Multiple sequence alignment - TraesCS5B01G561400

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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 TraesCS5B01G561400 chr5B 100.000 2876 0 0 1 2876 707474966 707477841 0.000000e+00 5312.0
1 TraesCS5B01G561400 chr5B 89.775 489 38 8 1018 1494 707439994 707440482 1.460000e-172 616.0
2 TraesCS5B01G561400 chr5B 87.043 301 29 6 2100 2399 707452172 707452463 5.940000e-87 331.0
3 TraesCS5B01G561400 chr5B 87.037 162 20 1 1339 1499 529988183 529988344 6.330000e-42 182.0
4 TraesCS5B01G561400 chr5B 84.568 162 24 1 1339 1499 529609311 529609472 2.970000e-35 159.0
5 TraesCS5B01G561400 chr5B 88.462 104 6 4 1969 2072 707451944 707452041 1.400000e-23 121.0
6 TraesCS5B01G561400 chr5B 80.672 119 15 5 2675 2789 568667541 568667655 5.110000e-13 86.1
7 TraesCS5B01G561400 chr5D 90.898 1648 104 27 256 1897 565660456 565658849 0.000000e+00 2170.0
8 TraesCS5B01G561400 chr5D 85.762 892 58 36 1943 2795 565658848 565657987 0.000000e+00 880.0
9 TraesCS5B01G561400 chr5D 90.593 489 34 7 1018 1497 565703097 565702612 3.130000e-179 638.0
10 TraesCS5B01G561400 chr5D 86.047 301 31 7 2100 2399 565690003 565689713 2.150000e-81 313.0
11 TraesCS5B01G561400 chr5D 95.109 184 9 0 81 264 565660675 565660492 1.010000e-74 291.0
12 TraesCS5B01G561400 chr5D 87.200 250 32 0 1628 1877 565702613 565702364 4.690000e-73 285.0
13 TraesCS5B01G561400 chr5D 80.000 115 19 4 414 525 62137063 62136950 6.600000e-12 82.4
14 TraesCS5B01G561400 chr4A 90.827 1330 82 22 583 1897 607178712 607177408 0.000000e+00 1744.0
15 TraesCS5B01G561400 chr4A 90.593 489 34 7 1018 1497 607262047 607261562 3.130000e-179 638.0
16 TraesCS5B01G561400 chr4A 88.489 417 23 12 2252 2644 607177019 607176604 5.570000e-132 481.0
17 TraesCS5B01G561400 chr4A 84.802 454 43 14 1435 1883 607235964 607235532 1.580000e-117 433.0
18 TraesCS5B01G561400 chr4A 92.664 259 19 0 13 271 607180201 607179943 9.730000e-100 374.0
19 TraesCS5B01G561400 chr4A 86.744 347 24 4 256 596 607179918 607179588 1.630000e-97 366.0
20 TraesCS5B01G561400 chr4A 86.909 275 24 6 1973 2239 607177407 607177137 6.020000e-77 298.0
21 TraesCS5B01G561400 chr4A 87.347 245 22 5 2100 2343 607235268 607235032 3.650000e-69 272.0
22 TraesCS5B01G561400 chr4A 86.056 251 35 0 1627 1877 607261564 607261314 1.310000e-68 270.0
23 TraesCS5B01G561400 chr4A 97.222 36 1 0 830 865 607263046 607263011 8.600000e-06 62.1
24 TraesCS5B01G561400 chr2A 85.915 142 18 2 384 524 642364259 642364119 1.790000e-32 150.0
25 TraesCS5B01G561400 chr2A 84.028 144 21 2 384 526 737827712 737827570 1.390000e-28 137.0
26 TraesCS5B01G561400 chr2A 87.931 58 6 1 384 441 360764999 360764943 1.850000e-07 67.6
27 TraesCS5B01G561400 chr7B 84.722 144 20 2 384 526 37859030 37858888 2.990000e-30 143.0
28 TraesCS5B01G561400 chr7B 79.612 206 25 14 35 228 23145025 23144825 6.470000e-27 132.0
29 TraesCS5B01G561400 chr7B 82.500 120 11 6 2675 2789 620533054 620533168 2.360000e-16 97.1
30 TraesCS5B01G561400 chr3B 84.615 143 18 4 384 524 158208088 158208228 3.860000e-29 139.0
31 TraesCS5B01G561400 chr3B 83.186 113 9 6 2675 2783 267000549 267000655 8.480000e-16 95.3
32 TraesCS5B01G561400 chr1A 83.803 142 22 1 388 528 437239623 437239482 1.800000e-27 134.0
33 TraesCS5B01G561400 chr4D 83.333 144 18 5 384 524 44231537 44231677 8.360000e-26 128.0
34 TraesCS5B01G561400 chr4D 82.500 120 11 6 2675 2789 497068003 497067889 2.360000e-16 97.1
35 TraesCS5B01G561400 chr7A 82.500 120 11 7 2675 2789 170541726 170541840 2.360000e-16 97.1
36 TraesCS5B01G561400 chr5A 82.114 123 12 5 2675 2792 671192221 671192104 2.360000e-16 97.1
37 TraesCS5B01G561400 chr4B 80.672 119 15 5 2675 2789 535407151 535407265 5.110000e-13 86.1
38 TraesCS5B01G561400 chr4B 80.328 122 16 5 2675 2792 576705523 576705406 5.110000e-13 86.1
39 TraesCS5B01G561400 chr1B 80.672 119 15 5 2675 2789 337741074 337741188 5.110000e-13 86.1
40 TraesCS5B01G561400 chr6D 87.273 55 7 0 2822 2876 4070599 4070653 2.390000e-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 TraesCS5B01G561400 chr5B 707474966 707477841 2875 False 5312.000000 5312 100.000000 1 2876 1 chr5B.!!$F5 2875
1 TraesCS5B01G561400 chr5B 707451944 707452463 519 False 226.000000 331 87.752500 1969 2399 2 chr5B.!!$F6 430
2 TraesCS5B01G561400 chr5D 565657987 565660675 2688 True 1113.666667 2170 90.589667 81 2795 3 chr5D.!!$R3 2714
3 TraesCS5B01G561400 chr5D 565702364 565703097 733 True 461.500000 638 88.896500 1018 1877 2 chr5D.!!$R4 859
4 TraesCS5B01G561400 chr4A 607176604 607180201 3597 True 652.600000 1744 89.126600 13 2644 5 chr4A.!!$R1 2631
5 TraesCS5B01G561400 chr4A 607235032 607235964 932 True 352.500000 433 86.074500 1435 2343 2 chr4A.!!$R2 908
6 TraesCS5B01G561400 chr4A 607261314 607263046 1732 True 323.366667 638 91.290333 830 1877 3 chr4A.!!$R3 1047

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
975 2764 1.805945 GCAGCTAGTACGTGCGCTT 60.806 57.895 9.73 0.0 0.0 4.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1884 3712 0.462759 CCAGCACTACAAGGCTAGGC 60.463 60.0 8.55 8.55 38.56 3.93 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
43 44 9.609950 CTGAGAAATCTGAAGTCAAAAGAATTC 57.390 33.333 0.00 0.00 32.41 2.17
61 62 4.907879 ATTCGATTGCCTCTCCAAAATC 57.092 40.909 0.00 0.00 0.00 2.17
131 132 9.887862 AATAGTTGGATTTTCCCATAATCTCAT 57.112 29.630 0.00 0.00 35.03 2.90
352 402 2.681778 CCGCCAGTCTGGACTCCT 60.682 66.667 23.77 0.00 40.96 3.69
353 403 2.575993 CGCCAGTCTGGACTCCTG 59.424 66.667 23.77 0.50 40.96 3.86
434 484 9.918630 AATCTCAAACTGTAATCTCAAAAATGG 57.081 29.630 0.00 0.00 0.00 3.16
444 494 2.297880 TCTCAAAAATGGACTCGACGGA 59.702 45.455 0.00 0.00 0.00 4.69
446 496 3.468770 TCAAAAATGGACTCGACGGAAA 58.531 40.909 0.00 0.00 0.00 3.13
449 499 5.701750 TCAAAAATGGACTCGACGGAAAATA 59.298 36.000 0.00 0.00 0.00 1.40
479 530 6.483640 GGAAGTATATTCTCGGAGCATTTTGT 59.516 38.462 0.00 0.00 0.00 2.83
543 594 4.917415 GCCTTAATTGCACTACACAAACAG 59.083 41.667 0.00 0.00 0.00 3.16
661 1604 9.239551 TCAAGTAGCTCTGTTGTACTAATTCTA 57.760 33.333 0.00 0.00 0.00 2.10
665 1608 9.085250 GTAGCTCTGTTGTACTAATTCTAAACC 57.915 37.037 0.00 0.00 0.00 3.27
946 2735 3.835395 GCCTACCTAGATTCTACCTGCAT 59.165 47.826 0.00 0.00 0.00 3.96
947 2736 4.081917 GCCTACCTAGATTCTACCTGCATC 60.082 50.000 0.00 0.00 0.00 3.91
948 2737 5.080337 CCTACCTAGATTCTACCTGCATCA 58.920 45.833 0.00 0.00 0.00 3.07
949 2738 5.540337 CCTACCTAGATTCTACCTGCATCAA 59.460 44.000 0.00 0.00 0.00 2.57
950 2739 5.543507 ACCTAGATTCTACCTGCATCAAG 57.456 43.478 0.00 0.00 0.00 3.02
951 2740 4.202305 ACCTAGATTCTACCTGCATCAAGC 60.202 45.833 0.00 0.00 45.96 4.01
952 2741 4.040217 CCTAGATTCTACCTGCATCAAGCT 59.960 45.833 0.00 0.00 45.94 3.74
974 2763 2.202623 GCAGCTAGTACGTGCGCT 60.203 61.111 9.73 0.00 0.00 5.92
975 2764 1.805945 GCAGCTAGTACGTGCGCTT 60.806 57.895 9.73 0.00 0.00 4.68
976 2765 1.991430 CAGCTAGTACGTGCGCTTG 59.009 57.895 9.73 2.93 0.00 4.01
999 2790 1.375908 GGCACAGTCAAGGCGATCA 60.376 57.895 0.00 0.00 0.00 2.92
1012 2803 5.012458 TCAAGGCGATCAATGGATAGAGATT 59.988 40.000 0.00 0.00 32.67 2.40
1128 2948 0.036765 GGGTATGCGTGTTCTGTGGA 60.037 55.000 0.00 0.00 0.00 4.02
1159 2979 4.078516 GGAAGGCGGCGTACCAGT 62.079 66.667 9.37 0.00 34.57 4.00
1502 3322 0.319211 CACGACAAGCCGGTTAGTGA 60.319 55.000 1.90 0.00 34.07 3.41
1507 3327 0.736325 CAAGCCGGTTAGTGACCTCG 60.736 60.000 1.90 0.00 46.92 4.63
1544 3367 8.950403 AACTCGCAAAGAACATATTTTTCTAC 57.050 30.769 0.00 0.00 32.81 2.59
1563 3387 9.743057 TTTTCTACACAGTTCATACAAATTTGG 57.257 29.630 21.74 4.96 0.00 3.28
1590 3414 9.643693 GATGAATTTGGTTAGATTTTGTGATGT 57.356 29.630 0.00 0.00 0.00 3.06
1591 3415 9.643693 ATGAATTTGGTTAGATTTTGTGATGTC 57.356 29.630 0.00 0.00 0.00 3.06
1592 3416 8.859090 TGAATTTGGTTAGATTTTGTGATGTCT 58.141 29.630 0.00 0.00 0.00 3.41
1593 3417 9.346725 GAATTTGGTTAGATTTTGTGATGTCTC 57.653 33.333 0.00 0.00 0.00 3.36
1608 3432 4.872124 TGATGTCTCGTTTGATTGAGATGG 59.128 41.667 0.00 0.00 42.73 3.51
1611 3435 5.491070 TGTCTCGTTTGATTGAGATGGATT 58.509 37.500 0.00 0.00 42.73 3.01
1613 3437 6.430925 TGTCTCGTTTGATTGAGATGGATTTT 59.569 34.615 0.00 0.00 42.73 1.82
1614 3438 6.744537 GTCTCGTTTGATTGAGATGGATTTTG 59.255 38.462 0.00 0.00 42.73 2.44
1656 3483 1.747355 CTGAACGTGGACGGGTACTAT 59.253 52.381 3.93 0.00 44.95 2.12
1661 3488 1.747355 CGTGGACGGGTACTATGACTT 59.253 52.381 0.00 0.00 35.37 3.01
1707 3535 3.319198 GAGGAGGGGTTCGTGGCA 61.319 66.667 0.00 0.00 0.00 4.92
1758 3586 2.603473 ACACCCGGTGAGCTGCTA 60.603 61.111 24.80 0.00 36.96 3.49
1866 3694 1.075482 ACCACCCAAGCCAGACATG 59.925 57.895 0.00 0.00 0.00 3.21
1881 3709 0.103208 ACATGTCACGCTAGCTAGCC 59.897 55.000 34.27 22.67 46.34 3.93
1882 3710 0.387202 CATGTCACGCTAGCTAGCCT 59.613 55.000 34.27 23.23 46.34 4.58
1883 3711 1.609072 CATGTCACGCTAGCTAGCCTA 59.391 52.381 34.27 19.88 46.34 3.93
1884 3712 1.309950 TGTCACGCTAGCTAGCCTAG 58.690 55.000 34.27 24.43 46.34 3.02
1895 3723 1.710816 CTAGCCTAGCCTAGCCTTGT 58.289 55.000 0.00 0.00 0.00 3.16
1896 3724 2.877866 CTAGCCTAGCCTAGCCTTGTA 58.122 52.381 0.00 0.00 0.00 2.41
1897 3725 1.710816 AGCCTAGCCTAGCCTTGTAG 58.289 55.000 0.00 0.00 0.00 2.74
1898 3726 1.062810 AGCCTAGCCTAGCCTTGTAGT 60.063 52.381 0.00 0.00 0.00 2.73
1899 3727 1.069358 GCCTAGCCTAGCCTTGTAGTG 59.931 57.143 0.00 0.00 0.00 2.74
1900 3728 1.069358 CCTAGCCTAGCCTTGTAGTGC 59.931 57.143 0.00 0.00 0.00 4.40
1901 3729 2.035632 CTAGCCTAGCCTTGTAGTGCT 58.964 52.381 0.00 0.00 41.57 4.40
1902 3730 0.539051 AGCCTAGCCTTGTAGTGCTG 59.461 55.000 0.00 0.00 38.52 4.41
1903 3731 0.462759 GCCTAGCCTTGTAGTGCTGG 60.463 60.000 0.00 0.00 38.52 4.85
1904 3732 0.905357 CCTAGCCTTGTAGTGCTGGT 59.095 55.000 0.00 0.00 38.52 4.00
1905 3733 2.108168 CCTAGCCTTGTAGTGCTGGTA 58.892 52.381 0.00 0.00 38.52 3.25
1906 3734 2.101582 CCTAGCCTTGTAGTGCTGGTAG 59.898 54.545 0.00 0.00 38.52 3.18
1907 3735 1.645710 AGCCTTGTAGTGCTGGTAGT 58.354 50.000 0.00 0.00 36.23 2.73
1908 3736 2.816411 AGCCTTGTAGTGCTGGTAGTA 58.184 47.619 0.00 0.00 36.23 1.82
1909 3737 3.375699 AGCCTTGTAGTGCTGGTAGTAT 58.624 45.455 0.00 0.00 36.23 2.12
1910 3738 4.543689 AGCCTTGTAGTGCTGGTAGTATA 58.456 43.478 0.00 0.00 36.23 1.47
1911 3739 5.148502 AGCCTTGTAGTGCTGGTAGTATAT 58.851 41.667 0.00 0.00 36.23 0.86
1912 3740 6.312529 AGCCTTGTAGTGCTGGTAGTATATA 58.687 40.000 0.00 0.00 36.23 0.86
1913 3741 6.954684 AGCCTTGTAGTGCTGGTAGTATATAT 59.045 38.462 0.00 0.00 36.23 0.86
1914 3742 7.455008 AGCCTTGTAGTGCTGGTAGTATATATT 59.545 37.037 0.00 0.00 36.23 1.28
1915 3743 8.095169 GCCTTGTAGTGCTGGTAGTATATATTT 58.905 37.037 0.00 0.00 0.00 1.40
1916 3744 9.640963 CCTTGTAGTGCTGGTAGTATATATTTC 57.359 37.037 0.00 0.00 0.00 2.17
1955 3783 9.616156 CATGAAGTAGAAGTACTAGTCTAGGAA 57.384 37.037 11.61 0.00 38.66 3.36
1958 3786 9.112725 GAAGTAGAAGTACTAGTCTAGGAAAGG 57.887 40.741 11.61 0.00 38.66 3.11
1959 3787 8.391305 AGTAGAAGTACTAGTCTAGGAAAGGA 57.609 38.462 11.61 0.00 37.76 3.36
1960 3788 8.488668 AGTAGAAGTACTAGTCTAGGAAAGGAG 58.511 40.741 11.61 0.00 37.76 3.69
1961 3789 6.124340 AGAAGTACTAGTCTAGGAAAGGAGC 58.876 44.000 11.61 0.00 0.00 4.70
1962 3790 5.720486 AGTACTAGTCTAGGAAAGGAGCT 57.280 43.478 11.61 0.00 0.00 4.09
1963 3791 6.828307 AGTACTAGTCTAGGAAAGGAGCTA 57.172 41.667 11.61 0.00 0.00 3.32
1964 3792 6.594744 AGTACTAGTCTAGGAAAGGAGCTAC 58.405 44.000 11.61 0.00 0.00 3.58
2064 3973 7.910683 ACGCGTATACATACTGATATCATGAAG 59.089 37.037 11.67 0.00 0.00 3.02
2206 4231 2.653234 CCATTTCTGGGGAGAGATGG 57.347 55.000 7.11 7.11 41.89 3.51
2213 4238 2.507058 TCTGGGGAGAGATGGTGATTTG 59.493 50.000 0.00 0.00 0.00 2.32
2227 4252 2.038295 GTGATTTGCATTTGGGGGTTCA 59.962 45.455 0.00 0.00 0.00 3.18
2233 4258 1.205966 CATTTGGGGGTTCATGGCAT 58.794 50.000 0.00 0.00 0.00 4.40
2274 4404 1.269361 TGCATGAATGATTGCATCGCC 60.269 47.619 0.00 0.00 43.54 5.54
2304 4435 0.107268 TCGATGATGGATGTGGCCAG 59.893 55.000 5.11 0.00 42.15 4.85
2453 4599 4.408821 GATGCACCACCGGGCAGA 62.409 66.667 6.32 0.00 44.24 4.26
2454 4600 3.704231 GATGCACCACCGGGCAGAT 62.704 63.158 6.32 0.00 44.24 2.90
2488 4634 1.584724 GGGATCTTCTCTGGGGTTGA 58.415 55.000 0.00 0.00 0.00 3.18
2550 4696 1.421268 TGTGCTGTCCAGTCCAATCTT 59.579 47.619 0.00 0.00 0.00 2.40
2554 4700 3.776969 TGCTGTCCAGTCCAATCTTATCT 59.223 43.478 0.00 0.00 0.00 1.98
2644 4810 5.552178 AGTCACCCTCACAATTCTTCTTAC 58.448 41.667 0.00 0.00 0.00 2.34
2648 4814 5.180117 CACCCTCACAATTCTTCTTACACTG 59.820 44.000 0.00 0.00 0.00 3.66
2649 4815 4.697352 CCCTCACAATTCTTCTTACACTGG 59.303 45.833 0.00 0.00 0.00 4.00
2665 4831 4.632153 ACACTGGTCACAATGAGAAGTAC 58.368 43.478 0.00 0.00 0.00 2.73
2669 4835 4.832248 TGGTCACAATGAGAAGTACCATC 58.168 43.478 0.00 0.00 30.84 3.51
2670 4836 4.532126 TGGTCACAATGAGAAGTACCATCT 59.468 41.667 0.00 0.00 30.84 2.90
2671 4837 5.112686 GGTCACAATGAGAAGTACCATCTC 58.887 45.833 15.88 15.88 42.94 2.75
2677 4843 4.743057 TGAGAAGTACCATCTCACCATG 57.257 45.455 19.71 0.00 46.23 3.66
2678 4844 4.096681 TGAGAAGTACCATCTCACCATGT 58.903 43.478 19.71 0.00 46.23 3.21
2713 4879 9.645059 ATCATGCATATTGTACTAGTGTGATAC 57.355 33.333 5.39 0.00 0.00 2.24
2717 4883 9.127277 TGCATATTGTACTAGTGTGATACTACA 57.873 33.333 5.39 0.00 40.89 2.74
2729 4895 7.683578 AGTGTGATACTACATCCATAATGCAT 58.316 34.615 0.00 0.00 38.04 3.96
2731 4897 9.091784 GTGTGATACTACATCCATAATGCATAG 57.908 37.037 0.00 0.00 39.12 2.23
2744 4910 9.166173 TCCATAATGCATAGTATCATAAGTTGC 57.834 33.333 0.00 0.00 0.00 4.17
2768 4934 8.833493 TGCTAGCATCATATATGCATCATTTAC 58.167 33.333 14.93 0.00 46.77 2.01
2794 4960 5.847304 TCATGCATGACATAGTAGAACTCC 58.153 41.667 25.42 0.00 36.64 3.85
2795 4961 4.307443 TGCATGACATAGTAGAACTCCG 57.693 45.455 0.00 0.00 0.00 4.63
2796 4962 3.068165 TGCATGACATAGTAGAACTCCGG 59.932 47.826 0.00 0.00 0.00 5.14
2797 4963 3.068307 GCATGACATAGTAGAACTCCGGT 59.932 47.826 0.00 0.00 0.00 5.28
2798 4964 4.441634 GCATGACATAGTAGAACTCCGGTT 60.442 45.833 0.00 0.00 38.52 4.44
2799 4965 4.713824 TGACATAGTAGAACTCCGGTTG 57.286 45.455 0.00 0.00 35.58 3.77
2800 4966 4.084287 TGACATAGTAGAACTCCGGTTGT 58.916 43.478 0.00 0.00 35.58 3.32
2801 4967 4.082408 TGACATAGTAGAACTCCGGTTGTG 60.082 45.833 0.00 0.00 35.58 3.33
2802 4968 4.084287 ACATAGTAGAACTCCGGTTGTGA 58.916 43.478 0.00 0.00 35.58 3.58
2803 4969 4.710375 ACATAGTAGAACTCCGGTTGTGAT 59.290 41.667 0.00 0.00 35.58 3.06
2804 4970 5.889853 ACATAGTAGAACTCCGGTTGTGATA 59.110 40.000 0.00 0.00 35.58 2.15
2805 4971 4.715527 AGTAGAACTCCGGTTGTGATAC 57.284 45.455 0.00 8.77 35.58 2.24
2806 4972 4.342359 AGTAGAACTCCGGTTGTGATACT 58.658 43.478 0.00 10.67 35.58 2.12
2807 4973 3.870633 AGAACTCCGGTTGTGATACTC 57.129 47.619 0.00 0.00 35.58 2.59
2808 4974 3.162666 AGAACTCCGGTTGTGATACTCA 58.837 45.455 0.00 0.00 35.58 3.41
2809 4975 3.576982 AGAACTCCGGTTGTGATACTCAA 59.423 43.478 0.00 0.00 35.58 3.02
2810 4976 4.223032 AGAACTCCGGTTGTGATACTCAAT 59.777 41.667 0.00 0.00 35.58 2.57
2811 4977 4.124851 ACTCCGGTTGTGATACTCAATC 57.875 45.455 0.00 0.00 34.93 2.67
2812 4978 3.118738 ACTCCGGTTGTGATACTCAATCC 60.119 47.826 0.00 0.00 33.22 3.01
2813 4979 2.169769 TCCGGTTGTGATACTCAATCCC 59.830 50.000 0.00 0.00 33.22 3.85
2814 4980 2.561569 CGGTTGTGATACTCAATCCCC 58.438 52.381 0.00 0.00 33.22 4.81
2815 4981 2.745152 CGGTTGTGATACTCAATCCCCC 60.745 54.545 0.00 0.00 33.22 5.40
2829 4995 3.039526 CCCCCTCCCCCTCTCTCT 61.040 72.222 0.00 0.00 0.00 3.10
2830 4996 2.612251 CCCCTCCCCCTCTCTCTC 59.388 72.222 0.00 0.00 0.00 3.20
2831 4997 2.612251 CCCTCCCCCTCTCTCTCC 59.388 72.222 0.00 0.00 0.00 3.71
2832 4998 2.018086 CCCTCCCCCTCTCTCTCCT 61.018 68.421 0.00 0.00 0.00 3.69
2833 4999 1.541672 CCTCCCCCTCTCTCTCCTC 59.458 68.421 0.00 0.00 0.00 3.71
2834 5000 1.292941 CCTCCCCCTCTCTCTCCTCA 61.293 65.000 0.00 0.00 0.00 3.86
2835 5001 0.859760 CTCCCCCTCTCTCTCCTCAT 59.140 60.000 0.00 0.00 0.00 2.90
2836 5002 1.220236 CTCCCCCTCTCTCTCCTCATT 59.780 57.143 0.00 0.00 0.00 2.57
2837 5003 1.653918 TCCCCCTCTCTCTCCTCATTT 59.346 52.381 0.00 0.00 0.00 2.32
2838 5004 2.865809 TCCCCCTCTCTCTCCTCATTTA 59.134 50.000 0.00 0.00 0.00 1.40
2839 5005 3.274959 TCCCCCTCTCTCTCCTCATTTAA 59.725 47.826 0.00 0.00 0.00 1.52
2840 5006 3.389656 CCCCCTCTCTCTCCTCATTTAAC 59.610 52.174 0.00 0.00 0.00 2.01
2841 5007 4.294347 CCCCTCTCTCTCCTCATTTAACT 58.706 47.826 0.00 0.00 0.00 2.24
2842 5008 4.719273 CCCCTCTCTCTCCTCATTTAACTT 59.281 45.833 0.00 0.00 0.00 2.66
2843 5009 5.190726 CCCCTCTCTCTCCTCATTTAACTTT 59.809 44.000 0.00 0.00 0.00 2.66
2844 5010 6.112058 CCCTCTCTCTCCTCATTTAACTTTG 58.888 44.000 0.00 0.00 0.00 2.77
2845 5011 6.296145 CCCTCTCTCTCCTCATTTAACTTTGT 60.296 42.308 0.00 0.00 0.00 2.83
2846 5012 6.593382 CCTCTCTCTCCTCATTTAACTTTGTG 59.407 42.308 0.00 0.00 0.00 3.33
2847 5013 7.067496 TCTCTCTCCTCATTTAACTTTGTGT 57.933 36.000 0.00 0.00 0.00 3.72
2848 5014 7.155328 TCTCTCTCCTCATTTAACTTTGTGTC 58.845 38.462 0.00 0.00 0.00 3.67
2849 5015 6.826668 TCTCTCCTCATTTAACTTTGTGTCA 58.173 36.000 0.00 0.00 0.00 3.58
2850 5016 6.706270 TCTCTCCTCATTTAACTTTGTGTCAC 59.294 38.462 0.00 0.00 0.00 3.67
2851 5017 5.763204 TCTCCTCATTTAACTTTGTGTCACC 59.237 40.000 0.00 0.00 0.00 4.02
2852 5018 5.690865 TCCTCATTTAACTTTGTGTCACCT 58.309 37.500 0.00 0.00 0.00 4.00
2853 5019 5.763204 TCCTCATTTAACTTTGTGTCACCTC 59.237 40.000 0.00 0.00 0.00 3.85
2854 5020 5.530915 CCTCATTTAACTTTGTGTCACCTCA 59.469 40.000 0.00 0.00 0.00 3.86
2855 5021 6.039270 CCTCATTTAACTTTGTGTCACCTCAA 59.961 38.462 0.00 0.00 0.00 3.02
2856 5022 6.791303 TCATTTAACTTTGTGTCACCTCAAC 58.209 36.000 0.00 0.00 0.00 3.18
2857 5023 6.375736 TCATTTAACTTTGTGTCACCTCAACA 59.624 34.615 0.00 0.00 0.00 3.33
2858 5024 6.576662 TTTAACTTTGTGTCACCTCAACAA 57.423 33.333 0.00 0.00 0.00 2.83
2859 5025 6.576662 TTAACTTTGTGTCACCTCAACAAA 57.423 33.333 0.00 0.00 0.00 2.83
2860 5026 5.461032 AACTTTGTGTCACCTCAACAAAA 57.539 34.783 0.00 0.00 31.19 2.44
2861 5027 5.461032 ACTTTGTGTCACCTCAACAAAAA 57.539 34.783 0.00 0.00 33.79 1.94
2862 5028 6.036577 ACTTTGTGTCACCTCAACAAAAAT 57.963 33.333 0.00 0.00 34.28 1.82
2863 5029 5.868801 ACTTTGTGTCACCTCAACAAAAATG 59.131 36.000 0.00 0.00 34.28 2.32
2864 5030 3.779759 TGTGTCACCTCAACAAAAATGC 58.220 40.909 0.00 0.00 0.00 3.56
2865 5031 3.123050 GTGTCACCTCAACAAAAATGCC 58.877 45.455 0.00 0.00 0.00 4.40
2866 5032 3.030291 TGTCACCTCAACAAAAATGCCT 58.970 40.909 0.00 0.00 0.00 4.75
2867 5033 4.037446 GTGTCACCTCAACAAAAATGCCTA 59.963 41.667 0.00 0.00 0.00 3.93
2868 5034 4.278170 TGTCACCTCAACAAAAATGCCTAG 59.722 41.667 0.00 0.00 0.00 3.02
2869 5035 4.278419 GTCACCTCAACAAAAATGCCTAGT 59.722 41.667 0.00 0.00 0.00 2.57
2870 5036 4.892934 TCACCTCAACAAAAATGCCTAGTT 59.107 37.500 0.00 0.00 0.00 2.24
2871 5037 4.984161 CACCTCAACAAAAATGCCTAGTTG 59.016 41.667 0.00 0.00 40.53 3.16
2872 5038 4.039124 ACCTCAACAAAAATGCCTAGTTGG 59.961 41.667 0.00 0.00 39.84 3.77
2873 5039 4.039124 CCTCAACAAAAATGCCTAGTTGGT 59.961 41.667 0.00 0.00 39.84 3.67
2874 5040 5.242838 CCTCAACAAAAATGCCTAGTTGGTA 59.757 40.000 0.00 0.00 39.84 3.25
2875 5041 6.071391 CCTCAACAAAAATGCCTAGTTGGTAT 60.071 38.462 0.00 0.00 43.19 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.793201 TCTCAGACCGAGATTCTCCATAA 58.207 43.478 8.09 0.00 46.18 1.90
1 2 4.439253 TCTCAGACCGAGATTCTCCATA 57.561 45.455 8.09 0.00 46.18 2.74
2 3 3.304911 TCTCAGACCGAGATTCTCCAT 57.695 47.619 8.09 0.00 46.18 3.41
3 4 2.808906 TCTCAGACCGAGATTCTCCA 57.191 50.000 8.09 0.00 46.18 3.86
11 12 4.082517 TGACTTCAGATTTCTCAGACCGAG 60.083 45.833 0.00 0.00 43.80 4.63
28 29 5.703876 AGGCAATCGAATTCTTTTGACTTC 58.296 37.500 15.97 6.21 33.70 3.01
32 33 4.396166 GGAGAGGCAATCGAATTCTTTTGA 59.604 41.667 16.85 3.03 0.00 2.69
43 44 3.691118 TCAAGATTTTGGAGAGGCAATCG 59.309 43.478 0.00 0.00 34.97 3.34
61 62 4.897025 GGATTTGCAGAATCCTCTCAAG 57.103 45.455 22.83 0.00 42.23 3.02
143 144 3.814842 CCAAACATTTTCTTTTGAGGGGC 59.185 43.478 0.00 0.00 35.13 5.80
144 145 5.163311 ACTCCAAACATTTTCTTTTGAGGGG 60.163 40.000 0.00 0.00 35.13 4.79
204 205 1.987213 TGGCTCGGTGGCATTCTTA 59.013 52.632 1.90 0.00 46.76 2.10
344 394 3.640407 GGCTGCACCAGGAGTCCA 61.640 66.667 12.86 0.00 38.86 4.02
352 402 0.895100 GTTTGAGATGGGCTGCACCA 60.895 55.000 11.41 11.41 46.24 4.17
353 403 1.598701 GGTTTGAGATGGGCTGCACC 61.599 60.000 0.00 0.00 37.93 5.01
434 484 3.629398 TCCCTAGTATTTTCCGTCGAGTC 59.371 47.826 0.00 0.00 0.00 3.36
444 494 9.597681 TCCGAGAATATACTTCCCTAGTATTTT 57.402 33.333 3.07 2.41 45.73 1.82
446 496 7.339976 GCTCCGAGAATATACTTCCCTAGTATT 59.660 40.741 0.00 0.00 45.73 1.89
449 499 5.011586 GCTCCGAGAATATACTTCCCTAGT 58.988 45.833 0.00 0.00 41.04 2.57
467 518 7.816945 AATCAAAATTCTACAAAATGCTCCG 57.183 32.000 0.00 0.00 0.00 4.63
504 555 0.251341 AGGCCCAGTTCTTTTCGCAT 60.251 50.000 0.00 0.00 0.00 4.73
505 556 0.467290 AAGGCCCAGTTCTTTTCGCA 60.467 50.000 0.00 0.00 0.00 5.10
543 594 5.163343 TGTTGTATGTCTACCTATCCAAGCC 60.163 44.000 0.00 0.00 0.00 4.35
950 2739 1.656095 CACGTACTAGCTGCTTGAAGC 59.344 52.381 17.66 10.84 43.88 3.86
951 2740 1.656095 GCACGTACTAGCTGCTTGAAG 59.344 52.381 17.66 7.22 0.00 3.02
952 2741 1.710013 GCACGTACTAGCTGCTTGAA 58.290 50.000 17.66 0.00 0.00 2.69
976 2765 3.357079 CCTTGACTGTGCCGGCAC 61.357 66.667 45.20 45.20 46.33 5.01
1076 2890 0.657368 CGCCTTCTTGTCGTTGTTGC 60.657 55.000 0.00 0.00 0.00 4.17
1085 2905 3.802418 AACCGCGACGCCTTCTTGT 62.802 57.895 15.34 0.00 0.00 3.16
1233 3053 1.380380 GGAAACCAGGCCCATCAGG 60.380 63.158 0.00 0.00 39.47 3.86
1502 3322 0.824759 GTTCATAGGGTGAGCGAGGT 59.175 55.000 0.00 0.00 38.29 3.85
1507 3327 0.175760 TGCGAGTTCATAGGGTGAGC 59.824 55.000 0.00 0.00 38.29 4.26
1544 3367 6.923012 TCATCCCAAATTTGTATGAACTGTG 58.077 36.000 21.90 10.52 30.49 3.66
1552 3376 9.889128 CTAACCAAATTCATCCCAAATTTGTAT 57.111 29.630 16.73 7.34 45.87 2.29
1563 3387 9.090692 CATCACAAAATCTAACCAAATTCATCC 57.909 33.333 0.00 0.00 0.00 3.51
1590 3414 6.430925 ACAAAATCCATCTCAATCAAACGAGA 59.569 34.615 0.00 0.00 42.25 4.04
1591 3415 6.525628 CACAAAATCCATCTCAATCAAACGAG 59.474 38.462 0.00 0.00 0.00 4.18
1592 3416 6.016360 ACACAAAATCCATCTCAATCAAACGA 60.016 34.615 0.00 0.00 0.00 3.85
1593 3417 6.088483 CACACAAAATCCATCTCAATCAAACG 59.912 38.462 0.00 0.00 0.00 3.60
1608 3432 5.300792 TCCCACCTAAAGTTCACACAAAATC 59.699 40.000 0.00 0.00 0.00 2.17
1611 3435 4.237976 TCCCACCTAAAGTTCACACAAA 57.762 40.909 0.00 0.00 0.00 2.83
1613 3437 4.141287 CAATCCCACCTAAAGTTCACACA 58.859 43.478 0.00 0.00 0.00 3.72
1614 3438 3.057526 GCAATCCCACCTAAAGTTCACAC 60.058 47.826 0.00 0.00 0.00 3.82
1656 3483 2.203195 AACGCCAGCAGCAAGTCA 60.203 55.556 0.00 0.00 44.04 3.41
1661 3488 3.120385 CGATGAACGCCAGCAGCA 61.120 61.111 0.00 0.00 44.04 4.41
1743 3571 3.775654 GCTAGCAGCTCACCGGGT 61.776 66.667 10.63 0.00 38.45 5.28
1881 3709 2.035632 AGCACTACAAGGCTAGGCTAG 58.964 52.381 20.55 17.33 38.90 3.42
1882 3710 1.757118 CAGCACTACAAGGCTAGGCTA 59.243 52.381 20.55 2.87 38.56 3.93
1883 3711 0.539051 CAGCACTACAAGGCTAGGCT 59.461 55.000 14.10 14.10 38.56 4.58
1884 3712 0.462759 CCAGCACTACAAGGCTAGGC 60.463 60.000 8.55 8.55 38.56 3.93
1886 3714 2.761208 ACTACCAGCACTACAAGGCTAG 59.239 50.000 0.00 0.00 38.56 3.42
1887 3715 2.816411 ACTACCAGCACTACAAGGCTA 58.184 47.619 0.00 0.00 38.56 3.93
1888 3716 1.645710 ACTACCAGCACTACAAGGCT 58.354 50.000 0.00 0.00 42.06 4.58
1889 3717 3.821421 ATACTACCAGCACTACAAGGC 57.179 47.619 0.00 0.00 0.00 4.35
1890 3718 9.640963 GAAATATATACTACCAGCACTACAAGG 57.359 37.037 0.00 0.00 0.00 3.61
1927 3755 9.616156 CCTAGACTAGTACTTCTACTTCATGAA 57.384 37.037 8.12 8.12 34.79 2.57
1928 3756 8.990203 TCCTAGACTAGTACTTCTACTTCATGA 58.010 37.037 0.00 0.00 34.79 3.07
1929 3757 9.616156 TTCCTAGACTAGTACTTCTACTTCATG 57.384 37.037 0.00 0.00 34.79 3.07
1931 3759 9.669887 CTTTCCTAGACTAGTACTTCTACTTCA 57.330 37.037 0.00 0.00 34.79 3.02
1932 3760 9.112725 CCTTTCCTAGACTAGTACTTCTACTTC 57.887 40.741 0.00 0.00 34.79 3.01
1933 3761 8.834733 TCCTTTCCTAGACTAGTACTTCTACTT 58.165 37.037 0.00 0.00 34.79 2.24
1934 3762 8.391305 TCCTTTCCTAGACTAGTACTTCTACT 57.609 38.462 0.00 0.00 37.04 2.57
1935 3763 7.227314 GCTCCTTTCCTAGACTAGTACTTCTAC 59.773 44.444 0.00 0.00 0.00 2.59
1936 3764 7.127647 AGCTCCTTTCCTAGACTAGTACTTCTA 59.872 40.741 0.00 2.20 0.00 2.10
1937 3765 6.069264 AGCTCCTTTCCTAGACTAGTACTTCT 60.069 42.308 0.00 0.87 0.00 2.85
1938 3766 6.124340 AGCTCCTTTCCTAGACTAGTACTTC 58.876 44.000 0.00 0.00 0.00 3.01
1939 3767 6.082228 AGCTCCTTTCCTAGACTAGTACTT 57.918 41.667 0.00 0.00 0.00 2.24
1940 3768 5.720486 AGCTCCTTTCCTAGACTAGTACT 57.280 43.478 8.68 0.00 0.00 2.73
1941 3769 5.764686 GGTAGCTCCTTTCCTAGACTAGTAC 59.235 48.000 8.68 1.62 0.00 2.73
1948 3776 2.091222 GGAGGGTAGCTCCTTTCCTAGA 60.091 54.545 0.00 0.00 37.25 2.43
1958 3786 2.033372 GGTAGTTGAGGAGGGTAGCTC 58.967 57.143 0.00 0.00 0.00 4.09
1959 3787 1.343176 GGGTAGTTGAGGAGGGTAGCT 60.343 57.143 0.00 0.00 0.00 3.32
1960 3788 1.121378 GGGTAGTTGAGGAGGGTAGC 58.879 60.000 0.00 0.00 0.00 3.58
1961 3789 2.544844 TGGGTAGTTGAGGAGGGTAG 57.455 55.000 0.00 0.00 0.00 3.18
1962 3790 3.502051 ATTGGGTAGTTGAGGAGGGTA 57.498 47.619 0.00 0.00 0.00 3.69
1963 3791 2.361085 ATTGGGTAGTTGAGGAGGGT 57.639 50.000 0.00 0.00 0.00 4.34
1964 3792 4.473559 TCTTAATTGGGTAGTTGAGGAGGG 59.526 45.833 0.00 0.00 0.00 4.30
2033 3916 8.333186 TGATATCAGTATGTATACGCGTATGTC 58.667 37.037 35.61 27.46 38.28 3.06
2093 4098 9.623000 ACAGAGTAATCATCAATTGATCAATCA 57.377 29.630 20.95 11.38 44.51 2.57
2094 4099 9.880064 CACAGAGTAATCATCAATTGATCAATC 57.120 33.333 20.95 11.71 44.51 2.67
2206 4231 2.038295 TGAACCCCCAAATGCAAATCAC 59.962 45.455 0.00 0.00 0.00 3.06
2213 4238 1.221566 GCCATGAACCCCCAAATGC 59.778 57.895 0.00 0.00 0.00 3.56
2227 4252 3.900971 TGAACATACATGTGGATGCCAT 58.099 40.909 9.11 0.00 41.61 4.40
2233 4258 4.395854 GCAACAGATGAACATACATGTGGA 59.604 41.667 9.11 0.00 42.98 4.02
2271 4401 4.092529 CCATCATCGATCTATCTTTTGGCG 59.907 45.833 0.00 0.00 0.00 5.69
2274 4404 7.148457 CCACATCCATCATCGATCTATCTTTTG 60.148 40.741 0.00 0.00 0.00 2.44
2304 4435 0.536460 TTTTCCGACTGTTGGGGAGC 60.536 55.000 14.08 0.00 0.00 4.70
2473 4619 2.158158 TCTTCCTCAACCCCAGAGAAGA 60.158 50.000 0.00 0.00 35.09 2.87
2488 4634 1.811778 TGGCTGCATCCTATCTTCCT 58.188 50.000 8.29 0.00 0.00 3.36
2550 4696 7.990886 GTGTTGGTTGGATACTTGGATTAGATA 59.009 37.037 0.00 0.00 37.61 1.98
2554 4700 5.708230 GTGTGTTGGTTGGATACTTGGATTA 59.292 40.000 0.00 0.00 37.61 1.75
2600 4760 3.516981 TGAGTAGAGTGAGCATTGAGC 57.483 47.619 0.00 0.00 46.19 4.26
2601 4761 5.070770 ACTTGAGTAGAGTGAGCATTGAG 57.929 43.478 0.00 0.00 0.00 3.02
2644 4810 3.997021 GGTACTTCTCATTGTGACCAGTG 59.003 47.826 0.00 0.00 0.00 3.66
2648 4814 5.091261 AGATGGTACTTCTCATTGTGACC 57.909 43.478 0.00 0.00 0.00 4.02
2649 4815 5.724328 TGAGATGGTACTTCTCATTGTGAC 58.276 41.667 18.92 0.31 43.49 3.67
2665 4831 8.581253 TGATATACTAGTACATGGTGAGATGG 57.419 38.462 4.31 0.00 0.00 3.51
2669 4835 7.830739 TGCATGATATACTAGTACATGGTGAG 58.169 38.462 23.22 7.52 38.76 3.51
2670 4836 7.775053 TGCATGATATACTAGTACATGGTGA 57.225 36.000 23.22 0.00 38.76 4.02
2698 4864 9.856162 TTATGGATGTAGTATCACACTAGTACA 57.144 33.333 0.00 0.00 40.48 2.90
2705 4871 7.912056 ATGCATTATGGATGTAGTATCACAC 57.088 36.000 0.00 0.00 38.07 3.82
2706 4872 8.815912 ACTATGCATTATGGATGTAGTATCACA 58.184 33.333 3.54 0.00 38.07 3.58
2718 4884 9.166173 GCAACTTATGATACTATGCATTATGGA 57.834 33.333 3.54 0.00 32.80 3.41
2719 4885 9.170734 AGCAACTTATGATACTATGCATTATGG 57.829 33.333 3.54 0.00 34.89 2.74
2740 4906 6.673154 TGATGCATATATGATGCTAGCAAC 57.327 37.500 23.54 20.21 44.79 4.17
2743 4909 9.053840 AGTAAATGATGCATATATGATGCTAGC 57.946 33.333 17.10 8.10 44.79 3.42
2756 4922 5.784578 ATGCATGACAGTAAATGATGCAT 57.215 34.783 11.08 11.08 46.66 3.96
2783 4949 5.503927 AGTATCACAACCGGAGTTCTACTA 58.496 41.667 9.46 0.00 32.45 1.82
2785 4951 4.157289 TGAGTATCACAACCGGAGTTCTAC 59.843 45.833 9.46 9.90 42.56 2.59
2786 4952 4.338012 TGAGTATCACAACCGGAGTTCTA 58.662 43.478 9.46 0.00 42.56 2.10
2787 4953 3.162666 TGAGTATCACAACCGGAGTTCT 58.837 45.455 9.46 2.22 42.56 3.01
2788 4954 3.587797 TGAGTATCACAACCGGAGTTC 57.412 47.619 9.46 0.93 42.56 3.01
2812 4978 3.039526 AGAGAGAGGGGGAGGGGG 61.040 72.222 0.00 0.00 0.00 5.40
2813 4979 2.612251 GAGAGAGAGGGGGAGGGG 59.388 72.222 0.00 0.00 0.00 4.79
2814 4980 2.018086 AGGAGAGAGAGGGGGAGGG 61.018 68.421 0.00 0.00 0.00 4.30
2815 4981 1.292941 TGAGGAGAGAGAGGGGGAGG 61.293 65.000 0.00 0.00 0.00 4.30
2816 4982 0.859760 ATGAGGAGAGAGAGGGGGAG 59.140 60.000 0.00 0.00 0.00 4.30
2817 4983 1.324014 AATGAGGAGAGAGAGGGGGA 58.676 55.000 0.00 0.00 0.00 4.81
2818 4984 2.188818 AAATGAGGAGAGAGAGGGGG 57.811 55.000 0.00 0.00 0.00 5.40
2819 4985 4.294347 AGTTAAATGAGGAGAGAGAGGGG 58.706 47.826 0.00 0.00 0.00 4.79
2820 4986 5.948742 AAGTTAAATGAGGAGAGAGAGGG 57.051 43.478 0.00 0.00 0.00 4.30
2821 4987 6.593382 CACAAAGTTAAATGAGGAGAGAGAGG 59.407 42.308 0.00 0.00 0.00 3.69
2822 4988 7.158021 ACACAAAGTTAAATGAGGAGAGAGAG 58.842 38.462 0.00 0.00 0.00 3.20
2823 4989 7.067496 ACACAAAGTTAAATGAGGAGAGAGA 57.933 36.000 0.00 0.00 0.00 3.10
2824 4990 6.931281 TGACACAAAGTTAAATGAGGAGAGAG 59.069 38.462 0.00 0.00 0.00 3.20
2825 4991 6.706270 GTGACACAAAGTTAAATGAGGAGAGA 59.294 38.462 0.00 0.00 0.00 3.10
2826 4992 6.073003 GGTGACACAAAGTTAAATGAGGAGAG 60.073 42.308 8.08 0.00 0.00 3.20
2827 4993 5.763204 GGTGACACAAAGTTAAATGAGGAGA 59.237 40.000 8.08 0.00 0.00 3.71
2828 4994 5.765182 AGGTGACACAAAGTTAAATGAGGAG 59.235 40.000 8.08 0.00 0.00 3.69
2829 4995 5.690865 AGGTGACACAAAGTTAAATGAGGA 58.309 37.500 8.08 0.00 0.00 3.71
2830 4996 5.530915 TGAGGTGACACAAAGTTAAATGAGG 59.469 40.000 8.08 0.00 0.00 3.86
2831 4997 6.618287 TGAGGTGACACAAAGTTAAATGAG 57.382 37.500 8.08 0.00 0.00 2.90
2832 4998 6.375736 TGTTGAGGTGACACAAAGTTAAATGA 59.624 34.615 8.08 0.00 42.60 2.57
2833 4999 6.559810 TGTTGAGGTGACACAAAGTTAAATG 58.440 36.000 8.08 0.00 42.60 2.32
2834 5000 6.767524 TGTTGAGGTGACACAAAGTTAAAT 57.232 33.333 8.08 0.00 42.60 1.40
2835 5001 6.576662 TTGTTGAGGTGACACAAAGTTAAA 57.423 33.333 8.08 0.00 42.60 1.52
2836 5002 6.576662 TTTGTTGAGGTGACACAAAGTTAA 57.423 33.333 8.08 0.00 42.60 2.01
2837 5003 6.576662 TTTTGTTGAGGTGACACAAAGTTA 57.423 33.333 8.08 0.00 42.60 2.24
2838 5004 5.461032 TTTTGTTGAGGTGACACAAAGTT 57.539 34.783 8.08 0.00 42.60 2.66
2839 5005 5.461032 TTTTTGTTGAGGTGACACAAAGT 57.539 34.783 8.08 0.00 42.60 2.66
2840 5006 5.220453 GCATTTTTGTTGAGGTGACACAAAG 60.220 40.000 8.08 0.00 42.60 2.77
2841 5007 4.629200 GCATTTTTGTTGAGGTGACACAAA 59.371 37.500 8.08 0.00 42.60 2.83
2842 5008 4.180057 GCATTTTTGTTGAGGTGACACAA 58.820 39.130 8.08 0.00 38.65 3.33
2843 5009 3.430098 GGCATTTTTGTTGAGGTGACACA 60.430 43.478 8.08 0.00 0.00 3.72
2844 5010 3.123050 GGCATTTTTGTTGAGGTGACAC 58.877 45.455 0.00 0.00 0.00 3.67
2845 5011 3.030291 AGGCATTTTTGTTGAGGTGACA 58.970 40.909 0.00 0.00 0.00 3.58
2846 5012 3.733443 AGGCATTTTTGTTGAGGTGAC 57.267 42.857 0.00 0.00 0.00 3.67
2847 5013 4.469657 ACTAGGCATTTTTGTTGAGGTGA 58.530 39.130 0.00 0.00 0.00 4.02
2848 5014 4.853924 ACTAGGCATTTTTGTTGAGGTG 57.146 40.909 0.00 0.00 0.00 4.00
2849 5015 4.039124 CCAACTAGGCATTTTTGTTGAGGT 59.961 41.667 0.00 0.00 39.98 3.85
2850 5016 4.039124 ACCAACTAGGCATTTTTGTTGAGG 59.961 41.667 0.00 0.00 43.14 3.86
2851 5017 5.200368 ACCAACTAGGCATTTTTGTTGAG 57.800 39.130 0.00 0.00 43.14 3.02
2852 5018 6.909550 ATACCAACTAGGCATTTTTGTTGA 57.090 33.333 0.00 0.00 43.14 3.18


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

AutoCloner maintained by Alex Coulton.