Multiple sequence alignment - TraesCS5B01G426300

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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 TraesCS5B01G426300 chr5B 100.000 2935 0 0 1 2935 602065902 602068836 0.000000e+00 5421.0
1 TraesCS5B01G426300 chr5B 84.934 989 111 26 790 1764 602137806 602138770 0.000000e+00 966.0
2 TraesCS5B01G426300 chr5D 89.243 1162 53 32 658 1795 488783308 488784421 0.000000e+00 1387.0
3 TraesCS5B01G426300 chr5D 84.084 999 126 24 779 1764 488837516 488838494 0.000000e+00 933.0
4 TraesCS5B01G426300 chr5D 90.172 407 35 5 2531 2935 488817567 488817970 2.590000e-145 525.0
5 TraesCS5B01G426300 chr5D 91.724 290 16 3 163 452 488781943 488782224 2.120000e-106 396.0
6 TraesCS5B01G426300 chr5D 92.910 268 16 3 2268 2534 488785872 488786137 1.280000e-103 387.0
7 TraesCS5B01G426300 chr5D 86.111 324 19 15 1851 2163 488784606 488784914 2.820000e-85 326.0
8 TraesCS5B01G426300 chr5D 83.740 246 17 12 441 670 488783046 488783284 8.240000e-51 211.0
9 TraesCS5B01G426300 chr5D 97.436 78 1 1 82 159 488781667 488781743 6.600000e-27 132.0
10 TraesCS5B01G426300 chr5D 98.276 58 1 0 1 58 488781609 488781666 5.170000e-18 102.0
11 TraesCS5B01G426300 chr5A 92.457 875 31 11 912 1784 609789687 609790528 0.000000e+00 1218.0
12 TraesCS5B01G426300 chr5A 89.560 910 57 22 1 884 609788790 609789687 0.000000e+00 1120.0
13 TraesCS5B01G426300 chr5A 85.902 837 97 17 916 1745 609812833 609813655 0.000000e+00 872.0
14 TraesCS5B01G426300 chr5A 88.072 503 47 10 2268 2768 609792098 609792589 4.220000e-163 584.0
15 TraesCS5B01G426300 chr7D 95.000 40 2 0 3 42 495051384 495051423 2.440000e-06 63.9


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 TraesCS5B01G426300 chr5B 602065902 602068836 2934 False 5421.000000 5421 100.000000 1 2935 1 chr5B.!!$F1 2934
1 TraesCS5B01G426300 chr5B 602137806 602138770 964 False 966.000000 966 84.934000 790 1764 1 chr5B.!!$F2 974
2 TraesCS5B01G426300 chr5D 488837516 488838494 978 False 933.000000 933 84.084000 779 1764 1 chr5D.!!$F2 985
3 TraesCS5B01G426300 chr5D 488781609 488786137 4528 False 420.142857 1387 91.348571 1 2534 7 chr5D.!!$F3 2533
4 TraesCS5B01G426300 chr5A 609788790 609792589 3799 False 974.000000 1218 90.029667 1 2768 3 chr5A.!!$F2 2767
5 TraesCS5B01G426300 chr5A 609812833 609813655 822 False 872.000000 872 85.902000 916 1745 1 chr5A.!!$F1 829

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
894 2037 0.31179 CACACGCACCAGCAGATTTT 59.688 50.0 0.0 0.0 42.27 1.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2548 4965 0.035439 GGTCCCGATTTGCCTCAGAA 60.035 55.0 0.0 0.0 0.0 3.02 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
75 76 2.094700 TGCCACTCTTCGTGATCTACAC 60.095 50.000 0.00 0.00 46.81 2.90
121 123 2.397597 ACCTTGGCCACAACTGAAAAT 58.602 42.857 3.88 0.00 32.14 1.82
259 457 0.441533 CGTGCACTGATGAAGACTGC 59.558 55.000 16.19 0.00 0.00 4.40
303 501 1.065764 CTGTGCGCCGTGCTAGATA 59.934 57.895 4.18 0.00 46.63 1.98
304 502 0.319040 CTGTGCGCCGTGCTAGATAT 60.319 55.000 4.18 0.00 46.63 1.63
361 559 2.337532 CGGGCTATTCCGGTACCG 59.662 66.667 27.68 27.68 45.78 4.02
393 591 1.135024 GGTGCGATGGTTACCTCGTTA 60.135 52.381 18.83 9.92 37.23 3.18
479 1510 2.730550 AAGCTGCAATTTCCTTTCCG 57.269 45.000 1.02 0.00 0.00 4.30
500 1531 5.690409 TCCGCGATATTTTCTTGCTTACTAG 59.310 40.000 8.23 0.00 0.00 2.57
501 1532 5.107453 CCGCGATATTTTCTTGCTTACTAGG 60.107 44.000 8.23 0.00 0.00 3.02
502 1533 5.107453 CGCGATATTTTCTTGCTTACTAGGG 60.107 44.000 0.00 0.00 0.00 3.53
503 1534 5.758784 GCGATATTTTCTTGCTTACTAGGGT 59.241 40.000 0.00 0.00 0.00 4.34
507 1538 8.738645 ATATTTTCTTGCTTACTAGGGTCAAG 57.261 34.615 0.00 2.65 36.42 3.02
510 1554 3.195825 TCTTGCTTACTAGGGTCAAGAGC 59.804 47.826 12.08 0.00 38.43 4.09
540 1584 2.373836 TGGTTGGCTGGTTGTGTAGTAT 59.626 45.455 0.00 0.00 0.00 2.12
541 1585 3.583526 TGGTTGGCTGGTTGTGTAGTATA 59.416 43.478 0.00 0.00 0.00 1.47
570 1614 0.321122 GTCACCTGGGTCAAGAGCAG 60.321 60.000 0.00 0.00 0.00 4.24
585 1629 0.550914 AGCAGGTGAACCAGTCCAAA 59.449 50.000 1.62 0.00 38.89 3.28
589 1634 3.023832 CAGGTGAACCAGTCCAAACTTT 58.976 45.455 1.62 0.00 38.89 2.66
590 1635 3.023832 AGGTGAACCAGTCCAAACTTTG 58.976 45.455 1.62 0.00 38.89 2.77
593 1638 4.081917 GGTGAACCAGTCCAAACTTTGAAA 60.082 41.667 2.87 0.00 31.71 2.69
601 1646 6.142817 CAGTCCAAACTTTGAAATAACGGAG 58.857 40.000 2.87 0.00 31.71 4.63
648 1693 3.761752 ACGGAAAATAACATTCCACCTGG 59.238 43.478 6.17 0.00 45.44 4.45
656 1701 0.320421 CATTCCACCTGGTCGAACGT 60.320 55.000 9.10 0.00 36.34 3.99
665 1710 1.799121 GGTCGAACGTACACGCTCC 60.799 63.158 0.85 0.00 44.43 4.70
717 1798 3.262420 CACGTATCACTTCTTTCCCTGG 58.738 50.000 0.00 0.00 0.00 4.45
756 1840 4.371975 GCCAGAAGTGCGGTGTAA 57.628 55.556 0.00 0.00 0.00 2.41
831 1926 4.612412 GGTGACACACCGGGCGAA 62.612 66.667 6.32 0.00 44.95 4.70
856 1962 1.095600 GAACGAAGCCCCAGAATTCC 58.904 55.000 0.65 0.00 0.00 3.01
884 2027 2.784957 TACGTAGACGCACACGCACC 62.785 60.000 1.14 0.00 45.53 5.01
885 2028 2.355363 GTAGACGCACACGCACCA 60.355 61.111 0.00 0.00 45.53 4.17
886 2029 2.049526 TAGACGCACACGCACCAG 60.050 61.111 0.00 0.00 45.53 4.00
891 2034 3.052082 GCACACGCACCAGCAGAT 61.052 61.111 0.00 0.00 42.27 2.90
892 2035 2.620112 GCACACGCACCAGCAGATT 61.620 57.895 0.00 0.00 42.27 2.40
893 2036 1.951510 CACACGCACCAGCAGATTT 59.048 52.632 0.00 0.00 42.27 2.17
894 2037 0.311790 CACACGCACCAGCAGATTTT 59.688 50.000 0.00 0.00 42.27 1.82
895 2038 1.032014 ACACGCACCAGCAGATTTTT 58.968 45.000 0.00 0.00 42.27 1.94
936 2079 3.091545 ACGTACTAGACCATTCCGGAAA 58.908 45.455 23.08 4.74 38.63 3.13
951 2102 0.392595 GGAAACACGATCCCACCCTC 60.393 60.000 0.00 0.00 0.00 4.30
952 2103 0.613777 GAAACACGATCCCACCCTCT 59.386 55.000 0.00 0.00 0.00 3.69
953 2104 0.324943 AAACACGATCCCACCCTCTG 59.675 55.000 0.00 0.00 0.00 3.35
983 2134 2.352814 CGCCTATAAATCCTCACCCTCG 60.353 54.545 0.00 0.00 0.00 4.63
1005 2164 1.123928 CTCCCACCATACTCACTCCC 58.876 60.000 0.00 0.00 0.00 4.30
1056 2215 2.607635 ACACACACACAAGTCGATTGAC 59.392 45.455 4.78 4.78 45.86 3.18
1064 2223 2.217750 CAAGTCGATTGACCCAACACA 58.782 47.619 9.62 0.00 46.74 3.72
1151 2310 2.202851 CGCTGCCTCATCGCTCTT 60.203 61.111 0.00 0.00 0.00 2.85
1250 2409 1.565759 CCCATCCACAAGAAGATCCCA 59.434 52.381 0.00 0.00 0.00 4.37
1286 2445 4.052229 CGCCCCGTCAACGAGTCT 62.052 66.667 3.71 0.00 43.02 3.24
1512 2671 3.547513 GGGCGCTCGGGGATAAGT 61.548 66.667 7.64 0.00 0.00 2.24
1841 3316 0.595567 TGGTCGTGTACTTGTGACGC 60.596 55.000 0.00 0.00 33.11 5.19
1844 3319 1.764967 CGTGTACTTGTGACGCGTC 59.235 57.895 31.66 31.66 43.86 5.19
1850 3325 1.145759 ACTTGTGACGCGTCTGTGTG 61.146 55.000 36.27 23.98 39.39 3.82
1851 3326 1.145759 CTTGTGACGCGTCTGTGTGT 61.146 55.000 36.27 0.00 39.39 3.72
1852 3327 1.417577 TTGTGACGCGTCTGTGTGTG 61.418 55.000 36.27 0.00 39.39 3.82
1855 3330 1.876714 GACGCGTCTGTGTGTGTGT 60.877 57.895 31.12 0.00 39.39 3.72
1856 3331 2.077801 GACGCGTCTGTGTGTGTGTG 62.078 60.000 31.12 0.00 39.39 3.82
1857 3332 2.164663 CGCGTCTGTGTGTGTGTGT 61.165 57.895 0.00 0.00 0.00 3.72
1858 3333 1.348250 GCGTCTGTGTGTGTGTGTG 59.652 57.895 0.00 0.00 0.00 3.82
1859 3334 1.358725 GCGTCTGTGTGTGTGTGTGT 61.359 55.000 0.00 0.00 0.00 3.72
1860 3335 1.915952 CGTCTGTGTGTGTGTGTGTA 58.084 50.000 0.00 0.00 0.00 2.90
1861 3336 2.469826 CGTCTGTGTGTGTGTGTGTAT 58.530 47.619 0.00 0.00 0.00 2.29
1862 3337 2.218530 CGTCTGTGTGTGTGTGTGTATG 59.781 50.000 0.00 0.00 0.00 2.39
1863 3338 3.194861 GTCTGTGTGTGTGTGTGTATGT 58.805 45.455 0.00 0.00 0.00 2.29
1864 3339 3.245284 GTCTGTGTGTGTGTGTGTATGTC 59.755 47.826 0.00 0.00 0.00 3.06
1865 3340 3.118956 TCTGTGTGTGTGTGTGTATGTCA 60.119 43.478 0.00 0.00 0.00 3.58
1866 3341 3.600388 TGTGTGTGTGTGTGTATGTCAA 58.400 40.909 0.00 0.00 0.00 3.18
1867 3342 3.372514 TGTGTGTGTGTGTGTATGTCAAC 59.627 43.478 0.00 0.00 0.00 3.18
1868 3343 2.605366 TGTGTGTGTGTGTATGTCAACG 59.395 45.455 0.00 0.00 0.00 4.10
1869 3344 1.595328 TGTGTGTGTGTATGTCAACGC 59.405 47.619 0.00 0.00 0.00 4.84
1917 3392 2.418368 TGCCACCTGCGATTCTATTT 57.582 45.000 0.00 0.00 45.60 1.40
1920 3395 2.880890 GCCACCTGCGATTCTATTTCAT 59.119 45.455 0.00 0.00 0.00 2.57
1921 3396 3.304257 GCCACCTGCGATTCTATTTCATG 60.304 47.826 0.00 0.00 0.00 3.07
2025 3502 2.294233 ACGAGCGCGGGATTACTTTATA 59.706 45.455 15.86 0.00 43.17 0.98
2076 3562 3.316283 ACATGTTTTGTTGCGCTATTGG 58.684 40.909 9.73 0.00 33.74 3.16
2083 3577 1.265635 TGTTGCGCTATTGGTGTTGTC 59.734 47.619 9.73 0.00 0.00 3.18
2084 3578 1.265635 GTTGCGCTATTGGTGTTGTCA 59.734 47.619 9.73 0.00 0.00 3.58
2095 3589 6.723298 ATTGGTGTTGTCAGGTTTTCATAA 57.277 33.333 0.00 0.00 0.00 1.90
2097 3591 6.723298 TGGTGTTGTCAGGTTTTCATAATT 57.277 33.333 0.00 0.00 0.00 1.40
2181 3677 8.451908 AAGTTTGGAGTACATATAATTGGAGC 57.548 34.615 0.00 0.00 0.00 4.70
2182 3678 7.806180 AGTTTGGAGTACATATAATTGGAGCT 58.194 34.615 0.00 0.00 0.00 4.09
2183 3679 7.934120 AGTTTGGAGTACATATAATTGGAGCTC 59.066 37.037 4.71 4.71 0.00 4.09
2184 3680 6.360370 TGGAGTACATATAATTGGAGCTCC 57.640 41.667 26.78 26.78 40.08 4.70
2186 3682 6.558775 TGGAGTACATATAATTGGAGCTCCTT 59.441 38.462 32.28 21.56 40.26 3.36
2215 4395 4.571372 TGTTACCGGGTCAAAATTGAAC 57.429 40.909 6.32 2.53 44.09 3.18
2216 4396 3.003482 TGTTACCGGGTCAAAATTGAACG 59.997 43.478 6.32 9.16 45.75 3.95
2217 4397 1.970092 ACCGGGTCAAAATTGAACGA 58.030 45.000 6.32 0.00 45.75 3.85
2218 4398 2.510613 ACCGGGTCAAAATTGAACGAT 58.489 42.857 6.32 3.63 45.75 3.73
2264 4546 5.784578 ATTCACTGTGGGACCTTAAAAAC 57.215 39.130 8.11 0.00 0.00 2.43
2307 4723 8.956426 TCTATGCTAATTTTCAAAAATCGACCT 58.044 29.630 1.43 0.00 37.62 3.85
2321 4737 7.533289 AAAATCGACCTAAAATCCAAAGGAA 57.467 32.000 0.00 0.00 34.34 3.36
2369 4785 3.576078 ACGAATCATAATGGGCCTTCA 57.424 42.857 4.53 0.00 0.00 3.02
2391 4807 7.215696 TCAAACGACAACACAAATGATTTTC 57.784 32.000 0.00 0.00 0.00 2.29
2409 4825 8.948853 TGATTTTCAACATAGATCAACGAAAC 57.051 30.769 0.00 0.00 0.00 2.78
2427 4843 5.058490 CGAAACCACTTGTTAAGGGTTAGA 58.942 41.667 11.96 0.00 39.54 2.10
2481 4898 0.736053 GTGTTTCGTTTGGGTCTGCA 59.264 50.000 0.00 0.00 0.00 4.41
2482 4899 1.336755 GTGTTTCGTTTGGGTCTGCAT 59.663 47.619 0.00 0.00 0.00 3.96
2532 4949 4.799419 GCAAATGCAAAATGTGTCTTGT 57.201 36.364 0.00 0.00 41.59 3.16
2533 4950 4.764940 GCAAATGCAAAATGTGTCTTGTC 58.235 39.130 0.00 0.00 41.59 3.18
2535 4952 3.665745 ATGCAAAATGTGTCTTGTCCC 57.334 42.857 0.00 0.00 0.00 4.46
2536 4953 1.336440 TGCAAAATGTGTCTTGTCCCG 59.664 47.619 0.00 0.00 0.00 5.14
2537 4954 1.336755 GCAAAATGTGTCTTGTCCCGT 59.663 47.619 0.00 0.00 0.00 5.28
2538 4955 2.604614 GCAAAATGTGTCTTGTCCCGTC 60.605 50.000 0.00 0.00 0.00 4.79
2539 4956 2.878406 CAAAATGTGTCTTGTCCCGTCT 59.122 45.455 0.00 0.00 0.00 4.18
2540 4957 4.062293 CAAAATGTGTCTTGTCCCGTCTA 58.938 43.478 0.00 0.00 0.00 2.59
2542 4959 2.281539 TGTGTCTTGTCCCGTCTAGA 57.718 50.000 0.00 0.00 0.00 2.43
2556 4973 2.197577 GTCTAGACGCATTTCTGAGGC 58.802 52.381 7.22 0.00 0.00 4.70
2557 4974 1.824852 TCTAGACGCATTTCTGAGGCA 59.175 47.619 0.00 0.00 31.57 4.75
2558 4975 2.233676 TCTAGACGCATTTCTGAGGCAA 59.766 45.455 0.00 0.00 31.57 4.52
2559 4976 1.896220 AGACGCATTTCTGAGGCAAA 58.104 45.000 0.00 0.00 31.57 3.68
2560 4977 2.440409 AGACGCATTTCTGAGGCAAAT 58.560 42.857 0.00 0.00 31.57 2.32
2561 4978 2.421424 AGACGCATTTCTGAGGCAAATC 59.579 45.455 0.00 0.00 31.57 2.17
2592 5009 2.167662 TGCGTCTAGATGGACACAAGA 58.832 47.619 13.82 0.00 36.12 3.02
2617 5034 2.629763 GTCGCGCGTCCTTTTGTT 59.370 55.556 30.98 0.00 0.00 2.83
2661 5078 4.589675 GGCCAACCACCAACCCGA 62.590 66.667 0.00 0.00 35.26 5.14
2667 5084 3.657350 CCACCAACCCGACCCCAT 61.657 66.667 0.00 0.00 0.00 4.00
2676 5093 1.064240 ACCCGACCCCATTTAATCCAC 60.064 52.381 0.00 0.00 0.00 4.02
2677 5094 1.064314 CCCGACCCCATTTAATCCACA 60.064 52.381 0.00 0.00 0.00 4.17
2694 5111 1.065410 ACACATGTGGAAGGGTCCCA 61.065 55.000 28.64 0.00 44.23 4.37
2707 5124 4.129737 TCCCACGCGTCAGCTAGC 62.130 66.667 9.86 6.62 42.32 3.42
2710 5127 2.202797 CACGCGTCAGCTAGCCAT 60.203 61.111 9.86 0.00 42.32 4.40
2722 5140 2.628187 CTAGCCATCCCCTCCACCCT 62.628 65.000 0.00 0.00 0.00 4.34
2732 5150 0.038310 CCTCCACCCTGGTCCTTTTC 59.962 60.000 0.00 0.00 39.03 2.29
2748 5166 1.440145 TTTCAATGCCACACGTGCGA 61.440 50.000 17.22 0.00 0.00 5.10
2757 5175 3.991051 CACGTGCGAGTGGAGGGT 61.991 66.667 0.82 0.00 38.40 4.34
2764 5182 2.043248 GAGTGGAGGGTCCGGCTA 60.043 66.667 0.00 0.00 40.17 3.93
2765 5183 2.042843 AGTGGAGGGTCCGGCTAG 60.043 66.667 0.00 0.00 40.17 3.42
2767 5185 1.988406 GTGGAGGGTCCGGCTAGTT 60.988 63.158 0.00 0.00 40.17 2.24
2768 5186 1.684734 TGGAGGGTCCGGCTAGTTC 60.685 63.158 0.00 0.00 40.17 3.01
2769 5187 1.684734 GGAGGGTCCGGCTAGTTCA 60.685 63.158 0.00 0.00 0.00 3.18
2770 5188 1.516423 GAGGGTCCGGCTAGTTCAC 59.484 63.158 0.00 0.00 0.00 3.18
2771 5189 0.971447 GAGGGTCCGGCTAGTTCACT 60.971 60.000 0.00 0.00 0.00 3.41
2772 5190 0.544595 AGGGTCCGGCTAGTTCACTT 60.545 55.000 0.00 0.00 0.00 3.16
2773 5191 0.108281 GGGTCCGGCTAGTTCACTTC 60.108 60.000 0.00 0.00 0.00 3.01
2774 5192 0.108281 GGTCCGGCTAGTTCACTTCC 60.108 60.000 0.00 0.00 0.00 3.46
2775 5193 0.108281 GTCCGGCTAGTTCACTTCCC 60.108 60.000 0.00 0.00 0.00 3.97
2776 5194 0.252103 TCCGGCTAGTTCACTTCCCT 60.252 55.000 0.00 0.00 0.00 4.20
2777 5195 0.108138 CCGGCTAGTTCACTTCCCTG 60.108 60.000 0.00 0.00 0.00 4.45
2778 5196 0.608640 CGGCTAGTTCACTTCCCTGT 59.391 55.000 0.00 0.00 0.00 4.00
2779 5197 1.404315 CGGCTAGTTCACTTCCCTGTC 60.404 57.143 0.00 0.00 0.00 3.51
2780 5198 1.903183 GGCTAGTTCACTTCCCTGTCT 59.097 52.381 0.00 0.00 0.00 3.41
2781 5199 2.303311 GGCTAGTTCACTTCCCTGTCTT 59.697 50.000 0.00 0.00 0.00 3.01
2782 5200 3.591023 GCTAGTTCACTTCCCTGTCTTC 58.409 50.000 0.00 0.00 0.00 2.87
2783 5201 3.259625 GCTAGTTCACTTCCCTGTCTTCT 59.740 47.826 0.00 0.00 0.00 2.85
2784 5202 4.262678 GCTAGTTCACTTCCCTGTCTTCTT 60.263 45.833 0.00 0.00 0.00 2.52
2785 5203 4.344359 AGTTCACTTCCCTGTCTTCTTC 57.656 45.455 0.00 0.00 0.00 2.87
2786 5204 3.711704 AGTTCACTTCCCTGTCTTCTTCA 59.288 43.478 0.00 0.00 0.00 3.02
2787 5205 4.061596 GTTCACTTCCCTGTCTTCTTCAG 58.938 47.826 0.00 0.00 0.00 3.02
2788 5206 2.037772 TCACTTCCCTGTCTTCTTCAGC 59.962 50.000 0.00 0.00 0.00 4.26
2789 5207 2.038295 CACTTCCCTGTCTTCTTCAGCT 59.962 50.000 0.00 0.00 0.00 4.24
2790 5208 2.301583 ACTTCCCTGTCTTCTTCAGCTC 59.698 50.000 0.00 0.00 0.00 4.09
2791 5209 1.270907 TCCCTGTCTTCTTCAGCTCC 58.729 55.000 0.00 0.00 0.00 4.70
2792 5210 1.203237 TCCCTGTCTTCTTCAGCTCCT 60.203 52.381 0.00 0.00 0.00 3.69
2793 5211 1.206849 CCCTGTCTTCTTCAGCTCCTC 59.793 57.143 0.00 0.00 0.00 3.71
2794 5212 2.178580 CCTGTCTTCTTCAGCTCCTCT 58.821 52.381 0.00 0.00 0.00 3.69
2795 5213 2.094078 CCTGTCTTCTTCAGCTCCTCTG 60.094 54.545 0.00 0.00 44.21 3.35
2796 5214 1.274728 TGTCTTCTTCAGCTCCTCTGC 59.725 52.381 0.00 0.00 42.56 4.26
2797 5215 0.901124 TCTTCTTCAGCTCCTCTGCC 59.099 55.000 0.00 0.00 42.56 4.85
2798 5216 0.107752 CTTCTTCAGCTCCTCTGCCC 60.108 60.000 0.00 0.00 42.56 5.36
2799 5217 1.557269 TTCTTCAGCTCCTCTGCCCC 61.557 60.000 0.00 0.00 42.56 5.80
2800 5218 3.011517 TTCAGCTCCTCTGCCCCC 61.012 66.667 0.00 0.00 42.56 5.40
2818 5236 3.723348 GCCCGACAGCCGACAAAC 61.723 66.667 0.00 0.00 41.76 2.93
2819 5237 3.047877 CCCGACAGCCGACAAACC 61.048 66.667 0.00 0.00 41.76 3.27
2820 5238 3.047877 CCGACAGCCGACAAACCC 61.048 66.667 0.00 0.00 41.76 4.11
2821 5239 2.030562 CGACAGCCGACAAACCCT 59.969 61.111 0.00 0.00 41.76 4.34
2822 5240 1.290955 CGACAGCCGACAAACCCTA 59.709 57.895 0.00 0.00 41.76 3.53
2823 5241 0.736325 CGACAGCCGACAAACCCTAG 60.736 60.000 0.00 0.00 41.76 3.02
2824 5242 1.003718 ACAGCCGACAAACCCTAGC 60.004 57.895 0.00 0.00 0.00 3.42
2825 5243 1.745489 CAGCCGACAAACCCTAGCC 60.745 63.158 0.00 0.00 0.00 3.93
2826 5244 2.221299 AGCCGACAAACCCTAGCCA 61.221 57.895 0.00 0.00 0.00 4.75
2827 5245 2.038837 GCCGACAAACCCTAGCCAC 61.039 63.158 0.00 0.00 0.00 5.01
2828 5246 1.376812 CCGACAAACCCTAGCCACC 60.377 63.158 0.00 0.00 0.00 4.61
2829 5247 1.740296 CGACAAACCCTAGCCACCG 60.740 63.158 0.00 0.00 0.00 4.94
2830 5248 2.033602 ACAAACCCTAGCCACCGC 59.966 61.111 0.00 0.00 0.00 5.68
2831 5249 2.750237 CAAACCCTAGCCACCGCC 60.750 66.667 0.00 0.00 34.57 6.13
2832 5250 4.404098 AAACCCTAGCCACCGCCG 62.404 66.667 0.00 0.00 34.57 6.46
2837 5255 4.587189 CTAGCCACCGCCGCCTAC 62.587 72.222 0.00 0.00 34.57 3.18
2845 5263 4.814294 CGCCGCCTACCACCACTC 62.814 72.222 0.00 0.00 0.00 3.51
2846 5264 4.814294 GCCGCCTACCACCACTCG 62.814 72.222 0.00 0.00 0.00 4.18
2847 5265 3.379445 CCGCCTACCACCACTCGT 61.379 66.667 0.00 0.00 0.00 4.18
2848 5266 2.654877 CGCCTACCACCACTCGTT 59.345 61.111 0.00 0.00 0.00 3.85
2849 5267 1.736645 CGCCTACCACCACTCGTTG 60.737 63.158 0.00 0.00 0.00 4.10
2858 5276 3.495124 CCACTCGTTGGCCAAAATG 57.505 52.632 22.47 15.30 39.07 2.32
2859 5277 0.673437 CCACTCGTTGGCCAAAATGT 59.327 50.000 22.47 15.67 39.07 2.71
2860 5278 1.335872 CCACTCGTTGGCCAAAATGTC 60.336 52.381 22.47 6.33 39.07 3.06
2861 5279 1.336440 CACTCGTTGGCCAAAATGTCA 59.664 47.619 22.47 0.00 0.00 3.58
2862 5280 2.030007 CACTCGTTGGCCAAAATGTCAT 60.030 45.455 22.47 0.00 0.00 3.06
2863 5281 2.030007 ACTCGTTGGCCAAAATGTCATG 60.030 45.455 22.47 1.29 0.00 3.07
2864 5282 1.271934 TCGTTGGCCAAAATGTCATGG 59.728 47.619 22.47 1.33 39.80 3.66
2865 5283 1.271934 CGTTGGCCAAAATGTCATGGA 59.728 47.619 22.47 0.00 39.12 3.41
2866 5284 2.288702 CGTTGGCCAAAATGTCATGGAA 60.289 45.455 22.47 0.00 39.12 3.53
2867 5285 3.328505 GTTGGCCAAAATGTCATGGAAG 58.671 45.455 22.47 0.00 39.12 3.46
2868 5286 2.607499 TGGCCAAAATGTCATGGAAGT 58.393 42.857 0.61 0.00 39.12 3.01
2869 5287 2.299582 TGGCCAAAATGTCATGGAAGTG 59.700 45.455 0.61 0.00 39.12 3.16
2870 5288 2.354003 GGCCAAAATGTCATGGAAGTGG 60.354 50.000 0.00 0.00 39.12 4.00
2871 5289 2.562298 GCCAAAATGTCATGGAAGTGGA 59.438 45.455 0.00 0.00 39.12 4.02
2872 5290 3.196254 GCCAAAATGTCATGGAAGTGGAT 59.804 43.478 0.00 0.00 39.12 3.41
2873 5291 4.678840 GCCAAAATGTCATGGAAGTGGATC 60.679 45.833 0.00 0.00 39.12 3.36
2874 5292 4.142093 CCAAAATGTCATGGAAGTGGATCC 60.142 45.833 4.20 4.20 39.12 3.36
2875 5293 3.303351 AATGTCATGGAAGTGGATCCC 57.697 47.619 9.90 0.11 38.82 3.85
2876 5294 0.541392 TGTCATGGAAGTGGATCCCG 59.459 55.000 9.90 0.00 38.82 5.14
2877 5295 0.179045 GTCATGGAAGTGGATCCCGG 60.179 60.000 9.90 0.00 38.82 5.73
2878 5296 1.149174 CATGGAAGTGGATCCCGGG 59.851 63.158 16.85 16.85 38.82 5.73
2879 5297 2.078665 ATGGAAGTGGATCCCGGGG 61.079 63.158 23.50 6.77 38.82 5.73
2880 5298 2.366435 GGAAGTGGATCCCGGGGA 60.366 66.667 23.50 20.15 35.55 4.81
2881 5299 1.999002 GGAAGTGGATCCCGGGGAA 60.999 63.158 23.50 1.15 34.34 3.97
2882 5300 1.527370 GAAGTGGATCCCGGGGAAG 59.473 63.158 23.50 0.00 34.34 3.46
2883 5301 2.610532 GAAGTGGATCCCGGGGAAGC 62.611 65.000 23.50 15.00 34.34 3.86
2884 5302 4.191015 GTGGATCCCGGGGAAGCC 62.191 72.222 23.50 23.35 34.34 4.35
2893 5311 2.116556 GGGGAAGCCCGAAAACCA 59.883 61.111 0.00 0.00 46.66 3.67
2894 5312 1.304962 GGGGAAGCCCGAAAACCAT 60.305 57.895 0.00 0.00 46.66 3.55
2895 5313 1.604147 GGGGAAGCCCGAAAACCATG 61.604 60.000 0.00 0.00 46.66 3.66
2896 5314 0.610785 GGGAAGCCCGAAAACCATGA 60.611 55.000 0.00 0.00 32.13 3.07
2897 5315 0.526211 GGAAGCCCGAAAACCATGAC 59.474 55.000 0.00 0.00 0.00 3.06
2898 5316 0.168128 GAAGCCCGAAAACCATGACG 59.832 55.000 0.00 0.00 0.00 4.35
2899 5317 0.250553 AAGCCCGAAAACCATGACGA 60.251 50.000 0.00 0.00 0.00 4.20
2900 5318 0.953960 AGCCCGAAAACCATGACGAC 60.954 55.000 0.00 0.00 0.00 4.34
2901 5319 1.785321 CCCGAAAACCATGACGACG 59.215 57.895 0.00 0.00 0.00 5.12
2902 5320 0.668096 CCCGAAAACCATGACGACGA 60.668 55.000 0.00 0.00 0.00 4.20
2903 5321 1.355971 CCGAAAACCATGACGACGAT 58.644 50.000 0.00 0.00 0.00 3.73
2904 5322 1.060553 CCGAAAACCATGACGACGATG 59.939 52.381 0.00 0.00 0.00 3.84
2905 5323 1.724623 CGAAAACCATGACGACGATGT 59.275 47.619 0.00 0.00 0.00 3.06
2906 5324 2.156891 CGAAAACCATGACGACGATGTT 59.843 45.455 0.00 0.00 0.00 2.71
2907 5325 3.479006 GAAAACCATGACGACGATGTTG 58.521 45.455 0.00 0.00 0.00 3.33
2908 5326 1.438651 AACCATGACGACGATGTTGG 58.561 50.000 0.00 5.63 0.00 3.77
2909 5327 1.019278 ACCATGACGACGATGTTGGC 61.019 55.000 0.00 0.00 0.00 4.52
2910 5328 0.740868 CCATGACGACGATGTTGGCT 60.741 55.000 0.00 0.00 0.00 4.75
2911 5329 0.647410 CATGACGACGATGTTGGCTC 59.353 55.000 0.00 0.00 0.00 4.70
2912 5330 0.246360 ATGACGACGATGTTGGCTCA 59.754 50.000 0.00 0.00 0.00 4.26
2913 5331 0.246360 TGACGACGATGTTGGCTCAT 59.754 50.000 0.00 0.00 0.00 2.90
2914 5332 0.924090 GACGACGATGTTGGCTCATC 59.076 55.000 0.00 11.27 40.29 2.92
2919 5337 2.695314 GATGTTGGCTCATCGTCCC 58.305 57.895 7.28 0.00 35.57 4.46
2920 5338 1.153369 ATGTTGGCTCATCGTCCCG 60.153 57.895 0.00 0.00 0.00 5.14
2921 5339 2.511600 GTTGGCTCATCGTCCCGG 60.512 66.667 0.00 0.00 0.00 5.73
2922 5340 3.000819 TTGGCTCATCGTCCCGGT 61.001 61.111 0.00 0.00 0.00 5.28
2923 5341 3.014085 TTGGCTCATCGTCCCGGTC 62.014 63.158 0.00 0.00 0.00 4.79
2924 5342 4.570663 GGCTCATCGTCCCGGTCG 62.571 72.222 0.00 5.21 0.00 4.79
2925 5343 3.823330 GCTCATCGTCCCGGTCGT 61.823 66.667 14.23 2.11 0.00 4.34
2926 5344 2.408022 CTCATCGTCCCGGTCGTC 59.592 66.667 14.23 0.00 0.00 4.20
2927 5345 3.450559 CTCATCGTCCCGGTCGTCG 62.451 68.421 14.23 7.20 38.88 5.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 36 0.904865 AGAGTTGCATGTCGGAGGGA 60.905 55.000 0.00 0.00 0.00 4.20
75 76 5.531659 ACCTAGTATATGGTGTCTCAGTTCG 59.468 44.000 0.00 0.00 34.90 3.95
80 81 6.919158 AGGTTACCTAGTATATGGTGTCTCA 58.081 40.000 0.15 0.00 37.74 3.27
121 123 1.697432 CAGTGGTGGAGGTAGGAACAA 59.303 52.381 0.00 0.00 0.00 2.83
209 407 2.992689 TGGTAGTCTTCGGCGGCA 60.993 61.111 10.53 0.00 0.00 5.69
303 501 5.050490 GTGGTTGTGTAATCAGATAGCGAT 58.950 41.667 0.00 0.00 0.00 4.58
304 502 4.430007 GTGGTTGTGTAATCAGATAGCGA 58.570 43.478 0.00 0.00 0.00 4.93
362 560 3.665675 ATCGCACCTTCGGAGCCAC 62.666 63.158 0.00 0.00 35.94 5.01
374 572 2.282701 TAACGAGGTAACCATCGCAC 57.717 50.000 8.08 0.00 42.61 5.34
377 575 2.049228 GCGATAACGAGGTAACCATCG 58.951 52.381 0.00 6.89 44.36 3.84
393 591 1.364171 GAGACTATGGCACGGCGAT 59.636 57.895 16.62 0.00 0.00 4.58
479 1510 5.758784 ACCCTAGTAAGCAAGAAAATATCGC 59.241 40.000 0.00 0.00 0.00 4.58
501 1532 0.895559 CAAACCTGGGGCTCTTGACC 60.896 60.000 0.00 0.00 41.93 4.02
502 1533 0.895559 CCAAACCTGGGGCTCTTGAC 60.896 60.000 0.00 0.00 39.30 3.18
503 1534 1.460255 CCAAACCTGGGGCTCTTGA 59.540 57.895 0.00 0.00 39.30 3.02
514 1558 0.325203 ACAACCAGCCAACCAAACCT 60.325 50.000 0.00 0.00 0.00 3.50
540 1584 1.071071 CCCAGGTGACACTTTTCGGTA 59.929 52.381 5.39 0.00 0.00 4.02
541 1585 0.179029 CCCAGGTGACACTTTTCGGT 60.179 55.000 5.39 0.00 0.00 4.69
570 1614 3.020984 TCAAAGTTTGGACTGGTTCACC 58.979 45.455 15.47 0.00 35.91 4.02
585 1629 6.016527 GGAAAGTTCCTCCGTTATTTCAAAGT 60.017 38.462 2.65 0.00 44.11 2.66
589 1634 4.042435 AGGGAAAGTTCCTCCGTTATTTCA 59.958 41.667 9.88 0.00 46.72 2.69
590 1635 4.395231 CAGGGAAAGTTCCTCCGTTATTTC 59.605 45.833 9.88 0.00 46.72 2.17
593 1638 2.238898 CCAGGGAAAGTTCCTCCGTTAT 59.761 50.000 9.88 0.00 46.72 1.89
601 1646 1.070134 GTTTTGGCCAGGGAAAGTTCC 59.930 52.381 5.11 1.10 46.82 3.62
613 1658 4.624336 ATTTTCCGTTTTTGTTTTGGCC 57.376 36.364 0.00 0.00 0.00 5.36
615 1660 9.216087 GAATGTTATTTTCCGTTTTTGTTTTGG 57.784 29.630 0.00 0.00 0.00 3.28
656 1701 2.626266 TGTTCTTGAAGAGGAGCGTGTA 59.374 45.455 0.00 0.00 0.00 2.90
665 1710 4.023707 ACGATTGGCTTTGTTCTTGAAGAG 60.024 41.667 0.00 0.00 0.00 2.85
706 1787 1.758592 CCGTGGACCAGGGAAAGAA 59.241 57.895 26.23 0.00 41.36 2.52
755 1839 3.267233 TGGCTGGCATGGGAGGTT 61.267 61.111 0.00 0.00 0.00 3.50
756 1840 4.052518 GTGGCTGGCATGGGAGGT 62.053 66.667 7.33 0.00 0.00 3.85
828 1923 4.130281 GCTTCGTTCGCCCGTTCG 62.130 66.667 0.00 0.00 0.00 3.95
834 1939 3.894547 TTCTGGGGCTTCGTTCGCC 62.895 63.158 4.23 4.23 46.83 5.54
856 1962 3.892581 GTCTACGTACCGGCCGGG 61.893 72.222 44.99 30.71 43.62 5.73
904 2047 3.737266 GGTCTAGTACGTCTCGAGATGAG 59.263 52.174 35.34 23.40 46.72 2.90
905 2048 3.131755 TGGTCTAGTACGTCTCGAGATGA 59.868 47.826 35.34 19.03 35.16 2.92
906 2049 3.455327 TGGTCTAGTACGTCTCGAGATG 58.545 50.000 28.94 28.94 37.11 2.90
907 2050 3.815856 TGGTCTAGTACGTCTCGAGAT 57.184 47.619 19.90 6.04 0.00 2.75
908 2051 3.815856 ATGGTCTAGTACGTCTCGAGA 57.184 47.619 12.08 12.08 0.00 4.04
909 2052 3.248125 GGAATGGTCTAGTACGTCTCGAG 59.752 52.174 5.93 5.93 0.00 4.04
910 2053 3.201290 GGAATGGTCTAGTACGTCTCGA 58.799 50.000 0.00 0.00 0.00 4.04
911 2054 2.033065 CGGAATGGTCTAGTACGTCTCG 60.033 54.545 0.00 0.00 0.00 4.04
936 2079 2.660064 GCAGAGGGTGGGATCGTGT 61.660 63.158 0.00 0.00 0.00 4.49
983 2134 1.757699 GAGTGAGTATGGTGGGAGGAC 59.242 57.143 0.00 0.00 0.00 3.85
1024 2183 2.287849 TGTGTGTGTGTGTTTGTGTTGG 60.288 45.455 0.00 0.00 0.00 3.77
1056 2215 1.476085 TGCTGTTGAGTTTGTGTTGGG 59.524 47.619 0.00 0.00 0.00 4.12
1064 2223 0.314935 CCGCCATTGCTGTTGAGTTT 59.685 50.000 0.00 0.00 34.43 2.66
1148 2307 1.620822 GGAGGCCTTTTTCTGCAAGA 58.379 50.000 6.77 0.00 44.68 3.02
1151 2310 1.228862 GGGGAGGCCTTTTTCTGCA 60.229 57.895 6.77 0.00 0.00 4.41
1250 2409 3.374402 CCGTCGTGGAGGAGCACT 61.374 66.667 0.00 0.00 42.00 4.40
1286 2445 3.885901 CGAGGTAGTTGAGGATGATGAGA 59.114 47.826 0.00 0.00 0.00 3.27
1508 2667 1.217244 GCCGCCGAAGAAGGACTTA 59.783 57.895 0.00 0.00 39.13 2.24
1795 3127 4.813027 ACAACTACTACGTACCACCAATG 58.187 43.478 0.00 0.00 0.00 2.82
1813 3145 1.937899 AGTACACGACCAAGCAACAAC 59.062 47.619 0.00 0.00 0.00 3.32
1815 3147 1.937223 CAAGTACACGACCAAGCAACA 59.063 47.619 0.00 0.00 0.00 3.33
1816 3148 1.937899 ACAAGTACACGACCAAGCAAC 59.062 47.619 0.00 0.00 0.00 4.17
1817 3149 1.937223 CACAAGTACACGACCAAGCAA 59.063 47.619 0.00 0.00 0.00 3.91
1818 3150 1.137282 TCACAAGTACACGACCAAGCA 59.863 47.619 0.00 0.00 0.00 3.91
1819 3151 1.525619 GTCACAAGTACACGACCAAGC 59.474 52.381 0.00 0.00 0.00 4.01
1820 3152 1.784856 CGTCACAAGTACACGACCAAG 59.215 52.381 0.00 0.00 35.49 3.61
1841 3316 1.915952 TACACACACACACACAGACG 58.084 50.000 0.00 0.00 0.00 4.18
1844 3319 3.194062 TGACATACACACACACACACAG 58.806 45.455 0.00 0.00 0.00 3.66
1850 3325 1.396690 CGCGTTGACATACACACACAC 60.397 52.381 0.00 0.00 0.00 3.82
1851 3326 0.855995 CGCGTTGACATACACACACA 59.144 50.000 0.00 0.00 0.00 3.72
1852 3327 0.856641 ACGCGTTGACATACACACAC 59.143 50.000 5.58 0.00 0.00 3.82
1855 3330 2.055838 GAAGACGCGTTGACATACACA 58.944 47.619 15.53 0.00 0.00 3.72
1856 3331 2.325761 AGAAGACGCGTTGACATACAC 58.674 47.619 15.53 0.00 0.00 2.90
1857 3332 2.717580 AGAAGACGCGTTGACATACA 57.282 45.000 15.53 0.00 0.00 2.29
1858 3333 2.984471 TGAAGAAGACGCGTTGACATAC 59.016 45.455 15.53 0.00 0.00 2.39
1859 3334 3.242518 CTGAAGAAGACGCGTTGACATA 58.757 45.455 15.53 0.00 0.00 2.29
1860 3335 2.061773 CTGAAGAAGACGCGTTGACAT 58.938 47.619 15.53 0.00 0.00 3.06
1861 3336 1.202371 ACTGAAGAAGACGCGTTGACA 60.202 47.619 15.53 7.69 0.00 3.58
1862 3337 1.488527 ACTGAAGAAGACGCGTTGAC 58.511 50.000 15.53 7.84 0.00 3.18
1863 3338 1.858458 CAACTGAAGAAGACGCGTTGA 59.142 47.619 15.53 0.00 35.11 3.18
1864 3339 1.070577 CCAACTGAAGAAGACGCGTTG 60.071 52.381 15.53 2.79 33.47 4.10
1865 3340 1.217882 CCAACTGAAGAAGACGCGTT 58.782 50.000 15.53 0.00 0.00 4.84
1866 3341 0.600255 CCCAACTGAAGAAGACGCGT 60.600 55.000 13.85 13.85 0.00 6.01
1867 3342 1.291877 CCCCAACTGAAGAAGACGCG 61.292 60.000 3.53 3.53 0.00 6.01
1868 3343 1.578206 GCCCCAACTGAAGAAGACGC 61.578 60.000 0.00 0.00 0.00 5.19
1869 3344 0.250295 TGCCCCAACTGAAGAAGACG 60.250 55.000 0.00 0.00 0.00 4.18
1954 3429 2.233271 CATTGTCAGCCAGTGGAAGTT 58.767 47.619 15.20 0.00 0.00 2.66
1960 3435 0.883833 GAACCCATTGTCAGCCAGTG 59.116 55.000 0.00 0.00 0.00 3.66
2057 3543 3.243704 ACACCAATAGCGCAACAAAACAT 60.244 39.130 11.47 0.00 0.00 2.71
2058 3544 2.099921 ACACCAATAGCGCAACAAAACA 59.900 40.909 11.47 0.00 0.00 2.83
2059 3545 2.738135 ACACCAATAGCGCAACAAAAC 58.262 42.857 11.47 0.00 0.00 2.43
2061 3547 2.099921 ACAACACCAATAGCGCAACAAA 59.900 40.909 11.47 0.00 0.00 2.83
2062 3548 1.678627 ACAACACCAATAGCGCAACAA 59.321 42.857 11.47 0.00 0.00 2.83
2063 3549 1.265635 GACAACACCAATAGCGCAACA 59.734 47.619 11.47 0.00 0.00 3.33
2064 3550 1.265635 TGACAACACCAATAGCGCAAC 59.734 47.619 11.47 0.00 0.00 4.17
2065 3551 1.535028 CTGACAACACCAATAGCGCAA 59.465 47.619 11.47 0.00 0.00 4.85
2066 3552 1.155889 CTGACAACACCAATAGCGCA 58.844 50.000 11.47 0.00 0.00 6.09
2067 3553 0.447801 CCTGACAACACCAATAGCGC 59.552 55.000 0.00 0.00 0.00 5.92
2068 3554 1.808411 ACCTGACAACACCAATAGCG 58.192 50.000 0.00 0.00 0.00 4.26
2069 3555 4.037446 TGAAAACCTGACAACACCAATAGC 59.963 41.667 0.00 0.00 0.00 2.97
2070 3556 5.766150 TGAAAACCTGACAACACCAATAG 57.234 39.130 0.00 0.00 0.00 1.73
2071 3557 7.825331 TTATGAAAACCTGACAACACCAATA 57.175 32.000 0.00 0.00 0.00 1.90
2072 3558 6.723298 TTATGAAAACCTGACAACACCAAT 57.277 33.333 0.00 0.00 0.00 3.16
2163 3659 9.998106 TTTAAGGAGCTCCAATTATATGTACTC 57.002 33.333 33.90 1.29 38.89 2.59
2198 4359 1.970092 TCGTTCAATTTTGACCCGGT 58.030 45.000 0.00 0.00 36.83 5.28
2199 4360 3.057876 TGAATCGTTCAATTTTGACCCGG 60.058 43.478 0.00 0.00 36.83 5.73
2215 4395 9.624697 TGAGGTTTTCAATTTAGAATTGAATCG 57.375 29.630 22.28 0.00 44.45 3.34
2247 4529 5.768164 ACACATAGTTTTTAAGGTCCCACAG 59.232 40.000 0.00 0.00 0.00 3.66
2249 4531 5.533528 ACACACATAGTTTTTAAGGTCCCAC 59.466 40.000 0.00 0.00 0.00 4.61
2285 4701 9.751542 TTTTAGGTCGATTTTTGAAAATTAGCA 57.248 25.926 3.45 0.00 38.64 3.49
2321 4737 5.105797 TGGGTTACAGTCGATATTACGTGTT 60.106 40.000 0.00 0.00 34.70 3.32
2369 4785 7.116948 TGTTGAAAATCATTTGTGTTGTCGTTT 59.883 29.630 0.00 0.00 0.00 3.60
2391 4807 5.862924 AGTGGTTTCGTTGATCTATGTTG 57.137 39.130 0.00 0.00 0.00 3.33
2402 4818 3.623703 ACCCTTAACAAGTGGTTTCGTT 58.376 40.909 0.00 0.00 40.96 3.85
2409 4825 4.360951 TGGTCTAACCCTTAACAAGTGG 57.639 45.455 0.00 0.00 37.50 4.00
2536 4953 2.197577 GCCTCAGAAATGCGTCTAGAC 58.802 52.381 13.18 13.18 0.00 2.59
2537 4954 1.824852 TGCCTCAGAAATGCGTCTAGA 59.175 47.619 0.00 0.00 0.00 2.43
2538 4955 2.299993 TGCCTCAGAAATGCGTCTAG 57.700 50.000 0.00 0.00 0.00 2.43
2539 4956 2.760634 TTGCCTCAGAAATGCGTCTA 57.239 45.000 0.00 0.00 0.00 2.59
2540 4957 1.896220 TTTGCCTCAGAAATGCGTCT 58.104 45.000 0.00 0.00 0.00 4.18
2542 4959 1.131126 CGATTTGCCTCAGAAATGCGT 59.869 47.619 0.00 0.00 0.00 5.24
2544 4961 1.202336 CCCGATTTGCCTCAGAAATGC 60.202 52.381 0.00 0.00 0.00 3.56
2545 4962 2.098117 GTCCCGATTTGCCTCAGAAATG 59.902 50.000 0.00 0.00 0.00 2.32
2547 4964 1.613255 GGTCCCGATTTGCCTCAGAAA 60.613 52.381 0.00 0.00 0.00 2.52
2548 4965 0.035439 GGTCCCGATTTGCCTCAGAA 60.035 55.000 0.00 0.00 0.00 3.02
2549 4966 1.602237 GGTCCCGATTTGCCTCAGA 59.398 57.895 0.00 0.00 0.00 3.27
2550 4967 1.815421 CGGTCCCGATTTGCCTCAG 60.815 63.158 0.00 0.00 42.83 3.35
2551 4968 2.267642 CGGTCCCGATTTGCCTCA 59.732 61.111 0.00 0.00 42.83 3.86
2552 4969 2.582436 TCGGTCCCGATTTGCCTC 59.418 61.111 3.90 0.00 44.01 4.70
2561 4978 0.870307 CTAGACGCAAATCGGTCCCG 60.870 60.000 0.00 0.00 43.86 5.14
2573 4990 2.531206 GTCTTGTGTCCATCTAGACGC 58.469 52.381 0.00 0.00 45.50 5.19
2635 5052 4.641645 TGGTTGGCCGGCTGACAG 62.642 66.667 28.56 0.00 37.67 3.51
2661 5078 3.768757 CACATGTGTGGATTAAATGGGGT 59.231 43.478 18.03 0.00 42.10 4.95
2676 5093 1.767036 TGGGACCCTTCCACATGTG 59.233 57.895 19.31 19.31 44.98 3.21
2677 5094 4.348684 TGGGACCCTTCCACATGT 57.651 55.556 13.00 0.00 44.98 3.21
2694 5111 2.105128 GATGGCTAGCTGACGCGT 59.895 61.111 13.85 13.85 42.32 6.01
2696 5113 2.280457 GGGATGGCTAGCTGACGC 60.280 66.667 15.72 10.24 0.00 5.19
2704 5121 2.039831 GGGTGGAGGGGATGGCTA 60.040 66.667 0.00 0.00 0.00 3.93
2707 5124 3.099170 CCAGGGTGGAGGGGATGG 61.099 72.222 0.00 0.00 40.96 3.51
2710 5127 4.348495 GGACCAGGGTGGAGGGGA 62.348 72.222 0.00 0.00 40.96 4.81
2722 5140 1.686052 GTGTGGCATTGAAAAGGACCA 59.314 47.619 0.00 0.00 32.16 4.02
2732 5150 2.174107 CTCGCACGTGTGGCATTG 59.826 61.111 27.49 10.18 0.00 2.82
2748 5166 2.042843 CTAGCCGGACCCTCCACT 60.043 66.667 5.05 0.00 35.91 4.00
2757 5175 0.252103 AGGGAAGTGAACTAGCCGGA 60.252 55.000 5.05 0.00 0.00 5.14
2764 5182 3.711704 TGAAGAAGACAGGGAAGTGAACT 59.288 43.478 0.00 0.00 0.00 3.01
2765 5183 4.061596 CTGAAGAAGACAGGGAAGTGAAC 58.938 47.826 0.00 0.00 0.00 3.18
2767 5185 2.037772 GCTGAAGAAGACAGGGAAGTGA 59.962 50.000 0.00 0.00 36.09 3.41
2768 5186 2.038295 AGCTGAAGAAGACAGGGAAGTG 59.962 50.000 0.00 0.00 36.09 3.16
2769 5187 2.301583 GAGCTGAAGAAGACAGGGAAGT 59.698 50.000 0.00 0.00 36.09 3.01
2770 5188 2.354604 GGAGCTGAAGAAGACAGGGAAG 60.355 54.545 0.00 0.00 36.09 3.46
2771 5189 1.625818 GGAGCTGAAGAAGACAGGGAA 59.374 52.381 0.00 0.00 36.09 3.97
2772 5190 1.203237 AGGAGCTGAAGAAGACAGGGA 60.203 52.381 0.00 0.00 36.09 4.20
2773 5191 1.206849 GAGGAGCTGAAGAAGACAGGG 59.793 57.143 0.00 0.00 36.09 4.45
2774 5192 2.178580 AGAGGAGCTGAAGAAGACAGG 58.821 52.381 0.00 0.00 36.09 4.00
2801 5219 3.723348 GTTTGTCGGCTGTCGGGC 61.723 66.667 0.30 0.00 39.77 6.13
2802 5220 3.047877 GGTTTGTCGGCTGTCGGG 61.048 66.667 0.30 0.00 39.77 5.14
2803 5221 2.162338 TAGGGTTTGTCGGCTGTCGG 62.162 60.000 0.30 0.00 39.77 4.79
2804 5222 0.736325 CTAGGGTTTGTCGGCTGTCG 60.736 60.000 0.00 0.00 40.90 4.35
2805 5223 1.019805 GCTAGGGTTTGTCGGCTGTC 61.020 60.000 0.00 0.00 0.00 3.51
2806 5224 1.003718 GCTAGGGTTTGTCGGCTGT 60.004 57.895 0.00 0.00 0.00 4.40
2807 5225 1.745489 GGCTAGGGTTTGTCGGCTG 60.745 63.158 0.00 0.00 0.00 4.85
2808 5226 2.221299 TGGCTAGGGTTTGTCGGCT 61.221 57.895 0.00 0.00 0.00 5.52
2809 5227 2.038837 GTGGCTAGGGTTTGTCGGC 61.039 63.158 0.00 0.00 0.00 5.54
2810 5228 1.376812 GGTGGCTAGGGTTTGTCGG 60.377 63.158 0.00 0.00 0.00 4.79
2811 5229 1.740296 CGGTGGCTAGGGTTTGTCG 60.740 63.158 0.00 0.00 0.00 4.35
2812 5230 2.038837 GCGGTGGCTAGGGTTTGTC 61.039 63.158 0.00 0.00 35.83 3.18
2813 5231 2.033602 GCGGTGGCTAGGGTTTGT 59.966 61.111 0.00 0.00 35.83 2.83
2814 5232 2.750237 GGCGGTGGCTAGGGTTTG 60.750 66.667 0.00 0.00 39.81 2.93
2815 5233 4.404098 CGGCGGTGGCTAGGGTTT 62.404 66.667 0.00 0.00 39.81 3.27
2820 5238 4.587189 GTAGGCGGCGGTGGCTAG 62.587 72.222 9.78 0.00 46.25 3.42
2828 5246 4.814294 GAGTGGTGGTAGGCGGCG 62.814 72.222 0.51 0.51 0.00 6.46
2829 5247 4.814294 CGAGTGGTGGTAGGCGGC 62.814 72.222 0.00 0.00 0.00 6.53
2830 5248 2.939261 AACGAGTGGTGGTAGGCGG 61.939 63.158 0.00 0.00 0.00 6.13
2831 5249 1.736645 CAACGAGTGGTGGTAGGCG 60.737 63.158 0.00 0.00 0.00 5.52
2832 5250 1.375523 CCAACGAGTGGTGGTAGGC 60.376 63.158 0.00 0.00 43.20 3.93
2841 5259 1.336440 TGACATTTTGGCCAACGAGTG 59.664 47.619 20.35 14.27 0.00 3.51
2842 5260 1.686355 TGACATTTTGGCCAACGAGT 58.314 45.000 20.35 16.45 0.00 4.18
2843 5261 2.598589 CATGACATTTTGGCCAACGAG 58.401 47.619 20.35 13.08 0.00 4.18
2844 5262 1.271934 CCATGACATTTTGGCCAACGA 59.728 47.619 20.35 10.72 0.00 3.85
2845 5263 1.271934 TCCATGACATTTTGGCCAACG 59.728 47.619 20.35 12.48 32.80 4.10
2846 5264 3.244181 ACTTCCATGACATTTTGGCCAAC 60.244 43.478 20.35 6.91 32.80 3.77
2847 5265 2.971330 ACTTCCATGACATTTTGGCCAA 59.029 40.909 16.05 16.05 32.80 4.52
2848 5266 2.299582 CACTTCCATGACATTTTGGCCA 59.700 45.455 0.00 0.00 32.80 5.36
2849 5267 2.354003 CCACTTCCATGACATTTTGGCC 60.354 50.000 0.00 0.00 32.80 5.36
2850 5268 2.562298 TCCACTTCCATGACATTTTGGC 59.438 45.455 0.00 0.00 32.80 4.52
2851 5269 4.142093 GGATCCACTTCCATGACATTTTGG 60.142 45.833 6.95 0.00 35.72 3.28
2852 5270 4.142093 GGGATCCACTTCCATGACATTTTG 60.142 45.833 15.23 0.00 37.53 2.44
2853 5271 4.026052 GGGATCCACTTCCATGACATTTT 58.974 43.478 15.23 0.00 37.53 1.82
2854 5272 3.635591 GGGATCCACTTCCATGACATTT 58.364 45.455 15.23 0.00 37.53 2.32
2855 5273 2.421952 CGGGATCCACTTCCATGACATT 60.422 50.000 15.23 0.00 37.53 2.71
2856 5274 1.141657 CGGGATCCACTTCCATGACAT 59.858 52.381 15.23 0.00 37.53 3.06
2857 5275 0.541392 CGGGATCCACTTCCATGACA 59.459 55.000 15.23 0.00 37.53 3.58
2858 5276 0.179045 CCGGGATCCACTTCCATGAC 60.179 60.000 15.23 0.00 37.53 3.06
2859 5277 1.344953 CCCGGGATCCACTTCCATGA 61.345 60.000 18.48 0.00 37.53 3.07
2860 5278 1.149174 CCCGGGATCCACTTCCATG 59.851 63.158 18.48 0.00 37.53 3.66
2861 5279 2.078665 CCCCGGGATCCACTTCCAT 61.079 63.158 26.32 0.00 37.53 3.41
2862 5280 2.690881 CCCCGGGATCCACTTCCA 60.691 66.667 26.32 0.00 37.53 3.53
2863 5281 1.984288 CTTCCCCGGGATCCACTTCC 61.984 65.000 26.32 0.00 34.83 3.46
2864 5282 1.527370 CTTCCCCGGGATCCACTTC 59.473 63.158 26.32 0.00 0.00 3.01
2865 5283 2.680370 GCTTCCCCGGGATCCACTT 61.680 63.158 26.32 0.00 0.00 3.16
2866 5284 3.090532 GCTTCCCCGGGATCCACT 61.091 66.667 26.32 0.00 0.00 4.00
2867 5285 4.191015 GGCTTCCCCGGGATCCAC 62.191 72.222 26.32 7.03 0.00 4.02
2877 5295 0.610785 TCATGGTTTTCGGGCTTCCC 60.611 55.000 0.00 0.00 41.09 3.97
2878 5296 0.526211 GTCATGGTTTTCGGGCTTCC 59.474 55.000 0.00 0.00 0.00 3.46
2879 5297 0.168128 CGTCATGGTTTTCGGGCTTC 59.832 55.000 0.00 0.00 0.00 3.86
2880 5298 0.250553 TCGTCATGGTTTTCGGGCTT 60.251 50.000 0.00 0.00 0.00 4.35
2881 5299 0.953960 GTCGTCATGGTTTTCGGGCT 60.954 55.000 0.00 0.00 0.00 5.19
2882 5300 1.500396 GTCGTCATGGTTTTCGGGC 59.500 57.895 0.00 0.00 0.00 6.13
2883 5301 0.668096 TCGTCGTCATGGTTTTCGGG 60.668 55.000 0.00 0.00 0.00 5.14
2884 5302 1.060553 CATCGTCGTCATGGTTTTCGG 59.939 52.381 0.00 0.00 0.00 4.30
2885 5303 1.724623 ACATCGTCGTCATGGTTTTCG 59.275 47.619 0.00 0.00 0.00 3.46
2886 5304 3.479006 CAACATCGTCGTCATGGTTTTC 58.521 45.455 0.00 0.00 0.00 2.29
2887 5305 2.225491 CCAACATCGTCGTCATGGTTTT 59.775 45.455 0.00 0.00 0.00 2.43
2888 5306 1.804151 CCAACATCGTCGTCATGGTTT 59.196 47.619 0.00 0.00 0.00 3.27
2889 5307 1.438651 CCAACATCGTCGTCATGGTT 58.561 50.000 0.00 0.00 0.00 3.67
2890 5308 1.019278 GCCAACATCGTCGTCATGGT 61.019 55.000 0.00 0.00 0.00 3.55
2891 5309 0.740868 AGCCAACATCGTCGTCATGG 60.741 55.000 0.00 0.00 0.00 3.66
2892 5310 0.647410 GAGCCAACATCGTCGTCATG 59.353 55.000 0.00 0.00 0.00 3.07
2893 5311 0.246360 TGAGCCAACATCGTCGTCAT 59.754 50.000 0.00 0.00 0.00 3.06
2894 5312 0.246360 ATGAGCCAACATCGTCGTCA 59.754 50.000 0.00 0.00 0.00 4.35
2895 5313 0.924090 GATGAGCCAACATCGTCGTC 59.076 55.000 0.00 0.00 37.50 4.20
2896 5314 3.050703 GATGAGCCAACATCGTCGT 57.949 52.632 0.00 0.00 37.50 4.34
2901 5319 2.695314 GGGACGATGAGCCAACATC 58.305 57.895 0.00 0.00 41.98 3.06
2902 5320 4.963878 GGGACGATGAGCCAACAT 57.036 55.556 0.00 0.00 0.00 2.71


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

AutoCloner maintained by Alex Coulton.