Multiple sequence alignment - TraesCS1B01G287400

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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 TraesCS1B01G287400 chr1B 100.000 2739 0 0 1 2739 499547872 499545134 0.000000e+00 5059.0
1 TraesCS1B01G287400 chr1B 88.333 660 69 5 1 654 352516607 352515950 0.000000e+00 785.0
2 TraesCS1B01G287400 chr1B 93.471 291 18 1 2109 2399 683722870 683723159 5.420000e-117 431.0
3 TraesCS1B01G287400 chr1B 93.127 291 19 1 2109 2399 583525497 583525786 2.520000e-115 425.0
4 TraesCS1B01G287400 chr1D 91.060 1812 111 17 921 2706 374484672 374482886 0.000000e+00 2401.0
5 TraesCS1B01G287400 chr1D 88.697 637 55 11 121 746 492493974 492494604 0.000000e+00 761.0
6 TraesCS1B01G287400 chr1D 97.297 37 1 0 2701 2737 374482902 374482866 2.280000e-06 63.9
7 TraesCS1B01G287400 chr1A 91.300 954 47 18 979 1910 474260757 474259818 0.000000e+00 1269.0
8 TraesCS1B01G287400 chr1A 86.981 722 75 14 1 710 3852016 3851302 0.000000e+00 795.0
9 TraesCS1B01G287400 chr1A 86.384 683 69 18 40 710 566353914 566354584 0.000000e+00 725.0
10 TraesCS1B01G287400 chr1A 85.631 689 85 10 33 710 497352695 497352010 0.000000e+00 712.0
11 TraesCS1B01G287400 chr1A 89.286 112 12 0 837 948 474260862 474260751 1.020000e-29 141.0
12 TraesCS1B01G287400 chr4A 89.920 754 61 11 1 746 718070834 718071580 0.000000e+00 957.0
13 TraesCS1B01G287400 chr4A 89.669 755 63 10 1 746 718176983 718177731 0.000000e+00 948.0
14 TraesCS1B01G287400 chr3A 88.423 691 68 9 30 710 501389345 501390033 0.000000e+00 822.0
15 TraesCS1B01G287400 chr7D 88.467 685 66 9 30 705 73212002 73212682 0.000000e+00 815.0
16 TraesCS1B01G287400 chr7D 88.227 688 72 7 30 710 59986730 59987415 0.000000e+00 813.0
17 TraesCS1B01G287400 chr7D 97.143 35 0 1 753 786 633253531 633253565 1.060000e-04 58.4
18 TraesCS1B01G287400 chr2A 93.471 291 18 1 2109 2399 755502311 755502600 5.420000e-117 431.0
19 TraesCS1B01G287400 chr2A 92.617 298 19 3 2109 2404 563267913 563267617 2.520000e-115 425.0
20 TraesCS1B01G287400 chr2A 76.445 467 44 39 1082 1511 718572272 718571835 2.780000e-45 193.0
21 TraesCS1B01G287400 chr7A 93.127 291 19 1 2109 2399 671984945 671985234 2.520000e-115 425.0
22 TraesCS1B01G287400 chr5A 93.127 291 19 1 2109 2399 31590694 31590983 2.520000e-115 425.0
23 TraesCS1B01G287400 chr5A 93.127 291 19 1 2109 2399 31655840 31656129 2.520000e-115 425.0
24 TraesCS1B01G287400 chr5A 93.127 291 19 1 2109 2399 559083214 559083503 2.520000e-115 425.0
25 TraesCS1B01G287400 chr5A 94.286 35 1 1 753 786 11622443 11622409 5.000000e-03 52.8
26 TraesCS1B01G287400 chr2B 79.867 452 54 28 1082 1511 703978219 703977783 2.060000e-76 296.0
27 TraesCS1B01G287400 chr2D 77.706 462 40 36 1086 1505 584527350 584526910 9.870000e-55 224.0
28 TraesCS1B01G287400 chr2D 100.000 28 0 0 759 786 261734582 261734555 5.000000e-03 52.8
29 TraesCS1B01G287400 chr6A 100.000 28 0 0 759 786 475436162 475436135 5.000000e-03 52.8


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 TraesCS1B01G287400 chr1B 499545134 499547872 2738 True 5059.00 5059 100.0000 1 2739 1 chr1B.!!$R2 2738
1 TraesCS1B01G287400 chr1B 352515950 352516607 657 True 785.00 785 88.3330 1 654 1 chr1B.!!$R1 653
2 TraesCS1B01G287400 chr1D 374482866 374484672 1806 True 1232.45 2401 94.1785 921 2737 2 chr1D.!!$R1 1816
3 TraesCS1B01G287400 chr1D 492493974 492494604 630 False 761.00 761 88.6970 121 746 1 chr1D.!!$F1 625
4 TraesCS1B01G287400 chr1A 3851302 3852016 714 True 795.00 795 86.9810 1 710 1 chr1A.!!$R1 709
5 TraesCS1B01G287400 chr1A 566353914 566354584 670 False 725.00 725 86.3840 40 710 1 chr1A.!!$F1 670
6 TraesCS1B01G287400 chr1A 497352010 497352695 685 True 712.00 712 85.6310 33 710 1 chr1A.!!$R2 677
7 TraesCS1B01G287400 chr1A 474259818 474260862 1044 True 705.00 1269 90.2930 837 1910 2 chr1A.!!$R3 1073
8 TraesCS1B01G287400 chr4A 718070834 718071580 746 False 957.00 957 89.9200 1 746 1 chr4A.!!$F1 745
9 TraesCS1B01G287400 chr4A 718176983 718177731 748 False 948.00 948 89.6690 1 746 1 chr4A.!!$F2 745
10 TraesCS1B01G287400 chr3A 501389345 501390033 688 False 822.00 822 88.4230 30 710 1 chr3A.!!$F1 680
11 TraesCS1B01G287400 chr7D 73212002 73212682 680 False 815.00 815 88.4670 30 705 1 chr7D.!!$F2 675
12 TraesCS1B01G287400 chr7D 59986730 59987415 685 False 813.00 813 88.2270 30 710 1 chr7D.!!$F1 680

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
794 901 0.032416 CGGAGGGAGTAGGGAGGAAA 60.032 60.0 0.0 0.0 0.0 3.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2635 2788 0.320421 TCGTTCTTCTGGGAAAGCGG 60.32 55.0 0.0 0.0 0.0 5.52 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 32 0.247460 TCGATGTGCAACCTCCTCTG 59.753 55.000 0.00 0.00 34.36 3.35
117 118 5.239744 ACACGCATTGATGTTTAGTTGGTAA 59.760 36.000 0.00 0.00 0.00 2.85
150 230 2.743664 GCACACACATATGCTCAGTTGA 59.256 45.455 1.58 0.00 38.84 3.18
181 262 8.615878 AATTTAGTCTAGTTGCACACACATTA 57.384 30.769 0.00 0.00 0.00 1.90
197 278 8.458052 CACACACATTAATATTTAGTTGGCAGA 58.542 33.333 0.00 0.00 0.00 4.26
228 309 2.743664 GCACACACATATGCTCAGTTGA 59.256 45.455 1.58 0.00 38.84 3.18
238 319 1.868997 CTCAGTTGACGCGGCAATT 59.131 52.632 32.77 25.39 0.00 2.32
249 330 4.107622 GACGCGGCAATTTAGTCTAGTTA 58.892 43.478 7.34 0.00 0.00 2.24
290 378 0.681175 GGCAGGACTTTTTGGCACAT 59.319 50.000 0.00 0.00 39.30 3.21
291 379 1.606224 GGCAGGACTTTTTGGCACATG 60.606 52.381 0.00 0.00 39.30 3.21
292 380 1.787012 CAGGACTTTTTGGCACATGC 58.213 50.000 0.00 0.00 39.30 4.06
293 381 0.314935 AGGACTTTTTGGCACATGCG 59.685 50.000 0.00 0.00 43.26 4.73
313 401 1.143838 ATATGCTCAGTTGGCGCGA 59.856 52.632 12.10 0.00 0.00 5.87
337 427 5.011125 ACAATCTAGTCTAGTTGCACACACT 59.989 40.000 16.02 0.00 0.00 3.55
355 445 4.739716 CACACTTTGATGTTTAGTTGGCAC 59.260 41.667 0.00 0.00 0.00 5.01
414 513 6.014925 TGGTAATCTAGTCTAGTTGCACACAA 60.015 38.462 6.77 0.00 0.00 3.33
430 530 5.163468 TGCACACAAATTGATGTTAGTTGGT 60.163 36.000 0.00 0.00 0.00 3.67
450 550 4.217118 TGGTAGGAAGACTAGTTCGTCAAC 59.783 45.833 0.00 1.79 34.59 3.18
452 552 5.105837 GGTAGGAAGACTAGTTCGTCAACAT 60.106 44.000 0.00 0.00 34.59 2.71
457 557 5.171147 AGACTAGTTCGTCAACATATCCG 57.829 43.478 0.00 0.00 36.38 4.18
488 588 2.551032 TCTAGTTTCGAAGAGCACGTCA 59.449 45.455 0.00 0.00 38.43 4.35
537 640 5.720371 AATTCCGACACATGGATTGAAAA 57.280 34.783 0.00 0.00 34.91 2.29
539 642 7.403312 AATTCCGACACATGGATTGAAAATA 57.597 32.000 0.00 0.00 34.91 1.40
648 751 8.766000 TTTAAGAACCAGGTGAAAAGTTTTTC 57.234 30.769 1.64 9.78 45.13 2.29
746 853 2.982130 CAGCCAGCTAGACCGGTT 59.018 61.111 9.42 0.87 0.00 4.44
747 854 1.153549 CAGCCAGCTAGACCGGTTC 60.154 63.158 9.42 1.59 0.00 3.62
748 855 1.609501 AGCCAGCTAGACCGGTTCA 60.610 57.895 9.42 0.00 0.00 3.18
749 856 0.978146 AGCCAGCTAGACCGGTTCAT 60.978 55.000 9.42 0.00 0.00 2.57
750 857 0.107654 GCCAGCTAGACCGGTTCATT 60.108 55.000 9.42 0.00 0.00 2.57
751 858 1.679032 GCCAGCTAGACCGGTTCATTT 60.679 52.381 9.42 0.00 0.00 2.32
752 859 2.419574 GCCAGCTAGACCGGTTCATTTA 60.420 50.000 9.42 0.00 0.00 1.40
753 860 3.744530 GCCAGCTAGACCGGTTCATTTAT 60.745 47.826 9.42 0.00 0.00 1.40
754 861 4.451900 CCAGCTAGACCGGTTCATTTATT 58.548 43.478 9.42 0.00 0.00 1.40
755 862 4.511826 CCAGCTAGACCGGTTCATTTATTC 59.488 45.833 9.42 0.00 0.00 1.75
756 863 4.209288 CAGCTAGACCGGTTCATTTATTCG 59.791 45.833 9.42 0.00 0.00 3.34
757 864 4.098960 AGCTAGACCGGTTCATTTATTCGA 59.901 41.667 9.42 0.00 0.00 3.71
758 865 4.444720 GCTAGACCGGTTCATTTATTCGAG 59.555 45.833 9.42 0.00 0.00 4.04
759 866 3.793559 AGACCGGTTCATTTATTCGAGG 58.206 45.455 9.42 0.00 0.00 4.63
760 867 3.449737 AGACCGGTTCATTTATTCGAGGA 59.550 43.478 9.42 0.00 0.00 3.71
761 868 3.528532 ACCGGTTCATTTATTCGAGGAC 58.471 45.455 0.00 0.00 0.00 3.85
762 869 2.538449 CCGGTTCATTTATTCGAGGACG 59.462 50.000 0.00 0.00 41.26 4.79
772 879 3.102515 TCGAGGACGAGCTTTTTCG 57.897 52.632 0.00 0.00 43.81 3.46
773 880 0.388134 TCGAGGACGAGCTTTTTCGG 60.388 55.000 0.00 0.00 44.57 4.30
774 881 0.388134 CGAGGACGAGCTTTTTCGGA 60.388 55.000 0.00 0.00 44.57 4.55
775 882 1.069255 GAGGACGAGCTTTTTCGGAC 58.931 55.000 0.00 0.00 44.57 4.79
776 883 0.666577 AGGACGAGCTTTTTCGGACG 60.667 55.000 0.00 0.00 44.57 4.79
777 884 1.623973 GGACGAGCTTTTTCGGACGG 61.624 60.000 0.00 0.00 44.57 4.79
778 885 0.665369 GACGAGCTTTTTCGGACGGA 60.665 55.000 0.00 0.00 44.57 4.69
779 886 0.666577 ACGAGCTTTTTCGGACGGAG 60.667 55.000 0.00 0.00 44.57 4.63
780 887 1.352156 CGAGCTTTTTCGGACGGAGG 61.352 60.000 0.00 0.00 36.95 4.30
781 888 1.003718 AGCTTTTTCGGACGGAGGG 60.004 57.895 0.00 0.00 0.00 4.30
782 889 1.004200 GCTTTTTCGGACGGAGGGA 60.004 57.895 0.00 0.00 0.00 4.20
783 890 1.019805 GCTTTTTCGGACGGAGGGAG 61.020 60.000 0.00 0.00 0.00 4.30
784 891 0.320697 CTTTTTCGGACGGAGGGAGT 59.679 55.000 0.00 0.00 0.00 3.85
785 892 1.547372 CTTTTTCGGACGGAGGGAGTA 59.453 52.381 0.00 0.00 0.00 2.59
786 893 1.180029 TTTTCGGACGGAGGGAGTAG 58.820 55.000 0.00 0.00 0.00 2.57
787 894 0.682209 TTTCGGACGGAGGGAGTAGG 60.682 60.000 0.00 0.00 0.00 3.18
788 895 2.518825 CGGACGGAGGGAGTAGGG 60.519 72.222 0.00 0.00 0.00 3.53
789 896 3.013631 GGACGGAGGGAGTAGGGA 58.986 66.667 0.00 0.00 0.00 4.20
790 897 1.152715 GGACGGAGGGAGTAGGGAG 60.153 68.421 0.00 0.00 0.00 4.30
791 898 1.152715 GACGGAGGGAGTAGGGAGG 60.153 68.421 0.00 0.00 0.00 4.30
792 899 1.621822 ACGGAGGGAGTAGGGAGGA 60.622 63.158 0.00 0.00 0.00 3.71
793 900 1.219824 ACGGAGGGAGTAGGGAGGAA 61.220 60.000 0.00 0.00 0.00 3.36
794 901 0.032416 CGGAGGGAGTAGGGAGGAAA 60.032 60.000 0.00 0.00 0.00 3.13
795 902 1.796017 GGAGGGAGTAGGGAGGAAAG 58.204 60.000 0.00 0.00 0.00 2.62
796 903 1.008571 GGAGGGAGTAGGGAGGAAAGT 59.991 57.143 0.00 0.00 0.00 2.66
797 904 2.112190 GAGGGAGTAGGGAGGAAAGTG 58.888 57.143 0.00 0.00 0.00 3.16
798 905 0.542333 GGGAGTAGGGAGGAAAGTGC 59.458 60.000 0.00 0.00 0.00 4.40
799 906 0.175989 GGAGTAGGGAGGAAAGTGCG 59.824 60.000 0.00 0.00 0.00 5.34
800 907 0.175989 GAGTAGGGAGGAAAGTGCGG 59.824 60.000 0.00 0.00 0.00 5.69
801 908 1.449778 GTAGGGAGGAAAGTGCGGC 60.450 63.158 0.00 0.00 0.00 6.53
802 909 1.612442 TAGGGAGGAAAGTGCGGCT 60.612 57.895 0.00 0.00 0.00 5.52
803 910 1.198759 TAGGGAGGAAAGTGCGGCTT 61.199 55.000 0.00 0.00 39.52 4.35
804 911 1.198759 AGGGAGGAAAGTGCGGCTTA 61.199 55.000 0.00 0.00 36.17 3.09
805 912 0.107165 GGGAGGAAAGTGCGGCTTAT 60.107 55.000 0.00 0.00 36.17 1.73
806 913 1.017387 GGAGGAAAGTGCGGCTTATG 58.983 55.000 0.00 0.00 36.17 1.90
807 914 1.406887 GGAGGAAAGTGCGGCTTATGA 60.407 52.381 0.00 0.00 36.17 2.15
808 915 2.565841 GAGGAAAGTGCGGCTTATGAT 58.434 47.619 0.00 0.00 36.17 2.45
809 916 2.545946 GAGGAAAGTGCGGCTTATGATC 59.454 50.000 0.00 0.00 36.17 2.92
810 917 2.171448 AGGAAAGTGCGGCTTATGATCT 59.829 45.455 0.00 0.00 36.17 2.75
811 918 3.388024 AGGAAAGTGCGGCTTATGATCTA 59.612 43.478 0.00 0.00 36.17 1.98
812 919 3.495001 GGAAAGTGCGGCTTATGATCTAC 59.505 47.826 0.00 0.00 36.17 2.59
813 920 4.372656 GAAAGTGCGGCTTATGATCTACT 58.627 43.478 0.00 0.00 36.17 2.57
814 921 5.509163 GGAAAGTGCGGCTTATGATCTACTA 60.509 44.000 0.00 0.00 36.17 1.82
815 922 4.775058 AGTGCGGCTTATGATCTACTAG 57.225 45.455 0.00 0.00 0.00 2.57
816 923 4.145807 AGTGCGGCTTATGATCTACTAGT 58.854 43.478 0.00 0.00 0.00 2.57
817 924 5.314529 AGTGCGGCTTATGATCTACTAGTA 58.685 41.667 1.89 1.89 0.00 1.82
818 925 5.768662 AGTGCGGCTTATGATCTACTAGTAA 59.231 40.000 3.76 0.00 0.00 2.24
819 926 6.434652 AGTGCGGCTTATGATCTACTAGTAAT 59.565 38.462 3.76 1.13 0.00 1.89
820 927 7.039644 AGTGCGGCTTATGATCTACTAGTAATT 60.040 37.037 3.76 0.00 0.00 1.40
821 928 7.599245 GTGCGGCTTATGATCTACTAGTAATTT 59.401 37.037 3.76 0.00 0.00 1.82
822 929 7.813148 TGCGGCTTATGATCTACTAGTAATTTC 59.187 37.037 3.76 2.30 0.00 2.17
823 930 7.813148 GCGGCTTATGATCTACTAGTAATTTCA 59.187 37.037 3.76 7.63 0.00 2.69
824 931 9.862371 CGGCTTATGATCTACTAGTAATTTCAT 57.138 33.333 18.47 18.47 0.00 2.57
834 941 8.627403 TCTACTAGTAATTTCATGGAGTAACCG 58.373 37.037 3.76 0.00 42.61 4.44
835 942 6.047231 ACTAGTAATTTCATGGAGTAACCGC 58.953 40.000 0.00 0.00 42.61 5.68
839 946 0.459585 TTCATGGAGTAACCGCGAGC 60.460 55.000 8.23 0.00 42.61 5.03
860 967 5.608449 AGCAAGTAAAAAGTCCTCGTTACT 58.392 37.500 0.00 0.00 38.19 2.24
895 1002 9.715121 TTTAGTAAAAAGTCCTCGTTACATGAT 57.285 29.630 0.00 0.00 0.00 2.45
930 1037 2.820197 GGAACTACAAAAGCCCAGAAGG 59.180 50.000 0.00 0.00 39.47 3.46
940 1047 1.420138 AGCCCAGAAGGAAAGACGAAA 59.580 47.619 0.00 0.00 38.24 3.46
943 1050 3.477530 CCCAGAAGGAAAGACGAAACTT 58.522 45.455 0.00 0.00 38.24 2.66
964 1071 2.045926 GCAACCATCTCACGGCCT 60.046 61.111 0.00 0.00 0.00 5.19
965 1072 1.220749 GCAACCATCTCACGGCCTA 59.779 57.895 0.00 0.00 0.00 3.93
966 1073 0.179045 GCAACCATCTCACGGCCTAT 60.179 55.000 0.00 0.00 0.00 2.57
967 1074 1.070134 GCAACCATCTCACGGCCTATA 59.930 52.381 0.00 0.00 0.00 1.31
968 1075 2.755650 CAACCATCTCACGGCCTATAC 58.244 52.381 0.00 0.00 0.00 1.47
969 1076 2.082140 ACCATCTCACGGCCTATACA 57.918 50.000 0.00 0.00 0.00 2.29
971 1078 2.972713 ACCATCTCACGGCCTATACAAT 59.027 45.455 0.00 0.00 0.00 2.71
981 1088 2.353011 GGCCTATACAATACGCGGCTTA 60.353 50.000 12.47 0.00 37.66 3.09
1046 1165 4.452733 CGTTCACGCCTCTCCCCC 62.453 72.222 0.00 0.00 0.00 5.40
1061 1180 3.983420 CCCCTTTCCAGCCAGCCA 61.983 66.667 0.00 0.00 0.00 4.75
1071 1190 4.025858 GCCAGCCACCAGAGCAGA 62.026 66.667 0.00 0.00 0.00 4.26
1109 1231 2.172505 ACGATGATGTGGGGAATAGCAA 59.827 45.455 0.00 0.00 0.00 3.91
1114 1236 2.124901 TGGGGAATAGCAACCGCG 60.125 61.111 0.00 0.00 45.49 6.46
1281 1418 1.241990 GCTGTTTCGTTTCCTCCCCC 61.242 60.000 0.00 0.00 0.00 5.40
1313 1450 2.357569 CCAATCTTCCCCTCCCAAAGAG 60.358 54.545 0.00 0.00 42.83 2.85
1347 1484 2.067365 GGATAGCAATCCCCGGTTTT 57.933 50.000 0.00 0.00 45.37 2.43
1348 1485 1.681264 GGATAGCAATCCCCGGTTTTG 59.319 52.381 0.00 2.10 45.37 2.44
1349 1486 2.650322 GATAGCAATCCCCGGTTTTGA 58.350 47.619 0.00 0.00 0.00 2.69
1350 1487 2.818751 TAGCAATCCCCGGTTTTGAT 57.181 45.000 0.00 2.35 0.00 2.57
1351 1488 1.937191 AGCAATCCCCGGTTTTGATT 58.063 45.000 0.00 0.12 0.00 2.57
1352 1489 2.256306 AGCAATCCCCGGTTTTGATTT 58.744 42.857 0.00 0.00 0.00 2.17
1353 1490 2.028203 AGCAATCCCCGGTTTTGATTTG 60.028 45.455 0.00 0.00 0.00 2.32
1354 1491 2.934801 GCAATCCCCGGTTTTGATTTGG 60.935 50.000 0.00 0.00 0.00 3.28
1360 1497 2.831526 CCCGGTTTTGATTTGGGATTCT 59.168 45.455 0.00 0.00 42.77 2.40
1385 1522 2.853914 GACGGCGTCTTGAACTGC 59.146 61.111 31.15 3.08 0.00 4.40
1393 1530 2.349532 GCGTCTTGAACTGCTTTGTACC 60.350 50.000 0.00 0.00 0.00 3.34
1396 1533 3.184581 GTCTTGAACTGCTTTGTACCTCG 59.815 47.826 0.00 0.00 0.00 4.63
1422 1562 0.895530 TTTCGCAGGAATCCTCGTCT 59.104 50.000 16.49 0.00 30.88 4.18
1425 1565 0.457851 CGCAGGAATCCTCGTCTTCT 59.542 55.000 0.00 0.00 0.00 2.85
1436 1576 4.222847 GTCTTCTAGCGGCCGGGG 62.223 72.222 29.38 7.30 0.00 5.73
1520 1660 0.894184 TGAAGACTCCGGAAGCTCGT 60.894 55.000 5.23 0.00 0.00 4.18
1528 1668 3.745803 GGAAGCTCGTCCCGTCGT 61.746 66.667 0.00 0.00 0.00 4.34
1678 1820 8.706035 CAAATTTTTGCTAGGACAAATTGAGAG 58.294 33.333 18.24 8.28 39.18 3.20
1683 1825 6.317789 TGCTAGGACAAATTGAGAGTTTTG 57.682 37.500 0.00 0.00 38.49 2.44
1825 1967 2.366266 ACCTGATTTGTTGTGCAAGCAT 59.634 40.909 0.00 0.00 38.47 3.79
1832 1974 1.955080 TGTTGTGCAAGCATGATGTGA 59.045 42.857 0.00 0.00 0.00 3.58
1870 2012 5.509501 CCAAACTTGCCATTCTATGTGTTGT 60.510 40.000 0.00 0.00 0.00 3.32
1955 2097 4.502087 GCTCATATCACATGGCTCAGTGTA 60.502 45.833 0.00 0.00 37.07 2.90
1965 2114 1.363744 GCTCAGTGTATGGAGTGCAC 58.636 55.000 9.40 9.40 42.97 4.57
1977 2126 0.674895 GAGTGCACCCTGTCCATGTC 60.675 60.000 14.63 0.00 0.00 3.06
1980 2129 2.042831 GCACCCTGTCCATGTCTGC 61.043 63.158 0.00 0.00 0.00 4.26
2053 2206 3.056322 GGCTGAATGCTGAAATGGACTTT 60.056 43.478 0.00 0.00 42.39 2.66
2081 2234 4.478206 TGAGACATGATCTTTCAGTCCC 57.522 45.455 0.00 0.00 38.00 4.46
2113 2266 5.105146 CCTGTAGATCAAGCTTAACCACTCT 60.105 44.000 0.00 0.00 0.00 3.24
2162 2315 7.715249 TCGGGAATATCCAAATTAGTCTTCAAG 59.285 37.037 0.00 0.00 38.64 3.02
2181 2334 9.937876 TCTTCAAGTAGAGAAAGGATAGGAATA 57.062 33.333 0.00 0.00 0.00 1.75
2201 2354 7.031975 GGAATATCCTTTGCTGAGTTTTCTTG 58.968 38.462 0.00 0.00 32.53 3.02
2219 2372 3.770040 TGCAGCGGATGTAGCGGT 61.770 61.111 0.00 0.00 40.04 5.68
2220 2373 2.415843 GCAGCGGATGTAGCGGTA 59.584 61.111 0.00 0.00 40.04 4.02
2228 2381 3.311596 GCGGATGTAGCGGTAAAAGATTT 59.688 43.478 0.00 0.00 0.00 2.17
2235 2388 9.865484 GATGTAGCGGTAAAAGATTTTATTCTC 57.135 33.333 0.00 0.00 35.35 2.87
2242 2395 6.257193 GGTAAAAGATTTTATTCTCTCCGCGA 59.743 38.462 8.23 0.00 35.35 5.87
2300 2453 9.495382 AGAGTTCTATTAACATAGACCCTTTCT 57.505 33.333 0.00 0.00 41.05 2.52
2344 2497 6.072783 ACAAAGCAGCAAATCTTTCTCTCTAC 60.073 38.462 0.00 0.00 30.79 2.59
2361 2514 6.042322 TCTCTCTACTCTACTAGCCGATCTTT 59.958 42.308 0.00 0.00 0.00 2.52
2435 2588 9.880157 AAATAATTGTGGAATTGAAGAATGAGG 57.120 29.630 0.00 0.00 33.63 3.86
2439 2592 5.139727 TGTGGAATTGAAGAATGAGGTTGT 58.860 37.500 0.00 0.00 0.00 3.32
2468 2621 2.218759 GTCGACACATCAGACACAACAC 59.781 50.000 11.55 0.00 35.19 3.32
2497 2650 4.170292 CCAGAGCAGTCAAAATTTCTGG 57.830 45.455 4.57 4.57 43.85 3.86
2513 2666 1.841302 CTGGAAGCTAGGCCACACCA 61.841 60.000 5.01 7.29 43.14 4.17
2559 2712 0.679640 CTTACGGCCCCTGAATTGCA 60.680 55.000 0.00 0.00 0.00 4.08
2596 2749 3.369451 GCTTTGGTCTTCTTCTCTTAGCG 59.631 47.826 0.00 0.00 0.00 4.26
2625 2778 2.226437 GTCGCATTTGCTCTCTTTTCCA 59.774 45.455 0.51 0.00 39.32 3.53
2629 2782 4.333649 CGCATTTGCTCTCTTTTCCATAGA 59.666 41.667 0.51 0.00 39.32 1.98
2631 2784 6.623549 CGCATTTGCTCTCTTTTCCATAGAAA 60.624 38.462 0.51 0.00 38.38 2.52
2635 2788 3.242576 GCTCTCTTTTCCATAGAAAGCGC 60.243 47.826 0.00 0.00 42.78 5.92
2636 2789 3.270877 TCTCTTTTCCATAGAAAGCGCC 58.729 45.455 2.29 0.00 42.78 6.53
2639 2792 0.392461 TTTCCATAGAAAGCGCCGCT 60.392 50.000 5.39 5.39 42.56 5.52
2648 2801 4.329545 AGCGCCGCTTTCCCAGAA 62.330 61.111 5.39 0.00 33.89 3.02
2653 2806 1.912371 GCCGCTTTCCCAGAAGAACG 61.912 60.000 0.00 0.00 0.00 3.95
2662 2815 1.673033 CCCAGAAGAACGAGAACGCAT 60.673 52.381 0.00 0.00 43.96 4.73
2663 2816 2.069273 CCAGAAGAACGAGAACGCATT 58.931 47.619 0.00 0.00 43.96 3.56
2666 2819 2.989840 AGAAGAACGAGAACGCATTCAG 59.010 45.455 0.00 0.00 43.96 3.02
2678 2831 1.093159 GCATTCAGACAAGCCTCCAG 58.907 55.000 0.00 0.00 0.00 3.86
2689 2842 2.971598 GCCTCCAGCTTGTAGCCCA 61.972 63.158 0.00 0.00 43.77 5.36
2690 2843 1.222936 CCTCCAGCTTGTAGCCCAG 59.777 63.158 0.00 0.00 43.77 4.45
2691 2844 1.222936 CTCCAGCTTGTAGCCCAGG 59.777 63.158 0.00 0.00 43.77 4.45
2692 2845 2.262774 CTCCAGCTTGTAGCCCAGGG 62.263 65.000 0.00 0.00 43.77 4.45
2693 2846 2.606587 CCAGCTTGTAGCCCAGGGT 61.607 63.158 7.55 0.00 43.77 4.34
2694 2847 1.271840 CCAGCTTGTAGCCCAGGGTA 61.272 60.000 7.55 0.00 43.77 3.69
2695 2848 0.618458 CAGCTTGTAGCCCAGGGTAA 59.382 55.000 7.55 0.00 43.77 2.85
2696 2849 1.004277 CAGCTTGTAGCCCAGGGTAAA 59.996 52.381 7.55 0.00 43.77 2.01
2697 2850 1.708551 AGCTTGTAGCCCAGGGTAAAA 59.291 47.619 7.55 2.99 43.77 1.52
2698 2851 1.816835 GCTTGTAGCCCAGGGTAAAAC 59.183 52.381 7.55 1.04 34.48 2.43
2699 2852 2.816337 GCTTGTAGCCCAGGGTAAAACA 60.816 50.000 7.55 3.84 34.48 2.83
2731 2884 4.861102 AAGGTTATCGGGTTACCTATCG 57.139 45.455 0.00 0.00 41.33 2.92
2737 2890 1.063717 TCGGGTTACCTATCGTCCCTT 60.064 52.381 0.00 0.00 36.30 3.95
2738 2891 1.339291 CGGGTTACCTATCGTCCCTTC 59.661 57.143 0.00 0.00 36.30 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 5.347907 GTGTGTGCAACTAGACTACATTACC 59.652 44.000 0.00 0.00 38.04 2.85
91 92 4.536065 CAACTAAACATCAATGCGTGTGT 58.464 39.130 0.00 0.00 0.00 3.72
117 118 6.568462 GCATATGTGTGTGCAACTAGTCTTTT 60.568 38.462 4.29 0.00 41.57 2.27
150 230 7.713507 TGTGTGCAACTAGACTAAATTACAAGT 59.286 33.333 0.00 0.00 38.04 3.16
181 262 8.730680 CAACTAGTGTTCTGCCAACTAAATATT 58.269 33.333 0.00 0.00 33.52 1.28
197 278 4.083324 GCATATGTGTGTGCAACTAGTGTT 60.083 41.667 4.29 0.00 41.57 3.32
228 309 2.667473 ACTAGACTAAATTGCCGCGT 57.333 45.000 4.92 0.00 0.00 6.01
238 319 8.364894 ACATCAATGTGTGTGTAACTAGACTAA 58.635 33.333 0.00 0.00 40.03 2.24
249 330 5.735922 GCCAACTAAACATCAATGTGTGTGT 60.736 40.000 0.00 0.00 41.61 3.72
293 381 1.009222 GCGCCAACTGAGCATATGC 60.009 57.895 20.36 20.36 42.49 3.14
313 401 5.011125 AGTGTGTGCAACTAGACTAGATTGT 59.989 40.000 16.55 0.00 38.04 2.71
337 427 5.446143 AATCGTGCCAACTAAACATCAAA 57.554 34.783 0.00 0.00 0.00 2.69
414 513 7.690256 AGTCTTCCTACCAACTAACATCAATT 58.310 34.615 0.00 0.00 0.00 2.32
430 530 7.013083 GGATATGTTGACGAACTAGTCTTCCTA 59.987 40.741 0.00 0.00 41.47 2.94
457 557 0.861837 CGAAACTAGATCCCGCATGC 59.138 55.000 7.91 7.91 0.00 4.06
488 588 1.541310 TTCACCGCTGGAATCCTCGT 61.541 55.000 0.00 0.00 0.00 4.18
584 687 8.723311 CATCCTTTTGATGCATGTGTTTTATTT 58.277 29.630 2.46 0.00 44.16 1.40
605 708 3.659183 AAATGTCTGCTTAGCCATCCT 57.341 42.857 0.29 0.00 0.00 3.24
614 717 4.520492 CACCTGGTTCTTAAATGTCTGCTT 59.480 41.667 0.00 0.00 0.00 3.91
615 718 4.074970 CACCTGGTTCTTAAATGTCTGCT 58.925 43.478 0.00 0.00 0.00 4.24
746 853 4.386867 AAGCTCGTCCTCGAATAAATGA 57.613 40.909 0.00 0.00 45.61 2.57
747 854 5.470845 AAAAGCTCGTCCTCGAATAAATG 57.529 39.130 0.00 0.00 45.61 2.32
748 855 5.220416 CGAAAAAGCTCGTCCTCGAATAAAT 60.220 40.000 0.00 0.00 45.61 1.40
749 856 4.090930 CGAAAAAGCTCGTCCTCGAATAAA 59.909 41.667 0.00 0.00 45.61 1.40
750 857 3.611113 CGAAAAAGCTCGTCCTCGAATAA 59.389 43.478 0.00 0.00 45.61 1.40
751 858 3.176708 CGAAAAAGCTCGTCCTCGAATA 58.823 45.455 0.00 0.00 45.61 1.75
752 859 1.993370 CGAAAAAGCTCGTCCTCGAAT 59.007 47.619 0.00 0.00 45.61 3.34
753 860 1.415374 CGAAAAAGCTCGTCCTCGAA 58.585 50.000 0.00 0.00 45.61 3.71
754 861 0.388134 CCGAAAAAGCTCGTCCTCGA 60.388 55.000 0.00 0.00 44.12 4.04
755 862 0.388134 TCCGAAAAAGCTCGTCCTCG 60.388 55.000 0.00 0.00 37.11 4.63
756 863 1.069255 GTCCGAAAAAGCTCGTCCTC 58.931 55.000 0.00 0.00 37.11 3.71
757 864 0.666577 CGTCCGAAAAAGCTCGTCCT 60.667 55.000 0.00 0.00 37.11 3.85
758 865 1.623973 CCGTCCGAAAAAGCTCGTCC 61.624 60.000 0.00 0.00 37.11 4.79
759 866 0.665369 TCCGTCCGAAAAAGCTCGTC 60.665 55.000 0.00 0.00 37.11 4.20
760 867 0.666577 CTCCGTCCGAAAAAGCTCGT 60.667 55.000 0.00 0.00 37.11 4.18
761 868 1.352156 CCTCCGTCCGAAAAAGCTCG 61.352 60.000 0.00 0.00 38.58 5.03
762 869 1.019805 CCCTCCGTCCGAAAAAGCTC 61.020 60.000 0.00 0.00 0.00 4.09
763 870 1.003718 CCCTCCGTCCGAAAAAGCT 60.004 57.895 0.00 0.00 0.00 3.74
764 871 1.004200 TCCCTCCGTCCGAAAAAGC 60.004 57.895 0.00 0.00 0.00 3.51
765 872 0.320697 ACTCCCTCCGTCCGAAAAAG 59.679 55.000 0.00 0.00 0.00 2.27
766 873 1.547372 CTACTCCCTCCGTCCGAAAAA 59.453 52.381 0.00 0.00 0.00 1.94
767 874 1.180029 CTACTCCCTCCGTCCGAAAA 58.820 55.000 0.00 0.00 0.00 2.29
768 875 0.682209 CCTACTCCCTCCGTCCGAAA 60.682 60.000 0.00 0.00 0.00 3.46
769 876 1.077212 CCTACTCCCTCCGTCCGAA 60.077 63.158 0.00 0.00 0.00 4.30
770 877 2.593978 CCTACTCCCTCCGTCCGA 59.406 66.667 0.00 0.00 0.00 4.55
771 878 2.518825 CCCTACTCCCTCCGTCCG 60.519 72.222 0.00 0.00 0.00 4.79
772 879 1.152715 CTCCCTACTCCCTCCGTCC 60.153 68.421 0.00 0.00 0.00 4.79
773 880 1.152715 CCTCCCTACTCCCTCCGTC 60.153 68.421 0.00 0.00 0.00 4.79
774 881 1.219824 TTCCTCCCTACTCCCTCCGT 61.220 60.000 0.00 0.00 0.00 4.69
775 882 0.032416 TTTCCTCCCTACTCCCTCCG 60.032 60.000 0.00 0.00 0.00 4.63
776 883 1.008571 ACTTTCCTCCCTACTCCCTCC 59.991 57.143 0.00 0.00 0.00 4.30
777 884 2.112190 CACTTTCCTCCCTACTCCCTC 58.888 57.143 0.00 0.00 0.00 4.30
778 885 1.902141 GCACTTTCCTCCCTACTCCCT 60.902 57.143 0.00 0.00 0.00 4.20
779 886 0.542333 GCACTTTCCTCCCTACTCCC 59.458 60.000 0.00 0.00 0.00 4.30
780 887 0.175989 CGCACTTTCCTCCCTACTCC 59.824 60.000 0.00 0.00 0.00 3.85
781 888 0.175989 CCGCACTTTCCTCCCTACTC 59.824 60.000 0.00 0.00 0.00 2.59
782 889 1.900545 GCCGCACTTTCCTCCCTACT 61.901 60.000 0.00 0.00 0.00 2.57
783 890 1.449778 GCCGCACTTTCCTCCCTAC 60.450 63.158 0.00 0.00 0.00 3.18
784 891 1.198759 AAGCCGCACTTTCCTCCCTA 61.199 55.000 0.00 0.00 33.71 3.53
785 892 1.198759 TAAGCCGCACTTTCCTCCCT 61.199 55.000 0.00 0.00 39.97 4.20
786 893 0.107165 ATAAGCCGCACTTTCCTCCC 60.107 55.000 0.00 0.00 39.97 4.30
787 894 1.017387 CATAAGCCGCACTTTCCTCC 58.983 55.000 0.00 0.00 39.97 4.30
788 895 2.024176 TCATAAGCCGCACTTTCCTC 57.976 50.000 0.00 0.00 39.97 3.71
789 896 2.171448 AGATCATAAGCCGCACTTTCCT 59.829 45.455 0.00 0.00 39.97 3.36
790 897 2.565841 AGATCATAAGCCGCACTTTCC 58.434 47.619 0.00 0.00 39.97 3.13
791 898 4.372656 AGTAGATCATAAGCCGCACTTTC 58.627 43.478 0.00 0.00 39.97 2.62
792 899 4.408182 AGTAGATCATAAGCCGCACTTT 57.592 40.909 0.00 0.00 39.97 2.66
793 900 4.585162 ACTAGTAGATCATAAGCCGCACTT 59.415 41.667 3.59 0.00 42.76 3.16
794 901 4.145807 ACTAGTAGATCATAAGCCGCACT 58.854 43.478 3.59 0.00 0.00 4.40
795 902 4.506886 ACTAGTAGATCATAAGCCGCAC 57.493 45.455 3.59 0.00 0.00 5.34
796 903 6.835819 ATTACTAGTAGATCATAAGCCGCA 57.164 37.500 3.59 0.00 0.00 5.69
797 904 7.813148 TGAAATTACTAGTAGATCATAAGCCGC 59.187 37.037 3.59 0.00 0.00 6.53
798 905 9.862371 ATGAAATTACTAGTAGATCATAAGCCG 57.138 33.333 18.21 0.00 0.00 5.52
808 915 8.627403 CGGTTACTCCATGAAATTACTAGTAGA 58.373 37.037 3.59 0.00 35.57 2.59
809 916 7.381678 GCGGTTACTCCATGAAATTACTAGTAG 59.618 40.741 2.23 0.00 35.57 2.57
810 917 7.205297 GCGGTTACTCCATGAAATTACTAGTA 58.795 38.462 0.00 0.00 35.57 1.82
811 918 6.047231 GCGGTTACTCCATGAAATTACTAGT 58.953 40.000 0.00 0.00 35.57 2.57
812 919 5.175126 CGCGGTTACTCCATGAAATTACTAG 59.825 44.000 0.00 0.00 35.57 2.57
813 920 5.045215 CGCGGTTACTCCATGAAATTACTA 58.955 41.667 0.00 0.00 35.57 1.82
814 921 3.869246 CGCGGTTACTCCATGAAATTACT 59.131 43.478 0.00 0.00 35.57 2.24
815 922 3.866910 TCGCGGTTACTCCATGAAATTAC 59.133 43.478 6.13 0.00 35.57 1.89
816 923 4.116961 CTCGCGGTTACTCCATGAAATTA 58.883 43.478 6.13 0.00 35.57 1.40
817 924 2.936498 CTCGCGGTTACTCCATGAAATT 59.064 45.455 6.13 0.00 35.57 1.82
818 925 2.550978 CTCGCGGTTACTCCATGAAAT 58.449 47.619 6.13 0.00 35.57 2.17
819 926 2.004583 CTCGCGGTTACTCCATGAAA 57.995 50.000 6.13 0.00 35.57 2.69
820 927 0.459585 GCTCGCGGTTACTCCATGAA 60.460 55.000 6.13 0.00 35.57 2.57
821 928 1.141019 GCTCGCGGTTACTCCATGA 59.859 57.895 6.13 0.00 35.57 3.07
822 929 0.739462 TTGCTCGCGGTTACTCCATG 60.739 55.000 6.13 0.00 35.57 3.66
823 930 0.460284 CTTGCTCGCGGTTACTCCAT 60.460 55.000 6.13 0.00 35.57 3.41
824 931 1.080093 CTTGCTCGCGGTTACTCCA 60.080 57.895 6.13 0.00 35.57 3.86
825 932 0.171903 TACTTGCTCGCGGTTACTCC 59.828 55.000 6.13 0.00 0.00 3.85
826 933 1.986698 TTACTTGCTCGCGGTTACTC 58.013 50.000 6.13 0.00 0.00 2.59
827 934 2.443887 TTTACTTGCTCGCGGTTACT 57.556 45.000 6.13 0.00 0.00 2.24
828 935 3.059393 ACTTTTTACTTGCTCGCGGTTAC 60.059 43.478 6.13 0.00 0.00 2.50
829 936 3.132925 ACTTTTTACTTGCTCGCGGTTA 58.867 40.909 6.13 0.00 0.00 2.85
830 937 1.944709 ACTTTTTACTTGCTCGCGGTT 59.055 42.857 6.13 0.00 0.00 4.44
831 938 1.529865 GACTTTTTACTTGCTCGCGGT 59.470 47.619 6.13 0.00 0.00 5.68
832 939 1.136057 GGACTTTTTACTTGCTCGCGG 60.136 52.381 6.13 0.00 0.00 6.46
833 940 1.798813 AGGACTTTTTACTTGCTCGCG 59.201 47.619 0.00 0.00 0.00 5.87
834 941 2.159827 CGAGGACTTTTTACTTGCTCGC 60.160 50.000 0.00 0.00 42.91 5.03
835 942 3.706994 CGAGGACTTTTTACTTGCTCG 57.293 47.619 0.00 0.00 43.33 5.03
871 978 7.977853 GGATCATGTAACGAGGACTTTTTACTA 59.022 37.037 0.00 0.00 0.00 1.82
874 981 6.070424 AGGGATCATGTAACGAGGACTTTTTA 60.070 38.462 0.00 0.00 0.00 1.52
877 984 3.775316 AGGGATCATGTAACGAGGACTTT 59.225 43.478 0.00 0.00 0.00 2.66
895 1002 2.525629 TTCCGGACTGCACAGGGA 60.526 61.111 1.83 0.00 0.00 4.20
930 1037 1.223187 TGCGGGAAGTTTCGTCTTTC 58.777 50.000 0.00 0.00 0.00 2.62
940 1047 0.321653 GTGAGATGGTTGCGGGAAGT 60.322 55.000 0.00 0.00 0.00 3.01
943 1050 2.264480 CGTGAGATGGTTGCGGGA 59.736 61.111 0.00 0.00 0.00 5.14
1046 1165 2.677875 GGTGGCTGGCTGGAAAGG 60.678 66.667 2.00 0.00 0.00 3.11
1048 1167 2.115910 CTGGTGGCTGGCTGGAAA 59.884 61.111 2.00 0.00 0.00 3.13
1049 1168 2.853542 TCTGGTGGCTGGCTGGAA 60.854 61.111 2.00 0.00 0.00 3.53
1050 1169 3.324930 CTCTGGTGGCTGGCTGGA 61.325 66.667 2.00 0.00 0.00 3.86
1061 1180 0.695347 CTTTCCCCTTCTGCTCTGGT 59.305 55.000 0.00 0.00 0.00 4.00
1068 1187 1.555075 TCGATCCACTTTCCCCTTCTG 59.445 52.381 0.00 0.00 0.00 3.02
1071 1190 0.249398 CGTCGATCCACTTTCCCCTT 59.751 55.000 0.00 0.00 0.00 3.95
1259 1396 1.439679 GGAGGAAACGAAACAGCGAT 58.560 50.000 0.00 0.00 34.83 4.58
1281 1418 0.464554 GAAGATTGGGGGAGAAGGCG 60.465 60.000 0.00 0.00 0.00 5.52
1313 1450 2.367241 GCTATCCAAGGAAGGAGGAGAC 59.633 54.545 0.00 0.00 41.90 3.36
1347 1484 3.199727 TCGTGATCCAGAATCCCAAATCA 59.800 43.478 0.00 0.00 33.01 2.57
1348 1485 3.561725 GTCGTGATCCAGAATCCCAAATC 59.438 47.826 0.00 0.00 33.01 2.17
1349 1486 3.545703 GTCGTGATCCAGAATCCCAAAT 58.454 45.455 0.00 0.00 33.01 2.32
1350 1487 2.676750 CGTCGTGATCCAGAATCCCAAA 60.677 50.000 0.00 0.00 33.01 3.28
1351 1488 1.134818 CGTCGTGATCCAGAATCCCAA 60.135 52.381 0.00 0.00 33.01 4.12
1352 1489 0.459899 CGTCGTGATCCAGAATCCCA 59.540 55.000 0.00 0.00 33.01 4.37
1353 1490 0.249489 CCGTCGTGATCCAGAATCCC 60.249 60.000 0.00 0.00 33.01 3.85
1354 1491 0.876342 GCCGTCGTGATCCAGAATCC 60.876 60.000 0.00 0.00 33.01 3.01
1385 1522 1.512926 AAGCAGCACGAGGTACAAAG 58.487 50.000 0.00 0.00 0.00 2.77
1440 1580 4.736896 AACCTCGGCGCGAACCTC 62.737 66.667 12.10 0.00 34.74 3.85
1506 1646 3.069318 GGGACGAGCTTCCGGAGT 61.069 66.667 3.34 0.00 36.38 3.85
1678 1820 8.656849 GGAAAAGAAGAAGAAAGAAACCAAAAC 58.343 33.333 0.00 0.00 0.00 2.43
1683 1825 6.096987 ACCAGGAAAAGAAGAAGAAAGAAACC 59.903 38.462 0.00 0.00 0.00 3.27
1832 1974 5.127682 GGCAAGTTTGGAGGTGAAATCATAT 59.872 40.000 0.00 0.00 0.00 1.78
1870 2012 3.270027 CCACACACAGAAGACAACAAGA 58.730 45.455 0.00 0.00 0.00 3.02
1955 2097 1.210204 ATGGACAGGGTGCACTCCAT 61.210 55.000 25.15 25.15 36.59 3.41
1965 2114 1.077930 CCAGCAGACATGGACAGGG 60.078 63.158 0.00 0.00 40.51 4.45
1977 2126 2.817844 GTTAGTTTTACCACCCCAGCAG 59.182 50.000 0.00 0.00 0.00 4.24
1980 2129 7.147966 GGAATAATGTTAGTTTTACCACCCCAG 60.148 40.741 0.00 0.00 0.00 4.45
2053 2206 5.723295 TGAAAGATCATGTCTCAACGATCA 58.277 37.500 0.00 0.00 37.36 2.92
2081 2234 0.824109 TTGATCTACAGGCCCTGTCG 59.176 55.000 22.13 15.04 41.21 4.35
2092 2245 7.773149 TCTTAGAGTGGTTAAGCTTGATCTAC 58.227 38.462 9.86 7.40 0.00 2.59
2113 2266 5.392767 AGATGCTTGACTTCGAGTTCTTA 57.607 39.130 0.00 0.00 0.00 2.10
2176 2329 6.765915 AGAAAACTCAGCAAAGGATATTCC 57.234 37.500 0.00 0.00 36.58 3.01
2181 2334 4.500375 GCACAAGAAAACTCAGCAAAGGAT 60.500 41.667 0.00 0.00 0.00 3.24
2201 2354 2.622903 TACCGCTACATCCGCTGCAC 62.623 60.000 0.00 0.00 0.00 4.57
2219 2372 7.926555 AGATCGCGGAGAGAATAAAATCTTTTA 59.073 33.333 6.13 0.00 41.41 1.52
2220 2373 6.763610 AGATCGCGGAGAGAATAAAATCTTTT 59.236 34.615 6.13 0.00 41.41 2.27
2228 2381 5.107182 CGTAACTAGATCGCGGAGAGAATAA 60.107 44.000 6.13 0.00 41.41 1.40
2235 2388 1.865970 AGACGTAACTAGATCGCGGAG 59.134 52.381 6.13 1.12 0.00 4.63
2242 2395 4.888823 GGGAGAGGAAAGACGTAACTAGAT 59.111 45.833 0.00 0.00 0.00 1.98
2300 2453 9.283768 TGCTTTGTTAAAATGATAGAGAGTCAA 57.716 29.630 0.00 0.00 0.00 3.18
2344 2497 5.508200 ACAGAAAAGATCGGCTAGTAGAG 57.492 43.478 0.00 0.00 0.00 2.43
2361 2514 9.992910 CATATTTCAGATCGATTTTCAACAGAA 57.007 29.630 0.00 0.00 0.00 3.02
2422 2575 7.285401 ACAGTTACAACAACCTCATTCTTCAAT 59.715 33.333 0.00 0.00 0.00 2.57
2435 2588 4.269123 TGATGTGTCGACAGTTACAACAAC 59.731 41.667 20.73 10.62 34.87 3.32
2439 2592 4.202070 TGTCTGATGTGTCGACAGTTACAA 60.202 41.667 20.73 0.66 34.97 2.41
2468 2621 0.900421 TGACTGCTCTGGTCTGATGG 59.100 55.000 0.00 0.00 35.04 3.51
2497 2650 0.960861 GGTTGGTGTGGCCTAGCTTC 60.961 60.000 3.32 0.92 37.48 3.86
2513 2666 1.620822 AATGAGGCTTCTTTGCGGTT 58.379 45.000 0.00 0.00 0.00 4.44
2559 2712 2.142292 AAAGCCAAGCACTCGGGGAT 62.142 55.000 0.00 0.00 0.00 3.85
2596 2749 1.859135 GCAAATGCGACGCGTTCTC 60.859 57.895 26.16 16.86 36.71 2.87
2607 2760 5.824904 TCTATGGAAAAGAGAGCAAATGC 57.175 39.130 0.00 0.00 42.49 3.56
2609 2762 6.404074 CGCTTTCTATGGAAAAGAGAGCAAAT 60.404 38.462 13.81 0.00 46.34 2.32
2631 2784 4.329545 TTCTGGGAAAGCGGCGCT 62.330 61.111 31.35 31.35 42.56 5.92
2635 2788 0.320421 TCGTTCTTCTGGGAAAGCGG 60.320 55.000 0.00 0.00 0.00 5.52
2636 2789 1.071605 CTCGTTCTTCTGGGAAAGCG 58.928 55.000 0.00 0.00 0.00 4.68
2639 2792 2.750948 CGTTCTCGTTCTTCTGGGAAA 58.249 47.619 0.00 0.00 0.00 3.13
2648 2801 2.288213 TGTCTGAATGCGTTCTCGTTCT 60.288 45.455 19.09 0.00 39.49 3.01
2653 2806 1.129437 GGCTTGTCTGAATGCGTTCTC 59.871 52.381 19.09 10.26 35.33 2.87
2678 2831 1.816835 GTTTTACCCTGGGCTACAAGC 59.183 52.381 14.08 0.00 41.46 4.01
2689 2842 7.307550 ACCTTATTTTACCCTTGTTTTACCCT 58.692 34.615 0.00 0.00 0.00 4.34
2690 2843 7.543359 ACCTTATTTTACCCTTGTTTTACCC 57.457 36.000 0.00 0.00 0.00 3.69
2694 2847 8.525316 CCGATAACCTTATTTTACCCTTGTTTT 58.475 33.333 0.00 0.00 0.00 2.43
2695 2848 7.123098 CCCGATAACCTTATTTTACCCTTGTTT 59.877 37.037 0.00 0.00 0.00 2.83
2696 2849 6.604396 CCCGATAACCTTATTTTACCCTTGTT 59.396 38.462 0.00 0.00 0.00 2.83
2697 2850 6.124340 CCCGATAACCTTATTTTACCCTTGT 58.876 40.000 0.00 0.00 0.00 3.16
2698 2851 6.124340 ACCCGATAACCTTATTTTACCCTTG 58.876 40.000 0.00 0.00 0.00 3.61
2699 2852 6.331577 ACCCGATAACCTTATTTTACCCTT 57.668 37.500 0.00 0.00 0.00 3.95


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

AutoCloner maintained by Alex Coulton.