Multiple sequence alignment - TraesCS5A01G492600

Loading Multiple Alignment...

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 TraesCS5A01G492600 chr5A 100.000 2426 0 0 1 2426 661665662 661668087 0.000000e+00 4481
1 TraesCS5A01G492600 chr5A 88.506 261 30 0 593 853 538850940 538850680 1.400000e-82 316
2 TraesCS5A01G492600 chr5A 80.120 332 50 12 996 1320 662053019 662052697 1.450000e-57 233
3 TraesCS5A01G492600 chr5A 89.865 148 11 4 1088 1234 435475897 435476041 1.150000e-43 187
4 TraesCS5A01G492600 chr5A 78.676 272 41 12 1000 1259 662064160 662063894 5.370000e-37 165
5 TraesCS5A01G492600 chr4B 92.936 1543 88 8 889 2426 610244592 610243066 0.000000e+00 2226
6 TraesCS5A01G492600 chr4B 94.082 490 25 4 1 489 610245207 610244721 0.000000e+00 741
7 TraesCS5A01G492600 chr4B 79.760 998 129 36 956 1914 610098257 610097294 0.000000e+00 656
8 TraesCS5A01G492600 chr4B 91.803 122 10 0 1088 1209 609575166 609575287 1.150000e-38 171
9 TraesCS5A01G492600 chr4B 90.909 77 6 1 2062 2138 610092181 610092106 4.270000e-18 102
10 TraesCS5A01G492600 chr3D 86.087 345 38 5 1 335 534166270 534165926 1.770000e-96 363
11 TraesCS5A01G492600 chr3D 89.272 261 28 0 593 853 106316766 106316506 6.470000e-86 327
12 TraesCS5A01G492600 chr5B 89.272 261 28 0 593 853 633283694 633283954 6.470000e-86 327
13 TraesCS5A01G492600 chr5B 88.889 261 29 0 593 853 528378916 528379176 3.010000e-84 322
14 TraesCS5A01G492600 chr5B 82.041 245 31 10 1088 1327 390524026 390524262 1.900000e-46 196
15 TraesCS5A01G492600 chr5B 81.633 245 32 10 1088 1327 390403161 390403397 8.850000e-45 191
16 TraesCS5A01G492600 chr5D 88.931 262 28 1 593 853 508089777 508089516 3.010000e-84 322
17 TraesCS5A01G492600 chr5D 88.506 261 30 0 593 853 549921537 549921277 1.400000e-82 316
18 TraesCS5A01G492600 chr5D 82.041 245 31 9 1088 1327 333979031 333979267 1.900000e-46 196
19 TraesCS5A01G492600 chr3A 88.931 262 28 1 593 853 735847480 735847219 3.010000e-84 322
20 TraesCS5A01G492600 chr2D 88.889 261 29 0 593 853 405816342 405816082 3.010000e-84 322
21 TraesCS5A01G492600 chr2B 88.506 261 30 0 593 853 540993585 540993325 1.400000e-82 316
22 TraesCS5A01G492600 chr4A 89.922 129 11 2 1088 1214 684061116 684060988 5.370000e-37 165


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 TraesCS5A01G492600 chr5A 661665662 661668087 2425 False 4481.0 4481 100.000 1 2426 1 chr5A.!!$F2 2425
1 TraesCS5A01G492600 chr4B 610243066 610245207 2141 True 1483.5 2226 93.509 1 2426 2 chr4B.!!$R3 2425
2 TraesCS5A01G492600 chr4B 610097294 610098257 963 True 656.0 656 79.760 956 1914 1 chr4B.!!$R2 958

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
884 914 0.035317 CAGTTCTGTGCCCAGTGCTA 59.965 55.0 0.0 0.0 42.0 3.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1966 2037 0.035458 GGTGTTGCAGTGCTCCTACT 59.965 55.0 17.6 0.0 0.0 2.57 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 50 1.026718 GGATGAGCCAGAACCAACCG 61.027 60.000 0.00 0.00 36.34 4.44
52 53 1.227853 GAGCCAGAACCAACCGTGT 60.228 57.895 0.00 0.00 0.00 4.49
109 110 2.488952 GCCGGAGATGAGAAAATCCTC 58.511 52.381 5.05 0.00 0.00 3.71
118 119 2.637872 TGAGAAAATCCTCGTCCAGGTT 59.362 45.455 0.00 0.00 43.95 3.50
142 143 0.179034 GAGATGACATCCAGTGGGCC 60.179 60.000 9.92 0.00 0.00 5.80
234 236 3.357079 GCACCTGTGGGACTTGCG 61.357 66.667 0.00 0.00 36.25 4.85
241 243 3.961414 TGGGACTTGCGTTCCCCC 61.961 66.667 13.19 4.65 42.91 5.40
242 244 3.961414 GGGACTTGCGTTCCCCCA 61.961 66.667 5.90 0.00 37.73 4.96
243 245 2.671963 GGACTTGCGTTCCCCCAC 60.672 66.667 0.00 0.00 0.00 4.61
244 246 2.112297 GACTTGCGTTCCCCCACA 59.888 61.111 0.00 0.00 0.00 4.17
458 460 1.679153 TCGGTGAAAAAGACTTTGGCC 59.321 47.619 0.06 0.00 0.00 5.36
459 461 1.407258 CGGTGAAAAAGACTTTGGCCA 59.593 47.619 0.00 0.00 0.00 5.36
481 483 4.227134 CCTGGCCTCGACATCCCG 62.227 72.222 3.32 0.00 0.00 5.14
482 484 4.899239 CTGGCCTCGACATCCCGC 62.899 72.222 3.32 0.00 0.00 6.13
517 547 0.109039 CAAATTAACGCCCAACCCCG 60.109 55.000 0.00 0.00 0.00 5.73
549 579 8.628630 AAAGAAGAAGCAAATTAAGACTAGCT 57.371 30.769 0.00 0.00 0.00 3.32
550 580 9.726438 AAAGAAGAAGCAAATTAAGACTAGCTA 57.274 29.630 0.00 0.00 0.00 3.32
551 581 9.898152 AAGAAGAAGCAAATTAAGACTAGCTAT 57.102 29.630 0.00 0.00 0.00 2.97
557 587 9.853177 AAGCAAATTAAGACTAGCTATAATGGT 57.147 29.630 0.00 0.00 0.00 3.55
558 588 9.853177 AGCAAATTAAGACTAGCTATAATGGTT 57.147 29.630 0.00 0.00 0.00 3.67
585 615 9.354673 AGTAATATAAAGTAGTAACTACCCGCA 57.645 33.333 0.00 0.00 37.65 5.69
586 616 9.965824 GTAATATAAAGTAGTAACTACCCGCAA 57.034 33.333 0.00 0.00 37.65 4.85
588 618 9.889128 AATATAAAGTAGTAACTACCCGCAAAA 57.111 29.630 0.00 0.00 37.65 2.44
589 619 9.889128 ATATAAAGTAGTAACTACCCGCAAAAA 57.111 29.630 0.00 0.00 37.65 1.94
615 645 9.914834 AAATAAAATAGAGTAGTAACATGGGCA 57.085 29.630 0.00 0.00 0.00 5.36
617 647 7.807977 AAAATAGAGTAGTAACATGGGCATG 57.192 36.000 0.00 0.00 44.15 4.06
631 661 5.858381 CATGGGCATGTTACTACTCTATGT 58.142 41.667 0.00 0.00 34.23 2.29
632 662 5.950544 TGGGCATGTTACTACTCTATGTT 57.049 39.130 0.00 0.00 0.00 2.71
633 663 7.441836 CATGGGCATGTTACTACTCTATGTTA 58.558 38.462 0.00 0.00 34.23 2.41
634 664 6.812998 TGGGCATGTTACTACTCTATGTTAC 58.187 40.000 0.00 0.00 0.00 2.50
635 665 6.610020 TGGGCATGTTACTACTCTATGTTACT 59.390 38.462 0.00 0.00 0.00 2.24
636 666 7.781219 TGGGCATGTTACTACTCTATGTTACTA 59.219 37.037 0.00 0.00 0.00 1.82
637 667 8.081025 GGGCATGTTACTACTCTATGTTACTAC 58.919 40.741 0.00 0.00 0.00 2.73
638 668 8.081025 GGCATGTTACTACTCTATGTTACTACC 58.919 40.741 0.00 0.00 0.00 3.18
639 669 8.848182 GCATGTTACTACTCTATGTTACTACCT 58.152 37.037 0.00 0.00 0.00 3.08
649 679 9.709495 ACTCTATGTTACTACCTCTATAACGAG 57.291 37.037 0.00 0.00 32.53 4.18
664 694 8.687292 TCTATAACGAGGAGTAACATATGTGT 57.313 34.615 9.63 2.63 41.28 3.72
665 695 9.783081 TCTATAACGAGGAGTAACATATGTGTA 57.217 33.333 9.63 1.65 37.67 2.90
667 697 6.770746 AACGAGGAGTAACATATGTGTAGT 57.229 37.500 9.63 7.05 37.67 2.73
668 698 7.870509 AACGAGGAGTAACATATGTGTAGTA 57.129 36.000 9.63 0.00 37.67 1.82
669 699 7.870509 ACGAGGAGTAACATATGTGTAGTAA 57.129 36.000 9.63 0.00 37.67 2.24
670 700 7.701445 ACGAGGAGTAACATATGTGTAGTAAC 58.299 38.462 9.63 1.91 37.67 2.50
671 701 7.337689 ACGAGGAGTAACATATGTGTAGTAACA 59.662 37.037 9.63 0.00 37.67 2.41
672 702 8.350722 CGAGGAGTAACATATGTGTAGTAACAT 58.649 37.037 9.63 0.00 43.21 2.71
673 703 9.464714 GAGGAGTAACATATGTGTAGTAACATG 57.535 37.037 9.63 0.00 40.93 3.21
674 704 7.926555 AGGAGTAACATATGTGTAGTAACATGC 59.073 37.037 9.63 0.00 40.93 4.06
675 705 7.709182 GGAGTAACATATGTGTAGTAACATGCA 59.291 37.037 9.63 0.00 40.93 3.96
676 706 9.093970 GAGTAACATATGTGTAGTAACATGCAA 57.906 33.333 9.63 0.00 40.93 4.08
677 707 9.613428 AGTAACATATGTGTAGTAACATGCAAT 57.387 29.630 9.63 0.00 40.93 3.56
706 736 8.998277 TTAAGTATTAGGCTGTAGACTCATCT 57.002 34.615 0.00 0.00 39.15 2.90
707 737 7.906199 AAGTATTAGGCTGTAGACTCATCTT 57.094 36.000 0.00 0.00 36.29 2.40
708 738 8.998277 AAGTATTAGGCTGTAGACTCATCTTA 57.002 34.615 0.00 0.00 36.29 2.10
709 739 9.594936 AAGTATTAGGCTGTAGACTCATCTTAT 57.405 33.333 0.00 0.00 36.29 1.73
710 740 9.238368 AGTATTAGGCTGTAGACTCATCTTATC 57.762 37.037 0.00 0.00 36.29 1.75
711 741 9.238368 GTATTAGGCTGTAGACTCATCTTATCT 57.762 37.037 0.00 0.00 36.29 1.98
712 742 8.719645 ATTAGGCTGTAGACTCATCTTATCTT 57.280 34.615 0.00 0.00 36.29 2.40
713 743 9.815306 ATTAGGCTGTAGACTCATCTTATCTTA 57.185 33.333 0.00 0.00 36.29 2.10
714 744 9.642343 TTAGGCTGTAGACTCATCTTATCTTAA 57.358 33.333 0.00 0.00 36.29 1.85
715 745 8.719645 AGGCTGTAGACTCATCTTATCTTAAT 57.280 34.615 0.00 0.00 36.29 1.40
716 746 9.815306 AGGCTGTAGACTCATCTTATCTTAATA 57.185 33.333 0.00 0.00 36.29 0.98
735 765 9.098355 TCTTAATATGTGTGATGTTACTCAAGC 57.902 33.333 0.00 0.00 0.00 4.01
736 766 9.102757 CTTAATATGTGTGATGTTACTCAAGCT 57.897 33.333 0.00 0.00 0.00 3.74
738 768 8.654230 AATATGTGTGATGTTACTCAAGCTAG 57.346 34.615 0.00 0.00 0.00 3.42
739 769 5.468540 TGTGTGATGTTACTCAAGCTAGT 57.531 39.130 0.00 0.00 0.00 2.57
740 770 6.584185 TGTGTGATGTTACTCAAGCTAGTA 57.416 37.500 0.00 0.00 0.00 1.82
741 771 6.621613 TGTGTGATGTTACTCAAGCTAGTAG 58.378 40.000 0.00 0.00 33.62 2.57
742 772 6.208797 TGTGTGATGTTACTCAAGCTAGTAGT 59.791 38.462 0.00 0.00 33.62 2.73
743 773 7.392393 TGTGTGATGTTACTCAAGCTAGTAGTA 59.608 37.037 0.00 0.00 33.62 1.82
744 774 8.242053 GTGTGATGTTACTCAAGCTAGTAGTAA 58.758 37.037 10.03 10.03 33.62 2.24
764 794 7.772332 AGTAACTAGCTATGTTAACACATGC 57.228 36.000 11.22 14.67 43.92 4.06
765 795 7.327975 AGTAACTAGCTATGTTAACACATGCA 58.672 34.615 22.60 12.67 43.92 3.96
766 796 7.987458 AGTAACTAGCTATGTTAACACATGCAT 59.013 33.333 22.60 0.00 43.92 3.96
767 797 6.851222 ACTAGCTATGTTAACACATGCATC 57.149 37.500 22.60 6.81 43.92 3.91
768 798 6.586344 ACTAGCTATGTTAACACATGCATCT 58.414 36.000 22.60 11.97 43.92 2.90
769 799 7.050377 ACTAGCTATGTTAACACATGCATCTT 58.950 34.615 22.60 10.75 43.92 2.40
770 800 6.764308 AGCTATGTTAACACATGCATCTTT 57.236 33.333 22.60 4.70 43.92 2.52
771 801 7.161773 AGCTATGTTAACACATGCATCTTTT 57.838 32.000 22.60 4.28 43.92 2.27
772 802 7.605449 AGCTATGTTAACACATGCATCTTTTT 58.395 30.769 22.60 4.12 43.92 1.94
773 803 7.756722 AGCTATGTTAACACATGCATCTTTTTC 59.243 33.333 22.60 0.00 43.92 2.29
774 804 7.756722 GCTATGTTAACACATGCATCTTTTTCT 59.243 33.333 11.22 0.00 43.92 2.52
775 805 9.630098 CTATGTTAACACATGCATCTTTTTCTT 57.370 29.630 11.22 0.00 43.92 2.52
776 806 7.928908 TGTTAACACATGCATCTTTTTCTTC 57.071 32.000 3.59 0.00 0.00 2.87
777 807 7.487484 TGTTAACACATGCATCTTTTTCTTCA 58.513 30.769 3.59 0.00 0.00 3.02
778 808 8.143193 TGTTAACACATGCATCTTTTTCTTCAT 58.857 29.630 3.59 0.00 0.00 2.57
779 809 8.981647 GTTAACACATGCATCTTTTTCTTCATT 58.018 29.630 0.00 0.00 0.00 2.57
780 810 9.545105 TTAACACATGCATCTTTTTCTTCATTT 57.455 25.926 0.00 0.00 0.00 2.32
782 812 9.715121 AACACATGCATCTTTTTCTTCATTTAT 57.285 25.926 0.00 0.00 0.00 1.40
783 813 9.715121 ACACATGCATCTTTTTCTTCATTTATT 57.285 25.926 0.00 0.00 0.00 1.40
784 814 9.967245 CACATGCATCTTTTTCTTCATTTATTG 57.033 29.630 0.00 0.00 0.00 1.90
785 815 9.715121 ACATGCATCTTTTTCTTCATTTATTGT 57.285 25.926 0.00 0.00 0.00 2.71
850 880 8.423906 ACTATCTATATTACTTCCACTGTGGG 57.576 38.462 25.67 13.63 38.32 4.61
851 881 8.011290 ACTATCTATATTACTTCCACTGTGGGT 58.989 37.037 25.67 18.45 38.32 4.51
852 882 9.529823 CTATCTATATTACTTCCACTGTGGGTA 57.470 37.037 25.67 17.47 38.32 3.69
853 883 8.792830 ATCTATATTACTTCCACTGTGGGTAA 57.207 34.615 25.67 23.77 38.32 2.85
854 884 8.246430 TCTATATTACTTCCACTGTGGGTAAG 57.754 38.462 25.67 22.81 38.32 2.34
855 885 8.063153 TCTATATTACTTCCACTGTGGGTAAGA 58.937 37.037 26.20 22.39 38.32 2.10
866 896 2.294074 GTGGGTAAGAGTGCAACAACA 58.706 47.619 0.00 0.00 41.43 3.33
872 902 4.260784 GGTAAGAGTGCAACAACAGTTCTG 60.261 45.833 0.00 0.00 41.43 3.02
876 906 0.455410 TGCAACAACAGTTCTGTGCC 59.545 50.000 6.22 0.00 0.00 5.01
880 910 0.255890 ACAACAGTTCTGTGCCCAGT 59.744 50.000 6.22 0.00 39.82 4.00
881 911 0.664761 CAACAGTTCTGTGCCCAGTG 59.335 55.000 6.22 0.00 39.82 3.66
882 912 1.103398 AACAGTTCTGTGCCCAGTGC 61.103 55.000 6.22 0.00 39.82 4.40
883 913 1.228063 CAGTTCTGTGCCCAGTGCT 60.228 57.895 0.00 0.00 42.00 4.40
884 914 0.035317 CAGTTCTGTGCCCAGTGCTA 59.965 55.000 0.00 0.00 42.00 3.49
885 915 0.764890 AGTTCTGTGCCCAGTGCTAA 59.235 50.000 0.00 0.00 42.00 3.09
886 916 1.142870 AGTTCTGTGCCCAGTGCTAAA 59.857 47.619 0.00 0.00 42.00 1.85
887 917 1.266989 GTTCTGTGCCCAGTGCTAAAC 59.733 52.381 0.00 0.00 42.00 2.01
913 943 5.296035 GCTAGCCGTGTATTTAATCCTTTGT 59.704 40.000 2.29 0.00 0.00 2.83
919 949 6.685403 CCGTGTATTTAATCCTTTGTTTAGCG 59.315 38.462 0.00 0.00 0.00 4.26
951 981 3.530265 TCTGGTCGACTCTCTACTCTC 57.470 52.381 16.46 0.00 0.00 3.20
952 982 3.101437 TCTGGTCGACTCTCTACTCTCT 58.899 50.000 16.46 0.00 0.00 3.10
953 983 4.279982 TCTGGTCGACTCTCTACTCTCTA 58.720 47.826 16.46 0.00 0.00 2.43
954 984 4.340097 TCTGGTCGACTCTCTACTCTCTAG 59.660 50.000 16.46 0.00 0.00 2.43
1027 1057 4.933064 CGACCGGCGAGCAGGATC 62.933 72.222 20.40 12.43 44.57 3.36
1028 1058 3.838271 GACCGGCGAGCAGGATCA 61.838 66.667 20.40 0.00 35.27 2.92
1029 1059 3.781770 GACCGGCGAGCAGGATCAG 62.782 68.421 20.40 0.00 35.27 2.90
1030 1060 4.598894 CCGGCGAGCAGGATCAGG 62.599 72.222 9.30 0.00 32.98 3.86
1058 1088 1.421646 CAACCTTGAACTCACCCTCCT 59.578 52.381 0.00 0.00 0.00 3.69
1069 1099 2.201490 CCCTCCTCATCCCGGCTA 59.799 66.667 0.00 0.00 0.00 3.93
1124 1154 1.200948 GTACTGCGACCGTAAGTTCCT 59.799 52.381 5.51 0.00 0.00 3.36
1264 1294 2.039624 AGGATGAGGGCCAGACGT 59.960 61.111 6.18 0.00 0.00 4.34
1281 1311 3.479203 TGGTATGGCGGCAGAGGG 61.479 66.667 19.29 0.00 0.00 4.30
1462 1510 2.070039 CCTGATCCCGGCCCAGTTA 61.070 63.158 0.00 0.00 0.00 2.24
1514 1565 2.452813 CGCGCTGTTTCGGTATGCT 61.453 57.895 5.56 0.00 0.00 3.79
1515 1566 1.143373 CGCGCTGTTTCGGTATGCTA 61.143 55.000 5.56 0.00 0.00 3.49
1516 1567 1.217882 GCGCTGTTTCGGTATGCTAT 58.782 50.000 0.00 0.00 0.00 2.97
1522 1573 4.448060 GCTGTTTCGGTATGCTATAAGGTC 59.552 45.833 0.00 0.00 0.00 3.85
1534 1585 5.978814 TGCTATAAGGTCTTCTTTCCTGAC 58.021 41.667 0.00 0.00 36.93 3.51
1553 1604 7.394016 TCCTGACACATATGTACTTGTGAAAT 58.606 34.615 22.42 7.78 44.74 2.17
1655 1707 2.833794 TCCTTGACCAGAAAGAACGTG 58.166 47.619 0.00 0.00 0.00 4.49
1687 1739 4.920376 ACATTTATTCATTCGAAAGCCGG 58.080 39.130 0.00 0.00 39.14 6.13
1691 1743 1.898902 TTCATTCGAAAGCCGGGAAA 58.101 45.000 2.18 0.00 39.14 3.13
1708 1760 6.383415 CCGGGAAATTTCGATTTCTTGTTTA 58.617 36.000 11.95 0.00 39.72 2.01
1735 1793 9.539825 CTCAGTTCTATTGTTCTATGTATGCTT 57.460 33.333 0.00 0.00 0.00 3.91
1736 1794 9.890629 TCAGTTCTATTGTTCTATGTATGCTTT 57.109 29.630 0.00 0.00 0.00 3.51
1738 1796 9.890629 AGTTCTATTGTTCTATGTATGCTTTCA 57.109 29.630 0.00 0.00 0.00 2.69
1874 1942 7.695869 AACAGCTAGTTCGTATATACAAAGC 57.304 36.000 13.22 12.01 34.74 3.51
1901 1972 3.932822 TGCACGTATACAACCAGTCAAT 58.067 40.909 3.32 0.00 0.00 2.57
1954 2025 3.594134 GAGAAGCTAGCATCTTGTGTGT 58.406 45.455 22.42 0.00 0.00 3.72
1955 2026 4.382040 GGAGAAGCTAGCATCTTGTGTGTA 60.382 45.833 22.42 0.00 0.00 2.90
1966 2037 5.066375 GCATCTTGTGTGTATGATTTGGCTA 59.934 40.000 0.00 0.00 0.00 3.93
1968 2039 5.804639 TCTTGTGTGTATGATTTGGCTAGT 58.195 37.500 0.00 0.00 0.00 2.57
1978 2049 3.118629 TGATTTGGCTAGTAGGAGCACTG 60.119 47.826 0.00 0.00 44.76 3.66
2033 2104 6.323482 TCCTCTGAAATTTCCACATTTGAACA 59.677 34.615 15.48 0.00 0.00 3.18
2034 2105 6.421801 CCTCTGAAATTTCCACATTTGAACAC 59.578 38.462 15.48 0.00 0.00 3.32
2037 2108 7.277539 TCTGAAATTTCCACATTTGAACACAAC 59.722 33.333 15.48 0.00 0.00 3.32
2089 2160 9.872721 ATGAATGTAAAACATGCACATATCAAA 57.127 25.926 2.81 0.00 46.26 2.69
2181 2256 3.508840 GGTGGCCCTCGCAAATCG 61.509 66.667 0.00 0.00 36.38 3.34
2200 2275 4.298744 TCGAAGTGCATCATCTCTAGTG 57.701 45.455 0.00 0.00 0.00 2.74
2201 2276 3.696548 TCGAAGTGCATCATCTCTAGTGT 59.303 43.478 0.00 0.00 0.00 3.55
2215 2290 4.700692 TCTCTAGTGTGTTGAGTATTCGCT 59.299 41.667 0.00 0.00 0.00 4.93
2228 2303 5.641636 TGAGTATTCGCTAGACATTTTTGCA 59.358 36.000 0.00 0.00 0.00 4.08
2230 2305 6.489675 AGTATTCGCTAGACATTTTTGCATG 58.510 36.000 0.00 0.00 0.00 4.06
2245 2320 4.963276 TTGCATGCTAATTACACCACTC 57.037 40.909 20.33 0.00 0.00 3.51
2247 2322 4.525996 TGCATGCTAATTACACCACTCAT 58.474 39.130 20.33 0.00 0.00 2.90
2248 2323 4.949238 TGCATGCTAATTACACCACTCATT 59.051 37.500 20.33 0.00 0.00 2.57
2261 2336 5.010922 ACACCACTCATTGCAAAATACACAT 59.989 36.000 1.71 0.00 0.00 3.21
2287 2362 5.896922 TTGTGCGTTGGACATTTATTTTG 57.103 34.783 0.00 0.00 0.00 2.44
2335 2410 4.966850 ATGAAACACTTGTCTACGAACG 57.033 40.909 0.00 0.00 0.00 3.95
2343 2418 2.305252 TGTCTACGAACGAACTGACG 57.695 50.000 0.14 0.00 39.31 4.35
2349 2424 1.364901 GAACGAACTGACGGGGTCA 59.635 57.895 0.00 0.00 40.50 4.02
2382 2457 4.451096 TCTCTCAGTAAACAACAATTCGGC 59.549 41.667 0.00 0.00 0.00 5.54
2388 2463 0.591170 AACAACAATTCGGCGTGGAG 59.409 50.000 6.85 0.00 0.00 3.86
2391 2466 0.872388 AACAATTCGGCGTGGAGTTC 59.128 50.000 6.85 0.00 0.00 3.01
2407 2482 3.686726 GGAGTTCTGAGCACACCAATAAG 59.313 47.826 0.00 0.00 0.00 1.73
2417 2492 3.317993 GCACACCAATAAGACAAACCTGT 59.682 43.478 0.00 0.00 38.98 4.00
2422 2497 7.594758 CACACCAATAAGACAAACCTGTATTTG 59.405 37.037 0.00 0.00 43.81 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 3.285484 CTTGATTTCTCCCTGGTCCATG 58.715 50.000 0.00 0.00 0.00 3.66
49 50 2.899153 TCGCCATCGATATGCACAC 58.101 52.632 16.53 0.00 40.21 3.82
88 89 1.141858 AGGATTTTCTCATCTCCGGCC 59.858 52.381 0.00 0.00 32.87 6.13
109 110 3.019003 ATCTCCGGCAACCTGGACG 62.019 63.158 0.00 0.00 0.00 4.79
118 119 0.977627 ACTGGATGTCATCTCCGGCA 60.978 55.000 12.54 1.22 42.05 5.69
171 172 4.424711 TCATGGAGCCAACCCGCC 62.425 66.667 0.00 0.00 0.00 6.13
177 179 3.950794 GACGCCGTCATGGAGCCAA 62.951 63.158 13.23 0.00 42.11 4.52
278 280 1.153369 CGGGTCAATCTCCACGCAT 60.153 57.895 0.00 0.00 0.00 4.73
441 443 4.809673 CCTATGGCCAAAGTCTTTTTCAC 58.190 43.478 10.96 0.00 0.00 3.18
443 445 3.849911 GCCTATGGCCAAAGTCTTTTTC 58.150 45.455 10.96 0.00 44.06 2.29
471 473 1.643868 GCAAACATGCGGGATGTCGA 61.644 55.000 15.67 0.00 45.12 4.20
481 483 1.580942 TGCGGAAGAGCAAACATGC 59.419 52.632 0.00 0.00 45.06 4.06
559 589 9.354673 TGCGGGTAGTTACTACTTTATATTACT 57.645 33.333 20.15 0.00 37.16 2.24
563 593 9.889128 TTTTTGCGGGTAGTTACTACTTTATAT 57.111 29.630 20.15 0.00 37.16 0.86
589 619 9.914834 TGCCCATGTTACTACTCTATTTTATTT 57.085 29.630 0.00 0.00 0.00 1.40
591 621 9.507329 CATGCCCATGTTACTACTCTATTTTAT 57.493 33.333 0.13 0.00 34.23 1.40
592 622 8.902540 CATGCCCATGTTACTACTCTATTTTA 57.097 34.615 0.13 0.00 34.23 1.52
593 623 7.807977 CATGCCCATGTTACTACTCTATTTT 57.192 36.000 0.13 0.00 34.23 1.82
608 638 5.858381 ACATAGAGTAGTAACATGCCCATG 58.142 41.667 6.71 6.71 44.15 3.66
609 639 6.500589 AACATAGAGTAGTAACATGCCCAT 57.499 37.500 0.00 0.00 0.00 4.00
610 640 5.950544 AACATAGAGTAGTAACATGCCCA 57.049 39.130 0.00 0.00 0.00 5.36
611 641 7.052142 AGTAACATAGAGTAGTAACATGCCC 57.948 40.000 0.00 0.00 0.00 5.36
612 642 8.081025 GGTAGTAACATAGAGTAGTAACATGCC 58.919 40.741 0.00 0.00 0.00 4.40
613 643 8.848182 AGGTAGTAACATAGAGTAGTAACATGC 58.152 37.037 0.00 0.00 0.00 4.06
623 653 9.709495 CTCGTTATAGAGGTAGTAACATAGAGT 57.291 37.037 0.00 0.00 34.74 3.24
638 668 8.784994 ACACATATGTTACTCCTCGTTATAGAG 58.215 37.037 5.37 0.00 34.46 2.43
639 669 8.687292 ACACATATGTTACTCCTCGTTATAGA 57.313 34.615 5.37 0.00 34.46 1.98
641 671 9.565090 ACTACACATATGTTACTCCTCGTTATA 57.435 33.333 5.37 0.00 40.48 0.98
642 672 8.461249 ACTACACATATGTTACTCCTCGTTAT 57.539 34.615 5.37 0.00 40.48 1.89
643 673 7.870509 ACTACACATATGTTACTCCTCGTTA 57.129 36.000 5.37 0.00 40.48 3.18
644 674 6.770746 ACTACACATATGTTACTCCTCGTT 57.229 37.500 5.37 0.00 40.48 3.85
645 675 7.337689 TGTTACTACACATATGTTACTCCTCGT 59.662 37.037 5.37 1.02 40.48 4.18
646 676 7.700505 TGTTACTACACATATGTTACTCCTCG 58.299 38.462 5.37 0.00 40.48 4.63
647 677 9.464714 CATGTTACTACACATATGTTACTCCTC 57.535 37.037 5.37 0.00 40.48 3.71
648 678 7.926555 GCATGTTACTACACATATGTTACTCCT 59.073 37.037 5.37 0.00 40.48 3.69
649 679 7.709182 TGCATGTTACTACACATATGTTACTCC 59.291 37.037 5.37 0.00 40.48 3.85
650 680 8.642908 TGCATGTTACTACACATATGTTACTC 57.357 34.615 5.37 0.00 40.48 2.59
651 681 9.613428 ATTGCATGTTACTACACATATGTTACT 57.387 29.630 5.37 0.00 40.48 2.24
680 710 9.422681 AGATGAGTCTACAGCCTAATACTTAAA 57.577 33.333 0.00 0.00 31.36 1.52
681 711 8.998277 AGATGAGTCTACAGCCTAATACTTAA 57.002 34.615 0.00 0.00 31.36 1.85
682 712 8.998277 AAGATGAGTCTACAGCCTAATACTTA 57.002 34.615 0.00 0.00 33.30 2.24
683 713 7.906199 AAGATGAGTCTACAGCCTAATACTT 57.094 36.000 0.00 0.00 33.30 2.24
684 714 9.238368 GATAAGATGAGTCTACAGCCTAATACT 57.762 37.037 0.00 0.00 33.30 2.12
685 715 9.238368 AGATAAGATGAGTCTACAGCCTAATAC 57.762 37.037 0.00 0.00 33.30 1.89
686 716 9.815306 AAGATAAGATGAGTCTACAGCCTAATA 57.185 33.333 0.00 0.00 33.30 0.98
687 717 8.719645 AAGATAAGATGAGTCTACAGCCTAAT 57.280 34.615 0.00 0.00 33.30 1.73
688 718 9.642343 TTAAGATAAGATGAGTCTACAGCCTAA 57.358 33.333 0.00 0.00 33.30 2.69
689 719 9.815306 ATTAAGATAAGATGAGTCTACAGCCTA 57.185 33.333 0.00 0.00 33.30 3.93
690 720 8.719645 ATTAAGATAAGATGAGTCTACAGCCT 57.280 34.615 0.00 0.00 33.30 4.58
709 739 9.098355 GCTTGAGTAACATCACACATATTAAGA 57.902 33.333 0.00 0.00 0.00 2.10
710 740 9.102757 AGCTTGAGTAACATCACACATATTAAG 57.897 33.333 0.00 0.00 0.00 1.85
712 742 9.750125 CTAGCTTGAGTAACATCACACATATTA 57.250 33.333 0.00 0.00 0.00 0.98
713 743 8.260818 ACTAGCTTGAGTAACATCACACATATT 58.739 33.333 1.04 0.00 0.00 1.28
714 744 7.786030 ACTAGCTTGAGTAACATCACACATAT 58.214 34.615 1.04 0.00 0.00 1.78
715 745 7.170393 ACTAGCTTGAGTAACATCACACATA 57.830 36.000 1.04 0.00 0.00 2.29
716 746 6.042638 ACTAGCTTGAGTAACATCACACAT 57.957 37.500 1.04 0.00 0.00 3.21
717 747 5.468540 ACTAGCTTGAGTAACATCACACA 57.531 39.130 1.04 0.00 0.00 3.72
718 748 6.622549 ACTACTAGCTTGAGTAACATCACAC 58.377 40.000 1.04 0.00 31.57 3.82
719 749 6.835819 ACTACTAGCTTGAGTAACATCACA 57.164 37.500 1.04 0.00 31.57 3.58
738 768 8.753175 GCATGTGTTAACATAGCTAGTTACTAC 58.247 37.037 12.26 13.44 45.50 2.73
739 769 8.471609 TGCATGTGTTAACATAGCTAGTTACTA 58.528 33.333 22.05 0.00 45.50 1.82
740 770 7.327975 TGCATGTGTTAACATAGCTAGTTACT 58.672 34.615 22.05 0.00 45.50 2.24
741 771 7.534085 TGCATGTGTTAACATAGCTAGTTAC 57.466 36.000 22.05 5.40 45.50 2.50
742 772 8.204160 AGATGCATGTGTTAACATAGCTAGTTA 58.796 33.333 22.05 5.74 45.50 2.24
743 773 7.050377 AGATGCATGTGTTAACATAGCTAGTT 58.950 34.615 22.05 6.69 45.50 2.24
744 774 6.586344 AGATGCATGTGTTAACATAGCTAGT 58.414 36.000 22.05 13.01 45.50 2.57
745 775 7.488187 AAGATGCATGTGTTAACATAGCTAG 57.512 36.000 22.05 10.24 45.50 3.42
746 776 7.864108 AAAGATGCATGTGTTAACATAGCTA 57.136 32.000 22.05 0.00 45.50 3.32
747 777 6.764308 AAAGATGCATGTGTTAACATAGCT 57.236 33.333 22.05 12.75 45.50 3.32
748 778 7.756722 AGAAAAAGATGCATGTGTTAACATAGC 59.243 33.333 12.26 15.63 45.50 2.97
749 779 9.630098 AAGAAAAAGATGCATGTGTTAACATAG 57.370 29.630 12.26 6.09 45.50 2.23
750 780 9.624697 GAAGAAAAAGATGCATGTGTTAACATA 57.375 29.630 12.26 9.81 45.50 2.29
752 782 7.487484 TGAAGAAAAAGATGCATGTGTTAACA 58.513 30.769 2.46 3.59 41.58 2.41
753 783 7.928908 TGAAGAAAAAGATGCATGTGTTAAC 57.071 32.000 2.46 0.00 0.00 2.01
754 784 9.545105 AAATGAAGAAAAAGATGCATGTGTTAA 57.455 25.926 2.46 0.00 0.00 2.01
756 786 9.715121 ATAAATGAAGAAAAAGATGCATGTGTT 57.285 25.926 2.46 0.00 0.00 3.32
757 787 9.715121 AATAAATGAAGAAAAAGATGCATGTGT 57.285 25.926 2.46 0.00 0.00 3.72
758 788 9.967245 CAATAAATGAAGAAAAAGATGCATGTG 57.033 29.630 2.46 0.00 0.00 3.21
759 789 9.715121 ACAATAAATGAAGAAAAAGATGCATGT 57.285 25.926 2.46 0.00 0.00 3.21
824 854 9.529823 CCCACAGTGGAAGTAATATAGATAGTA 57.470 37.037 22.37 0.00 40.96 1.82
825 855 8.011290 ACCCACAGTGGAAGTAATATAGATAGT 58.989 37.037 22.37 1.11 40.96 2.12
826 856 8.423906 ACCCACAGTGGAAGTAATATAGATAG 57.576 38.462 22.37 0.44 40.96 2.08
827 857 9.886337 TTACCCACAGTGGAAGTAATATAGATA 57.114 33.333 22.37 0.00 40.96 1.98
828 858 8.792830 TTACCCACAGTGGAAGTAATATAGAT 57.207 34.615 22.37 0.00 40.96 1.98
829 859 8.063153 TCTTACCCACAGTGGAAGTAATATAGA 58.937 37.037 22.37 11.46 40.96 1.98
830 860 8.246430 TCTTACCCACAGTGGAAGTAATATAG 57.754 38.462 22.37 9.51 40.96 1.31
831 861 7.842743 ACTCTTACCCACAGTGGAAGTAATATA 59.157 37.037 22.37 9.01 40.96 0.86
832 862 6.672657 ACTCTTACCCACAGTGGAAGTAATAT 59.327 38.462 22.37 7.27 40.96 1.28
833 863 6.021030 ACTCTTACCCACAGTGGAAGTAATA 58.979 40.000 22.37 12.52 40.96 0.98
834 864 4.844655 ACTCTTACCCACAGTGGAAGTAAT 59.155 41.667 22.37 4.62 40.96 1.89
835 865 4.039973 CACTCTTACCCACAGTGGAAGTAA 59.960 45.833 22.37 18.69 40.96 2.24
836 866 3.576982 CACTCTTACCCACAGTGGAAGTA 59.423 47.826 22.37 12.54 40.96 2.24
837 867 2.368875 CACTCTTACCCACAGTGGAAGT 59.631 50.000 22.37 13.60 40.96 3.01
838 868 2.872038 GCACTCTTACCCACAGTGGAAG 60.872 54.545 22.37 16.88 40.96 3.46
839 869 1.071699 GCACTCTTACCCACAGTGGAA 59.928 52.381 22.37 7.36 40.96 3.53
840 870 0.685097 GCACTCTTACCCACAGTGGA 59.315 55.000 22.37 0.00 40.96 4.02
841 871 0.396435 TGCACTCTTACCCACAGTGG 59.604 55.000 13.35 13.35 38.40 4.00
842 872 1.873591 GTTGCACTCTTACCCACAGTG 59.126 52.381 0.00 0.00 40.53 3.66
843 873 1.488812 TGTTGCACTCTTACCCACAGT 59.511 47.619 0.00 0.00 0.00 3.55
844 874 2.254546 TGTTGCACTCTTACCCACAG 57.745 50.000 0.00 0.00 0.00 3.66
845 875 2.294074 GTTGTTGCACTCTTACCCACA 58.706 47.619 0.00 0.00 0.00 4.17
846 876 2.290641 CTGTTGTTGCACTCTTACCCAC 59.709 50.000 0.00 0.00 0.00 4.61
847 877 2.092646 ACTGTTGTTGCACTCTTACCCA 60.093 45.455 0.00 0.00 0.00 4.51
848 878 2.572290 ACTGTTGTTGCACTCTTACCC 58.428 47.619 0.00 0.00 0.00 3.69
849 879 3.877508 AGAACTGTTGTTGCACTCTTACC 59.122 43.478 0.00 0.00 36.39 2.85
850 880 4.332819 ACAGAACTGTTGTTGCACTCTTAC 59.667 41.667 0.00 0.00 41.83 2.34
851 881 4.332543 CACAGAACTGTTGTTGCACTCTTA 59.667 41.667 4.63 0.00 42.83 2.10
852 882 3.127548 CACAGAACTGTTGTTGCACTCTT 59.872 43.478 4.63 0.00 42.83 2.85
853 883 2.679837 CACAGAACTGTTGTTGCACTCT 59.320 45.455 4.63 0.00 42.83 3.24
854 884 2.792542 GCACAGAACTGTTGTTGCACTC 60.793 50.000 14.90 0.00 42.83 3.51
855 885 1.133025 GCACAGAACTGTTGTTGCACT 59.867 47.619 14.90 0.00 42.83 4.40
880 910 0.320374 ACACGGCTAGCAGTTTAGCA 59.680 50.000 18.35 0.00 46.21 3.49
881 911 2.288961 TACACGGCTAGCAGTTTAGC 57.711 50.000 18.35 0.00 44.20 3.09
882 912 6.897259 TTAAATACACGGCTAGCAGTTTAG 57.103 37.500 18.35 9.82 0.00 1.85
883 913 6.480981 GGATTAAATACACGGCTAGCAGTTTA 59.519 38.462 18.35 16.37 0.00 2.01
884 914 5.296035 GGATTAAATACACGGCTAGCAGTTT 59.704 40.000 18.35 14.60 0.00 2.66
885 915 4.814771 GGATTAAATACACGGCTAGCAGTT 59.185 41.667 18.35 11.89 0.00 3.16
886 916 4.101119 AGGATTAAATACACGGCTAGCAGT 59.899 41.667 18.24 16.68 0.00 4.40
887 917 4.632153 AGGATTAAATACACGGCTAGCAG 58.368 43.478 18.24 15.90 0.00 4.24
913 943 5.974108 ACCAGAACTTATTAGCTCGCTAAA 58.026 37.500 14.58 0.00 41.21 1.85
919 949 5.066764 AGAGTCGACCAGAACTTATTAGCTC 59.933 44.000 13.01 0.00 0.00 4.09
951 981 4.274147 TGAGGCTGAAAGGTAGAGACTAG 58.726 47.826 0.00 0.00 0.00 2.57
952 982 4.317530 TGAGGCTGAAAGGTAGAGACTA 57.682 45.455 0.00 0.00 0.00 2.59
953 983 3.176924 TGAGGCTGAAAGGTAGAGACT 57.823 47.619 0.00 0.00 0.00 3.24
954 984 4.038642 CCTATGAGGCTGAAAGGTAGAGAC 59.961 50.000 0.00 0.00 0.00 3.36
1025 1055 2.842496 TCAAGGTTGAGCTCATCCTGAT 59.158 45.455 36.04 23.87 43.32 2.90
1026 1056 2.259917 TCAAGGTTGAGCTCATCCTGA 58.740 47.619 36.04 30.26 43.32 3.86
1027 1057 2.746362 GTTCAAGGTTGAGCTCATCCTG 59.254 50.000 36.04 29.02 43.32 3.86
1028 1058 2.641815 AGTTCAAGGTTGAGCTCATCCT 59.358 45.455 32.17 32.17 43.94 3.24
1029 1059 3.064900 AGTTCAAGGTTGAGCTCATCC 57.935 47.619 29.24 29.24 43.94 3.51
1264 1294 3.479203 CCCTCTGCCGCCATACCA 61.479 66.667 0.00 0.00 0.00 3.25
1281 1311 3.202706 GACAGGAAATCGCCGCCC 61.203 66.667 0.00 0.00 0.00 6.13
1395 1443 1.816863 GAGCCAAGTCCACCTCGTCA 61.817 60.000 0.00 0.00 0.00 4.35
1401 1449 1.298014 CCTGAGAGCCAAGTCCACC 59.702 63.158 0.00 0.00 0.00 4.61
1462 1510 1.224592 CTAGCAAATCAGGGCGGGT 59.775 57.895 0.00 0.00 34.54 5.28
1466 1515 1.745653 GGTCAACTAGCAAATCAGGGC 59.254 52.381 0.00 0.00 0.00 5.19
1514 1565 6.928348 TGTGTCAGGAAAGAAGACCTTATA 57.072 37.500 0.00 0.00 34.00 0.98
1515 1566 5.825593 TGTGTCAGGAAAGAAGACCTTAT 57.174 39.130 0.00 0.00 34.00 1.73
1516 1567 5.825593 ATGTGTCAGGAAAGAAGACCTTA 57.174 39.130 0.00 0.00 34.00 2.69
1522 1573 7.604164 ACAAGTACATATGTGTCAGGAAAGAAG 59.396 37.037 18.81 0.00 39.77 2.85
1534 1585 8.239314 AGAAGCAATTTCACAAGTACATATGTG 58.761 33.333 18.81 16.08 46.44 3.21
1553 1604 2.205022 ACAGGCAAGCATAGAAGCAA 57.795 45.000 0.00 0.00 36.85 3.91
1691 1743 9.057089 AGAACTGAGTAAACAAGAAATCGAAAT 57.943 29.630 0.00 0.00 0.00 2.17
1708 1760 8.700051 AGCATACATAGAACAATAGAACTGAGT 58.300 33.333 0.00 0.00 0.00 3.41
1728 1780 4.096081 AGAAGCTCAGCAATGAAAGCATAC 59.904 41.667 0.00 0.00 37.22 2.39
1730 1782 3.090037 AGAAGCTCAGCAATGAAAGCAT 58.910 40.909 0.00 0.00 37.22 3.79
1735 1793 4.023450 CACTTGAAGAAGCTCAGCAATGAA 60.023 41.667 0.00 0.00 31.68 2.57
1736 1794 3.501062 CACTTGAAGAAGCTCAGCAATGA 59.499 43.478 0.00 0.00 31.68 2.57
1737 1795 3.501062 TCACTTGAAGAAGCTCAGCAATG 59.499 43.478 0.00 0.00 31.68 2.82
1738 1796 3.748083 TCACTTGAAGAAGCTCAGCAAT 58.252 40.909 0.00 0.00 31.68 3.56
1739 1797 3.198409 TCACTTGAAGAAGCTCAGCAA 57.802 42.857 0.00 0.00 31.68 3.91
1798 1856 9.383519 CAGTTACACAATAGACATTAATCAGGT 57.616 33.333 0.00 0.00 0.00 4.00
1820 1878 4.299547 TCGCTGGCGCTCACAGTT 62.300 61.111 7.64 0.00 38.22 3.16
1874 1942 3.322369 TGGTTGTATACGTGCAACTCAG 58.678 45.455 22.32 0.00 46.29 3.35
1901 1972 0.960861 ACTCGATCTCGTGTGGCAGA 60.961 55.000 6.51 0.00 43.24 4.26
1928 1999 4.340666 CACAAGATGCTAGCTTCTCCTAGA 59.659 45.833 27.76 0.85 37.57 2.43
1954 2025 4.901849 AGTGCTCCTACTAGCCAAATCATA 59.098 41.667 0.00 0.00 42.05 2.15
1955 2026 3.713764 AGTGCTCCTACTAGCCAAATCAT 59.286 43.478 0.00 0.00 42.05 2.45
1966 2037 0.035458 GGTGTTGCAGTGCTCCTACT 59.965 55.000 17.60 0.00 0.00 2.57
1968 2039 1.374947 GGGTGTTGCAGTGCTCCTA 59.625 57.895 17.60 0.00 0.00 2.94
1978 2049 2.037251 TGTCTCTCTAAGTGGGTGTTGC 59.963 50.000 0.00 0.00 0.00 4.17
2057 2128 8.659925 TGTGCATGTTTTACATTCATTTTCTT 57.340 26.923 0.00 0.00 36.53 2.52
2181 2256 4.753233 ACACACTAGAGATGATGCACTTC 58.247 43.478 0.00 0.00 0.00 3.01
2200 2275 6.648725 AAATGTCTAGCGAATACTCAACAC 57.351 37.500 0.00 0.00 0.00 3.32
2201 2276 7.518161 CAAAAATGTCTAGCGAATACTCAACA 58.482 34.615 0.00 0.00 0.00 3.33
2215 2290 7.973388 GGTGTAATTAGCATGCAAAAATGTCTA 59.027 33.333 21.98 3.79 0.00 2.59
2228 2303 4.949238 TGCAATGAGTGGTGTAATTAGCAT 59.051 37.500 0.00 0.00 0.00 3.79
2230 2305 4.963276 TGCAATGAGTGGTGTAATTAGC 57.037 40.909 0.00 0.00 0.00 3.09
2261 2336 8.491152 CAAAATAAATGTCCAACGCACAAATAA 58.509 29.630 0.00 0.00 0.00 1.40
2322 2397 2.650765 CGTCAGTTCGTTCGTAGACAAG 59.349 50.000 0.00 0.00 34.32 3.16
2325 2400 1.599992 CCGTCAGTTCGTTCGTAGAC 58.400 55.000 0.00 0.00 34.32 2.59
2330 2405 1.731969 GACCCCGTCAGTTCGTTCG 60.732 63.158 0.00 0.00 32.09 3.95
2382 2457 0.946221 GGTGTGCTCAGAACTCCACG 60.946 60.000 0.00 0.00 32.59 4.94
2388 2463 4.065088 TGTCTTATTGGTGTGCTCAGAAC 58.935 43.478 0.00 0.00 0.00 3.01
2391 2466 4.320494 GGTTTGTCTTATTGGTGTGCTCAG 60.320 45.833 0.00 0.00 0.00 3.35


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

AutoCloner maintained by Alex Coulton.