0.00 0.00 2.57
2409 6913 3.201353 TGACCTGTGGACGAAATCAAA 57.799 42.857 0.00 0.00 0.00 2.69
2410 6914 3.750371 TGACCTGTGGACGAAATCAAAT 58.250 40.909 0.00 0.00 0.00 2.32
2411 6915 3.751175 TGACCTGTGGACGAAATCAAATC 59.249 43.478 0.00 0.00 0.00 2.17
2412 6916 3.750371 ACCTGTGGACGAAATCAAATCA 58.250 40.909 0.00 0.00 0.00 2.57
2413 6917 3.502211 ACCTGTGGACGAAATCAAATCAC 59.498 43.478 0.00 0.00 0.00 3.06
2414 6918 3.501828 CCTGTGGACGAAATCAAATCACA 59.498 43.478 0.00 0.00 33.45 3.58
2415 6919 4.378770 CCTGTGGACGAAATCAAATCACAG 60.379 45.833 12.04 12.04 45.71 3.66
2416 6920 4.384940 TGTGGACGAAATCAAATCACAGA 58.615 39.130 0.00 0.00 31.29 3.41
2417 6921 4.819088 TGTGGACGAAATCAAATCACAGAA 59.181 37.500 0.00 0.00 31.29 3.02
2418 6922 5.473162 TGTGGACGAAATCAAATCACAGAAT 59.527 36.000 0.00 0.00 31.29 2.40
2419 6923 6.652900 TGTGGACGAAATCAAATCACAGAATA 59.347 34.615 0.00 0.00 31.29 1.75
2420 6924 7.174080 TGTGGACGAAATCAAATCACAGAATAA 59.826 33.333 0.00 0.00 31.29 1.40
2421 6925 8.020819 GTGGACGAAATCAAATCACAGAATAAA 58.979 33.333 0.00 0.00 0.00 1.40
2422 6926 8.020819 TGGACGAAATCAAATCACAGAATAAAC 58.979 33.333 0.00 0.00 0.00 2.01
2423 6927 8.237267 GGACGAAATCAAATCACAGAATAAACT 58.763 33.333 0.00 0.00 0.00 2.66
2424 6928 8.955061 ACGAAATCAAATCACAGAATAAACTG 57.045 30.769 0.00 0.00 42.78 3.16
2434 6938 5.668558 ACAGAATAAACTGTCCGTGAAAC 57.331 39.130 0.00 0.00 46.36 2.78
2435 6939 5.365619 ACAGAATAAACTGTCCGTGAAACT 58.634 37.500 0.00 0.00 46.36 2.66
2436 6940 6.518493 ACAGAATAAACTGTCCGTGAAACTA 58.482 36.000 0.00 0.00 46.36 2.24
2437 6941 7.159372 ACAGAATAAACTGTCCGTGAAACTAT 58.841 34.615 0.00 0.00 46.36 2.12
2438 6942 7.660208 ACAGAATAAACTGTCCGTGAAACTATT 59.340 33.333 0.00 0.00 46.36 1.73
2439 6943 8.504005 CAGAATAAACTGTCCGTGAAACTATTT 58.496 33.333 0.00 0.00 33.73 1.40
2440 6944 8.718734 AGAATAAACTGTCCGTGAAACTATTTC 58.281 33.333 0.00 0.00 40.08 2.17
2441 6945 7.972832 ATAAACTGTCCGTGAAACTATTTCA 57.027 32.000 0.00 0.00 46.68 2.69
2448 6952 1.803334 TGAAACTATTTCACGCGGCT 58.197 45.000 12.47 0.00 44.21 5.52
2449 6953 1.463056 TGAAACTATTTCACGCGGCTG 59.537 47.619 12.47 0.00 44.21 4.85
2450 6954 1.730064 GAAACTATTTCACGCGGCTGA 59.270 47.619 12.47 2.44 39.45 4.26
2451 6955 1.076332 AACTATTTCACGCGGCTGAC 58.924 50.000 12.47 0.00 0.00 3.51
2452 6956 0.739813 ACTATTTCACGCGGCTGACC 60.740 55.000 12.47 0.00 0.00 4.02
2453 6957 0.460284 CTATTTCACGCGGCTGACCT 60.460 55.000 12.47 0.00 0.00 3.85
2454 6958 0.036765 TATTTCACGCGGCTGACCTT 60.037 50.000 12.47 0.00 0.00 3.50
2455 6959 0.889186 ATTTCACGCGGCTGACCTTT 60.889 50.000 12.47 0.00 0.00 3.11
2456 6960 1.098712 TTTCACGCGGCTGACCTTTT 61.099 50.000 12.47 0.00 0.00 2.27
2457 6961 1.098712 TTCACGCGGCTGACCTTTTT 61.099 50.000 12.47 0.00 0.00 1.94
2458 6962 0.249953 TCACGCGGCTGACCTTTTTA 60.250 50.000 12.47 0.00 0.00 1.52
2459 6963 0.802494 CACGCGGCTGACCTTTTTAT 59.198 50.000 12.47 0.00 0.00 1.40
2460 6964 0.802494 ACGCGGCTGACCTTTTTATG 59.198 50.000 12.47 0.00 0.00 1.90
2461 6965 0.802494 CGCGGCTGACCTTTTTATGT 59.198 50.000 0.00 0.00 0.00 2.29
2462 6966 1.465689 CGCGGCTGACCTTTTTATGTG 60.466 52.381 0.00 0.00 0.00 3.21
2463 6967 1.810151 GCGGCTGACCTTTTTATGTGA 59.190 47.619 0.00 0.00 0.00 3.58
2464 6968 2.414161 GCGGCTGACCTTTTTATGTGAC 60.414 50.000 0.00 0.00 0.00 3.67
2465 6969 2.159707 CGGCTGACCTTTTTATGTGACG 60.160 50.000 0.00 0.00 0.00 4.35
2466 6970 2.414161 GGCTGACCTTTTTATGTGACGC 60.414 50.000 0.00 0.00 0.00 5.19
2467 6971 2.414161 GCTGACCTTTTTATGTGACGCC 60.414 50.000 0.00 0.00 0.00 5.68
2468 6972 2.156098 TGACCTTTTTATGTGACGCCC 58.844 47.619 0.00 0.00 0.00 6.13
2469 6973 1.129811 GACCTTTTTATGTGACGCCCG 59.870 52.381 0.00 0.00 0.00 6.13
2470 6974 0.450184 CCTTTTTATGTGACGCCCGG 59.550 55.000 0.00 0.00 0.00 5.73
2471 6975 0.179174 CTTTTTATGTGACGCCCGGC 60.179 55.000 0.00 0.00 0.00 6.13
2472 6976 0.889638 TTTTTATGTGACGCCCGGCA 60.890 50.000 10.77 0.00 0.00 5.69
2486 6990 2.870372 GGCACGAAGGCATCACAC 59.130 61.111 0.00 0.00 43.51 3.82
2487 6991 1.672356 GGCACGAAGGCATCACACT 60.672 57.895 0.00 0.00 43.51 3.55
2488 6992 0.391130 GGCACGAAGGCATCACACTA 60.391 55.000 0.00 0.00 43.51 2.74
2489 6993 1.656652 GCACGAAGGCATCACACTAT 58.343 50.000 0.00 0.00 0.00 2.12
2490 6994 2.483013 GGCACGAAGGCATCACACTATA 60.483 50.000 0.00 0.00 43.51 1.31
2491 6995 2.540101 GCACGAAGGCATCACACTATAC 59.460 50.000 0.00 0.00 0.00 1.47
2492 6996 3.123804 CACGAAGGCATCACACTATACC 58.876 50.000 0.00 0.00 0.00 2.73
2493 6997 2.223735 ACGAAGGCATCACACTATACCG 60.224 50.000 0.00 0.00 0.00 4.02
2494 6998 2.223735 CGAAGGCATCACACTATACCGT 60.224 50.000 0.00 0.00 0.00 4.83
2495 6999 2.890808 AGGCATCACACTATACCGTG 57.109 50.000 0.00 0.00 40.67 4.94
2496 7000 1.202533 AGGCATCACACTATACCGTGC 60.203 52.381 0.00 0.00 38.45 5.34
2497 7001 1.472552 GGCATCACACTATACCGTGCA 60.473 52.381 0.00 0.00 38.45 4.57
2498 7002 2.276201 GCATCACACTATACCGTGCAA 58.724 47.619 0.00 0.00 38.45 4.08
2499 7003 2.030457 GCATCACACTATACCGTGCAAC 59.970 50.000 0.00 0.00 38.45 4.17
2510 7014 3.972227 GTGCAACGCCTCACAGAT 58.028 55.556 0.00 0.00 33.63 2.90
2511 7015 3.137484 GTGCAACGCCTCACAGATA 57.863 52.632 0.00 0.00 33.63 1.98
2512 7016 1.438651 GTGCAACGCCTCACAGATAA 58.561 50.000 0.00 0.00 33.63 1.75
2513 7017 1.394917 GTGCAACGCCTCACAGATAAG 59.605 52.381 0.00 0.00 33.63 1.73
2514 7018 0.375106 GCAACGCCTCACAGATAAGC 59.625 55.000 0.00 0.00 0.00 3.09
2516 7020 3.313750 CGCCTCACAGATAAGCGC 58.686 61.111 0.00 0.00 40.35 5.92
2517 7021 1.227089 CGCCTCACAGATAAGCGCT 60.227 57.895 2.64 2.64 40.35 5.92
2518 7022 0.030773 CGCCTCACAGATAAGCGCTA 59.969 55.000 12.05 0.00 40.35 4.26
2519 7023 1.492720 GCCTCACAGATAAGCGCTAC 58.507 55.000 12.05 5.62 0.00 3.58
2520 7024 1.202417 GCCTCACAGATAAGCGCTACA 60.202 52.381 12.05 1.08 0.00 2.74
2521 7025 2.546795 GCCTCACAGATAAGCGCTACAT 60.547 50.000 12.05 7.35 0.00 2.29
2522 7026 3.055591 CCTCACAGATAAGCGCTACATG 58.944 50.000 12.05 10.38 0.00 3.21
2523 7027 2.473816 TCACAGATAAGCGCTACATGC 58.526 47.619 12.05 0.00 38.57 4.06
2524 7028 1.528586 CACAGATAAGCGCTACATGCC 59.471 52.381 12.05 0.00 38.78 4.40
2525 7029 1.414181 ACAGATAAGCGCTACATGCCT 59.586 47.619 12.05 0.00 38.78 4.75
2526 7030 1.797046 CAGATAAGCGCTACATGCCTG 59.203 52.381 12.05 8.95 38.78 4.85
2527 7031 1.151668 GATAAGCGCTACATGCCTGG 58.848 55.000 12.05 0.00 38.78 4.45
2528 7032 0.886490 ATAAGCGCTACATGCCTGGC 60.886 55.000 12.05 12.87 38.78 4.85
2529 7033 2.940890 TAAGCGCTACATGCCTGGCC 62.941 60.000 12.05 0.00 38.78 5.36
2549 7053 4.374702 CGTTGCACGCCAGACTGC 62.375 66.667 0.00 0.00 33.65 4.40
2550 7054 4.030452 GTTGCACGCCAGACTGCC 62.030 66.667 0.00 0.00 31.97 4.85
2551 7055 4.254709 TTGCACGCCAGACTGCCT 62.255 61.111 0.00 0.00 31.97 4.75
2552 7056 2.878089 TTGCACGCCAGACTGCCTA 61.878 57.895 0.00 0.00 31.97 3.93
2553 7057 2.047274 GCACGCCAGACTGCCTAA 60.047 61.111 0.00 0.00 0.00 2.69
2554 7058 1.671054 GCACGCCAGACTGCCTAAA 60.671 57.895 0.00 0.00 0.00 1.85
2555 7059 1.234615 GCACGCCAGACTGCCTAAAA 61.235 55.000 0.00 0.00 0.00 1.52
2556 7060 1.234821 CACGCCAGACTGCCTAAAAA 58.765 50.000 0.00 0.00 0.00 1.94
2557 7061 1.812571 CACGCCAGACTGCCTAAAAAT 59.187 47.619 0.00 0.00 0.00 1.82
2558 7062 2.228822 CACGCCAGACTGCCTAAAAATT 59.771 45.455 0.00 0.00 0.00 1.82
2559 7063 2.228822 ACGCCAGACTGCCTAAAAATTG 59.771 45.455 0.00 0.00 0.00 2.32
2560 7064 2.610433 GCCAGACTGCCTAAAAATTGC 58.390 47.619 0.00 0.00 0.00 3.56
2561 7065 2.232208 GCCAGACTGCCTAAAAATTGCT 59.768 45.455 0.00 0.00 0.00 3.91
2562 7066 3.443681 GCCAGACTGCCTAAAAATTGCTA 59.556 43.478 0.00 0.00 0.00 3.49
2563 7067 4.082245 GCCAGACTGCCTAAAAATTGCTAA 60.082 41.667 0.00 0.00 0.00 3.09
2564 7068 5.644644 CCAGACTGCCTAAAAATTGCTAAG 58.355 41.667 0.00 0.00 0.00 2.18
2565 7069 5.183904 CCAGACTGCCTAAAAATTGCTAAGT 59.816 40.000 0.00 0.00 0.00 2.24
2566 7070 6.317857 CAGACTGCCTAAAAATTGCTAAGTC 58.682 40.000 0.00 0.00 31.68 3.01
2567 7071 6.003950 AGACTGCCTAAAAATTGCTAAGTCA 58.996 36.000 0.00 0.00 33.10 3.41
2568 7072 6.660949 AGACTGCCTAAAAATTGCTAAGTCAT 59.339 34.615 0.00 0.00 33.10 3.06
2569 7073 7.177392 AGACTGCCTAAAAATTGCTAAGTCATT 59.823 33.333 0.00 0.00 33.10 2.57
2570 7074 7.092716 ACTGCCTAAAAATTGCTAAGTCATTG 58.907 34.615 0.00 0.00 0.00 2.82
2571 7075 6.991938 TGCCTAAAAATTGCTAAGTCATTGT 58.008 32.000 0.00 0.00 0.00 2.71
2572 7076 6.867816 TGCCTAAAAATTGCTAAGTCATTGTG 59.132 34.615 0.00 0.00 0.00 3.33
2573 7077 6.183360 GCCTAAAAATTGCTAAGTCATTGTGC 60.183 38.462 0.00 0.00 0.00 4.57
2574 7078 6.867816 CCTAAAAATTGCTAAGTCATTGTGCA 59.132 34.615 0.00 0.00 0.00 4.57
2575 7079 6.774354 AAAAATTGCTAAGTCATTGTGCAG 57.226 33.333 0.00 0.00 33.13 4.41
2576 7080 5.710513 AAATTGCTAAGTCATTGTGCAGA 57.289 34.783 0.00 0.00 33.13 4.26
2577 7081 4.959596 ATTGCTAAGTCATTGTGCAGAG 57.040 40.909 0.00 0.00 33.13 3.35
2578 7082 2.079158 TGCTAAGTCATTGTGCAGAGC 58.921 47.619 0.00 0.00 0.00 4.09
2579 7083 1.399791 GCTAAGTCATTGTGCAGAGCC 59.600 52.381 0.00 0.00 0.00 4.70
2580 7084 2.938756 GCTAAGTCATTGTGCAGAGCCT 60.939 50.000 0.00 0.00 0.00 4.58
2581 7085 3.679917 GCTAAGTCATTGTGCAGAGCCTA 60.680 47.826 0.00 0.00 0.00 3.93
2582 7086 3.423539 AAGTCATTGTGCAGAGCCTAA 57.576 42.857 0.00 0.00 0.00 2.69
2583 7087 2.983229 AGTCATTGTGCAGAGCCTAAG 58.017 47.619 0.00 0.00 0.00 2.18
2584 7088 2.568956 AGTCATTGTGCAGAGCCTAAGA 59.431 45.455 0.00 0.00 0.00 2.10
2585 7089 2.935201 GTCATTGTGCAGAGCCTAAGAG 59.065 50.000 0.00 0.00 0.00 2.85
2586 7090 1.669779 CATTGTGCAGAGCCTAAGAGC 59.330 52.381 0.00 0.00 0.00 4.09
2588 7092 1.852633 TGTGCAGAGCCTAAGAGCTA 58.147 50.000 0.00 0.00 45.15 3.32
2589 7093 1.753649 TGTGCAGAGCCTAAGAGCTAG 59.246 52.381 0.00 0.00 45.15 3.42
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
80 81 7.690256 AGTACTAAGATTCCTTGTCCAATTGT 58.310 34.615 4.43 0.00 33.94 2.71
256 398 1.945394 GCTCGCATGATCTTCACCATT 59.055 47.619 0.00 0.00 0.00 3.16
356 500 8.069574 GCCTTTTAGTGAAAAACAATGGAAATG 58.930 33.333 0.00 0.00 34.16 2.32
399 543 3.547054 AAATTGTTATGCCATGCAGGG 57.453 42.857 14.45 14.45 43.65 4.45
582 727 8.997621 AATCTAACAATCTAAGTTACGCTGAA 57.002 30.769 0.00 0.00 0.00 3.02
672 817 4.668576 TTTCTCACTGAATGAACATCGC 57.331 40.909 0.00 0.00 36.69 4.58
717 862 6.298361 TGAGATTGATGAAGTCACCAGAAAA 58.702 36.000 0.00 0.00 36.32 2.29
721 1408 4.999311 TGTTGAGATTGATGAAGTCACCAG 59.001 41.667 0.00 0.00 36.32 4.00
761 1448 5.543507 AGTCCTATGAGCACCTCTAAATG 57.456 43.478 0.00 0.00 0.00 2.32
790 1478 1.521457 ACATACAGCCATCCACGCG 60.521 57.895 3.53 3.53 0.00 6.01
801 1489 2.355756 GCCCACATACAAGCACATACAG 59.644 50.000 0.00 0.00 0.00 2.74
811 1499 0.251634 TCGCAGATGCCCACATACAA 59.748 50.000 0.00 0.00 36.35 2.41
1011 2912 5.045359 TGGTACTACTACTCTGGTGCTTCTA 60.045 44.000 0.00 0.00 0.00 2.10
1178 3089 3.730761 GCAGTTGTGAGCCGCCTG 61.731 66.667 0.00 0.00 0.00 4.85
1413 3324 9.764363 CTTTGAACCAACATATATACTGCTAGA 57.236 33.333 0.00 0.00 0.00 2.43
1595 3508 5.128033 TGATAAATTCTGGCAATCCCTCA 57.872 39.130 0.00 0.00 0.00 3.86
1618 3531 2.028748 ACCTCAAAATGGAAGCACATGC 60.029 45.455 0.00 0.00 42.49 4.06
1638 3551 3.503748 CAGGAACATTCAAGGAGAACCAC 59.496 47.826 0.00 0.00 39.49 4.16
1719 3643 8.677148 AAAGTGCAGTGACTTAAGAAATAAGA 57.323 30.769 10.09 0.00 43.16 2.10
1842 3766 4.586306 ATTCGGGGTTTGGAGTTCTAAT 57.414 40.909 0.00 0.00 0.00 1.73
1859 3783 7.385778 TGGTAGTTTGGAGGATTAAAATTCG 57.614 36.000 0.00 0.00 0.00 3.34
1874 3798 5.047188 GGTGATGTGGTTTTTGGTAGTTTG 58.953 41.667 0.00 0.00 0.00 2.93
1875 3799 4.100344 GGGTGATGTGGTTTTTGGTAGTTT 59.900 41.667 0.00 0.00 0.00 2.66
1909 3833 7.928706 AGAAATCCTTTGACTATTCGATACCAG 59.071 37.037 0.00 0.00 0.00 4.00
1931 3855 5.131142 TCCAAGGTGGCCATTTAAAAAGAAA 59.869 36.000 9.72 0.00 37.47 2.52
1932 3856 4.656112 TCCAAGGTGGCCATTTAAAAAGAA 59.344 37.500 9.72 0.00 37.47 2.52
1933 3857 4.227197 TCCAAGGTGGCCATTTAAAAAGA 58.773 39.130 9.72 0.00 37.47 2.52
1934 3858 4.568956 CTCCAAGGTGGCCATTTAAAAAG 58.431 43.478 9.72 0.00 37.47 2.27
1935 3859 3.244387 GCTCCAAGGTGGCCATTTAAAAA 60.244 43.478 9.72 0.00 37.47 1.94
1936 3860 2.301583 GCTCCAAGGTGGCCATTTAAAA 59.698 45.455 9.72 0.00 37.47 1.52
1939 3867 0.704076 AGCTCCAAGGTGGCCATTTA 59.296 50.000 9.72 0.00 37.47 1.40
1963 3891 0.037790 GGAGAGAAGAGCTTGCGTGT 60.038 55.000 0.00 0.00 0.00 4.49
2043 4007 3.077556 AACGCAGCCGGAGAGGAT 61.078 61.111 5.05 0.00 45.00 3.24
2059 4023 2.183300 CGGCGGATCGGAAGTCAA 59.817 61.111 4.16 0.00 0.00 3.18
2071 4035 3.879682 CCACATGATGTGCGGCGG 61.880 66.667 19.69 2.18 46.51 6.13
2119 6604 1.352622 ATGGGGCCGCTATTCTTCCA 61.353 55.000 21.80 7.74 0.00 3.53
2160 6645 2.233566 TGGCCTCTCCAGCAACCAT 61.234 57.895 3.32 0.00 40.72 3.55
2161 6646 2.853542 TGGCCTCTCCAGCAACCA 60.854 61.111 3.32 0.00 40.72 3.67
2168 6653 2.964310 GCTGCTCTTGGCCTCTCCA 61.964 63.158 3.32 0.00 44.85 3.86
2188 6673 1.098712 GGACGTTCTGTTGTTGGGCA 61.099 55.000 0.00 0.00 0.00 5.36
2190 6675 1.064952 GTTGGACGTTCTGTTGTTGGG 59.935 52.381 0.00 0.00 0.00 4.12
2252 6754 9.378551 CTAGGTTGTATGATAGTTGTTGCTTTA 57.621 33.333 0.00 0.00 0.00 1.85
2260 6762 9.507329 AAATATGGCTAGGTTGTATGATAGTTG 57.493 33.333 0.00 0.00 0.00 3.16
2292 6794 3.970205 GGTCATTCCCCTTTTCGGA 57.030 52.632 0.00 0.00 33.16 4.55
2341 6844 6.960992 CGTGTGTAATGATGTGAGTTTTATGG 59.039 38.462 0.00 0.00 0.00 2.74
2346 6849 3.812609 TGCGTGTGTAATGATGTGAGTTT 59.187 39.130 0.00 0.00 0.00 2.66
2359 6863 1.160946 ATTTGCCGTGTGCGTGTGTA 61.161 50.000 0.00 0.00 45.60 2.90
2376 6880 6.048509 GTCCACAGGTCAAATTTGTCAAATT 58.951 36.000 16.26 16.26 42.62 1.82
2377 6881 5.600696 GTCCACAGGTCAAATTTGTCAAAT 58.399 37.500 17.47 4.91 0.00 2.32
2378 6882 4.439426 CGTCCACAGGTCAAATTTGTCAAA 60.439 41.667 17.47 0.00 0.00 2.69
2379 6883 3.066064 CGTCCACAGGTCAAATTTGTCAA 59.934 43.478 17.47 0.00 0.00 3.18
2380 6884 2.616376 CGTCCACAGGTCAAATTTGTCA 59.384 45.455 17.47 0.00 0.00 3.58
2381 6885 2.875933 TCGTCCACAGGTCAAATTTGTC 59.124 45.455 17.47 12.07 0.00 3.18
2382 6886 2.925724 TCGTCCACAGGTCAAATTTGT 58.074 42.857 17.47 0.00 0.00 2.83
2383 6887 3.980646 TTCGTCCACAGGTCAAATTTG 57.019 42.857 12.15 12.15 0.00 2.32
2384 6888 4.582656 TGATTTCGTCCACAGGTCAAATTT 59.417 37.500 0.00 0.00 0.00 1.82
2385 6889 4.141287 TGATTTCGTCCACAGGTCAAATT 58.859 39.130 0.00 0.00 0.00 1.82
2386 6890 3.750371 TGATTTCGTCCACAGGTCAAAT 58.250 40.909 0.00 0.00 0.00 2.32
2387 6891 3.201353 TGATTTCGTCCACAGGTCAAA 57.799 42.857 0.00 0.00 0.00 2.69
2388 6892 2.920724 TGATTTCGTCCACAGGTCAA 57.079 45.000 0.00 0.00 0.00 3.18
2389 6893 2.920724 TTGATTTCGTCCACAGGTCA 57.079 45.000 0.00 0.00 0.00 4.02
2390 6894 3.751175 TGATTTGATTTCGTCCACAGGTC 59.249 43.478 0.00 0.00 0.00 3.85
2391 6895 3.502211 GTGATTTGATTTCGTCCACAGGT 59.498 43.478 0.00 0.00 0.00 4.00
2392 6896 3.501828 TGTGATTTGATTTCGTCCACAGG 59.498 43.478 0.00 0.00 0.00 4.00
2393 6897 4.452114 TCTGTGATTTGATTTCGTCCACAG 59.548 41.667 0.00 0.00 46.55 3.66
2394 6898 4.384940 TCTGTGATTTGATTTCGTCCACA 58.615 39.130 0.00 0.00 0.00 4.17
2395 6899 5.356882 TTCTGTGATTTGATTTCGTCCAC 57.643 39.130 0.00 0.00 0.00 4.02
2396 6900 7.680442 TTATTCTGTGATTTGATTTCGTCCA 57.320 32.000 0.00 0.00 0.00 4.02
2397 6901 8.237267 AGTTTATTCTGTGATTTGATTTCGTCC 58.763 33.333 0.00 0.00 0.00 4.79
2398 6902 9.055248 CAGTTTATTCTGTGATTTGATTTCGTC 57.945 33.333 0.00 0.00 0.00 4.20
2399 6903 8.567948 ACAGTTTATTCTGTGATTTGATTTCGT 58.432 29.630 0.00 0.00 45.40 3.85
2400 6904 8.955061 ACAGTTTATTCTGTGATTTGATTTCG 57.045 30.769 0.00 0.00 45.40 3.46
2401 6905 9.346725 GGACAGTTTATTCTGTGATTTGATTTC 57.653 33.333 4.06 0.00 46.81 2.17
2402 6906 8.023128 CGGACAGTTTATTCTGTGATTTGATTT 58.977 33.333 4.06 0.00 46.81 2.17
2403 6907 7.174946 ACGGACAGTTTATTCTGTGATTTGATT 59.825 33.333 4.06 0.00 46.81 2.57
2404 6908 6.655003 ACGGACAGTTTATTCTGTGATTTGAT 59.345 34.615 4.06 0.00 46.81 2.57
2405 6909 5.995282 ACGGACAGTTTATTCTGTGATTTGA 59.005 36.000 4.06 0.00 46.81 2.69
2406 6910 6.241207 ACGGACAGTTTATTCTGTGATTTG 57.759 37.500 4.06 0.00 46.81 2.32
2411 6915 5.236478 AGTTTCACGGACAGTTTATTCTGTG 59.764 40.000 4.06 4.48 46.81 3.66
2413 6917 5.924475 AGTTTCACGGACAGTTTATTCTG 57.076 39.130 0.00 0.00 40.80 3.02
2414 6918 8.617290 AAATAGTTTCACGGACAGTTTATTCT 57.383 30.769 0.00 0.00 0.00 2.40
2415 6919 8.500773 TGAAATAGTTTCACGGACAGTTTATTC 58.499 33.333 1.24 0.00 44.21 1.75
2416 6920 8.385898 TGAAATAGTTTCACGGACAGTTTATT 57.614 30.769 1.24 0.00 44.21 1.40
2417 6921 7.972832 TGAAATAGTTTCACGGACAGTTTAT 57.027 32.000 1.24 0.00 44.21 1.40
2429 6933 1.463056 CAGCCGCGTGAAATAGTTTCA 59.537 47.619 4.92 1.24 46.68 2.69
2430 6934 1.730064 TCAGCCGCGTGAAATAGTTTC 59.270 47.619 4.92 0.00 40.08 2.78
2431 6935 1.463444 GTCAGCCGCGTGAAATAGTTT 59.537 47.619 4.92 0.00 0.00 2.66
2432 6936 1.076332 GTCAGCCGCGTGAAATAGTT 58.924 50.000 4.92 0.00 0.00 2.24
2433 6937 0.739813 GGTCAGCCGCGTGAAATAGT 60.740 55.000 4.92 0.00 0.00 2.12
2434 6938 0.460284 AGGTCAGCCGCGTGAAATAG 60.460 55.000 4.92 0.00 40.50 1.73
2435 6939 0.036765 AAGGTCAGCCGCGTGAAATA 60.037 50.000 4.92 0.00 40.50 1.40
2436 6940 0.889186 AAAGGTCAGCCGCGTGAAAT 60.889 50.000 4.92 0.00 40.50 2.17
2437 6941 1.098712 AAAAGGTCAGCCGCGTGAAA 61.099 50.000 4.92 0.00 40.50 2.69
2438 6942 1.098712 AAAAAGGTCAGCCGCGTGAA 61.099 50.000 4.92 0.00 40.50 3.18
2439 6943 0.249953 TAAAAAGGTCAGCCGCGTGA 60.250 50.000 4.92 0.00 40.50 4.35
2440 6944 0.802494 ATAAAAAGGTCAGCCGCGTG 59.198 50.000 4.92 0.00 40.50 5.34
2441 6945 0.802494 CATAAAAAGGTCAGCCGCGT 59.198 50.000 4.92 0.00 40.50 6.01
2442 6946 0.802494 ACATAAAAAGGTCAGCCGCG 59.198 50.000 0.00 0.00 40.50 6.46
2443 6947 1.810151 TCACATAAAAAGGTCAGCCGC 59.190 47.619 0.00 0.00 40.50 6.53
2444 6948 2.159707 CGTCACATAAAAAGGTCAGCCG 60.160 50.000 0.00 0.00 40.50 5.52
2445 6949 2.414161 GCGTCACATAAAAAGGTCAGCC 60.414 50.000 0.00 0.00 0.00 4.85
2446 6950 2.414161 GGCGTCACATAAAAAGGTCAGC 60.414 50.000 0.00 0.00 0.00 4.26
2447 6951 2.161609 GGGCGTCACATAAAAAGGTCAG 59.838 50.000 0.00 0.00 0.00 3.51
2448 6952 2.156098 GGGCGTCACATAAAAAGGTCA 58.844 47.619 0.00 0.00 0.00 4.02
2449 6953 1.129811 CGGGCGTCACATAAAAAGGTC 59.870 52.381 0.00 0.00 0.00 3.85
2450 6954 1.161843 CGGGCGTCACATAAAAAGGT 58.838 50.000 0.00 0.00 0.00 3.50
2451 6955 0.450184 CCGGGCGTCACATAAAAAGG 59.550 55.000 0.00 0.00 0.00 3.11
2452 6956 0.179174 GCCGGGCGTCACATAAAAAG 60.179 55.000 1.81 0.00 0.00 2.27
2453 6957 0.889638 TGCCGGGCGTCACATAAAAA 60.890 50.000 15.40 0.00 0.00 1.94
2454 6958 1.302591 TGCCGGGCGTCACATAAAA 60.303 52.632 15.40 0.00 0.00 1.52
2455 6959 2.036006 GTGCCGGGCGTCACATAAA 61.036 57.895 15.40 0.00 33.63 1.40
2456 6960 2.435234 GTGCCGGGCGTCACATAA 60.435 61.111 15.40 0.00 33.63 1.90
2457 6961 4.805231 CGTGCCGGGCGTCACATA 62.805 66.667 15.40 0.00 33.03 2.29
2466 6970 4.776322 TGATGCCTTCGTGCCGGG 62.776 66.667 2.18 0.00 0.00 5.73
2467 6971 3.499737 GTGATGCCTTCGTGCCGG 61.500 66.667 0.00 0.00 0.00 6.13
2468 6972 2.741985 TGTGATGCCTTCGTGCCG 60.742 61.111 0.00 0.00 0.00 5.69
2469 6973 0.391130 TAGTGTGATGCCTTCGTGCC 60.391 55.000 0.00 0.00 0.00 5.01
2470 6974 1.656652 ATAGTGTGATGCCTTCGTGC 58.343 50.000 0.00 0.00 0.00 5.34
2471 6975 3.123804 GGTATAGTGTGATGCCTTCGTG 58.876 50.000 0.00 0.00 0.00 4.35
2472 6976 2.223735 CGGTATAGTGTGATGCCTTCGT 60.224 50.000 0.00 0.00 29.86 3.85
2473 6977 2.223735 ACGGTATAGTGTGATGCCTTCG 60.224 50.000 0.00 0.00 29.86 3.79
2474 6978 3.123804 CACGGTATAGTGTGATGCCTTC 58.876 50.000 0.00 0.00 38.36 3.46
2475 6979 2.741878 GCACGGTATAGTGTGATGCCTT 60.742 50.000 8.16 0.00 43.61 4.35
2476 6980 1.202533 GCACGGTATAGTGTGATGCCT 60.203 52.381 8.16 0.00 43.61 4.75
2477 6981 1.217882 GCACGGTATAGTGTGATGCC 58.782 55.000 8.16 0.00 43.61 4.40
2478 6982 1.934589 TGCACGGTATAGTGTGATGC 58.065 50.000 8.16 0.00 43.61 3.91
2479 6983 2.281498 CGTTGCACGGTATAGTGTGATG 59.719 50.000 8.16 0.00 43.61 3.07
2480 6984 2.536365 CGTTGCACGGTATAGTGTGAT 58.464 47.619 8.16 0.00 43.61 3.06
2481 6985 1.985334 CGTTGCACGGTATAGTGTGA 58.015 50.000 8.16 0.00 43.61 3.58
2482 6986 0.368907 GCGTTGCACGGTATAGTGTG 59.631 55.000 10.02 0.85 42.82 3.82
2483 6987 0.738412 GGCGTTGCACGGTATAGTGT 60.738 55.000 10.02 0.00 42.82 3.55
2484 6988 0.459585 AGGCGTTGCACGGTATAGTG 60.460 55.000 10.02 0.00 42.82 2.74
2485 6989 0.179119 GAGGCGTTGCACGGTATAGT 60.179 55.000 10.02 0.00 42.82 2.12
2486 6990 0.179121 TGAGGCGTTGCACGGTATAG 60.179 55.000 10.02 0.00 42.82 1.31
2487 6991 0.458889 GTGAGGCGTTGCACGGTATA 60.459 55.000 10.02 0.00 42.82 1.47
2488 6992 1.740296 GTGAGGCGTTGCACGGTAT 60.740 57.895 10.02 0.00 42.82 2.73
2489 6993 2.356553 GTGAGGCGTTGCACGGTA 60.357 61.111 10.02 0.00 42.82 4.02
2490 6994 4.539083 TGTGAGGCGTTGCACGGT 62.539 61.111 10.02 0.00 42.82 4.83
2491 6995 3.716006 CTGTGAGGCGTTGCACGG 61.716 66.667 10.02 0.00 42.82 4.94
2492 6996 0.735978 TATCTGTGAGGCGTTGCACG 60.736 55.000 4.61 4.61 45.88 5.34
2493 6997 1.394917 CTTATCTGTGAGGCGTTGCAC 59.605 52.381 0.00 0.00 35.63 4.57
2494 6998 1.725641 CTTATCTGTGAGGCGTTGCA 58.274 50.000 0.00 0.00 0.00 4.08
2495 6999 0.375106 GCTTATCTGTGAGGCGTTGC 59.625 55.000 0.00 0.00 0.00 4.17
2496 7000 0.647410 CGCTTATCTGTGAGGCGTTG 59.353 55.000 0.00 0.00 40.78 4.10
2497 7001 1.084370 GCGCTTATCTGTGAGGCGTT 61.084 55.000 0.00 0.00 46.20 4.84
2498 7002 1.519455 GCGCTTATCTGTGAGGCGT 60.519 57.895 0.00 0.00 46.20 5.68
2500 7004 1.202417 TGTAGCGCTTATCTGTGAGGC 60.202 52.381 18.68 0.00 0.00 4.70
2501 7005 2.871182 TGTAGCGCTTATCTGTGAGG 57.129 50.000 18.68 0.00 0.00 3.86
2502 7006 2.474359 GCATGTAGCGCTTATCTGTGAG 59.526 50.000 18.68 0.00 0.00 3.51
2503 7007 2.473816 GCATGTAGCGCTTATCTGTGA 58.526 47.619 18.68 0.00 0.00 3.58
2504 7008 2.937994 GCATGTAGCGCTTATCTGTG 57.062 50.000 18.68 7.86 0.00 3.66
2533 7037 4.030452 GGCAGTCTGGCGTGCAAC 62.030 66.667 11.07 0.00 41.75 4.17
2540 7044 2.232208 AGCAATTTTTAGGCAGTCTGGC 59.768 45.455 18.40 18.40 44.10 4.85
2541 7045 5.183904 ACTTAGCAATTTTTAGGCAGTCTGG 59.816 40.000 1.14 0.00 0.00 3.86
2542 7046 6.072508 TGACTTAGCAATTTTTAGGCAGTCTG 60.073 38.462 0.00 0.00 33.92 3.51
2543 7047 6.003950 TGACTTAGCAATTTTTAGGCAGTCT 58.996 36.000 0.00 0.00 33.92 3.24
2544 7048 6.254281 TGACTTAGCAATTTTTAGGCAGTC 57.746 37.500 0.00 0.00 33.59 3.51
2545 7049 6.840780 ATGACTTAGCAATTTTTAGGCAGT 57.159 33.333 0.00 0.00 0.00 4.40
2546 7050 7.062605 CACAATGACTTAGCAATTTTTAGGCAG 59.937 37.037 0.00 0.00 0.00 4.85
2547 7051 6.867816 CACAATGACTTAGCAATTTTTAGGCA 59.132 34.615 0.00 0.00 0.00 4.75
2548 7052 6.183360 GCACAATGACTTAGCAATTTTTAGGC 60.183 38.462 0.00 0.00 0.00 3.93
2549 7053 6.867816 TGCACAATGACTTAGCAATTTTTAGG 59.132 34.615 0.00 0.00 31.42 2.69
2550 7054 7.809331 TCTGCACAATGACTTAGCAATTTTTAG 59.191 33.333 0.00 0.00 34.45 1.85
2551 7055 7.656412 TCTGCACAATGACTTAGCAATTTTTA 58.344 30.769 0.00 0.00 34.45 1.52
2552 7056 6.514947 TCTGCACAATGACTTAGCAATTTTT 58.485 32.000 0.00 0.00 34.45 1.94
2553 7057 6.088016 TCTGCACAATGACTTAGCAATTTT 57.912 33.333 0.00 0.00 34.45 1.82
2554 7058 5.706916 CTCTGCACAATGACTTAGCAATTT 58.293 37.500 0.00 0.00 34.45 1.82
2555 7059 4.380233 GCTCTGCACAATGACTTAGCAATT 60.380 41.667 0.00 0.00 34.45 2.32
2556 7060 3.128242 GCTCTGCACAATGACTTAGCAAT 59.872 43.478 0.00 0.00 34.45 3.56
2557 7061 2.485426 GCTCTGCACAATGACTTAGCAA 59.515 45.455 0.00 0.00 34.45 3.91
2558 7062 2.079158 GCTCTGCACAATGACTTAGCA 58.921 47.619 0.00 0.00 0.00 3.49
2559 7063 1.399791 GGCTCTGCACAATGACTTAGC 59.600 52.381 0.00 0.00 0.00 3.09
2560 7064 2.983229 AGGCTCTGCACAATGACTTAG 58.017 47.619 0.00 0.00 0.00 2.18
2561 7065 4.222810 TCTTAGGCTCTGCACAATGACTTA 59.777 41.667 0.00 0.00 0.00 2.24
2562 7066 3.008375 TCTTAGGCTCTGCACAATGACTT 59.992 43.478 0.00 0.00 0.00 3.01
2563 7067 2.568956 TCTTAGGCTCTGCACAATGACT 59.431 45.455 0.00 0.00 0.00 3.41
2564 7068 2.935201 CTCTTAGGCTCTGCACAATGAC 59.065 50.000 0.00 0.00 0.00 3.06
2565 7069 2.679059 GCTCTTAGGCTCTGCACAATGA 60.679 50.000 0.00 0.00 0.00 2.57
2566 7070 1.669779 GCTCTTAGGCTCTGCACAATG 59.330 52.381 0.00 0.00 0.00 2.82
2567 7071 1.558756 AGCTCTTAGGCTCTGCACAAT 59.441 47.619 0.00 0.00 38.24 2.71
2568 7072 0.979665 AGCTCTTAGGCTCTGCACAA 59.020 50.000 0.00 0.00 38.24 3.33
2569 7073 1.753649 CTAGCTCTTAGGCTCTGCACA 59.246 52.381 0.00 0.00 42.97 4.57
2570 7074 1.068434 CCTAGCTCTTAGGCTCTGCAC 59.932 57.143 0.00 0.00 42.50 4.57
2571 7075 1.407936 CCTAGCTCTTAGGCTCTGCA 58.592 55.000 0.00 0.00 42.50 4.41


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

AutoCloner maintained by Alex Coulton.