Multiple sequence alignment - TraesCS1D01G250400

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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 TraesCS1D01G250400 chr1D 100.000 8148 0 0 1 8148 342854339 342862486 0.000000e+00 15047
1 TraesCS1D01G250400 chr1B 93.264 2969 150 28 887 3825 459918143 459921091 0.000000e+00 4329
2 TraesCS1D01G250400 chr1B 93.119 2514 131 17 5414 7910 459924135 459926623 0.000000e+00 3646
3 TraesCS1D01G250400 chr1B 96.670 901 26 3 3817 4714 459921273 459922172 0.000000e+00 1495
4 TraesCS1D01G250400 chr1B 86.578 827 68 16 2 797 642763937 642763123 0.000000e+00 872
5 TraesCS1D01G250400 chr1B 86.457 827 69 16 2 797 642758867 642758053 0.000000e+00 867
6 TraesCS1D01G250400 chr1B 92.262 504 25 5 4712 5202 459922323 459922825 0.000000e+00 702
7 TraesCS1D01G250400 chr1B 95.473 243 8 1 7906 8148 459926784 459927023 1.280000e-102 385
8 TraesCS1D01G250400 chr1B 96.970 99 3 0 5228 5326 459924038 459924136 5.060000e-37 167
9 TraesCS1D01G250400 chr1A 92.318 3007 160 31 884 3862 442553742 442556705 0.000000e+00 4207
10 TraesCS1D01G250400 chr1A 95.636 1352 38 9 3864 5199 442557168 442558514 0.000000e+00 2150
11 TraesCS1D01G250400 chr1A 92.454 1365 53 14 6789 8148 442560252 442561571 0.000000e+00 1905
12 TraesCS1D01G250400 chr1A 93.548 992 52 7 5804 6791 442559220 442560203 0.000000e+00 1467
13 TraesCS1D01G250400 chr1A 95.113 532 24 2 5228 5758 442558678 442559208 0.000000e+00 837
14 TraesCS1D01G250400 chr1A 84.191 816 69 25 1 785 22571918 22571132 0.000000e+00 737
15 TraesCS1D01G250400 chr3B 85.731 841 75 21 1 797 783714988 783714149 0.000000e+00 846
16 TraesCS1D01G250400 chr2B 85.121 867 80 19 1 821 658602082 658601219 0.000000e+00 841
17 TraesCS1D01G250400 chr6D 85.680 838 71 19 3 797 318082628 318081797 0.000000e+00 837
18 TraesCS1D01G250400 chr6D 84.785 769 77 15 1 739 380998632 380999390 0.000000e+00 736
19 TraesCS1D01G250400 chr6D 88.865 458 38 7 1 446 38707900 38707444 1.200000e-152 551
20 TraesCS1D01G250400 chr5D 84.809 836 81 20 1 797 564890587 564889759 0.000000e+00 798
21 TraesCS1D01G250400 chr2A 83.040 796 92 20 31 785 750187280 750188073 0.000000e+00 682
22 TraesCS1D01G250400 chr4A 82.322 758 102 19 2 739 35634689 35635434 5.370000e-176 628
23 TraesCS1D01G250400 chr7D 83.481 678 92 13 1 663 45151913 45152585 1.500000e-171 614
24 TraesCS1D01G250400 chr3D 89.091 495 41 5 1 483 153073408 153073901 3.250000e-168 603
25 TraesCS1D01G250400 chrUn 77.925 829 142 29 1 794 49501644 49500822 5.720000e-131 479


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 TraesCS1D01G250400 chr1D 342854339 342862486 8147 False 15047.000000 15047 100.000000 1 8148 1 chr1D.!!$F1 8147
1 TraesCS1D01G250400 chr1B 459918143 459927023 8880 False 1787.333333 4329 94.626333 887 8148 6 chr1B.!!$F1 7261
2 TraesCS1D01G250400 chr1B 642763123 642763937 814 True 872.000000 872 86.578000 2 797 1 chr1B.!!$R2 795
3 TraesCS1D01G250400 chr1B 642758053 642758867 814 True 867.000000 867 86.457000 2 797 1 chr1B.!!$R1 795
4 TraesCS1D01G250400 chr1A 442553742 442561571 7829 False 2113.200000 4207 93.813800 884 8148 5 chr1A.!!$F1 7264
5 TraesCS1D01G250400 chr1A 22571132 22571918 786 True 737.000000 737 84.191000 1 785 1 chr1A.!!$R1 784
6 TraesCS1D01G250400 chr3B 783714149 783714988 839 True 846.000000 846 85.731000 1 797 1 chr3B.!!$R1 796
7 TraesCS1D01G250400 chr2B 658601219 658602082 863 True 841.000000 841 85.121000 1 821 1 chr2B.!!$R1 820
8 TraesCS1D01G250400 chr6D 318081797 318082628 831 True 837.000000 837 85.680000 3 797 1 chr6D.!!$R2 794
9 TraesCS1D01G250400 chr6D 380998632 380999390 758 False 736.000000 736 84.785000 1 739 1 chr6D.!!$F1 738
10 TraesCS1D01G250400 chr5D 564889759 564890587 828 True 798.000000 798 84.809000 1 797 1 chr5D.!!$R1 796
11 TraesCS1D01G250400 chr2A 750187280 750188073 793 False 682.000000 682 83.040000 31 785 1 chr2A.!!$F1 754
12 TraesCS1D01G250400 chr4A 35634689 35635434 745 False 628.000000 628 82.322000 2 739 1 chr4A.!!$F1 737
13 TraesCS1D01G250400 chr7D 45151913 45152585 672 False 614.000000 614 83.481000 1 663 1 chr7D.!!$F1 662
14 TraesCS1D01G250400 chrUn 49500822 49501644 822 True 479.000000 479 77.925000 1 794 1 chrUn.!!$R1 793

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
815 922 0.250295 CTCCGGCCAAAACTCAGTGA 60.250 55.000 2.24 0.0 0.00 3.41 F
1366 1474 0.803768 CCATCTGCCAGTTCGTCGAG 60.804 60.000 0.00 0.0 0.00 4.04 F
1647 1756 1.076024 AGCAAGGCTGATTTGGAAGGA 59.924 47.619 0.00 0.0 37.57 3.36 F
1648 1757 1.203287 GCAAGGCTGATTTGGAAGGAC 59.797 52.381 0.00 0.0 0.00 3.85 F
2352 2488 1.328680 GAGAACTGTGCATGCATACCG 59.671 52.381 25.64 12.8 0.00 4.02 F
3062 3203 0.314935 ATTGCACTCAAAAGGCACCG 59.685 50.000 0.00 0.0 37.26 4.94 F
3627 3775 1.834263 GACCATAGACTTGGGACAGCT 59.166 52.381 8.09 0.0 42.39 4.24 F
5132 6106 0.723414 CTGCGTGCTATTCACTGTGG 59.277 55.000 8.11 0.0 43.46 4.17 F
6378 8556 0.804364 TGGATGCATTGTCGTTGCTC 59.196 50.000 0.00 0.0 40.77 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2569 2706 0.534203 TCAAACCGAGTTGACTGGCC 60.534 55.000 0.00 0.00 32.56 5.36 R
2653 2790 3.084786 CCAAAACCAGGGAATCTGTCTC 58.915 50.000 0.00 0.00 41.83 3.36 R
2733 2870 3.758755 TGTGAGTGCAACAGAGATTCT 57.241 42.857 0.00 0.00 41.43 2.40 R
2734 2871 3.999001 TCATGTGAGTGCAACAGAGATTC 59.001 43.478 0.00 0.00 41.43 2.52 R
3911 4710 1.138069 TGGATCGCGGAAATCAGCTAA 59.862 47.619 6.13 0.00 34.89 3.09 R
4502 5310 4.220382 TGGAATATCTGCACCCAAACAAAG 59.780 41.667 0.00 0.00 0.00 2.77 R
5587 7754 1.301716 CACCACTTGTGGGAGGACG 60.302 63.158 21.98 1.99 41.52 4.79 R
6596 8779 1.033746 CCGAATGTGCTGCTCCCATT 61.034 55.000 0.00 6.82 0.00 3.16 R
7957 10361 0.820871 GTGGCAGGACCTCTGAGTAG 59.179 60.000 3.66 0.00 46.18 2.57 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
39 40 3.208594 TGCATCGAAGGATCTTTGGATG 58.791 45.455 27.48 27.48 42.60 3.51
65 67 2.957402 TCATTCTTTGGTCTGCCTGT 57.043 45.000 0.00 0.00 35.27 4.00
132 136 6.308015 TCTAGGCTTATAAAAGGTGAAGCA 57.692 37.500 7.67 0.00 44.90 3.91
283 296 2.232941 CCCAATGTCAAGAAGCTGCAAT 59.767 45.455 1.02 0.00 0.00 3.56
292 314 4.081031 TCAAGAAGCTGCAATGAGAGAGAT 60.081 41.667 1.02 0.00 0.00 2.75
380 403 5.070446 AGGTTCTATGGCGAATCATGACTTA 59.930 40.000 0.00 0.00 0.00 2.24
428 456 5.300286 TCATTGAAGACGAGAGAGATATGCA 59.700 40.000 0.00 0.00 0.00 3.96
484 514 3.553096 GGTTGAGCCAGAGTATGATACGG 60.553 52.174 0.00 0.00 37.17 4.02
488 518 3.501349 AGCCAGAGTATGATACGGACAT 58.499 45.455 0.00 0.00 0.00 3.06
580 611 7.527446 AGATCTTGTTGAGCATATTGGCAACA 61.527 38.462 0.00 0.00 46.06 3.33
596 627 3.430374 GGCAACATCTAAGCGAGTCCTAA 60.430 47.826 0.00 0.00 0.00 2.69
597 628 3.552294 GCAACATCTAAGCGAGTCCTAAC 59.448 47.826 0.00 0.00 0.00 2.34
614 646 7.398024 AGTCCTAACTGTTCTATGAAATGCTT 58.602 34.615 0.00 0.00 33.32 3.91
615 647 7.885399 AGTCCTAACTGTTCTATGAAATGCTTT 59.115 33.333 0.00 0.00 33.32 3.51
672 725 8.842280 ACAATTCGGTTTGTAAACTCTGAATTA 58.158 29.630 21.04 4.46 39.75 1.40
810 917 0.748367 GGGATCTCCGGCCAAAACTC 60.748 60.000 2.24 0.00 36.71 3.01
815 922 0.250295 CTCCGGCCAAAACTCAGTGA 60.250 55.000 2.24 0.00 0.00 3.41
821 928 3.502211 CGGCCAAAACTCAGTGAAGTATT 59.498 43.478 2.24 0.00 0.00 1.89
822 929 4.023193 CGGCCAAAACTCAGTGAAGTATTT 60.023 41.667 2.24 0.00 0.00 1.40
823 930 5.507315 CGGCCAAAACTCAGTGAAGTATTTT 60.507 40.000 2.24 0.00 0.00 1.82
824 931 6.280643 GGCCAAAACTCAGTGAAGTATTTTT 58.719 36.000 0.00 0.00 0.00 1.94
872 979 6.819397 ATTTCACTAAGCCTTTTACTCCAC 57.181 37.500 0.00 0.00 0.00 4.02
873 980 5.562298 TTCACTAAGCCTTTTACTCCACT 57.438 39.130 0.00 0.00 0.00 4.00
874 981 6.675413 TTCACTAAGCCTTTTACTCCACTA 57.325 37.500 0.00 0.00 0.00 2.74
875 982 6.282199 TCACTAAGCCTTTTACTCCACTAG 57.718 41.667 0.00 0.00 0.00 2.57
876 983 6.014647 TCACTAAGCCTTTTACTCCACTAGA 58.985 40.000 0.00 0.00 0.00 2.43
878 985 6.153000 CACTAAGCCTTTTACTCCACTAGAGA 59.847 42.308 0.00 0.00 46.50 3.10
879 986 6.898521 ACTAAGCCTTTTACTCCACTAGAGAT 59.101 38.462 0.00 0.00 46.50 2.75
880 987 5.606348 AGCCTTTTACTCCACTAGAGATG 57.394 43.478 0.00 0.00 46.50 2.90
881 988 4.123506 GCCTTTTACTCCACTAGAGATGC 58.876 47.826 0.00 0.00 46.50 3.91
882 989 4.698575 CCTTTTACTCCACTAGAGATGCC 58.301 47.826 0.00 0.00 46.50 4.40
889 996 5.716979 ACTCCACTAGAGATGCCCTTATTA 58.283 41.667 0.00 0.00 46.50 0.98
890 997 5.777732 ACTCCACTAGAGATGCCCTTATTAG 59.222 44.000 0.00 0.00 46.50 1.73
928 1036 4.765281 TCGGAAATAGTTACGCAAATCG 57.235 40.909 1.86 0.00 41.16 3.34
1142 1250 4.735132 CGAAGGCAAGGGCGACGA 62.735 66.667 0.00 0.00 42.47 4.20
1223 1331 2.829458 CCTCCTCGTCCTCGTCCC 60.829 72.222 0.00 0.00 38.33 4.46
1366 1474 0.803768 CCATCTGCCAGTTCGTCGAG 60.804 60.000 0.00 0.00 0.00 4.04
1390 1498 2.286523 CCGCACCTTCCTCCACTCT 61.287 63.158 0.00 0.00 0.00 3.24
1408 1516 4.668118 GTCGACCCCCGCGTCAAA 62.668 66.667 3.51 0.00 38.37 2.69
1420 1528 2.352030 CCGCGTCAAACTGGTAACTAGA 60.352 50.000 4.92 0.00 37.61 2.43
1425 1533 4.628074 GTCAAACTGGTAACTAGACTGCA 58.372 43.478 0.00 0.00 37.61 4.41
1446 1554 4.211374 GCATCGCATTTCGGATAAACTACT 59.789 41.667 0.00 0.00 39.05 2.57
1453 1562 9.275231 CGCATTTCGGATAAACTACTATAGTAG 57.725 37.037 30.20 30.20 42.82 2.57
1608 1717 3.319755 GTTGTTGGATGAGCAATTGTGG 58.680 45.455 7.40 0.00 0.00 4.17
1623 1732 5.702865 CAATTGTGGACTTGTGGTTCTATG 58.297 41.667 0.00 0.00 0.00 2.23
1626 1735 3.904965 TGTGGACTTGTGGTTCTATGGTA 59.095 43.478 0.00 0.00 0.00 3.25
1627 1736 4.348461 TGTGGACTTGTGGTTCTATGGTAA 59.652 41.667 0.00 0.00 0.00 2.85
1628 1737 4.935808 GTGGACTTGTGGTTCTATGGTAAG 59.064 45.833 0.00 0.00 0.00 2.34
1629 1738 3.939592 GGACTTGTGGTTCTATGGTAAGC 59.060 47.826 0.00 0.00 0.00 3.09
1630 1739 4.564821 GGACTTGTGGTTCTATGGTAAGCA 60.565 45.833 0.00 0.00 32.28 3.91
1631 1740 4.980573 ACTTGTGGTTCTATGGTAAGCAA 58.019 39.130 0.00 0.00 36.22 3.91
1632 1741 5.003804 ACTTGTGGTTCTATGGTAAGCAAG 58.996 41.667 0.00 0.00 36.22 4.01
1634 1743 2.683362 GTGGTTCTATGGTAAGCAAGGC 59.317 50.000 0.00 0.00 36.22 4.35
1637 1746 3.370527 GGTTCTATGGTAAGCAAGGCTGA 60.371 47.826 0.00 0.00 39.62 4.26
1639 1748 4.778213 TCTATGGTAAGCAAGGCTGATT 57.222 40.909 0.00 0.00 39.62 2.57
1640 1749 5.116084 TCTATGGTAAGCAAGGCTGATTT 57.884 39.130 0.00 0.00 39.62 2.17
1641 1750 4.883585 TCTATGGTAAGCAAGGCTGATTTG 59.116 41.667 0.00 0.00 39.62 2.32
1642 1751 2.170166 TGGTAAGCAAGGCTGATTTGG 58.830 47.619 0.00 0.00 39.62 3.28
1645 1754 3.119352 GGTAAGCAAGGCTGATTTGGAAG 60.119 47.826 0.00 0.00 39.62 3.46
1646 1755 1.553706 AGCAAGGCTGATTTGGAAGG 58.446 50.000 0.00 0.00 37.57 3.46
1647 1756 1.076024 AGCAAGGCTGATTTGGAAGGA 59.924 47.619 0.00 0.00 37.57 3.36
1648 1757 1.203287 GCAAGGCTGATTTGGAAGGAC 59.797 52.381 0.00 0.00 0.00 3.85
1649 1758 1.821136 CAAGGCTGATTTGGAAGGACC 59.179 52.381 0.00 0.00 39.54 4.46
1661 1787 2.509548 TGGAAGGACCAACCATGATAGG 59.490 50.000 5.69 0.00 46.75 2.57
1682 1811 3.705579 GGTTAGAGGAGAGAGGGTTTACC 59.294 52.174 0.00 0.00 40.67 2.85
1756 1885 6.217693 ACCATTCTCCTATTCTGGGTTTAACT 59.782 38.462 0.00 0.00 0.00 2.24
1828 1957 6.430000 GGCCTAATGTATCGTAACCAATTGAT 59.570 38.462 7.12 0.00 0.00 2.57
1861 1996 5.188434 GGAATCACTGAAATCAGATGGACA 58.812 41.667 16.93 0.00 46.59 4.02
1928 2064 5.377164 TCTTAGAGGGGAGGAGAATATGTCT 59.623 44.000 0.00 0.00 40.25 3.41
2061 2197 3.981071 ATCGTCTTGGGAACATGAGAA 57.019 42.857 0.00 0.00 44.22 2.87
2063 2199 4.079980 TCGTCTTGGGAACATGAGAAAA 57.920 40.909 0.00 0.00 44.22 2.29
2350 2486 3.005554 AGTGAGAACTGTGCATGCATAC 58.994 45.455 25.64 12.77 0.00 2.39
2352 2488 1.328680 GAGAACTGTGCATGCATACCG 59.671 52.381 25.64 12.80 0.00 4.02
2388 2524 3.223674 ACCTTTAGTTGTCCCCAGTTG 57.776 47.619 0.00 0.00 0.00 3.16
2449 2586 6.528321 TCCATAATTCTCCATGCTAGTTGAG 58.472 40.000 0.00 0.00 0.00 3.02
2569 2706 3.724374 TGTGAGTTTTCTACCGAACCAG 58.276 45.455 0.00 0.00 0.00 4.00
2589 2726 1.523758 GCCAGTCAACTCGGTTTGAT 58.476 50.000 3.39 0.00 37.80 2.57
2597 2734 5.245526 AGTCAACTCGGTTTGATAGGTACTT 59.754 40.000 3.39 0.00 37.80 2.24
2602 2739 3.379372 TCGGTTTGATAGGTACTTCCTCG 59.621 47.826 0.00 0.00 44.42 4.63
2624 2761 9.167239 CCTCGAAAACGTCTTATATTAGTGTAG 57.833 37.037 0.00 0.00 0.00 2.74
2651 2788 6.550163 AGGTAGTATCTGGTATTCGGTATGT 58.450 40.000 0.00 0.00 0.00 2.29
2653 2790 7.039923 AGGTAGTATCTGGTATTCGGTATGTTG 60.040 40.741 0.00 0.00 0.00 3.33
2681 2818 5.480073 CAGATTCCCTGGTTTTGGTATTCAA 59.520 40.000 0.00 0.00 39.23 2.69
2714 2851 6.208599 CAGTAACAACCACAGGATAAACCAAT 59.791 38.462 0.00 0.00 42.04 3.16
2781 2922 8.967664 AGTATTTATACCCTCACGCAAAATTA 57.032 30.769 0.00 0.00 33.79 1.40
2928 3069 3.516615 CTTGGCTAGAAGCTACACTGTC 58.483 50.000 0.00 0.00 41.99 3.51
2937 3078 5.725362 AGAAGCTACACTGTCTAATGTTCC 58.275 41.667 0.00 0.00 0.00 3.62
2995 3136 7.690952 ATAAGTAATGCGGTGAAAGGTAAAA 57.309 32.000 0.00 0.00 0.00 1.52
3062 3203 0.314935 ATTGCACTCAAAAGGCACCG 59.685 50.000 0.00 0.00 37.26 4.94
3625 3773 3.099905 TGAGACCATAGACTTGGGACAG 58.900 50.000 8.09 0.00 42.39 3.51
3627 3775 1.834263 GACCATAGACTTGGGACAGCT 59.166 52.381 8.09 0.00 42.39 4.24
3656 3804 4.263139 TGCGAGATTTCATTGTTCATCG 57.737 40.909 0.00 0.00 0.00 3.84
3841 4179 5.221561 CCCCATATGCACATGACAAATTCAT 60.222 40.000 6.52 0.00 46.75 2.57
3848 4186 6.331845 TGCACATGACAAATTCATACCAATC 58.668 36.000 0.00 0.00 43.68 2.67
3850 4188 5.972973 CACATGACAAATTCATACCAATCCG 59.027 40.000 0.00 0.00 43.68 4.18
3851 4189 5.652014 ACATGACAAATTCATACCAATCCGT 59.348 36.000 0.00 0.00 43.68 4.69
3911 4710 4.412199 TGTTGCTGATATAGGGCTTTAGGT 59.588 41.667 0.00 0.00 0.00 3.08
4039 4839 2.284754 TGAAATGCACTTGCTACCCA 57.715 45.000 2.33 0.00 42.66 4.51
4086 4886 3.010250 AGGATCAACTTGGAAGGGTTACC 59.990 47.826 0.00 0.00 0.00 2.85
4128 4928 7.738437 ATTCATAATGTTGGGATTTGGTTCT 57.262 32.000 0.00 0.00 0.00 3.01
4472 5280 5.426689 TCAGTTCTTTGAGATGCCAGTAT 57.573 39.130 0.00 0.00 0.00 2.12
4889 5861 0.968405 GCTGCCAGGGTTGAATCAAA 59.032 50.000 0.00 0.00 0.00 2.69
4891 5863 2.224257 GCTGCCAGGGTTGAATCAAAAA 60.224 45.455 0.00 0.00 0.00 1.94
4919 5891 6.478512 ACATATTGTGTGGGAAAAACTTGT 57.521 33.333 0.00 0.00 40.28 3.16
5029 6002 7.063780 GCAAATATCCAAGGTCAGTTCATTTTG 59.936 37.037 0.00 0.00 0.00 2.44
5132 6106 0.723414 CTGCGTGCTATTCACTGTGG 59.277 55.000 8.11 0.00 43.46 4.17
5147 6121 6.070897 TCACTGTGGTCATACATTGTTTTG 57.929 37.500 8.11 0.00 34.15 2.44
5192 6166 8.350027 TGTGAAACCATCTACCAGTTTTTGGC 62.350 42.308 0.00 0.00 44.27 4.52
5202 6176 2.363680 CCAGTTTTTGGCCACACATACA 59.636 45.455 3.88 0.00 40.87 2.29
5354 7518 3.241067 ACTGAAATTCCATGTGCATGC 57.759 42.857 11.82 11.82 37.49 4.06
5412 7576 3.118261 CCTAAGAGGAGCAACATTAGCCA 60.118 47.826 0.00 0.00 37.67 4.75
5601 7768 1.746517 GTCACGTCCTCCCACAAGT 59.253 57.895 0.00 0.00 0.00 3.16
5752 7920 6.014647 TGAGACAGTAATACCAACCACTACT 58.985 40.000 0.00 0.00 0.00 2.57
5786 7954 3.066342 GCCTGTGCATGCATATATCCATC 59.934 47.826 25.64 7.97 37.47 3.51
5793 7961 8.266473 TGTGCATGCATATATCCATCACTATTA 58.734 33.333 25.64 0.00 0.00 0.98
5799 7967 9.426534 TGCATATATCCATCACTATTAGCTAGT 57.573 33.333 0.00 0.00 41.53 2.57
5920 8089 5.590259 ACTGGTTGTGTATTAGGAATGCATC 59.410 40.000 0.00 0.00 35.93 3.91
5952 8121 2.637382 TGGAGTAGGAATCACACAAGCA 59.363 45.455 0.00 0.00 0.00 3.91
5961 8130 5.011329 AGGAATCACACAAGCAAAACATGAT 59.989 36.000 0.00 0.00 0.00 2.45
6020 8189 5.521372 GGCAGAATTTGATTGAGCAATAACC 59.479 40.000 0.00 0.00 0.00 2.85
6035 8204 6.149633 AGCAATAACCGCTTAAAGAAACAAG 58.850 36.000 0.00 0.00 35.82 3.16
6118 8293 6.064717 GGGTAGCTCATAAGAATGGTGAAAT 58.935 40.000 0.00 0.00 33.61 2.17
6145 8320 5.738619 TTACATCATGGGCGATATACTGT 57.261 39.130 0.00 0.00 0.00 3.55
6241 8416 8.621532 ACATGACATTACTTTGTAACATCACT 57.378 30.769 0.00 0.00 0.00 3.41
6378 8556 0.804364 TGGATGCATTGTCGTTGCTC 59.196 50.000 0.00 0.00 40.77 4.26
6442 8620 6.357367 AGATTGGTTTGATGGTATCAGGTAC 58.643 40.000 0.00 0.00 40.94 3.34
6483 8666 6.757897 ATTTCATAATCGTGGTGTTCATGT 57.242 33.333 0.00 0.00 34.14 3.21
6538 8721 4.511527 AGCTGTTCTAGATTGTCATGTGG 58.488 43.478 0.00 0.00 0.00 4.17
6594 8777 7.961351 TGATTTACACAATCAATTTTGGGACT 58.039 30.769 0.00 0.00 34.06 3.85
6596 8779 9.921637 GATTTACACAATCAATTTTGGGACTTA 57.078 29.630 0.00 0.00 34.06 2.24
6655 8838 1.310933 GCATGGACAGTGGCCAAGAG 61.311 60.000 24.84 16.23 39.21 2.85
6688 8871 2.046283 TCTTTGTACAGCGTGACTCG 57.954 50.000 0.00 0.00 43.12 4.18
6712 8895 5.631026 CGTGGACAAAAGAATAACATCCAG 58.369 41.667 0.00 0.00 35.49 3.86
6730 8913 3.118702 TCCAGAAACCGTTTACACTCACA 60.119 43.478 0.00 0.00 0.00 3.58
6758 8941 4.527509 TCTAAGCAGGTGAGCTATATGC 57.472 45.455 4.90 4.90 45.89 3.14
6946 9180 2.949644 AGCGAATGGTGTTTATTAGCCC 59.050 45.455 0.00 0.00 37.00 5.19
7058 9292 5.645497 AGAGCATTGACTTGTACTTCCATTC 59.355 40.000 0.00 0.00 0.00 2.67
7102 9338 3.181423 ACAACCACCACCAATTACCATCT 60.181 43.478 0.00 0.00 0.00 2.90
7110 9346 5.111293 CCACCAATTACCATCTTCAAATGC 58.889 41.667 0.00 0.00 0.00 3.56
7157 9395 1.142667 TGGTTGCACAATCTGGTCTGA 59.857 47.619 0.00 0.00 0.00 3.27
7188 9426 4.624015 ACAACTGCTTGAATCCAAACATG 58.376 39.130 0.00 0.00 29.16 3.21
7248 9486 5.761165 TTACAGGTGCCAGTTACTTTTTC 57.239 39.130 0.00 0.00 0.00 2.29
7253 9492 6.378848 ACAGGTGCCAGTTACTTTTTCTTAAA 59.621 34.615 0.00 0.00 0.00 1.52
7269 9508 8.873186 TTTTCTTAAAAGTATTAGGACCCTGG 57.127 34.615 0.00 0.00 0.00 4.45
7283 9522 3.394606 GGACCCTGGCTTCCATTAGATAA 59.605 47.826 7.52 0.00 30.82 1.75
7322 9561 7.447374 TTTACATCAGGACACAAATTACAGG 57.553 36.000 0.00 0.00 0.00 4.00
7323 9562 3.758554 ACATCAGGACACAAATTACAGGC 59.241 43.478 0.00 0.00 0.00 4.85
7384 9623 1.667724 CATGATGCGGAAGTTGGAGAC 59.332 52.381 0.00 0.00 0.00 3.36
7617 9856 4.782691 TCTGATTATGGTCCAGGAAGACAA 59.217 41.667 0.00 0.00 38.59 3.18
7647 9886 7.390162 TCCAGGAAAATATTCAACATTTTTGCC 59.610 33.333 0.00 0.00 36.09 4.52
7670 9909 6.484643 GCCAAACATCTTCTCATAGATTAGCA 59.515 38.462 0.00 0.00 32.60 3.49
7693 9932 4.081642 ACACTATCAGTTTATGTGCCTCGT 60.082 41.667 0.00 0.00 32.49 4.18
7810 10049 5.376854 TTTCTTGGACTGATTAAGCAAGC 57.623 39.130 0.00 0.00 30.28 4.01
7877 10116 9.132923 TGTTCATGGTAGGTAATTAGAGACTAG 57.867 37.037 0.00 0.00 0.00 2.57
7880 10119 9.352191 TCATGGTAGGTAATTAGAGACTAGAAC 57.648 37.037 0.00 0.00 0.00 3.01
7957 10361 8.244802 AGTCGAATATCAGTAACATATGGTAGC 58.755 37.037 7.80 0.30 0.00 3.58
7978 10382 1.190833 ACTCAGAGGTCCTGCCACAG 61.191 60.000 0.00 0.00 42.62 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 3.841643 CAGACCAAAGAATGAATGCCAC 58.158 45.455 0.00 0.00 0.00 5.01
65 67 4.453478 GCACATTCAAGTCATTGTGAGAGA 59.547 41.667 6.12 0.00 41.50 3.10
132 136 2.214181 CTGAGTAGTCGCAAGCGGGT 62.214 60.000 14.98 4.74 40.25 5.28
216 227 1.883275 TGGACGCGGATTTGTTTTGAT 59.117 42.857 12.47 0.00 0.00 2.57
346 369 2.906354 CCATAGAACCTTGGAGTTCCG 58.094 52.381 0.98 0.00 46.00 4.30
428 456 5.407407 AGTGATGTACCGAAAGTTCTCAT 57.593 39.130 0.00 0.00 0.00 2.90
488 518 6.408869 TGATGCTCAAGAAATGACACTATCA 58.591 36.000 0.00 0.00 43.13 2.15
520 550 2.129823 TGAACTTGACGGTTCTCGAC 57.870 50.000 8.47 0.00 44.02 4.20
580 611 4.951094 AGAACAGTTAGGACTCGCTTAGAT 59.049 41.667 0.00 0.00 32.54 1.98
644 686 7.090953 TCAGAGTTTACAAACCGAATTGTTT 57.909 32.000 10.38 0.00 40.52 2.83
647 689 9.329913 CTAATTCAGAGTTTACAAACCGAATTG 57.670 33.333 22.29 14.96 39.89 2.32
672 725 9.357161 TGTTCAACCAATATAGTTTACAAACCT 57.643 29.630 1.27 0.00 39.71 3.50
795 894 0.250295 CACTGAGTTTTGGCCGGAGA 60.250 55.000 5.05 0.00 0.00 3.71
796 895 0.250295 TCACTGAGTTTTGGCCGGAG 60.250 55.000 5.05 0.00 0.00 4.63
846 953 9.609346 GTGGAGTAAAAGGCTTAGTGAAATATA 57.391 33.333 0.00 0.00 0.00 0.86
847 954 8.329502 AGTGGAGTAAAAGGCTTAGTGAAATAT 58.670 33.333 0.00 0.00 0.00 1.28
848 955 7.686434 AGTGGAGTAAAAGGCTTAGTGAAATA 58.314 34.615 0.00 0.00 0.00 1.40
849 956 6.543735 AGTGGAGTAAAAGGCTTAGTGAAAT 58.456 36.000 0.00 0.00 0.00 2.17
850 957 5.937111 AGTGGAGTAAAAGGCTTAGTGAAA 58.063 37.500 0.00 0.00 0.00 2.69
851 958 5.562298 AGTGGAGTAAAAGGCTTAGTGAA 57.438 39.130 0.00 0.00 0.00 3.18
852 959 6.014647 TCTAGTGGAGTAAAAGGCTTAGTGA 58.985 40.000 0.00 0.00 0.00 3.41
853 960 6.153000 TCTCTAGTGGAGTAAAAGGCTTAGTG 59.847 42.308 0.00 0.00 42.40 2.74
854 961 6.254522 TCTCTAGTGGAGTAAAAGGCTTAGT 58.745 40.000 0.00 0.00 42.40 2.24
855 962 6.777213 TCTCTAGTGGAGTAAAAGGCTTAG 57.223 41.667 0.00 0.00 42.40 2.18
856 963 6.407074 GCATCTCTAGTGGAGTAAAAGGCTTA 60.407 42.308 0.00 0.00 42.40 3.09
857 964 5.627968 GCATCTCTAGTGGAGTAAAAGGCTT 60.628 44.000 3.16 0.00 42.40 4.35
858 965 4.141824 GCATCTCTAGTGGAGTAAAAGGCT 60.142 45.833 3.16 0.00 42.40 4.58
859 966 4.123506 GCATCTCTAGTGGAGTAAAAGGC 58.876 47.826 3.16 0.00 42.40 4.35
860 967 4.443598 GGGCATCTCTAGTGGAGTAAAAGG 60.444 50.000 3.16 0.00 42.40 3.11
861 968 4.407296 AGGGCATCTCTAGTGGAGTAAAAG 59.593 45.833 3.16 0.00 42.40 2.27
862 969 4.362677 AGGGCATCTCTAGTGGAGTAAAA 58.637 43.478 3.16 0.00 42.40 1.52
863 970 3.995636 AGGGCATCTCTAGTGGAGTAAA 58.004 45.455 3.16 0.00 42.40 2.01
864 971 3.689872 AGGGCATCTCTAGTGGAGTAA 57.310 47.619 3.16 0.00 42.40 2.24
865 972 3.689872 AAGGGCATCTCTAGTGGAGTA 57.310 47.619 3.16 0.00 42.40 2.59
866 973 2.559381 AAGGGCATCTCTAGTGGAGT 57.441 50.000 3.16 0.00 42.40 3.85
867 974 6.013379 TCTAATAAGGGCATCTCTAGTGGAG 58.987 44.000 0.00 0.00 43.12 3.86
868 975 5.965486 TCTAATAAGGGCATCTCTAGTGGA 58.035 41.667 0.00 0.00 0.00 4.02
869 976 6.672266 TTCTAATAAGGGCATCTCTAGTGG 57.328 41.667 0.00 0.00 0.00 4.00
870 977 6.642950 CGTTTCTAATAAGGGCATCTCTAGTG 59.357 42.308 0.00 0.00 0.00 2.74
871 978 6.550108 TCGTTTCTAATAAGGGCATCTCTAGT 59.450 38.462 0.00 0.00 0.00 2.57
872 979 6.982852 TCGTTTCTAATAAGGGCATCTCTAG 58.017 40.000 0.00 0.00 0.00 2.43
873 980 6.971726 TCGTTTCTAATAAGGGCATCTCTA 57.028 37.500 0.00 0.00 0.00 2.43
874 981 5.871396 TCGTTTCTAATAAGGGCATCTCT 57.129 39.130 0.00 0.00 0.00 3.10
875 982 7.117956 GGTATTCGTTTCTAATAAGGGCATCTC 59.882 40.741 0.00 0.00 0.00 2.75
876 983 6.935208 GGTATTCGTTTCTAATAAGGGCATCT 59.065 38.462 0.00 0.00 0.00 2.90
877 984 6.128634 CGGTATTCGTTTCTAATAAGGGCATC 60.129 42.308 0.00 0.00 0.00 3.91
878 985 5.699458 CGGTATTCGTTTCTAATAAGGGCAT 59.301 40.000 0.00 0.00 0.00 4.40
879 986 5.051816 CGGTATTCGTTTCTAATAAGGGCA 58.948 41.667 0.00 0.00 0.00 5.36
880 987 5.587033 CGGTATTCGTTTCTAATAAGGGC 57.413 43.478 0.00 0.00 0.00 5.19
920 1028 4.433102 CAAACCGTCCGATTTGCG 57.567 55.556 0.00 0.00 40.47 4.85
1142 1250 3.839432 GAGGCGGGCGCTTCTACT 61.839 66.667 7.64 0.00 42.82 2.57
1408 1516 2.159226 GCGATGCAGTCTAGTTACCAGT 60.159 50.000 0.00 0.00 0.00 4.00
1420 1528 2.238942 TATCCGAAATGCGATGCAGT 57.761 45.000 0.00 0.00 43.65 4.40
1425 1533 8.521176 ACTATAGTAGTTTATCCGAAATGCGAT 58.479 33.333 2.75 0.00 37.82 4.58
1446 1554 2.889045 CCGGCACCTGTAAGCTACTATA 59.111 50.000 0.00 0.00 0.00 1.31
1453 1562 0.739813 CTGTACCGGCACCTGTAAGC 60.740 60.000 0.00 0.00 0.00 3.09
1608 1717 4.575885 TGCTTACCATAGAACCACAAGTC 58.424 43.478 0.00 0.00 0.00 3.01
1623 1732 2.446435 TCCAAATCAGCCTTGCTTACC 58.554 47.619 0.00 0.00 36.40 2.85
1626 1735 1.897802 CCTTCCAAATCAGCCTTGCTT 59.102 47.619 0.00 0.00 36.40 3.91
1627 1736 1.076024 TCCTTCCAAATCAGCCTTGCT 59.924 47.619 0.00 0.00 40.77 3.91
1628 1737 1.203287 GTCCTTCCAAATCAGCCTTGC 59.797 52.381 0.00 0.00 0.00 4.01
1629 1738 1.821136 GGTCCTTCCAAATCAGCCTTG 59.179 52.381 0.00 0.00 35.97 3.61
1630 1739 1.428912 TGGTCCTTCCAAATCAGCCTT 59.571 47.619 0.00 0.00 44.12 4.35
1631 1740 1.075601 TGGTCCTTCCAAATCAGCCT 58.924 50.000 0.00 0.00 44.12 4.58
1632 1741 3.670105 TGGTCCTTCCAAATCAGCC 57.330 52.632 0.00 0.00 44.12 4.85
1640 1749 2.509548 CCTATCATGGTTGGTCCTTCCA 59.490 50.000 0.00 7.79 45.60 3.53
1641 1750 2.509964 ACCTATCATGGTTGGTCCTTCC 59.490 50.000 6.24 0.00 36.89 3.46
1642 1751 3.933861 ACCTATCATGGTTGGTCCTTC 57.066 47.619 6.24 0.00 36.89 3.46
1651 1760 5.458948 CCTCTCTCCTCTAACCTATCATGGT 60.459 48.000 0.00 0.00 43.11 3.55
1652 1761 5.016173 CCTCTCTCCTCTAACCTATCATGG 58.984 50.000 0.00 0.00 0.00 3.66
1653 1762 5.016173 CCCTCTCTCCTCTAACCTATCATG 58.984 50.000 0.00 0.00 0.00 3.07
1658 1777 4.969136 AAACCCTCTCTCCTCTAACCTA 57.031 45.455 0.00 0.00 0.00 3.08
1661 1787 3.380954 CGGTAAACCCTCTCTCCTCTAAC 59.619 52.174 0.00 0.00 0.00 2.34
1682 1811 1.103803 TTCTCTGATCCCTCGGTTCG 58.896 55.000 0.00 0.00 0.00 3.95
1688 1817 2.499289 TCAAGCTGTTCTCTGATCCCTC 59.501 50.000 0.00 0.00 0.00 4.30
1756 1885 7.672983 AAGCATCTCTTCACGAAAAATCTTA 57.327 32.000 0.00 0.00 0.00 2.10
1828 1957 7.496747 TGATTTCAGTGATTCCATGACGTATA 58.503 34.615 0.00 0.00 0.00 1.47
1832 1965 4.872124 TCTGATTTCAGTGATTCCATGACG 59.128 41.667 7.42 0.00 44.12 4.35
1928 2064 6.698008 AAAAACATGTGTGATGTCTGAGAA 57.302 33.333 0.00 0.00 0.00 2.87
1954 2090 1.344763 AGAAGTAGACCCACAGCACAC 59.655 52.381 0.00 0.00 0.00 3.82
1960 2096 4.466370 CCATCTAACAGAAGTAGACCCACA 59.534 45.833 0.00 0.00 0.00 4.17
1962 2098 4.466370 CACCATCTAACAGAAGTAGACCCA 59.534 45.833 0.00 0.00 0.00 4.51
2109 2245 0.737715 GCAGGAGAGCAACAGGTACG 60.738 60.000 0.00 0.00 0.00 3.67
2294 2430 2.178474 GCACGTGCATATCAACTTGG 57.822 50.000 34.52 0.00 41.59 3.61
2388 2524 8.938906 ACAAACATCATATGAAAAATTCCAAGC 58.061 29.630 9.99 0.00 0.00 4.01
2449 2586 7.391148 TCTTTACTTCCACAAATCATAAGCC 57.609 36.000 0.00 0.00 0.00 4.35
2569 2706 0.534203 TCAAACCGAGTTGACTGGCC 60.534 55.000 0.00 0.00 32.56 5.36
2624 2761 5.315348 ACCGAATACCAGATACTACCTCTC 58.685 45.833 0.00 0.00 0.00 3.20
2651 2788 4.144297 CAAAACCAGGGAATCTGTCTCAA 58.856 43.478 0.00 0.00 41.83 3.02
2653 2790 3.084786 CCAAAACCAGGGAATCTGTCTC 58.915 50.000 0.00 0.00 41.83 3.36
2681 2818 7.016153 TCCTGTGGTTGTTACTGATTAGATT 57.984 36.000 0.00 0.00 0.00 2.40
2732 2869 8.040979 CTCATGTGAGTGCAACAGAGATTCTG 62.041 46.154 4.60 4.60 42.24 3.02
2733 2870 3.758755 TGTGAGTGCAACAGAGATTCT 57.241 42.857 0.00 0.00 41.43 2.40
2734 2871 3.999001 TCATGTGAGTGCAACAGAGATTC 59.001 43.478 0.00 0.00 41.43 2.52
2766 2907 7.257722 ACTGAAATAATAATTTTGCGTGAGGG 58.742 34.615 0.00 0.00 35.41 4.30
3022 3163 7.589587 TGCAATAACAAATTAACAAGTCTCACG 59.410 33.333 0.00 0.00 0.00 4.35
3141 3282 7.645340 AGATATTATCAAAAATGCGTTCAGTGC 59.355 33.333 6.46 0.00 0.00 4.40
3203 3344 9.787435 AGGAAAATATTAGTTTCACTGTGTGTA 57.213 29.630 15.98 0.00 36.82 2.90
3317 3460 7.707035 GTCTATCGAATGTCCTTTTCTGTGTAT 59.293 37.037 0.00 0.00 0.00 2.29
3337 3480 5.303078 AGATGTGTGGTGACTATGGTCTATC 59.697 44.000 10.82 1.59 42.54 2.08
3625 3773 5.859521 ATGAAATCTCGCATCTAATGAGC 57.140 39.130 0.00 0.00 0.00 4.26
3627 3775 7.280652 TGAACAATGAAATCTCGCATCTAATGA 59.719 33.333 0.00 0.00 0.00 2.57
3656 3804 5.063817 GGAGCCATGTTATCAAATTTGTTGC 59.936 40.000 17.47 8.16 0.00 4.17
3841 4179 7.332557 ACACTATTATGTTGAACGGATTGGTA 58.667 34.615 0.00 0.00 0.00 3.25
3848 4186 7.821595 TTCACTACACTATTATGTTGAACGG 57.178 36.000 0.00 0.00 33.85 4.44
3911 4710 1.138069 TGGATCGCGGAAATCAGCTAA 59.862 47.619 6.13 0.00 34.89 3.09
4086 4886 6.896021 ATGAATATGATGCCTGAAAGAAGG 57.104 37.500 0.00 0.00 40.63 3.46
4502 5310 4.220382 TGGAATATCTGCACCCAAACAAAG 59.780 41.667 0.00 0.00 0.00 2.77
4889 5861 9.320352 GTTTTTCCCACACAATATGTAAAGTTT 57.680 29.630 0.00 0.00 40.64 2.66
4891 5863 8.245195 AGTTTTTCCCACACAATATGTAAAGT 57.755 30.769 0.00 0.00 40.64 2.66
4903 5875 8.936070 AAGTTTAATACAAGTTTTTCCCACAC 57.064 30.769 0.00 0.00 0.00 3.82
4904 5876 9.589111 GAAAGTTTAATACAAGTTTTTCCCACA 57.411 29.630 0.00 0.00 30.81 4.17
5029 6002 4.846779 TGTCAGCCAAGGTGAAAATTAC 57.153 40.909 0.00 0.00 41.75 1.89
5093 6066 4.687483 GCAGCATGTTCAACAATTTAGCTT 59.313 37.500 0.00 0.00 39.31 3.74
5132 6106 9.891828 TGATTAGTTCACAAAACAATGTATGAC 57.108 29.630 6.17 0.00 30.84 3.06
5168 6142 5.528870 CCAAAAACTGGTAGATGGTTTCAC 58.471 41.667 0.00 0.00 40.78 3.18
5268 7432 7.865706 AGACCAGGTGAATTTGATTATACAC 57.134 36.000 0.00 0.00 0.00 2.90
5304 7468 2.397044 ATTCCTTTCAAACCCTGGCA 57.603 45.000 0.00 0.00 0.00 4.92
5392 7556 4.778213 ATGGCTAATGTTGCTCCTCTTA 57.222 40.909 0.00 0.00 0.00 2.10
5412 7576 2.172717 AGTAGCAACATTCCGGGCTTAT 59.827 45.455 0.00 0.00 37.79 1.73
5524 7691 4.467198 ACTATCCCGTGTAACTTTCCAG 57.533 45.455 0.00 0.00 31.75 3.86
5587 7754 1.301716 CACCACTTGTGGGAGGACG 60.302 63.158 21.98 1.99 41.52 4.79
5793 7961 4.023021 GCCGCTGTTAACTATAGACTAGCT 60.023 45.833 6.78 0.00 0.00 3.32
5872 8041 4.098914 AGTCCATGCCTGTTTCAGTTTA 57.901 40.909 0.00 0.00 0.00 2.01
5885 8054 1.609208 ACAACCAGTGAAGTCCATGC 58.391 50.000 0.00 0.00 0.00 4.06
5920 8089 0.035056 CCTACTCCAGTTTGGGCCAG 60.035 60.000 6.23 0.00 38.32 4.85
5952 8121 5.475909 AGACAGCTTGTGATGATCATGTTTT 59.524 36.000 14.30 0.00 33.22 2.43
5961 8130 4.558226 AATACCAGACAGCTTGTGATGA 57.442 40.909 0.00 0.00 33.22 2.92
6035 8204 4.036734 TCTGTGTTCAATGTTCCTTTCAGC 59.963 41.667 0.00 0.00 0.00 4.26
6118 8293 8.197439 CAGTATATCGCCCATGATGTAATCTAA 58.803 37.037 0.00 0.00 45.81 2.10
6145 8320 3.527533 ACGAAGTTATGCGCCTGAAATA 58.472 40.909 4.18 0.00 37.78 1.40
6205 8380 8.352201 CAAAGTAATGTCATGTTACATATGGGG 58.648 37.037 7.80 0.00 39.16 4.96
6238 8413 9.829507 AGAATCAGAGGAAATCAAGTATAAGTG 57.170 33.333 0.00 0.00 0.00 3.16
6253 8431 5.413833 GCACAAATCAGAAAGAATCAGAGGA 59.586 40.000 0.00 0.00 0.00 3.71
6378 8556 3.119495 GGCCCATTACAGCAAGTAAACAG 60.119 47.826 5.96 1.09 45.25 3.16
6538 8721 1.682854 CAACATGTGGGGTATGATGGC 59.317 52.381 0.00 0.00 0.00 4.40
6594 8777 2.016318 CGAATGTGCTGCTCCCATTAA 58.984 47.619 0.00 0.00 0.00 1.40
6596 8779 1.033746 CCGAATGTGCTGCTCCCATT 61.034 55.000 0.00 6.82 0.00 3.16
6655 8838 6.143919 GCTGTACAAAGAAATTACAAACTGGC 59.856 38.462 0.00 0.00 0.00 4.85
6688 8871 4.083003 TGGATGTTATTCTTTTGTCCACGC 60.083 41.667 0.00 0.00 29.89 5.34
6712 8895 4.533222 CCAATGTGAGTGTAAACGGTTTC 58.467 43.478 9.78 3.08 0.00 2.78
6730 8913 2.619074 GCTCACCTGCTTAGAACCCAAT 60.619 50.000 0.00 0.00 0.00 3.16
6758 8941 1.233019 CCTCCTTTGCATATGGAGCG 58.767 55.000 18.94 11.66 43.58 5.03
6776 8959 4.218417 ACTTCAAATGTAACACTGATGCCC 59.782 41.667 0.00 0.00 0.00 5.36
6863 9097 3.579151 GGTTGTGCCCCTAAAATGGTTAA 59.421 43.478 0.00 0.00 0.00 2.01
6894 9128 1.555075 TCAGCTGTACCCTTCCATGAC 59.445 52.381 14.67 0.00 0.00 3.06
6946 9180 5.337219 TGACAACACTGCACTAATAAACG 57.663 39.130 0.00 0.00 0.00 3.60
7012 9246 5.807520 TCTCAAGTGCGATGAAAGTATCTTC 59.192 40.000 0.00 0.00 0.00 2.87
7077 9311 3.227614 GGTAATTGGTGGTGGTTGTTCT 58.772 45.455 0.00 0.00 0.00 3.01
7078 9312 2.959707 TGGTAATTGGTGGTGGTTGTTC 59.040 45.455 0.00 0.00 0.00 3.18
7085 9321 5.720371 TTTGAAGATGGTAATTGGTGGTG 57.280 39.130 0.00 0.00 0.00 4.17
7086 9322 5.337491 GCATTTGAAGATGGTAATTGGTGGT 60.337 40.000 0.00 0.00 0.00 4.16
7102 9338 5.437289 AATCACTTTGTCTCGCATTTGAA 57.563 34.783 0.00 0.00 0.00 2.69
7110 9346 2.345641 CGCACCTAATCACTTTGTCTCG 59.654 50.000 0.00 0.00 0.00 4.04
7157 9395 5.221126 GGATTCAAGCAGTTGTCTGAACTTT 60.221 40.000 0.00 0.00 43.76 2.66
7248 9486 6.002653 AGCCAGGGTCCTAATACTTTTAAG 57.997 41.667 0.00 0.00 0.00 1.85
7253 9492 2.778270 GGAAGCCAGGGTCCTAATACTT 59.222 50.000 0.00 0.00 0.00 2.24
7255 9494 2.124411 TGGAAGCCAGGGTCCTAATAC 58.876 52.381 0.00 0.00 34.77 1.89
7258 9497 1.681229 AATGGAAGCCAGGGTCCTAA 58.319 50.000 0.00 0.00 36.75 2.69
7259 9498 2.022428 TCTAATGGAAGCCAGGGTCCTA 60.022 50.000 0.00 0.00 36.75 2.94
7269 9508 6.429078 TGATGTCATGCTTATCTAATGGAAGC 59.571 38.462 0.00 0.00 44.71 3.86
7283 9522 6.183360 CCTGATGTAAAATGTGATGTCATGCT 60.183 38.462 0.00 0.00 0.00 3.79
7322 9561 1.600916 AAGGAAGGTTGCGACTGGC 60.601 57.895 3.59 0.00 43.96 4.85
7323 9562 1.237285 CCAAGGAAGGTTGCGACTGG 61.237 60.000 3.59 0.00 0.00 4.00
7362 9601 2.171237 TCTCCAACTTCCGCATCATGAT 59.829 45.455 1.18 1.18 0.00 2.45
7363 9602 1.554617 TCTCCAACTTCCGCATCATGA 59.445 47.619 0.00 0.00 0.00 3.07
7364 9603 1.667724 GTCTCCAACTTCCGCATCATG 59.332 52.381 0.00 0.00 0.00 3.07
7384 9623 2.507484 TCCAAACAAGACTCAGCATGG 58.493 47.619 0.00 0.00 36.16 3.66
7491 9730 8.385491 TGGATGCACCATTATCTTATAGTTGAT 58.615 33.333 4.16 0.00 44.64 2.57
7492 9731 7.744733 TGGATGCACCATTATCTTATAGTTGA 58.255 34.615 4.16 0.00 44.64 3.18
7493 9732 7.984422 TGGATGCACCATTATCTTATAGTTG 57.016 36.000 4.16 0.00 44.64 3.16
7528 9767 7.926020 TGCATATATGTATCCATCCTCTCAT 57.074 36.000 14.14 0.00 32.29 2.90
7589 9828 4.826616 TCCTGGACCATAATCAGATACCA 58.173 43.478 0.00 0.00 0.00 3.25
7647 9886 8.333908 GTGTGCTAATCTATGAGAAGATGTTTG 58.666 37.037 0.00 0.00 36.34 2.93
7670 9909 4.081642 ACGAGGCACATAAACTGATAGTGT 60.082 41.667 0.00 0.00 32.99 3.55
7693 9932 5.423931 TCCTCTGGCATATGTTGTAACTACA 59.576 40.000 4.29 0.00 0.00 2.74
7774 10013 4.016444 TCCAAGAAAACCAGCATATGACC 58.984 43.478 6.97 0.00 0.00 4.02
7810 10049 8.498358 TGTTCGCAAATAGCAATCTTGATATAG 58.502 33.333 1.47 0.26 46.13 1.31
7877 10116 9.669353 ATTAAGATCATTGCATACAATTCGTTC 57.331 29.630 0.00 0.00 44.21 3.95
7880 10119 8.077991 ACCATTAAGATCATTGCATACAATTCG 58.922 33.333 0.00 0.00 44.21 3.34
7957 10361 0.820871 GTGGCAGGACCTCTGAGTAG 59.179 60.000 3.66 0.00 46.18 2.57
7978 10382 6.128145 GGAAGTGCTCAAGTCCTTTAGAATTC 60.128 42.308 0.00 0.00 28.05 2.17


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

AutoCloner maintained by Alex Coulton.