Multiple sequence alignment - TraesCS3A01G359100

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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 TraesCS3A01G359100 chr3A 100.000 3233 0 0 1 3233 607061737 607064969 0.000000e+00 5971.0
1 TraesCS3A01G359100 chr3A 94.175 103 0 3 607 703 655640240 655640138 5.590000e-33 152.0
2 TraesCS3A01G359100 chr3B 92.982 2066 100 15 717 2762 617415114 617417154 0.000000e+00 2970.0
3 TraesCS3A01G359100 chr3B 87.050 278 23 7 2822 3093 617417143 617417413 5.240000e-78 302.0
4 TraesCS3A01G359100 chr3B 87.444 223 10 2 120 342 617414410 617414614 1.160000e-59 241.0
5 TraesCS3A01G359100 chr3B 85.281 231 27 4 484 713 617414850 617415074 6.980000e-57 231.0
6 TraesCS3A01G359100 chr3B 96.875 96 1 2 607 701 685059166 685059072 3.340000e-35 159.0
7 TraesCS3A01G359100 chr3B 95.833 96 2 2 607 701 822807581 822807675 1.550000e-33 154.0
8 TraesCS3A01G359100 chr3B 95.789 95 2 2 607 700 658935252 658935159 5.590000e-33 152.0
9 TraesCS3A01G359100 chr3B 84.615 117 8 4 3115 3231 617417475 617417581 1.230000e-19 108.0
10 TraesCS3A01G359100 chr3D 93.179 1950 81 13 717 2648 464047474 464049389 0.000000e+00 2817.0
11 TraesCS3A01G359100 chr3D 88.166 507 33 15 2627 3118 464049401 464049895 2.160000e-161 579.0
12 TraesCS3A01G359100 chr3D 90.489 368 21 5 113 470 464046870 464047233 1.050000e-129 473.0
13 TraesCS3A01G359100 chr3D 88.554 166 15 2 485 646 464047218 464047383 7.070000e-47 198.0
14 TraesCS3A01G359100 chr3D 97.959 49 1 0 1 49 464046814 464046862 5.750000e-13 86.1
15 TraesCS3A01G359100 chr5B 92.241 116 5 3 604 717 681134208 681134321 9.280000e-36 161.0
16 TraesCS3A01G359100 chr2A 96.774 93 1 2 606 698 24307380 24307470 1.550000e-33 154.0
17 TraesCS3A01G359100 chr1B 95.833 96 0 3 607 698 597450208 597450113 5.590000e-33 152.0
18 TraesCS3A01G359100 chr4D 92.233 103 4 3 598 700 505968129 505968227 3.360000e-30 143.0


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 TraesCS3A01G359100 chr3A 607061737 607064969 3232 False 5971.00 5971 100.0000 1 3233 1 chr3A.!!$F1 3232
1 TraesCS3A01G359100 chr3B 617414410 617417581 3171 False 770.40 2970 87.4744 120 3231 5 chr3B.!!$F2 3111
2 TraesCS3A01G359100 chr3D 464046814 464049895 3081 False 830.62 2817 91.6694 1 3118 5 chr3D.!!$F1 3117

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
111 112 0.753262 AGACCCAATCGGATCCTTCG 59.247 55.0 10.75 0.0 34.64 3.79 F
1551 1747 0.313043 TCGTGACGTTCAACCTCCTC 59.687 55.0 4.40 0.0 0.00 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1587 1783 0.109132 GGTTGGAGAAATGCAAGGCG 60.109 55.0 0.0 0.0 0.0 5.52 R
2473 2669 0.037232 GCACTGACCTTTACCTCGCT 60.037 55.0 0.0 0.0 0.0 4.93 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
35 36 2.735857 GTGCCCGCGACGTTAACT 60.736 61.111 8.23 0.00 0.00 2.24
49 50 5.266733 ACGTTAACTGCTATCCGGAAATA 57.733 39.130 9.01 0.00 0.00 1.40
50 51 5.850614 ACGTTAACTGCTATCCGGAAATAT 58.149 37.500 9.01 0.00 0.00 1.28
51 52 5.694910 ACGTTAACTGCTATCCGGAAATATG 59.305 40.000 9.01 1.49 0.00 1.78
53 54 4.357918 AACTGCTATCCGGAAATATGCT 57.642 40.909 9.01 0.00 0.00 3.79
54 55 3.668447 ACTGCTATCCGGAAATATGCTG 58.332 45.455 9.01 14.25 0.00 4.41
55 56 3.324846 ACTGCTATCCGGAAATATGCTGA 59.675 43.478 9.01 0.00 0.00 4.26
56 57 4.202357 ACTGCTATCCGGAAATATGCTGAA 60.202 41.667 9.01 0.00 0.00 3.02
57 58 4.713553 TGCTATCCGGAAATATGCTGAAA 58.286 39.130 9.01 0.00 0.00 2.69
58 59 5.129634 TGCTATCCGGAAATATGCTGAAAA 58.870 37.500 9.01 0.00 0.00 2.29
59 60 5.769662 TGCTATCCGGAAATATGCTGAAAAT 59.230 36.000 9.01 0.00 0.00 1.82
60 61 6.939730 TGCTATCCGGAAATATGCTGAAAATA 59.060 34.615 9.01 0.00 0.00 1.40
61 62 7.446931 TGCTATCCGGAAATATGCTGAAAATAA 59.553 33.333 9.01 0.00 0.00 1.40
62 63 7.965107 GCTATCCGGAAATATGCTGAAAATAAG 59.035 37.037 9.01 0.00 0.00 1.73
63 64 7.823745 ATCCGGAAATATGCTGAAAATAAGT 57.176 32.000 9.01 0.00 0.00 2.24
64 65 8.918202 ATCCGGAAATATGCTGAAAATAAGTA 57.082 30.769 9.01 0.00 0.00 2.24
65 66 8.378172 TCCGGAAATATGCTGAAAATAAGTAG 57.622 34.615 0.00 0.00 0.00 2.57
66 67 7.990886 TCCGGAAATATGCTGAAAATAAGTAGT 59.009 33.333 0.00 0.00 0.00 2.73
67 68 9.268268 CCGGAAATATGCTGAAAATAAGTAGTA 57.732 33.333 0.00 0.00 0.00 1.82
98 99 8.012957 GTACTACAGTACTAGTACTAGACCCA 57.987 42.308 31.93 14.39 43.98 4.51
99 100 7.502060 ACTACAGTACTAGTACTAGACCCAA 57.498 40.000 31.93 13.79 43.98 4.12
100 101 8.100135 ACTACAGTACTAGTACTAGACCCAAT 57.900 38.462 31.93 13.94 43.98 3.16
101 102 8.210265 ACTACAGTACTAGTACTAGACCCAATC 58.790 40.741 31.93 14.78 43.98 2.67
102 103 6.054295 ACAGTACTAGTACTAGACCCAATCG 58.946 44.000 31.93 18.08 43.98 3.34
103 104 5.469421 CAGTACTAGTACTAGACCCAATCGG 59.531 48.000 31.93 13.13 43.98 4.18
104 105 4.785346 ACTAGTACTAGACCCAATCGGA 57.215 45.455 31.93 0.00 36.97 4.55
105 106 5.321934 ACTAGTACTAGACCCAATCGGAT 57.678 43.478 31.93 6.21 36.97 4.18
106 107 5.315348 ACTAGTACTAGACCCAATCGGATC 58.685 45.833 31.93 0.00 36.97 3.36
107 108 3.498334 AGTACTAGACCCAATCGGATCC 58.502 50.000 0.00 0.00 34.64 3.36
108 109 2.777459 ACTAGACCCAATCGGATCCT 57.223 50.000 10.75 0.00 34.64 3.24
109 110 3.047695 ACTAGACCCAATCGGATCCTT 57.952 47.619 10.75 0.00 34.64 3.36
110 111 2.966516 ACTAGACCCAATCGGATCCTTC 59.033 50.000 10.75 0.00 34.64 3.46
111 112 0.753262 AGACCCAATCGGATCCTTCG 59.247 55.000 10.75 0.00 34.64 3.79
115 116 1.344438 CCCAATCGGATCCTTCGATCA 59.656 52.381 10.75 0.00 45.89 2.92
134 135 4.762016 CCAGTGGCAAGGGCAATA 57.238 55.556 0.00 0.00 43.71 1.90
135 136 2.974623 CCAGTGGCAAGGGCAATAA 58.025 52.632 0.00 0.00 43.71 1.40
188 189 4.489810 CATAAGATTTAGCGCTCTCGGAT 58.510 43.478 16.34 1.36 35.95 4.18
209 210 1.095600 GATCGCTTTCCCTTGGTTCC 58.904 55.000 0.00 0.00 0.00 3.62
239 240 1.283793 CTGCGAAAAGGGTGTGCTG 59.716 57.895 0.00 0.00 0.00 4.41
264 265 2.614829 ATAACGTCAAATCCCCTCCG 57.385 50.000 0.00 0.00 0.00 4.63
317 318 2.031420 GCCAGGTACAAACGTTTCCTTC 60.031 50.000 11.37 5.69 0.00 3.46
368 482 6.051717 AGTTGATGACGATATTCCTTTCCAG 58.948 40.000 0.00 0.00 0.00 3.86
370 484 5.989477 TGATGACGATATTCCTTTCCAGTT 58.011 37.500 0.00 0.00 0.00 3.16
417 541 6.415702 GCATTTATGTATGCGTACGAAAGAA 58.584 36.000 21.65 0.69 41.24 2.52
434 558 3.694535 AGAATTCGACTAGTAGTGCCG 57.305 47.619 7.76 6.30 0.00 5.69
437 561 4.157289 AGAATTCGACTAGTAGTGCCGAAA 59.843 41.667 22.92 11.95 37.76 3.46
467 591 6.791867 TTCACTGAGCAAGTAGTATATGGT 57.208 37.500 0.00 0.00 36.83 3.55
468 592 6.149129 TCACTGAGCAAGTAGTATATGGTG 57.851 41.667 0.00 0.00 36.83 4.17
469 593 5.069119 TCACTGAGCAAGTAGTATATGGTGG 59.931 44.000 0.00 0.00 36.83 4.61
470 594 5.069119 CACTGAGCAAGTAGTATATGGTGGA 59.931 44.000 0.00 0.00 36.83 4.02
471 595 5.069251 ACTGAGCAAGTAGTATATGGTGGAC 59.931 44.000 0.00 0.00 37.36 4.02
472 596 4.344102 TGAGCAAGTAGTATATGGTGGACC 59.656 45.833 0.00 0.00 0.00 4.46
519 643 2.356382 TGTACACGCCCAGTTTTCTTTG 59.644 45.455 0.00 0.00 0.00 2.77
547 671 4.141824 GGAGGGAGTAGATTTCAAGGTCAG 60.142 50.000 0.00 0.00 0.00 3.51
549 673 3.775316 GGGAGTAGATTTCAAGGTCAGGA 59.225 47.826 0.00 0.00 0.00 3.86
552 685 4.822026 AGTAGATTTCAAGGTCAGGAACG 58.178 43.478 0.00 0.00 0.00 3.95
553 686 3.059352 AGATTTCAAGGTCAGGAACGG 57.941 47.619 0.00 0.00 0.00 4.44
554 687 2.084546 GATTTCAAGGTCAGGAACGGG 58.915 52.381 0.00 0.00 0.00 5.28
555 688 0.841289 TTTCAAGGTCAGGAACGGGT 59.159 50.000 0.00 0.00 0.00 5.28
556 689 1.719529 TTCAAGGTCAGGAACGGGTA 58.280 50.000 0.00 0.00 0.00 3.69
557 690 1.719529 TCAAGGTCAGGAACGGGTAA 58.280 50.000 0.00 0.00 0.00 2.85
558 691 1.345415 TCAAGGTCAGGAACGGGTAAC 59.655 52.381 0.00 0.00 0.00 2.50
583 716 2.060326 TTGGCGAGACAAGTAACGAG 57.940 50.000 0.00 0.00 0.00 4.18
586 719 2.095567 TGGCGAGACAAGTAACGAGTAC 60.096 50.000 0.00 0.00 0.00 2.73
588 721 2.161211 GCGAGACAAGTAACGAGTACCT 59.839 50.000 0.00 0.00 32.58 3.08
593 726 6.402456 AGACAAGTAACGAGTACCTTTTCT 57.598 37.500 0.00 0.00 32.58 2.52
601 734 3.746492 ACGAGTACCTTTTCTGTGCATTC 59.254 43.478 0.00 0.00 0.00 2.67
755 928 4.113354 GTGAGTATGAACTTTAGGCTCCG 58.887 47.826 0.00 0.00 35.56 4.63
758 931 2.029838 ATGAACTTTAGGCTCCGCAG 57.970 50.000 0.00 0.00 0.00 5.18
766 939 0.902984 TAGGCTCCGCAGAACTGGAA 60.903 55.000 0.00 0.00 32.89 3.53
774 947 1.666888 CGCAGAACTGGAAATGGCAAC 60.667 52.381 0.00 0.00 0.00 4.17
803 976 1.298264 CTGCTAGAGACGCAGCTCG 60.298 63.158 0.00 4.36 46.98 5.03
815 988 1.019278 GCAGCTCGAAACGAATCCCA 61.019 55.000 0.00 0.00 34.74 4.37
818 991 2.076863 AGCTCGAAACGAATCCCAAAG 58.923 47.619 0.00 0.00 34.74 2.77
836 1017 5.832060 CCCAAAGCTTCTTCCTCATCATAAT 59.168 40.000 0.00 0.00 0.00 1.28
860 1041 4.394300 CACAACAGATCAGGAGGAACAATC 59.606 45.833 0.00 0.00 0.00 2.67
863 1044 4.099633 ACAGATCAGGAGGAACAATCTCA 58.900 43.478 0.00 0.00 33.18 3.27
970 1166 4.022849 CACTCCAGAAAGGGTAGCAAAAAG 60.023 45.833 0.00 0.00 38.24 2.27
1290 1486 3.119096 GGCTTCGCCCTGTTCGAC 61.119 66.667 0.00 0.00 44.06 4.20
1338 1534 3.606777 CGAACATCTACACCTACAACGTG 59.393 47.826 0.00 0.00 37.26 4.49
1443 1639 2.716828 CGCCGTCAGCTACAACACG 61.717 63.158 0.00 0.00 40.39 4.49
1489 1685 4.162690 GGATGAAGGACGCCGCCT 62.163 66.667 0.00 0.00 40.93 5.52
1551 1747 0.313043 TCGTGACGTTCAACCTCCTC 59.687 55.000 4.40 0.00 0.00 3.71
1557 1753 0.728466 CGTTCAACCTCCTCGTCGAC 60.728 60.000 5.18 5.18 0.00 4.20
1617 1813 2.525105 TCTCCAACCAAATAAGGGCC 57.475 50.000 0.00 0.00 0.00 5.80
1620 1816 0.970427 CCAACCAAATAAGGGCCGCT 60.970 55.000 0.00 0.00 0.00 5.52
1852 2048 4.758251 TGGAGGTGGATGTGCGCG 62.758 66.667 0.00 0.00 0.00 6.86
1893 2089 2.016096 GCTCTCTGCATGGAAGGGAAC 61.016 57.143 0.00 0.00 42.31 3.62
1899 2095 2.827322 CTGCATGGAAGGGAACATGAAA 59.173 45.455 0.00 0.00 45.55 2.69
1938 2134 0.827368 AGTCGATGGAGGAGAAAGGC 59.173 55.000 0.00 0.00 0.00 4.35
2141 2337 3.877559 CTCTTATCAAGGACATGGTGCA 58.122 45.455 0.00 0.00 0.00 4.57
2167 2363 3.099732 GTCTACAACCAAACGAATCGC 57.900 47.619 1.15 0.00 0.00 4.58
2185 2381 0.742635 GCTCTCCCAAGCACTACTGC 60.743 60.000 0.00 0.00 44.63 4.40
2407 2603 4.401202 CCAAAACTTAACCAAGGGCGATAT 59.599 41.667 0.00 0.00 35.97 1.63
2469 2665 3.048563 TGCAGAGCACTCTCACTCT 57.951 52.632 0.00 0.00 44.06 3.24
2470 2666 2.206576 TGCAGAGCACTCTCACTCTA 57.793 50.000 0.00 0.00 41.31 2.43
2471 2667 2.732763 TGCAGAGCACTCTCACTCTAT 58.267 47.619 0.00 0.00 41.31 1.98
2472 2668 2.687425 TGCAGAGCACTCTCACTCTATC 59.313 50.000 0.00 0.00 41.31 2.08
2473 2669 2.687425 GCAGAGCACTCTCACTCTATCA 59.313 50.000 0.00 0.00 41.31 2.15
2479 2675 2.290367 CACTCTCACTCTATCAGCGAGG 59.710 54.545 0.00 0.00 32.83 4.63
2501 2697 2.717639 AAGGTCAGTGCATCCATACC 57.282 50.000 0.00 0.00 0.00 2.73
2581 2781 5.964958 ATATGCAAGTTGGATAATTCGGG 57.035 39.130 19.37 0.00 34.39 5.14
2594 2794 5.067413 GGATAATTCGGGTTCTTCTTTTCCC 59.933 44.000 0.00 0.00 36.82 3.97
2647 2888 6.816377 TGCTTTCTTTCTGTTTTTCGTTTTG 58.184 32.000 0.00 0.00 0.00 2.44
2664 2905 4.176271 GTTTTGGAGGCAAATAGACATGC 58.824 43.478 0.00 0.00 41.82 4.06
2733 2975 8.177119 AGACAACATGGAAAATAGCTTTACAA 57.823 30.769 0.00 0.00 41.34 2.41
2739 2981 7.700656 ACATGGAAAATAGCTTTACAATAACGC 59.299 33.333 0.00 0.00 41.34 4.84
2757 2999 2.039879 ACGCAGTTTTCCTTATCCCTGT 59.960 45.455 0.00 0.00 37.78 4.00
2758 3000 2.420022 CGCAGTTTTCCTTATCCCTGTG 59.580 50.000 0.00 0.00 0.00 3.66
2759 3001 3.686016 GCAGTTTTCCTTATCCCTGTGA 58.314 45.455 0.00 0.00 0.00 3.58
2760 3002 4.273318 GCAGTTTTCCTTATCCCTGTGAT 58.727 43.478 0.00 0.00 37.49 3.06
2761 3003 4.096984 GCAGTTTTCCTTATCCCTGTGATG 59.903 45.833 0.00 0.00 34.76 3.07
2762 3004 4.096984 CAGTTTTCCTTATCCCTGTGATGC 59.903 45.833 0.00 0.00 34.76 3.91
2763 3005 4.018050 AGTTTTCCTTATCCCTGTGATGCT 60.018 41.667 0.00 0.00 34.76 3.79
2764 3006 3.565764 TTCCTTATCCCTGTGATGCTG 57.434 47.619 0.00 0.00 34.76 4.41
2765 3007 2.763039 TCCTTATCCCTGTGATGCTGA 58.237 47.619 0.00 0.00 34.76 4.26
2766 3008 3.321039 TCCTTATCCCTGTGATGCTGAT 58.679 45.455 0.00 0.00 34.76 2.90
2767 3009 3.718434 TCCTTATCCCTGTGATGCTGATT 59.282 43.478 0.00 0.00 34.76 2.57
2768 3010 4.166725 TCCTTATCCCTGTGATGCTGATTT 59.833 41.667 0.00 0.00 34.76 2.17
2769 3011 4.277672 CCTTATCCCTGTGATGCTGATTTG 59.722 45.833 0.00 0.00 34.76 2.32
2770 3012 3.657398 ATCCCTGTGATGCTGATTTGA 57.343 42.857 0.00 0.00 30.54 2.69
2771 3013 2.715046 TCCCTGTGATGCTGATTTGAC 58.285 47.619 0.00 0.00 0.00 3.18
2772 3014 2.040145 TCCCTGTGATGCTGATTTGACA 59.960 45.455 0.00 0.00 0.00 3.58
2773 3015 2.163010 CCCTGTGATGCTGATTTGACAC 59.837 50.000 0.00 0.00 0.00 3.67
2774 3016 2.815503 CCTGTGATGCTGATTTGACACA 59.184 45.455 0.00 0.00 36.90 3.72
2775 3017 4.079665 CTGTGATGCTGATTTGACACAG 57.920 45.455 0.00 0.00 45.20 3.66
2782 3024 1.467734 CTGATTTGACACAGCTGAGGC 59.532 52.381 23.35 16.72 39.06 4.70
2783 3025 1.202794 TGATTTGACACAGCTGAGGCA 60.203 47.619 23.35 19.74 41.70 4.75
2784 3026 2.089980 GATTTGACACAGCTGAGGCAT 58.910 47.619 20.94 6.67 41.70 4.40
2785 3027 1.985473 TTTGACACAGCTGAGGCATT 58.015 45.000 20.94 0.00 41.70 3.56
2786 3028 1.527034 TTGACACAGCTGAGGCATTC 58.473 50.000 20.94 6.53 41.70 2.67
2787 3029 0.397564 TGACACAGCTGAGGCATTCA 59.602 50.000 23.35 9.40 41.70 2.57
2788 3030 1.003928 TGACACAGCTGAGGCATTCAT 59.996 47.619 23.35 0.00 41.70 2.57
2789 3031 1.669779 GACACAGCTGAGGCATTCATC 59.330 52.381 23.35 0.00 41.70 2.92
2790 3032 1.022735 CACAGCTGAGGCATTCATCC 58.977 55.000 23.35 0.00 41.70 3.51
2791 3033 0.917533 ACAGCTGAGGCATTCATCCT 59.082 50.000 23.35 0.00 41.70 3.24
2799 3041 4.255833 GAGGCATTCATCCTCTGTAGAG 57.744 50.000 1.86 1.86 45.13 2.43
2800 3042 3.894427 GAGGCATTCATCCTCTGTAGAGA 59.106 47.826 10.40 0.00 45.13 3.10
2801 3043 4.293494 AGGCATTCATCCTCTGTAGAGAA 58.707 43.478 10.40 0.00 44.74 2.87
2802 3044 4.100808 AGGCATTCATCCTCTGTAGAGAAC 59.899 45.833 10.40 0.00 44.74 3.01
2803 3045 4.100808 GGCATTCATCCTCTGTAGAGAACT 59.899 45.833 10.40 0.00 44.74 3.01
2804 3046 5.049167 GCATTCATCCTCTGTAGAGAACTG 58.951 45.833 10.40 5.09 44.74 3.16
2805 3047 5.599732 CATTCATCCTCTGTAGAGAACTGG 58.400 45.833 10.40 0.00 44.74 4.00
2806 3048 4.323569 TCATCCTCTGTAGAGAACTGGT 57.676 45.455 10.40 0.00 44.74 4.00
2807 3049 5.452341 TCATCCTCTGTAGAGAACTGGTA 57.548 43.478 10.40 0.00 44.74 3.25
2808 3050 5.827756 TCATCCTCTGTAGAGAACTGGTAA 58.172 41.667 10.40 0.00 44.74 2.85
2809 3051 5.652891 TCATCCTCTGTAGAGAACTGGTAAC 59.347 44.000 10.40 0.00 44.74 2.50
2810 3052 5.258216 TCCTCTGTAGAGAACTGGTAACT 57.742 43.478 10.40 0.00 44.74 2.24
2811 3053 5.010933 TCCTCTGTAGAGAACTGGTAACTG 58.989 45.833 10.40 0.00 44.74 3.16
2812 3054 4.158764 CCTCTGTAGAGAACTGGTAACTGG 59.841 50.000 10.40 0.00 44.74 4.00
2813 3055 3.510360 TCTGTAGAGAACTGGTAACTGGC 59.490 47.826 0.00 0.00 40.36 4.85
2814 3056 2.230508 TGTAGAGAACTGGTAACTGGCG 59.769 50.000 0.00 0.00 40.36 5.69
2815 3057 0.037232 AGAGAACTGGTAACTGGCGC 60.037 55.000 0.00 0.00 40.36 6.53
2816 3058 1.003718 AGAACTGGTAACTGGCGCC 60.004 57.895 22.73 22.73 40.36 6.53
2817 3059 1.003718 GAACTGGTAACTGGCGCCT 60.004 57.895 29.70 10.43 40.36 5.52
2818 3060 1.003718 AACTGGTAACTGGCGCCTC 60.004 57.895 29.70 12.28 40.36 4.70
2819 3061 1.764571 AACTGGTAACTGGCGCCTCA 61.765 55.000 29.70 7.24 40.36 3.86
2820 3062 1.741770 CTGGTAACTGGCGCCTCAC 60.742 63.158 29.70 18.49 37.61 3.51
2821 3063 2.345991 GGTAACTGGCGCCTCACA 59.654 61.111 29.70 5.90 0.00 3.58
2822 3064 1.078426 GGTAACTGGCGCCTCACAT 60.078 57.895 29.70 11.80 0.00 3.21
2823 3065 1.090052 GGTAACTGGCGCCTCACATC 61.090 60.000 29.70 13.20 0.00 3.06
2824 3066 1.090052 GTAACTGGCGCCTCACATCC 61.090 60.000 29.70 5.66 0.00 3.51
2825 3067 1.264749 TAACTGGCGCCTCACATCCT 61.265 55.000 29.70 5.81 0.00 3.24
2856 3171 5.412594 AGTCAAATGTTACTGCAGGTATGTG 59.587 40.000 19.93 11.35 0.00 3.21
2916 3235 4.691860 CAAACATGCTAGAGTTTGGAGG 57.308 45.455 19.68 3.73 46.57 4.30
2926 3245 1.888512 GAGTTTGGAGGCAATGCTTGA 59.111 47.619 4.82 0.00 0.00 3.02
2973 3292 7.856145 ATCAGCTTCGAACAATCTAAGAATT 57.144 32.000 0.00 0.00 31.69 2.17
3001 3321 6.127451 GGTAAGAAAAATACCAACCCATCCAG 60.127 42.308 0.00 0.00 42.02 3.86
3002 3322 4.352893 AGAAAAATACCAACCCATCCAGG 58.647 43.478 0.00 0.00 37.03 4.45
3004 3324 4.625225 AAAATACCAACCCATCCAGGAT 57.375 40.909 0.00 0.00 41.22 3.24
3006 3326 3.884037 ATACCAACCCATCCAGGATTC 57.116 47.619 0.00 0.00 41.22 2.52
3051 3371 2.542020 TGAGCGTTCCTGATGAAACA 57.458 45.000 0.00 0.00 33.94 2.83
3058 3378 3.058914 CGTTCCTGATGAAACACCAGTTC 60.059 47.826 0.00 0.00 36.84 3.01
3060 3380 4.371624 TCCTGATGAAACACCAGTTCAT 57.628 40.909 0.00 0.00 36.84 2.57
3061 3381 4.326826 TCCTGATGAAACACCAGTTCATC 58.673 43.478 16.56 16.56 39.73 2.92
3062 3382 4.074259 CCTGATGAAACACCAGTTCATCA 58.926 43.478 21.99 21.99 42.76 3.07
3063 3383 4.520111 CCTGATGAAACACCAGTTCATCAA 59.480 41.667 22.98 12.12 43.42 2.57
3065 3385 6.075762 TGATGAAACACCAGTTCATCAAAG 57.924 37.500 21.46 0.00 42.45 2.77
3066 3386 4.916983 TGAAACACCAGTTCATCAAAGG 57.083 40.909 0.00 0.00 36.84 3.11
3067 3387 3.636300 TGAAACACCAGTTCATCAAAGGG 59.364 43.478 0.00 0.00 36.84 3.95
3068 3388 1.620822 ACACCAGTTCATCAAAGGGC 58.379 50.000 0.00 0.00 0.00 5.19
3069 3389 1.133513 ACACCAGTTCATCAAAGGGCA 60.134 47.619 0.00 0.00 0.00 5.36
3070 3390 1.270550 CACCAGTTCATCAAAGGGCAC 59.729 52.381 0.00 0.00 0.00 5.01
3118 3440 0.899717 GGGGCTTTGGCATCAACTGA 60.900 55.000 0.00 0.00 40.87 3.41
3130 3494 1.608055 TCAACTGATGCCTGGTTGTG 58.392 50.000 0.00 0.00 40.52 3.33
3165 3529 3.545481 GCGCAGTCACGACCATCG 61.545 66.667 0.30 0.00 46.93 3.84
3167 3531 1.226688 CGCAGTCACGACCATCGAT 60.227 57.895 5.04 0.00 43.74 3.59
3177 3541 1.602851 CGACCATCGATACTCCTCGTT 59.397 52.381 0.00 0.00 43.74 3.85
3178 3542 2.602456 CGACCATCGATACTCCTCGTTG 60.602 54.545 0.00 0.00 43.74 4.10
3179 3543 2.423926 CCATCGATACTCCTCGTTGG 57.576 55.000 0.00 8.63 46.27 3.77
3193 3557 0.320771 CGTTGGAGCTAGGTGCAGTT 60.321 55.000 15.88 0.00 45.94 3.16
3222 3586 4.767255 GAGCCGCTGGAGGTGGTG 62.767 72.222 0.00 0.00 46.69 4.17
3227 3591 3.958860 GCTGGAGGTGGTGGCAGT 61.959 66.667 0.00 0.00 0.00 4.40
3231 3595 0.546507 TGGAGGTGGTGGCAGTGATA 60.547 55.000 0.00 0.00 0.00 2.15
3232 3596 0.839946 GGAGGTGGTGGCAGTGATAT 59.160 55.000 0.00 0.00 0.00 1.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 36 4.350368 TTCAGCATATTTCCGGATAGCA 57.650 40.909 4.15 0.00 0.00 3.49
74 75 8.609617 TTGGGTCTAGTACTAGTACTGTAGTA 57.390 38.462 35.52 20.02 45.25 1.82
75 76 7.502060 TTGGGTCTAGTACTAGTACTGTAGT 57.498 40.000 35.52 18.27 45.25 2.73
76 77 7.384660 CGATTGGGTCTAGTACTAGTACTGTAG 59.615 44.444 35.52 27.60 45.25 2.74
77 78 7.212976 CGATTGGGTCTAGTACTAGTACTGTA 58.787 42.308 35.52 23.89 45.25 2.74
78 79 6.054295 CGATTGGGTCTAGTACTAGTACTGT 58.946 44.000 35.52 19.53 45.25 3.55
79 80 5.469421 CCGATTGGGTCTAGTACTAGTACTG 59.531 48.000 35.52 26.39 45.25 2.74
80 81 5.367937 TCCGATTGGGTCTAGTACTAGTACT 59.632 44.000 32.39 32.39 42.08 2.73
81 82 5.615289 TCCGATTGGGTCTAGTACTAGTAC 58.385 45.833 25.58 23.03 37.00 2.73
82 83 5.894298 TCCGATTGGGTCTAGTACTAGTA 57.106 43.478 25.58 12.46 37.00 1.82
83 84 4.785346 TCCGATTGGGTCTAGTACTAGT 57.215 45.455 25.58 8.73 37.00 2.57
84 85 4.701171 GGATCCGATTGGGTCTAGTACTAG 59.299 50.000 21.87 21.87 45.46 2.57
85 86 4.353191 AGGATCCGATTGGGTCTAGTACTA 59.647 45.833 12.26 1.89 45.46 1.82
86 87 3.140519 AGGATCCGATTGGGTCTAGTACT 59.859 47.826 12.26 0.00 45.46 2.73
87 88 3.498334 AGGATCCGATTGGGTCTAGTAC 58.502 50.000 12.26 0.00 45.46 2.73
88 89 3.897657 AGGATCCGATTGGGTCTAGTA 57.102 47.619 12.26 0.00 45.46 1.82
89 90 2.777459 AGGATCCGATTGGGTCTAGT 57.223 50.000 12.26 0.00 45.46 2.57
90 91 2.029828 CGAAGGATCCGATTGGGTCTAG 60.030 54.545 12.26 0.00 45.46 2.43
91 92 1.961394 CGAAGGATCCGATTGGGTCTA 59.039 52.381 12.26 0.00 45.46 2.59
92 93 0.753262 CGAAGGATCCGATTGGGTCT 59.247 55.000 12.26 0.00 45.46 3.85
93 94 0.750850 TCGAAGGATCCGATTGGGTC 59.249 55.000 5.98 3.25 45.42 4.46
94 95 1.344763 GATCGAAGGATCCGATTGGGT 59.655 52.381 5.98 0.00 45.49 4.51
95 96 2.086054 GATCGAAGGATCCGATTGGG 57.914 55.000 5.98 0.00 45.49 4.12
104 105 0.467384 CCACTGGCTGATCGAAGGAT 59.533 55.000 0.00 0.00 34.96 3.24
105 106 1.900351 CCACTGGCTGATCGAAGGA 59.100 57.895 0.00 0.00 0.00 3.36
106 107 1.817099 GCCACTGGCTGATCGAAGG 60.817 63.158 13.28 0.00 46.69 3.46
107 108 3.805267 GCCACTGGCTGATCGAAG 58.195 61.111 13.28 0.00 46.69 3.79
133 134 5.524646 CGGAATAAAGGGAAGCGTGTTATTA 59.475 40.000 0.00 0.00 0.00 0.98
134 135 4.334481 CGGAATAAAGGGAAGCGTGTTATT 59.666 41.667 0.00 0.00 0.00 1.40
135 136 3.875134 CGGAATAAAGGGAAGCGTGTTAT 59.125 43.478 0.00 0.00 0.00 1.89
188 189 2.159382 GAACCAAGGGAAAGCGATCAA 58.841 47.619 0.00 0.00 0.00 2.57
209 210 1.014044 TTTCGCAGCTACGAGCCTTG 61.014 55.000 9.35 0.00 43.77 3.61
217 218 0.517316 CACACCCTTTTCGCAGCTAC 59.483 55.000 0.00 0.00 0.00 3.58
239 240 2.357952 GGGGATTTGACGTTATTCAGCC 59.642 50.000 0.00 0.00 0.00 4.85
264 265 3.181492 GCAGCTTAGCATCTTTCCTTTCC 60.181 47.826 7.07 0.00 0.00 3.13
317 318 0.795085 CGACAGCTTGCAAGGAGAAG 59.205 55.000 27.10 2.17 0.00 2.85
370 484 2.063266 CCACGATCGAACGAGGAAAAA 58.937 47.619 23.50 0.00 44.27 1.94
374 488 1.504900 CACCACGATCGAACGAGGA 59.495 57.895 31.65 0.00 44.27 3.71
375 489 1.516386 CCACCACGATCGAACGAGG 60.516 63.158 25.43 25.43 46.20 4.63
376 490 2.158959 GCCACCACGATCGAACGAG 61.159 63.158 24.34 13.79 37.03 4.18
377 491 2.126228 GCCACCACGATCGAACGA 60.126 61.111 24.34 0.00 37.03 3.85
378 492 1.358725 AATGCCACCACGATCGAACG 61.359 55.000 24.34 13.95 39.31 3.95
417 541 4.650754 ATTTCGGCACTACTAGTCGAAT 57.349 40.909 14.70 0.00 35.40 3.34
426 550 4.565564 AGTGAATACGAATTTCGGCACTAC 59.434 41.667 24.02 16.92 45.59 2.73
434 558 6.170675 ACTTGCTCAGTGAATACGAATTTC 57.829 37.500 0.00 0.00 32.83 2.17
437 561 5.967088 ACTACTTGCTCAGTGAATACGAAT 58.033 37.500 0.00 0.00 35.97 3.34
481 605 7.064966 GGCGTGTACAACCATATACTACTTTTT 59.935 37.037 10.60 0.00 0.00 1.94
482 606 6.536224 GGCGTGTACAACCATATACTACTTTT 59.464 38.462 10.60 0.00 0.00 2.27
483 607 6.044682 GGCGTGTACAACCATATACTACTTT 58.955 40.000 10.60 0.00 0.00 2.66
484 608 5.452356 GGGCGTGTACAACCATATACTACTT 60.452 44.000 15.99 0.00 0.00 2.24
485 609 4.038402 GGGCGTGTACAACCATATACTACT 59.962 45.833 15.99 0.00 0.00 2.57
486 610 4.202141 TGGGCGTGTACAACCATATACTAC 60.202 45.833 15.99 0.00 0.00 2.73
487 611 3.959449 TGGGCGTGTACAACCATATACTA 59.041 43.478 15.99 0.00 0.00 1.82
488 612 2.767394 TGGGCGTGTACAACCATATACT 59.233 45.455 15.99 0.00 0.00 2.12
489 613 3.128349 CTGGGCGTGTACAACCATATAC 58.872 50.000 15.99 1.74 31.62 1.47
490 614 2.767394 ACTGGGCGTGTACAACCATATA 59.233 45.455 15.99 1.66 31.62 0.86
491 615 1.557832 ACTGGGCGTGTACAACCATAT 59.442 47.619 15.99 6.19 31.62 1.78
492 616 0.978151 ACTGGGCGTGTACAACCATA 59.022 50.000 15.99 5.66 31.62 2.74
493 617 0.109723 AACTGGGCGTGTACAACCAT 59.890 50.000 15.99 1.78 31.62 3.55
494 618 0.107116 AAACTGGGCGTGTACAACCA 60.107 50.000 15.99 14.39 0.00 3.67
495 619 1.002142 GAAAACTGGGCGTGTACAACC 60.002 52.381 0.00 1.84 0.00 3.77
496 620 1.944709 AGAAAACTGGGCGTGTACAAC 59.055 47.619 0.00 0.00 0.00 3.32
519 643 3.385115 TGAAATCTACTCCCTCCTTCCC 58.615 50.000 0.00 0.00 0.00 3.97
523 647 4.034410 GACCTTGAAATCTACTCCCTCCT 58.966 47.826 0.00 0.00 0.00 3.69
575 708 4.202182 TGCACAGAAAAGGTACTCGTTACT 60.202 41.667 0.00 0.00 38.49 2.24
577 710 4.325028 TGCACAGAAAAGGTACTCGTTA 57.675 40.909 0.00 0.00 38.49 3.18
580 713 3.997021 AGAATGCACAGAAAAGGTACTCG 59.003 43.478 0.00 0.00 38.49 4.18
583 716 7.377766 TGAATAGAATGCACAGAAAAGGTAC 57.622 36.000 0.00 0.00 0.00 3.34
586 719 5.106038 TGCTGAATAGAATGCACAGAAAAGG 60.106 40.000 2.66 0.00 0.00 3.11
588 721 5.963176 TGCTGAATAGAATGCACAGAAAA 57.037 34.783 2.66 0.00 0.00 2.29
593 726 2.424601 GGCTTGCTGAATAGAATGCACA 59.575 45.455 0.00 0.00 34.95 4.57
601 734 2.748605 CTAGACGGGCTTGCTGAATAG 58.251 52.381 0.00 0.00 0.00 1.73
755 928 1.337167 GGTTGCCATTTCCAGTTCTGC 60.337 52.381 0.00 0.00 0.00 4.26
758 931 1.686052 TGTGGTTGCCATTTCCAGTTC 59.314 47.619 0.00 0.00 35.28 3.01
766 939 2.200930 TGCCCTGTGGTTGCCATT 59.799 55.556 0.00 0.00 35.28 3.16
789 962 0.179197 CGTTTCGAGCTGCGTCTCTA 60.179 55.000 0.00 0.00 41.80 2.43
803 976 4.476862 GAAGAAGCTTTGGGATTCGTTTC 58.523 43.478 0.00 0.00 44.19 2.78
815 988 7.114754 TGTGATTATGATGAGGAAGAAGCTTT 58.885 34.615 0.00 0.00 0.00 3.51
818 991 6.317140 TGTTGTGATTATGATGAGGAAGAAGC 59.683 38.462 0.00 0.00 0.00 3.86
836 1017 2.972021 TGTTCCTCCTGATCTGTTGTGA 59.028 45.455 0.00 0.00 0.00 3.58
860 1041 3.629087 AGGATTCAAGGCCAGAAATGAG 58.371 45.455 13.72 0.00 0.00 2.90
863 1044 3.054361 ACGTAGGATTCAAGGCCAGAAAT 60.054 43.478 13.72 5.58 0.00 2.17
929 1125 1.067060 GTGGAGGTTTGAGTTGTTGGC 59.933 52.381 0.00 0.00 0.00 4.52
970 1166 0.881118 TTTTGCTTCACCTGATCGGC 59.119 50.000 0.00 0.00 35.61 5.54
1290 1486 3.610669 CCGCCCCTCCTCATCTCG 61.611 72.222 0.00 0.00 0.00 4.04
1338 1534 2.187946 CACCACTCCCCGATCAGC 59.812 66.667 0.00 0.00 0.00 4.26
1472 1668 4.162690 AGGCGGCGTCCTTCATCC 62.163 66.667 8.37 0.00 30.82 3.51
1489 1685 2.580815 CATCGTCTCCAGCAGCCA 59.419 61.111 0.00 0.00 0.00 4.75
1551 1747 1.876714 CTTGCCATACCCGTCGACG 60.877 63.158 30.33 30.33 39.44 5.12
1557 1753 2.516930 CCAGCCTTGCCATACCCG 60.517 66.667 0.00 0.00 0.00 5.28
1587 1783 0.109132 GGTTGGAGAAATGCAAGGCG 60.109 55.000 0.00 0.00 0.00 5.52
1852 2048 0.382515 TGCACCAAAACACCGTAAGC 59.617 50.000 0.00 0.00 0.00 3.09
1893 2089 0.449388 GCTTCCTGGCGTCTTTCATG 59.551 55.000 0.00 0.00 0.00 3.07
1899 2095 1.004440 GAACAGCTTCCTGGCGTCT 60.004 57.895 0.00 0.00 43.53 4.18
1938 2134 1.434555 TCACACCATTCGCCTTAACG 58.565 50.000 0.00 0.00 0.00 3.18
1950 2146 5.874897 TCATCATGTCATAGATCACACCA 57.125 39.130 0.00 0.00 0.00 4.17
2185 2381 1.601419 CCCTGTCTTGCCTTGGCATG 61.601 60.000 15.58 16.97 0.00 4.06
2238 2434 8.841300 TGCACAGAAACATAAAACACATACTTA 58.159 29.630 0.00 0.00 0.00 2.24
2242 2438 9.539825 AATTTGCACAGAAACATAAAACACATA 57.460 25.926 0.00 0.00 0.00 2.29
2252 2448 7.874016 ACAACATATGAATTTGCACAGAAACAT 59.126 29.630 10.38 0.00 0.00 2.71
2407 2603 8.054152 TGCTTTGAATTTGCTTATCACTATCA 57.946 30.769 0.00 0.00 0.00 2.15
2466 2662 3.632604 TGACCTTTACCTCGCTGATAGAG 59.367 47.826 0.00 0.00 35.60 2.43
2467 2663 3.628008 TGACCTTTACCTCGCTGATAGA 58.372 45.455 0.00 0.00 0.00 1.98
2468 2664 3.381908 ACTGACCTTTACCTCGCTGATAG 59.618 47.826 0.00 0.00 0.00 2.08
2469 2665 3.130516 CACTGACCTTTACCTCGCTGATA 59.869 47.826 0.00 0.00 0.00 2.15
2470 2666 2.093973 CACTGACCTTTACCTCGCTGAT 60.094 50.000 0.00 0.00 0.00 2.90
2471 2667 1.272490 CACTGACCTTTACCTCGCTGA 59.728 52.381 0.00 0.00 0.00 4.26
2472 2668 1.714794 CACTGACCTTTACCTCGCTG 58.285 55.000 0.00 0.00 0.00 5.18
2473 2669 0.037232 GCACTGACCTTTACCTCGCT 60.037 55.000 0.00 0.00 0.00 4.93
2479 2675 3.877508 GGTATGGATGCACTGACCTTTAC 59.122 47.826 7.34 0.00 0.00 2.01
2581 2781 4.454504 TGTTAGCATCGGGAAAAGAAGAAC 59.545 41.667 0.00 0.00 0.00 3.01
2594 2794 4.864916 AGCATGTTTACTGTTAGCATCG 57.135 40.909 0.00 0.00 0.00 3.84
2716 2958 7.094549 ACTGCGTTATTGTAAAGCTATTTTCCA 60.095 33.333 8.60 0.00 0.00 3.53
2733 2975 4.881850 CAGGGATAAGGAAAACTGCGTTAT 59.118 41.667 0.00 0.00 0.00 1.89
2739 2981 4.096984 GCATCACAGGGATAAGGAAAACTG 59.903 45.833 0.00 0.00 33.95 3.16
2753 2995 2.815503 TGTGTCAAATCAGCATCACAGG 59.184 45.455 0.00 0.00 33.07 4.00
2762 3004 1.467734 GCCTCAGCTGTGTCAAATCAG 59.532 52.381 14.67 0.00 35.50 2.90
2763 3005 1.202794 TGCCTCAGCTGTGTCAAATCA 60.203 47.619 14.67 0.00 40.80 2.57
2764 3006 1.527034 TGCCTCAGCTGTGTCAAATC 58.473 50.000 14.67 0.00 40.80 2.17
2765 3007 2.211250 ATGCCTCAGCTGTGTCAAAT 57.789 45.000 14.67 0.00 40.80 2.32
2766 3008 1.881973 GAATGCCTCAGCTGTGTCAAA 59.118 47.619 14.67 0.00 40.80 2.69
2767 3009 1.202794 TGAATGCCTCAGCTGTGTCAA 60.203 47.619 14.67 0.00 40.80 3.18
2768 3010 0.397564 TGAATGCCTCAGCTGTGTCA 59.602 50.000 14.67 7.92 40.80 3.58
2769 3011 1.669779 GATGAATGCCTCAGCTGTGTC 59.330 52.381 14.67 0.90 37.48 3.67
2770 3012 1.681166 GGATGAATGCCTCAGCTGTGT 60.681 52.381 14.67 0.00 40.48 3.72
2771 3013 1.022735 GGATGAATGCCTCAGCTGTG 58.977 55.000 14.67 11.58 40.48 3.66
2772 3014 0.917533 AGGATGAATGCCTCAGCTGT 59.082 50.000 14.67 0.00 40.48 4.40
2773 3015 3.802862 AGGATGAATGCCTCAGCTG 57.197 52.632 7.63 7.63 40.48 4.24
2779 3021 3.921104 TCTCTACAGAGGATGAATGCCT 58.079 45.455 6.41 0.00 42.30 4.75
2780 3022 4.100808 AGTTCTCTACAGAGGATGAATGCC 59.899 45.833 6.41 0.00 42.30 4.40
2781 3023 5.049167 CAGTTCTCTACAGAGGATGAATGC 58.951 45.833 6.41 0.00 42.30 3.56
2782 3024 5.128499 ACCAGTTCTCTACAGAGGATGAATG 59.872 44.000 6.41 1.36 42.30 2.67
2783 3025 5.276440 ACCAGTTCTCTACAGAGGATGAAT 58.724 41.667 6.41 0.00 42.30 2.57
2784 3026 4.678256 ACCAGTTCTCTACAGAGGATGAA 58.322 43.478 6.41 0.00 42.30 2.57
2785 3027 4.323569 ACCAGTTCTCTACAGAGGATGA 57.676 45.455 6.41 0.00 42.30 2.92
2786 3028 5.654650 AGTTACCAGTTCTCTACAGAGGATG 59.345 44.000 6.41 3.57 42.30 3.51
2787 3029 5.654650 CAGTTACCAGTTCTCTACAGAGGAT 59.345 44.000 6.41 0.00 42.30 3.24
2788 3030 5.010933 CAGTTACCAGTTCTCTACAGAGGA 58.989 45.833 6.41 0.00 42.30 3.71
2789 3031 4.158764 CCAGTTACCAGTTCTCTACAGAGG 59.841 50.000 6.41 0.00 42.30 3.69
2790 3032 4.381079 GCCAGTTACCAGTTCTCTACAGAG 60.381 50.000 0.00 0.00 43.36 3.35
2791 3033 3.510360 GCCAGTTACCAGTTCTCTACAGA 59.490 47.826 0.00 0.00 0.00 3.41
2792 3034 3.673594 CGCCAGTTACCAGTTCTCTACAG 60.674 52.174 0.00 0.00 0.00 2.74
2793 3035 2.230508 CGCCAGTTACCAGTTCTCTACA 59.769 50.000 0.00 0.00 0.00 2.74
2794 3036 2.877335 CGCCAGTTACCAGTTCTCTAC 58.123 52.381 0.00 0.00 0.00 2.59
2795 3037 1.203994 GCGCCAGTTACCAGTTCTCTA 59.796 52.381 0.00 0.00 0.00 2.43
2796 3038 0.037232 GCGCCAGTTACCAGTTCTCT 60.037 55.000 0.00 0.00 0.00 3.10
2797 3039 1.019805 GGCGCCAGTTACCAGTTCTC 61.020 60.000 24.80 0.00 0.00 2.87
2798 3040 1.003718 GGCGCCAGTTACCAGTTCT 60.004 57.895 24.80 0.00 0.00 3.01
2799 3041 1.003718 AGGCGCCAGTTACCAGTTC 60.004 57.895 31.54 0.00 0.00 3.01
2800 3042 1.003718 GAGGCGCCAGTTACCAGTT 60.004 57.895 31.54 2.38 0.00 3.16
2801 3043 2.214216 TGAGGCGCCAGTTACCAGT 61.214 57.895 31.54 3.33 0.00 4.00
2802 3044 1.741770 GTGAGGCGCCAGTTACCAG 60.742 63.158 31.54 0.00 0.00 4.00
2803 3045 1.836999 ATGTGAGGCGCCAGTTACCA 61.837 55.000 31.54 15.93 0.00 3.25
2804 3046 1.078426 ATGTGAGGCGCCAGTTACC 60.078 57.895 31.54 10.36 0.00 2.85
2805 3047 1.090052 GGATGTGAGGCGCCAGTTAC 61.090 60.000 31.54 20.75 0.00 2.50
2806 3048 1.220749 GGATGTGAGGCGCCAGTTA 59.779 57.895 31.54 12.85 0.00 2.24
2807 3049 2.045926 GGATGTGAGGCGCCAGTT 60.046 61.111 31.54 8.11 0.00 3.16
2808 3050 2.596851 AAGGATGTGAGGCGCCAGT 61.597 57.895 31.54 9.09 0.00 4.00
2809 3051 2.110967 CAAGGATGTGAGGCGCCAG 61.111 63.158 31.54 0.60 0.00 4.85
2810 3052 1.913951 ATCAAGGATGTGAGGCGCCA 61.914 55.000 31.54 8.23 0.00 5.69
2811 3053 1.153086 ATCAAGGATGTGAGGCGCC 60.153 57.895 21.89 21.89 0.00 6.53
2812 3054 2.020131 CATCAAGGATGTGAGGCGC 58.980 57.895 0.00 0.00 35.54 6.53
2825 3067 6.149308 CCTGCAGTAACATTTGACTACATCAA 59.851 38.462 13.81 0.00 45.92 2.57
2860 3175 2.854522 GGAAACCAGACATCCCACG 58.145 57.895 0.00 0.00 0.00 4.94
2896 3212 3.084786 GCCTCCAAACTCTAGCATGTTT 58.915 45.455 0.00 3.59 36.91 2.83
2973 3292 4.140758 TGGGTTGGTATTTTTCTTACCCCA 60.141 41.667 0.00 0.00 42.43 4.96
3001 3321 1.375098 GCAGCCTGCAGAGTGAATCC 61.375 60.000 17.39 0.00 44.26 3.01
3002 3322 2.096596 GCAGCCTGCAGAGTGAATC 58.903 57.895 17.39 0.00 44.26 2.52
3051 3371 1.620822 GTGCCCTTTGATGAACTGGT 58.379 50.000 0.00 0.00 0.00 4.00
3118 3440 3.832527 ACTTAGAAACACAACCAGGCAT 58.167 40.909 0.00 0.00 0.00 4.40
3120 3442 3.243401 CCAACTTAGAAACACAACCAGGC 60.243 47.826 0.00 0.00 0.00 4.85
3122 3444 4.398044 ACACCAACTTAGAAACACAACCAG 59.602 41.667 0.00 0.00 0.00 4.00
3130 3494 2.857104 GCGCCAACACCAACTTAGAAAC 60.857 50.000 0.00 0.00 0.00 2.78
3177 3541 1.003355 GCAACTGCACCTAGCTCCA 60.003 57.895 0.00 0.00 45.94 3.86
3178 3542 3.896479 GCAACTGCACCTAGCTCC 58.104 61.111 0.00 0.00 45.94 4.70


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

AutoCloner maintained by Alex Coulton.