Multiple sequence alignment - TraesCS6A01G135800

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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 TraesCS6A01G135800 chr6A 100.000 4382 0 0 1 4382 107241851 107246232 0.000000e+00 8093.0
1 TraesCS6A01G135800 chr6A 78.963 2700 504 42 1529 4209 107214452 107217106 0.000000e+00 1781.0
2 TraesCS6A01G135800 chr6A 79.369 1837 343 25 2515 4341 107270589 107272399 0.000000e+00 1260.0
3 TraesCS6A01G135800 chr6A 77.184 1179 238 25 1489 2656 107269428 107270586 0.000000e+00 658.0
4 TraesCS6A01G135800 chr6D 97.066 3033 85 3 1351 4382 89156087 89159116 0.000000e+00 5105.0
5 TraesCS6A01G135800 chr6D 79.075 2552 474 39 1749 4283 89166894 89169402 0.000000e+00 1700.0
6 TraesCS6A01G135800 chr6D 78.255 2396 478 34 1530 3908 89068451 89070820 0.000000e+00 1498.0
7 TraesCS6A01G135800 chr6D 86.646 1288 93 24 1 1279 89154775 89155992 0.000000e+00 1352.0
8 TraesCS6A01G135800 chr6D 78.807 1458 269 31 2063 3505 89301360 89302792 0.000000e+00 944.0
9 TraesCS6A01G135800 chr6D 92.857 42 1 1 1 42 89154804 89154843 4.730000e-05 60.2
10 TraesCS6A01G135800 chr6B 95.712 3032 123 4 1351 4382 171182533 171185557 0.000000e+00 4872.0
11 TraesCS6A01G135800 chr6B 79.179 2704 496 46 1526 4209 171029191 171031847 0.000000e+00 1812.0
12 TraesCS6A01G135800 chr6B 86.438 1283 93 23 1 1279 171181233 171182438 0.000000e+00 1330.0
13 TraesCS6A01G135800 chr6B 78.170 2098 407 35 1883 3962 171704818 171706882 0.000000e+00 1290.0
14 TraesCS6A01G135800 chr6B 79.919 1728 311 24 2537 4259 171206063 171207759 0.000000e+00 1236.0
15 TraesCS6A01G135800 chr6B 79.103 1182 220 25 1489 2656 171204870 171206038 0.000000e+00 789.0
16 TraesCS6A01G135800 chr6B 94.366 71 4 0 1279 1349 171182413 171182483 4.630000e-20 110.0
17 TraesCS6A01G135800 chr7D 78.027 1561 307 26 2622 4171 634088405 634089940 0.000000e+00 950.0
18 TraesCS6A01G135800 chr7D 75.798 752 155 17 3430 4171 634385363 634384629 5.390000e-94 355.0
19 TraesCS6A01G135800 chr7A 77.632 380 79 2 1541 1914 732158389 732158010 4.410000e-55 226.0


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 TraesCS6A01G135800 chr6A 107241851 107246232 4381 False 8093.0 8093 100.000000 1 4382 1 chr6A.!!$F2 4381
1 TraesCS6A01G135800 chr6A 107214452 107217106 2654 False 1781.0 1781 78.963000 1529 4209 1 chr6A.!!$F1 2680
2 TraesCS6A01G135800 chr6A 107269428 107272399 2971 False 959.0 1260 78.276500 1489 4341 2 chr6A.!!$F3 2852
3 TraesCS6A01G135800 chr6D 89154775 89159116 4341 False 2172.4 5105 92.189667 1 4382 3 chr6D.!!$F4 4381
4 TraesCS6A01G135800 chr6D 89166894 89169402 2508 False 1700.0 1700 79.075000 1749 4283 1 chr6D.!!$F2 2534
5 TraesCS6A01G135800 chr6D 89068451 89070820 2369 False 1498.0 1498 78.255000 1530 3908 1 chr6D.!!$F1 2378
6 TraesCS6A01G135800 chr6D 89301360 89302792 1432 False 944.0 944 78.807000 2063 3505 1 chr6D.!!$F3 1442
7 TraesCS6A01G135800 chr6B 171181233 171185557 4324 False 2104.0 4872 92.172000 1 4382 3 chr6B.!!$F3 4381
8 TraesCS6A01G135800 chr6B 171029191 171031847 2656 False 1812.0 1812 79.179000 1526 4209 1 chr6B.!!$F1 2683
9 TraesCS6A01G135800 chr6B 171704818 171706882 2064 False 1290.0 1290 78.170000 1883 3962 1 chr6B.!!$F2 2079
10 TraesCS6A01G135800 chr6B 171204870 171207759 2889 False 1012.5 1236 79.511000 1489 4259 2 chr6B.!!$F4 2770
11 TraesCS6A01G135800 chr7D 634088405 634089940 1535 False 950.0 950 78.027000 2622 4171 1 chr7D.!!$F1 1549
12 TraesCS6A01G135800 chr7D 634384629 634385363 734 True 355.0 355 75.798000 3430 4171 1 chr7D.!!$R1 741

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
900 907 0.108585 GACAGCAACCTGGAAGTGGA 59.891 55.0 0.00 0.00 43.53 4.02 F
1065 1072 0.255890 ATGGTACGCTCCATGGCTTT 59.744 50.0 6.96 0.00 45.26 3.51 F
2301 2360 0.118346 TCCCAGAGGAGCTTGGGTTA 59.882 55.0 18.75 0.27 42.09 2.85 F
3354 3727 0.661780 GGATTCTCGGACTGCGATCG 60.662 60.0 11.69 11.69 0.00 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1753 1812 1.138266 GGTGTGTAGCGTACCATGGAT 59.862 52.381 21.47 5.32 34.61 3.41 R
3018 3388 0.249447 GTGCCAACTGACAAAAGGCC 60.249 55.000 0.00 0.00 44.60 5.19 R
3380 3753 1.484240 GGGAGAGTTGTGATAGCTGCT 59.516 52.381 7.57 7.57 0.00 4.24 R
4341 4747 4.467198 TTAGCCTGACTAAAGCTACACC 57.533 45.455 0.00 0.00 38.77 4.16 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
113 117 3.256558 TCATGCTTGTCAATGTCTCGAG 58.743 45.455 5.93 5.93 0.00 4.04
117 121 3.742882 TGCTTGTCAATGTCTCGAGAAAG 59.257 43.478 18.55 15.66 0.00 2.62
118 122 3.990469 GCTTGTCAATGTCTCGAGAAAGA 59.010 43.478 18.55 9.80 0.00 2.52
119 123 4.629200 GCTTGTCAATGTCTCGAGAAAGAT 59.371 41.667 18.55 6.86 0.00 2.40
148 153 0.806868 CATGCTTGTCTGCCGATTGT 59.193 50.000 0.00 0.00 0.00 2.71
309 315 2.364186 GCCCATTCCCCAACCCTG 60.364 66.667 0.00 0.00 0.00 4.45
379 385 1.557832 AGGTACGCATTTCTTAGGCCA 59.442 47.619 5.01 0.00 0.00 5.36
381 387 2.548480 GGTACGCATTTCTTAGGCCATC 59.452 50.000 5.01 0.00 0.00 3.51
383 389 2.292267 ACGCATTTCTTAGGCCATCTG 58.708 47.619 5.01 0.00 0.00 2.90
385 391 2.289002 CGCATTTCTTAGGCCATCTGTC 59.711 50.000 5.01 0.00 0.00 3.51
390 396 3.845781 TCTTAGGCCATCTGTCCAATC 57.154 47.619 5.01 0.00 0.00 2.67
393 399 2.725221 AGGCCATCTGTCCAATCTTC 57.275 50.000 5.01 0.00 0.00 2.87
437 443 6.821616 ACAATGGAGAGGAAAGAGATATGT 57.178 37.500 0.00 0.00 0.00 2.29
452 458 6.065374 AGAGATATGTGACCTCGTTATGTCT 58.935 40.000 0.00 0.00 32.67 3.41
457 463 5.907866 TGTGACCTCGTTATGTCTTCATA 57.092 39.130 0.00 0.00 35.70 2.15
463 469 8.471609 TGACCTCGTTATGTCTTCATATGTAAA 58.528 33.333 1.90 0.00 36.57 2.01
464 470 9.309516 GACCTCGTTATGTCTTCATATGTAAAA 57.690 33.333 1.90 0.00 36.57 1.52
465 471 9.095065 ACCTCGTTATGTCTTCATATGTAAAAC 57.905 33.333 1.90 0.00 36.57 2.43
466 472 8.266682 CCTCGTTATGTCTTCATATGTAAAACG 58.733 37.037 1.90 10.15 38.63 3.60
467 473 8.122306 TCGTTATGTCTTCATATGTAAAACGG 57.878 34.615 1.90 0.00 38.22 4.44
468 474 7.223193 TCGTTATGTCTTCATATGTAAAACGGG 59.777 37.037 1.90 0.00 38.22 5.28
469 475 7.517734 CGTTATGTCTTCATATGTAAAACGGGG 60.518 40.741 1.90 0.00 36.12 5.73
470 476 3.942748 TGTCTTCATATGTAAAACGGGGC 59.057 43.478 1.90 0.00 0.00 5.80
471 477 3.942748 GTCTTCATATGTAAAACGGGGCA 59.057 43.478 1.90 0.00 0.00 5.36
472 478 4.035208 GTCTTCATATGTAAAACGGGGCAG 59.965 45.833 1.90 0.00 0.00 4.85
505 511 9.699703 TGGCCGCCTTATTTATTTATTTAATTC 57.300 29.630 11.61 0.00 0.00 2.17
545 552 6.197096 CGAAAGTGAAATTTGTTTGTCTGAGG 59.803 38.462 0.00 0.00 0.00 3.86
546 553 4.936891 AGTGAAATTTGTTTGTCTGAGGC 58.063 39.130 0.00 0.00 0.00 4.70
547 554 4.402155 AGTGAAATTTGTTTGTCTGAGGCA 59.598 37.500 0.00 0.00 0.00 4.75
552 559 3.500448 TTGTTTGTCTGAGGCATGGTA 57.500 42.857 0.00 0.00 0.00 3.25
563 570 6.211584 GTCTGAGGCATGGTATCCTTATCTTA 59.788 42.308 0.00 0.00 31.71 2.10
564 571 6.211584 TCTGAGGCATGGTATCCTTATCTTAC 59.788 42.308 0.00 0.00 31.71 2.34
580 587 5.682234 ATCTTACACATGTGGTCTGATCA 57.318 39.130 28.64 5.55 34.19 2.92
587 594 1.527034 TGTGGTCTGATCAAGCAAGC 58.473 50.000 10.10 1.75 0.00 4.01
605 612 3.679824 AGCTGTTGAACTAGTACACCC 57.320 47.619 0.00 0.00 0.00 4.61
621 628 3.197790 CCCATTCCACGCGCTCTG 61.198 66.667 5.73 0.00 0.00 3.35
627 634 3.414700 CCACGCGCTCTGTTGACC 61.415 66.667 5.73 0.00 0.00 4.02
683 690 1.278985 AGTCACAATCGATTGCCCAGA 59.721 47.619 32.70 22.94 41.38 3.86
689 696 2.947652 CAATCGATTGCCCAGACAGATT 59.052 45.455 24.15 0.00 0.00 2.40
700 707 5.047377 TGCCCAGACAGATTTTAATTTGGTC 60.047 40.000 0.00 0.00 0.00 4.02
710 717 6.492087 AGATTTTAATTTGGTCGTTCTTCCCA 59.508 34.615 0.00 0.00 0.00 4.37
746 753 7.849804 TCTGTAATTCTAAAATCAGTCCAGC 57.150 36.000 0.00 0.00 0.00 4.85
747 754 6.535150 TCTGTAATTCTAAAATCAGTCCAGCG 59.465 38.462 0.00 0.00 0.00 5.18
748 755 5.584649 TGTAATTCTAAAATCAGTCCAGCGG 59.415 40.000 0.00 0.00 0.00 5.52
749 756 3.695830 TTCTAAAATCAGTCCAGCGGT 57.304 42.857 0.00 0.00 0.00 5.68
750 757 2.972625 TCTAAAATCAGTCCAGCGGTG 58.027 47.619 7.86 7.86 0.00 4.94
751 758 2.009774 CTAAAATCAGTCCAGCGGTGG 58.990 52.381 27.73 27.73 46.63 4.61
752 759 1.244019 AAAATCAGTCCAGCGGTGGC 61.244 55.000 28.72 22.08 44.60 5.01
753 760 2.410322 AAATCAGTCCAGCGGTGGCA 62.410 55.000 28.72 14.69 44.60 4.92
754 761 2.202236 AATCAGTCCAGCGGTGGCAT 62.202 55.000 28.72 16.21 44.60 4.40
755 762 2.881539 ATCAGTCCAGCGGTGGCATG 62.882 60.000 28.72 25.86 44.60 4.06
756 763 4.415150 AGTCCAGCGGTGGCATGG 62.415 66.667 28.72 5.04 44.60 3.66
797 804 5.798125 TTGTTTTATCAGGCACATTTGGA 57.202 34.783 0.00 0.00 0.00 3.53
833 840 6.539826 CCTGAGTCACATTATTGTTAGATGCA 59.460 38.462 0.00 0.00 32.34 3.96
835 842 7.330262 TGAGTCACATTATTGTTAGATGCAGA 58.670 34.615 0.00 0.00 32.34 4.26
842 849 8.618677 ACATTATTGTTAGATGCAGACATTCTG 58.381 33.333 0.00 0.00 39.19 3.02
857 864 3.508793 ACATTCTGCCACCTCTCAATTTG 59.491 43.478 0.00 0.00 0.00 2.32
872 879 7.176285 TCTCAATTTGTTTTTGCTAATGTGC 57.824 32.000 0.00 0.00 0.00 4.57
882 889 1.167851 GCTAATGTGCACAGCCAAGA 58.832 50.000 25.84 0.00 0.00 3.02
884 891 2.153645 CTAATGTGCACAGCCAAGACA 58.846 47.619 25.84 0.00 0.00 3.41
885 892 0.956633 AATGTGCACAGCCAAGACAG 59.043 50.000 25.84 0.00 0.00 3.51
886 893 1.521450 ATGTGCACAGCCAAGACAGC 61.521 55.000 25.84 0.00 0.00 4.40
887 894 2.188829 GTGCACAGCCAAGACAGCA 61.189 57.895 13.17 0.00 0.00 4.41
889 896 1.008079 GCACAGCCAAGACAGCAAC 60.008 57.895 0.00 0.00 0.00 4.17
892 899 0.820891 ACAGCCAAGACAGCAACCTG 60.821 55.000 0.00 0.00 44.80 4.00
894 901 1.228245 GCCAAGACAGCAACCTGGA 60.228 57.895 0.00 0.00 43.53 3.86
896 903 1.242076 CCAAGACAGCAACCTGGAAG 58.758 55.000 0.00 0.00 43.53 3.46
897 904 1.477558 CCAAGACAGCAACCTGGAAGT 60.478 52.381 0.00 0.00 43.53 3.01
898 905 1.605710 CAAGACAGCAACCTGGAAGTG 59.394 52.381 0.00 0.00 43.53 3.16
899 906 0.109342 AGACAGCAACCTGGAAGTGG 59.891 55.000 0.00 0.00 43.53 4.00
900 907 0.108585 GACAGCAACCTGGAAGTGGA 59.891 55.000 0.00 0.00 43.53 4.02
901 908 0.550914 ACAGCAACCTGGAAGTGGAA 59.449 50.000 0.00 0.00 43.53 3.53
902 909 1.242076 CAGCAACCTGGAAGTGGAAG 58.758 55.000 0.00 0.00 35.38 3.46
903 910 0.538287 AGCAACCTGGAAGTGGAAGC 60.538 55.000 0.00 0.00 0.00 3.86
904 911 0.823356 GCAACCTGGAAGTGGAAGCA 60.823 55.000 0.00 0.00 0.00 3.91
905 912 0.954452 CAACCTGGAAGTGGAAGCAC 59.046 55.000 0.00 0.00 0.00 4.40
906 913 0.846693 AACCTGGAAGTGGAAGCACT 59.153 50.000 0.00 0.00 36.92 4.40
907 914 1.729586 ACCTGGAAGTGGAAGCACTA 58.270 50.000 0.00 0.00 34.56 2.74
908 915 1.348036 ACCTGGAAGTGGAAGCACTAC 59.652 52.381 0.00 0.00 34.56 2.73
909 916 1.625818 CCTGGAAGTGGAAGCACTACT 59.374 52.381 0.00 0.00 42.02 2.57
910 917 2.354203 CCTGGAAGTGGAAGCACTACTC 60.354 54.545 0.00 0.00 39.36 2.59
911 918 2.564947 CTGGAAGTGGAAGCACTACTCT 59.435 50.000 0.00 0.00 39.36 3.24
912 919 2.300152 TGGAAGTGGAAGCACTACTCTG 59.700 50.000 0.00 0.00 39.36 3.35
913 920 2.563179 GGAAGTGGAAGCACTACTCTGA 59.437 50.000 0.00 0.00 39.36 3.27
914 921 3.196685 GGAAGTGGAAGCACTACTCTGAT 59.803 47.826 0.00 0.00 39.36 2.90
915 922 3.883830 AGTGGAAGCACTACTCTGATG 57.116 47.619 0.00 0.00 35.41 3.07
916 923 2.499289 AGTGGAAGCACTACTCTGATGG 59.501 50.000 0.00 0.00 35.41 3.51
917 924 2.497675 GTGGAAGCACTACTCTGATGGA 59.502 50.000 0.00 0.00 0.00 3.41
918 925 2.762887 TGGAAGCACTACTCTGATGGAG 59.237 50.000 0.00 0.00 46.87 3.86
919 926 2.102252 GGAAGCACTACTCTGATGGAGG 59.898 54.545 0.00 0.00 45.83 4.30
920 927 2.541233 AGCACTACTCTGATGGAGGT 57.459 50.000 0.00 0.00 45.83 3.85
921 928 2.826488 AGCACTACTCTGATGGAGGTT 58.174 47.619 0.00 0.00 45.83 3.50
922 929 3.177228 AGCACTACTCTGATGGAGGTTT 58.823 45.455 0.00 0.00 45.83 3.27
929 936 5.825593 ACTCTGATGGAGGTTTACTTTGA 57.174 39.130 0.00 0.00 45.83 2.69
942 949 5.356426 GTTTACTTTGATTGGTGCCAGTTT 58.644 37.500 0.00 0.00 0.00 2.66
944 951 2.765699 ACTTTGATTGGTGCCAGTTTGT 59.234 40.909 0.00 0.00 0.00 2.83
971 978 0.535335 GTGGTCGATGGCCAACTCTA 59.465 55.000 10.96 0.00 37.81 2.43
975 982 2.205074 GTCGATGGCCAACTCTATGTG 58.795 52.381 10.96 0.00 0.00 3.21
976 983 0.940126 CGATGGCCAACTCTATGTGC 59.060 55.000 10.96 0.00 0.00 4.57
979 986 1.279496 TGGCCAACTCTATGTGCTCT 58.721 50.000 0.61 0.00 0.00 4.09
989 996 2.568956 TCTATGTGCTCTTGGTTCAGCT 59.431 45.455 0.00 0.00 36.53 4.24
990 997 2.283145 ATGTGCTCTTGGTTCAGCTT 57.717 45.000 0.00 0.00 36.53 3.74
1000 1007 1.211703 TGGTTCAGCTTCACCTGTGAA 59.788 47.619 11.86 11.86 46.27 3.18
1022 1029 2.431539 CGCTGTCGTCTGTGTTACC 58.568 57.895 0.00 0.00 0.00 2.85
1028 1035 2.161012 TGTCGTCTGTGTTACCGAGATC 59.839 50.000 0.00 0.00 0.00 2.75
1029 1036 1.741706 TCGTCTGTGTTACCGAGATCC 59.258 52.381 0.00 0.00 0.00 3.36
1030 1037 1.471287 CGTCTGTGTTACCGAGATCCA 59.529 52.381 0.00 0.00 0.00 3.41
1042 1049 1.338337 CGAGATCCACTAACATCCGCT 59.662 52.381 0.00 0.00 0.00 5.52
1053 1060 1.651987 ACATCCGCTTCAATGGTACG 58.348 50.000 0.00 0.00 0.00 3.67
1061 1068 1.942657 CTTCAATGGTACGCTCCATGG 59.057 52.381 4.97 4.97 46.14 3.66
1065 1072 0.255890 ATGGTACGCTCCATGGCTTT 59.744 50.000 6.96 0.00 45.26 3.51
1070 1077 0.328258 ACGCTCCATGGCTTTTACCT 59.672 50.000 6.96 0.00 0.00 3.08
1086 1093 4.953940 TTACCTTGCAGCTTTCCAAAAT 57.046 36.364 0.00 0.00 0.00 1.82
1097 1104 4.221482 AGCTTTCCAAAATCTCATCAACCC 59.779 41.667 0.00 0.00 0.00 4.11
1104 1111 5.466393 CCAAAATCTCATCAACCCAAACAAC 59.534 40.000 0.00 0.00 0.00 3.32
1116 1123 4.502962 ACCCAAACAACAACAATCTTGTG 58.497 39.130 0.00 0.00 41.31 3.33
1121 1128 2.472816 CAACAACAATCTTGTGGGTGC 58.527 47.619 2.67 0.00 42.38 5.01
1127 1134 1.779061 AATCTTGTGGGTGCCGTCCT 61.779 55.000 0.00 0.00 0.00 3.85
1136 1143 0.591659 GGTGCCGTCCTTGAAAACTC 59.408 55.000 0.00 0.00 0.00 3.01
1141 1148 3.004315 TGCCGTCCTTGAAAACTCATTTC 59.996 43.478 0.00 0.00 46.30 2.17
1180 1188 5.620738 AGTACATAAGCTCACATCCACAT 57.379 39.130 0.00 0.00 0.00 3.21
1205 1213 4.298332 GCAAACTAACATGAAGGGTTGTG 58.702 43.478 0.00 2.73 0.00 3.33
1207 1215 2.514803 ACTAACATGAAGGGTTGTGCC 58.485 47.619 0.00 0.00 0.00 5.01
1225 1233 3.550275 GTGCCCGTTTTTCTTTCTTTGTC 59.450 43.478 0.00 0.00 0.00 3.18
1238 1246 5.656416 TCTTTCTTTGTCACATTTTGGAGGT 59.344 36.000 0.00 0.00 0.00 3.85
1241 1249 5.441500 TCTTTGTCACATTTTGGAGGTACA 58.558 37.500 0.00 0.00 0.00 2.90
1255 1263 4.219944 TGGAGGTACAGTGAACTGACATAC 59.780 45.833 17.11 8.87 46.59 2.39
1256 1264 4.219944 GGAGGTACAGTGAACTGACATACA 59.780 45.833 17.11 0.00 46.59 2.29
1257 1265 5.105310 GGAGGTACAGTGAACTGACATACAT 60.105 44.000 17.11 6.96 46.59 2.29
1258 1266 6.096423 GGAGGTACAGTGAACTGACATACATA 59.904 42.308 17.11 0.00 46.59 2.29
1259 1267 7.101652 AGGTACAGTGAACTGACATACATAG 57.898 40.000 17.11 0.00 46.59 2.23
1260 1268 6.663953 AGGTACAGTGAACTGACATACATAGT 59.336 38.462 17.11 0.00 46.59 2.12
1261 1269 6.973474 GGTACAGTGAACTGACATACATAGTC 59.027 42.308 17.11 0.00 46.59 2.59
1262 1270 6.590234 ACAGTGAACTGACATACATAGTCA 57.410 37.500 17.11 0.00 46.59 3.41
1270 1278 5.438761 TGACATACATAGTCAGTCATCGG 57.561 43.478 0.00 0.00 40.80 4.18
1271 1279 4.887655 TGACATACATAGTCAGTCATCGGT 59.112 41.667 0.00 0.00 40.80 4.69
1272 1280 5.359860 TGACATACATAGTCAGTCATCGGTT 59.640 40.000 0.00 0.00 40.80 4.44
1273 1281 6.544564 TGACATACATAGTCAGTCATCGGTTA 59.455 38.462 0.00 0.00 40.80 2.85
1274 1282 7.230712 TGACATACATAGTCAGTCATCGGTTAT 59.769 37.037 0.00 0.00 40.80 1.89
1275 1283 7.371159 ACATACATAGTCAGTCATCGGTTATG 58.629 38.462 0.00 0.00 36.88 1.90
1276 1284 7.230712 ACATACATAGTCAGTCATCGGTTATGA 59.769 37.037 0.00 0.00 42.48 2.15
1315 1323 3.488721 CGGTTATGACCTTACTGGAGACG 60.489 52.174 4.98 0.00 44.20 4.18
1327 1335 9.369406 ACCTTACTGGAGACGACTAGTCACTTA 62.369 44.444 22.37 12.11 45.06 2.24
1337 1345 5.104610 ACGACTAGTCACTTACCTATGAGGA 60.105 44.000 22.37 0.00 37.67 3.71
1349 1357 2.575279 CCTATGAGGATGGGAATCAGGG 59.425 54.545 0.00 0.00 37.67 4.45
1369 1425 1.889530 CTCCCACGACCCCAGTTCTC 61.890 65.000 0.00 0.00 0.00 2.87
1386 1442 4.072131 GTTCTCAAGTCTTTGCACCCATA 58.928 43.478 0.00 0.00 34.21 2.74
1387 1443 4.574674 TCTCAAGTCTTTGCACCCATAT 57.425 40.909 0.00 0.00 34.21 1.78
1520 1576 4.306600 CTTGCCATTTTCTTACCAACACC 58.693 43.478 0.00 0.00 0.00 4.16
1606 1662 0.965439 CAAGGCAATCAACCCCGAAA 59.035 50.000 0.00 0.00 0.00 3.46
1753 1812 1.228429 CACCTTTCCGGCTTTGGGA 60.228 57.895 0.00 0.00 35.61 4.37
1771 1830 1.411246 GGATCCATGGTACGCTACACA 59.589 52.381 12.58 0.00 0.00 3.72
1788 1847 1.001293 CACACCTTCTACTCTGCTGCA 59.999 52.381 0.88 0.88 0.00 4.41
1915 1974 1.003580 ACAATCTTGTCGGTGCCATCT 59.996 47.619 0.00 0.00 36.50 2.90
1927 1986 0.824109 TGCCATCTCCTACCAACTCG 59.176 55.000 0.00 0.00 0.00 4.18
2084 2143 5.649395 CACAATTCATCCTCAACTACACCAT 59.351 40.000 0.00 0.00 0.00 3.55
2148 2207 3.197766 CAGGGCTGTTACCAGATTCACTA 59.802 47.826 0.00 0.00 41.50 2.74
2211 2270 6.645827 CAGCTAATGGATTCTCTAGTGTGATG 59.354 42.308 0.00 0.00 0.00 3.07
2301 2360 0.118346 TCCCAGAGGAGCTTGGGTTA 59.882 55.000 18.75 0.27 42.09 2.85
2475 2535 2.825836 GGGCACTTGGATCTGGCG 60.826 66.667 0.00 0.00 33.80 5.69
2853 3205 3.372349 CCATCAGATCCAACCACCTTGAT 60.372 47.826 0.00 0.00 30.42 2.57
2947 3299 6.395629 ACGGGTATCATTCCTAATATTGACG 58.604 40.000 0.00 0.00 0.00 4.35
2990 3351 8.192110 TGTCAAGGTGGTAAAAGATAAAAACAC 58.808 33.333 0.00 0.00 0.00 3.32
2991 3352 8.192110 GTCAAGGTGGTAAAAGATAAAAACACA 58.808 33.333 0.00 0.00 0.00 3.72
3034 3404 1.068333 CATCGGCCTTTTGTCAGTTGG 60.068 52.381 0.00 0.00 0.00 3.77
3233 3606 3.222603 ACTTTACAGGTTGCTTTCCAGG 58.777 45.455 0.00 0.00 0.00 4.45
3354 3727 0.661780 GGATTCTCGGACTGCGATCG 60.662 60.000 11.69 11.69 0.00 3.69
3371 3744 4.270084 GCGATCGAACATGTTCTATGGAAA 59.730 41.667 30.45 11.53 37.44 3.13
3380 3753 9.793259 GAACATGTTCTATGGAAATATTCCCTA 57.207 33.333 27.66 1.02 41.43 3.53
4171 4574 7.108847 ACAGAAAGTTATGAGGAAGATGAAGG 58.891 38.462 0.00 0.00 0.00 3.46
4296 4701 4.092968 CCAGTACGCTCAAGAATTACCAAC 59.907 45.833 0.00 0.00 0.00 3.77
4341 4747 6.677781 TTCAAGGTTCTAGACAAGTTTGTG 57.322 37.500 1.62 0.00 42.43 3.33
4359 4765 2.289444 TGTGGTGTAGCTTTAGTCAGGC 60.289 50.000 0.00 0.00 0.00 4.85
4376 4782 3.072330 TCAGGCTAATGGTTTGTGTCTCA 59.928 43.478 0.00 0.00 0.00 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 1.971695 CGGCCTCCCTCAAAACACC 60.972 63.158 0.00 0.00 0.00 4.16
35 36 2.656973 CCCAAAACACCGTTGCGC 60.657 61.111 0.00 0.00 0.00 6.09
36 37 2.026879 CCCCAAAACACCGTTGCG 59.973 61.111 0.00 0.00 0.00 4.85
113 117 9.852091 AGACAAGCATGAAGATTTTTATCTTTC 57.148 29.630 0.00 0.00 40.67 2.62
117 121 6.474751 GGCAGACAAGCATGAAGATTTTTATC 59.525 38.462 0.00 0.00 35.83 1.75
118 122 6.335777 GGCAGACAAGCATGAAGATTTTTAT 58.664 36.000 0.00 0.00 35.83 1.40
119 123 5.619757 CGGCAGACAAGCATGAAGATTTTTA 60.620 40.000 0.00 0.00 35.83 1.52
217 223 2.132089 TTTTGGTAGGGGGTGCTCCG 62.132 60.000 0.00 0.00 36.01 4.63
335 341 4.273257 GAGACTCCTAGCCGCGGC 62.273 72.222 42.34 42.34 42.33 6.53
338 344 2.494530 CCCAGAGACTCCTAGCCGC 61.495 68.421 0.00 0.00 0.00 6.53
379 385 5.113446 AGCAGATTGAAGATTGGACAGAT 57.887 39.130 0.00 0.00 0.00 2.90
381 387 4.458295 ACAAGCAGATTGAAGATTGGACAG 59.542 41.667 5.14 0.00 41.83 3.51
383 389 5.382618 AACAAGCAGATTGAAGATTGGAC 57.617 39.130 5.14 0.00 41.83 4.02
411 417 7.566879 ACATATCTCTTTCCTCTCCATTGTACT 59.433 37.037 0.00 0.00 0.00 2.73
412 418 7.655328 CACATATCTCTTTCCTCTCCATTGTAC 59.345 40.741 0.00 0.00 0.00 2.90
437 443 6.465439 ACATATGAAGACATAACGAGGTCA 57.535 37.500 10.38 0.00 41.46 4.02
452 458 4.223556 TCTGCCCCGTTTTACATATGAA 57.776 40.909 10.38 0.00 0.00 2.57
457 463 3.080300 TGAATCTGCCCCGTTTTACAT 57.920 42.857 0.00 0.00 0.00 2.29
463 469 1.322538 GCCAATGAATCTGCCCCGTT 61.323 55.000 0.00 0.00 0.00 4.44
464 470 1.754234 GCCAATGAATCTGCCCCGT 60.754 57.895 0.00 0.00 0.00 5.28
465 471 2.492773 GGCCAATGAATCTGCCCCG 61.493 63.158 0.00 0.00 37.94 5.73
466 472 2.492773 CGGCCAATGAATCTGCCCC 61.493 63.158 2.24 0.00 40.87 5.80
467 473 3.122850 CGGCCAATGAATCTGCCC 58.877 61.111 2.24 0.00 40.87 5.36
468 474 2.414594 GCGGCCAATGAATCTGCC 59.585 61.111 2.24 0.00 40.54 4.85
469 475 1.669999 AAGGCGGCCAATGAATCTGC 61.670 55.000 23.09 0.00 0.00 4.26
470 476 1.679139 TAAGGCGGCCAATGAATCTG 58.321 50.000 23.09 0.00 0.00 2.90
471 477 2.664402 ATAAGGCGGCCAATGAATCT 57.336 45.000 23.09 0.00 0.00 2.40
472 478 3.733443 AAATAAGGCGGCCAATGAATC 57.267 42.857 23.09 0.00 0.00 2.52
505 511 2.671396 ACTTTCGTAGTAGCAATTGCCG 59.329 45.455 26.45 21.00 43.38 5.69
510 516 7.871853 ACAAATTTCACTTTCGTAGTAGCAAT 58.128 30.769 0.00 0.00 34.56 3.56
511 517 7.254227 ACAAATTTCACTTTCGTAGTAGCAA 57.746 32.000 0.00 0.00 34.56 3.91
512 518 6.854496 ACAAATTTCACTTTCGTAGTAGCA 57.146 33.333 0.00 0.00 34.56 3.49
513 519 7.642586 ACAAACAAATTTCACTTTCGTAGTAGC 59.357 33.333 0.00 0.00 34.56 3.58
514 520 9.155053 GACAAACAAATTTCACTTTCGTAGTAG 57.845 33.333 0.00 0.00 34.56 2.57
545 552 6.936900 ACATGTGTAAGATAAGGATACCATGC 59.063 38.462 0.00 0.00 34.79 4.06
546 553 7.388776 CCACATGTGTAAGATAAGGATACCATG 59.611 40.741 23.79 0.00 36.01 3.66
547 554 7.072454 ACCACATGTGTAAGATAAGGATACCAT 59.928 37.037 23.79 0.00 37.17 3.55
552 559 6.384015 TCAGACCACATGTGTAAGATAAGGAT 59.616 38.462 23.79 0.00 0.00 3.24
563 570 2.224597 TGCTTGATCAGACCACATGTGT 60.225 45.455 23.79 12.31 0.00 3.72
564 571 2.429478 TGCTTGATCAGACCACATGTG 58.571 47.619 19.31 19.31 0.00 3.21
580 587 4.511826 GTGTACTAGTTCAACAGCTTGCTT 59.488 41.667 0.00 0.00 0.00 3.91
587 594 4.553330 ATGGGGTGTACTAGTTCAACAG 57.447 45.455 17.97 0.00 0.00 3.16
605 612 2.034879 AACAGAGCGCGTGGAATGG 61.035 57.895 8.43 0.00 0.00 3.16
621 628 0.671251 TGCACAAATTCCCGGTCAAC 59.329 50.000 0.00 0.00 0.00 3.18
627 634 1.247567 AAGGAGTGCACAAATTCCCG 58.752 50.000 21.04 0.00 0.00 5.14
683 690 7.368059 GGAAGAACGACCAAATTAAAATCTGT 58.632 34.615 0.00 0.00 0.00 3.41
689 696 4.278919 GGTGGGAAGAACGACCAAATTAAA 59.721 41.667 0.00 0.00 35.77 1.52
700 707 3.611766 ACTAATCAGGTGGGAAGAACG 57.388 47.619 0.00 0.00 0.00 3.95
737 744 3.321648 ATGCCACCGCTGGACTGA 61.322 61.111 0.00 0.00 40.55 3.41
738 745 3.129502 CATGCCACCGCTGGACTG 61.130 66.667 0.00 0.00 40.55 3.51
739 746 4.415150 CCATGCCACCGCTGGACT 62.415 66.667 0.00 0.00 40.55 3.85
751 758 0.670162 ATCGTAGCAAATGGCCATGC 59.330 50.000 21.63 21.53 46.50 4.06
752 759 3.752747 TGATATCGTAGCAAATGGCCATG 59.247 43.478 21.63 11.00 46.50 3.66
753 760 4.019792 TGATATCGTAGCAAATGGCCAT 57.980 40.909 14.09 14.09 46.50 4.40
754 761 3.483808 TGATATCGTAGCAAATGGCCA 57.516 42.857 8.56 8.56 46.50 5.36
755 762 4.216257 ACAATGATATCGTAGCAAATGGCC 59.784 41.667 0.00 0.00 46.50 5.36
756 763 5.362556 ACAATGATATCGTAGCAAATGGC 57.637 39.130 0.00 0.00 45.30 4.40
757 764 9.897744 ATAAAACAATGATATCGTAGCAAATGG 57.102 29.630 0.00 0.00 0.00 3.16
807 814 6.017605 GCATCTAACAATAATGTGACTCAGGG 60.018 42.308 0.00 0.00 40.46 4.45
833 840 1.649321 TGAGAGGTGGCAGAATGTCT 58.351 50.000 0.00 0.00 44.57 3.41
835 842 3.446442 AATTGAGAGGTGGCAGAATGT 57.554 42.857 0.00 0.00 39.31 2.71
842 849 3.248363 GCAAAAACAAATTGAGAGGTGGC 59.752 43.478 0.00 0.00 0.00 5.01
847 854 7.042590 TGCACATTAGCAAAAACAAATTGAGAG 60.043 33.333 0.00 0.00 42.46 3.20
872 879 0.820891 AGGTTGCTGTCTTGGCTGTG 60.821 55.000 0.00 0.00 0.00 3.66
882 889 0.550914 TTCCACTTCCAGGTTGCTGT 59.449 50.000 0.00 0.00 0.00 4.40
884 891 0.538287 GCTTCCACTTCCAGGTTGCT 60.538 55.000 0.00 0.00 0.00 3.91
885 892 0.823356 TGCTTCCACTTCCAGGTTGC 60.823 55.000 0.00 0.00 0.00 4.17
886 893 0.954452 GTGCTTCCACTTCCAGGTTG 59.046 55.000 0.00 0.00 38.93 3.77
887 894 3.421567 GTGCTTCCACTTCCAGGTT 57.578 52.632 0.00 0.00 38.93 3.50
894 901 7.080012 CTCCATCAGAGTAGTGCTTCCACTT 62.080 48.000 1.32 0.00 42.54 3.16
896 903 2.497675 TCCATCAGAGTAGTGCTTCCAC 59.502 50.000 0.00 0.00 42.39 4.02
897 904 2.762887 CTCCATCAGAGTAGTGCTTCCA 59.237 50.000 0.00 0.00 37.87 3.53
898 905 2.102252 CCTCCATCAGAGTAGTGCTTCC 59.898 54.545 0.00 0.00 41.47 3.46
899 906 2.763448 ACCTCCATCAGAGTAGTGCTTC 59.237 50.000 0.00 0.00 41.47 3.86
900 907 2.826488 ACCTCCATCAGAGTAGTGCTT 58.174 47.619 0.00 0.00 41.47 3.91
901 908 2.541233 ACCTCCATCAGAGTAGTGCT 57.459 50.000 0.00 0.00 41.47 4.40
902 909 3.618690 AAACCTCCATCAGAGTAGTGC 57.381 47.619 0.00 0.00 41.47 4.40
903 910 5.923733 AGTAAACCTCCATCAGAGTAGTG 57.076 43.478 0.00 0.00 41.47 2.74
904 911 6.497259 TCAAAGTAAACCTCCATCAGAGTAGT 59.503 38.462 0.00 0.00 41.47 2.73
905 912 6.936279 TCAAAGTAAACCTCCATCAGAGTAG 58.064 40.000 0.00 0.00 41.47 2.57
906 913 6.928348 TCAAAGTAAACCTCCATCAGAGTA 57.072 37.500 0.00 0.00 41.47 2.59
907 914 5.825593 TCAAAGTAAACCTCCATCAGAGT 57.174 39.130 0.00 0.00 41.47 3.24
908 915 6.094603 CCAATCAAAGTAAACCTCCATCAGAG 59.905 42.308 0.00 0.00 42.83 3.35
909 916 5.945784 CCAATCAAAGTAAACCTCCATCAGA 59.054 40.000 0.00 0.00 0.00 3.27
910 917 5.711976 ACCAATCAAAGTAAACCTCCATCAG 59.288 40.000 0.00 0.00 0.00 2.90
911 918 5.476599 CACCAATCAAAGTAAACCTCCATCA 59.523 40.000 0.00 0.00 0.00 3.07
912 919 5.622233 GCACCAATCAAAGTAAACCTCCATC 60.622 44.000 0.00 0.00 0.00 3.51
913 920 4.220602 GCACCAATCAAAGTAAACCTCCAT 59.779 41.667 0.00 0.00 0.00 3.41
914 921 3.572255 GCACCAATCAAAGTAAACCTCCA 59.428 43.478 0.00 0.00 0.00 3.86
915 922 3.056821 GGCACCAATCAAAGTAAACCTCC 60.057 47.826 0.00 0.00 0.00 4.30
916 923 3.572255 TGGCACCAATCAAAGTAAACCTC 59.428 43.478 0.00 0.00 0.00 3.85
917 924 3.571590 TGGCACCAATCAAAGTAAACCT 58.428 40.909 0.00 0.00 0.00 3.50
918 925 3.320826 ACTGGCACCAATCAAAGTAAACC 59.679 43.478 0.00 0.00 0.00 3.27
919 926 4.584327 ACTGGCACCAATCAAAGTAAAC 57.416 40.909 0.00 0.00 0.00 2.01
920 927 5.105146 ACAAACTGGCACCAATCAAAGTAAA 60.105 36.000 0.00 0.00 0.00 2.01
921 928 4.404073 ACAAACTGGCACCAATCAAAGTAA 59.596 37.500 0.00 0.00 0.00 2.24
922 929 3.957497 ACAAACTGGCACCAATCAAAGTA 59.043 39.130 0.00 0.00 0.00 2.24
929 936 1.412343 GGACAACAAACTGGCACCAAT 59.588 47.619 0.00 0.00 0.00 3.16
942 949 3.844741 TCGACCACGAGGACAACA 58.155 55.556 5.68 0.00 43.81 3.33
971 978 2.157738 GAAGCTGAACCAAGAGCACAT 58.842 47.619 0.00 0.00 37.70 3.21
975 982 0.877743 GGTGAAGCTGAACCAAGAGC 59.122 55.000 12.20 0.00 36.41 4.09
976 983 2.149578 CAGGTGAAGCTGAACCAAGAG 58.850 52.381 17.88 3.97 39.05 2.85
979 986 1.211703 TCACAGGTGAAGCTGAACCAA 59.788 47.619 15.97 1.09 39.05 3.67
990 997 0.392706 ACAGCGTCATTCACAGGTGA 59.607 50.000 0.00 0.00 37.91 4.02
1004 1011 1.334992 CGGTAACACAGACGACAGCG 61.335 60.000 0.00 0.00 44.79 5.18
1007 1014 1.596603 TCTCGGTAACACAGACGACA 58.403 50.000 0.00 0.00 0.00 4.35
1012 1019 2.803956 AGTGGATCTCGGTAACACAGA 58.196 47.619 0.00 0.00 34.65 3.41
1022 1029 1.338337 AGCGGATGTTAGTGGATCTCG 59.662 52.381 0.00 0.00 0.00 4.04
1028 1035 2.355756 CCATTGAAGCGGATGTTAGTGG 59.644 50.000 0.00 0.00 0.00 4.00
1029 1036 3.009723 ACCATTGAAGCGGATGTTAGTG 58.990 45.455 0.00 0.00 0.00 2.74
1030 1037 3.350219 ACCATTGAAGCGGATGTTAGT 57.650 42.857 0.00 0.00 0.00 2.24
1042 1049 2.016604 GCCATGGAGCGTACCATTGAA 61.017 52.381 18.40 0.00 47.00 2.69
1053 1060 1.134995 GCAAGGTAAAAGCCATGGAGC 60.135 52.381 18.40 3.32 0.00 4.70
1070 1077 4.281435 TGATGAGATTTTGGAAAGCTGCAA 59.719 37.500 1.02 0.00 0.00 4.08
1086 1093 4.019858 TGTTGTTGTTTGGGTTGATGAGA 58.980 39.130 0.00 0.00 0.00 3.27
1097 1104 4.329528 CACCCACAAGATTGTTGTTGTTTG 59.670 41.667 0.00 0.00 37.24 2.93
1104 1111 0.039256 CGGCACCCACAAGATTGTTG 60.039 55.000 0.00 0.00 39.91 3.33
1116 1123 0.822121 AGTTTTCAAGGACGGCACCC 60.822 55.000 0.00 0.00 0.00 4.61
1121 1128 3.568007 TGGAAATGAGTTTTCAAGGACGG 59.432 43.478 1.05 0.00 44.67 4.79
1163 1171 2.750807 GCCCATGTGGATGTGAGCTTAT 60.751 50.000 0.00 0.00 37.39 1.73
1180 1188 2.158385 ACCCTTCATGTTAGTTTGCCCA 60.158 45.455 0.00 0.00 0.00 5.36
1205 1213 3.550275 GTGACAAAGAAAGAAAAACGGGC 59.450 43.478 0.00 0.00 0.00 6.13
1207 1215 6.885735 AATGTGACAAAGAAAGAAAAACGG 57.114 33.333 0.00 0.00 0.00 4.44
1225 1233 4.821805 AGTTCACTGTACCTCCAAAATGTG 59.178 41.667 0.00 0.00 0.00 3.21
1238 1246 7.696992 TGACTATGTATGTCAGTTCACTGTA 57.303 36.000 6.84 0.00 44.12 2.74
1269 1277 5.339008 TGACTGACTATGTGGTCATAACC 57.661 43.478 0.00 0.00 43.94 2.85
1270 1278 5.687730 CGATGACTGACTATGTGGTCATAAC 59.312 44.000 7.30 0.00 45.59 1.89
1271 1279 5.221244 CCGATGACTGACTATGTGGTCATAA 60.221 44.000 7.30 0.00 45.59 1.90
1272 1280 4.278419 CCGATGACTGACTATGTGGTCATA 59.722 45.833 7.30 0.00 45.59 2.15
1274 1282 2.427095 CCGATGACTGACTATGTGGTCA 59.573 50.000 0.00 0.00 42.96 4.02
1275 1283 2.427453 ACCGATGACTGACTATGTGGTC 59.573 50.000 0.00 0.00 36.81 4.02
1276 1284 2.457598 ACCGATGACTGACTATGTGGT 58.542 47.619 0.00 0.00 0.00 4.16
1277 1285 3.526931 AACCGATGACTGACTATGTGG 57.473 47.619 0.00 0.00 0.00 4.17
1315 1323 6.207810 CCATCCTCATAGGTAAGTGACTAGTC 59.792 46.154 16.32 16.32 36.53 2.59
1327 1335 3.254960 CCTGATTCCCATCCTCATAGGT 58.745 50.000 0.00 0.00 36.53 3.08
1331 1339 0.776176 GCCCTGATTCCCATCCTCAT 59.224 55.000 0.00 0.00 0.00 2.90
1349 1357 3.607370 GAACTGGGGTCGTGGGAGC 62.607 68.421 0.00 0.00 39.95 4.70
1364 1420 2.297701 TGGGTGCAAAGACTTGAGAAC 58.702 47.619 0.00 0.00 34.14 3.01
1365 1421 2.727123 TGGGTGCAAAGACTTGAGAA 57.273 45.000 0.00 0.00 34.14 2.87
1369 1425 6.205464 CAGGTATATATGGGTGCAAAGACTTG 59.795 42.308 0.00 0.00 35.49 3.16
1386 1442 4.524714 AGTGCTATCGCTGAACAGGTATAT 59.475 41.667 3.99 0.00 36.97 0.86
1387 1443 3.889538 AGTGCTATCGCTGAACAGGTATA 59.110 43.478 3.99 0.00 36.97 1.47
1408 1464 9.457110 TTGCACAAAAGTACAAATATGTTGTAG 57.543 29.630 0.00 3.46 41.05 2.74
1520 1576 3.065786 CAGTACCATTGCAGCAGGTTATG 59.934 47.826 11.42 4.84 36.87 1.90
1606 1662 1.478510 CCATCGGAGTAGTGCTTCAGT 59.521 52.381 0.00 0.00 0.00 3.41
1753 1812 1.138266 GGTGTGTAGCGTACCATGGAT 59.862 52.381 21.47 5.32 34.61 3.41
1771 1830 2.432510 GGTATGCAGCAGAGTAGAAGGT 59.567 50.000 0.00 0.00 0.00 3.50
1788 1847 8.492782 AGTTTGATCTTGATGAGATTCTGGTAT 58.507 33.333 0.00 0.00 45.17 2.73
1842 1901 3.355378 CAACAGGGATATGTTTGCTGGA 58.645 45.455 0.00 0.00 41.41 3.86
1915 1974 1.192146 AGCTTGCCGAGTTGGTAGGA 61.192 55.000 0.34 0.00 41.21 2.94
1927 1986 3.067742 TCGACTAGTATTGGTAGCTTGCC 59.932 47.826 0.00 0.00 0.00 4.52
2301 2360 2.180276 AGAACTCGCAATCCAGGTACT 58.820 47.619 0.00 0.00 43.88 2.73
2475 2535 5.582689 AACTTCCAAATAGCTGGTTATGC 57.417 39.130 0.00 0.00 37.74 3.14
2520 2580 4.081406 CAATGAACCAGGACATTCCTTGA 58.919 43.478 11.66 0.00 46.91 3.02
2990 3351 4.491676 CAATTCTCCCATGAAGCTGTTTG 58.508 43.478 0.00 0.00 0.00 2.93
2991 3352 3.056322 GCAATTCTCCCATGAAGCTGTTT 60.056 43.478 0.00 0.00 0.00 2.83
3018 3388 0.249447 GTGCCAACTGACAAAAGGCC 60.249 55.000 0.00 0.00 44.60 5.19
3233 3606 3.544244 GCGTCTGAAGTTCTTCAACACAC 60.544 47.826 14.76 9.03 34.60 3.82
3371 3744 5.545723 AGTTGTGATAGCTGCTAGGGAATAT 59.454 40.000 15.41 0.00 0.00 1.28
3380 3753 1.484240 GGGAGAGTTGTGATAGCTGCT 59.516 52.381 7.57 7.57 0.00 4.24
4171 4574 7.177568 TGGACAGCTTTCTATACCTCAGATATC 59.822 40.741 0.00 0.00 0.00 1.63
4296 4701 5.371115 AACAAAATATGTCCACTGGAACG 57.629 39.130 0.00 0.00 42.99 3.95
4341 4747 4.467198 TTAGCCTGACTAAAGCTACACC 57.533 45.455 0.00 0.00 38.77 4.16


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

AutoCloner maintained by Alex Coulton.