Multiple sequence alignment - TraesCS6B01G381400

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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 TraesCS6B01G381400 chr6B 100.000 7014 0 0 1 7014 656287203 656280190 0.000000e+00 12953.0
1 TraesCS6B01G381400 chr6B 87.161 2874 312 32 3169 6011 655889417 655892264 0.000000e+00 3210.0
2 TraesCS6B01G381400 chr6B 86.714 2815 346 22 3202 6003 655868014 655870813 0.000000e+00 3101.0
3 TraesCS6B01G381400 chr6B 87.626 1689 177 14 3971 5650 655763426 655765091 0.000000e+00 1932.0
4 TraesCS6B01G381400 chr6B 87.200 1664 188 11 3202 4858 655311751 655313396 0.000000e+00 1869.0
5 TraesCS6B01G381400 chr6B 86.009 1115 144 8 4910 6013 655313718 655314831 0.000000e+00 1184.0
6 TraesCS6B01G381400 chr6B 85.987 785 102 7 3193 3973 655757339 655758119 0.000000e+00 833.0
7 TraesCS6B01G381400 chr6B 92.053 302 15 7 1044 1345 655863019 655863311 3.910000e-112 416.0
8 TraesCS6B01G381400 chr6B 90.728 302 19 7 1044 1345 655888028 655888320 1.830000e-105 394.0
9 TraesCS6B01G381400 chr6B 88.487 304 24 9 1042 1345 655753040 655753332 2.410000e-94 357.0
10 TraesCS6B01G381400 chr6B 86.424 302 23 6 1044 1345 655300232 655300515 1.470000e-81 315.0
11 TraesCS6B01G381400 chr6B 81.197 117 15 6 6213 6327 30348244 30348355 3.490000e-13 87.9
12 TraesCS6B01G381400 chr6D 93.494 3643 168 18 2691 6271 433940571 433936936 0.000000e+00 5350.0
13 TraesCS6B01G381400 chr6D 86.650 2869 344 25 3168 6005 433711703 433708843 0.000000e+00 3140.0
14 TraesCS6B01G381400 chr6D 83.439 1570 107 49 1 1508 433943637 433942159 0.000000e+00 1317.0
15 TraesCS6B01G381400 chr6D 95.690 696 21 5 6326 7014 433936802 433936109 0.000000e+00 1110.0
16 TraesCS6B01G381400 chr6D 87.332 892 51 27 1652 2515 433941912 433941055 0.000000e+00 965.0
17 TraesCS6B01G381400 chr6D 90.000 370 31 3 976 1345 433715313 433714950 2.290000e-129 473.0
18 TraesCS6B01G381400 chr6A 93.902 3198 168 18 3093 6271 580206398 580203209 0.000000e+00 4800.0
19 TraesCS6B01G381400 chr6A 87.755 2891 280 45 3158 6004 579841992 579844852 0.000000e+00 3310.0
20 TraesCS6B01G381400 chr6A 82.904 2135 170 70 1 2030 580214037 580211993 0.000000e+00 1740.0
21 TraesCS6B01G381400 chr6A 94.886 704 20 5 6326 7014 580203073 580202371 0.000000e+00 1086.0
22 TraesCS6B01G381400 chr6A 88.333 540 36 16 2147 2664 580211927 580211393 2.150000e-174 623.0
23 TraesCS6B01G381400 chr6A 90.728 302 19 7 1044 1345 579839166 579839458 1.830000e-105 394.0
24 TraesCS6B01G381400 chr6A 86.638 232 14 6 2691 2907 580211404 580211175 2.530000e-59 241.0
25 TraesCS6B01G381400 chr2B 79.707 1025 185 17 3199 4216 680806421 680805413 0.000000e+00 719.0
26 TraesCS6B01G381400 chr2B 82.569 109 10 7 6222 6327 97944874 97944772 3.490000e-13 87.9
27 TraesCS6B01G381400 chr2D 79.802 1010 181 19 3199 4201 568252074 568251081 0.000000e+00 713.0
28 TraesCS6B01G381400 chr2D 80.706 793 133 16 4550 5339 568250675 568249900 3.620000e-167 599.0
29 TraesCS6B01G381400 chr2D 79.293 198 35 4 4283 4477 568251026 568250832 4.410000e-27 134.0
30 TraesCS6B01G381400 chr2D 83.486 109 9 8 6222 6327 628269397 628269295 7.490000e-15 93.5
31 TraesCS6B01G381400 chr2D 82.569 109 10 7 6222 6327 62390541 62390439 3.490000e-13 87.9
32 TraesCS6B01G381400 chr1B 84.259 108 10 5 6222 6327 377105653 377105755 1.610000e-16 99.0
33 TraesCS6B01G381400 chr1B 83.810 105 8 8 6222 6322 189057542 189057443 2.690000e-14 91.6
34 TraesCS6B01G381400 chrUn 83.810 105 8 6 6222 6322 23280487 23280586 2.690000e-14 91.6
35 TraesCS6B01G381400 chr5B 81.356 118 15 4 6212 6327 327750367 327750255 9.690000e-14 89.8
36 TraesCS6B01G381400 chr2A 83.019 106 11 5 6224 6327 687286582 687286682 9.690000e-14 89.8


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 TraesCS6B01G381400 chr6B 656280190 656287203 7013 True 12953.0 12953 100.000000 1 7014 1 chr6B.!!$R1 7013
1 TraesCS6B01G381400 chr6B 655868014 655870813 2799 False 3101.0 3101 86.714000 3202 6003 1 chr6B.!!$F7 2801
2 TraesCS6B01G381400 chr6B 655763426 655765091 1665 False 1932.0 1932 87.626000 3971 5650 1 chr6B.!!$F5 1679
3 TraesCS6B01G381400 chr6B 655888028 655892264 4236 False 1802.0 3210 88.944500 1044 6011 2 chr6B.!!$F9 4967
4 TraesCS6B01G381400 chr6B 655311751 655314831 3080 False 1526.5 1869 86.604500 3202 6013 2 chr6B.!!$F8 2811
5 TraesCS6B01G381400 chr6B 655757339 655758119 780 False 833.0 833 85.987000 3193 3973 1 chr6B.!!$F4 780
6 TraesCS6B01G381400 chr6D 433936109 433943637 7528 True 2185.5 5350 89.988750 1 7014 4 chr6D.!!$R2 7013
7 TraesCS6B01G381400 chr6D 433708843 433715313 6470 True 1806.5 3140 88.325000 976 6005 2 chr6D.!!$R1 5029
8 TraesCS6B01G381400 chr6A 580202371 580206398 4027 True 2943.0 4800 94.394000 3093 7014 2 chr6A.!!$R1 3921
9 TraesCS6B01G381400 chr6A 579839166 579844852 5686 False 1852.0 3310 89.241500 1044 6004 2 chr6A.!!$F1 4960
10 TraesCS6B01G381400 chr6A 580211175 580214037 2862 True 868.0 1740 85.958333 1 2907 3 chr6A.!!$R2 2906
11 TraesCS6B01G381400 chr2B 680805413 680806421 1008 True 719.0 719 79.707000 3199 4216 1 chr2B.!!$R2 1017
12 TraesCS6B01G381400 chr2D 568249900 568252074 2174 True 482.0 713 79.933667 3199 5339 3 chr2D.!!$R3 2140

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
39 43 0.108804 CGTGTAGATGCCGGAACACT 60.109 55.000 5.05 0.00 40.01 3.55 F
728 778 0.533951 CTCCACAAGGGGGTACGTAC 59.466 60.000 17.56 17.56 37.22 3.67 F
2186 3063 0.105964 TTAGGGTCGATCATTGGGCG 59.894 55.000 0.00 0.00 0.00 6.13 F
2663 5077 0.179059 TTGTCAAAGTCCTCGCAGCA 60.179 50.000 0.00 0.00 0.00 4.41 F
3282 6545 0.535780 CAGAGGCAGAGTTTGTGGCA 60.536 55.000 2.79 0.00 42.81 4.92 F
4216 7505 1.918293 ATCCTGCGGGACCTGAACA 60.918 57.895 18.90 0.00 45.43 3.18 F
5938 9669 0.526211 CGGTGTCGGAGATCAGTGAA 59.474 55.000 0.00 0.00 40.67 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1409 1559 0.319083 AAGTGTTATCGTGGACGGCA 59.681 50.000 0.00 0.00 40.29 5.69 R
2419 4293 0.459411 TACGTCCACATGGTGCGATG 60.459 55.000 18.92 9.96 37.78 3.84 R
4063 7348 0.043652 CCGTCGAACGTTGTGTTGAC 60.044 55.000 5.00 0.00 42.09 3.18 R
4201 7486 2.317609 CGTTGTTCAGGTCCCGCAG 61.318 63.158 0.00 0.00 0.00 5.18 R
5014 8707 3.382832 AGGCTCGCCGTGTAGCTT 61.383 61.111 1.69 0.00 41.95 3.74 R
5944 9675 1.383664 CCCCTCCATCCTCTGCTCA 60.384 63.158 0.00 0.00 0.00 4.26 R
6840 10684 1.275291 TCCAGGACCAGTCGACAATTC 59.725 52.381 19.50 9.87 0.00 2.17 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
31 35 2.094906 TGTGTGTAGTCGTGTAGATGCC 60.095 50.000 0.00 0.00 0.00 4.40
36 40 0.172803 AGTCGTGTAGATGCCGGAAC 59.827 55.000 5.05 0.00 0.00 3.62
39 43 0.108804 CGTGTAGATGCCGGAACACT 60.109 55.000 5.05 0.00 40.01 3.55
120 129 0.670546 TGACGTGAAGCAAGCTAGCC 60.671 55.000 12.13 0.00 34.23 3.93
132 141 3.265791 CAAGCTAGCCAGTGACCTAAAG 58.734 50.000 12.13 0.00 0.00 1.85
138 147 2.303311 AGCCAGTGACCTAAAGTTCTCC 59.697 50.000 0.00 0.00 0.00 3.71
139 148 2.038557 GCCAGTGACCTAAAGTTCTCCA 59.961 50.000 0.00 0.00 0.00 3.86
144 153 6.940298 CCAGTGACCTAAAGTTCTCCAATTTA 59.060 38.462 0.00 0.00 0.00 1.40
161 170 9.883142 CTCCAATTTAGGATAATCTATGTCTCC 57.117 37.037 0.00 0.00 36.99 3.71
189 199 5.043281 ACTCCTAGAGGGTAGGATTTTCTCA 60.043 44.000 1.23 0.00 42.34 3.27
192 202 6.555360 TCCTAGAGGGTAGGATTTTCTCAATC 59.445 42.308 0.00 0.00 38.71 2.67
194 204 6.245890 AGAGGGTAGGATTTTCTCAATCAG 57.754 41.667 0.00 0.00 0.00 2.90
211 221 1.781529 TCAGGCCCTAGAGGTAGGTAG 59.218 57.143 0.00 0.00 44.27 3.18
218 228 4.654724 GCCCTAGAGGTAGGTAGTTTCATT 59.345 45.833 0.00 0.00 44.27 2.57
223 233 8.925338 CCTAGAGGTAGGTAGTTTCATTGTATT 58.075 37.037 0.00 0.00 41.15 1.89
224 234 9.751542 CTAGAGGTAGGTAGTTTCATTGTATTG 57.248 37.037 0.00 0.00 0.00 1.90
226 236 9.263446 AGAGGTAGGTAGTTTCATTGTATTGTA 57.737 33.333 0.00 0.00 0.00 2.41
318 353 7.171630 TGTAAAGTACTCCAGAAGATTCTCC 57.828 40.000 0.00 0.00 34.74 3.71
321 356 6.882768 AAGTACTCCAGAAGATTCTCCATT 57.117 37.500 0.00 0.00 34.74 3.16
344 380 6.639632 TTCAGCTGCTCTTAAAATTTGACT 57.360 33.333 9.47 0.00 0.00 3.41
388 430 3.197790 CGAGGCAGGAATGCACCG 61.198 66.667 2.29 1.32 36.33 4.94
422 464 3.650950 ATGGTCGGTGCTTGCCCT 61.651 61.111 0.00 0.00 0.00 5.19
456 498 3.577848 ACACACTACGTAAATGTACCCCA 59.422 43.478 10.85 0.00 0.00 4.96
533 575 5.012893 AGAACATGATTCCTCTTTGAACCC 58.987 41.667 0.00 0.00 0.00 4.11
558 600 1.185315 AAAATTCATGCACGGGAGGG 58.815 50.000 0.00 0.00 0.00 4.30
559 601 0.684153 AAATTCATGCACGGGAGGGG 60.684 55.000 0.00 0.00 0.00 4.79
560 602 3.721370 ATTCATGCACGGGAGGGGC 62.721 63.158 0.00 0.00 35.26 5.80
612 661 3.758425 AGCCCTAGAGTTAGCTAGCTAC 58.242 50.000 24.09 17.76 37.20 3.58
613 662 3.396611 AGCCCTAGAGTTAGCTAGCTACT 59.603 47.826 24.09 21.70 37.20 2.57
614 663 3.754850 GCCCTAGAGTTAGCTAGCTACTC 59.245 52.174 28.59 28.59 37.20 2.59
682 731 3.423539 TCACTCTCTTTTCACCATGGG 57.576 47.619 18.09 5.22 0.00 4.00
683 732 2.711009 TCACTCTCTTTTCACCATGGGT 59.289 45.455 18.09 0.00 35.62 4.51
684 733 3.077359 CACTCTCTTTTCACCATGGGTC 58.923 50.000 18.09 0.00 31.02 4.46
685 734 2.289694 ACTCTCTTTTCACCATGGGTCG 60.290 50.000 18.09 4.06 31.02 4.79
686 735 1.697432 TCTCTTTTCACCATGGGTCGT 59.303 47.619 18.09 0.00 31.02 4.34
687 736 2.105821 TCTCTTTTCACCATGGGTCGTT 59.894 45.455 18.09 0.00 31.02 3.85
688 737 2.884639 CTCTTTTCACCATGGGTCGTTT 59.115 45.455 18.09 0.00 31.02 3.60
689 738 2.882137 TCTTTTCACCATGGGTCGTTTC 59.118 45.455 18.09 0.00 31.02 2.78
690 739 1.611519 TTTCACCATGGGTCGTTTCC 58.388 50.000 18.09 0.00 31.02 3.13
702 751 3.708121 GGGTCGTTTCCCTTTCTATCCTA 59.292 47.826 5.99 0.00 43.85 2.94
704 753 4.405036 GGTCGTTTCCCTTTCTATCCTAGT 59.595 45.833 0.00 0.00 0.00 2.57
714 764 3.488778 TCTATCCTAGTCGACCTCCAC 57.511 52.381 13.01 0.00 0.00 4.02
715 765 2.775960 TCTATCCTAGTCGACCTCCACA 59.224 50.000 13.01 0.00 0.00 4.17
716 766 2.526888 ATCCTAGTCGACCTCCACAA 57.473 50.000 13.01 0.00 0.00 3.33
726 776 3.801620 CTCCACAAGGGGGTACGT 58.198 61.111 0.00 0.00 37.22 3.57
727 777 2.980541 CTCCACAAGGGGGTACGTA 58.019 57.895 0.00 0.00 37.22 3.57
728 778 0.533951 CTCCACAAGGGGGTACGTAC 59.466 60.000 17.56 17.56 37.22 3.67
729 779 1.216178 CCACAAGGGGGTACGTACG 59.784 63.158 18.98 15.01 0.00 3.67
730 780 1.535204 CCACAAGGGGGTACGTACGT 61.535 60.000 25.98 25.98 0.00 3.57
731 781 1.173043 CACAAGGGGGTACGTACGTA 58.827 55.000 23.60 23.60 0.00 3.57
826 876 3.632604 AGTCAAAGTCAAGAGTCGAGTGA 59.367 43.478 0.00 0.00 0.00 3.41
831 886 6.201044 TCAAAGTCAAGAGTCGAGTGATTTTC 59.799 38.462 0.00 0.00 31.28 2.29
870 931 1.281566 GCCACCGCAAAACCAAATCG 61.282 55.000 0.00 0.00 34.03 3.34
946 1033 2.832201 ACCGCCGCTAGAGGGTAC 60.832 66.667 14.91 0.00 0.00 3.34
947 1034 3.962421 CCGCCGCTAGAGGGTACG 61.962 72.222 14.91 9.15 0.00 3.67
948 1035 3.207669 CGCCGCTAGAGGGTACGT 61.208 66.667 14.91 0.00 0.00 3.57
949 1036 2.720605 GCCGCTAGAGGGTACGTC 59.279 66.667 14.91 0.00 44.49 4.34
950 1037 2.843352 GCCGCTAGAGGGTACGTCC 61.843 68.421 14.91 0.00 45.39 4.79
974 1061 1.069596 CATCCACGCATCGATCCCA 59.930 57.895 0.00 0.00 0.00 4.37
988 1075 2.289320 CGATCCCATAGCTTCTTCCCAG 60.289 54.545 0.00 0.00 0.00 4.45
995 1082 2.982744 GCTTCTTCCCAGGTTGCGC 61.983 63.158 0.00 0.00 0.00 6.09
1402 1552 4.655762 TGAATCTATGCAAGCTCGTACT 57.344 40.909 0.00 0.00 0.00 2.73
1412 1562 0.741915 AGCTCGTACTCTAGCTTGCC 59.258 55.000 8.06 0.00 46.82 4.52
1416 1566 0.248539 CGTACTCTAGCTTGCCGTCC 60.249 60.000 0.00 0.00 0.00 4.79
1431 1581 0.365523 CGTCCACGATAACACTTGCG 59.634 55.000 0.00 0.00 43.02 4.85
1624 1869 5.343307 TCCGGTGGTAATTAGTTAACCTC 57.657 43.478 0.00 0.00 0.00 3.85
1625 1870 4.114794 CCGGTGGTAATTAGTTAACCTCG 58.885 47.826 0.88 1.33 0.00 4.63
1646 1903 0.382873 TCGCTTATCACGTACGCCAT 59.617 50.000 16.72 9.95 0.00 4.40
1678 1951 8.894768 TGCCTTCTCTAATTAAGCTCTTAATC 57.105 34.615 13.43 1.89 42.91 1.75
1681 1986 9.838339 CCTTCTCTAATTAAGCTCTTAATCCAA 57.162 33.333 13.43 4.49 42.91 3.53
1690 1995 3.196685 AGCTCTTAATCCAAGCTCGTCTT 59.803 43.478 0.00 0.00 42.58 3.01
1718 2023 7.768120 AGATTAGCACTATCTCTTTTGTCTTGG 59.232 37.037 0.00 0.00 0.00 3.61
1741 2046 4.729918 CCACTGGGGGCTGCAGTC 62.730 72.222 16.64 13.86 0.00 3.51
1750 2055 1.521234 GGCTGCAGTCTGCTAGCTC 60.521 63.158 30.71 22.72 45.31 4.09
1823 2522 4.155733 CTGTGGTGCCGCCGGATA 62.156 66.667 7.68 0.00 41.21 2.59
1939 2650 2.415426 GCTAGCCAGCTCCTCGAC 59.585 66.667 2.29 0.00 44.93 4.20
2005 2855 0.826715 ACCACCACATCTCCATCGAG 59.173 55.000 0.00 0.00 37.48 4.04
2038 2888 1.003812 CCCAACTAATCCGTCCCACAA 59.996 52.381 0.00 0.00 0.00 3.33
2048 2898 1.529226 CGTCCCACAAGGCATAAACA 58.471 50.000 0.00 0.00 34.51 2.83
2126 3003 2.872515 TTTGGTACGTGCGTGCGTG 61.873 57.895 14.68 0.00 45.33 5.34
2143 3020 3.418068 GCTGTCAGCCTGTGCGAC 61.418 66.667 14.27 0.00 44.33 5.19
2144 3021 2.029518 CTGTCAGCCTGTGCGACA 59.970 61.111 10.21 10.21 43.54 4.35
2148 3025 0.880278 GTCAGCCTGTGCGACAAAGA 60.880 55.000 0.00 0.00 44.33 2.52
2186 3063 0.105964 TTAGGGTCGATCATTGGGCG 59.894 55.000 0.00 0.00 0.00 6.13
2218 3998 1.591863 GGTCTGATTAGTCCGCGCC 60.592 63.158 0.00 0.00 0.00 6.53
2306 4094 5.453339 GGCTCATGTGGTTGTAGCTAGATTA 60.453 44.000 0.00 0.00 33.67 1.75
2418 4292 2.415893 GCATGGGATCCAAGTTTCAACG 60.416 50.000 15.23 0.00 36.95 4.10
2419 4293 1.243902 TGGGATCCAAGTTTCAACGC 58.756 50.000 15.23 0.00 0.00 4.84
2420 4294 1.243902 GGGATCCAAGTTTCAACGCA 58.756 50.000 15.23 0.00 0.00 5.24
2422 4296 2.159379 GGGATCCAAGTTTCAACGCATC 60.159 50.000 15.23 0.00 0.00 3.91
2502 4403 3.507233 TCCAAAATTAGCAGCACTCTTGG 59.493 43.478 0.00 1.09 0.00 3.61
2540 4501 4.058817 GCTATAGTACTTGTCATGGCCAC 58.941 47.826 8.16 0.00 0.00 5.01
2553 4515 0.674581 TGGCCACTCATGCTTCTTCG 60.675 55.000 0.00 0.00 0.00 3.79
2636 5050 4.059136 GGAGACGACTCGCTTTCG 57.941 61.111 8.76 0.00 43.44 3.46
2656 5070 3.134081 TCGAACTTCCTTGTCAAAGTCCT 59.866 43.478 0.00 0.00 34.71 3.85
2657 5071 3.495001 CGAACTTCCTTGTCAAAGTCCTC 59.505 47.826 0.00 0.00 34.71 3.71
2658 5072 3.113260 ACTTCCTTGTCAAAGTCCTCG 57.887 47.619 0.00 0.00 29.89 4.63
2659 5073 1.801178 CTTCCTTGTCAAAGTCCTCGC 59.199 52.381 0.00 0.00 0.00 5.03
2662 5076 0.514691 CTTGTCAAAGTCCTCGCAGC 59.485 55.000 0.00 0.00 0.00 5.25
2663 5077 0.179059 TTGTCAAAGTCCTCGCAGCA 60.179 50.000 0.00 0.00 0.00 4.41
2664 5078 0.601046 TGTCAAAGTCCTCGCAGCAG 60.601 55.000 0.00 0.00 0.00 4.24
2665 5079 0.601311 GTCAAAGTCCTCGCAGCAGT 60.601 55.000 0.00 0.00 0.00 4.40
2666 5080 0.601046 TCAAAGTCCTCGCAGCAGTG 60.601 55.000 0.00 0.00 0.00 3.66
2688 5102 5.396484 TGCTATACACACGACAGTAGTTTC 58.604 41.667 0.00 0.00 0.00 2.78
2689 5103 4.494764 GCTATACACACGACAGTAGTTTCG 59.505 45.833 4.59 4.59 41.14 3.46
2690 5104 4.754372 ATACACACGACAGTAGTTTCGA 57.246 40.909 12.85 0.00 38.63 3.71
2691 5105 3.425577 ACACACGACAGTAGTTTCGAA 57.574 42.857 12.85 0.00 38.63 3.71
2692 5106 3.369385 ACACACGACAGTAGTTTCGAAG 58.631 45.455 12.85 7.30 38.63 3.79
2693 5107 3.181493 ACACACGACAGTAGTTTCGAAGT 60.181 43.478 12.85 7.86 38.63 3.01
2694 5108 3.421231 CACACGACAGTAGTTTCGAAGTC 59.579 47.826 12.85 0.29 38.63 3.01
2695 5109 2.978489 CACGACAGTAGTTTCGAAGTCC 59.022 50.000 12.85 0.00 38.63 3.85
2760 5174 4.585955 AAGTGACTCGACAGCTTCTAAA 57.414 40.909 0.00 0.00 0.00 1.85
2858 5300 2.290323 ACCAACCACTGTAGATGGCTTC 60.290 50.000 2.62 0.00 41.31 3.86
2864 5306 5.675538 ACCACTGTAGATGGCTTCTTAATC 58.324 41.667 8.31 0.00 41.31 1.75
2901 5343 2.430332 ACTGCTCAGCTTCTGTAGATCC 59.570 50.000 0.00 0.00 32.61 3.36
2911 5353 4.502950 GCTTCTGTAGATCCTTCATGGGAG 60.503 50.000 0.00 0.00 38.92 4.30
2917 5359 2.848694 AGATCCTTCATGGGAGCAGAAA 59.151 45.455 8.67 0.00 43.51 2.52
2945 5389 7.472543 GGGTGTTCATCAATTCACACTTATAC 58.527 38.462 0.00 0.00 39.63 1.47
2946 5390 7.120579 GGGTGTTCATCAATTCACACTTATACA 59.879 37.037 0.00 0.00 39.63 2.29
2967 5443 4.404073 ACAATGTTTACTTTTGCTCCCACA 59.596 37.500 0.00 0.00 0.00 4.17
3194 6457 3.191581 GGCCTAAAACTCCTCTTCTTTGC 59.808 47.826 0.00 0.00 0.00 3.68
3264 6527 2.356278 GGGCCCAAGACATCAGCA 59.644 61.111 19.95 0.00 0.00 4.41
3276 6539 1.350351 ACATCAGCAGAGGCAGAGTTT 59.650 47.619 0.00 0.00 44.61 2.66
3282 6545 0.535780 CAGAGGCAGAGTTTGTGGCA 60.536 55.000 2.79 0.00 42.81 4.92
3330 6593 3.111939 CTCTCCTACTCCGCCACG 58.888 66.667 0.00 0.00 0.00 4.94
3630 6905 3.762992 CGCGTGTTCGTCGTGCAT 61.763 61.111 0.00 0.00 39.49 3.96
3852 7127 2.602267 TTCAGGGCGAGGTTCCGA 60.602 61.111 0.00 0.00 0.00 4.55
3857 7132 4.493747 GGCGAGGTTCCGACGAGG 62.494 72.222 0.00 0.00 42.97 4.63
4216 7505 1.918293 ATCCTGCGGGACCTGAACA 60.918 57.895 18.90 0.00 45.43 3.18
4221 7510 2.424302 CGGGACCTGAACAACGGT 59.576 61.111 0.00 0.00 35.90 4.83
4323 7612 2.280592 AACGGACGGGTGCTCAAC 60.281 61.111 0.00 0.00 0.00 3.18
4905 8588 8.571461 TGCAGAGTTCTTGAAGAATATCAATT 57.429 30.769 11.20 0.00 38.55 2.32
5014 8707 1.184970 TGGTGCTGATCCTGACGTCA 61.185 55.000 18.88 18.88 0.00 4.35
5166 8867 4.110493 GAAGATGGGCTTCGACGG 57.890 61.111 0.00 0.00 43.22 4.79
5332 9045 2.582978 GGGCCCGTCTACAAGACC 59.417 66.667 5.69 0.00 42.12 3.85
5431 9144 2.734591 GACCAGATGGCGCGGATA 59.265 61.111 8.83 0.00 39.32 2.59
5852 9583 1.745489 GAGGAACACGCCATGGGAC 60.745 63.158 15.13 0.00 0.00 4.46
5938 9669 0.526211 CGGTGTCGGAGATCAGTGAA 59.474 55.000 0.00 0.00 40.67 3.18
5944 9675 4.872691 GTGTCGGAGATCAGTGAATCATTT 59.127 41.667 0.00 0.00 40.67 2.32
5956 9687 4.882427 AGTGAATCATTTGAGCAGAGGATG 59.118 41.667 0.00 0.00 0.00 3.51
5997 9731 1.271597 GGAGATGACAAGGCCAACTGT 60.272 52.381 5.01 4.97 0.00 3.55
6133 9867 7.265673 TCTTCTAGTGAACATTAGGGAATTCG 58.734 38.462 0.00 0.00 0.00 3.34
6167 9903 9.979270 GAAGTTCTCTGATGTTAATTGTACATG 57.021 33.333 11.40 0.00 36.41 3.21
6210 9952 5.484715 AGTACATAGCTAAAAGCAAACGGA 58.515 37.500 0.00 0.00 45.56 4.69
6220 9962 7.024768 GCTAAAAGCAAACGGATTGTATTACA 58.975 34.615 0.00 0.00 41.89 2.41
6319 10092 9.588096 TCCATATATCTAGACAACTCTAAGCAA 57.412 33.333 0.00 0.00 0.00 3.91
6324 10097 6.665992 TCTAGACAACTCTAAGCAAAAGGA 57.334 37.500 0.00 0.00 0.00 3.36
6343 10173 5.447778 AGGATTGACATCAGACAAAGGAT 57.552 39.130 0.00 0.00 33.42 3.24
6347 10177 3.849911 TGACATCAGACAAAGGATCGTC 58.150 45.455 0.00 0.00 0.00 4.20
6369 10199 3.821033 CTCGGAGGGAAAAGAATTGTTGT 59.179 43.478 0.00 0.00 0.00 3.32
6424 10254 3.370104 TGGTGGTTTTCATCTGGTTGTT 58.630 40.909 0.00 0.00 0.00 2.83
6441 10271 6.445357 GGTTGTTTACCAGAGACAAGAAAA 57.555 37.500 0.00 0.00 46.92 2.29
6442 10272 6.263344 GGTTGTTTACCAGAGACAAGAAAAC 58.737 40.000 0.00 0.00 46.92 2.43
6472 10302 7.828717 ACAAATCAAGTTCAAATTGTTTTCCCT 59.171 29.630 4.10 0.00 30.81 4.20
6475 10305 4.584327 AGTTCAAATTGTTTTCCCTCGG 57.416 40.909 0.00 0.00 0.00 4.63
6953 10797 2.911484 ACTTGATAGCTGCAGCCTAAC 58.089 47.619 34.39 22.30 43.38 2.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 43 1.127766 CGACATGCGAAATTTCACGGA 59.872 47.619 17.99 7.42 44.57 4.69
43 47 4.463209 GAAGAACGACATGCGAAATTTCA 58.537 39.130 17.99 0.43 44.57 2.69
120 129 6.884280 AAATTGGAGAACTTTAGGTCACTG 57.116 37.500 0.00 0.00 0.00 3.66
144 153 7.019153 AGGAGTGTAGGAGACATAGATTATCCT 59.981 40.741 0.00 0.00 41.14 3.24
147 156 9.118367 TCTAGGAGTGTAGGAGACATAGATTAT 57.882 37.037 0.00 0.00 41.14 1.28
156 165 2.510800 ACCCTCTAGGAGTGTAGGAGAC 59.489 54.545 0.00 0.00 39.89 3.36
158 167 4.360951 CTACCCTCTAGGAGTGTAGGAG 57.639 54.545 8.58 0.00 37.12 3.69
161 170 5.327737 AATCCTACCCTCTAGGAGTGTAG 57.672 47.826 9.23 9.23 45.89 2.74
163 172 4.628661 AAATCCTACCCTCTAGGAGTGT 57.371 45.455 0.00 0.00 45.89 3.55
164 173 5.212745 AGAAAATCCTACCCTCTAGGAGTG 58.787 45.833 0.00 0.00 45.89 3.51
165 174 5.043281 TGAGAAAATCCTACCCTCTAGGAGT 60.043 44.000 0.00 0.00 45.89 3.85
181 190 4.141298 CCTCTAGGGCCTGATTGAGAAAAT 60.141 45.833 18.53 0.00 0.00 1.82
189 199 1.581149 ACCTACCTCTAGGGCCTGATT 59.419 52.381 18.53 4.65 43.87 2.57
192 202 1.499870 ACTACCTACCTCTAGGGCCTG 59.500 57.143 18.53 6.47 43.87 4.85
194 204 2.771562 AACTACCTACCTCTAGGGCC 57.228 55.000 0.00 0.00 43.87 5.80
240 250 1.249407 TGGCCCGTTTTGTTGGATAC 58.751 50.000 0.00 0.00 0.00 2.24
241 251 1.996798 TTGGCCCGTTTTGTTGGATA 58.003 45.000 0.00 0.00 0.00 2.59
242 252 1.347062 ATTGGCCCGTTTTGTTGGAT 58.653 45.000 0.00 0.00 0.00 3.41
251 261 2.871453 AGTTCTGTTAATTGGCCCGTT 58.129 42.857 0.00 0.00 0.00 4.44
317 352 6.869913 TCAAATTTTAAGAGCAGCTGAAATGG 59.130 34.615 20.43 9.33 26.96 3.16
318 353 7.597743 AGTCAAATTTTAAGAGCAGCTGAAATG 59.402 33.333 20.43 4.42 26.96 2.32
321 356 6.488006 AGAGTCAAATTTTAAGAGCAGCTGAA 59.512 34.615 20.43 0.19 0.00 3.02
344 380 0.927537 CGTTTGTCGAGTTGCACAGA 59.072 50.000 0.00 0.00 42.86 3.41
388 430 2.629656 ATGGCCACGACTTTGCTGC 61.630 57.895 8.16 0.00 0.00 5.25
491 533 6.734137 TGTTCTTCGCTGTTGAAAATATGTT 58.266 32.000 0.00 0.00 0.00 2.71
558 600 1.086634 GTCGATTGACTCTGCCTGCC 61.087 60.000 5.79 0.00 42.08 4.85
559 601 1.086634 GGTCGATTGACTCTGCCTGC 61.087 60.000 12.89 0.00 44.83 4.85
560 602 0.247460 TGGTCGATTGACTCTGCCTG 59.753 55.000 12.89 0.00 44.83 4.85
561 603 0.534412 CTGGTCGATTGACTCTGCCT 59.466 55.000 12.89 0.00 44.83 4.75
562 604 1.086634 GCTGGTCGATTGACTCTGCC 61.087 60.000 12.89 0.00 44.83 4.85
613 662 4.841813 ATCCCTCTCCTTTGATCTAGGA 57.158 45.455 14.11 14.11 39.46 2.94
614 663 7.380423 TTTAATCCCTCTCCTTTGATCTAGG 57.620 40.000 7.83 7.83 0.00 3.02
682 731 5.590145 GACTAGGATAGAAAGGGAAACGAC 58.410 45.833 0.00 0.00 42.77 4.34
683 732 4.337555 CGACTAGGATAGAAAGGGAAACGA 59.662 45.833 0.00 0.00 42.77 3.85
684 733 4.337555 TCGACTAGGATAGAAAGGGAAACG 59.662 45.833 0.00 0.00 42.77 3.60
685 734 5.451659 GGTCGACTAGGATAGAAAGGGAAAC 60.452 48.000 16.46 0.00 42.77 2.78
686 735 4.648307 GGTCGACTAGGATAGAAAGGGAAA 59.352 45.833 16.46 0.00 42.77 3.13
687 736 4.079327 AGGTCGACTAGGATAGAAAGGGAA 60.079 45.833 16.46 0.00 42.77 3.97
688 737 3.462579 AGGTCGACTAGGATAGAAAGGGA 59.537 47.826 16.46 0.00 42.77 4.20
689 738 3.822167 GAGGTCGACTAGGATAGAAAGGG 59.178 52.174 16.46 0.00 42.77 3.95
690 739 3.822167 GGAGGTCGACTAGGATAGAAAGG 59.178 52.174 16.46 0.00 42.77 3.11
691 740 4.276431 GTGGAGGTCGACTAGGATAGAAAG 59.724 50.000 16.46 0.00 42.77 2.62
692 741 4.205587 GTGGAGGTCGACTAGGATAGAAA 58.794 47.826 16.46 0.00 42.77 2.52
693 742 3.201487 TGTGGAGGTCGACTAGGATAGAA 59.799 47.826 16.46 0.00 42.77 2.10
694 743 2.775960 TGTGGAGGTCGACTAGGATAGA 59.224 50.000 16.46 0.00 42.77 1.98
695 744 3.210232 TGTGGAGGTCGACTAGGATAG 57.790 52.381 16.46 0.00 46.50 2.08
696 745 3.552875 CTTGTGGAGGTCGACTAGGATA 58.447 50.000 16.46 0.00 0.00 2.59
697 746 2.379972 CTTGTGGAGGTCGACTAGGAT 58.620 52.381 16.46 0.00 0.00 3.24
702 751 1.913762 CCCCTTGTGGAGGTCGACT 60.914 63.158 16.46 0.90 44.71 4.18
704 753 2.096707 TACCCCCTTGTGGAGGTCGA 62.097 60.000 0.00 0.00 44.71 4.20
714 764 0.098728 CGTACGTACGTACCCCCTTG 59.901 60.000 38.76 25.83 45.80 3.61
715 765 2.477880 CGTACGTACGTACCCCCTT 58.522 57.895 38.76 13.43 45.80 3.95
716 766 4.218722 CGTACGTACGTACCCCCT 57.781 61.111 38.76 14.12 45.80 4.79
725 775 2.921996 CGGTCAAGAGCGTACGTAC 58.078 57.895 17.90 15.90 46.01 3.67
733 783 2.035442 GCAGGAACCGGTCAAGAGC 61.035 63.158 8.04 5.29 0.00 4.09
826 876 1.069227 GGCGACGTTGCTCTTGAAAAT 60.069 47.619 26.31 0.00 34.52 1.82
870 931 2.279517 AACCTGGCGCGATCGATC 60.280 61.111 21.57 15.68 38.10 3.69
882 943 1.026718 GGCGATGGAAGTGGAACCTG 61.027 60.000 0.00 0.00 37.80 4.00
946 1033 1.592669 GCGTGGATGATCAGGGACG 60.593 63.158 15.28 15.28 0.00 4.79
947 1034 0.107456 ATGCGTGGATGATCAGGGAC 59.893 55.000 0.09 0.00 0.00 4.46
948 1035 0.394192 GATGCGTGGATGATCAGGGA 59.606 55.000 0.09 0.00 0.00 4.20
949 1036 0.947660 CGATGCGTGGATGATCAGGG 60.948 60.000 0.09 0.00 0.00 4.45
950 1037 0.032540 TCGATGCGTGGATGATCAGG 59.967 55.000 0.09 0.00 0.00 3.86
974 1061 1.407437 CGCAACCTGGGAAGAAGCTAT 60.407 52.381 0.00 0.00 31.21 2.97
988 1075 2.404789 CACCATGATCGCGCAACC 59.595 61.111 8.75 0.00 0.00 3.77
1015 1109 2.184579 GACGAGGGAAGAAGGCCG 59.815 66.667 0.00 0.00 0.00 6.13
1016 1110 2.184579 CGACGAGGGAAGAAGGCC 59.815 66.667 0.00 0.00 0.00 5.19
1402 1552 1.320344 ATCGTGGACGGCAAGCTAGA 61.320 55.000 0.00 0.00 40.29 2.43
1409 1559 0.319083 AAGTGTTATCGTGGACGGCA 59.681 50.000 0.00 0.00 40.29 5.69
1410 1560 0.719465 CAAGTGTTATCGTGGACGGC 59.281 55.000 0.00 0.00 40.29 5.68
1411 1561 0.719465 GCAAGTGTTATCGTGGACGG 59.281 55.000 0.00 0.00 40.29 4.79
1412 1562 0.365523 CGCAAGTGTTATCGTGGACG 59.634 55.000 0.00 0.00 41.45 4.79
1416 1566 1.782023 GCGTTCGCAAGTGTTATCGTG 60.782 52.381 12.33 0.00 39.48 4.35
1565 1788 1.692395 TGGAATGGAGATCCGCCCA 60.692 57.895 2.12 2.12 39.98 5.36
1569 1792 1.072159 GCCCTGGAATGGAGATCCG 59.928 63.158 0.00 0.00 39.98 4.18
1624 1869 1.852989 GCGTACGTGATAAGCGAGCG 61.853 60.000 17.90 0.00 35.06 5.03
1625 1870 1.538117 GGCGTACGTGATAAGCGAGC 61.538 60.000 17.90 0.00 39.00 5.03
1646 1903 3.939740 AATTAGAGAAGGCAGCCATGA 57.060 42.857 15.80 0.00 0.00 3.07
1681 1986 2.757868 AGTGCTAATCTCAAGACGAGCT 59.242 45.455 13.31 0.00 41.98 4.09
1690 1995 8.072321 AGACAAAAGAGATAGTGCTAATCTCA 57.928 34.615 19.09 0.00 42.30 3.27
1979 2829 3.482436 TGGAGATGTGGTGGTTGTTAAC 58.518 45.455 0.00 0.00 0.00 2.01
2030 2880 1.202348 GCTGTTTATGCCTTGTGGGAC 59.798 52.381 0.00 0.00 36.19 4.46
2048 2898 0.524414 GGTCGCGGTTAAAAATGGCT 59.476 50.000 6.13 0.00 0.00 4.75
2125 3002 3.927548 TCGCACAGGCTGACAGCA 61.928 61.111 27.87 3.43 44.75 4.41
2126 3003 3.418068 GTCGCACAGGCTGACAGC 61.418 66.667 23.66 19.55 40.66 4.40
2136 3013 7.360861 CCAAGAATAGTTAATCTTTGTCGCACA 60.361 37.037 0.00 0.00 33.73 4.57
2143 3020 7.093322 AGCAGCCAAGAATAGTTAATCTTTG 57.907 36.000 0.00 0.00 33.73 2.77
2144 3021 7.709149 AAGCAGCCAAGAATAGTTAATCTTT 57.291 32.000 0.00 0.00 33.73 2.52
2148 3025 6.064717 CCCTAAGCAGCCAAGAATAGTTAAT 58.935 40.000 0.00 0.00 0.00 1.40
2186 3063 0.886490 CAGACCACACCAGTCCAAGC 60.886 60.000 0.00 0.00 34.67 4.01
2218 3998 2.720758 CGCGGTGAAGAAGCAGACG 61.721 63.158 0.00 0.00 0.00 4.18
2306 4094 1.529948 TCGACTGTCGTCCCCAACT 60.530 57.895 27.16 0.00 41.35 3.16
2418 4292 2.793946 GTCCACATGGTGCGATGC 59.206 61.111 0.00 0.00 36.34 3.91
2419 4293 0.459411 TACGTCCACATGGTGCGATG 60.459 55.000 18.92 9.96 37.78 3.84
2420 4294 0.459585 GTACGTCCACATGGTGCGAT 60.460 55.000 18.92 9.57 37.78 4.58
2422 4296 2.441378 CGTACGTCCACATGGTGCG 61.441 63.158 7.22 13.23 39.24 5.34
2479 4373 4.380233 CCAAGAGTGCTGCTAATTTTGGAG 60.380 45.833 12.78 0.00 0.00 3.86
2540 4501 2.533535 GACGATGACGAAGAAGCATGAG 59.466 50.000 0.00 0.00 42.66 2.90
2553 4515 1.787155 GCATACATGACCGACGATGAC 59.213 52.381 0.00 0.00 0.00 3.06
2636 5050 3.495001 CGAGGACTTTGACAAGGAAGTTC 59.505 47.826 4.05 0.00 36.31 3.01
2664 5078 9.870656 TCGAAACTACTGTCGTGTGTATAGCAC 62.871 44.444 0.00 0.00 40.88 4.40
2665 5079 5.381174 AAACTACTGTCGTGTGTATAGCA 57.619 39.130 0.00 0.00 0.00 3.49
2666 5080 4.494764 CGAAACTACTGTCGTGTGTATAGC 59.505 45.833 0.00 0.00 32.61 2.97
2669 5083 4.754372 TCGAAACTACTGTCGTGTGTAT 57.246 40.909 0.00 0.00 38.41 2.29
2670 5084 4.035558 ACTTCGAAACTACTGTCGTGTGTA 59.964 41.667 0.00 0.00 38.41 2.90
2671 5085 3.181493 ACTTCGAAACTACTGTCGTGTGT 60.181 43.478 0.00 0.00 38.41 3.72
2672 5086 3.369385 ACTTCGAAACTACTGTCGTGTG 58.631 45.455 0.00 0.00 38.41 3.82
2673 5087 3.549625 GGACTTCGAAACTACTGTCGTGT 60.550 47.826 0.00 0.00 38.41 4.49
2675 5089 2.883386 AGGACTTCGAAACTACTGTCGT 59.117 45.455 0.00 0.88 38.41 4.34
2676 5090 3.490399 GAGGACTTCGAAACTACTGTCG 58.510 50.000 0.00 0.00 38.62 4.35
2689 5103 3.186119 CATCTTTCTGCTCGAGGACTTC 58.814 50.000 15.58 0.00 0.00 3.01
2690 5104 2.093764 CCATCTTTCTGCTCGAGGACTT 60.094 50.000 15.58 0.00 0.00 3.01
2691 5105 1.480137 CCATCTTTCTGCTCGAGGACT 59.520 52.381 15.58 0.00 0.00 3.85
2692 5106 1.472376 CCCATCTTTCTGCTCGAGGAC 60.472 57.143 15.58 0.00 0.00 3.85
2693 5107 0.826715 CCCATCTTTCTGCTCGAGGA 59.173 55.000 15.58 11.15 0.00 3.71
2694 5108 0.813210 GCCCATCTTTCTGCTCGAGG 60.813 60.000 15.58 0.00 0.00 4.63
2695 5109 1.150567 CGCCCATCTTTCTGCTCGAG 61.151 60.000 8.45 8.45 0.00 4.04
2760 5174 5.120830 CGATTTTCCTGTCGTGAAAGATCTT 59.879 40.000 0.88 0.88 33.58 2.40
2858 5300 7.148672 GCAGTCAATATCATCGACCAGATTAAG 60.149 40.741 0.00 0.00 37.52 1.85
2864 5306 3.986572 GAGCAGTCAATATCATCGACCAG 59.013 47.826 0.00 0.00 0.00 4.00
2901 5343 1.945394 CCGATTTCTGCTCCCATGAAG 59.055 52.381 0.00 0.00 0.00 3.02
2911 5353 2.083774 TGATGAACACCCGATTTCTGC 58.916 47.619 0.00 0.00 0.00 4.26
2917 5359 3.440173 GTGTGAATTGATGAACACCCGAT 59.560 43.478 0.00 0.00 37.53 4.18
2945 5389 4.942852 TGTGGGAGCAAAAGTAAACATTG 58.057 39.130 0.00 0.00 0.00 2.82
2946 5390 5.606348 TTGTGGGAGCAAAAGTAAACATT 57.394 34.783 0.00 0.00 0.00 2.71
3105 5889 2.046280 AAGGAGCCCAAACTAGGAGT 57.954 50.000 0.00 0.00 0.00 3.85
3194 6457 0.592247 GTCCAACGCTGCAACAACAG 60.592 55.000 0.00 0.00 40.80 3.16
3264 6527 0.536006 GTGCCACAAACTCTGCCTCT 60.536 55.000 0.00 0.00 0.00 3.69
3276 6539 1.819208 GCTGCCGATATGTGCCACA 60.819 57.895 0.00 0.00 0.00 4.17
3412 6675 0.603569 CCGAAGTGTGCTAGGACAGT 59.396 55.000 18.31 18.23 0.00 3.55
3730 7005 2.125753 GCTGAGCCTGTCCACGAG 60.126 66.667 0.00 0.00 0.00 4.18
4063 7348 0.043652 CCGTCGAACGTTGTGTTGAC 60.044 55.000 5.00 0.00 42.09 3.18
4201 7486 2.317609 CGTTGTTCAGGTCCCGCAG 61.318 63.158 0.00 0.00 0.00 5.18
5014 8707 3.382832 AGGCTCGCCGTGTAGCTT 61.383 61.111 1.69 0.00 41.95 3.74
5166 8867 4.081420 TGCTGTACTTCTTCATCTTCCTCC 60.081 45.833 0.00 0.00 0.00 4.30
5431 9144 2.657237 CCGAACCACGCCTTCTCT 59.343 61.111 0.00 0.00 41.07 3.10
5496 9209 2.915659 TGAGGTTGGACGAGCCGT 60.916 61.111 0.00 0.00 45.10 5.68
5506 9219 4.606071 CTCCGGAAGCTGAGGTTG 57.394 61.111 5.23 0.00 0.00 3.77
5530 9243 1.903877 CGGTGATGAGGAACAGCCCT 61.904 60.000 0.00 0.00 39.77 5.19
5938 9669 3.181442 CCTCCATCCTCTGCTCAAATGAT 60.181 47.826 0.00 0.00 0.00 2.45
5944 9675 1.383664 CCCCTCCATCCTCTGCTCA 60.384 63.158 0.00 0.00 0.00 4.26
5997 9731 5.561679 TCTACTCTTACTGCAGTTGAGAGA 58.438 41.667 39.06 31.70 38.39 3.10
6041 9775 8.402472 CACAAGACTAGAACTCCTATACTGAAG 58.598 40.741 0.00 0.00 0.00 3.02
6042 9776 7.339721 CCACAAGACTAGAACTCCTATACTGAA 59.660 40.741 0.00 0.00 0.00 3.02
6043 9777 6.829298 CCACAAGACTAGAACTCCTATACTGA 59.171 42.308 0.00 0.00 0.00 3.41
6133 9867 8.608844 TTAACATCAGAGAACTTCTTTCCTTC 57.391 34.615 0.00 0.00 34.32 3.46
6184 9920 7.603404 TCCGTTTGCTTTTAGCTATGTACTAAA 59.397 33.333 0.00 0.00 42.97 1.85
6187 9923 5.484715 TCCGTTTGCTTTTAGCTATGTACT 58.515 37.500 0.00 0.00 42.97 2.73
6189 9925 6.373216 ACAATCCGTTTGCTTTTAGCTATGTA 59.627 34.615 0.00 0.00 42.97 2.29
6207 9949 4.866921 TGAGACGGATGTAATACAATCCG 58.133 43.478 26.88 26.88 45.69 4.18
6210 9952 9.396022 AGAATTTTGAGACGGATGTAATACAAT 57.604 29.630 0.00 0.00 0.00 2.71
6220 9962 7.386851 TCTAAGACAAGAATTTTGAGACGGAT 58.613 34.615 7.18 0.00 0.00 4.18
6317 10090 6.016024 TCCTTTGTCTGATGTCAATCCTTTTG 60.016 38.462 0.00 0.00 31.15 2.44
6319 10092 5.634118 TCCTTTGTCTGATGTCAATCCTTT 58.366 37.500 0.00 0.00 31.15 3.11
6321 10094 4.916041 TCCTTTGTCTGATGTCAATCCT 57.084 40.909 0.00 0.00 31.15 3.24
6323 10096 4.872691 ACGATCCTTTGTCTGATGTCAATC 59.127 41.667 0.00 0.00 0.00 2.67
6324 10097 4.836825 ACGATCCTTTGTCTGATGTCAAT 58.163 39.130 0.00 0.00 0.00 2.57
6343 10173 1.624336 TTCTTTTCCCTCCGAGACGA 58.376 50.000 0.00 0.00 0.00 4.20
6347 10177 3.821033 ACAACAATTCTTTTCCCTCCGAG 59.179 43.478 0.00 0.00 0.00 4.63
6394 10224 6.153340 CCAGATGAAAACCACCATGTAAGATT 59.847 38.462 0.00 0.00 0.00 2.40
6424 10254 8.740123 TTGTATTGTTTTCTTGTCTCTGGTAA 57.260 30.769 0.00 0.00 0.00 2.85
6472 10302 4.773674 TGTTGTATCCTAGTTCCTTTCCGA 59.226 41.667 0.00 0.00 0.00 4.55
6783 10627 5.551233 TGATAAACGGGGATTCATGAGATC 58.449 41.667 0.00 2.70 0.00 2.75
6840 10684 1.275291 TCCAGGACCAGTCGACAATTC 59.725 52.381 19.50 9.87 0.00 2.17
6953 10797 7.816031 ACTTCTGTCCAAAAATATTGCATTCTG 59.184 33.333 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.