Multiple sequence alignment - TraesCS7A01G182800

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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 TraesCS7A01G182800 chr7A 100.000 3179 0 0 1 3179 137828253 137825075 0.000000e+00 5871.0
1 TraesCS7A01G182800 chr7D 96.510 2292 62 7 892 3179 137872021 137869744 0.000000e+00 3773.0
2 TraesCS7A01G182800 chr7D 78.170 623 85 36 124 699 37145775 37146393 1.810000e-92 350.0
3 TraesCS7A01G182800 chr7D 93.182 132 9 0 758 889 605164086 605164217 9.000000e-46 195.0
4 TraesCS7A01G182800 chr7D 90.845 142 13 0 758 899 37004312 37004171 1.160000e-44 191.0
5 TraesCS7A01G182800 chr7D 75.172 435 84 19 974 1403 137790113 137789698 1.950000e-42 183.0
6 TraesCS7A01G182800 chr7D 97.727 44 1 0 653 696 529831067 529831110 3.400000e-10 76.8
7 TraesCS7A01G182800 chr7D 88.000 50 6 0 630 679 535565955 535566004 3.420000e-05 60.2
8 TraesCS7A01G182800 chr7B 94.337 1607 67 7 894 2499 103116999 103115416 0.000000e+00 2442.0
9 TraesCS7A01G182800 chr7B 92.604 338 23 2 2607 2944 103115425 103115090 4.770000e-133 484.0
10 TraesCS7A01G182800 chrUn 100.000 390 0 0 1247 1636 480092364 480092753 0.000000e+00 721.0
11 TraesCS7A01G182800 chrUn 78.422 621 83 36 124 697 90974510 90975126 1.080000e-94 357.0
12 TraesCS7A01G182800 chr4B 91.096 292 24 2 1 291 23681833 23682123 8.270000e-106 394.0
13 TraesCS7A01G182800 chr4B 86.435 317 30 7 259 563 23682135 23682450 5.080000e-88 335.0
14 TraesCS7A01G182800 chr4B 78.865 511 64 25 124 596 57799594 57800098 3.980000e-79 305.0
15 TraesCS7A01G182800 chr4B 87.097 217 23 5 478 693 23682400 23682612 1.140000e-59 241.0
16 TraesCS7A01G182800 chr4B 93.478 46 3 0 651 696 34907270 34907315 5.690000e-08 69.4
17 TraesCS7A01G182800 chr1B 79.491 629 69 28 124 697 302273120 302273743 2.970000e-105 392.0
18 TraesCS7A01G182800 chr1B 91.339 127 9 1 765 889 174596806 174596932 4.220000e-39 172.0
19 TraesCS7A01G182800 chr5D 78.778 622 80 32 124 698 465362827 465363443 1.390000e-98 370.0
20 TraesCS7A01G182800 chr5D 77.229 628 86 31 124 698 357877165 357876542 6.620000e-82 315.0
21 TraesCS7A01G182800 chr5D 80.100 201 40 0 1141 1341 356636934 356637134 1.980000e-32 150.0
22 TraesCS7A01G182800 chr6D 78.457 622 76 28 124 692 80391726 80392342 1.400000e-93 353.0
23 TraesCS7A01G182800 chr2D 78.511 591 75 26 10 562 619591885 619592461 1.090000e-89 340.0
24 TraesCS7A01G182800 chr2B 78.819 288 57 3 1141 1426 54016538 54016253 1.160000e-44 191.0
25 TraesCS7A01G182800 chr2B 89.474 57 6 0 10 66 794382940 794382996 4.400000e-09 73.1
26 TraesCS7A01G182800 chr5B 90.152 132 13 0 758 889 1754722 1754591 4.220000e-39 172.0
27 TraesCS7A01G182800 chr5A 90.152 132 13 0 758 889 30395 30264 4.220000e-39 172.0
28 TraesCS7A01G182800 chr5A 81.095 201 38 0 1141 1341 456099768 456099568 9.130000e-36 161.0
29 TraesCS7A01G182800 chr6A 77.622 286 51 8 1141 1424 15700856 15701130 9.130000e-36 161.0
30 TraesCS7A01G182800 chr6A 77.622 286 51 8 1141 1424 15906811 15906537 9.130000e-36 161.0
31 TraesCS7A01G182800 chr6A 91.837 49 4 0 651 699 46946730 46946682 5.690000e-08 69.4
32 TraesCS7A01G182800 chr6B 78.571 238 43 6 1141 1374 52574014 52573781 1.980000e-32 150.0
33 TraesCS7A01G182800 chr2A 91.837 49 4 0 651 699 763336768 763336720 5.690000e-08 69.4
34 TraesCS7A01G182800 chr4A 90.909 44 4 0 643 686 677990446 677990489 3.420000e-05 60.2
35 TraesCS7A01G182800 chr1A 90.909 44 4 0 643 686 429037166 429037209 3.420000e-05 60.2
36 TraesCS7A01G182800 chr3A 89.130 46 5 0 651 696 80152942 80152897 1.230000e-04 58.4
37 TraesCS7A01G182800 chr3B 96.875 32 1 0 266 297 824159169 824159200 2.000000e-03 54.7


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 TraesCS7A01G182800 chr7A 137825075 137828253 3178 True 5871.000000 5871 100.000000 1 3179 1 chr7A.!!$R1 3178
1 TraesCS7A01G182800 chr7D 137869744 137872021 2277 True 3773.000000 3773 96.510000 892 3179 1 chr7D.!!$R3 2287
2 TraesCS7A01G182800 chr7D 37145775 37146393 618 False 350.000000 350 78.170000 124 699 1 chr7D.!!$F1 575
3 TraesCS7A01G182800 chr7B 103115090 103116999 1909 True 1463.000000 2442 93.470500 894 2944 2 chr7B.!!$R1 2050
4 TraesCS7A01G182800 chrUn 90974510 90975126 616 False 357.000000 357 78.422000 124 697 1 chrUn.!!$F1 573
5 TraesCS7A01G182800 chr4B 23681833 23682612 779 False 323.333333 394 88.209333 1 693 3 chr4B.!!$F3 692
6 TraesCS7A01G182800 chr4B 57799594 57800098 504 False 305.000000 305 78.865000 124 596 1 chr4B.!!$F2 472
7 TraesCS7A01G182800 chr1B 302273120 302273743 623 False 392.000000 392 79.491000 124 697 1 chr1B.!!$F2 573
8 TraesCS7A01G182800 chr5D 465362827 465363443 616 False 370.000000 370 78.778000 124 698 1 chr5D.!!$F2 574
9 TraesCS7A01G182800 chr5D 357876542 357877165 623 True 315.000000 315 77.229000 124 698 1 chr5D.!!$R1 574
10 TraesCS7A01G182800 chr6D 80391726 80392342 616 False 353.000000 353 78.457000 124 692 1 chr6D.!!$F1 568
11 TraesCS7A01G182800 chr2D 619591885 619592461 576 False 340.000000 340 78.511000 10 562 1 chr2D.!!$F1 552

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
842 968 0.316442 GAATCACGTGCGCATGGATG 60.316 55.0 31.55 21.8 0.0 3.51 F
1035 1165 0.038159 CGCGTGTCCTCTCTTTCCTT 60.038 55.0 0.00 0.0 0.0 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1959 2089 0.036306 AGCAGTACCGGGGAAACAAG 59.964 55.0 6.32 0.0 0.00 3.16 R
2213 2343 0.754472 CCATCCAACATGGCAATCCC 59.246 55.0 0.00 0.0 37.47 3.85 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 44 4.699522 GGACGCCCGTTCCAGCTT 62.700 66.667 0.00 0.00 0.00 3.74
71 72 3.818121 CTGGTTCCAACACGGGCGA 62.818 63.158 0.00 0.00 34.36 5.54
116 117 1.989966 CTCGATGCAGCTTGCCCAAG 61.990 60.000 0.00 3.70 44.23 3.61
152 153 1.023513 GCCTGCTCGATGAAGCTTGT 61.024 55.000 2.10 0.00 42.94 3.16
164 165 1.595794 GAAGCTTGTCCAAACGTCGAA 59.404 47.619 2.10 0.00 0.00 3.71
194 195 1.376424 CACCAGCGGTTGATGCTCT 60.376 57.895 0.00 0.00 41.72 4.09
195 196 1.376424 ACCAGCGGTTGATGCTCTG 60.376 57.895 0.00 0.00 41.72 3.35
271 282 0.527817 CATCGTCGGTTGTAGCTCCC 60.528 60.000 0.00 0.00 0.00 4.30
272 283 2.001361 ATCGTCGGTTGTAGCTCCCG 62.001 60.000 0.00 0.00 43.03 5.14
354 410 1.853963 GTCAGGGAGCTAGAAGGACA 58.146 55.000 0.00 0.00 0.00 4.02
357 413 0.413832 AGGGAGCTAGAAGGACACCA 59.586 55.000 0.00 0.00 0.00 4.17
389 446 3.202151 TGGAGTAATAAGGGGGAAAGCTG 59.798 47.826 0.00 0.00 0.00 4.24
393 450 1.221213 ATAAGGGGGAAAGCTGGCCA 61.221 55.000 4.71 4.71 0.00 5.36
415 472 2.433970 GAGAGGGAGAAATAGCAGCAGT 59.566 50.000 0.00 0.00 0.00 4.40
426 484 1.123861 AGCAGCAGTGGGAACTCTCA 61.124 55.000 0.00 0.00 30.18 3.27
433 491 1.149288 AGTGGGAACTCTCAGGTGGTA 59.851 52.381 0.00 0.00 0.00 3.25
439 497 0.487772 ACTCTCAGGTGGTAGTGGGT 59.512 55.000 0.00 0.00 0.00 4.51
446 504 2.118732 TGGTAGTGGGTCTCGCCA 59.881 61.111 0.00 0.00 39.65 5.69
465 523 1.688735 CAGAGTTAGGATCCGATGGCA 59.311 52.381 5.98 0.00 0.00 4.92
514 587 1.381872 AGCTGAGGGTAGGCGATGT 60.382 57.895 0.00 0.00 0.00 3.06
540 614 3.991536 GAGAGGACGAGTTGCGGGC 62.992 68.421 0.00 0.00 46.49 6.13
566 672 2.654877 GACGAGGGAAAGCGGTGA 59.345 61.111 0.00 0.00 0.00 4.02
601 709 4.398673 AGTTAGTGGAGATAAGGACGTGAC 59.601 45.833 0.00 0.00 0.00 3.67
605 713 3.314635 GTGGAGATAAGGACGTGACGTAT 59.685 47.826 11.89 0.00 41.37 3.06
607 715 3.562973 GGAGATAAGGACGTGACGTATGA 59.437 47.826 11.89 0.00 41.37 2.15
621 747 1.344438 CGTATGATGGGCCTCTGCTTA 59.656 52.381 4.53 0.00 37.74 3.09
648 774 3.984749 TGCACGAGTACAGCGGCA 61.985 61.111 1.45 14.99 34.36 5.69
699 825 3.903644 CGCACACAAACGTTTACCTATTG 59.096 43.478 14.20 2.55 0.00 1.90
700 826 4.553156 CGCACACAAACGTTTACCTATTGT 60.553 41.667 14.20 3.26 34.74 2.71
705 831 6.930667 ACAAACGTTTACCTATTGTGAAGT 57.069 33.333 14.20 0.00 33.29 3.01
706 832 6.721321 ACAAACGTTTACCTATTGTGAAGTG 58.279 36.000 14.20 0.00 33.29 3.16
707 833 5.934935 AACGTTTACCTATTGTGAAGTGG 57.065 39.130 0.00 0.00 0.00 4.00
708 834 4.320870 ACGTTTACCTATTGTGAAGTGGG 58.679 43.478 0.00 0.00 0.00 4.61
709 835 3.687698 CGTTTACCTATTGTGAAGTGGGG 59.312 47.826 0.00 0.00 0.00 4.96
710 836 3.359695 TTACCTATTGTGAAGTGGGGC 57.640 47.619 0.00 0.00 0.00 5.80
711 837 1.372501 ACCTATTGTGAAGTGGGGCT 58.627 50.000 0.00 0.00 0.00 5.19
712 838 1.710809 ACCTATTGTGAAGTGGGGCTT 59.289 47.619 0.00 0.00 40.76 4.35
713 839 2.916934 ACCTATTGTGAAGTGGGGCTTA 59.083 45.455 0.00 0.00 37.59 3.09
714 840 3.279434 CCTATTGTGAAGTGGGGCTTAC 58.721 50.000 0.00 0.00 37.59 2.34
715 841 3.054361 CCTATTGTGAAGTGGGGCTTACT 60.054 47.826 0.00 0.00 37.59 2.24
716 842 2.561478 TTGTGAAGTGGGGCTTACTC 57.439 50.000 0.00 0.00 37.59 2.59
717 843 1.429930 TGTGAAGTGGGGCTTACTCA 58.570 50.000 0.00 0.00 37.59 3.41
718 844 1.071699 TGTGAAGTGGGGCTTACTCAC 59.928 52.381 0.00 0.00 37.59 3.51
719 845 1.348036 GTGAAGTGGGGCTTACTCACT 59.652 52.381 0.00 0.00 42.77 3.41
723 849 4.489306 AAGTGGGGCTTACTCACTTATC 57.511 45.455 10.63 0.00 46.12 1.75
724 850 2.431057 AGTGGGGCTTACTCACTTATCG 59.569 50.000 0.00 0.00 38.44 2.92
725 851 2.429610 GTGGGGCTTACTCACTTATCGA 59.570 50.000 0.00 0.00 0.00 3.59
726 852 2.429610 TGGGGCTTACTCACTTATCGAC 59.570 50.000 0.00 0.00 0.00 4.20
727 853 2.223994 GGGGCTTACTCACTTATCGACC 60.224 54.545 0.00 0.00 0.00 4.79
728 854 2.543238 GGGCTTACTCACTTATCGACCG 60.543 54.545 0.00 0.00 0.00 4.79
729 855 2.098770 GGCTTACTCACTTATCGACCGT 59.901 50.000 0.00 0.00 0.00 4.83
730 856 3.106672 GCTTACTCACTTATCGACCGTG 58.893 50.000 0.00 0.00 0.00 4.94
731 857 3.692576 CTTACTCACTTATCGACCGTGG 58.307 50.000 9.74 4.87 0.00 4.94
732 858 1.830279 ACTCACTTATCGACCGTGGA 58.170 50.000 9.74 0.00 0.00 4.02
733 859 2.376109 ACTCACTTATCGACCGTGGAT 58.624 47.619 9.74 1.40 0.00 3.41
734 860 3.548770 ACTCACTTATCGACCGTGGATA 58.451 45.455 9.74 0.00 0.00 2.59
735 861 4.142790 ACTCACTTATCGACCGTGGATAT 58.857 43.478 4.30 0.00 0.00 1.63
736 862 5.311265 ACTCACTTATCGACCGTGGATATA 58.689 41.667 4.30 0.00 0.00 0.86
737 863 5.944599 ACTCACTTATCGACCGTGGATATAT 59.055 40.000 4.30 0.00 0.00 0.86
738 864 6.433404 ACTCACTTATCGACCGTGGATATATT 59.567 38.462 4.30 0.00 0.00 1.28
739 865 7.609146 ACTCACTTATCGACCGTGGATATATTA 59.391 37.037 4.30 0.00 0.00 0.98
740 866 7.982224 TCACTTATCGACCGTGGATATATTAG 58.018 38.462 4.30 2.33 0.00 1.73
741 867 7.066645 TCACTTATCGACCGTGGATATATTAGG 59.933 40.741 4.30 0.00 0.00 2.69
742 868 4.650754 ATCGACCGTGGATATATTAGGC 57.349 45.455 0.00 0.00 0.00 3.93
743 869 2.756760 TCGACCGTGGATATATTAGGCC 59.243 50.000 0.00 0.00 0.00 5.19
744 870 2.758979 CGACCGTGGATATATTAGGCCT 59.241 50.000 11.78 11.78 0.00 5.19
745 871 3.949754 CGACCGTGGATATATTAGGCCTA 59.050 47.826 8.91 8.91 0.00 3.93
746 872 4.583489 CGACCGTGGATATATTAGGCCTAT 59.417 45.833 14.74 1.88 0.00 2.57
747 873 5.766670 CGACCGTGGATATATTAGGCCTATA 59.233 44.000 14.74 4.55 0.00 1.31
748 874 6.293845 CGACCGTGGATATATTAGGCCTATAC 60.294 46.154 14.74 0.00 0.00 1.47
749 875 6.680540 ACCGTGGATATATTAGGCCTATACT 58.319 40.000 14.74 4.27 0.00 2.12
750 876 7.819500 ACCGTGGATATATTAGGCCTATACTA 58.180 38.462 14.74 6.50 0.00 1.82
751 877 7.723172 ACCGTGGATATATTAGGCCTATACTAC 59.277 40.741 14.74 8.61 0.00 2.73
752 878 7.722728 CCGTGGATATATTAGGCCTATACTACA 59.277 40.741 14.74 4.75 0.00 2.74
753 879 8.566260 CGTGGATATATTAGGCCTATACTACAC 58.434 40.741 14.74 14.96 0.00 2.90
754 880 9.643735 GTGGATATATTAGGCCTATACTACACT 57.356 37.037 14.74 0.00 0.00 3.55
755 881 9.642343 TGGATATATTAGGCCTATACTACACTG 57.358 37.037 14.74 0.00 0.00 3.66
756 882 9.863650 GGATATATTAGGCCTATACTACACTGA 57.136 37.037 14.74 0.00 0.00 3.41
759 885 6.919775 ATTAGGCCTATACTACACTGAAGG 57.080 41.667 14.74 0.00 0.00 3.46
761 887 3.388345 GCCTATACTACACTGAAGGCC 57.612 52.381 0.00 0.00 42.96 5.19
762 888 2.966516 GCCTATACTACACTGAAGGCCT 59.033 50.000 0.00 0.00 42.96 5.19
763 889 4.150359 GCCTATACTACACTGAAGGCCTA 58.850 47.826 5.16 0.00 42.96 3.93
764 890 4.773149 GCCTATACTACACTGAAGGCCTAT 59.227 45.833 5.16 0.00 42.96 2.57
765 891 5.950549 GCCTATACTACACTGAAGGCCTATA 59.049 44.000 5.16 0.00 42.96 1.31
766 892 6.127675 GCCTATACTACACTGAAGGCCTATAC 60.128 46.154 5.16 0.95 42.96 1.47
767 893 7.176490 CCTATACTACACTGAAGGCCTATACT 58.824 42.308 5.16 0.00 0.00 2.12
768 894 8.327271 CCTATACTACACTGAAGGCCTATACTA 58.673 40.741 5.16 0.00 0.00 1.82
769 895 7.999450 ATACTACACTGAAGGCCTATACTAC 57.001 40.000 5.16 0.00 0.00 2.73
770 896 5.763355 ACTACACTGAAGGCCTATACTACA 58.237 41.667 5.16 0.00 0.00 2.74
771 897 5.593502 ACTACACTGAAGGCCTATACTACAC 59.406 44.000 5.16 0.00 0.00 2.90
772 898 4.611367 ACACTGAAGGCCTATACTACACT 58.389 43.478 5.16 0.00 0.00 3.55
773 899 4.402793 ACACTGAAGGCCTATACTACACTG 59.597 45.833 5.16 2.53 0.00 3.66
774 900 3.961408 ACTGAAGGCCTATACTACACTGG 59.039 47.826 5.16 0.00 0.00 4.00
775 901 4.215908 CTGAAGGCCTATACTACACTGGA 58.784 47.826 5.16 0.00 0.00 3.86
776 902 4.215908 TGAAGGCCTATACTACACTGGAG 58.784 47.826 5.16 0.00 0.00 3.86
777 903 2.599677 AGGCCTATACTACACTGGAGC 58.400 52.381 1.29 0.00 0.00 4.70
778 904 1.269998 GGCCTATACTACACTGGAGCG 59.730 57.143 0.00 0.00 0.00 5.03
779 905 1.269998 GCCTATACTACACTGGAGCGG 59.730 57.143 0.00 0.00 0.00 5.52
780 906 2.584236 CCTATACTACACTGGAGCGGT 58.416 52.381 0.00 0.00 0.00 5.68
781 907 2.293677 CCTATACTACACTGGAGCGGTG 59.706 54.545 0.00 0.00 45.33 4.94
782 908 0.460311 ATACTACACTGGAGCGGTGC 59.540 55.000 0.00 0.00 43.84 5.01
783 909 0.611062 TACTACACTGGAGCGGTGCT 60.611 55.000 7.84 0.00 43.84 4.40
784 910 1.446792 CTACACTGGAGCGGTGCTG 60.447 63.158 11.26 11.26 43.84 4.41
785 911 1.877576 CTACACTGGAGCGGTGCTGA 61.878 60.000 19.07 0.00 43.84 4.26
786 912 1.877576 TACACTGGAGCGGTGCTGAG 61.878 60.000 19.07 13.60 43.84 3.35
787 913 2.601666 ACTGGAGCGGTGCTGAGA 60.602 61.111 19.07 0.00 39.88 3.27
788 914 2.210013 ACTGGAGCGGTGCTGAGAA 61.210 57.895 19.07 0.00 39.88 2.87
789 915 1.004560 CTGGAGCGGTGCTGAGAAA 60.005 57.895 7.84 0.00 39.88 2.52
790 916 0.392193 CTGGAGCGGTGCTGAGAAAT 60.392 55.000 7.84 0.00 39.88 2.17
791 917 0.901827 TGGAGCGGTGCTGAGAAATA 59.098 50.000 7.84 0.00 39.88 1.40
792 918 1.134699 TGGAGCGGTGCTGAGAAATAG 60.135 52.381 7.84 0.00 39.88 1.73
793 919 1.137086 GGAGCGGTGCTGAGAAATAGA 59.863 52.381 0.00 0.00 39.88 1.98
794 920 2.224161 GGAGCGGTGCTGAGAAATAGAT 60.224 50.000 0.00 0.00 39.88 1.98
795 921 3.005897 GGAGCGGTGCTGAGAAATAGATA 59.994 47.826 0.00 0.00 39.88 1.98
796 922 4.322349 GGAGCGGTGCTGAGAAATAGATAT 60.322 45.833 0.00 0.00 39.88 1.63
797 923 5.105716 GGAGCGGTGCTGAGAAATAGATATA 60.106 44.000 0.00 0.00 39.88 0.86
798 924 5.715070 AGCGGTGCTGAGAAATAGATATAC 58.285 41.667 0.00 0.00 37.57 1.47
799 925 4.559251 GCGGTGCTGAGAAATAGATATACG 59.441 45.833 0.00 0.00 0.00 3.06
800 926 5.096169 CGGTGCTGAGAAATAGATATACGG 58.904 45.833 0.00 0.00 0.00 4.02
801 927 5.411781 GGTGCTGAGAAATAGATATACGGG 58.588 45.833 0.00 0.00 0.00 5.28
802 928 4.865365 GTGCTGAGAAATAGATATACGGGC 59.135 45.833 0.00 0.00 0.00 6.13
803 929 4.772624 TGCTGAGAAATAGATATACGGGCT 59.227 41.667 0.00 0.00 0.00 5.19
804 930 5.105752 GCTGAGAAATAGATATACGGGCTG 58.894 45.833 0.00 0.00 0.00 4.85
805 931 5.105716 GCTGAGAAATAGATATACGGGCTGA 60.106 44.000 0.00 0.00 0.00 4.26
806 932 6.406400 GCTGAGAAATAGATATACGGGCTGAT 60.406 42.308 0.00 0.00 0.00 2.90
807 933 7.482169 TGAGAAATAGATATACGGGCTGATT 57.518 36.000 0.00 0.00 0.00 2.57
808 934 8.589701 TGAGAAATAGATATACGGGCTGATTA 57.410 34.615 0.00 0.00 0.00 1.75
809 935 9.201989 TGAGAAATAGATATACGGGCTGATTAT 57.798 33.333 0.00 0.00 0.00 1.28
821 947 7.058023 ACGGGCTGATTATACAAATACTACA 57.942 36.000 0.00 0.00 0.00 2.74
822 948 6.927381 ACGGGCTGATTATACAAATACTACAC 59.073 38.462 0.00 0.00 0.00 2.90
823 949 6.089016 CGGGCTGATTATACAAATACTACACG 59.911 42.308 0.00 0.00 0.00 4.49
824 950 7.149973 GGGCTGATTATACAAATACTACACGA 58.850 38.462 0.00 0.00 0.00 4.35
825 951 7.654520 GGGCTGATTATACAAATACTACACGAA 59.345 37.037 0.00 0.00 0.00 3.85
826 952 9.204570 GGCTGATTATACAAATACTACACGAAT 57.795 33.333 0.00 0.00 0.00 3.34
839 965 2.021793 CGAATCACGTGCGCATGG 59.978 61.111 31.55 20.59 37.22 3.66
840 966 2.451990 CGAATCACGTGCGCATGGA 61.452 57.895 31.55 24.56 37.22 3.41
841 967 1.765161 CGAATCACGTGCGCATGGAT 61.765 55.000 31.55 25.50 37.22 3.41
842 968 0.316442 GAATCACGTGCGCATGGATG 60.316 55.000 31.55 21.80 0.00 3.51
843 969 1.717791 AATCACGTGCGCATGGATGG 61.718 55.000 31.55 18.16 0.00 3.51
844 970 2.591929 ATCACGTGCGCATGGATGGA 62.592 55.000 31.55 22.23 0.00 3.41
845 971 2.512286 ACGTGCGCATGGATGGAG 60.512 61.111 31.55 10.34 0.00 3.86
846 972 3.274586 CGTGCGCATGGATGGAGG 61.275 66.667 22.09 0.00 0.00 4.30
847 973 2.124570 GTGCGCATGGATGGAGGT 60.125 61.111 15.91 0.00 0.00 3.85
848 974 2.124612 TGCGCATGGATGGAGGTG 60.125 61.111 5.66 0.00 0.00 4.00
849 975 2.190313 GCGCATGGATGGAGGTGA 59.810 61.111 0.30 0.00 0.00 4.02
850 976 1.228063 GCGCATGGATGGAGGTGAT 60.228 57.895 0.30 0.00 0.00 3.06
851 977 0.820891 GCGCATGGATGGAGGTGATT 60.821 55.000 0.30 0.00 0.00 2.57
852 978 1.233019 CGCATGGATGGAGGTGATTC 58.767 55.000 0.00 0.00 0.00 2.52
853 979 1.613836 GCATGGATGGAGGTGATTCC 58.386 55.000 0.00 0.00 37.77 3.01
861 987 3.920231 TGGAGGTGATTCCATTCTCAG 57.080 47.619 0.00 0.00 42.24 3.35
862 988 3.453868 TGGAGGTGATTCCATTCTCAGA 58.546 45.455 0.00 0.00 42.24 3.27
863 989 4.042884 TGGAGGTGATTCCATTCTCAGAT 58.957 43.478 0.00 0.00 42.24 2.90
864 990 4.141551 TGGAGGTGATTCCATTCTCAGATG 60.142 45.833 0.00 0.00 42.24 2.90
865 991 4.387598 GAGGTGATTCCATTCTCAGATGG 58.612 47.826 0.00 0.00 46.49 3.51
875 1001 3.634397 TTCTCAGATGGAACCATGTCC 57.366 47.619 11.27 0.00 36.70 4.02
882 1008 2.495155 TGGAACCATGTCCACTCATG 57.505 50.000 0.95 0.00 42.97 3.07
883 1009 1.984424 TGGAACCATGTCCACTCATGA 59.016 47.619 0.95 0.00 45.41 3.07
884 1010 2.577563 TGGAACCATGTCCACTCATGAT 59.422 45.455 0.00 0.00 45.41 2.45
885 1011 3.010472 TGGAACCATGTCCACTCATGATT 59.990 43.478 0.00 0.00 45.41 2.57
886 1012 4.227073 TGGAACCATGTCCACTCATGATTA 59.773 41.667 0.00 0.00 45.41 1.75
887 1013 5.103982 TGGAACCATGTCCACTCATGATTAT 60.104 40.000 0.00 0.00 45.41 1.28
888 1014 5.829924 GGAACCATGTCCACTCATGATTATT 59.170 40.000 0.00 0.00 45.41 1.40
889 1015 6.998074 GGAACCATGTCCACTCATGATTATTA 59.002 38.462 0.00 0.00 45.41 0.98
890 1016 7.173907 GGAACCATGTCCACTCATGATTATTAG 59.826 40.741 0.00 0.00 45.41 1.73
949 1075 8.747538 AAGATTTTAAACGCCCTGTATTATCT 57.252 30.769 0.00 0.00 0.00 1.98
1035 1165 0.038159 CGCGTGTCCTCTCTTTCCTT 60.038 55.000 0.00 0.00 0.00 3.36
1058 1188 3.760035 CTCACCACCCCGTCTCCG 61.760 72.222 0.00 0.00 0.00 4.63
1083 1213 2.352032 CCGCGTCTCTCCCCTCTTT 61.352 63.158 4.92 0.00 0.00 2.52
1089 1219 0.618968 TCTCTCCCCTCTTTGCCCTC 60.619 60.000 0.00 0.00 0.00 4.30
1092 1222 4.803908 CCCCTCTTTGCCCTCCGC 62.804 72.222 0.00 0.00 38.31 5.54
1093 1223 4.803908 CCCTCTTTGCCCTCCGCC 62.804 72.222 0.00 0.00 36.24 6.13
1245 1375 2.066999 GTCCTCCTCCAAGCCCGAT 61.067 63.158 0.00 0.00 0.00 4.18
1636 1766 1.369091 CTTCATTTCCCGGGTGCTCG 61.369 60.000 22.86 6.87 0.00 5.03
1656 1786 1.145119 GTCAGGACCCCCAAGAAAGTT 59.855 52.381 0.00 0.00 33.88 2.66
1767 1897 3.129792 GGAGAAGCTCACCGACAAG 57.870 57.895 0.00 0.00 31.08 3.16
1836 1966 3.195698 GTGAAGACGATGCCGGGC 61.196 66.667 13.32 13.32 40.78 6.13
1899 2029 0.843309 TCCTCACAAAGGTTGCTGGA 59.157 50.000 0.00 0.00 46.32 3.86
1968 2098 4.103103 GAGCGCCGCTTGTTTCCC 62.103 66.667 15.07 0.00 39.88 3.97
2170 2300 6.348050 GGAGTTGCTATCAGAGAACACAAAAG 60.348 42.308 0.00 0.00 0.00 2.27
2263 2393 1.482365 GGTTTGTCATCCCCCTTGGTT 60.482 52.381 0.00 0.00 34.77 3.67
2271 2401 0.114168 TCCCCCTTGGTTCATTGGTG 59.886 55.000 0.00 0.00 34.77 4.17
2336 2466 9.364989 TGTTATTAACTGATTAAAAAGCATGGC 57.635 29.630 7.99 0.00 33.98 4.40
2517 2647 1.475930 GGGGAACTGCTAGGAATCAGC 60.476 57.143 0.00 0.00 39.56 4.26
2530 2660 0.745845 AATCAGCTCATGCGTGGGAC 60.746 55.000 10.85 0.57 45.42 4.46
2532 2662 4.457496 AGCTCATGCGTGGGACGG 62.457 66.667 10.85 0.00 42.82 4.79
2558 2688 2.698274 TGTATGGACGGTGCATGAGTAT 59.302 45.455 23.20 1.01 29.08 2.12
2563 2693 2.418746 GGACGGTGCATGAGTATTCTGT 60.419 50.000 0.00 0.00 0.00 3.41
2585 2715 5.800438 TGTCGATTTCTTTCTATCAGACGTG 59.200 40.000 0.00 0.00 32.31 4.49
2679 2809 9.932207 TGAACATTTAGAAAAGTTATCGAGGTA 57.068 29.630 0.00 0.00 30.87 3.08
2773 2903 7.280876 TGAAATCATTTAGAGCCTACATCACAC 59.719 37.037 0.00 0.00 0.00 3.82
2788 2918 9.084164 CCTACATCACACAGTATAACTACAAAC 57.916 37.037 0.00 0.00 0.00 2.93
2843 2973 7.966246 TGGAATGATTTTTGAAAATGGTGAG 57.034 32.000 6.44 0.00 38.64 3.51
3010 3140 1.792949 CAACCGAGTTCTCGTTTCTGG 59.207 52.381 18.59 6.85 0.00 3.86
3022 3152 6.780706 TCTCGTTTCTGGTATGTTTTTCTC 57.219 37.500 0.00 0.00 0.00 2.87
3046 3176 5.585844 CCTTTCTTGAAACAAACAATTGGCT 59.414 36.000 10.83 0.00 41.01 4.75
3144 3274 6.881065 TGTTATATATCAGCTCCTCAAATGGC 59.119 38.462 0.00 0.00 0.00 4.40
3152 3282 2.800250 CTCCTCAAATGGCAGAAGGTT 58.200 47.619 0.00 0.00 0.00 3.50
3170 3300 4.622701 GGTTTGCAGACCTCATGATAAC 57.377 45.455 18.90 0.03 36.73 1.89
3176 3306 5.069318 TGCAGACCTCATGATAACAAAACA 58.931 37.500 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 2.573340 GGCGTCCCATTTTGCTGG 59.427 61.111 0.00 0.00 35.95 4.85
71 72 3.971702 GCTGGAACCTGCTGGGGT 61.972 66.667 14.82 0.00 42.05 4.95
116 117 3.918220 CGGAGCTGCAATCGACGC 61.918 66.667 5.91 1.72 0.00 5.19
152 153 0.250124 AGGTGCATTCGACGTTTGGA 60.250 50.000 0.00 0.00 0.00 3.53
164 165 4.415150 CTGGTGGCGGAGGTGCAT 62.415 66.667 0.00 0.00 36.28 3.96
194 195 1.594833 CTACAACCGGCTGCTACCA 59.405 57.895 4.34 0.00 0.00 3.25
195 196 1.814169 GCTACAACCGGCTGCTACC 60.814 63.158 4.34 0.00 0.00 3.18
200 201 3.188786 GCGAGCTACAACCGGCTG 61.189 66.667 0.00 0.62 39.05 4.85
354 410 2.359981 TACTCCATAGCTACGCTGGT 57.640 50.000 10.89 3.40 40.10 4.00
357 413 4.463186 CCCTTATTACTCCATAGCTACGCT 59.537 45.833 0.00 0.00 43.41 5.07
372 428 1.216930 GGCCAGCTTTCCCCCTTATTA 59.783 52.381 0.00 0.00 0.00 0.98
375 431 1.854979 TGGCCAGCTTTCCCCCTTA 60.855 57.895 0.00 0.00 0.00 2.69
389 446 1.071542 GCTATTTCTCCCTCTCTGGCC 59.928 57.143 0.00 0.00 0.00 5.36
393 450 2.699846 CTGCTGCTATTTCTCCCTCTCT 59.300 50.000 0.00 0.00 0.00 3.10
415 472 1.149288 ACTACCACCTGAGAGTTCCCA 59.851 52.381 0.00 0.00 0.00 4.37
426 484 1.982938 GCGAGACCCACTACCACCT 60.983 63.158 0.00 0.00 0.00 4.00
433 491 0.251653 TAACTCTGGCGAGACCCACT 60.252 55.000 12.16 0.00 39.74 4.00
439 497 1.693627 GGATCCTAACTCTGGCGAGA 58.306 55.000 3.84 0.00 39.74 4.04
446 504 1.689273 GTGCCATCGGATCCTAACTCT 59.311 52.381 10.75 0.00 0.00 3.24
537 611 1.966451 CCTCGTCCACACAAAGCCC 60.966 63.158 0.00 0.00 0.00 5.19
540 614 1.873591 CTTTCCCTCGTCCACACAAAG 59.126 52.381 0.00 0.00 0.00 2.77
566 672 0.537188 CACTAACTCCAGCGGACCAT 59.463 55.000 0.00 0.00 0.00 3.55
601 709 0.107456 AAGCAGAGGCCCATCATACG 59.893 55.000 0.00 0.00 42.56 3.06
605 713 3.395607 ACATAATAAGCAGAGGCCCATCA 59.604 43.478 0.00 0.00 42.56 3.07
607 715 5.014544 ACATACATAATAAGCAGAGGCCCAT 59.985 40.000 0.00 0.00 42.56 4.00
621 747 4.745125 GCTGTACTCGTGCACATACATAAT 59.255 41.667 18.64 0.00 0.00 1.28
648 774 1.740296 CGAACTTTCGGCCGGTCAT 60.740 57.895 27.83 8.29 46.30 3.06
699 825 1.348036 AGTGAGTAAGCCCCACTTCAC 59.652 52.381 0.00 0.00 37.86 3.18
700 826 1.729586 AGTGAGTAAGCCCCACTTCA 58.270 50.000 0.00 0.00 37.86 3.02
701 827 2.861147 AAGTGAGTAAGCCCCACTTC 57.139 50.000 0.00 0.00 44.92 3.01
703 829 2.431057 CGATAAGTGAGTAAGCCCCACT 59.569 50.000 0.00 0.00 42.34 4.00
704 830 2.429610 TCGATAAGTGAGTAAGCCCCAC 59.570 50.000 0.00 0.00 0.00 4.61
705 831 2.429610 GTCGATAAGTGAGTAAGCCCCA 59.570 50.000 0.00 0.00 0.00 4.96
706 832 2.223994 GGTCGATAAGTGAGTAAGCCCC 60.224 54.545 0.00 0.00 0.00 5.80
707 833 2.543238 CGGTCGATAAGTGAGTAAGCCC 60.543 54.545 0.00 0.00 0.00 5.19
708 834 2.098770 ACGGTCGATAAGTGAGTAAGCC 59.901 50.000 0.00 0.00 0.00 4.35
709 835 3.106672 CACGGTCGATAAGTGAGTAAGC 58.893 50.000 10.95 0.00 38.06 3.09
710 836 3.376234 TCCACGGTCGATAAGTGAGTAAG 59.624 47.826 16.07 3.34 38.06 2.34
711 837 3.346315 TCCACGGTCGATAAGTGAGTAA 58.654 45.455 16.07 1.08 38.06 2.24
712 838 2.989909 TCCACGGTCGATAAGTGAGTA 58.010 47.619 16.07 2.93 38.06 2.59
713 839 1.830279 TCCACGGTCGATAAGTGAGT 58.170 50.000 16.07 0.00 38.06 3.41
714 840 4.768130 ATATCCACGGTCGATAAGTGAG 57.232 45.455 16.07 8.73 38.06 3.51
715 841 6.829229 AATATATCCACGGTCGATAAGTGA 57.171 37.500 16.07 0.43 38.06 3.41
716 842 7.194278 CCTAATATATCCACGGTCGATAAGTG 58.806 42.308 0.00 9.85 35.79 3.16
717 843 6.183360 GCCTAATATATCCACGGTCGATAAGT 60.183 42.308 0.00 0.00 0.00 2.24
718 844 6.207213 GCCTAATATATCCACGGTCGATAAG 58.793 44.000 0.00 0.00 0.00 1.73
719 845 5.068198 GGCCTAATATATCCACGGTCGATAA 59.932 44.000 0.00 0.00 0.00 1.75
720 846 4.581824 GGCCTAATATATCCACGGTCGATA 59.418 45.833 0.00 0.00 0.00 2.92
721 847 3.383825 GGCCTAATATATCCACGGTCGAT 59.616 47.826 0.00 0.00 0.00 3.59
722 848 2.756760 GGCCTAATATATCCACGGTCGA 59.243 50.000 0.00 0.00 0.00 4.20
723 849 2.758979 AGGCCTAATATATCCACGGTCG 59.241 50.000 1.29 0.00 0.00 4.79
724 850 6.776603 AGTATAGGCCTAATATATCCACGGTC 59.223 42.308 18.42 0.00 0.00 4.79
725 851 6.680540 AGTATAGGCCTAATATATCCACGGT 58.319 40.000 18.42 0.00 0.00 4.83
726 852 7.722728 TGTAGTATAGGCCTAATATATCCACGG 59.277 40.741 18.42 0.00 0.00 4.94
727 853 8.566260 GTGTAGTATAGGCCTAATATATCCACG 58.434 40.741 18.42 0.00 0.00 4.94
728 854 9.643735 AGTGTAGTATAGGCCTAATATATCCAC 57.356 37.037 18.42 16.26 0.00 4.02
729 855 9.642343 CAGTGTAGTATAGGCCTAATATATCCA 57.358 37.037 18.42 5.27 0.00 3.41
730 856 9.863650 TCAGTGTAGTATAGGCCTAATATATCC 57.136 37.037 18.42 3.43 0.00 2.59
733 859 9.696572 CCTTCAGTGTAGTATAGGCCTAATATA 57.303 37.037 18.42 2.62 0.00 0.86
734 860 7.124448 GCCTTCAGTGTAGTATAGGCCTAATAT 59.876 40.741 18.42 3.80 41.74 1.28
735 861 6.436532 GCCTTCAGTGTAGTATAGGCCTAATA 59.563 42.308 18.42 7.58 41.74 0.98
736 862 5.246429 GCCTTCAGTGTAGTATAGGCCTAAT 59.754 44.000 18.42 8.64 41.74 1.73
737 863 4.587684 GCCTTCAGTGTAGTATAGGCCTAA 59.412 45.833 18.42 3.43 41.74 2.69
738 864 4.150359 GCCTTCAGTGTAGTATAGGCCTA 58.850 47.826 16.60 16.60 41.74 3.93
739 865 2.966516 GCCTTCAGTGTAGTATAGGCCT 59.033 50.000 11.78 11.78 41.74 5.19
740 866 3.388345 GCCTTCAGTGTAGTATAGGCC 57.612 52.381 0.00 0.00 41.74 5.19
741 867 2.966516 AGGCCTTCAGTGTAGTATAGGC 59.033 50.000 0.00 0.00 45.71 3.93
742 868 7.176490 AGTATAGGCCTTCAGTGTAGTATAGG 58.824 42.308 12.58 0.00 0.00 2.57
743 869 9.165035 GTAGTATAGGCCTTCAGTGTAGTATAG 57.835 40.741 12.58 0.00 0.00 1.31
744 870 8.663167 TGTAGTATAGGCCTTCAGTGTAGTATA 58.337 37.037 12.58 0.00 0.00 1.47
745 871 7.447853 GTGTAGTATAGGCCTTCAGTGTAGTAT 59.552 40.741 12.58 0.00 0.00 2.12
746 872 6.769822 GTGTAGTATAGGCCTTCAGTGTAGTA 59.230 42.308 12.58 0.00 0.00 1.82
747 873 5.593502 GTGTAGTATAGGCCTTCAGTGTAGT 59.406 44.000 12.58 0.84 0.00 2.73
748 874 5.828859 AGTGTAGTATAGGCCTTCAGTGTAG 59.171 44.000 12.58 0.00 0.00 2.74
749 875 5.593095 CAGTGTAGTATAGGCCTTCAGTGTA 59.407 44.000 12.58 0.00 30.45 2.90
750 876 4.402793 CAGTGTAGTATAGGCCTTCAGTGT 59.597 45.833 12.58 0.00 30.45 3.55
751 877 4.202161 CCAGTGTAGTATAGGCCTTCAGTG 60.202 50.000 12.58 13.25 33.14 3.66
752 878 3.961408 CCAGTGTAGTATAGGCCTTCAGT 59.039 47.826 12.58 4.52 0.00 3.41
753 879 4.215908 TCCAGTGTAGTATAGGCCTTCAG 58.784 47.826 12.58 0.00 0.00 3.02
754 880 4.215908 CTCCAGTGTAGTATAGGCCTTCA 58.784 47.826 12.58 0.00 0.00 3.02
755 881 3.006003 GCTCCAGTGTAGTATAGGCCTTC 59.994 52.174 12.58 1.81 0.00 3.46
756 882 2.966516 GCTCCAGTGTAGTATAGGCCTT 59.033 50.000 12.58 0.81 0.00 4.35
757 883 2.599677 GCTCCAGTGTAGTATAGGCCT 58.400 52.381 11.78 11.78 0.00 5.19
758 884 1.269998 CGCTCCAGTGTAGTATAGGCC 59.730 57.143 0.00 0.00 0.00 5.19
759 885 1.269998 CCGCTCCAGTGTAGTATAGGC 59.730 57.143 0.00 0.00 0.00 3.93
760 886 2.293677 CACCGCTCCAGTGTAGTATAGG 59.706 54.545 0.00 0.00 0.00 2.57
761 887 2.287668 GCACCGCTCCAGTGTAGTATAG 60.288 54.545 0.00 0.00 37.56 1.31
762 888 1.679680 GCACCGCTCCAGTGTAGTATA 59.320 52.381 0.00 0.00 37.56 1.47
763 889 0.460311 GCACCGCTCCAGTGTAGTAT 59.540 55.000 0.00 0.00 37.56 2.12
764 890 0.611062 AGCACCGCTCCAGTGTAGTA 60.611 55.000 0.00 0.00 37.56 1.82
765 891 1.908793 AGCACCGCTCCAGTGTAGT 60.909 57.895 0.00 0.00 37.56 2.73
766 892 1.446792 CAGCACCGCTCCAGTGTAG 60.447 63.158 0.00 0.00 36.40 2.74
767 893 1.877576 CTCAGCACCGCTCCAGTGTA 61.878 60.000 0.00 0.00 36.40 2.90
768 894 3.231889 CTCAGCACCGCTCCAGTGT 62.232 63.158 0.00 0.00 36.40 3.55
769 895 2.433838 CTCAGCACCGCTCCAGTG 60.434 66.667 0.00 0.00 36.40 3.66
770 896 1.758440 TTTCTCAGCACCGCTCCAGT 61.758 55.000 0.00 0.00 36.40 4.00
771 897 0.392193 ATTTCTCAGCACCGCTCCAG 60.392 55.000 0.00 0.00 36.40 3.86
772 898 0.901827 TATTTCTCAGCACCGCTCCA 59.098 50.000 0.00 0.00 36.40 3.86
773 899 1.137086 TCTATTTCTCAGCACCGCTCC 59.863 52.381 0.00 0.00 36.40 4.70
774 900 2.586258 TCTATTTCTCAGCACCGCTC 57.414 50.000 0.00 0.00 36.40 5.03
775 901 4.881019 ATATCTATTTCTCAGCACCGCT 57.119 40.909 0.00 0.00 40.77 5.52
776 902 4.559251 CGTATATCTATTTCTCAGCACCGC 59.441 45.833 0.00 0.00 0.00 5.68
777 903 5.096169 CCGTATATCTATTTCTCAGCACCG 58.904 45.833 0.00 0.00 0.00 4.94
778 904 5.411781 CCCGTATATCTATTTCTCAGCACC 58.588 45.833 0.00 0.00 0.00 5.01
779 905 4.865365 GCCCGTATATCTATTTCTCAGCAC 59.135 45.833 0.00 0.00 0.00 4.40
780 906 4.772624 AGCCCGTATATCTATTTCTCAGCA 59.227 41.667 0.00 0.00 0.00 4.41
781 907 5.105716 TCAGCCCGTATATCTATTTCTCAGC 60.106 44.000 0.00 0.00 0.00 4.26
782 908 6.516739 TCAGCCCGTATATCTATTTCTCAG 57.483 41.667 0.00 0.00 0.00 3.35
783 909 7.482169 AATCAGCCCGTATATCTATTTCTCA 57.518 36.000 0.00 0.00 0.00 3.27
795 921 8.809066 TGTAGTATTTGTATAATCAGCCCGTAT 58.191 33.333 0.00 0.00 0.00 3.06
796 922 8.084073 GTGTAGTATTTGTATAATCAGCCCGTA 58.916 37.037 0.00 0.00 0.00 4.02
797 923 6.927381 GTGTAGTATTTGTATAATCAGCCCGT 59.073 38.462 0.00 0.00 0.00 5.28
798 924 6.089016 CGTGTAGTATTTGTATAATCAGCCCG 59.911 42.308 0.00 0.00 0.00 6.13
799 925 7.149973 TCGTGTAGTATTTGTATAATCAGCCC 58.850 38.462 0.00 0.00 0.00 5.19
800 926 8.583810 TTCGTGTAGTATTTGTATAATCAGCC 57.416 34.615 0.00 0.00 0.00 4.85
822 948 1.765161 ATCCATGCGCACGTGATTCG 61.765 55.000 22.23 14.82 46.00 3.34
823 949 0.316442 CATCCATGCGCACGTGATTC 60.316 55.000 22.23 7.47 34.49 2.52
824 950 1.717791 CCATCCATGCGCACGTGATT 61.718 55.000 22.23 0.00 34.49 2.57
825 951 2.182181 CCATCCATGCGCACGTGAT 61.182 57.895 22.23 12.51 34.49 3.06
826 952 2.819154 CCATCCATGCGCACGTGA 60.819 61.111 22.23 10.38 34.49 4.35
827 953 2.816360 CTCCATCCATGCGCACGTG 61.816 63.158 14.90 12.28 0.00 4.49
828 954 2.512286 CTCCATCCATGCGCACGT 60.512 61.111 14.90 0.00 0.00 4.49
829 955 3.274586 CCTCCATCCATGCGCACG 61.275 66.667 14.90 3.27 0.00 5.34
830 956 2.124570 ACCTCCATCCATGCGCAC 60.125 61.111 14.90 0.00 0.00 5.34
831 957 1.986632 ATCACCTCCATCCATGCGCA 61.987 55.000 14.96 14.96 0.00 6.09
832 958 0.820891 AATCACCTCCATCCATGCGC 60.821 55.000 0.00 0.00 0.00 6.09
833 959 1.233019 GAATCACCTCCATCCATGCG 58.767 55.000 0.00 0.00 0.00 4.73
834 960 1.133699 TGGAATCACCTCCATCCATGC 60.134 52.381 0.00 0.00 40.71 4.06
842 968 4.387598 CATCTGAGAATGGAATCACCTCC 58.612 47.826 0.00 0.00 39.86 4.30
852 978 3.881688 GACATGGTTCCATCTGAGAATGG 59.118 47.826 0.86 5.03 46.44 3.16
853 979 3.881688 GGACATGGTTCCATCTGAGAATG 59.118 47.826 0.86 0.00 35.49 2.67
854 980 3.524789 TGGACATGGTTCCATCTGAGAAT 59.475 43.478 0.95 0.00 41.00 2.40
855 981 2.912295 TGGACATGGTTCCATCTGAGAA 59.088 45.455 0.95 0.00 41.00 2.87
856 982 2.550175 TGGACATGGTTCCATCTGAGA 58.450 47.619 0.95 0.00 41.00 3.27
860 986 8.285514 AATCATGAGTGGACATGGTTCCATCT 62.286 42.308 8.20 7.49 44.89 2.90
861 987 6.154136 AATCATGAGTGGACATGGTTCCATC 61.154 44.000 8.20 7.69 44.89 3.51
862 988 4.325579 AATCATGAGTGGACATGGTTCCAT 60.326 41.667 8.20 0.00 44.89 3.41
863 989 1.984424 TCATGAGTGGACATGGTTCCA 59.016 47.619 0.95 0.95 45.10 3.53
864 990 2.787473 TCATGAGTGGACATGGTTCC 57.213 50.000 0.00 0.00 45.10 3.62
865 991 6.949352 AATAATCATGAGTGGACATGGTTC 57.051 37.500 5.80 0.00 44.89 3.62
867 993 6.329986 TCCTAATAATCATGAGTGGACATGGT 59.670 38.462 5.80 0.00 45.10 3.55
868 994 6.772605 TCCTAATAATCATGAGTGGACATGG 58.227 40.000 5.80 1.21 45.10 3.66
1035 1165 3.238497 CGGGGTGGTGAGTGGACA 61.238 66.667 0.00 0.00 0.00 4.02
1095 1225 2.747855 GAGAGGTTGCGGGCCTTG 60.748 66.667 0.84 0.00 36.29 3.61
1096 1226 4.035102 GGAGAGGTTGCGGGCCTT 62.035 66.667 0.84 0.00 36.29 4.35
1128 1258 2.747855 GCGAAGGGGCTTGGTGAG 60.748 66.667 0.00 0.00 0.00 3.51
1140 1270 3.515286 TAGTCCTCGGCGGCGAAG 61.515 66.667 33.90 28.26 0.00 3.79
1636 1766 0.771755 ACTTTCTTGGGGGTCCTGAC 59.228 55.000 0.00 0.00 0.00 3.51
1656 1786 1.891919 GTGCACCAAAGCGTCCTGA 60.892 57.895 5.22 0.00 37.31 3.86
1767 1897 1.935925 CGTCTCGAGGACTCCGATC 59.064 63.158 13.56 0.00 42.44 3.69
1836 1966 2.495270 CTCCTCGGATATGGTCAGGATG 59.505 54.545 0.00 0.00 32.69 3.51
1899 2029 6.737720 TGAGCAATGTAAGATATCTCCAGT 57.262 37.500 5.51 2.72 0.00 4.00
1959 2089 0.036306 AGCAGTACCGGGGAAACAAG 59.964 55.000 6.32 0.00 0.00 3.16
2170 2300 6.536941 CAGGCAAGGTAGATTCTCTAGTTTTC 59.463 42.308 0.00 0.00 28.01 2.29
2213 2343 0.754472 CCATCCAACATGGCAATCCC 59.246 55.000 0.00 0.00 37.47 3.85
2263 2393 2.880268 CTGCACAGAACTTCACCAATGA 59.120 45.455 0.00 0.00 0.00 2.57
2336 2466 8.618702 ATTTCTGGCAAGATGATAATCTGTAG 57.381 34.615 0.00 0.00 30.72 2.74
2517 2647 2.100631 GTTCCGTCCCACGCATGAG 61.101 63.158 0.00 0.00 40.91 2.90
2530 2660 1.286501 CACCGTCCATACATGTTCCG 58.713 55.000 2.30 0.00 0.00 4.30
2532 2662 1.732941 TGCACCGTCCATACATGTTC 58.267 50.000 2.30 0.00 0.00 3.18
2558 2688 6.747739 CGTCTGATAGAAAGAAATCGACAGAA 59.252 38.462 0.00 0.00 33.40 3.02
2563 2693 5.800438 CACACGTCTGATAGAAAGAAATCGA 59.200 40.000 0.00 0.00 0.00 3.59
2598 2728 5.878406 TGCAACCATTTAGAAGGGAAAAA 57.122 34.783 0.00 0.00 35.48 1.94
2599 2729 6.432403 AATGCAACCATTTAGAAGGGAAAA 57.568 33.333 0.00 0.00 38.49 2.29
2673 2803 1.293924 CAGCTGAAGCCAATACCTCG 58.706 55.000 8.42 0.00 43.38 4.63
2679 2809 2.867624 TCTTGAACAGCTGAAGCCAAT 58.132 42.857 23.35 0.00 43.38 3.16
2801 2931 9.996554 ATCATTCCATCGTCTTGTATAATGTTA 57.003 29.630 0.00 0.00 0.00 2.41
2843 2973 5.186996 TCTCTTCAAAACAAGATTGCACC 57.813 39.130 0.00 0.00 31.84 5.01
3010 3140 9.581099 TTGTTTCAAGAAAGGAGAAAAACATAC 57.419 29.630 0.00 0.00 35.71 2.39
3022 3152 5.585844 AGCCAATTGTTTGTTTCAAGAAAGG 59.414 36.000 4.43 0.00 0.00 3.11
3152 3282 5.534278 TGTTTTGTTATCATGAGGTCTGCAA 59.466 36.000 0.09 0.00 0.00 4.08


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

AutoCloner maintained by Alex Coulton.