Multiple sequence alignment - TraesCS1B01G136400

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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 TraesCS1B01G136400 chr1B 100.000 2372 0 0 1 2372 174107038 174109409 0.000000e+00 4381
1 TraesCS1B01G136400 chr1A 95.749 1529 36 8 860 2372 122500777 122499262 0.000000e+00 2436
2 TraesCS1B01G136400 chr1A 97.290 738 14 1 1 738 122501506 122500775 0.000000e+00 1247
3 TraesCS1B01G136400 chr1A 91.391 151 10 2 724 874 284542145 284542292 1.110000e-48 204
4 TraesCS1B01G136400 chr1D 94.589 1534 37 12 860 2372 113908596 113907088 0.000000e+00 2331
5 TraesCS1B01G136400 chr1D 97.290 738 12 2 1 738 113909323 113908594 0.000000e+00 1245
6 TraesCS1B01G136400 chr7A 98.438 128 1 1 736 862 495545720 495545847 8.530000e-55 224
7 TraesCS1B01G136400 chr7A 93.617 141 9 0 734 874 552891758 552891898 6.640000e-51 211
8 TraesCS1B01G136400 chr4A 94.964 139 4 3 736 871 223857834 223857972 5.130000e-52 215
9 TraesCS1B01G136400 chr2D 94.928 138 5 2 734 870 619720675 619720539 5.130000e-52 215
10 TraesCS1B01G136400 chr3A 95.522 134 5 1 731 863 644809261 644809128 1.850000e-51 213
11 TraesCS1B01G136400 chr3A 93.478 138 9 0 737 874 332035496 332035359 3.090000e-49 206
12 TraesCS1B01G136400 chr2B 94.245 139 6 2 733 870 545760384 545760521 6.640000e-51 211
13 TraesCS1B01G136400 chr6B 91.391 151 9 4 720 868 39329381 39329529 1.110000e-48 204


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 TraesCS1B01G136400 chr1B 174107038 174109409 2371 False 4381.0 4381 100.0000 1 2372 1 chr1B.!!$F1 2371
1 TraesCS1B01G136400 chr1A 122499262 122501506 2244 True 1841.5 2436 96.5195 1 2372 2 chr1A.!!$R1 2371
2 TraesCS1B01G136400 chr1D 113907088 113909323 2235 True 1788.0 2331 95.9395 1 2372 2 chr1D.!!$R1 2371

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
858 859 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.0 13.64 4.95 46.06 4.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2069 2092 2.802719 TGGGGTGATAAGCCAAAAGTC 58.197 47.619 0.0 0.0 0.0 3.01 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
30 31 0.607762 TTCAATTAGCCAGCGCACCA 60.608 50.000 11.47 0.00 37.52 4.17
31 32 0.394216 TCAATTAGCCAGCGCACCAT 60.394 50.000 11.47 0.00 37.52 3.55
32 33 1.134250 TCAATTAGCCAGCGCACCATA 60.134 47.619 11.47 0.00 37.52 2.74
33 34 1.002468 CAATTAGCCAGCGCACCATAC 60.002 52.381 11.47 0.00 37.52 2.39
34 35 0.469917 ATTAGCCAGCGCACCATACT 59.530 50.000 11.47 0.00 37.52 2.12
35 36 0.461870 TTAGCCAGCGCACCATACTG 60.462 55.000 11.47 0.00 37.52 2.74
89 90 0.391395 CTCTGCTCAGCTTGGTCAGG 60.391 60.000 0.00 0.00 0.00 3.86
126 127 2.171635 GCGTTAGCAACTTGGGAGG 58.828 57.895 0.00 0.00 44.35 4.30
129 130 1.270625 CGTTAGCAACTTGGGAGGACA 60.271 52.381 0.00 0.00 0.00 4.02
388 389 5.980116 ACTACTTTTCTGTATATCTGCGCAG 59.020 40.000 31.53 31.53 0.00 5.18
441 442 5.106555 CCAGGATTAATAGTGCATTAAGGCG 60.107 44.000 7.70 0.00 41.32 5.52
540 541 7.040201 AGCTCTTGAATACATCACAACAAACAT 60.040 33.333 0.00 0.00 37.92 2.71
672 673 1.971357 TCCTTCGTCTTGAGCCTTCTT 59.029 47.619 0.00 0.00 0.00 2.52
717 718 8.877864 ACTCATCCTGAATTTGTTATGGTTAA 57.122 30.769 0.00 0.00 0.00 2.01
738 739 7.255139 GGTTAACCTTCCTTGATATGCATGTAC 60.255 40.741 17.83 1.00 0.00 2.90
739 740 5.636903 ACCTTCCTTGATATGCATGTACT 57.363 39.130 10.16 0.00 0.00 2.73
740 741 5.615289 ACCTTCCTTGATATGCATGTACTC 58.385 41.667 10.16 1.59 0.00 2.59
741 742 4.999950 CCTTCCTTGATATGCATGTACTCC 59.000 45.833 10.16 0.00 0.00 3.85
742 743 4.623932 TCCTTGATATGCATGTACTCCC 57.376 45.455 10.16 0.00 0.00 4.30
743 744 4.234550 TCCTTGATATGCATGTACTCCCT 58.765 43.478 10.16 0.00 0.00 4.20
744 745 4.284490 TCCTTGATATGCATGTACTCCCTC 59.716 45.833 10.16 0.00 0.00 4.30
745 746 4.564406 CCTTGATATGCATGTACTCCCTCC 60.564 50.000 10.16 0.00 0.00 4.30
746 747 2.562738 TGATATGCATGTACTCCCTCCG 59.437 50.000 10.16 0.00 0.00 4.63
747 748 2.082140 TATGCATGTACTCCCTCCGT 57.918 50.000 10.16 0.00 0.00 4.69
748 749 0.753262 ATGCATGTACTCCCTCCGTC 59.247 55.000 0.00 0.00 0.00 4.79
749 750 1.327690 TGCATGTACTCCCTCCGTCC 61.328 60.000 0.00 0.00 0.00 4.79
750 751 1.734137 CATGTACTCCCTCCGTCCG 59.266 63.158 0.00 0.00 0.00 4.79
751 752 0.750546 CATGTACTCCCTCCGTCCGA 60.751 60.000 0.00 0.00 0.00 4.55
752 753 0.033796 ATGTACTCCCTCCGTCCGAA 60.034 55.000 0.00 0.00 0.00 4.30
753 754 0.251297 TGTACTCCCTCCGTCCGAAA 60.251 55.000 0.00 0.00 0.00 3.46
754 755 0.890683 GTACTCCCTCCGTCCGAAAA 59.109 55.000 0.00 0.00 0.00 2.29
755 756 1.479730 GTACTCCCTCCGTCCGAAAAT 59.520 52.381 0.00 0.00 0.00 1.82
756 757 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
757 758 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
758 759 1.755380 CTCCCTCCGTCCGAAAATACT 59.245 52.381 0.00 0.00 0.00 2.12
759 760 2.167900 CTCCCTCCGTCCGAAAATACTT 59.832 50.000 0.00 0.00 0.00 2.24
760 761 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
761 762 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
762 763 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
763 764 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
764 765 4.181578 CTCCGTCCGAAAATACTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
765 766 4.178540 TCCGTCCGAAAATACTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
766 767 3.930229 CCGTCCGAAAATACTTGTCATCA 59.070 43.478 0.00 0.00 0.00 3.07
767 768 4.390603 CCGTCCGAAAATACTTGTCATCAA 59.609 41.667 0.00 0.00 0.00 2.57
768 769 5.106869 CCGTCCGAAAATACTTGTCATCAAA 60.107 40.000 0.00 0.00 32.87 2.69
769 770 6.367421 CGTCCGAAAATACTTGTCATCAAAA 58.633 36.000 0.00 0.00 32.87 2.44
770 771 7.021196 CGTCCGAAAATACTTGTCATCAAAAT 58.979 34.615 0.00 0.00 32.87 1.82
771 772 7.007367 CGTCCGAAAATACTTGTCATCAAAATG 59.993 37.037 0.00 0.00 32.87 2.32
772 773 7.273381 GTCCGAAAATACTTGTCATCAAAATGG 59.727 37.037 0.00 0.00 33.42 3.16
773 774 7.175816 TCCGAAAATACTTGTCATCAAAATGGA 59.824 33.333 0.00 0.00 33.42 3.41
774 775 7.975616 CCGAAAATACTTGTCATCAAAATGGAT 59.024 33.333 0.00 0.00 33.42 3.41
781 782 7.614494 ACTTGTCATCAAAATGGATAAAAGGG 58.386 34.615 0.00 0.00 33.42 3.95
782 783 7.454380 ACTTGTCATCAAAATGGATAAAAGGGA 59.546 33.333 0.00 0.00 33.42 4.20
783 784 7.976414 TGTCATCAAAATGGATAAAAGGGAT 57.024 32.000 0.00 0.00 33.42 3.85
784 785 7.784037 TGTCATCAAAATGGATAAAAGGGATG 58.216 34.615 0.00 0.00 33.42 3.51
785 786 7.399765 TGTCATCAAAATGGATAAAAGGGATGT 59.600 33.333 0.00 0.00 33.29 3.06
786 787 8.912988 GTCATCAAAATGGATAAAAGGGATGTA 58.087 33.333 0.00 0.00 33.29 2.29
787 788 9.659135 TCATCAAAATGGATAAAAGGGATGTAT 57.341 29.630 0.00 0.00 33.29 2.29
788 789 9.918630 CATCAAAATGGATAAAAGGGATGTATC 57.081 33.333 0.00 0.00 0.00 2.24
789 790 9.887862 ATCAAAATGGATAAAAGGGATGTATCT 57.112 29.630 0.00 0.00 0.00 1.98
794 795 7.228314 TGGATAAAAGGGATGTATCTAGACG 57.772 40.000 0.00 0.00 0.00 4.18
795 796 6.781014 TGGATAAAAGGGATGTATCTAGACGT 59.219 38.462 0.00 0.00 0.00 4.34
796 797 7.946219 TGGATAAAAGGGATGTATCTAGACGTA 59.054 37.037 0.00 0.00 0.00 3.57
797 798 8.968969 GGATAAAAGGGATGTATCTAGACGTAT 58.031 37.037 0.00 0.00 0.00 3.06
803 804 8.937207 AGGGATGTATCTAGACGTATTTTAGT 57.063 34.615 0.00 0.00 0.00 2.24
804 805 9.364653 AGGGATGTATCTAGACGTATTTTAGTT 57.635 33.333 0.00 0.00 0.00 2.24
805 806 9.978044 GGGATGTATCTAGACGTATTTTAGTTT 57.022 33.333 0.00 0.00 0.00 2.66
833 834 9.690913 AGATACATCTCTTTTCATCCATTTTGA 57.309 29.630 0.00 0.00 29.30 2.69
847 848 8.469200 TCATCCATTTTGATGACAAGTATTTCC 58.531 33.333 0.00 0.00 44.65 3.13
848 849 6.851609 TCCATTTTGATGACAAGTATTTCCG 58.148 36.000 0.00 0.00 37.32 4.30
849 850 6.035843 CCATTTTGATGACAAGTATTTCCGG 58.964 40.000 0.00 0.00 37.32 5.14
850 851 6.127758 CCATTTTGATGACAAGTATTTCCGGA 60.128 38.462 0.00 0.00 37.32 5.14
851 852 5.873179 TTTGATGACAAGTATTTCCGGAC 57.127 39.130 1.83 0.00 37.32 4.79
852 853 3.517602 TGATGACAAGTATTTCCGGACG 58.482 45.455 1.83 0.00 0.00 4.79
853 854 2.373540 TGACAAGTATTTCCGGACGG 57.626 50.000 1.83 3.96 0.00 4.79
854 855 1.894466 TGACAAGTATTTCCGGACGGA 59.106 47.619 1.83 9.76 43.52 4.69
855 856 2.094390 TGACAAGTATTTCCGGACGGAG 60.094 50.000 13.64 3.15 46.06 4.63
856 857 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
857 858 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
858 859 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
859 860 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
860 861 0.032813 TATTTCCGGACGGAGGGAGT 60.033 55.000 13.64 0.00 46.06 3.85
861 862 0.032813 ATTTCCGGACGGAGGGAGTA 60.033 55.000 13.64 0.00 46.06 2.59
935 936 3.450904 TGCACCATAGGACTTCTTAGGT 58.549 45.455 0.00 0.00 33.49 3.08
947 948 6.497259 AGGACTTCTTAGGTATGAACACTGAA 59.503 38.462 0.00 0.00 0.00 3.02
1047 1048 5.316987 CAAACATTTAGGAGGTCTGGTTCT 58.683 41.667 0.00 0.00 0.00 3.01
1169 1170 1.139853 GCTAAGGCACTCCTGTAGCAT 59.860 52.381 14.67 0.00 43.40 3.79
1253 1254 1.962807 CAACATCAACCAGGCCTTTCA 59.037 47.619 0.00 0.00 0.00 2.69
1362 1363 1.228154 ACAACCTTCCGAACCCAGC 60.228 57.895 0.00 0.00 0.00 4.85
1473 1474 9.096160 CATAATAAGCATATGTTTGGTTTTGCA 57.904 29.630 14.40 0.00 38.25 4.08
1514 1515 1.687660 TGCATGTTTCATTGTGTGCCT 59.312 42.857 0.00 0.00 0.00 4.75
1535 1536 5.773575 CCTTTGCTACCTTTCCTTTTCTTC 58.226 41.667 0.00 0.00 0.00 2.87
1700 1708 2.303890 TCATGACACTGATCAGCCAGTT 59.696 45.455 22.83 0.00 44.32 3.16
1741 1749 5.552870 ACAACCTGAGTTCACTTCTACAT 57.447 39.130 0.00 0.00 32.45 2.29
1885 1893 1.410153 CTTCAAATATGGGTGCCTGGC 59.590 52.381 12.87 12.87 0.00 4.85
1956 1979 5.069119 GCCATATAGGATATCACGTCATGGA 59.931 44.000 19.03 0.00 41.22 3.41
2045 2068 8.882415 TGACTAAGTCGAAGTCATAACTTTTT 57.118 30.769 13.19 0.00 46.38 1.94
2069 2092 6.371809 AACGGTGCATATATTTGTAGTTGG 57.628 37.500 0.00 0.00 0.00 3.77
2158 2181 5.074115 GCTACTGTATCTGTGGACCTATCT 58.926 45.833 0.00 0.00 0.00 1.98
2159 2182 6.239396 GCTACTGTATCTGTGGACCTATCTA 58.761 44.000 0.00 0.00 0.00 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 1.134946 GGTGCGCTGGCTAATTGAAAT 59.865 47.619 9.73 0.00 40.82 2.17
30 31 7.041780 GCAGTTTATATGCACTTGCTACAGTAT 60.042 37.037 2.33 0.00 43.31 2.12
31 32 6.257849 GCAGTTTATATGCACTTGCTACAGTA 59.742 38.462 2.33 0.00 43.31 2.74
32 33 5.065218 GCAGTTTATATGCACTTGCTACAGT 59.935 40.000 2.33 0.00 43.31 3.55
33 34 5.505286 GCAGTTTATATGCACTTGCTACAG 58.495 41.667 2.33 0.00 43.31 2.74
34 35 5.484173 GCAGTTTATATGCACTTGCTACA 57.516 39.130 2.33 0.00 43.31 2.74
89 90 2.603892 CGCAGCTGCCATAAACATCATC 60.604 50.000 32.07 0.44 37.91 2.92
126 127 5.296780 TGTTCCATTCTCTTTGACAGTTGTC 59.703 40.000 5.33 5.33 44.97 3.18
129 130 6.064060 TCATGTTCCATTCTCTTTGACAGTT 58.936 36.000 0.00 0.00 0.00 3.16
388 389 3.549794 AGCAGCTGAAAGGGATATGAAC 58.450 45.455 20.43 0.00 0.00 3.18
441 442 6.229733 CAAATATCATCACCCCTCTCTTCTC 58.770 44.000 0.00 0.00 0.00 2.87
540 541 7.182817 AGTACTATTAGCTGAAACACCATCA 57.817 36.000 0.00 0.00 0.00 3.07
652 653 1.633774 AGAAGGCTCAAGACGAAGGA 58.366 50.000 0.00 0.00 0.00 3.36
717 718 5.455326 GGAGTACATGCATATCAAGGAAGGT 60.455 44.000 0.00 0.00 0.00 3.50
738 739 1.755380 AGTATTTTCGGACGGAGGGAG 59.245 52.381 0.00 0.00 0.00 4.30
739 740 1.856629 AGTATTTTCGGACGGAGGGA 58.143 50.000 0.00 0.00 0.00 4.20
740 741 2.277084 CAAGTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
741 742 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
742 743 3.581755 TGACAAGTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
743 744 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
744 745 3.930229 TGATGACAAGTATTTTCGGACGG 59.070 43.478 0.00 0.00 0.00 4.79
745 746 5.524511 TTGATGACAAGTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
746 747 7.273381 CCATTTTGATGACAAGTATTTTCGGAC 59.727 37.037 0.00 0.00 37.32 4.79
747 748 7.175816 TCCATTTTGATGACAAGTATTTTCGGA 59.824 33.333 0.00 0.00 37.32 4.55
748 749 7.312154 TCCATTTTGATGACAAGTATTTTCGG 58.688 34.615 0.00 0.00 37.32 4.30
749 750 8.915871 ATCCATTTTGATGACAAGTATTTTCG 57.084 30.769 0.00 0.00 37.32 3.46
755 756 8.748412 CCCTTTTATCCATTTTGATGACAAGTA 58.252 33.333 0.00 0.00 37.32 2.24
756 757 7.454380 TCCCTTTTATCCATTTTGATGACAAGT 59.546 33.333 0.00 0.00 37.32 3.16
757 758 7.839907 TCCCTTTTATCCATTTTGATGACAAG 58.160 34.615 0.00 0.00 37.32 3.16
758 759 7.789202 TCCCTTTTATCCATTTTGATGACAA 57.211 32.000 0.00 0.00 0.00 3.18
759 760 7.399765 ACATCCCTTTTATCCATTTTGATGACA 59.600 33.333 0.00 0.00 33.22 3.58
760 761 7.785033 ACATCCCTTTTATCCATTTTGATGAC 58.215 34.615 0.00 0.00 33.22 3.06
761 762 7.976414 ACATCCCTTTTATCCATTTTGATGA 57.024 32.000 0.00 0.00 33.22 2.92
762 763 9.918630 GATACATCCCTTTTATCCATTTTGATG 57.081 33.333 0.00 0.00 34.68 3.07
763 764 9.887862 AGATACATCCCTTTTATCCATTTTGAT 57.112 29.630 0.00 0.00 0.00 2.57
768 769 8.314751 CGTCTAGATACATCCCTTTTATCCATT 58.685 37.037 0.00 0.00 0.00 3.16
769 770 7.455008 ACGTCTAGATACATCCCTTTTATCCAT 59.545 37.037 0.00 0.00 0.00 3.41
770 771 6.781014 ACGTCTAGATACATCCCTTTTATCCA 59.219 38.462 0.00 0.00 0.00 3.41
771 772 7.229581 ACGTCTAGATACATCCCTTTTATCC 57.770 40.000 0.00 0.00 0.00 2.59
777 778 9.364653 ACTAAAATACGTCTAGATACATCCCTT 57.635 33.333 0.00 0.00 0.00 3.95
778 779 8.937207 ACTAAAATACGTCTAGATACATCCCT 57.063 34.615 0.00 0.00 0.00 4.20
779 780 9.978044 AAACTAAAATACGTCTAGATACATCCC 57.022 33.333 0.00 0.00 0.00 3.85
807 808 9.690913 TCAAAATGGATGAAAAGAGATGTATCT 57.309 29.630 0.00 0.00 40.50 1.98
822 823 7.433131 CGGAAATACTTGTCATCAAAATGGATG 59.567 37.037 0.00 0.00 44.78 3.51
823 824 7.416664 CCGGAAATACTTGTCATCAAAATGGAT 60.417 37.037 0.00 0.00 33.42 3.41
824 825 6.127758 CCGGAAATACTTGTCATCAAAATGGA 60.128 38.462 0.00 0.00 33.42 3.41
825 826 6.035843 CCGGAAATACTTGTCATCAAAATGG 58.964 40.000 0.00 0.00 33.42 3.16
826 827 6.747280 GTCCGGAAATACTTGTCATCAAAATG 59.253 38.462 5.23 0.00 32.87 2.32
827 828 6.403200 CGTCCGGAAATACTTGTCATCAAAAT 60.403 38.462 5.23 0.00 32.87 1.82
828 829 5.106869 CGTCCGGAAATACTTGTCATCAAAA 60.107 40.000 5.23 0.00 32.87 2.44
829 830 4.390603 CGTCCGGAAATACTTGTCATCAAA 59.609 41.667 5.23 0.00 32.87 2.69
830 831 3.930229 CGTCCGGAAATACTTGTCATCAA 59.070 43.478 5.23 0.00 0.00 2.57
831 832 3.517602 CGTCCGGAAATACTTGTCATCA 58.482 45.455 5.23 0.00 0.00 3.07
832 833 2.864343 CCGTCCGGAAATACTTGTCATC 59.136 50.000 5.23 0.00 37.50 2.92
833 834 2.498481 TCCGTCCGGAAATACTTGTCAT 59.502 45.455 5.23 0.00 42.05 3.06
834 835 1.894466 TCCGTCCGGAAATACTTGTCA 59.106 47.619 5.23 0.00 42.05 3.58
835 836 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
836 837 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
837 838 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
838 839 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
839 840 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
840 841 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
841 842 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
842 843 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
843 844 0.032813 ATACTCCCTCCGTCCGGAAA 60.033 55.000 5.23 0.00 44.66 3.13
844 845 0.846015 TATACTCCCTCCGTCCGGAA 59.154 55.000 5.23 0.00 44.66 4.30
845 846 1.070604 ATATACTCCCTCCGTCCGGA 58.929 55.000 0.00 0.00 42.90 5.14
846 847 1.920610 AATATACTCCCTCCGTCCGG 58.079 55.000 0.00 0.00 0.00 5.14
847 848 5.298777 CCTAATAATATACTCCCTCCGTCCG 59.701 48.000 0.00 0.00 0.00 4.79
848 849 6.193504 ACCTAATAATATACTCCCTCCGTCC 58.806 44.000 0.00 0.00 0.00 4.79
849 850 7.715266 AACCTAATAATATACTCCCTCCGTC 57.285 40.000 0.00 0.00 0.00 4.79
850 851 7.038516 CCAAACCTAATAATATACTCCCTCCGT 60.039 40.741 0.00 0.00 0.00 4.69
851 852 7.038516 ACCAAACCTAATAATATACTCCCTCCG 60.039 40.741 0.00 0.00 0.00 4.63
852 853 8.215954 ACCAAACCTAATAATATACTCCCTCC 57.784 38.462 0.00 0.00 0.00 4.30
853 854 8.877195 TGACCAAACCTAATAATATACTCCCTC 58.123 37.037 0.00 0.00 0.00 4.30
854 855 8.808240 TGACCAAACCTAATAATATACTCCCT 57.192 34.615 0.00 0.00 0.00 4.20
935 936 5.298276 GTGGGTGTTTCTTTCAGTGTTCATA 59.702 40.000 0.00 0.00 0.00 2.15
947 948 2.014128 CTGTGTTCGTGGGTGTTTCTT 58.986 47.619 0.00 0.00 0.00 2.52
1047 1048 1.362584 TCCTCCCAGATCAGACCAGAA 59.637 52.381 0.00 0.00 0.00 3.02
1162 1163 2.063979 CCCTGGACCCGATGCTACA 61.064 63.158 0.00 0.00 0.00 2.74
1169 1170 4.715130 CACCTCCCCTGGACCCGA 62.715 72.222 0.00 0.00 0.00 5.14
1234 1235 2.380064 TGAAAGGCCTGGTTGATGTT 57.620 45.000 5.69 0.00 0.00 2.71
1362 1363 1.204146 ATGCACCACCCTAGTACCTG 58.796 55.000 0.00 0.00 0.00 4.00
1470 1471 7.546358 CAAACCTATTCAAATAACCTCATGCA 58.454 34.615 0.00 0.00 0.00 3.96
1473 1474 7.716799 TGCAAACCTATTCAAATAACCTCAT 57.283 32.000 0.00 0.00 0.00 2.90
1514 1515 6.126409 TGAGAAGAAAAGGAAAGGTAGCAAA 58.874 36.000 0.00 0.00 0.00 3.68
1717 1725 5.839621 TGTAGAAGTGAACTCAGGTTGTAC 58.160 41.667 0.00 0.00 35.58 2.90
2045 2068 7.225145 GTCCAACTACAAATATATGCACCGTTA 59.775 37.037 0.00 0.00 0.00 3.18
2062 2085 5.106277 GGTGATAAGCCAAAAGTCCAACTAC 60.106 44.000 0.00 0.00 0.00 2.73
2069 2092 2.802719 TGGGGTGATAAGCCAAAAGTC 58.197 47.619 0.00 0.00 0.00 3.01
2159 2182 9.700831 AAGAACTAATTATTAATGAAGTGGGCT 57.299 29.630 0.00 3.13 0.00 5.19


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

AutoCloner maintained by Alex Coulton.