Multiple sequence alignment - TraesCS6D01G355100

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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 TraesCS6D01G355100 chr6D 100.000 4048 0 0 1 4048 450106645 450110692 0.000000e+00 7476.0
1 TraesCS6D01G355100 chr6B 86.492 2480 210 64 1 2394 682556448 682558888 0.000000e+00 2608.0
2 TraesCS6D01G355100 chr6B 96.199 1026 37 2 2450 3474 682558898 682559922 0.000000e+00 1677.0
3 TraesCS6D01G355100 chr6B 91.960 597 35 7 3456 4048 682559979 682560566 0.000000e+00 824.0
4 TraesCS6D01G355100 chr6A 93.154 1563 71 13 854 2382 595621929 595623489 0.000000e+00 2261.0
5 TraesCS6D01G355100 chr6A 89.655 1624 121 23 2434 4042 595623509 595625100 0.000000e+00 2025.0
6 TraesCS6D01G355100 chr4B 77.778 234 39 10 620 845 512540893 512540665 9.130000e-27 132.0
7 TraesCS6D01G355100 chr2D 78.195 133 27 2 6 136 82339996 82340128 2.590000e-12 84.2
8 TraesCS6D01G355100 chr2A 77.869 122 21 4 6 123 83022533 83022652 2.020000e-08 71.3
9 TraesCS6D01G355100 chr1A 91.667 48 4 0 286 333 4508833 4508880 2.610000e-07 67.6
10 TraesCS6D01G355100 chr1B 95.122 41 2 0 293 333 6044766 6044806 9.390000e-07 65.8


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 TraesCS6D01G355100 chr6D 450106645 450110692 4047 False 7476 7476 100.000000 1 4048 1 chr6D.!!$F1 4047
1 TraesCS6D01G355100 chr6B 682556448 682560566 4118 False 1703 2608 91.550333 1 4048 3 chr6B.!!$F1 4047
2 TraesCS6D01G355100 chr6A 595621929 595625100 3171 False 2143 2261 91.404500 854 4042 2 chr6A.!!$F1 3188

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
966 1032 0.179045 GGCCATGCGGTAGAGTTGAT 60.179 55.000 0.0 0.0 33.28 2.57 F
1063 1144 0.948623 CGCCGTCATCAAACACTCCA 60.949 55.000 0.0 0.0 0.00 3.86 F
1762 1843 1.214175 ACATTGTCACCTGGAACACCA 59.786 47.619 0.0 0.0 0.00 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1831 1912 0.324368 ATGTCCGGCTCTACACCTGA 60.324 55.0 0.0 0.0 0.0 3.86 R
2384 2484 0.546122 AGTCACTGGCTTGAACACCA 59.454 50.0 0.0 0.0 0.0 4.17 R
3378 3484 0.249657 GTCCTGCTTCTATCCGGCTG 60.250 60.0 0.0 0.0 0.0 4.85 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 6.146837 CCTTAGATTTGGAGTCTTATGATGCG 59.853 42.308 0.00 0.00 0.00 4.73
33 34 3.046390 GAGTCTTATGATGCGTCGAAGG 58.954 50.000 16.33 2.75 0.00 3.46
45 46 3.072468 CGAAGGCGGTAGGGGTCA 61.072 66.667 0.00 0.00 0.00 4.02
51 52 2.284405 CGGTAGGGGTCACTGGGT 60.284 66.667 0.00 0.00 0.00 4.51
55 56 3.612115 TAGGGGTCACTGGGTCCCG 62.612 68.421 6.14 0.50 43.92 5.14
73 74 1.600485 CCGTTTGTAAGGGTGTGTGTC 59.400 52.381 0.00 0.00 0.00 3.67
74 75 2.281517 CGTTTGTAAGGGTGTGTGTCA 58.718 47.619 0.00 0.00 0.00 3.58
266 287 7.865706 AGTTCACAGACACTTAAAAGATTGT 57.134 32.000 0.00 0.00 0.00 2.71
267 288 7.697691 AGTTCACAGACACTTAAAAGATTGTG 58.302 34.615 0.00 5.77 36.82 3.33
268 289 7.552687 AGTTCACAGACACTTAAAAGATTGTGA 59.447 33.333 13.66 13.66 41.11 3.58
272 293 9.599322 CACAGACACTTAAAAGATTGTGAATAC 57.401 33.333 0.00 0.00 37.46 1.89
274 295 9.003658 CAGACACTTAAAAGATTGTGAATACCT 57.996 33.333 0.00 0.00 34.81 3.08
275 296 9.574516 AGACACTTAAAAGATTGTGAATACCTT 57.425 29.630 0.00 0.00 34.81 3.50
286 307 9.995003 AGATTGTGAATACCTTTTAAATTTGCA 57.005 25.926 0.00 0.00 0.00 4.08
290 311 9.606631 TGTGAATACCTTTTAAATTTGCAAAGT 57.393 25.926 18.19 12.65 0.00 2.66
449 485 5.587844 CAGCTTTTTATGAGATAGCAGTGGT 59.412 40.000 0.00 0.00 34.37 4.16
459 495 3.782244 GCAGTGGTGCGAGCGAAG 61.782 66.667 0.00 0.00 40.71 3.79
464 500 0.517316 GTGGTGCGAGCGAAGAAAAT 59.483 50.000 0.00 0.00 0.00 1.82
465 501 0.516877 TGGTGCGAGCGAAGAAAATG 59.483 50.000 0.00 0.00 0.00 2.32
466 502 0.796312 GGTGCGAGCGAAGAAAATGA 59.204 50.000 0.00 0.00 0.00 2.57
467 503 1.398390 GGTGCGAGCGAAGAAAATGAT 59.602 47.619 0.00 0.00 0.00 2.45
468 504 2.607635 GGTGCGAGCGAAGAAAATGATA 59.392 45.455 0.00 0.00 0.00 2.15
469 505 3.248602 GGTGCGAGCGAAGAAAATGATAT 59.751 43.478 0.00 0.00 0.00 1.63
470 506 4.206843 GTGCGAGCGAAGAAAATGATATG 58.793 43.478 0.00 0.00 0.00 1.78
471 507 3.221567 GCGAGCGAAGAAAATGATATGC 58.778 45.455 0.00 0.00 0.00 3.14
472 508 3.464053 CGAGCGAAGAAAATGATATGCG 58.536 45.455 0.00 0.00 0.00 4.73
473 509 3.182372 CGAGCGAAGAAAATGATATGCGA 59.818 43.478 0.00 0.00 0.00 5.10
474 510 4.449779 GAGCGAAGAAAATGATATGCGAC 58.550 43.478 0.00 0.00 0.00 5.19
486 522 0.604073 TATGCGACCGAGTGGAACAA 59.396 50.000 0.00 0.00 44.16 2.83
496 532 1.531578 GAGTGGAACAAAGAGCCGAAC 59.468 52.381 0.00 0.00 44.16 3.95
500 536 3.186613 GTGGAACAAAGAGCCGAACTAAG 59.813 47.826 0.00 0.00 44.16 2.18
501 537 2.159824 GGAACAAAGAGCCGAACTAAGC 59.840 50.000 0.00 0.00 0.00 3.09
508 544 2.167861 GCCGAACTAAGCGAGCAGG 61.168 63.158 0.00 0.00 0.00 4.85
533 569 5.409826 AGCTTAATGACTAGCTTGTGTGAAC 59.590 40.000 5.27 0.00 45.03 3.18
534 570 5.179368 GCTTAATGACTAGCTTGTGTGAACA 59.821 40.000 5.27 0.00 34.57 3.18
538 574 7.928307 AATGACTAGCTTGTGTGAACATTAT 57.072 32.000 5.27 0.00 0.00 1.28
549 585 5.767665 TGTGTGAACATTATAGTGGCAGTTT 59.232 36.000 0.00 0.00 0.00 2.66
553 589 5.414454 TGAACATTATAGTGGCAGTTTCACC 59.586 40.000 0.00 0.00 35.87 4.02
556 592 5.357878 ACATTATAGTGGCAGTTTCACCATG 59.642 40.000 0.00 0.00 38.46 3.66
557 593 2.198827 TAGTGGCAGTTTCACCATGG 57.801 50.000 11.19 11.19 38.46 3.66
558 594 0.478072 AGTGGCAGTTTCACCATGGA 59.522 50.000 21.47 0.00 38.46 3.41
560 596 1.895131 GTGGCAGTTTCACCATGGAAT 59.105 47.619 21.47 0.00 38.46 3.01
561 597 3.088532 GTGGCAGTTTCACCATGGAATA 58.911 45.455 21.47 0.00 38.46 1.75
569 610 4.963276 TTCACCATGGAATAAAAGCTCG 57.037 40.909 21.47 0.00 0.00 5.03
573 614 3.701040 ACCATGGAATAAAAGCTCGCAAT 59.299 39.130 21.47 0.00 0.00 3.56
581 622 1.589716 AAAGCTCGCAATGGGCTCAC 61.590 55.000 0.00 0.00 41.67 3.51
594 639 2.447887 GCTCACGCCACGACTCATG 61.448 63.158 0.00 0.00 0.00 3.07
600 645 2.094659 GCCACGACTCATGACACCG 61.095 63.158 0.00 0.00 0.00 4.94
604 649 1.455786 CACGACTCATGACACCGAAAC 59.544 52.381 11.95 0.00 0.00 2.78
605 650 1.068474 CGACTCATGACACCGAAACC 58.932 55.000 0.00 0.00 0.00 3.27
606 651 1.604438 CGACTCATGACACCGAAACCA 60.604 52.381 0.00 0.00 0.00 3.67
613 658 4.822350 TCATGACACCGAAACCAAAATGTA 59.178 37.500 0.00 0.00 0.00 2.29
618 663 6.711194 TGACACCGAAACCAAAATGTATAAGA 59.289 34.615 0.00 0.00 0.00 2.10
624 669 7.364200 CGAAACCAAAATGTATAAGAACACCA 58.636 34.615 0.00 0.00 30.75 4.17
625 670 7.325097 CGAAACCAAAATGTATAAGAACACCAC 59.675 37.037 0.00 0.00 30.75 4.16
628 673 8.189119 ACCAAAATGTATAAGAACACCACAAT 57.811 30.769 0.00 0.00 30.75 2.71
645 690 4.261155 CCACAATCACACATCGAACAACTT 60.261 41.667 0.00 0.00 0.00 2.66
652 697 4.051922 ACACATCGAACAACTTCACTCTC 58.948 43.478 0.00 0.00 0.00 3.20
657 702 3.253677 TCGAACAACTTCACTCTCCTCTC 59.746 47.826 0.00 0.00 0.00 3.20
669 714 4.627467 CACTCTCCTCTCAAACAAATACCG 59.373 45.833 0.00 0.00 0.00 4.02
671 716 4.817517 TCTCCTCTCAAACAAATACCGTC 58.182 43.478 0.00 0.00 0.00 4.79
679 724 5.543714 TCAAACAAATACCGTCTCTAGCAA 58.456 37.500 0.00 0.00 0.00 3.91
686 731 0.537188 CCGTCTCTAGCAACACCCAT 59.463 55.000 0.00 0.00 0.00 4.00
689 734 2.159043 CGTCTCTAGCAACACCCATCAT 60.159 50.000 0.00 0.00 0.00 2.45
694 739 5.545335 TCTCTAGCAACACCCATCATGATAT 59.455 40.000 8.15 0.00 0.00 1.63
696 741 6.701340 TCTAGCAACACCCATCATGATATAC 58.299 40.000 8.15 0.00 0.00 1.47
701 746 6.593770 GCAACACCCATCATGATATACGAATA 59.406 38.462 8.15 0.00 0.00 1.75
702 747 7.119116 GCAACACCCATCATGATATACGAATAA 59.881 37.037 8.15 0.00 0.00 1.40
742 791 9.301153 CAGAACATAATTAATACCAAAGCCAAC 57.699 33.333 0.00 0.00 0.00 3.77
743 792 9.030452 AGAACATAATTAATACCAAAGCCAACA 57.970 29.630 0.00 0.00 0.00 3.33
744 793 8.996024 AACATAATTAATACCAAAGCCAACAC 57.004 30.769 0.00 0.00 0.00 3.32
752 801 6.909550 ATACCAAAGCCAACACAGATAAAA 57.090 33.333 0.00 0.00 0.00 1.52
760 809 4.498345 GCCAACACAGATAAAACCAAACGA 60.498 41.667 0.00 0.00 0.00 3.85
762 811 6.037098 CCAACACAGATAAAACCAAACGAAA 58.963 36.000 0.00 0.00 0.00 3.46
763 812 6.020201 CCAACACAGATAAAACCAAACGAAAC 60.020 38.462 0.00 0.00 0.00 2.78
764 813 6.197364 ACACAGATAAAACCAAACGAAACA 57.803 33.333 0.00 0.00 0.00 2.83
765 814 6.622549 ACACAGATAAAACCAAACGAAACAA 58.377 32.000 0.00 0.00 0.00 2.83
766 815 7.091443 ACACAGATAAAACCAAACGAAACAAA 58.909 30.769 0.00 0.00 0.00 2.83
767 816 7.062488 ACACAGATAAAACCAAACGAAACAAAC 59.938 33.333 0.00 0.00 0.00 2.93
768 817 7.062371 CACAGATAAAACCAAACGAAACAAACA 59.938 33.333 0.00 0.00 0.00 2.83
769 818 7.599245 ACAGATAAAACCAAACGAAACAAACAA 59.401 29.630 0.00 0.00 0.00 2.83
770 819 7.895767 CAGATAAAACCAAACGAAACAAACAAC 59.104 33.333 0.00 0.00 0.00 3.32
771 820 4.994220 AAACCAAACGAAACAAACAACC 57.006 36.364 0.00 0.00 0.00 3.77
772 821 2.597520 ACCAAACGAAACAAACAACCG 58.402 42.857 0.00 0.00 0.00 4.44
773 822 1.322040 CCAAACGAAACAAACAACCGC 59.678 47.619 0.00 0.00 0.00 5.68
774 823 1.986378 CAAACGAAACAAACAACCGCA 59.014 42.857 0.00 0.00 0.00 5.69
775 824 2.349297 AACGAAACAAACAACCGCAA 57.651 40.000 0.00 0.00 0.00 4.85
776 825 2.570442 ACGAAACAAACAACCGCAAT 57.430 40.000 0.00 0.00 0.00 3.56
777 826 3.694535 ACGAAACAAACAACCGCAATA 57.305 38.095 0.00 0.00 0.00 1.90
778 827 4.030134 ACGAAACAAACAACCGCAATAA 57.970 36.364 0.00 0.00 0.00 1.40
779 828 3.792421 ACGAAACAAACAACCGCAATAAC 59.208 39.130 0.00 0.00 0.00 1.89
780 829 3.791887 CGAAACAAACAACCGCAATAACA 59.208 39.130 0.00 0.00 0.00 2.41
781 830 4.442733 CGAAACAAACAACCGCAATAACAT 59.557 37.500 0.00 0.00 0.00 2.71
782 831 5.609269 CGAAACAAACAACCGCAATAACATG 60.609 40.000 0.00 0.00 0.00 3.21
783 832 4.314740 ACAAACAACCGCAATAACATGT 57.685 36.364 0.00 0.00 0.00 3.21
784 833 4.688021 ACAAACAACCGCAATAACATGTT 58.312 34.783 16.68 16.68 32.78 2.71
785 834 5.833082 ACAAACAACCGCAATAACATGTTA 58.167 33.333 20.14 20.14 31.33 2.41
786 835 5.918011 ACAAACAACCGCAATAACATGTTAG 59.082 36.000 22.03 11.61 31.33 2.34
787 836 5.950758 AACAACCGCAATAACATGTTAGA 57.049 34.783 22.03 3.96 29.89 2.10
788 837 5.545658 ACAACCGCAATAACATGTTAGAG 57.454 39.130 22.03 17.13 0.00 2.43
825 874 2.970324 GTGAAGAACGGCGTGGCA 60.970 61.111 15.70 6.80 0.00 4.92
863 912 2.216898 AGCTGTTTGTGAAGTGCTCTC 58.783 47.619 0.00 0.00 0.00 3.20
868 924 3.953612 TGTTTGTGAAGTGCTCTCCATTT 59.046 39.130 0.00 0.00 0.00 2.32
926 982 8.861086 GTTGTAGAGAATGAGATGGGTATAGAA 58.139 37.037 0.00 0.00 0.00 2.10
933 989 8.854117 AGAATGAGATGGGTATAGAAAATTTGC 58.146 33.333 0.00 0.00 0.00 3.68
934 990 8.773033 AATGAGATGGGTATAGAAAATTTGCT 57.227 30.769 3.62 3.62 0.00 3.91
936 992 8.908786 TGAGATGGGTATAGAAAATTTGCTAG 57.091 34.615 11.58 0.00 0.00 3.42
937 993 8.494433 TGAGATGGGTATAGAAAATTTGCTAGT 58.506 33.333 11.58 3.44 0.00 2.57
938 994 8.682936 AGATGGGTATAGAAAATTTGCTAGTG 57.317 34.615 11.58 0.00 0.00 2.74
939 995 8.275040 AGATGGGTATAGAAAATTTGCTAGTGT 58.725 33.333 11.58 0.00 0.00 3.55
940 996 7.859325 TGGGTATAGAAAATTTGCTAGTGTC 57.141 36.000 11.58 3.12 0.00 3.67
941 997 7.630082 TGGGTATAGAAAATTTGCTAGTGTCT 58.370 34.615 11.58 2.27 0.00 3.41
942 998 7.552687 TGGGTATAGAAAATTTGCTAGTGTCTG 59.447 37.037 11.58 0.00 0.00 3.51
943 999 7.769044 GGGTATAGAAAATTTGCTAGTGTCTGA 59.231 37.037 11.58 0.00 0.00 3.27
944 1000 8.821894 GGTATAGAAAATTTGCTAGTGTCTGAG 58.178 37.037 11.58 0.00 0.00 3.35
945 1001 9.587772 GTATAGAAAATTTGCTAGTGTCTGAGA 57.412 33.333 11.58 0.00 0.00 3.27
947 1003 7.432350 AGAAAATTTGCTAGTGTCTGAGAAG 57.568 36.000 0.00 0.00 0.00 2.85
948 1004 6.429385 AGAAAATTTGCTAGTGTCTGAGAAGG 59.571 38.462 0.00 0.00 0.00 3.46
949 1005 2.751166 TTGCTAGTGTCTGAGAAGGC 57.249 50.000 0.00 0.00 0.00 4.35
950 1006 0.898320 TGCTAGTGTCTGAGAAGGCC 59.102 55.000 0.00 0.00 0.00 5.19
966 1032 0.179045 GGCCATGCGGTAGAGTTGAT 60.179 55.000 0.00 0.00 33.28 2.57
978 1044 6.084277 CGGTAGAGTTGATTTGCCTAAAAAC 58.916 40.000 0.00 0.00 0.00 2.43
1057 1138 4.811761 GCGCCGCCGTCATCAAAC 62.812 66.667 0.00 0.00 36.67 2.93
1058 1139 3.418913 CGCCGCCGTCATCAAACA 61.419 61.111 0.00 0.00 0.00 2.83
1063 1144 0.948623 CGCCGTCATCAAACACTCCA 60.949 55.000 0.00 0.00 0.00 3.86
1536 1617 2.750237 GGGGTCGCCATGAACACC 60.750 66.667 0.00 0.00 35.31 4.16
1762 1843 1.214175 ACATTGTCACCTGGAACACCA 59.786 47.619 0.00 0.00 0.00 4.17
1831 1912 1.526887 CATAGGGACATGGTGGCGT 59.473 57.895 0.00 0.00 0.00 5.68
1969 2050 1.338294 CGGGTGTGGCTATGTACAACA 60.338 52.381 0.00 0.00 36.24 3.33
2016 2097 6.159398 AGGATGGTAAGATGAAGGAAGTGAAT 59.841 38.462 0.00 0.00 0.00 2.57
2028 2109 3.074538 AGGAAGTGAATGGGTTGCTTAGT 59.925 43.478 0.00 0.00 0.00 2.24
2037 2118 3.153919 TGGGTTGCTTAGTGAAATGGAC 58.846 45.455 0.00 0.00 0.00 4.02
2269 2350 2.352715 GGTGCAGGTACTCCAAATTTGC 60.353 50.000 12.92 0.00 34.60 3.68
2282 2363 3.426025 CCAAATTTGCCTTATTTTGCGGC 60.426 43.478 12.92 0.00 44.02 6.53
2296 2392 4.576216 TTTGCGGCTTCAATCAGTAAAA 57.424 36.364 0.00 0.00 0.00 1.52
2305 2401 7.530863 GGCTTCAATCAGTAAAAGACTAAAGG 58.469 38.462 0.00 0.00 35.64 3.11
2313 2409 9.959721 ATCAGTAAAAGACTAAAGGCTGAATAA 57.040 29.630 0.00 0.00 35.64 1.40
2314 2410 9.787435 TCAGTAAAAGACTAAAGGCTGAATAAA 57.213 29.630 0.00 0.00 35.64 1.40
2350 2450 4.542697 ACCACCAACCAGTAATTTGAGTT 58.457 39.130 0.00 0.00 0.00 3.01
2352 2452 4.340950 CCACCAACCAGTAATTTGAGTTGT 59.659 41.667 0.00 0.00 36.85 3.32
2399 2499 2.387757 ACAATTGGTGTTCAAGCCAGT 58.612 42.857 10.83 0.00 37.01 4.00
2400 2500 2.101249 ACAATTGGTGTTCAAGCCAGTG 59.899 45.455 10.83 0.00 37.01 3.66
2401 2501 2.361757 CAATTGGTGTTCAAGCCAGTGA 59.638 45.455 0.00 0.00 38.95 3.41
2402 2502 1.388547 TTGGTGTTCAAGCCAGTGAC 58.611 50.000 0.00 0.00 36.00 3.67
2403 2503 0.546122 TGGTGTTCAAGCCAGTGACT 59.454 50.000 0.00 0.00 0.00 3.41
2404 2504 1.765904 TGGTGTTCAAGCCAGTGACTA 59.234 47.619 0.00 0.00 0.00 2.59
2405 2505 2.171659 TGGTGTTCAAGCCAGTGACTAA 59.828 45.455 0.00 0.00 0.00 2.24
2406 2506 3.211045 GGTGTTCAAGCCAGTGACTAAA 58.789 45.455 0.00 0.00 0.00 1.85
2407 2507 3.821033 GGTGTTCAAGCCAGTGACTAAAT 59.179 43.478 0.00 0.00 0.00 1.40
2408 2508 4.083271 GGTGTTCAAGCCAGTGACTAAATC 60.083 45.833 0.00 0.00 0.00 2.17
2409 2509 4.757149 GTGTTCAAGCCAGTGACTAAATCT 59.243 41.667 0.00 0.00 0.00 2.40
2410 2510 4.756642 TGTTCAAGCCAGTGACTAAATCTG 59.243 41.667 0.00 0.00 0.00 2.90
2411 2511 4.623932 TCAAGCCAGTGACTAAATCTGT 57.376 40.909 0.00 0.00 0.00 3.41
2412 2512 5.738619 TCAAGCCAGTGACTAAATCTGTA 57.261 39.130 0.00 0.00 0.00 2.74
2413 2513 5.479306 TCAAGCCAGTGACTAAATCTGTAC 58.521 41.667 0.00 0.00 0.00 2.90
2414 2514 5.011635 TCAAGCCAGTGACTAAATCTGTACA 59.988 40.000 0.00 0.00 0.00 2.90
2415 2515 5.683876 AGCCAGTGACTAAATCTGTACAT 57.316 39.130 0.00 0.00 0.00 2.29
2416 2516 5.665459 AGCCAGTGACTAAATCTGTACATC 58.335 41.667 0.00 0.00 0.00 3.06
2417 2517 5.187772 AGCCAGTGACTAAATCTGTACATCA 59.812 40.000 0.00 0.00 0.00 3.07
2418 2518 5.292101 GCCAGTGACTAAATCTGTACATCAC 59.708 44.000 13.24 13.24 36.16 3.06
2419 2519 5.812642 CCAGTGACTAAATCTGTACATCACC 59.187 44.000 16.18 3.61 36.48 4.02
2420 2520 6.351371 CCAGTGACTAAATCTGTACATCACCT 60.351 42.308 16.18 5.33 36.48 4.00
2421 2521 7.147897 CCAGTGACTAAATCTGTACATCACCTA 60.148 40.741 16.18 0.00 36.48 3.08
2422 2522 8.417106 CAGTGACTAAATCTGTACATCACCTAT 58.583 37.037 16.18 0.69 36.48 2.57
2423 2523 8.982723 AGTGACTAAATCTGTACATCACCTATT 58.017 33.333 16.18 0.41 36.48 1.73
2424 2524 9.035607 GTGACTAAATCTGTACATCACCTATTG 57.964 37.037 10.93 0.00 30.98 1.90
2425 2525 8.758829 TGACTAAATCTGTACATCACCTATTGT 58.241 33.333 0.00 0.00 0.00 2.71
2474 2574 7.497595 TCACTGGTTACTTAGGCATATTAGTG 58.502 38.462 0.00 0.00 33.79 2.74
2477 2577 6.823497 TGGTTACTTAGGCATATTAGTGTCC 58.177 40.000 0.00 0.00 0.00 4.02
2516 2616 6.912591 GGTTTTATCTGTATGCAGGATTTTCG 59.087 38.462 11.15 0.00 42.78 3.46
2551 2651 0.726827 TTTTCATGGCTCGTCGATGC 59.273 50.000 0.00 1.65 31.82 3.91
2552 2652 0.108186 TTTCATGGCTCGTCGATGCT 60.108 50.000 13.74 0.00 31.82 3.79
2561 2661 2.860735 GCTCGTCGATGCTTTCTACAAT 59.139 45.455 0.00 0.00 0.00 2.71
2633 2733 2.551071 GGGCCTTCCTCCAGATAAATCG 60.551 54.545 0.84 0.00 0.00 3.34
2697 2797 6.403866 TGGTTGATCTTGCACAAAAAGTAT 57.596 33.333 0.00 0.00 0.00 2.12
2832 2932 2.659016 CGAAGAGGCAGCTGTCCA 59.341 61.111 23.46 0.00 0.00 4.02
3023 3123 0.407139 ATGCTCCTGTTTCAAGGCCT 59.593 50.000 0.00 0.00 37.24 5.19
3102 3208 4.271696 TCATTACCATATGCTCCCTTCG 57.728 45.455 0.00 0.00 0.00 3.79
3156 3262 1.860950 CTCTGGTAATTCGTGGCATCG 59.139 52.381 0.00 0.00 0.00 3.84
3184 3290 7.441157 TCTGTTCTTTGTTGGTCTACTGTAATG 59.559 37.037 0.00 0.00 0.00 1.90
3189 3295 3.187700 GTTGGTCTACTGTAATGCCGAG 58.812 50.000 0.00 0.00 0.00 4.63
3204 3310 2.094390 TGCCGAGCTCGTGTATTTACTT 60.094 45.455 32.41 0.00 37.74 2.24
3206 3312 3.114065 CCGAGCTCGTGTATTTACTTCC 58.886 50.000 32.41 0.00 37.74 3.46
3365 3471 0.469917 CAGGACAGTTGAGGTGGTGT 59.530 55.000 0.00 0.00 0.00 4.16
3366 3472 0.469917 AGGACAGTTGAGGTGGTGTG 59.530 55.000 0.00 0.00 0.00 3.82
3549 3731 6.618166 GCATGCTTATCTATTTTCTGAGCTCG 60.618 42.308 11.37 4.19 0.00 5.03
3719 3903 6.801539 TCCTGTTTTGCTATTCAGTTAGTG 57.198 37.500 0.00 0.00 0.00 2.74
3753 3938 4.944048 ACTAAAAACAGATTTGTGTGGCC 58.056 39.130 0.00 0.00 37.67 5.36
3771 3956 0.901580 CCTTGGGCCTGCTTGACAAT 60.902 55.000 4.53 0.00 0.00 2.71
3805 3991 0.754957 CAGCCCAACCCAAGTGACAA 60.755 55.000 0.00 0.00 0.00 3.18
3812 3998 2.143876 ACCCAAGTGACAAAACTGCT 57.856 45.000 0.00 0.00 0.00 4.24
3843 4029 3.330267 CACTGGAGTTACTTCTTGAGCC 58.670 50.000 0.00 0.00 0.00 4.70
3853 4039 2.847327 TTCTTGAGCCACAGGAAGAG 57.153 50.000 2.79 0.00 39.16 2.85
3870 4056 1.840635 AGAGGAAGATAAGGTGGTGGC 59.159 52.381 0.00 0.00 0.00 5.01
3871 4057 0.919710 AGGAAGATAAGGTGGTGGCC 59.080 55.000 0.00 0.00 0.00 5.36
3872 4058 0.623723 GGAAGATAAGGTGGTGGCCA 59.376 55.000 0.00 0.00 0.00 5.36
3873 4059 1.408822 GGAAGATAAGGTGGTGGCCAG 60.409 57.143 5.11 0.00 32.34 4.85
3874 4060 0.625849 AAGATAAGGTGGTGGCCAGG 59.374 55.000 5.11 0.00 32.34 4.45
3953 4139 2.124507 CTGTTCCTTTCCCGCCTCCA 62.125 60.000 0.00 0.00 0.00 3.86
3972 4158 3.441290 CCTCCGACTTCGCCTCGT 61.441 66.667 0.00 0.00 38.18 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 6.582636 ACGCATCATAAGACTCCAAATCTAA 58.417 36.000 0.00 0.00 0.00 2.10
12 13 3.046390 CCTTCGACGCATCATAAGACTC 58.954 50.000 0.00 0.00 0.00 3.36
16 17 0.504384 CGCCTTCGACGCATCATAAG 59.496 55.000 4.67 0.00 38.10 1.73
19 20 2.011741 TACCGCCTTCGACGCATCAT 62.012 55.000 4.67 0.00 38.10 2.45
26 27 3.073101 ACCCCTACCGCCTTCGAC 61.073 66.667 0.00 0.00 38.10 4.20
33 34 3.782443 CCCAGTGACCCCTACCGC 61.782 72.222 0.00 0.00 0.00 5.68
35 36 1.993948 GGACCCAGTGACCCCTACC 60.994 68.421 0.00 0.00 0.00 3.18
42 43 0.393820 TACAAACGGGACCCAGTGAC 59.606 55.000 12.15 0.00 0.00 3.67
45 46 0.399075 CCTTACAAACGGGACCCAGT 59.601 55.000 12.15 6.77 0.00 4.00
51 52 0.838608 ACACACCCTTACAAACGGGA 59.161 50.000 0.58 0.00 43.44 5.14
55 56 4.499019 CCAATGACACACACCCTTACAAAC 60.499 45.833 0.00 0.00 0.00 2.93
73 74 4.202243 ACAAACATGAACCCTCAACCAATG 60.202 41.667 0.00 0.00 34.49 2.82
74 75 3.966665 ACAAACATGAACCCTCAACCAAT 59.033 39.130 0.00 0.00 34.49 3.16
152 153 9.978336 AATGTTCATGGATTAAAATGGGAAAAT 57.022 25.926 0.00 0.00 0.00 1.82
248 269 9.003658 AGGTATTCACAATCTTTTAAGTGTCTG 57.996 33.333 0.00 0.00 33.84 3.51
264 285 9.606631 ACTTTGCAAATTTAAAAGGTATTCACA 57.393 25.926 13.23 0.00 35.64 3.58
417 451 7.148440 GCTATCTCATAAAAAGCTGGCTATCAG 60.148 40.741 0.00 0.00 46.03 2.90
424 460 5.008415 CCACTGCTATCTCATAAAAAGCTGG 59.992 44.000 0.00 0.00 36.71 4.85
449 485 3.303329 GCATATCATTTTCTTCGCTCGCA 60.303 43.478 0.00 0.00 0.00 5.10
456 492 4.508124 ACTCGGTCGCATATCATTTTCTTC 59.492 41.667 0.00 0.00 0.00 2.87
459 495 3.059597 CCACTCGGTCGCATATCATTTTC 60.060 47.826 0.00 0.00 0.00 2.29
464 500 1.107945 TTCCACTCGGTCGCATATCA 58.892 50.000 0.00 0.00 0.00 2.15
465 501 1.202371 TGTTCCACTCGGTCGCATATC 60.202 52.381 0.00 0.00 0.00 1.63
466 502 0.821517 TGTTCCACTCGGTCGCATAT 59.178 50.000 0.00 0.00 0.00 1.78
467 503 0.604073 TTGTTCCACTCGGTCGCATA 59.396 50.000 0.00 0.00 0.00 3.14
468 504 0.250124 TTTGTTCCACTCGGTCGCAT 60.250 50.000 0.00 0.00 0.00 4.73
469 505 0.878523 CTTTGTTCCACTCGGTCGCA 60.879 55.000 0.00 0.00 0.00 5.10
470 506 0.599204 TCTTTGTTCCACTCGGTCGC 60.599 55.000 0.00 0.00 0.00 5.19
471 507 1.419374 CTCTTTGTTCCACTCGGTCG 58.581 55.000 0.00 0.00 0.00 4.79
472 508 1.149148 GCTCTTTGTTCCACTCGGTC 58.851 55.000 0.00 0.00 0.00 4.79
473 509 0.250338 GGCTCTTTGTTCCACTCGGT 60.250 55.000 0.00 0.00 0.00 4.69
474 510 1.291877 CGGCTCTTTGTTCCACTCGG 61.292 60.000 0.00 0.00 0.00 4.63
486 522 0.458716 GCTCGCTTAGTTCGGCTCTT 60.459 55.000 0.00 0.00 0.00 2.85
515 551 8.260818 ACTATAATGTTCACACAAGCTAGTCAT 58.739 33.333 0.00 0.00 36.16 3.06
520 556 5.584649 GCCACTATAATGTTCACACAAGCTA 59.415 40.000 0.00 0.00 36.16 3.32
521 557 4.396166 GCCACTATAATGTTCACACAAGCT 59.604 41.667 0.00 0.00 36.16 3.74
524 560 5.312895 ACTGCCACTATAATGTTCACACAA 58.687 37.500 0.00 0.00 36.16 3.33
525 561 4.905429 ACTGCCACTATAATGTTCACACA 58.095 39.130 0.00 0.00 37.31 3.72
533 569 5.221106 CCATGGTGAAACTGCCACTATAATG 60.221 44.000 2.57 0.00 37.62 1.90
534 570 4.889409 CCATGGTGAAACTGCCACTATAAT 59.111 41.667 2.57 0.00 37.62 1.28
538 574 1.702401 TCCATGGTGAAACTGCCACTA 59.298 47.619 12.58 0.00 37.62 2.74
549 585 2.682856 GCGAGCTTTTATTCCATGGTGA 59.317 45.455 12.58 1.99 0.00 4.02
553 589 4.046462 CCATTGCGAGCTTTTATTCCATG 58.954 43.478 0.00 0.00 0.00 3.66
556 592 2.799562 GCCCATTGCGAGCTTTTATTCC 60.800 50.000 0.00 0.00 0.00 3.01
557 593 2.463876 GCCCATTGCGAGCTTTTATTC 58.536 47.619 0.00 0.00 0.00 1.75
558 594 2.584492 GCCCATTGCGAGCTTTTATT 57.416 45.000 0.00 0.00 0.00 1.40
581 622 2.094659 GGTGTCATGAGTCGTGGCG 61.095 63.158 12.16 0.00 0.00 5.69
586 627 1.068474 GGTTTCGGTGTCATGAGTCG 58.932 55.000 0.00 0.42 0.00 4.18
590 631 3.634448 ACATTTTGGTTTCGGTGTCATGA 59.366 39.130 0.00 0.00 0.00 3.07
591 632 3.976169 ACATTTTGGTTTCGGTGTCATG 58.024 40.909 0.00 0.00 0.00 3.07
592 633 5.975693 ATACATTTTGGTTTCGGTGTCAT 57.024 34.783 0.00 0.00 0.00 3.06
594 639 7.136289 TCTTATACATTTTGGTTTCGGTGTC 57.864 36.000 0.00 0.00 0.00 3.67
600 645 8.138712 TGTGGTGTTCTTATACATTTTGGTTTC 58.861 33.333 0.00 0.00 0.00 2.78
604 649 8.303156 TGATTGTGGTGTTCTTATACATTTTGG 58.697 33.333 0.00 0.00 0.00 3.28
605 650 9.128107 GTGATTGTGGTGTTCTTATACATTTTG 57.872 33.333 0.00 0.00 0.00 2.44
606 651 8.855110 TGTGATTGTGGTGTTCTTATACATTTT 58.145 29.630 0.00 0.00 0.00 1.82
613 658 5.122239 CGATGTGTGATTGTGGTGTTCTTAT 59.878 40.000 0.00 0.00 0.00 1.73
618 663 2.844946 TCGATGTGTGATTGTGGTGTT 58.155 42.857 0.00 0.00 0.00 3.32
624 669 4.574421 TGAAGTTGTTCGATGTGTGATTGT 59.426 37.500 0.00 0.00 35.17 2.71
625 670 4.905866 GTGAAGTTGTTCGATGTGTGATTG 59.094 41.667 0.00 0.00 35.17 2.67
628 673 3.792401 AGTGAAGTTGTTCGATGTGTGA 58.208 40.909 0.00 0.00 35.17 3.58
645 690 5.566826 CGGTATTTGTTTGAGAGGAGAGTGA 60.567 44.000 0.00 0.00 0.00 3.41
652 697 4.822026 AGAGACGGTATTTGTTTGAGAGG 58.178 43.478 0.00 0.00 0.00 3.69
657 702 5.178623 TGTTGCTAGAGACGGTATTTGTTTG 59.821 40.000 0.00 0.00 0.00 2.93
669 714 3.118629 TCATGATGGGTGTTGCTAGAGAC 60.119 47.826 0.00 0.00 0.00 3.36
671 716 3.548745 TCATGATGGGTGTTGCTAGAG 57.451 47.619 0.00 0.00 0.00 2.43
679 724 9.567776 TTTTTATTCGTATATCATGATGGGTGT 57.432 29.630 18.72 2.10 0.00 4.16
714 763 8.682710 TGGCTTTGGTATTAATTATGTTCTGAC 58.317 33.333 0.00 0.00 0.00 3.51
730 779 5.010213 GGTTTTATCTGTGTTGGCTTTGGTA 59.990 40.000 0.00 0.00 0.00 3.25
734 783 5.606348 TTGGTTTTATCTGTGTTGGCTTT 57.394 34.783 0.00 0.00 0.00 3.51
742 791 7.062371 TGTTTGTTTCGTTTGGTTTTATCTGTG 59.938 33.333 0.00 0.00 0.00 3.66
743 792 7.091443 TGTTTGTTTCGTTTGGTTTTATCTGT 58.909 30.769 0.00 0.00 0.00 3.41
744 793 7.513190 TGTTTGTTTCGTTTGGTTTTATCTG 57.487 32.000 0.00 0.00 0.00 2.90
752 801 2.597520 CGGTTGTTTGTTTCGTTTGGT 58.402 42.857 0.00 0.00 0.00 3.67
760 809 5.112686 ACATGTTATTGCGGTTGTTTGTTT 58.887 33.333 0.00 0.00 0.00 2.83
762 811 4.314740 ACATGTTATTGCGGTTGTTTGT 57.685 36.364 0.00 0.00 0.00 2.83
763 812 6.146216 TCTAACATGTTATTGCGGTTGTTTG 58.854 36.000 18.35 2.97 0.00 2.93
764 813 6.205853 TCTCTAACATGTTATTGCGGTTGTTT 59.794 34.615 18.35 0.00 0.00 2.83
765 814 5.703592 TCTCTAACATGTTATTGCGGTTGTT 59.296 36.000 18.35 0.00 0.00 2.83
766 815 5.242434 TCTCTAACATGTTATTGCGGTTGT 58.758 37.500 18.35 0.00 0.00 3.32
767 816 5.794687 TCTCTAACATGTTATTGCGGTTG 57.205 39.130 18.35 5.00 0.00 3.77
768 817 6.811253 TTTCTCTAACATGTTATTGCGGTT 57.189 33.333 18.35 0.00 0.00 4.44
769 818 6.811253 TTTTCTCTAACATGTTATTGCGGT 57.189 33.333 18.35 0.00 0.00 5.68
797 846 2.663602 CCGTTCTTCACTCGTGAGATTG 59.336 50.000 3.44 0.00 41.13 2.67
805 854 2.372690 CCACGCCGTTCTTCACTCG 61.373 63.158 0.00 0.00 0.00 4.18
840 889 4.199310 AGAGCACTTCACAAACAGCTAAA 58.801 39.130 0.00 0.00 31.61 1.85
898 954 7.682787 ATACCCATCTCATTCTCTACAACTT 57.317 36.000 0.00 0.00 0.00 2.66
899 955 8.228206 TCTATACCCATCTCATTCTCTACAACT 58.772 37.037 0.00 0.00 0.00 3.16
926 982 4.457257 GCCTTCTCAGACACTAGCAAATTT 59.543 41.667 0.00 0.00 0.00 1.82
932 988 0.898320 TGGCCTTCTCAGACACTAGC 59.102 55.000 3.32 0.00 0.00 3.42
933 989 2.741228 GCATGGCCTTCTCAGACACTAG 60.741 54.545 3.32 0.00 0.00 2.57
934 990 1.208052 GCATGGCCTTCTCAGACACTA 59.792 52.381 3.32 0.00 0.00 2.74
936 992 1.364626 CGCATGGCCTTCTCAGACAC 61.365 60.000 3.32 0.00 0.00 3.67
937 993 1.078918 CGCATGGCCTTCTCAGACA 60.079 57.895 3.32 0.00 0.00 3.41
938 994 1.817099 CCGCATGGCCTTCTCAGAC 60.817 63.158 3.32 0.00 0.00 3.51
939 995 0.975556 TACCGCATGGCCTTCTCAGA 60.976 55.000 3.32 0.00 39.70 3.27
940 996 0.531532 CTACCGCATGGCCTTCTCAG 60.532 60.000 3.32 0.00 39.70 3.35
941 997 0.975556 TCTACCGCATGGCCTTCTCA 60.976 55.000 3.32 0.00 39.70 3.27
942 998 0.249657 CTCTACCGCATGGCCTTCTC 60.250 60.000 3.32 0.00 39.70 2.87
943 999 0.978146 ACTCTACCGCATGGCCTTCT 60.978 55.000 3.32 0.00 39.70 2.85
944 1000 0.107654 AACTCTACCGCATGGCCTTC 60.108 55.000 3.32 0.00 39.70 3.46
945 1001 0.392998 CAACTCTACCGCATGGCCTT 60.393 55.000 3.32 0.00 39.70 4.35
947 1003 0.179045 ATCAACTCTACCGCATGGCC 60.179 55.000 0.00 0.00 39.70 5.36
948 1004 1.668419 AATCAACTCTACCGCATGGC 58.332 50.000 0.00 0.00 39.70 4.40
949 1005 2.223340 GCAAATCAACTCTACCGCATGG 60.223 50.000 0.00 0.00 42.84 3.66
950 1006 2.223340 GGCAAATCAACTCTACCGCATG 60.223 50.000 0.00 0.00 0.00 4.06
966 1032 4.720046 GGGGATTTTGGTTTTTAGGCAAA 58.280 39.130 0.00 0.00 0.00 3.68
978 1044 3.448340 CCGCCACGGGGATTTTGG 61.448 66.667 8.67 0.00 44.15 3.28
1057 1138 2.743752 CGTGCGGCTTGATGGAGTG 61.744 63.158 0.00 0.00 0.00 3.51
1058 1139 2.434884 CGTGCGGCTTGATGGAGT 60.435 61.111 0.00 0.00 0.00 3.85
1740 1821 2.487265 GGTGTTCCAGGTGACAATGTCT 60.487 50.000 14.97 0.00 33.15 3.41
1762 1843 0.255604 TTGCACATCCCGTGGATCAT 59.744 50.000 2.76 0.00 46.32 2.45
1831 1912 0.324368 ATGTCCGGCTCTACACCTGA 60.324 55.000 0.00 0.00 0.00 3.86
1893 1974 1.889105 CATCGCTTCCCCCACATCG 60.889 63.158 0.00 0.00 0.00 3.84
1969 2050 3.701542 TCACAGAGCTTCCTAATGATCGT 59.298 43.478 0.00 0.00 0.00 3.73
2016 2097 3.153919 GTCCATTTCACTAAGCAACCCA 58.846 45.455 0.00 0.00 0.00 4.51
2028 2109 2.028112 CACCTTCCTCTCGTCCATTTCA 60.028 50.000 0.00 0.00 0.00 2.69
2037 2118 2.125350 GCCTGCACCTTCCTCTCG 60.125 66.667 0.00 0.00 0.00 4.04
2269 2350 4.107622 CTGATTGAAGCCGCAAAATAAGG 58.892 43.478 0.00 0.00 0.00 2.69
2282 2363 8.233190 CAGCCTTTAGTCTTTTACTGATTGAAG 58.767 37.037 0.00 0.00 39.39 3.02
2323 2419 6.548321 TCAAATTACTGGTTGGTGGTTAGAT 58.452 36.000 0.00 0.00 0.00 1.98
2342 2442 6.716628 ACATAAGGATCACACACAACTCAAAT 59.283 34.615 0.00 0.00 0.00 2.32
2350 2450 8.536175 TCTATTGTAACATAAGGATCACACACA 58.464 33.333 0.00 0.00 0.00 3.72
2352 2452 9.952030 TTTCTATTGTAACATAAGGATCACACA 57.048 29.630 0.00 0.00 0.00 3.72
2382 2482 1.956477 GTCACTGGCTTGAACACCAAT 59.044 47.619 0.00 0.00 34.96 3.16
2384 2484 0.546122 AGTCACTGGCTTGAACACCA 59.454 50.000 0.00 0.00 0.00 4.17
2390 2490 4.623932 ACAGATTTAGTCACTGGCTTGA 57.376 40.909 0.00 0.00 36.17 3.02
2394 2494 5.292101 GTGATGTACAGATTTAGTCACTGGC 59.708 44.000 13.67 0.00 36.17 4.85
2395 2495 5.812642 GGTGATGTACAGATTTAGTCACTGG 59.187 44.000 18.16 0.00 35.90 4.00
2396 2496 6.634805 AGGTGATGTACAGATTTAGTCACTG 58.365 40.000 18.16 0.00 35.90 3.66
2397 2497 6.859112 AGGTGATGTACAGATTTAGTCACT 57.141 37.500 18.16 6.58 35.90 3.41
2398 2498 9.035607 CAATAGGTGATGTACAGATTTAGTCAC 57.964 37.037 12.88 12.88 35.11 3.67
2399 2499 8.758829 ACAATAGGTGATGTACAGATTTAGTCA 58.241 33.333 0.33 0.00 0.00 3.41
2428 2528 9.956720 CAGTGAAATGATGTAAAGAGTTCTTTT 57.043 29.630 11.95 0.00 43.07 2.27
2429 2529 8.571336 CCAGTGAAATGATGTAAAGAGTTCTTT 58.429 33.333 11.48 11.48 46.78 2.52
2430 2530 7.721399 ACCAGTGAAATGATGTAAAGAGTTCTT 59.279 33.333 0.00 0.00 37.91 2.52
2431 2531 7.227156 ACCAGTGAAATGATGTAAAGAGTTCT 58.773 34.615 0.00 0.00 0.00 3.01
2432 2532 7.440523 ACCAGTGAAATGATGTAAAGAGTTC 57.559 36.000 0.00 0.00 0.00 3.01
2447 2547 8.545472 ACTAATATGCCTAAGTAACCAGTGAAA 58.455 33.333 0.00 0.00 0.00 2.69
2474 2574 4.823790 AAACCAAACATCGTTAGTGGAC 57.176 40.909 4.92 0.00 33.39 4.02
2477 2577 7.581476 ACAGATAAAACCAAACATCGTTAGTG 58.419 34.615 0.00 0.00 0.00 2.74
2483 2583 6.550843 TGCATACAGATAAAACCAAACATCG 58.449 36.000 0.00 0.00 0.00 3.84
2516 2616 6.868339 GCCATGAAAATACACTATAATTGGGC 59.132 38.462 0.00 0.00 0.00 5.36
2633 2733 3.752665 TCGGATCAGAGACCTGTATACC 58.247 50.000 0.00 0.00 41.16 2.73
2697 2797 2.996249 TTGCCTTGCATTTGGTGAAA 57.004 40.000 0.00 0.00 38.76 2.69
2832 2932 2.497675 AGTTGTAGATCTGTGGCGTCAT 59.502 45.455 5.18 0.00 0.00 3.06
3023 3123 2.493030 GCAGACGCCGGTAAGCTA 59.507 61.111 1.90 0.00 0.00 3.32
3102 3208 1.197721 CTTGCACGATGGAAGGTTCAC 59.802 52.381 10.05 0.00 41.35 3.18
3156 3262 4.212214 CAGTAGACCAACAAAGAACAGAGC 59.788 45.833 0.00 0.00 0.00 4.09
3184 3290 2.205307 AGTAAATACACGAGCTCGGC 57.795 50.000 36.93 16.79 44.95 5.54
3189 3295 7.766219 TTTGATAGGAAGTAAATACACGAGC 57.234 36.000 0.00 0.00 0.00 5.03
3204 3310 6.928492 GCACCTGAAAACAATTTTTGATAGGA 59.072 34.615 0.00 0.00 34.94 2.94
3206 3312 7.120789 GGCACCTGAAAACAATTTTTGATAG 57.879 36.000 0.00 0.00 34.94 2.08
3365 3471 0.817634 CCGGCTGACAAGGTGTTTCA 60.818 55.000 0.00 0.00 0.00 2.69
3366 3472 0.534203 TCCGGCTGACAAGGTGTTTC 60.534 55.000 0.00 0.00 0.00 2.78
3378 3484 0.249657 GTCCTGCTTCTATCCGGCTG 60.250 60.000 0.00 0.00 0.00 4.85
3453 3559 7.426929 AATTGAGTTAGCACACTCTTAACTG 57.573 36.000 14.46 0.00 43.32 3.16
3454 3560 9.155975 CATAATTGAGTTAGCACACTCTTAACT 57.844 33.333 14.46 4.75 43.32 2.24
3549 3731 3.756434 TGCCTATTTGTTGCTACCTTGTC 59.244 43.478 0.00 0.00 0.00 3.18
3652 3836 8.206189 ACTCAGAAAAACATCCACATTTCAAAT 58.794 29.630 0.00 0.00 34.91 2.32
3653 3837 7.555087 ACTCAGAAAAACATCCACATTTCAAA 58.445 30.769 0.00 0.00 34.91 2.69
3660 3844 6.650807 GTCATCTACTCAGAAAAACATCCACA 59.349 38.462 0.00 0.00 33.50 4.17
3732 3916 5.200368 AGGCCACACAAATCTGTTTTTAG 57.800 39.130 5.01 0.00 31.64 1.85
3753 3938 0.971386 AATTGTCAAGCAGGCCCAAG 59.029 50.000 0.00 0.00 0.00 3.61
3763 3948 3.005540 GCCCGGCCCAATTGTCAAG 62.006 63.158 4.43 0.00 0.00 3.02
3782 3968 1.531602 ACTTGGGTTGGGCTGCTTC 60.532 57.895 0.00 0.00 0.00 3.86
3805 3991 3.149196 CAGTGGGTCAATACAGCAGTTT 58.851 45.455 0.00 0.00 0.00 2.66
3812 3998 4.164981 AGTAACTCCAGTGGGTCAATACA 58.835 43.478 9.92 0.00 34.93 2.29
3843 4029 4.383552 CCACCTTATCTTCCTCTTCCTGTG 60.384 50.000 0.00 0.00 0.00 3.66
3853 4039 0.623723 TGGCCACCACCTTATCTTCC 59.376 55.000 0.00 0.00 0.00 3.46
3924 4110 2.228103 GGAAAGGAACAGGGTTTTAGCG 59.772 50.000 0.00 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.