Multiple sequence alignment - TraesCS1D01G223400

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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 TraesCS1D01G223400 chr1D 100.000 3138 0 0 1 3138 311256152 311259289 0.000000e+00 5795.0
1 TraesCS1D01G223400 chr1D 98.148 54 1 0 3014 3067 311341890 311341837 9.270000e-16 95.3
2 TraesCS1D01G223400 chr1B 88.830 3017 132 70 108 2999 420993315 420996251 0.000000e+00 3515.0
3 TraesCS1D01G223400 chr1B 92.742 124 9 0 3015 3138 216503694 216503571 2.490000e-41 180.0
4 TraesCS1D01G223400 chr1B 94.545 110 6 0 3029 3138 299647688 299647797 1.500000e-38 171.0
5 TraesCS1D01G223400 chr1A 87.684 1900 86 51 597 2427 391235215 391237035 0.000000e+00 2076.0
6 TraesCS1D01G223400 chr1A 90.392 510 22 14 1 485 391234715 391235222 0.000000e+00 645.0
7 TraesCS1D01G223400 chr1A 85.941 441 30 11 2584 2999 391239669 391240102 2.870000e-120 442.0
8 TraesCS1D01G223400 chr2A 91.700 253 20 1 1023 1275 104770702 104770451 1.790000e-92 350.0
9 TraesCS1D01G223400 chr4D 82.500 280 40 8 1063 1339 497915949 497915676 1.450000e-58 237.0
10 TraesCS1D01G223400 chr6A 95.868 121 5 0 1085 1205 20336243 20336123 2.470000e-46 196.0
11 TraesCS1D01G223400 chr3A 94.215 121 7 0 1085 1205 101958811 101958691 5.340000e-43 185.0
12 TraesCS1D01G223400 chr4A 94.286 105 6 0 1449 1553 36622875 36622771 9.010000e-36 161.0
13 TraesCS1D01G223400 chr4A 92.079 101 4 2 1083 1182 36623006 36622909 4.220000e-29 139.0
14 TraesCS1D01G223400 chr4A 79.141 163 21 7 2266 2427 145036289 145036139 1.990000e-17 100.0
15 TraesCS1D01G223400 chr6B 93.333 105 2 3 1079 1182 25967268 25967168 1.950000e-32 150.0
16 TraesCS1D01G223400 chr5A 93.590 78 4 1 1079 1156 64659020 64658944 7.110000e-22 115.0


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 TraesCS1D01G223400 chr1D 311256152 311259289 3137 False 5795.000000 5795 100.000000 1 3138 1 chr1D.!!$F1 3137
1 TraesCS1D01G223400 chr1B 420993315 420996251 2936 False 3515.000000 3515 88.830000 108 2999 1 chr1B.!!$F2 2891
2 TraesCS1D01G223400 chr1A 391234715 391240102 5387 False 1054.333333 2076 88.005667 1 2999 3 chr1A.!!$F1 2998

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
495 530 0.685097 ACACAATGCTGTCTACCCGT 59.315 50.000 0.00 0.0 31.64 5.28 F
1386 1478 1.067846 GCATTGGAACTTCGGTTTCCC 60.068 52.381 7.79 0.0 38.41 3.97 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1881 1994 0.114560 TGGTTCCTCGACCCTCTCTT 59.885 55.0 0.0 0.0 39.01 2.85 R
3065 5818 0.170561 CTACGTGTTCCTCACCCTCG 59.829 60.0 0.0 0.0 43.51 4.63 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
56 57 1.664151 GCCGGATTAAGAAACCTCACG 59.336 52.381 5.05 0.00 0.00 4.35
102 103 1.878088 GATACGACAGATACCGGCAGA 59.122 52.381 0.00 0.00 0.00 4.26
309 316 2.430582 GGTGCCGCACGTAACGTA 60.431 61.111 17.13 0.00 38.32 3.57
368 375 1.133025 CCGGCCTGCTTTAATCACTTG 59.867 52.381 0.00 0.00 0.00 3.16
379 386 6.424509 TGCTTTAATCACTTGGCAATTCTTTG 59.575 34.615 0.00 0.00 35.85 2.77
381 388 7.598493 GCTTTAATCACTTGGCAATTCTTTGTA 59.402 33.333 0.00 0.00 35.17 2.41
382 389 9.474920 CTTTAATCACTTGGCAATTCTTTGTAA 57.525 29.630 0.00 0.00 35.17 2.41
403 413 8.918202 TGTAAAATATAATGCCCGAAGAAGAT 57.082 30.769 0.00 0.00 0.00 2.40
420 431 6.780706 AGAAGATAAAAACTGTACACGTGG 57.219 37.500 21.57 4.06 0.00 4.94
421 432 5.699458 AGAAGATAAAAACTGTACACGTGGG 59.301 40.000 21.57 9.31 0.00 4.61
426 437 0.831966 AACTGTACACGTGGGTTCCA 59.168 50.000 21.57 7.52 0.00 3.53
428 439 1.209990 ACTGTACACGTGGGTTCCAAA 59.790 47.619 21.57 0.00 34.18 3.28
429 440 2.158726 ACTGTACACGTGGGTTCCAAAT 60.159 45.455 21.57 0.00 34.18 2.32
431 442 2.619177 TGTACACGTGGGTTCCAAATTG 59.381 45.455 21.57 0.00 34.18 2.32
432 443 2.060050 ACACGTGGGTTCCAAATTGA 57.940 45.000 21.57 0.00 34.18 2.57
433 444 1.953686 ACACGTGGGTTCCAAATTGAG 59.046 47.619 21.57 0.00 34.18 3.02
435 446 2.031157 CACGTGGGTTCCAAATTGAGAC 60.031 50.000 7.95 0.00 34.18 3.36
436 447 2.226330 CGTGGGTTCCAAATTGAGACA 58.774 47.619 0.00 0.00 34.18 3.41
463 498 4.869451 AGAAAGGGTCGTAGAGATACCTT 58.131 43.478 0.00 0.00 45.14 3.50
464 499 4.645588 AGAAAGGGTCGTAGAGATACCTTG 59.354 45.833 0.00 0.00 43.61 3.61
480 515 1.697432 CCTTGGGTCTTCACCTACACA 59.303 52.381 0.00 0.00 43.22 3.72
487 522 3.403038 GTCTTCACCTACACAATGCTGT 58.597 45.455 0.00 0.00 35.63 4.40
488 523 3.433615 GTCTTCACCTACACAATGCTGTC 59.566 47.826 0.00 0.00 31.64 3.51
489 524 3.324846 TCTTCACCTACACAATGCTGTCT 59.675 43.478 0.00 0.00 31.64 3.41
491 526 4.188247 TCACCTACACAATGCTGTCTAC 57.812 45.455 0.00 0.00 31.64 2.59
492 527 3.056107 TCACCTACACAATGCTGTCTACC 60.056 47.826 0.00 0.00 31.64 3.18
495 530 0.685097 ACACAATGCTGTCTACCCGT 59.315 50.000 0.00 0.00 31.64 5.28
523 579 2.232208 GGGGCAGAACATTTTTCCTCAG 59.768 50.000 0.00 0.00 0.00 3.35
525 581 2.560105 GGCAGAACATTTTTCCTCAGCT 59.440 45.455 0.00 0.00 0.00 4.24
558 614 2.386064 TTTCCCAAGACCCACGACCG 62.386 60.000 0.00 0.00 0.00 4.79
713 784 2.920912 TCCGTCAGGGTGGGTCAC 60.921 66.667 0.00 0.00 38.33 3.67
912 994 2.592864 GACCACCACCACACCACA 59.407 61.111 0.00 0.00 0.00 4.17
913 995 1.822186 GACCACCACCACACCACAC 60.822 63.158 0.00 0.00 0.00 3.82
914 996 2.518349 CCACCACCACACCACACC 60.518 66.667 0.00 0.00 0.00 4.16
915 997 2.899838 CACCACCACACCACACCG 60.900 66.667 0.00 0.00 0.00 4.94
963 1045 3.991051 CCCACGACGGACTGCTGT 61.991 66.667 0.00 0.00 36.56 4.40
964 1046 2.430921 CCACGACGGACTGCTGTC 60.431 66.667 14.87 14.87 45.13 3.51
965 1047 2.645567 CACGACGGACTGCTGTCT 59.354 61.111 21.27 4.54 46.16 3.41
1372 1464 3.731652 TTGTGTTCTTCTTGGCATTGG 57.268 42.857 0.00 0.00 0.00 3.16
1376 1468 3.319122 GTGTTCTTCTTGGCATTGGAACT 59.681 43.478 17.30 0.00 35.52 3.01
1386 1478 1.067846 GCATTGGAACTTCGGTTTCCC 60.068 52.381 7.79 0.00 38.41 3.97
1427 1523 5.309323 TGACCAGTTGAGTTTTTCTTGTG 57.691 39.130 0.00 0.00 0.00 3.33
1428 1524 5.007034 TGACCAGTTGAGTTTTTCTTGTGA 58.993 37.500 0.00 0.00 0.00 3.58
1434 1531 1.595794 GAGTTTTTCTTGTGACGGCGA 59.404 47.619 16.62 0.00 0.00 5.54
1749 1854 1.810151 TGCTTCTCCGTAAATTGCACC 59.190 47.619 0.00 0.00 0.00 5.01
1751 1856 2.073816 CTTCTCCGTAAATTGCACCGT 58.926 47.619 0.00 0.00 0.00 4.83
1759 1864 3.181501 CGTAAATTGCACCGTCATCCATT 60.182 43.478 0.00 0.00 0.00 3.16
1798 1904 5.696260 TTGCGTGACGAAAGATAATACTG 57.304 39.130 10.10 0.00 0.00 2.74
1799 1905 3.550275 TGCGTGACGAAAGATAATACTGC 59.450 43.478 10.10 0.00 0.00 4.40
1800 1906 3.797256 GCGTGACGAAAGATAATACTGCT 59.203 43.478 10.10 0.00 0.00 4.24
1801 1907 4.317418 GCGTGACGAAAGATAATACTGCTG 60.317 45.833 10.10 0.00 0.00 4.41
1803 1909 5.052304 CGTGACGAAAGATAATACTGCTGTC 60.052 44.000 0.00 0.00 0.00 3.51
1848 1959 3.881688 CCTGAGAACAATCCAGGCATTAG 59.118 47.826 0.00 0.00 37.27 1.73
1849 1960 3.881688 CTGAGAACAATCCAGGCATTAGG 59.118 47.826 0.00 0.00 0.00 2.69
1850 1961 3.217626 GAGAACAATCCAGGCATTAGGG 58.782 50.000 0.00 0.00 0.00 3.53
1851 1962 2.582636 AGAACAATCCAGGCATTAGGGT 59.417 45.455 0.00 0.00 0.00 4.34
1857 1970 1.227383 CAGGCATTAGGGTGGGGTC 59.773 63.158 0.00 0.00 0.00 4.46
1881 1994 2.210116 GTCTGTGCTTTCGGTGAGAAA 58.790 47.619 0.00 0.00 45.76 2.52
1882 1995 2.612212 GTCTGTGCTTTCGGTGAGAAAA 59.388 45.455 0.00 0.00 46.98 2.29
1883 1996 2.872245 TCTGTGCTTTCGGTGAGAAAAG 59.128 45.455 0.00 0.00 46.98 2.27
1953 2067 0.875059 GCTGCCGATATGTTTAGCCC 59.125 55.000 0.00 0.00 0.00 5.19
1966 2080 4.648651 TGTTTAGCCCAAAGGAGTACTTC 58.351 43.478 0.00 0.00 38.85 3.01
1968 2082 5.544948 TGTTTAGCCCAAAGGAGTACTTCTA 59.455 40.000 3.45 0.00 38.85 2.10
1973 2087 6.203072 AGCCCAAAGGAGTACTTCTATTCTA 58.797 40.000 3.45 0.00 38.85 2.10
2053 2205 5.809001 TCTTACTGAACCAGCATCTGAAAT 58.191 37.500 0.00 0.00 34.37 2.17
2059 2211 5.188434 TGAACCAGCATCTGAAATAAGAGG 58.812 41.667 0.00 0.00 32.44 3.69
2104 2256 2.525592 CTGAAAGGGGGCCACCAA 59.474 61.111 30.24 7.79 42.91 3.67
2128 2280 1.228367 CAAGGGGCTGAAGCAGTGT 60.228 57.895 4.43 0.00 44.36 3.55
2260 2422 1.611519 GTCCATTTTGGGAACGGTGA 58.388 50.000 0.00 0.00 39.05 4.02
2292 2457 9.209048 TGTAAGTGGAGATACTGTAAATATGGT 57.791 33.333 0.00 0.00 0.00 3.55
2296 2461 8.816894 AGTGGAGATACTGTAAATATGGTATGG 58.183 37.037 0.00 0.00 0.00 2.74
2402 2568 1.456296 TGTGTGCTCATTCTCATGCC 58.544 50.000 0.00 0.00 0.00 4.40
2492 5212 4.436998 GTCACACGCGGAGGAGGG 62.437 72.222 12.47 0.00 0.00 4.30
2506 5226 3.054065 GGAGGAGGGAAATTCAGTGATGT 60.054 47.826 0.00 0.00 0.00 3.06
2513 5233 7.016268 GGAGGGAAATTCAGTGATGTACCTATA 59.984 40.741 0.00 0.00 0.00 1.31
2558 5278 4.127171 TCACTGGAGAAGTTTTCGGAAAG 58.873 43.478 3.09 0.00 36.83 2.62
2559 5279 4.127171 CACTGGAGAAGTTTTCGGAAAGA 58.873 43.478 3.09 0.00 36.83 2.52
2620 5341 1.654105 CGACGACGAAAATTGGAGGAG 59.346 52.381 0.00 0.00 42.66 3.69
2632 5353 1.194781 TGGAGGAGACAGGCCTGTTC 61.195 60.000 37.98 31.26 45.05 3.18
2640 5361 2.759795 AGGCCTGTTCCTGAAGCC 59.240 61.111 3.11 0.00 44.20 4.35
2661 5384 0.782384 GGAACACGTCGCTGTTACAG 59.218 55.000 8.18 8.18 35.34 2.74
2693 5416 0.721718 GATCTGTTCTCCGGTTTGCG 59.278 55.000 0.00 0.00 0.00 4.85
2707 5430 0.382515 TTTGCGGTTTGTGGCTGTAC 59.617 50.000 0.00 0.00 0.00 2.90
2708 5431 1.777030 TTGCGGTTTGTGGCTGTACG 61.777 55.000 0.00 0.00 0.00 3.67
2715 5438 0.753867 TTGTGGCTGTACGGTTCAGA 59.246 50.000 17.55 0.00 35.20 3.27
2716 5439 0.753867 TGTGGCTGTACGGTTCAGAA 59.246 50.000 17.55 3.21 35.20 3.02
2717 5440 1.139256 TGTGGCTGTACGGTTCAGAAA 59.861 47.619 17.55 2.88 35.20 2.52
2718 5441 1.529865 GTGGCTGTACGGTTCAGAAAC 59.470 52.381 17.55 10.63 35.20 2.78
2742 5465 1.065401 CGAGCCAGTGTTTTCAAAGCA 59.935 47.619 0.00 0.00 0.00 3.91
2838 5570 3.869272 CATGACGCTCGGCCAAGC 61.869 66.667 5.29 5.29 38.97 4.01
2896 5636 2.875317 GACCTACGTACCTAGTAGTGCC 59.125 54.545 0.00 0.00 39.78 5.01
2947 5699 1.503542 GTTTGCCAGGCACGATCTG 59.496 57.895 15.89 0.00 38.71 2.90
2970 5723 1.226746 ACCACTTGCACGCTTTCTAC 58.773 50.000 0.00 0.00 0.00 2.59
2984 5737 4.212150 GCTTTCTACAAGAAAACTCGCAC 58.788 43.478 3.88 0.00 42.95 5.34
2990 5743 4.410492 ACAAGAAAACTCGCACATCATC 57.590 40.909 0.00 0.00 0.00 2.92
2992 5745 5.237815 ACAAGAAAACTCGCACATCATCTA 58.762 37.500 0.00 0.00 0.00 1.98
2993 5746 5.120830 ACAAGAAAACTCGCACATCATCTAC 59.879 40.000 0.00 0.00 0.00 2.59
2994 5747 4.184629 AGAAAACTCGCACATCATCTACC 58.815 43.478 0.00 0.00 0.00 3.18
2995 5748 3.895232 AAACTCGCACATCATCTACCT 57.105 42.857 0.00 0.00 0.00 3.08
2998 5751 3.027412 ACTCGCACATCATCTACCTCTT 58.973 45.455 0.00 0.00 0.00 2.85
3000 5753 3.785486 TCGCACATCATCTACCTCTTTG 58.215 45.455 0.00 0.00 0.00 2.77
3001 5754 3.195610 TCGCACATCATCTACCTCTTTGT 59.804 43.478 0.00 0.00 0.00 2.83
3002 5755 3.935203 CGCACATCATCTACCTCTTTGTT 59.065 43.478 0.00 0.00 0.00 2.83
3003 5756 4.393062 CGCACATCATCTACCTCTTTGTTT 59.607 41.667 0.00 0.00 0.00 2.83
3004 5757 5.106555 CGCACATCATCTACCTCTTTGTTTT 60.107 40.000 0.00 0.00 0.00 2.43
3005 5758 6.092122 CGCACATCATCTACCTCTTTGTTTTA 59.908 38.462 0.00 0.00 0.00 1.52
3006 5759 7.244192 GCACATCATCTACCTCTTTGTTTTAC 58.756 38.462 0.00 0.00 0.00 2.01
3007 5760 7.094805 GCACATCATCTACCTCTTTGTTTTACA 60.095 37.037 0.00 0.00 0.00 2.41
3008 5761 8.950210 CACATCATCTACCTCTTTGTTTTACAT 58.050 33.333 0.00 0.00 0.00 2.29
3009 5762 9.520515 ACATCATCTACCTCTTTGTTTTACATT 57.479 29.630 0.00 0.00 0.00 2.71
3010 5763 9.994432 CATCATCTACCTCTTTGTTTTACATTC 57.006 33.333 0.00 0.00 0.00 2.67
3011 5764 8.561738 TCATCTACCTCTTTGTTTTACATTCC 57.438 34.615 0.00 0.00 0.00 3.01
3012 5765 7.610305 TCATCTACCTCTTTGTTTTACATTCCC 59.390 37.037 0.00 0.00 0.00 3.97
3013 5766 6.843752 TCTACCTCTTTGTTTTACATTCCCA 58.156 36.000 0.00 0.00 0.00 4.37
3014 5767 7.466804 TCTACCTCTTTGTTTTACATTCCCAT 58.533 34.615 0.00 0.00 0.00 4.00
3015 5768 6.994421 ACCTCTTTGTTTTACATTCCCATT 57.006 33.333 0.00 0.00 0.00 3.16
3016 5769 6.993079 ACCTCTTTGTTTTACATTCCCATTC 58.007 36.000 0.00 0.00 0.00 2.67
3017 5770 6.092748 CCTCTTTGTTTTACATTCCCATTCG 58.907 40.000 0.00 0.00 0.00 3.34
3018 5771 5.465935 TCTTTGTTTTACATTCCCATTCGC 58.534 37.500 0.00 0.00 0.00 4.70
3019 5772 3.859411 TGTTTTACATTCCCATTCGCC 57.141 42.857 0.00 0.00 0.00 5.54
3020 5773 2.162608 TGTTTTACATTCCCATTCGCCG 59.837 45.455 0.00 0.00 0.00 6.46
3021 5774 2.116827 TTTACATTCCCATTCGCCGT 57.883 45.000 0.00 0.00 0.00 5.68
3022 5775 1.374560 TTACATTCCCATTCGCCGTG 58.625 50.000 0.00 0.00 0.00 4.94
3023 5776 0.537653 TACATTCCCATTCGCCGTGA 59.462 50.000 0.00 0.00 0.00 4.35
3024 5777 0.744414 ACATTCCCATTCGCCGTGAG 60.744 55.000 0.00 0.00 0.00 3.51
3025 5778 0.461870 CATTCCCATTCGCCGTGAGA 60.462 55.000 0.00 0.00 0.00 3.27
3026 5779 0.469917 ATTCCCATTCGCCGTGAGAT 59.530 50.000 0.00 0.00 0.00 2.75
3027 5780 1.116308 TTCCCATTCGCCGTGAGATA 58.884 50.000 0.00 0.00 0.00 1.98
3028 5781 1.338107 TCCCATTCGCCGTGAGATAT 58.662 50.000 0.00 0.00 0.00 1.63
3029 5782 1.000843 TCCCATTCGCCGTGAGATATG 59.999 52.381 0.00 0.00 0.00 1.78
3030 5783 1.270305 CCCATTCGCCGTGAGATATGT 60.270 52.381 0.00 0.00 0.00 2.29
3031 5784 2.483876 CCATTCGCCGTGAGATATGTT 58.516 47.619 0.00 0.00 0.00 2.71
3032 5785 2.221749 CCATTCGCCGTGAGATATGTTG 59.778 50.000 0.00 0.00 0.00 3.33
3033 5786 2.665649 TTCGCCGTGAGATATGTTGT 57.334 45.000 0.00 0.00 0.00 3.32
3034 5787 1.921243 TCGCCGTGAGATATGTTGTG 58.079 50.000 0.00 0.00 0.00 3.33
3035 5788 0.301687 CGCCGTGAGATATGTTGTGC 59.698 55.000 0.00 0.00 0.00 4.57
3036 5789 0.657840 GCCGTGAGATATGTTGTGCC 59.342 55.000 0.00 0.00 0.00 5.01
3037 5790 0.930310 CCGTGAGATATGTTGTGCCG 59.070 55.000 0.00 0.00 0.00 5.69
3038 5791 1.470805 CCGTGAGATATGTTGTGCCGA 60.471 52.381 0.00 0.00 0.00 5.54
3039 5792 1.854743 CGTGAGATATGTTGTGCCGAG 59.145 52.381 0.00 0.00 0.00 4.63
3040 5793 2.205074 GTGAGATATGTTGTGCCGAGG 58.795 52.381 0.00 0.00 0.00 4.63
3041 5794 1.831106 TGAGATATGTTGTGCCGAGGT 59.169 47.619 0.00 0.00 0.00 3.85
3042 5795 2.236146 TGAGATATGTTGTGCCGAGGTT 59.764 45.455 0.00 0.00 0.00 3.50
3043 5796 2.609459 GAGATATGTTGTGCCGAGGTTG 59.391 50.000 0.00 0.00 0.00 3.77
3044 5797 2.027192 AGATATGTTGTGCCGAGGTTGT 60.027 45.455 0.00 0.00 0.00 3.32
3045 5798 1.803334 TATGTTGTGCCGAGGTTGTC 58.197 50.000 0.00 0.00 0.00 3.18
3046 5799 0.179032 ATGTTGTGCCGAGGTTGTCA 60.179 50.000 0.00 0.00 0.00 3.58
3047 5800 1.092921 TGTTGTGCCGAGGTTGTCAC 61.093 55.000 0.00 0.00 0.00 3.67
3048 5801 1.092921 GTTGTGCCGAGGTTGTCACA 61.093 55.000 0.00 0.00 37.63 3.58
3049 5802 1.092921 TTGTGCCGAGGTTGTCACAC 61.093 55.000 0.82 0.00 38.92 3.82
3050 5803 2.110213 TGCCGAGGTTGTCACACC 59.890 61.111 0.00 0.00 37.04 4.16
3051 5804 2.110213 GCCGAGGTTGTCACACCA 59.890 61.111 6.87 0.00 39.62 4.17
3052 5805 2.251642 GCCGAGGTTGTCACACCAC 61.252 63.158 6.87 1.15 39.62 4.16
3053 5806 1.145156 CCGAGGTTGTCACACCACA 59.855 57.895 6.87 0.00 39.62 4.17
3054 5807 0.462937 CCGAGGTTGTCACACCACAA 60.463 55.000 6.87 0.00 39.62 3.33
3055 5808 0.937304 CGAGGTTGTCACACCACAAG 59.063 55.000 6.87 0.00 39.62 3.16
3056 5809 1.472552 CGAGGTTGTCACACCACAAGA 60.473 52.381 6.87 0.00 39.62 3.02
3057 5810 1.940613 GAGGTTGTCACACCACAAGAC 59.059 52.381 6.87 0.00 39.62 3.01
3058 5811 1.280710 AGGTTGTCACACCACAAGACA 59.719 47.619 0.00 0.00 39.62 3.41
3059 5812 1.670811 GGTTGTCACACCACAAGACAG 59.329 52.381 0.00 0.00 42.54 3.51
3060 5813 1.670811 GTTGTCACACCACAAGACAGG 59.329 52.381 0.00 0.00 42.54 4.00
3061 5814 0.463654 TGTCACACCACAAGACAGGC 60.464 55.000 0.00 0.00 37.36 4.85
3062 5815 1.227527 TCACACCACAAGACAGGCG 60.228 57.895 0.00 0.00 0.00 5.52
3063 5816 2.591715 ACACCACAAGACAGGCGC 60.592 61.111 0.00 0.00 0.00 6.53
3064 5817 2.591429 CACCACAAGACAGGCGCA 60.591 61.111 10.83 0.00 0.00 6.09
3065 5818 2.591715 ACCACAAGACAGGCGCAC 60.592 61.111 10.83 0.00 0.00 5.34
3066 5819 3.716006 CCACAAGACAGGCGCACG 61.716 66.667 10.83 0.63 0.00 5.34
3067 5820 2.661537 CACAAGACAGGCGCACGA 60.662 61.111 10.83 0.00 0.00 4.35
3068 5821 2.356313 ACAAGACAGGCGCACGAG 60.356 61.111 10.83 0.00 0.00 4.18
3069 5822 3.114616 CAAGACAGGCGCACGAGG 61.115 66.667 10.83 0.00 0.00 4.63
3070 5823 4.379243 AAGACAGGCGCACGAGGG 62.379 66.667 10.83 0.00 0.00 4.30
3098 5851 5.607119 AACACGTAGTTCCTTTAGCAATG 57.393 39.130 0.00 0.00 41.61 2.82
3099 5852 4.890088 ACACGTAGTTCCTTTAGCAATGA 58.110 39.130 0.00 0.00 41.61 2.57
3100 5853 4.689345 ACACGTAGTTCCTTTAGCAATGAC 59.311 41.667 0.00 0.00 41.61 3.06
3101 5854 4.929808 CACGTAGTTCCTTTAGCAATGACT 59.070 41.667 0.00 0.00 41.61 3.41
3102 5855 4.929808 ACGTAGTTCCTTTAGCAATGACTG 59.070 41.667 0.00 0.00 37.78 3.51
3103 5856 4.929808 CGTAGTTCCTTTAGCAATGACTGT 59.070 41.667 0.00 0.00 0.00 3.55
3104 5857 6.097356 CGTAGTTCCTTTAGCAATGACTGTA 58.903 40.000 0.00 0.00 0.00 2.74
3105 5858 6.757010 CGTAGTTCCTTTAGCAATGACTGTAT 59.243 38.462 0.00 0.00 0.00 2.29
3106 5859 7.043325 CGTAGTTCCTTTAGCAATGACTGTATC 60.043 40.741 0.00 0.00 0.00 2.24
3107 5860 6.116126 AGTTCCTTTAGCAATGACTGTATCC 58.884 40.000 0.00 0.00 0.00 2.59
3108 5861 5.692115 TCCTTTAGCAATGACTGTATCCA 57.308 39.130 0.00 0.00 0.00 3.41
3109 5862 6.061022 TCCTTTAGCAATGACTGTATCCAA 57.939 37.500 0.00 0.00 0.00 3.53
3110 5863 6.115446 TCCTTTAGCAATGACTGTATCCAAG 58.885 40.000 0.00 0.00 0.00 3.61
3111 5864 5.882557 CCTTTAGCAATGACTGTATCCAAGT 59.117 40.000 0.00 0.00 0.00 3.16
3112 5865 6.375455 CCTTTAGCAATGACTGTATCCAAGTT 59.625 38.462 0.00 0.00 0.00 2.66
3113 5866 6.741992 TTAGCAATGACTGTATCCAAGTTG 57.258 37.500 0.00 0.00 0.00 3.16
3114 5867 3.441572 AGCAATGACTGTATCCAAGTTGC 59.558 43.478 0.00 0.00 40.55 4.17
3115 5868 3.441572 GCAATGACTGTATCCAAGTTGCT 59.558 43.478 0.00 0.00 38.08 3.91
3116 5869 4.082571 GCAATGACTGTATCCAAGTTGCTT 60.083 41.667 0.00 0.00 38.08 3.91
3117 5870 5.634896 CAATGACTGTATCCAAGTTGCTTC 58.365 41.667 0.00 0.00 0.00 3.86
3118 5871 3.325870 TGACTGTATCCAAGTTGCTTCG 58.674 45.455 0.00 0.00 0.00 3.79
3119 5872 2.673368 GACTGTATCCAAGTTGCTTCGG 59.327 50.000 0.00 0.00 0.00 4.30
3120 5873 1.398390 CTGTATCCAAGTTGCTTCGGC 59.602 52.381 0.00 0.00 42.19 5.54
3121 5874 0.733150 GTATCCAAGTTGCTTCGGCC 59.267 55.000 0.00 0.00 40.91 6.13
3122 5875 0.742990 TATCCAAGTTGCTTCGGCCG 60.743 55.000 22.12 22.12 40.91 6.13
3123 5876 2.748058 ATCCAAGTTGCTTCGGCCGT 62.748 55.000 27.15 0.00 40.91 5.68
3124 5877 1.669760 CCAAGTTGCTTCGGCCGTA 60.670 57.895 27.15 15.91 40.91 4.02
3125 5878 1.495951 CAAGTTGCTTCGGCCGTAC 59.504 57.895 27.15 16.11 40.91 3.67
3126 5879 1.670083 AAGTTGCTTCGGCCGTACC 60.670 57.895 27.15 14.48 40.91 3.34
3127 5880 2.357760 GTTGCTTCGGCCGTACCA 60.358 61.111 27.15 17.00 40.91 3.25
3128 5881 1.743995 GTTGCTTCGGCCGTACCAT 60.744 57.895 27.15 0.00 40.91 3.55
3129 5882 1.003112 TTGCTTCGGCCGTACCATT 60.003 52.632 27.15 0.00 40.91 3.16
3130 5883 0.606944 TTGCTTCGGCCGTACCATTT 60.607 50.000 27.15 0.00 40.91 2.32
3131 5884 1.302383 TGCTTCGGCCGTACCATTTG 61.302 55.000 27.15 3.30 40.91 2.32
3132 5885 1.427819 CTTCGGCCGTACCATTTGC 59.572 57.895 27.15 0.00 39.03 3.68
3133 5886 1.003112 TTCGGCCGTACCATTTGCT 60.003 52.632 27.15 0.00 39.03 3.91
3134 5887 0.249676 TTCGGCCGTACCATTTGCTA 59.750 50.000 27.15 0.00 39.03 3.49
3135 5888 0.249676 TCGGCCGTACCATTTGCTAA 59.750 50.000 27.15 0.00 39.03 3.09
3136 5889 1.088306 CGGCCGTACCATTTGCTAAA 58.912 50.000 19.50 0.00 39.03 1.85
3137 5890 1.063469 CGGCCGTACCATTTGCTAAAG 59.937 52.381 19.50 0.00 39.03 1.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
56 57 2.380084 TCTGATGCCAACCGTTAGTC 57.620 50.000 0.00 0.00 0.00 2.59
65 66 3.614870 CGTATCCGATGATCTGATGCCAA 60.615 47.826 9.26 0.00 35.63 4.52
102 103 2.206536 GCCCAGCTAGCTCTCCGAT 61.207 63.158 16.15 0.00 0.00 4.18
128 131 2.202756 GGTCCAGTCACGATCCGC 60.203 66.667 0.00 0.00 0.00 5.54
222 225 2.747396 ACCATACGTAGGCGAACAAA 57.253 45.000 0.71 0.00 42.00 2.83
368 375 8.773645 GGGCATTATATTTTACAAAGAATTGCC 58.226 33.333 0.00 0.00 40.34 4.52
403 413 3.876320 GGAACCCACGTGTACAGTTTTTA 59.124 43.478 15.65 0.00 0.00 1.52
420 431 5.901552 TCTTGTTTGTCTCAATTTGGAACC 58.098 37.500 0.00 0.00 0.00 3.62
421 432 7.010460 CCTTTCTTGTTTGTCTCAATTTGGAAC 59.990 37.037 0.00 0.00 0.00 3.62
426 437 6.544928 ACCCTTTCTTGTTTGTCTCAATTT 57.455 33.333 0.00 0.00 0.00 1.82
428 439 4.275936 CGACCCTTTCTTGTTTGTCTCAAT 59.724 41.667 0.00 0.00 0.00 2.57
429 440 3.625764 CGACCCTTTCTTGTTTGTCTCAA 59.374 43.478 0.00 0.00 0.00 3.02
431 442 3.203716 ACGACCCTTTCTTGTTTGTCTC 58.796 45.455 0.00 0.00 0.00 3.36
432 443 3.277142 ACGACCCTTTCTTGTTTGTCT 57.723 42.857 0.00 0.00 0.00 3.41
433 444 4.374399 TCTACGACCCTTTCTTGTTTGTC 58.626 43.478 0.00 0.00 0.00 3.18
435 446 4.628074 TCTCTACGACCCTTTCTTGTTTG 58.372 43.478 0.00 0.00 0.00 2.93
436 447 4.950205 TCTCTACGACCCTTTCTTGTTT 57.050 40.909 0.00 0.00 0.00 2.83
463 498 2.552155 GCATTGTGTAGGTGAAGACCCA 60.552 50.000 0.00 0.00 44.40 4.51
464 499 2.084546 GCATTGTGTAGGTGAAGACCC 58.915 52.381 0.00 0.00 44.40 4.46
480 515 2.812011 GTCAAAACGGGTAGACAGCATT 59.188 45.455 0.00 0.00 0.00 3.56
495 530 1.698506 AATGTTCTGCCCCGTCAAAA 58.301 45.000 0.00 0.00 0.00 2.44
523 579 1.140816 GAAACCTGACTCGTGACAGC 58.859 55.000 10.75 0.00 35.28 4.40
525 581 3.980583 GGAAACCTGACTCGTGACA 57.019 52.632 0.00 0.00 0.00 3.58
558 614 4.444720 CCTACTTGTCTTGAACTCGACAAC 59.555 45.833 0.00 0.00 43.10 3.32
565 621 3.007398 CCTGCTCCTACTTGTCTTGAACT 59.993 47.826 0.00 0.00 0.00 3.01
572 628 1.404315 CGGAACCTGCTCCTACTTGTC 60.404 57.143 0.00 0.00 32.82 3.18
579 635 1.841556 TGAACCGGAACCTGCTCCT 60.842 57.895 9.46 0.00 32.82 3.69
639 709 2.617274 GCGAGGGTGAAACTGCCAC 61.617 63.158 0.00 0.00 36.74 5.01
640 710 2.281484 GCGAGGGTGAAACTGCCA 60.281 61.111 0.00 0.00 36.74 4.92
713 784 0.861837 GGTGACTTGCGAGTTGAGTG 59.138 55.000 8.34 0.00 35.88 3.51
897 979 2.518349 GGTGTGGTGTGGTGGTGG 60.518 66.667 0.00 0.00 0.00 4.61
912 994 4.101448 GGTGGATGGAGCTGCGGT 62.101 66.667 0.00 0.00 0.00 5.68
915 997 4.783621 TGCGGTGGATGGAGCTGC 62.784 66.667 0.00 0.00 0.00 5.25
1386 1478 2.435586 CTCAGCCGTGGCCAAGAG 60.436 66.667 21.23 12.40 43.17 2.85
1725 1822 3.818210 TGCAATTTACGGAGAAGCAAAGA 59.182 39.130 0.00 0.00 0.00 2.52
1749 1854 4.107622 GGATTTTTCAGCAATGGATGACG 58.892 43.478 0.00 0.00 39.55 4.35
1751 1856 4.380761 CGTGGATTTTTCAGCAATGGATGA 60.381 41.667 0.00 0.00 37.73 2.92
1759 1864 2.468831 GCAAACGTGGATTTTTCAGCA 58.531 42.857 0.00 0.00 0.00 4.41
1848 1959 4.065281 CAGACGACGACCCCACCC 62.065 72.222 0.00 0.00 0.00 4.61
1849 1960 3.300765 ACAGACGACGACCCCACC 61.301 66.667 0.00 0.00 0.00 4.61
1850 1961 2.049433 CACAGACGACGACCCCAC 60.049 66.667 0.00 0.00 0.00 4.61
1851 1962 3.986006 GCACAGACGACGACCCCA 61.986 66.667 0.00 0.00 0.00 4.96
1857 1970 1.660575 ACCGAAAGCACAGACGACG 60.661 57.895 0.00 0.00 0.00 5.12
1881 1994 0.114560 TGGTTCCTCGACCCTCTCTT 59.885 55.000 0.00 0.00 39.01 2.85
1882 1995 0.114560 TTGGTTCCTCGACCCTCTCT 59.885 55.000 0.00 0.00 39.01 3.10
1883 1996 0.974383 TTTGGTTCCTCGACCCTCTC 59.026 55.000 0.00 0.00 39.01 3.20
1953 2067 9.930693 ACTTGTTAGAATAGAAGTACTCCTTTG 57.069 33.333 0.00 0.00 32.03 2.77
1973 2087 8.458843 CCGGTTCATTTTTATAGATGACTTGTT 58.541 33.333 0.00 0.00 32.36 2.83
1994 2121 1.226746 CTTTTCAGAAGCGTCCGGTT 58.773 50.000 0.00 3.53 38.65 4.44
1996 2123 1.227999 TGCTTTTCAGAAGCGTCCGG 61.228 55.000 0.00 0.00 45.80 5.14
2128 2280 1.893137 AGAACACCATGTCAGACGCTA 59.107 47.619 0.00 0.00 0.00 4.26
2179 2331 4.324267 ACCAAGAAAAACTATCTCCACCG 58.676 43.478 0.00 0.00 0.00 4.94
2292 2457 2.496070 AGCTAAGCACGACTGTTCCATA 59.504 45.455 0.00 0.00 0.00 2.74
2294 2459 0.679505 AGCTAAGCACGACTGTTCCA 59.320 50.000 0.00 0.00 0.00 3.53
2295 2460 1.336887 TGAGCTAAGCACGACTGTTCC 60.337 52.381 0.00 0.00 0.00 3.62
2296 2461 1.989165 CTGAGCTAAGCACGACTGTTC 59.011 52.381 0.00 0.00 0.00 3.18
2402 2568 2.415090 GCAAGGCTGTAACTGCATGAAG 60.415 50.000 0.00 0.00 0.00 3.02
2506 5226 7.958567 CGAAATTTCGCACAAAAACTATAGGTA 59.041 33.333 26.01 0.00 44.26 3.08
2538 5258 4.127907 GTCTTTCCGAAAACTTCTCCAGT 58.872 43.478 0.00 0.00 37.30 4.00
2558 5278 5.004535 CGTTAGAGCAGAATTTTCTACGGTC 59.995 44.000 4.08 3.58 35.34 4.79
2559 5279 4.863131 CGTTAGAGCAGAATTTTCTACGGT 59.137 41.667 4.08 0.00 35.34 4.83
2568 5288 5.297547 TGTCTGAAACGTTAGAGCAGAATT 58.702 37.500 18.44 0.00 37.35 2.17
2612 5333 0.768221 AACAGGCCTGTCTCCTCCAA 60.768 55.000 37.75 0.00 44.13 3.53
2615 5336 0.907230 AGGAACAGGCCTGTCTCCTC 60.907 60.000 37.85 31.34 44.13 3.71
2640 5361 0.782384 GTAACAGCGACGTGTTCCTG 59.218 55.000 15.67 8.11 41.06 3.86
2661 5384 5.580297 GGAGAACAGATCACAAGTTCAGATC 59.420 44.000 17.01 6.11 43.00 2.75
2693 5416 0.589708 GAACCGTACAGCCACAAACC 59.410 55.000 0.00 0.00 0.00 3.27
2707 5430 1.333791 GGCTCGTTTGTTTCTGAACCG 60.334 52.381 0.00 0.00 34.80 4.44
2708 5431 1.673920 TGGCTCGTTTGTTTCTGAACC 59.326 47.619 0.00 0.00 34.80 3.62
2715 5438 3.057174 TGAAAACACTGGCTCGTTTGTTT 60.057 39.130 0.00 0.00 42.55 2.83
2716 5439 2.490115 TGAAAACACTGGCTCGTTTGTT 59.510 40.909 0.00 0.00 35.57 2.83
2717 5440 2.088423 TGAAAACACTGGCTCGTTTGT 58.912 42.857 0.00 0.00 35.57 2.83
2718 5441 2.842208 TGAAAACACTGGCTCGTTTG 57.158 45.000 0.00 0.00 35.57 2.93
2742 5465 1.303309 GCCATCAAATCGCTAGTGCT 58.697 50.000 0.00 0.00 36.97 4.40
2838 5570 1.426223 CCACCGATAAAAACGCCGG 59.574 57.895 0.00 0.00 46.65 6.13
2947 5699 1.515521 AAAGCGTGCAAGTGGTAGCC 61.516 55.000 0.59 0.00 0.00 3.93
2970 5723 4.675190 AGATGATGTGCGAGTTTTCTTG 57.325 40.909 0.00 0.00 0.00 3.02
2984 5737 9.994432 GAATGTAAAACAAAGAGGTAGATGATG 57.006 33.333 0.00 0.00 0.00 3.07
2990 5743 7.703058 ATGGGAATGTAAAACAAAGAGGTAG 57.297 36.000 0.00 0.00 0.00 3.18
2992 5745 6.294508 CGAATGGGAATGTAAAACAAAGAGGT 60.295 38.462 0.00 0.00 0.00 3.85
2993 5746 6.092748 CGAATGGGAATGTAAAACAAAGAGG 58.907 40.000 0.00 0.00 0.00 3.69
2994 5747 5.572896 GCGAATGGGAATGTAAAACAAAGAG 59.427 40.000 0.00 0.00 0.00 2.85
2995 5748 5.465935 GCGAATGGGAATGTAAAACAAAGA 58.534 37.500 0.00 0.00 0.00 2.52
2998 5751 3.366476 CGGCGAATGGGAATGTAAAACAA 60.366 43.478 0.00 0.00 0.00 2.83
3000 5753 2.162809 ACGGCGAATGGGAATGTAAAAC 59.837 45.455 16.62 0.00 0.00 2.43
3001 5754 2.162608 CACGGCGAATGGGAATGTAAAA 59.837 45.455 16.62 0.00 0.00 1.52
3002 5755 1.740585 CACGGCGAATGGGAATGTAAA 59.259 47.619 16.62 0.00 0.00 2.01
3003 5756 1.066071 TCACGGCGAATGGGAATGTAA 60.066 47.619 16.62 0.00 0.00 2.41
3004 5757 0.537653 TCACGGCGAATGGGAATGTA 59.462 50.000 16.62 0.00 0.00 2.29
3005 5758 0.744414 CTCACGGCGAATGGGAATGT 60.744 55.000 16.62 0.00 0.00 2.71
3006 5759 0.461870 TCTCACGGCGAATGGGAATG 60.462 55.000 16.62 0.00 0.00 2.67
3007 5760 0.469917 ATCTCACGGCGAATGGGAAT 59.530 50.000 16.62 0.00 28.11 3.01
3008 5761 1.116308 TATCTCACGGCGAATGGGAA 58.884 50.000 16.62 0.00 28.11 3.97
3009 5762 1.000843 CATATCTCACGGCGAATGGGA 59.999 52.381 16.62 8.52 0.00 4.37
3010 5763 1.270305 ACATATCTCACGGCGAATGGG 60.270 52.381 16.62 1.37 0.00 4.00
3011 5764 2.154854 ACATATCTCACGGCGAATGG 57.845 50.000 16.62 0.00 0.00 3.16
3012 5765 2.866156 ACAACATATCTCACGGCGAATG 59.134 45.455 16.62 1.50 0.00 2.67
3013 5766 2.866156 CACAACATATCTCACGGCGAAT 59.134 45.455 16.62 3.93 0.00 3.34
3014 5767 2.267426 CACAACATATCTCACGGCGAA 58.733 47.619 16.62 0.00 0.00 4.70
3015 5768 1.921243 CACAACATATCTCACGGCGA 58.079 50.000 16.62 0.00 0.00 5.54
3016 5769 0.301687 GCACAACATATCTCACGGCG 59.698 55.000 4.80 4.80 0.00 6.46
3017 5770 0.657840 GGCACAACATATCTCACGGC 59.342 55.000 0.00 0.00 0.00 5.68
3018 5771 0.930310 CGGCACAACATATCTCACGG 59.070 55.000 0.00 0.00 0.00 4.94
3019 5772 1.854743 CTCGGCACAACATATCTCACG 59.145 52.381 0.00 0.00 0.00 4.35
3020 5773 2.205074 CCTCGGCACAACATATCTCAC 58.795 52.381 0.00 0.00 0.00 3.51
3021 5774 1.831106 ACCTCGGCACAACATATCTCA 59.169 47.619 0.00 0.00 0.00 3.27
3022 5775 2.604046 ACCTCGGCACAACATATCTC 57.396 50.000 0.00 0.00 0.00 2.75
3023 5776 2.027192 ACAACCTCGGCACAACATATCT 60.027 45.455 0.00 0.00 0.00 1.98
3024 5777 2.351726 GACAACCTCGGCACAACATATC 59.648 50.000 0.00 0.00 0.00 1.63
3025 5778 2.290008 TGACAACCTCGGCACAACATAT 60.290 45.455 0.00 0.00 0.00 1.78
3026 5779 1.070914 TGACAACCTCGGCACAACATA 59.929 47.619 0.00 0.00 0.00 2.29
3027 5780 0.179032 TGACAACCTCGGCACAACAT 60.179 50.000 0.00 0.00 0.00 2.71
3028 5781 1.092921 GTGACAACCTCGGCACAACA 61.093 55.000 0.00 0.00 0.00 3.33
3029 5782 1.092921 TGTGACAACCTCGGCACAAC 61.093 55.000 0.00 0.00 38.21 3.32
3030 5783 1.092921 GTGTGACAACCTCGGCACAA 61.093 55.000 0.28 0.00 42.21 3.33
3031 5784 1.522806 GTGTGACAACCTCGGCACA 60.523 57.895 0.00 0.00 38.78 4.57
3032 5785 2.251642 GGTGTGACAACCTCGGCAC 61.252 63.158 0.00 0.00 37.24 5.01
3033 5786 2.110213 GGTGTGACAACCTCGGCA 59.890 61.111 0.00 0.00 37.24 5.69
3034 5787 2.110213 TGGTGTGACAACCTCGGC 59.890 61.111 0.00 0.00 41.16 5.54
3035 5788 0.462937 TTGTGGTGTGACAACCTCGG 60.463 55.000 0.00 0.00 41.16 4.63
3036 5789 0.937304 CTTGTGGTGTGACAACCTCG 59.063 55.000 0.00 0.00 41.16 4.63
3037 5790 1.940613 GTCTTGTGGTGTGACAACCTC 59.059 52.381 0.00 0.00 41.16 3.85
3038 5791 1.280710 TGTCTTGTGGTGTGACAACCT 59.719 47.619 0.00 0.00 41.16 3.50
3039 5792 1.670811 CTGTCTTGTGGTGTGACAACC 59.329 52.381 0.00 0.00 39.74 3.77
3040 5793 1.670811 CCTGTCTTGTGGTGTGACAAC 59.329 52.381 0.00 0.00 39.74 3.32
3041 5794 2.016604 GCCTGTCTTGTGGTGTGACAA 61.017 52.381 0.00 0.00 39.74 3.18
3042 5795 0.463654 GCCTGTCTTGTGGTGTGACA 60.464 55.000 0.00 0.00 38.24 3.58
3043 5796 1.498865 CGCCTGTCTTGTGGTGTGAC 61.499 60.000 0.00 0.00 0.00 3.67
3044 5797 1.227527 CGCCTGTCTTGTGGTGTGA 60.228 57.895 0.00 0.00 0.00 3.58
3045 5798 2.896801 GCGCCTGTCTTGTGGTGTG 61.897 63.158 0.00 0.00 36.33 3.82
3046 5799 2.591715 GCGCCTGTCTTGTGGTGT 60.592 61.111 0.00 0.00 36.33 4.16
3047 5800 2.591429 TGCGCCTGTCTTGTGGTG 60.591 61.111 4.18 0.00 36.95 4.17
3048 5801 2.591715 GTGCGCCTGTCTTGTGGT 60.592 61.111 4.18 0.00 0.00 4.16
3049 5802 3.716006 CGTGCGCCTGTCTTGTGG 61.716 66.667 4.18 0.00 0.00 4.17
3050 5803 2.661537 TCGTGCGCCTGTCTTGTG 60.662 61.111 4.18 0.00 0.00 3.33
3051 5804 2.356313 CTCGTGCGCCTGTCTTGT 60.356 61.111 4.18 0.00 0.00 3.16
3052 5805 3.114616 CCTCGTGCGCCTGTCTTG 61.115 66.667 4.18 0.00 0.00 3.02
3053 5806 4.379243 CCCTCGTGCGCCTGTCTT 62.379 66.667 4.18 0.00 0.00 3.01
3060 5813 4.373116 TTCCTCACCCTCGTGCGC 62.373 66.667 0.00 0.00 40.04 6.09
3061 5814 2.432628 GTTCCTCACCCTCGTGCG 60.433 66.667 0.00 0.00 40.04 5.34
3062 5815 1.668151 GTGTTCCTCACCCTCGTGC 60.668 63.158 0.00 0.00 40.84 5.34
3063 5816 1.372997 CGTGTTCCTCACCCTCGTG 60.373 63.158 0.00 0.00 43.51 4.35
3064 5817 0.538057 TACGTGTTCCTCACCCTCGT 60.538 55.000 0.00 0.00 43.51 4.18
3065 5818 0.170561 CTACGTGTTCCTCACCCTCG 59.829 60.000 0.00 0.00 43.51 4.63
3066 5819 1.254954 ACTACGTGTTCCTCACCCTC 58.745 55.000 0.00 0.00 43.51 4.30
3067 5820 1.617357 GAACTACGTGTTCCTCACCCT 59.383 52.381 15.61 0.00 46.89 4.34
3068 5821 2.075979 GAACTACGTGTTCCTCACCC 57.924 55.000 15.61 0.00 46.89 4.61
3076 5829 5.178809 GTCATTGCTAAAGGAACTACGTGTT 59.821 40.000 0.00 0.00 38.49 3.32
3077 5830 4.689345 GTCATTGCTAAAGGAACTACGTGT 59.311 41.667 0.00 0.00 38.49 4.49
3078 5831 4.929808 AGTCATTGCTAAAGGAACTACGTG 59.070 41.667 0.00 0.00 38.49 4.49
3079 5832 4.929808 CAGTCATTGCTAAAGGAACTACGT 59.070 41.667 0.00 0.00 38.49 3.57
3080 5833 4.929808 ACAGTCATTGCTAAAGGAACTACG 59.070 41.667 0.00 0.00 38.49 3.51
3081 5834 7.224949 GGATACAGTCATTGCTAAAGGAACTAC 59.775 40.741 0.00 0.00 38.49 2.73
3082 5835 7.093068 TGGATACAGTCATTGCTAAAGGAACTA 60.093 37.037 0.00 0.00 46.17 2.24
3083 5836 6.296432 TGGATACAGTCATTGCTAAAGGAACT 60.296 38.462 0.00 0.00 46.17 3.01
3084 5837 5.880332 TGGATACAGTCATTGCTAAAGGAAC 59.120 40.000 0.00 0.00 46.17 3.62
3085 5838 6.061022 TGGATACAGTCATTGCTAAAGGAA 57.939 37.500 0.00 0.00 46.17 3.36
3086 5839 5.692115 TGGATACAGTCATTGCTAAAGGA 57.308 39.130 0.00 0.00 46.17 3.36
3098 5851 5.015020 GCCGAAGCAACTTGGATACAGTC 62.015 52.174 0.00 0.00 44.48 3.51
3099 5852 3.193526 GCCGAAGCAACTTGGATACAGT 61.194 50.000 0.00 0.00 44.48 3.55
3100 5853 1.398390 GCCGAAGCAACTTGGATACAG 59.602 52.381 0.00 0.00 44.48 2.74
3101 5854 1.448985 GCCGAAGCAACTTGGATACA 58.551 50.000 0.00 0.00 42.61 2.29
3102 5855 0.733150 GGCCGAAGCAACTTGGATAC 59.267 55.000 0.00 0.00 42.56 2.24
3103 5856 0.742990 CGGCCGAAGCAACTTGGATA 60.743 55.000 24.07 0.00 42.56 2.59
3104 5857 2.040544 CGGCCGAAGCAACTTGGAT 61.041 57.895 24.07 0.00 42.56 3.41
3105 5858 2.102109 TACGGCCGAAGCAACTTGGA 62.102 55.000 35.90 0.00 42.56 3.53
3106 5859 1.669760 TACGGCCGAAGCAACTTGG 60.670 57.895 35.90 0.00 42.56 3.61
3107 5860 1.495951 GTACGGCCGAAGCAACTTG 59.504 57.895 35.90 0.00 42.56 3.16
3108 5861 1.670083 GGTACGGCCGAAGCAACTT 60.670 57.895 35.90 9.38 42.56 2.66
3109 5862 2.047560 GGTACGGCCGAAGCAACT 60.048 61.111 35.90 10.28 42.56 3.16
3110 5863 1.303091 AATGGTACGGCCGAAGCAAC 61.303 55.000 35.90 19.78 42.56 4.17
3111 5864 0.606944 AAATGGTACGGCCGAAGCAA 60.607 50.000 35.90 15.09 42.56 3.91
3112 5865 1.003112 AAATGGTACGGCCGAAGCA 60.003 52.632 35.90 11.03 42.56 3.91
3113 5866 1.427819 CAAATGGTACGGCCGAAGC 59.572 57.895 35.90 20.24 41.21 3.86
3114 5867 1.024579 AGCAAATGGTACGGCCGAAG 61.025 55.000 35.90 12.40 41.21 3.79
3115 5868 0.249676 TAGCAAATGGTACGGCCGAA 59.750 50.000 35.90 14.80 41.21 4.30
3116 5869 0.249676 TTAGCAAATGGTACGGCCGA 59.750 50.000 35.90 13.31 41.21 5.54
3117 5870 1.063469 CTTTAGCAAATGGTACGGCCG 59.937 52.381 26.86 26.86 41.21 6.13
3118 5871 2.844122 CTTTAGCAAATGGTACGGCC 57.156 50.000 0.00 0.00 37.90 6.13


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

AutoCloner maintained by Alex Coulton.