Multiple sequence alignment - TraesCS1D01G309200

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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 TraesCS1D01G309200 chr1D 100.000 4372 0 0 1 4372 405113794 405109423 0.000000e+00 8074
1 TraesCS1D01G309200 chr1D 87.897 661 77 1 2690 3350 351247234 351247891 0.000000e+00 774
2 TraesCS1D01G309200 chr1D 85.536 401 58 0 997 1397 351245578 351245978 1.880000e-113 420
3 TraesCS1D01G309200 chr1A 90.927 3957 218 80 1 3892 500566279 500562399 0.000000e+00 5188
4 TraesCS1D01G309200 chr1A 85.287 401 59 0 997 1397 452018573 452018973 8.750000e-112 414
5 TraesCS1D01G309200 chr1A 90.148 203 8 6 3924 4121 500562323 500562128 2.020000e-63 254
6 TraesCS1D01G309200 chr1A 85.000 240 20 13 4120 4347 500562088 500561853 3.400000e-56 230
7 TraesCS1D01G309200 chr1B 90.483 3667 214 63 1 3619 545000049 544996470 0.000000e+00 4713
8 TraesCS1D01G309200 chr1B 87.746 661 78 1 2690 3350 473824102 473824759 0.000000e+00 769
9 TraesCS1D01G309200 chr1B 87.594 266 16 9 4120 4372 544995888 544995627 4.280000e-75 292
10 TraesCS1D01G309200 chr1B 82.955 352 22 20 3795 4121 544996266 544995928 2.570000e-72 283
11 TraesCS1D01G309200 chr2B 80.896 1518 229 36 803 2293 59178887 59180370 0.000000e+00 1140
12 TraesCS1D01G309200 chr2B 90.000 130 12 1 2169 2297 12700431 12700560 2.700000e-37 167
13 TraesCS1D01G309200 chr4B 90.327 672 59 5 2702 3367 654036838 654036167 0.000000e+00 876
14 TraesCS1D01G309200 chr5A 90.208 674 60 2 2702 3372 691670159 691669489 0.000000e+00 874
15 TraesCS1D01G309200 chrUn 89.650 686 68 2 2690 3372 126674860 126675545 0.000000e+00 870
16 TraesCS1D01G309200 chr4D 87.537 674 81 2 2688 3361 6898877 6899547 0.000000e+00 776
17 TraesCS1D01G309200 chr3D 86.784 681 86 2 2671 3350 438943391 438944068 0.000000e+00 756
18 TraesCS1D01G309200 chr3D 90.191 418 40 1 985 1402 438942157 438942573 1.070000e-150 544
19 TraesCS1D01G309200 chr3D 91.667 288 24 0 1922 2209 438943037 438943324 2.450000e-107 399
20 TraesCS1D01G309200 chr3B 86.192 688 80 9 702 1386 11656392 11657067 0.000000e+00 730
21 TraesCS1D01G309200 chr3B 82.581 620 83 17 1685 2297 265730834 265730233 1.390000e-144 523
22 TraesCS1D01G309200 chr3B 89.234 418 44 1 985 1402 575256235 575256651 5.010000e-144 521
23 TraesCS1D01G309200 chr3B 91.667 288 24 0 1922 2209 575257092 575257379 2.450000e-107 399
24 TraesCS1D01G309200 chr3B 83.429 175 27 2 2296 2470 265730187 265730015 1.260000e-35 161
25 TraesCS1D01G309200 chr4A 83.360 619 78 17 1686 2297 20575882 20575282 2.300000e-152 549
26 TraesCS1D01G309200 chr4A 82.857 175 28 2 2296 2470 20575236 20575064 5.850000e-34 156
27 TraesCS1D01G309200 chr3A 89.786 421 42 1 985 1405 578873638 578874057 4.980000e-149 538
28 TraesCS1D01G309200 chr3A 90.278 288 28 0 1922 2209 578874488 578874775 1.150000e-100 377
29 TraesCS1D01G309200 chr7D 81.786 280 51 0 1932 2211 573692842 573693121 7.310000e-58 235


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 TraesCS1D01G309200 chr1D 405109423 405113794 4371 True 8074.000000 8074 100.000000 1 4372 1 chr1D.!!$R1 4371
1 TraesCS1D01G309200 chr1D 351245578 351247891 2313 False 597.000000 774 86.716500 997 3350 2 chr1D.!!$F1 2353
2 TraesCS1D01G309200 chr1A 500561853 500566279 4426 True 1890.666667 5188 88.691667 1 4347 3 chr1A.!!$R1 4346
3 TraesCS1D01G309200 chr1B 544995627 545000049 4422 True 1762.666667 4713 87.010667 1 4372 3 chr1B.!!$R1 4371
4 TraesCS1D01G309200 chr1B 473824102 473824759 657 False 769.000000 769 87.746000 2690 3350 1 chr1B.!!$F1 660
5 TraesCS1D01G309200 chr2B 59178887 59180370 1483 False 1140.000000 1140 80.896000 803 2293 1 chr2B.!!$F2 1490
6 TraesCS1D01G309200 chr4B 654036167 654036838 671 True 876.000000 876 90.327000 2702 3367 1 chr4B.!!$R1 665
7 TraesCS1D01G309200 chr5A 691669489 691670159 670 True 874.000000 874 90.208000 2702 3372 1 chr5A.!!$R1 670
8 TraesCS1D01G309200 chrUn 126674860 126675545 685 False 870.000000 870 89.650000 2690 3372 1 chrUn.!!$F1 682
9 TraesCS1D01G309200 chr4D 6898877 6899547 670 False 776.000000 776 87.537000 2688 3361 1 chr4D.!!$F1 673
10 TraesCS1D01G309200 chr3D 438942157 438944068 1911 False 566.333333 756 89.547333 985 3350 3 chr3D.!!$F1 2365
11 TraesCS1D01G309200 chr3B 11656392 11657067 675 False 730.000000 730 86.192000 702 1386 1 chr3B.!!$F1 684
12 TraesCS1D01G309200 chr3B 575256235 575257379 1144 False 460.000000 521 90.450500 985 2209 2 chr3B.!!$F2 1224
13 TraesCS1D01G309200 chr3B 265730015 265730834 819 True 342.000000 523 83.005000 1685 2470 2 chr3B.!!$R1 785
14 TraesCS1D01G309200 chr4A 20575064 20575882 818 True 352.500000 549 83.108500 1686 2470 2 chr4A.!!$R1 784
15 TraesCS1D01G309200 chr3A 578873638 578874775 1137 False 457.500000 538 90.032000 985 2209 2 chr3A.!!$F1 1224

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
417 436 0.179004 TCCTGTGATTTTGGCCGTGT 60.179 50.000 0.00 0.00 0.00 4.49 F
606 625 0.333993 AGCTCATGCCATGGTTTCCT 59.666 50.000 14.67 0.00 40.80 3.36 F
649 668 1.224965 GATTTCTGAGCGCATCCTCC 58.775 55.000 11.47 0.00 0.00 4.30 F
791 814 1.462378 CGTAGCTTGCACGTGAACATG 60.462 52.381 22.23 11.79 34.74 3.21 F
1655 1927 2.214376 TAAGGGCAATGGTTGTCAGG 57.786 50.000 0.00 0.00 36.88 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1651 1923 0.178767 CACGGCATCATCCTTCCTGA 59.821 55.0 0.0 0.0 0.0 3.86 R
1655 1927 0.392998 ACACCACGGCATCATCCTTC 60.393 55.0 0.0 0.0 0.0 3.46 R
1656 1928 0.908910 TACACCACGGCATCATCCTT 59.091 50.0 0.0 0.0 0.0 3.36 R
1657 1929 1.131638 ATACACCACGGCATCATCCT 58.868 50.0 0.0 0.0 0.0 3.24 R
3460 4479 0.167033 GCGAAACACACACACACACA 59.833 50.0 0.0 0.0 0.0 3.72 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
244 250 3.186047 CGCCAGCCGTAAGTTCCG 61.186 66.667 0.00 0.00 0.00 4.30
254 261 1.126846 CGTAAGTTCCGAGCTGCTTTG 59.873 52.381 2.53 0.00 0.00 2.77
265 272 2.477754 GAGCTGCTTTGTTGAATTTGCC 59.522 45.455 2.53 0.00 0.00 4.52
291 298 3.252701 GCCAATGCCTTGTAGATCTGATG 59.747 47.826 5.18 0.00 0.00 3.07
304 321 5.728637 AGATCTGATGTGTTGTGTGAGTA 57.271 39.130 0.00 0.00 0.00 2.59
314 331 3.376859 TGTTGTGTGAGTAGGTGCTTTTG 59.623 43.478 0.00 0.00 0.00 2.44
388 406 1.091771 AGGAAATGTGCGCGGATCTG 61.092 55.000 8.83 0.00 0.00 2.90
417 436 0.179004 TCCTGTGATTTTGGCCGTGT 60.179 50.000 0.00 0.00 0.00 4.49
492 511 5.004361 TGGATCTGTTTTGTGGGGATTTA 57.996 39.130 0.00 0.00 0.00 1.40
507 526 3.181490 GGGATTTACCGTCAGATTTTGCC 60.181 47.826 0.00 0.00 40.11 4.52
589 608 5.106277 GGTTTGGAACAGATTTGGTACTAGC 60.106 44.000 0.00 0.00 42.39 3.42
597 616 3.455910 AGATTTGGTACTAGCTCATGCCA 59.544 43.478 3.18 3.18 40.80 4.92
606 625 0.333993 AGCTCATGCCATGGTTTCCT 59.666 50.000 14.67 0.00 40.80 3.36
641 660 2.606725 CTGTAAGCCTGATTTCTGAGCG 59.393 50.000 0.00 0.00 0.00 5.03
649 668 1.224965 GATTTCTGAGCGCATCCTCC 58.775 55.000 11.47 0.00 0.00 4.30
663 682 5.938438 GCATCCTCCTTAGATGTGATTTC 57.062 43.478 3.00 0.00 42.58 2.17
667 687 4.342378 TCCTCCTTAGATGTGATTTCGGAG 59.658 45.833 0.00 0.00 37.21 4.63
668 688 4.054671 CTCCTTAGATGTGATTTCGGAGC 58.945 47.826 0.00 0.00 31.50 4.70
691 711 4.420522 TTAACCTGGTGTTAAAGTCGGT 57.579 40.909 0.00 0.00 44.41 4.69
692 712 5.543507 TTAACCTGGTGTTAAAGTCGGTA 57.456 39.130 0.00 0.00 44.41 4.02
693 713 3.391506 ACCTGGTGTTAAAGTCGGTAC 57.608 47.619 0.00 0.00 0.00 3.34
694 714 3.799917 AACCTGGTGTTAAAGTCGGTACG 60.800 47.826 0.00 0.00 45.69 3.67
708 728 2.684754 GGTACGCACTAGCTAGCTAC 57.315 55.000 20.67 11.43 39.10 3.58
733 755 3.821841 CTTGGTTGCACCGTTCTAATTC 58.178 45.455 0.00 0.00 42.58 2.17
791 814 1.462378 CGTAGCTTGCACGTGAACATG 60.462 52.381 22.23 11.79 34.74 3.21
807 830 2.550978 ACATGCGGACTATGTTGCTAC 58.449 47.619 0.00 0.00 35.32 3.58
814 837 4.514441 GCGGACTATGTTGCTACTAGAGTA 59.486 45.833 0.00 0.00 0.00 2.59
832 855 8.407064 ACTAGAGTAATAGAGATTGGTTCGTTG 58.593 37.037 0.00 0.00 0.00 4.10
835 858 8.138712 AGAGTAATAGAGATTGGTTCGTTGATC 58.861 37.037 0.00 0.00 0.00 2.92
881 905 3.000222 CGTTCAGAAAAAGCCAAACAAGC 60.000 43.478 0.00 0.00 0.00 4.01
921 945 9.974750 GTTTTGAGTGAATAAATCTAGCTGTAC 57.025 33.333 0.00 0.00 0.00 2.90
1227 1251 4.500265 GGCACCATGGACAGTGTT 57.500 55.556 21.47 0.00 36.35 3.32
1427 1566 5.574891 TGCACAAATTGGCGATAGTTTAT 57.425 34.783 0.00 0.00 39.35 1.40
1451 1613 8.910351 ATAATCCTTATGACAGGCTTTACTTC 57.090 34.615 0.00 0.00 33.35 3.01
1540 1711 8.443937 GTCACACAATAAGAAGTTTTAGGCTAG 58.556 37.037 0.00 0.00 0.00 3.42
1599 1871 3.804325 CGTGGCATCTTCTGTTAGTATGG 59.196 47.826 0.00 0.00 0.00 2.74
1600 1872 4.441495 CGTGGCATCTTCTGTTAGTATGGA 60.441 45.833 0.00 0.00 0.00 3.41
1644 1916 6.716934 TTACTTGTTTGTGAATAAGGGCAA 57.283 33.333 0.00 0.00 38.04 4.52
1651 1923 3.505386 TGTGAATAAGGGCAATGGTTGT 58.495 40.909 0.00 0.00 0.00 3.32
1652 1924 3.509575 TGTGAATAAGGGCAATGGTTGTC 59.490 43.478 0.00 0.00 33.62 3.18
1654 1926 3.763360 TGAATAAGGGCAATGGTTGTCAG 59.237 43.478 0.00 0.00 36.88 3.51
1655 1927 2.214376 TAAGGGCAATGGTTGTCAGG 57.786 50.000 0.00 0.00 36.88 3.86
1656 1928 0.482446 AAGGGCAATGGTTGTCAGGA 59.518 50.000 0.00 0.00 36.88 3.86
1657 1929 0.482446 AGGGCAATGGTTGTCAGGAA 59.518 50.000 0.00 0.00 36.88 3.36
1658 1930 0.890683 GGGCAATGGTTGTCAGGAAG 59.109 55.000 0.00 0.00 36.88 3.46
1660 1932 1.547675 GGCAATGGTTGTCAGGAAGGA 60.548 52.381 0.00 0.00 34.79 3.36
1661 1933 2.450476 GCAATGGTTGTCAGGAAGGAT 58.550 47.619 0.00 0.00 0.00 3.24
1662 1934 2.165030 GCAATGGTTGTCAGGAAGGATG 59.835 50.000 0.00 0.00 0.00 3.51
1664 1936 4.275810 CAATGGTTGTCAGGAAGGATGAT 58.724 43.478 0.00 0.00 0.00 2.45
1665 1937 3.354948 TGGTTGTCAGGAAGGATGATG 57.645 47.619 0.00 0.00 0.00 3.07
1666 1938 2.019984 GGTTGTCAGGAAGGATGATGC 58.980 52.381 0.00 0.00 0.00 3.91
1667 1939 2.019984 GTTGTCAGGAAGGATGATGCC 58.980 52.381 0.00 0.00 0.00 4.40
1669 1941 0.179000 GTCAGGAAGGATGATGCCGT 59.821 55.000 0.00 0.00 0.00 5.68
1670 1942 0.178767 TCAGGAAGGATGATGCCGTG 59.821 55.000 0.00 0.00 0.00 4.94
1671 1943 0.816825 CAGGAAGGATGATGCCGTGG 60.817 60.000 0.00 0.00 0.00 4.94
1672 1944 1.224592 GGAAGGATGATGCCGTGGT 59.775 57.895 0.00 0.00 0.00 4.16
1673 1945 1.097547 GGAAGGATGATGCCGTGGTG 61.098 60.000 0.00 0.00 0.00 4.17
1675 1947 0.908910 AAGGATGATGCCGTGGTGTA 59.091 50.000 0.00 0.00 0.00 2.90
1709 1994 6.486941 AGAGTTAGTACTAGGTCTCTGCTTT 58.513 40.000 22.07 8.13 33.84 3.51
1735 2020 7.445096 TCATTGTTCTGTATTGTTGTCATGACT 59.555 33.333 25.55 8.50 0.00 3.41
1914 2214 8.298854 CAGTGTCCACTTGAAATCATTATTTGA 58.701 33.333 0.00 0.00 40.20 2.69
1915 2215 8.517878 AGTGTCCACTTGAAATCATTATTTGAG 58.482 33.333 0.00 0.00 38.83 3.02
1916 2216 7.274250 GTGTCCACTTGAAATCATTATTTGAGC 59.726 37.037 0.00 0.00 37.89 4.26
1917 2217 7.039853 TGTCCACTTGAAATCATTATTTGAGCA 60.040 33.333 0.00 0.00 37.89 4.26
2370 3375 4.124970 GGGTAATGTTTGTCCCGACTATC 58.875 47.826 0.00 0.00 0.00 2.08
2717 3726 5.190330 TGGAGATTTGAACCATCTGATCTCA 59.810 40.000 11.79 0.00 41.42 3.27
3377 4392 2.042843 CTCCAGGAGTAGGGGCGT 60.043 66.667 8.54 0.00 0.00 5.68
3396 4415 0.832135 TGCGAGGTCTGGGTTCTTCT 60.832 55.000 0.00 0.00 0.00 2.85
3404 4423 1.066858 TCTGGGTTCTTCTGTGATCGC 60.067 52.381 0.00 0.00 0.00 4.58
3415 4434 4.715892 TGATCGCGTGCGTGCTCA 62.716 61.111 14.47 12.34 40.74 4.26
3449 4468 0.738975 CTGATGGCTCCATGTTGCTG 59.261 55.000 6.07 0.00 36.70 4.41
3453 4472 0.677731 TGGCTCCATGTTGCTGCTAC 60.678 55.000 7.29 7.29 0.00 3.58
3456 4475 2.208431 GCTCCATGTTGCTGCTACTAG 58.792 52.381 14.81 7.46 0.00 2.57
3457 4476 2.419297 GCTCCATGTTGCTGCTACTAGT 60.419 50.000 14.81 0.00 0.00 2.57
3458 4477 3.181475 GCTCCATGTTGCTGCTACTAGTA 60.181 47.826 14.81 1.89 0.00 1.82
3459 4478 4.615949 CTCCATGTTGCTGCTACTAGTAG 58.384 47.826 23.25 23.25 36.29 2.57
3460 4479 4.023980 TCCATGTTGCTGCTACTAGTAGT 58.976 43.478 26.76 8.14 35.65 2.73
3461 4480 4.115516 CCATGTTGCTGCTACTAGTAGTG 58.884 47.826 26.76 20.79 35.65 2.74
3462 4481 4.382040 CCATGTTGCTGCTACTAGTAGTGT 60.382 45.833 26.76 5.79 35.65 3.55
3463 4482 4.174411 TGTTGCTGCTACTAGTAGTGTG 57.826 45.455 26.76 18.49 35.65 3.82
3464 4483 3.572682 TGTTGCTGCTACTAGTAGTGTGT 59.427 43.478 26.76 0.00 35.65 3.72
3567 4601 4.483476 AATTCGGTAGTCAGTTTGTTGC 57.517 40.909 0.00 0.00 0.00 4.17
3568 4602 1.493772 TCGGTAGTCAGTTTGTTGCG 58.506 50.000 0.00 0.00 0.00 4.85
3569 4603 0.110823 CGGTAGTCAGTTTGTTGCGC 60.111 55.000 0.00 0.00 0.00 6.09
3570 4604 0.110823 GGTAGTCAGTTTGTTGCGCG 60.111 55.000 0.00 0.00 0.00 6.86
3571 4605 0.580104 GTAGTCAGTTTGTTGCGCGT 59.420 50.000 8.43 0.00 0.00 6.01
3572 4606 0.579630 TAGTCAGTTTGTTGCGCGTG 59.420 50.000 8.43 0.00 0.00 5.34
3573 4607 2.024022 TCAGTTTGTTGCGCGTGC 59.976 55.556 15.48 15.48 43.20 5.34
3591 4625 1.200716 TGCGTTACGGTGAACTAGAGG 59.799 52.381 6.94 0.00 0.00 3.69
3624 4658 1.477700 GTTTGCAATATGGCTGGCTCA 59.522 47.619 0.00 0.00 34.04 4.26
3625 4659 2.076207 TTGCAATATGGCTGGCTCAT 57.924 45.000 3.19 0.00 34.04 2.90
3666 4720 4.024977 TGTGATGATTGTCGTTGTCAAGTG 60.025 41.667 0.00 0.00 0.00 3.16
3686 4746 3.636231 CCACCACCTCGAGGGCAA 61.636 66.667 34.04 0.00 40.27 4.52
3687 4747 2.671070 CACCACCTCGAGGGCAAT 59.329 61.111 34.04 14.61 40.27 3.56
3688 4748 1.622607 CCACCACCTCGAGGGCAATA 61.623 60.000 34.04 0.00 40.27 1.90
3689 4749 0.469917 CACCACCTCGAGGGCAATAT 59.530 55.000 34.04 10.46 40.27 1.28
3690 4750 1.134098 CACCACCTCGAGGGCAATATT 60.134 52.381 34.04 9.66 40.27 1.28
3691 4751 1.134098 ACCACCTCGAGGGCAATATTG 60.134 52.381 34.04 20.69 40.27 1.90
3692 4752 1.597742 CACCTCGAGGGCAATATTGG 58.402 55.000 34.04 7.46 40.27 3.16
3764 4867 0.949105 AGTCGGCATCGTTTGACACC 60.949 55.000 0.00 0.00 37.69 4.16
3770 4873 1.466360 GCATCGTTTGACACCATCTGC 60.466 52.381 0.00 0.00 0.00 4.26
3772 4875 0.107643 TCGTTTGACACCATCTGCCA 59.892 50.000 0.00 0.00 0.00 4.92
3773 4876 0.238289 CGTTTGACACCATCTGCCAC 59.762 55.000 0.00 0.00 0.00 5.01
3774 4877 1.609208 GTTTGACACCATCTGCCACT 58.391 50.000 0.00 0.00 0.00 4.00
3775 4878 1.956477 GTTTGACACCATCTGCCACTT 59.044 47.619 0.00 0.00 0.00 3.16
3776 4879 1.608055 TTGACACCATCTGCCACTTG 58.392 50.000 0.00 0.00 0.00 3.16
3777 4880 0.764271 TGACACCATCTGCCACTTGA 59.236 50.000 0.00 0.00 0.00 3.02
3778 4881 1.160137 GACACCATCTGCCACTTGAC 58.840 55.000 0.00 0.00 0.00 3.18
3779 4882 0.767375 ACACCATCTGCCACTTGACT 59.233 50.000 0.00 0.00 0.00 3.41
3780 4883 1.143684 ACACCATCTGCCACTTGACTT 59.856 47.619 0.00 0.00 0.00 3.01
3781 4884 1.538512 CACCATCTGCCACTTGACTTG 59.461 52.381 0.00 0.00 0.00 3.16
3782 4885 1.421268 ACCATCTGCCACTTGACTTGA 59.579 47.619 0.00 0.00 0.00 3.02
3783 4886 2.082231 CCATCTGCCACTTGACTTGAG 58.918 52.381 0.00 0.00 0.00 3.02
3784 4887 2.289882 CCATCTGCCACTTGACTTGAGA 60.290 50.000 0.00 0.00 0.00 3.27
3785 4888 3.607741 CATCTGCCACTTGACTTGAGAT 58.392 45.455 0.00 0.00 0.00 2.75
3786 4889 3.777106 TCTGCCACTTGACTTGAGATT 57.223 42.857 0.00 0.00 0.00 2.40
3787 4890 4.090761 TCTGCCACTTGACTTGAGATTT 57.909 40.909 0.00 0.00 0.00 2.17
3788 4891 4.067896 TCTGCCACTTGACTTGAGATTTC 58.932 43.478 0.00 0.00 0.00 2.17
3789 4892 3.817084 CTGCCACTTGACTTGAGATTTCA 59.183 43.478 0.00 0.00 0.00 2.69
3790 4893 3.817084 TGCCACTTGACTTGAGATTTCAG 59.183 43.478 0.00 0.00 34.15 3.02
3791 4894 3.365767 GCCACTTGACTTGAGATTTCAGC 60.366 47.826 0.00 0.00 34.15 4.26
3792 4895 3.817084 CCACTTGACTTGAGATTTCAGCA 59.183 43.478 0.00 0.00 34.15 4.41
3793 4896 4.083431 CCACTTGACTTGAGATTTCAGCAG 60.083 45.833 0.00 0.00 34.15 4.24
3817 4920 4.855715 TCTCGTTGTCTCTTGTCTTGAT 57.144 40.909 0.00 0.00 0.00 2.57
3834 4937 2.588856 GATTTCAGCGGGCCGGTACT 62.589 60.000 31.94 15.05 35.27 2.73
3835 4938 2.869503 ATTTCAGCGGGCCGGTACTG 62.870 60.000 31.94 25.85 35.27 2.74
3913 5017 1.328279 AAACCAGCCAAGCTACAACC 58.672 50.000 0.00 0.00 36.40 3.77
3914 5018 0.889186 AACCAGCCAAGCTACAACCG 60.889 55.000 0.00 0.00 36.40 4.44
3915 5019 1.302511 CCAGCCAAGCTACAACCGT 60.303 57.895 0.00 0.00 36.40 4.83
3916 5020 0.036765 CCAGCCAAGCTACAACCGTA 60.037 55.000 0.00 0.00 36.40 4.02
3917 5021 1.076332 CAGCCAAGCTACAACCGTAC 58.924 55.000 0.00 0.00 36.40 3.67
3918 5022 0.974383 AGCCAAGCTACAACCGTACT 59.026 50.000 0.00 0.00 36.99 2.73
3920 5024 2.165845 AGCCAAGCTACAACCGTACTAG 59.834 50.000 0.00 0.00 36.99 2.57
3921 5025 2.165030 GCCAAGCTACAACCGTACTAGA 59.835 50.000 0.00 0.00 0.00 2.43
3929 5089 4.373348 ACAACCGTACTAGATTCAGCTC 57.627 45.455 0.00 0.00 0.00 4.09
3930 5090 3.181499 ACAACCGTACTAGATTCAGCTCG 60.181 47.826 0.00 0.00 0.00 5.03
3969 5137 3.118445 TCATGTCTTGTGTCACCACTCAA 60.118 43.478 0.00 0.00 42.34 3.02
3970 5138 2.627945 TGTCTTGTGTCACCACTCAAC 58.372 47.619 0.00 0.00 42.34 3.18
3971 5139 2.027653 TGTCTTGTGTCACCACTCAACA 60.028 45.455 0.00 0.00 42.34 3.33
3972 5140 2.351726 GTCTTGTGTCACCACTCAACAC 59.648 50.000 0.00 0.00 42.34 3.32
3973 5141 2.236146 TCTTGTGTCACCACTCAACACT 59.764 45.455 0.00 0.00 42.89 3.55
3974 5142 2.309528 TGTGTCACCACTCAACACTC 57.690 50.000 0.00 0.00 42.89 3.51
3975 5143 1.209128 GTGTCACCACTCAACACTCG 58.791 55.000 0.00 0.00 40.07 4.18
4072 5240 2.093711 GGTTGGTTCTGCCTTTTTGTGT 60.094 45.455 0.00 0.00 38.35 3.72
4150 5360 1.330521 TCTCGCAAAGTCACAAAGTGC 59.669 47.619 0.00 0.00 32.98 4.40
4167 5377 1.468914 GTGCCAAAGTAAGCCTACAGC 59.531 52.381 0.00 0.00 44.25 4.40
4216 5436 0.601057 TCGAGAAAGATCACACGGCA 59.399 50.000 0.00 0.00 0.00 5.69
4217 5437 0.994995 CGAGAAAGATCACACGGCAG 59.005 55.000 0.00 0.00 0.00 4.85
4244 5473 4.547406 ACGCAGTTTAAGAAAAGACACC 57.453 40.909 0.00 0.00 37.78 4.16
4246 5475 4.396790 ACGCAGTTTAAGAAAAGACACCAA 59.603 37.500 0.00 0.00 37.78 3.67
4247 5476 4.733405 CGCAGTTTAAGAAAAGACACCAAC 59.267 41.667 0.00 0.00 0.00 3.77
4248 5477 5.448632 CGCAGTTTAAGAAAAGACACCAACT 60.449 40.000 0.00 0.00 0.00 3.16
4249 5478 5.971792 GCAGTTTAAGAAAAGACACCAACTC 59.028 40.000 0.00 0.00 0.00 3.01
4250 5479 6.404293 GCAGTTTAAGAAAAGACACCAACTCA 60.404 38.462 0.00 0.00 0.00 3.41
4251 5480 7.189512 CAGTTTAAGAAAAGACACCAACTCAG 58.810 38.462 0.00 0.00 0.00 3.35
4273 5502 6.072618 TCAGAAACCACGTTTACAAAAACAGA 60.073 34.615 0.00 0.00 44.37 3.41
4274 5503 6.250527 CAGAAACCACGTTTACAAAAACAGAG 59.749 38.462 0.00 0.00 44.37 3.35
4275 5504 4.023739 ACCACGTTTACAAAAACAGAGC 57.976 40.909 0.00 0.00 44.37 4.09
4297 5529 4.635765 GCATAATTTACAGGTGTGAGCAGA 59.364 41.667 0.00 0.00 0.00 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 3.181575 CCGGCGTTTTCACTTTTTGAATC 59.818 43.478 6.01 0.00 43.99 2.52
167 172 1.216710 GCGAGGAGAGAGTGGTTGG 59.783 63.158 0.00 0.00 0.00 3.77
232 238 2.453638 GCAGCTCGGAACTTACGGC 61.454 63.158 0.00 0.00 0.00 5.68
244 250 2.477754 GGCAAATTCAACAAAGCAGCTC 59.522 45.455 0.00 0.00 0.00 4.09
265 272 0.107703 TCTACAAGGCATTGGCGGAG 60.108 55.000 16.45 7.09 40.97 4.63
291 298 2.240493 AGCACCTACTCACACAACAC 57.760 50.000 0.00 0.00 0.00 3.32
304 321 0.179113 CCAAACACGCAAAAGCACCT 60.179 50.000 0.00 0.00 0.00 4.00
401 420 1.269174 CATCACACGGCCAAAATCACA 59.731 47.619 2.24 0.00 0.00 3.58
417 436 0.030773 GCTACCAGATCGACGCATCA 59.969 55.000 0.00 0.00 0.00 3.07
492 511 0.609131 CAGGGGCAAAATCTGACGGT 60.609 55.000 0.00 0.00 31.39 4.83
507 526 1.962807 CTCAGATCTACTGCTCCAGGG 59.037 57.143 0.00 0.00 45.38 4.45
562 581 6.002082 AGTACCAAATCTGTTCCAAACCTAC 58.998 40.000 0.00 0.00 0.00 3.18
589 608 1.747355 GTGAGGAAACCATGGCATGAG 59.253 52.381 28.43 19.50 0.00 2.90
597 616 7.052873 CAGATTCTCTAATGTGAGGAAACCAT 58.947 38.462 0.00 0.00 38.36 3.55
606 625 6.381133 TCAGGCTTACAGATTCTCTAATGTGA 59.619 38.462 2.66 0.00 38.36 3.58
623 642 1.066215 TGCGCTCAGAAATCAGGCTTA 60.066 47.619 9.73 0.00 0.00 3.09
641 660 4.450419 CGAAATCACATCTAAGGAGGATGC 59.550 45.833 0.00 0.00 42.88 3.91
649 668 5.998454 AATGCTCCGAAATCACATCTAAG 57.002 39.130 0.00 0.00 0.00 2.18
663 682 1.821216 AACACCAGGTTAATGCTCCG 58.179 50.000 0.00 0.00 38.15 4.63
685 705 1.297664 CTAGCTAGTGCGTACCGACT 58.702 55.000 12.92 0.00 45.42 4.18
686 706 0.316854 GCTAGCTAGTGCGTACCGAC 60.317 60.000 21.62 0.00 45.42 4.79
687 707 0.463295 AGCTAGCTAGTGCGTACCGA 60.463 55.000 17.69 0.00 45.42 4.69
688 708 1.070041 GTAGCTAGCTAGTGCGTACCG 60.070 57.143 24.78 0.00 45.42 4.02
690 710 2.031857 CCAGTAGCTAGCTAGTGCGTAC 60.032 54.545 38.07 23.46 44.43 3.67
691 711 2.219458 CCAGTAGCTAGCTAGTGCGTA 58.781 52.381 38.07 14.41 44.43 4.42
692 712 1.025812 CCAGTAGCTAGCTAGTGCGT 58.974 55.000 38.07 16.13 44.43 5.24
693 713 0.318275 GCCAGTAGCTAGCTAGTGCG 60.318 60.000 38.07 32.14 44.43 5.34
694 714 3.579066 GCCAGTAGCTAGCTAGTGC 57.421 57.895 38.07 31.10 44.43 4.40
733 755 7.715265 AGACACAGTTACACAGTAAATTCAG 57.285 36.000 0.00 0.00 0.00 3.02
751 773 7.172532 AGCTACGATTTAAAATGACAAGACACA 59.827 33.333 0.00 0.00 0.00 3.72
754 776 7.007456 GCAAGCTACGATTTAAAATGACAAGAC 59.993 37.037 0.00 0.00 0.00 3.01
791 814 3.315749 ACTCTAGTAGCAACATAGTCCGC 59.684 47.826 0.00 0.00 0.00 5.54
807 830 8.622157 TCAACGAACCAATCTCTATTACTCTAG 58.378 37.037 0.00 0.00 0.00 2.43
814 837 7.752695 GTTTGATCAACGAACCAATCTCTATT 58.247 34.615 7.89 0.00 37.02 1.73
832 855 6.773976 TCATCAACTATTTGGGGTTTGATC 57.226 37.500 0.00 0.00 33.06 2.92
835 858 5.581874 GCAATCATCAACTATTTGGGGTTTG 59.418 40.000 0.00 0.44 33.06 2.93
881 905 4.980434 CACTCAAAACAAAGCAAGATCTGG 59.020 41.667 0.00 0.00 0.00 3.86
921 945 1.176527 ACAGCGTGGGAAATGATTGG 58.823 50.000 0.00 0.00 0.00 3.16
1427 1566 8.090788 AGAAGTAAAGCCTGTCATAAGGATTA 57.909 34.615 0.00 0.00 45.11 1.75
1438 1577 8.376270 ACTCAACTTAATAGAAGTAAAGCCTGT 58.624 33.333 0.00 0.00 0.00 4.00
1644 1916 3.894759 CATCATCCTTCCTGACAACCAT 58.105 45.455 0.00 0.00 0.00 3.55
1651 1923 0.178767 CACGGCATCATCCTTCCTGA 59.821 55.000 0.00 0.00 0.00 3.86
1652 1924 0.816825 CCACGGCATCATCCTTCCTG 60.817 60.000 0.00 0.00 0.00 3.86
1654 1926 1.097547 CACCACGGCATCATCCTTCC 61.098 60.000 0.00 0.00 0.00 3.46
1655 1927 0.392998 ACACCACGGCATCATCCTTC 60.393 55.000 0.00 0.00 0.00 3.46
1656 1928 0.908910 TACACCACGGCATCATCCTT 59.091 50.000 0.00 0.00 0.00 3.36
1657 1929 1.131638 ATACACCACGGCATCATCCT 58.868 50.000 0.00 0.00 0.00 3.24
1658 1930 1.202639 TCATACACCACGGCATCATCC 60.203 52.381 0.00 0.00 0.00 3.51
1660 1932 2.104622 TCATCATACACCACGGCATCAT 59.895 45.455 0.00 0.00 0.00 2.45
1661 1933 1.484240 TCATCATACACCACGGCATCA 59.516 47.619 0.00 0.00 0.00 3.07
1662 1934 2.238942 TCATCATACACCACGGCATC 57.761 50.000 0.00 0.00 0.00 3.91
1664 1936 2.093235 TCAATCATCATACACCACGGCA 60.093 45.455 0.00 0.00 0.00 5.69
1665 1937 2.545526 CTCAATCATCATACACCACGGC 59.454 50.000 0.00 0.00 0.00 5.68
1666 1938 4.053983 CTCTCAATCATCATACACCACGG 58.946 47.826 0.00 0.00 0.00 4.94
1667 1939 4.686972 ACTCTCAATCATCATACACCACG 58.313 43.478 0.00 0.00 0.00 4.94
1669 1941 7.423844 ACTAACTCTCAATCATCATACACCA 57.576 36.000 0.00 0.00 0.00 4.17
1670 1942 8.634444 AGTACTAACTCTCAATCATCATACACC 58.366 37.037 0.00 0.00 0.00 4.16
1675 1947 9.073475 GACCTAGTACTAACTCTCAATCATCAT 57.927 37.037 3.76 0.00 37.15 2.45
1709 1994 7.445096 AGTCATGACAACAATACAGAACAATGA 59.555 33.333 27.02 0.00 0.00 2.57
1735 2020 5.993055 TCACAAGATATGGAAGCAATGAGA 58.007 37.500 0.00 0.00 0.00 3.27
1838 2138 7.931015 AGATAACCACCCTGAATAGATAACA 57.069 36.000 0.00 0.00 0.00 2.41
1882 2182 1.496060 TCAAGTGGACACTGGACAGT 58.504 50.000 5.63 0.00 41.58 3.55
1892 2192 7.315142 TGCTCAAATAATGATTTCAAGTGGAC 58.685 34.615 0.00 0.00 37.44 4.02
1914 2214 7.154656 GGAAACCTGAAAACATAAAAGATGCT 58.845 34.615 0.00 0.00 0.00 3.79
1915 2215 6.928492 TGGAAACCTGAAAACATAAAAGATGC 59.072 34.615 0.00 0.00 0.00 3.91
1916 2216 8.885494 TTGGAAACCTGAAAACATAAAAGATG 57.115 30.769 0.00 0.00 0.00 2.90
1917 2217 8.704668 ACTTGGAAACCTGAAAACATAAAAGAT 58.295 29.630 0.00 0.00 0.00 2.40
2350 3196 5.019785 AGGATAGTCGGGACAAACATTAC 57.980 43.478 1.17 0.00 0.00 1.89
2507 3512 7.621428 ATCTCAACCAAGACACATCTAAATG 57.379 36.000 0.00 0.00 38.93 2.32
2511 3516 6.072508 GCAAAATCTCAACCAAGACACATCTA 60.073 38.462 0.00 0.00 33.57 1.98
2589 3597 5.643379 ACTGTGACTGAAAATGTGTTTGT 57.357 34.783 0.00 0.00 0.00 2.83
2665 3674 8.359060 TGCAGAAAATAACACAAATGGTTAAC 57.641 30.769 0.00 0.00 34.67 2.01
2675 3684 5.129634 TCTCCAACTGCAGAAAATAACACA 58.870 37.500 23.35 0.00 0.00 3.72
3377 4392 0.832135 AGAAGAACCCAGACCTCGCA 60.832 55.000 0.00 0.00 0.00 5.10
3388 4407 0.716108 CACGCGATCACAGAAGAACC 59.284 55.000 15.93 0.00 0.00 3.62
3415 4434 1.417890 CATCAGAAATAGCCCCCGACT 59.582 52.381 0.00 0.00 0.00 4.18
3419 4438 0.480252 AGCCATCAGAAATAGCCCCC 59.520 55.000 0.00 0.00 0.00 5.40
3449 4468 4.227538 CACACACACACACTACTAGTAGC 58.772 47.826 26.54 0.00 36.66 3.58
3453 4472 4.041740 ACACACACACACACACTACTAG 57.958 45.455 0.00 0.00 0.00 2.57
3456 4475 3.482923 CGAAACACACACACACACACTAC 60.483 47.826 0.00 0.00 0.00 2.73
3457 4476 2.668945 CGAAACACACACACACACACTA 59.331 45.455 0.00 0.00 0.00 2.74
3458 4477 1.463056 CGAAACACACACACACACACT 59.537 47.619 0.00 0.00 0.00 3.55
3459 4478 1.877101 CGAAACACACACACACACAC 58.123 50.000 0.00 0.00 0.00 3.82
3460 4479 0.167033 GCGAAACACACACACACACA 59.833 50.000 0.00 0.00 0.00 3.72
3461 4480 0.855670 CGCGAAACACACACACACAC 60.856 55.000 0.00 0.00 0.00 3.82
3462 4481 1.421877 CGCGAAACACACACACACA 59.578 52.632 0.00 0.00 0.00 3.72
3463 4482 1.932564 GCGCGAAACACACACACAC 60.933 57.895 12.10 0.00 0.00 3.82
3464 4483 1.640210 AAGCGCGAAACACACACACA 61.640 50.000 12.10 0.00 0.00 3.72
3570 4604 2.248487 CTCTAGTTCACCGTAACGCAC 58.752 52.381 0.00 0.00 34.46 5.34
3571 4605 1.200716 CCTCTAGTTCACCGTAACGCA 59.799 52.381 0.00 0.00 34.46 5.24
3572 4606 1.200948 ACCTCTAGTTCACCGTAACGC 59.799 52.381 0.00 0.00 34.46 4.84
3573 4607 2.746362 AGACCTCTAGTTCACCGTAACG 59.254 50.000 0.00 0.00 34.46 3.18
3574 4608 4.780275 AAGACCTCTAGTTCACCGTAAC 57.220 45.455 0.00 0.00 0.00 2.50
3575 4609 5.564550 ACTAAGACCTCTAGTTCACCGTAA 58.435 41.667 0.00 0.00 0.00 3.18
3576 4610 5.171339 ACTAAGACCTCTAGTTCACCGTA 57.829 43.478 0.00 0.00 0.00 4.02
3577 4611 4.031636 ACTAAGACCTCTAGTTCACCGT 57.968 45.455 0.00 0.00 0.00 4.83
3578 4612 4.035441 GCTACTAAGACCTCTAGTTCACCG 59.965 50.000 0.00 0.00 0.00 4.94
3579 4613 4.948621 TGCTACTAAGACCTCTAGTTCACC 59.051 45.833 0.00 0.00 0.00 4.02
3587 4621 3.055747 GCAAACCTGCTACTAAGACCTCT 60.056 47.826 0.00 0.00 45.74 3.69
3609 4643 4.098960 AGAAACAATGAGCCAGCCATATTG 59.901 41.667 8.61 8.61 35.47 1.90
3616 4650 2.294233 TGTGAAGAAACAATGAGCCAGC 59.706 45.455 0.00 0.00 0.00 4.85
3656 4710 0.663153 GTGGTGGAGCACTTGACAAC 59.337 55.000 1.69 0.00 34.40 3.32
3666 4720 3.775654 CCCTCGAGGTGGTGGAGC 61.776 72.222 29.25 0.00 29.70 4.70
3699 4759 3.091318 GGATGCATCCAGTCCACTG 57.909 57.895 35.93 0.00 46.38 3.66
3717 4777 0.946700 TGGCACGTAACACATCCACG 60.947 55.000 0.00 0.00 41.32 4.94
3720 4780 1.732941 TCATGGCACGTAACACATCC 58.267 50.000 0.00 0.00 0.00 3.51
3764 4867 3.049708 TCTCAAGTCAAGTGGCAGATG 57.950 47.619 0.00 0.00 0.00 2.90
3770 4873 3.817084 TGCTGAAATCTCAAGTCAAGTGG 59.183 43.478 0.00 0.00 0.00 4.00
3772 4875 4.712476 ACTGCTGAAATCTCAAGTCAAGT 58.288 39.130 0.00 0.00 0.00 3.16
3773 4876 6.817641 AGATACTGCTGAAATCTCAAGTCAAG 59.182 38.462 0.00 0.00 0.00 3.02
3774 4877 6.705302 AGATACTGCTGAAATCTCAAGTCAA 58.295 36.000 0.00 0.00 0.00 3.18
3775 4878 6.291648 AGATACTGCTGAAATCTCAAGTCA 57.708 37.500 0.00 0.00 0.00 3.41
3776 4879 5.458452 CGAGATACTGCTGAAATCTCAAGTC 59.542 44.000 25.06 10.93 43.79 3.01
3777 4880 5.105554 ACGAGATACTGCTGAAATCTCAAGT 60.106 40.000 25.06 18.22 43.79 3.16
3778 4881 5.347342 ACGAGATACTGCTGAAATCTCAAG 58.653 41.667 25.06 17.83 43.79 3.02
3779 4882 5.330455 ACGAGATACTGCTGAAATCTCAA 57.670 39.130 25.06 0.00 43.79 3.02
3780 4883 4.991153 ACGAGATACTGCTGAAATCTCA 57.009 40.909 25.06 0.00 43.79 3.27
3781 4884 5.105752 ACAACGAGATACTGCTGAAATCTC 58.894 41.667 20.32 20.32 41.38 2.75
3782 4885 5.078411 ACAACGAGATACTGCTGAAATCT 57.922 39.130 11.07 11.07 32.70 2.40
3783 4886 5.105752 AGACAACGAGATACTGCTGAAATC 58.894 41.667 0.00 0.39 0.00 2.17
3784 4887 5.078411 AGACAACGAGATACTGCTGAAAT 57.922 39.130 0.00 0.00 0.00 2.17
3785 4888 4.218635 AGAGACAACGAGATACTGCTGAAA 59.781 41.667 0.00 0.00 0.00 2.69
3786 4889 3.759086 AGAGACAACGAGATACTGCTGAA 59.241 43.478 0.00 0.00 0.00 3.02
3787 4890 3.348119 AGAGACAACGAGATACTGCTGA 58.652 45.455 0.00 0.00 0.00 4.26
3788 4891 3.773860 AGAGACAACGAGATACTGCTG 57.226 47.619 0.00 0.00 0.00 4.41
3789 4892 3.508012 ACAAGAGACAACGAGATACTGCT 59.492 43.478 0.00 0.00 0.00 4.24
3790 4893 3.839293 ACAAGAGACAACGAGATACTGC 58.161 45.455 0.00 0.00 0.00 4.40
3791 4894 5.303747 AGACAAGAGACAACGAGATACTG 57.696 43.478 0.00 0.00 0.00 2.74
3792 4895 5.473846 TCAAGACAAGAGACAACGAGATACT 59.526 40.000 0.00 0.00 0.00 2.12
3793 4896 5.700846 TCAAGACAAGAGACAACGAGATAC 58.299 41.667 0.00 0.00 0.00 2.24
3817 4920 3.315949 AGTACCGGCCCGCTGAAA 61.316 61.111 0.00 0.00 0.00 2.69
3834 4937 1.299648 GATACCACTGCCACTGCCA 59.700 57.895 0.00 0.00 36.33 4.92
3835 4938 1.815421 CGATACCACTGCCACTGCC 60.815 63.158 0.00 0.00 36.33 4.85
3836 4939 0.174845 TACGATACCACTGCCACTGC 59.825 55.000 0.00 0.00 38.26 4.40
3837 4940 2.362397 AGATACGATACCACTGCCACTG 59.638 50.000 0.00 0.00 0.00 3.66
3838 4941 2.362397 CAGATACGATACCACTGCCACT 59.638 50.000 0.00 0.00 0.00 4.00
3839 4942 2.545952 CCAGATACGATACCACTGCCAC 60.546 54.545 0.00 0.00 0.00 5.01
3840 4943 1.686587 CCAGATACGATACCACTGCCA 59.313 52.381 0.00 0.00 0.00 4.92
3885 4989 4.404654 GGCTGGTTTTCTGGCGCG 62.405 66.667 0.00 0.00 0.00 6.86
3913 5017 4.024809 TGTGATCGAGCTGAATCTAGTACG 60.025 45.833 0.90 0.00 0.00 3.67
3914 5018 5.425577 TGTGATCGAGCTGAATCTAGTAC 57.574 43.478 0.90 0.00 0.00 2.73
3915 5019 4.023622 GCTGTGATCGAGCTGAATCTAGTA 60.024 45.833 0.90 0.00 33.37 1.82
3916 5020 3.243367 GCTGTGATCGAGCTGAATCTAGT 60.243 47.826 0.90 0.00 33.37 2.57
3917 5021 3.243334 TGCTGTGATCGAGCTGAATCTAG 60.243 47.826 15.44 0.00 37.35 2.43
3918 5022 2.689983 TGCTGTGATCGAGCTGAATCTA 59.310 45.455 15.44 0.00 37.35 1.98
3920 5024 1.931906 TGCTGTGATCGAGCTGAATC 58.068 50.000 15.44 0.00 37.35 2.52
3921 5025 2.391616 TTGCTGTGATCGAGCTGAAT 57.608 45.000 15.44 0.00 37.35 2.57
3930 5090 4.726416 ACATGAAAACGATTGCTGTGATC 58.274 39.130 0.00 0.00 0.00 2.92
3970 5138 4.767255 GAGGCTGGGTGGCGAGTG 62.767 72.222 0.00 0.00 46.88 3.51
3974 5142 2.587322 TAAATCGAGGCTGGGTGGCG 62.587 60.000 0.00 0.00 46.88 5.69
3975 5143 0.179018 ATAAATCGAGGCTGGGTGGC 60.179 55.000 0.00 0.00 42.15 5.01
4167 5377 2.738521 CACGGACGGGCTTGTCAG 60.739 66.667 11.44 9.91 40.72 3.51
4213 5433 1.791103 TAAACTGCGTTGGTGCTGCC 61.791 55.000 0.00 0.00 37.32 4.85
4216 5436 1.961793 TCTTAAACTGCGTTGGTGCT 58.038 45.000 0.00 0.00 35.36 4.40
4217 5437 2.766970 TTCTTAAACTGCGTTGGTGC 57.233 45.000 0.00 0.00 0.00 5.01
4234 5463 4.398044 TGGTTTCTGAGTTGGTGTCTTTTC 59.602 41.667 0.00 0.00 0.00 2.29
4235 5464 4.157840 GTGGTTTCTGAGTTGGTGTCTTTT 59.842 41.667 0.00 0.00 0.00 2.27
4238 5467 2.741878 CGTGGTTTCTGAGTTGGTGTCT 60.742 50.000 0.00 0.00 0.00 3.41
4240 5469 1.065709 ACGTGGTTTCTGAGTTGGTGT 60.066 47.619 0.00 0.00 0.00 4.16
4242 5471 2.413310 AACGTGGTTTCTGAGTTGGT 57.587 45.000 0.00 0.00 0.00 3.67
4244 5473 4.868450 TGTAAACGTGGTTTCTGAGTTG 57.132 40.909 0.00 0.00 37.01 3.16
4246 5475 5.883503 TTTTGTAAACGTGGTTTCTGAGT 57.116 34.783 0.00 0.00 37.01 3.41
4247 5476 6.087522 TGTTTTTGTAAACGTGGTTTCTGAG 58.912 36.000 0.00 0.00 45.29 3.35
4248 5477 6.010294 TGTTTTTGTAAACGTGGTTTCTGA 57.990 33.333 0.00 0.00 45.29 3.27
4249 5478 6.087522 TCTGTTTTTGTAAACGTGGTTTCTG 58.912 36.000 0.00 0.00 45.29 3.02
4250 5479 6.256912 TCTGTTTTTGTAAACGTGGTTTCT 57.743 33.333 0.00 0.00 45.29 2.52
4251 5480 5.004061 GCTCTGTTTTTGTAAACGTGGTTTC 59.996 40.000 0.00 0.00 45.29 2.78
4273 5502 4.588899 TGCTCACACCTGTAAATTATGCT 58.411 39.130 0.00 0.00 0.00 3.79
4274 5503 4.635765 TCTGCTCACACCTGTAAATTATGC 59.364 41.667 0.00 0.00 0.00 3.14
4275 5504 6.741992 TTCTGCTCACACCTGTAAATTATG 57.258 37.500 0.00 0.00 0.00 1.90


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

AutoCloner maintained by Alex Coulton.