Multiple sequence alignment - TraesCS1D01G374300

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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 TraesCS1D01G374300 chr1D 100.000 7731 0 0 1 7731 451874898 451882628 0.000000e+00 14277.0
1 TraesCS1D01G374300 chr1D 100.000 28 0 0 7648 7675 326251300 326251327 1.400000e-02 52.8
2 TraesCS1D01G374300 chr1B 97.657 6871 108 22 1 6825 621630198 621637061 0.000000e+00 11747.0
3 TraesCS1D01G374300 chr1B 95.276 381 16 2 7010 7388 621637072 621637452 3.090000e-168 603.0
4 TraesCS1D01G374300 chr1A 96.767 6094 107 31 1419 7443 546322887 546328959 0.000000e+00 10080.0
5 TraesCS1D01G374300 chr1A 97.279 1360 32 2 74 1428 546321369 546322728 0.000000e+00 2302.0
6 TraesCS1D01G374300 chr1A 98.039 51 1 0 1 51 546321038 546321088 1.070000e-13 89.8
7 TraesCS1D01G374300 chr6A 100.000 28 0 0 7648 7675 616863878 616863851 1.400000e-02 52.8


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 TraesCS1D01G374300 chr1D 451874898 451882628 7730 False 14277.000000 14277 100.000000 1 7731 1 chr1D.!!$F2 7730
1 TraesCS1D01G374300 chr1B 621630198 621637452 7254 False 6175.000000 11747 96.466500 1 7388 2 chr1B.!!$F1 7387
2 TraesCS1D01G374300 chr1A 546321038 546328959 7921 False 4157.266667 10080 97.361667 1 7443 3 chr1A.!!$F1 7442

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
62 63 0.035458 CCTGCCAGAAAAGTCGAGGT 59.965 55.000 0.00 0.00 0.00 3.85 F
350 617 1.228245 TGCAGGACAAAGACAGCCC 60.228 57.895 0.00 0.00 0.00 5.19 F
981 1248 1.801913 GACACACGGCGCTAGTCAG 60.802 63.158 6.90 5.39 0.00 3.51 F
2718 3158 1.868713 TCCATAAGAACGGTAGGCCA 58.131 50.000 5.01 0.00 34.09 5.36 F
3669 4110 2.355513 GGAGGAGATCAAGAAAGCAGCA 60.356 50.000 0.00 0.00 0.00 4.41 F
4337 4778 4.202567 GCCATCATTCTGTAATTCCCCCTA 60.203 45.833 0.00 0.00 0.00 3.53 F
6224 6669 0.253327 GTTGAGGGACCAGATGGGAC 59.747 60.000 3.48 0.00 41.15 4.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1034 1301 2.382305 TCCTCTTCTCCACCCTTGACTA 59.618 50.000 0.00 0.00 0.00 2.59 R
1593 2033 2.525105 AATAATGGGAAAGGCCACGT 57.475 45.000 5.01 0.00 38.95 4.49 R
2728 3168 4.387862 GGACTTGTCGTTCATGATTACGTT 59.612 41.667 17.09 1.69 38.79 3.99 R
4337 4778 0.034089 GTAGGGCCAGGCAAGTTGAT 60.034 55.000 15.19 0.00 0.00 2.57 R
4745 5186 3.087031 CAGGATGATCAAACCAAGCAGT 58.913 45.455 19.66 1.02 39.69 4.40 R
6298 6743 1.472376 CCAGCAATCTCTTCCTCGGTC 60.472 57.143 0.00 0.00 0.00 4.79 R
7570 8080 0.042708 CTCGCCGAAGCAAATCGATG 60.043 55.000 0.00 0.00 45.48 3.84 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
28 29 3.052082 CCACTGCCAGGCAAGACG 61.052 66.667 17.03 6.19 38.41 4.18
51 52 1.781786 CCTACTAAGCTCCTGCCAGA 58.218 55.000 0.00 0.00 40.80 3.86
52 53 2.111384 CCTACTAAGCTCCTGCCAGAA 58.889 52.381 0.00 0.00 40.80 3.02
56 57 2.373502 ACTAAGCTCCTGCCAGAAAAGT 59.626 45.455 0.00 0.00 40.80 2.66
57 58 1.902938 AAGCTCCTGCCAGAAAAGTC 58.097 50.000 0.00 0.00 40.80 3.01
62 63 0.035458 CCTGCCAGAAAAGTCGAGGT 59.965 55.000 0.00 0.00 0.00 3.85
281 548 1.673009 GGGTTTTCATCGGCCGTCA 60.673 57.895 27.15 7.11 0.00 4.35
350 617 1.228245 TGCAGGACAAAGACAGCCC 60.228 57.895 0.00 0.00 0.00 5.19
533 800 6.304356 TGTATTATTTAGACAGCTGCATGC 57.696 37.500 15.27 11.82 43.29 4.06
711 978 2.893489 ACTGACTCAAATGGGAAAAGGC 59.107 45.455 0.00 0.00 0.00 4.35
776 1043 1.807142 GTAGCTCTTGTGGCCAGTTTC 59.193 52.381 5.11 0.00 0.00 2.78
791 1058 4.741342 CCAGTTTCGTTATCCTACTCGTT 58.259 43.478 0.00 0.00 0.00 3.85
950 1217 1.889545 AAGCAGAAGTTCACTCAGCC 58.110 50.000 5.50 0.00 0.00 4.85
981 1248 1.801913 GACACACGGCGCTAGTCAG 60.802 63.158 6.90 5.39 0.00 3.51
1034 1301 2.211250 AATGCAAGAGCTGATGGTGT 57.789 45.000 0.00 0.00 42.74 4.16
1116 1383 2.223377 GTCGTTCCATGACCTGTTCAAC 59.777 50.000 0.00 0.00 37.92 3.18
1428 1867 5.303747 TGCCCTCAATTTACAAATACACG 57.696 39.130 0.00 0.00 0.00 4.49
1716 2156 8.383175 TCAATTACCATAAGAGTCAGAGGTTTT 58.617 33.333 0.00 0.00 0.00 2.43
1874 2314 9.382244 GTTCAATTCGGTATAATTTGAGTATGC 57.618 33.333 0.00 0.00 0.00 3.14
2379 2819 3.823873 ACCGAAAGCCAATAAACATGACA 59.176 39.130 0.00 0.00 0.00 3.58
2718 3158 1.868713 TCCATAAGAACGGTAGGCCA 58.131 50.000 5.01 0.00 34.09 5.36
2728 3168 3.637911 ACGGTAGGCCATTTGTTGATA 57.362 42.857 5.01 0.00 34.09 2.15
2815 3255 2.676748 TGGTGAAAAGAAAGCCATGGT 58.323 42.857 14.67 0.00 0.00 3.55
2876 3316 3.749226 GATCAAGGAAGGGGCTATTCAG 58.251 50.000 4.97 0.00 0.00 3.02
3669 4110 2.355513 GGAGGAGATCAAGAAAGCAGCA 60.356 50.000 0.00 0.00 0.00 4.41
4337 4778 4.202567 GCCATCATTCTGTAATTCCCCCTA 60.203 45.833 0.00 0.00 0.00 3.53
5201 5643 2.158623 ACACCTCATGCTGACAAAAGGA 60.159 45.455 0.17 0.00 35.88 3.36
5971 6415 6.901081 AGAAAGGTCTTATTCAAAACCAGG 57.099 37.500 0.00 0.00 34.09 4.45
6028 6473 9.454859 CTGAGAGGGTTCAATTTACTATTTTCT 57.545 33.333 0.00 0.00 0.00 2.52
6121 6566 3.303395 GCAGCGGCAAATCTACAGTAATC 60.303 47.826 3.18 0.00 40.72 1.75
6178 6623 4.262463 GGTGCGATCTTATTGGATGGAGTA 60.262 45.833 0.00 0.00 0.00 2.59
6199 6644 8.237949 GGAGTAGAAATCAAAAACCTAAAGCTC 58.762 37.037 0.00 0.00 0.00 4.09
6224 6669 0.253327 GTTGAGGGACCAGATGGGAC 59.747 60.000 3.48 0.00 41.15 4.46
6298 6743 3.310774 CGTATGGAAAGCATGAAGAGGTG 59.689 47.826 0.00 0.00 0.00 4.00
6318 6763 0.539051 ACCGAGGAAGAGATTGCTGG 59.461 55.000 0.00 0.00 0.00 4.85
6700 7145 4.084641 GCATATGCTTCGCTTCTAGAACTG 60.085 45.833 20.64 0.00 38.21 3.16
6845 7323 1.462616 TCCATGGGTGAAGATTTGCG 58.537 50.000 13.02 0.00 0.00 4.85
6855 7333 0.392336 AAGATTTGCGGCAGCCAAAA 59.608 45.000 13.30 11.89 44.33 2.44
6864 7342 2.650778 CAGCCAAAAGGGGAACGC 59.349 61.111 0.00 0.00 43.76 4.84
6881 7360 1.508088 GCGACATTTCCAAGGCCTG 59.492 57.895 5.69 0.00 0.00 4.85
6886 7365 1.228862 ATTTCCAAGGCCTGGCGTT 60.229 52.632 20.10 20.10 45.98 4.84
6906 7385 6.866770 GGCGTTCTGTATAAATCTAGCATACA 59.133 38.462 0.00 0.00 34.75 2.29
6934 7413 4.465305 ACCTAAGGTCGTATGTTTGCTACT 59.535 41.667 0.00 0.00 0.00 2.57
6947 7426 4.180057 GTTTGCTACTCTCCAGATCAGTG 58.820 47.826 0.00 0.00 0.00 3.66
6949 7428 2.031120 GCTACTCTCCAGATCAGTGCT 58.969 52.381 0.00 0.00 0.00 4.40
6951 7430 3.737663 GCTACTCTCCAGATCAGTGCTTG 60.738 52.174 0.00 0.00 0.00 4.01
6963 7442 1.001487 CAGTGCTTGCATCAAACCGAA 60.001 47.619 0.00 0.00 0.00 4.30
6964 7443 1.888512 AGTGCTTGCATCAAACCGAAT 59.111 42.857 0.00 0.00 0.00 3.34
6966 7445 3.505680 AGTGCTTGCATCAAACCGAATAA 59.494 39.130 0.00 0.00 0.00 1.40
6967 7446 4.158394 AGTGCTTGCATCAAACCGAATAAT 59.842 37.500 0.00 0.00 0.00 1.28
6969 7448 4.044426 GCTTGCATCAAACCGAATAATCC 58.956 43.478 0.00 0.00 0.00 3.01
7034 7518 0.179018 GCCAAGGGTATTCGCAGGAT 60.179 55.000 2.94 0.00 0.00 3.24
7416 7926 3.739810 GCGACCGAATTAAGGAGTAATCC 59.260 47.826 0.00 0.00 30.74 3.01
7443 7953 2.163211 GAGCCCTGCAAGAGTCATTTTC 59.837 50.000 0.00 0.00 34.07 2.29
7444 7954 1.135575 GCCCTGCAAGAGTCATTTTCG 60.136 52.381 0.00 0.00 34.07 3.46
7445 7955 1.470098 CCCTGCAAGAGTCATTTTCGG 59.530 52.381 0.00 0.00 34.07 4.30
7446 7956 1.135575 CCTGCAAGAGTCATTTTCGGC 60.136 52.381 0.00 0.00 34.07 5.54
7447 7957 1.808945 CTGCAAGAGTCATTTTCGGCT 59.191 47.619 0.00 0.00 34.07 5.52
7448 7958 2.227388 CTGCAAGAGTCATTTTCGGCTT 59.773 45.455 0.00 0.00 34.07 4.35
7449 7959 2.622942 TGCAAGAGTCATTTTCGGCTTT 59.377 40.909 0.00 0.00 0.00 3.51
7450 7960 3.068024 TGCAAGAGTCATTTTCGGCTTTT 59.932 39.130 0.00 0.00 0.00 2.27
7451 7961 4.277174 TGCAAGAGTCATTTTCGGCTTTTA 59.723 37.500 0.00 0.00 0.00 1.52
7452 7962 4.853743 GCAAGAGTCATTTTCGGCTTTTAG 59.146 41.667 0.00 0.00 0.00 1.85
7453 7963 5.334879 GCAAGAGTCATTTTCGGCTTTTAGA 60.335 40.000 0.00 0.00 0.00 2.10
7454 7964 5.864628 AGAGTCATTTTCGGCTTTTAGAC 57.135 39.130 0.00 0.00 0.00 2.59
7467 7977 6.492286 GGCTTTTAGACGACTTTTTGTTTC 57.508 37.500 0.00 0.00 0.00 2.78
7468 7978 5.170803 GGCTTTTAGACGACTTTTTGTTTCG 59.829 40.000 0.00 0.00 38.73 3.46
7469 7979 5.961263 GCTTTTAGACGACTTTTTGTTTCGA 59.039 36.000 0.00 0.00 36.58 3.71
7470 7980 6.631636 GCTTTTAGACGACTTTTTGTTTCGAT 59.368 34.615 0.00 0.00 36.58 3.59
7471 7981 7.165318 GCTTTTAGACGACTTTTTGTTTCGATT 59.835 33.333 0.00 0.00 36.58 3.34
7472 7982 8.898983 TTTTAGACGACTTTTTGTTTCGATTT 57.101 26.923 0.00 0.00 36.58 2.17
7473 7983 8.898983 TTTAGACGACTTTTTGTTTCGATTTT 57.101 26.923 0.00 0.00 36.58 1.82
7474 7984 8.898983 TTAGACGACTTTTTGTTTCGATTTTT 57.101 26.923 0.00 0.00 36.58 1.94
7494 8004 5.529581 TTTTCGGCTTTTTGGATTTCTCT 57.470 34.783 0.00 0.00 0.00 3.10
7495 8005 4.503741 TTCGGCTTTTTGGATTTCTCTG 57.496 40.909 0.00 0.00 0.00 3.35
7496 8006 2.819608 TCGGCTTTTTGGATTTCTCTGG 59.180 45.455 0.00 0.00 0.00 3.86
7497 8007 2.558359 CGGCTTTTTGGATTTCTCTGGT 59.442 45.455 0.00 0.00 0.00 4.00
7498 8008 3.005791 CGGCTTTTTGGATTTCTCTGGTT 59.994 43.478 0.00 0.00 0.00 3.67
7499 8009 4.501400 CGGCTTTTTGGATTTCTCTGGTTT 60.501 41.667 0.00 0.00 0.00 3.27
7500 8010 5.368145 GGCTTTTTGGATTTCTCTGGTTTT 58.632 37.500 0.00 0.00 0.00 2.43
7501 8011 5.466728 GGCTTTTTGGATTTCTCTGGTTTTC 59.533 40.000 0.00 0.00 0.00 2.29
7502 8012 6.283694 GCTTTTTGGATTTCTCTGGTTTTCT 58.716 36.000 0.00 0.00 0.00 2.52
7503 8013 6.763135 GCTTTTTGGATTTCTCTGGTTTTCTT 59.237 34.615 0.00 0.00 0.00 2.52
7504 8014 7.280876 GCTTTTTGGATTTCTCTGGTTTTCTTT 59.719 33.333 0.00 0.00 0.00 2.52
7505 8015 9.816354 CTTTTTGGATTTCTCTGGTTTTCTTTA 57.184 29.630 0.00 0.00 0.00 1.85
7506 8016 9.816354 TTTTTGGATTTCTCTGGTTTTCTTTAG 57.184 29.630 0.00 0.00 0.00 1.85
7507 8017 7.524717 TTGGATTTCTCTGGTTTTCTTTAGG 57.475 36.000 0.00 0.00 0.00 2.69
7508 8018 6.610830 TGGATTTCTCTGGTTTTCTTTAGGT 58.389 36.000 0.00 0.00 0.00 3.08
7509 8019 7.066781 TGGATTTCTCTGGTTTTCTTTAGGTT 58.933 34.615 0.00 0.00 0.00 3.50
7510 8020 7.563556 TGGATTTCTCTGGTTTTCTTTAGGTTT 59.436 33.333 0.00 0.00 0.00 3.27
7511 8021 8.421784 GGATTTCTCTGGTTTTCTTTAGGTTTT 58.578 33.333 0.00 0.00 0.00 2.43
7512 8022 9.249457 GATTTCTCTGGTTTTCTTTAGGTTTTG 57.751 33.333 0.00 0.00 0.00 2.44
7513 8023 7.948034 TTCTCTGGTTTTCTTTAGGTTTTGA 57.052 32.000 0.00 0.00 0.00 2.69
7514 8024 7.948034 TCTCTGGTTTTCTTTAGGTTTTGAA 57.052 32.000 0.00 0.00 0.00 2.69
7515 8025 7.768240 TCTCTGGTTTTCTTTAGGTTTTGAAC 58.232 34.615 0.00 0.00 0.00 3.18
7516 8026 7.394923 TCTCTGGTTTTCTTTAGGTTTTGAACA 59.605 33.333 0.00 0.00 0.00 3.18
7517 8027 7.897864 TCTGGTTTTCTTTAGGTTTTGAACAA 58.102 30.769 0.00 0.00 0.00 2.83
7518 8028 8.032451 TCTGGTTTTCTTTAGGTTTTGAACAAG 58.968 33.333 0.00 0.00 0.00 3.16
7519 8029 7.897864 TGGTTTTCTTTAGGTTTTGAACAAGA 58.102 30.769 0.00 0.00 0.00 3.02
7520 8030 8.368668 TGGTTTTCTTTAGGTTTTGAACAAGAA 58.631 29.630 0.00 0.00 32.46 2.52
7521 8031 9.210329 GGTTTTCTTTAGGTTTTGAACAAGAAA 57.790 29.630 10.77 10.77 38.27 2.52
7549 8059 2.997485 AAGAAATTTGTGAGAGGCGC 57.003 45.000 0.00 0.00 0.00 6.53
7550 8060 1.896220 AGAAATTTGTGAGAGGCGCA 58.104 45.000 10.83 0.00 34.64 6.09
7551 8061 2.440409 AGAAATTTGTGAGAGGCGCAT 58.560 42.857 10.83 0.00 36.78 4.73
7552 8062 3.609853 AGAAATTTGTGAGAGGCGCATA 58.390 40.909 10.83 0.00 36.78 3.14
7553 8063 4.202441 AGAAATTTGTGAGAGGCGCATAT 58.798 39.130 10.83 0.00 36.78 1.78
7554 8064 4.641989 AGAAATTTGTGAGAGGCGCATATT 59.358 37.500 10.83 0.00 39.34 1.28
7555 8065 4.989279 AATTTGTGAGAGGCGCATATTT 57.011 36.364 10.83 0.00 35.90 1.40
7556 8066 6.318648 AGAAATTTGTGAGAGGCGCATATTTA 59.681 34.615 10.83 0.00 43.70 1.40
7557 8067 4.875544 TTTGTGAGAGGCGCATATTTAC 57.124 40.909 10.83 3.76 36.78 2.01
7558 8068 3.819564 TGTGAGAGGCGCATATTTACT 57.180 42.857 10.83 0.00 30.65 2.24
7559 8069 4.137116 TGTGAGAGGCGCATATTTACTT 57.863 40.909 10.83 0.00 30.65 2.24
7560 8070 4.513442 TGTGAGAGGCGCATATTTACTTT 58.487 39.130 10.83 0.00 30.65 2.66
7561 8071 4.570772 TGTGAGAGGCGCATATTTACTTTC 59.429 41.667 10.83 0.10 30.65 2.62
7562 8072 4.024809 GTGAGAGGCGCATATTTACTTTCC 60.025 45.833 10.83 0.00 0.00 3.13
7563 8073 3.131396 AGAGGCGCATATTTACTTTCCG 58.869 45.455 10.83 0.00 0.00 4.30
7564 8074 2.870411 GAGGCGCATATTTACTTTCCGT 59.130 45.455 10.83 0.00 0.00 4.69
7565 8075 4.053295 GAGGCGCATATTTACTTTCCGTA 58.947 43.478 10.83 0.00 0.00 4.02
7566 8076 4.056050 AGGCGCATATTTACTTTCCGTAG 58.944 43.478 10.83 0.00 0.00 3.51
7567 8077 4.053295 GGCGCATATTTACTTTCCGTAGA 58.947 43.478 10.83 0.00 0.00 2.59
7568 8078 4.150098 GGCGCATATTTACTTTCCGTAGAG 59.850 45.833 10.83 0.00 0.00 2.43
7569 8079 4.150098 GCGCATATTTACTTTCCGTAGAGG 59.850 45.833 0.30 0.00 42.97 3.69
7570 8080 4.150098 CGCATATTTACTTTCCGTAGAGGC 59.850 45.833 0.00 0.00 40.77 4.70
7571 8081 5.054477 GCATATTTACTTTCCGTAGAGGCA 58.946 41.667 0.00 0.00 40.77 4.75
7572 8082 5.701290 GCATATTTACTTTCCGTAGAGGCAT 59.299 40.000 0.00 0.00 40.77 4.40
7573 8083 6.128526 GCATATTTACTTTCCGTAGAGGCATC 60.129 42.308 0.00 0.00 40.77 3.91
7574 8084 3.431922 TTACTTTCCGTAGAGGCATCG 57.568 47.619 0.00 0.00 40.77 3.84
7575 8085 1.471119 ACTTTCCGTAGAGGCATCGA 58.529 50.000 0.00 0.00 40.77 3.59
7576 8086 2.032620 ACTTTCCGTAGAGGCATCGAT 58.967 47.619 0.00 0.00 40.77 3.59
7577 8087 2.431057 ACTTTCCGTAGAGGCATCGATT 59.569 45.455 0.00 0.00 40.77 3.34
7578 8088 3.118738 ACTTTCCGTAGAGGCATCGATTT 60.119 43.478 0.00 0.00 40.77 2.17
7579 8089 2.509052 TCCGTAGAGGCATCGATTTG 57.491 50.000 0.00 0.00 40.77 2.32
7580 8090 0.861837 CCGTAGAGGCATCGATTTGC 59.138 55.000 2.28 2.28 42.01 3.68
7581 8091 1.539065 CCGTAGAGGCATCGATTTGCT 60.539 52.381 10.61 2.16 42.38 3.91
7582 8092 2.205074 CGTAGAGGCATCGATTTGCTT 58.795 47.619 10.61 3.10 42.38 3.91
7583 8093 2.219674 CGTAGAGGCATCGATTTGCTTC 59.780 50.000 13.55 13.55 46.00 3.86
7584 8094 3.814049 GAGGCATCGATTTGCTTCG 57.186 52.632 10.61 0.00 38.68 3.79
7585 8095 0.305922 GAGGCATCGATTTGCTTCGG 59.694 55.000 10.61 0.00 38.68 4.30
7586 8096 1.298638 GGCATCGATTTGCTTCGGC 60.299 57.895 10.61 1.54 42.38 5.54
7587 8097 1.652329 GCATCGATTTGCTTCGGCG 60.652 57.895 0.00 0.00 45.37 6.46
7588 8098 2.005995 CATCGATTTGCTTCGGCGA 58.994 52.632 4.99 4.99 45.37 5.54
7589 8099 0.042708 CATCGATTTGCTTCGGCGAG 60.043 55.000 10.46 5.82 45.37 5.03
7590 8100 0.179111 ATCGATTTGCTTCGGCGAGA 60.179 50.000 10.46 1.13 45.37 4.04
7591 8101 0.802222 TCGATTTGCTTCGGCGAGAG 60.802 55.000 10.46 11.82 45.37 3.20
7592 8102 1.756375 CGATTTGCTTCGGCGAGAGG 61.756 60.000 10.46 5.97 45.37 3.69
7609 8119 2.047844 GCAGCTGTGCCTCTCGAA 60.048 61.111 16.64 0.00 44.72 3.71
7610 8120 1.669115 GCAGCTGTGCCTCTCGAAA 60.669 57.895 16.64 0.00 44.72 3.46
7611 8121 1.230635 GCAGCTGTGCCTCTCGAAAA 61.231 55.000 16.64 0.00 44.72 2.29
7612 8122 1.229428 CAGCTGTGCCTCTCGAAAAA 58.771 50.000 5.25 0.00 0.00 1.94
7646 8156 9.936759 AAATGTGTTTTTCTTTTTCTACCTTGA 57.063 25.926 0.00 0.00 0.00 3.02
7647 8157 9.586435 AATGTGTTTTTCTTTTTCTACCTTGAG 57.414 29.630 0.00 0.00 0.00 3.02
7648 8158 8.343168 TGTGTTTTTCTTTTTCTACCTTGAGA 57.657 30.769 0.00 0.00 0.00 3.27
7649 8159 8.458843 TGTGTTTTTCTTTTTCTACCTTGAGAG 58.541 33.333 0.00 0.00 0.00 3.20
7661 8171 1.471684 CCTTGAGAGGCACAGATTTGC 59.528 52.381 0.00 0.00 42.18 3.68
7662 8172 2.434428 CTTGAGAGGCACAGATTTGCT 58.566 47.619 0.00 0.00 42.56 3.91
7663 8173 2.574006 TGAGAGGCACAGATTTGCTT 57.426 45.000 0.00 0.00 42.56 3.91
7664 8174 2.867624 TGAGAGGCACAGATTTGCTTT 58.132 42.857 0.00 0.00 42.56 3.51
7665 8175 3.225104 TGAGAGGCACAGATTTGCTTTT 58.775 40.909 0.00 0.00 42.56 2.27
7666 8176 3.005050 TGAGAGGCACAGATTTGCTTTTG 59.995 43.478 0.00 0.00 42.56 2.44
7667 8177 2.064014 GAGGCACAGATTTGCTTTTGC 58.936 47.619 0.00 0.00 42.56 3.68
7677 8187 3.182312 GCTTTTGCGAGAGGCCTC 58.818 61.111 26.22 26.22 42.61 4.70
7678 8188 1.376553 GCTTTTGCGAGAGGCCTCT 60.377 57.895 35.74 35.74 42.61 3.69
7679 8189 0.957888 GCTTTTGCGAGAGGCCTCTT 60.958 55.000 35.48 19.75 42.61 2.85
7680 8190 0.801251 CTTTTGCGAGAGGCCTCTTG 59.199 55.000 36.94 36.94 40.61 3.02
7681 8191 0.396435 TTTTGCGAGAGGCCTCTTGA 59.604 50.000 42.66 28.21 42.44 3.02
7682 8192 0.396435 TTTGCGAGAGGCCTCTTGAA 59.604 50.000 42.66 34.98 42.44 2.69
7683 8193 0.396435 TTGCGAGAGGCCTCTTGAAA 59.604 50.000 42.66 37.79 42.44 2.69
7684 8194 0.396435 TGCGAGAGGCCTCTTGAAAA 59.604 50.000 42.66 27.90 42.44 2.29
7685 8195 1.202758 TGCGAGAGGCCTCTTGAAAAA 60.203 47.619 42.66 25.78 42.44 1.94
7686 8196 1.466558 GCGAGAGGCCTCTTGAAAAAG 59.533 52.381 42.66 24.84 42.44 2.27
7687 8197 2.079925 CGAGAGGCCTCTTGAAAAAGG 58.920 52.381 37.87 16.13 42.44 3.11
7688 8198 2.289694 CGAGAGGCCTCTTGAAAAAGGA 60.290 50.000 37.87 0.00 42.44 3.36
7689 8199 3.756117 GAGAGGCCTCTTGAAAAAGGAA 58.244 45.455 35.48 0.00 40.61 3.36
7690 8200 4.145052 GAGAGGCCTCTTGAAAAAGGAAA 58.855 43.478 35.48 0.00 40.61 3.13
7691 8201 4.546674 AGAGGCCTCTTGAAAAAGGAAAA 58.453 39.130 30.40 0.00 36.31 2.29
7692 8202 5.150715 AGAGGCCTCTTGAAAAAGGAAAAT 58.849 37.500 30.40 1.33 36.31 1.82
7693 8203 5.011431 AGAGGCCTCTTGAAAAAGGAAAATG 59.989 40.000 30.40 0.00 36.31 2.32
7694 8204 3.748048 GGCCTCTTGAAAAAGGAAAATGC 59.252 43.478 0.00 0.00 34.35 3.56
7695 8205 4.379652 GCCTCTTGAAAAAGGAAAATGCA 58.620 39.130 0.00 0.00 34.35 3.96
7696 8206 4.999311 GCCTCTTGAAAAAGGAAAATGCAT 59.001 37.500 0.00 0.00 34.35 3.96
7697 8207 5.106830 GCCTCTTGAAAAAGGAAAATGCATG 60.107 40.000 0.00 0.00 34.35 4.06
7698 8208 5.993441 CCTCTTGAAAAAGGAAAATGCATGT 59.007 36.000 0.00 0.00 34.35 3.21
7699 8209 6.484308 CCTCTTGAAAAAGGAAAATGCATGTT 59.516 34.615 0.40 0.40 34.35 2.71
7700 8210 7.012610 CCTCTTGAAAAAGGAAAATGCATGTTT 59.987 33.333 2.99 5.17 34.35 2.83
7701 8211 8.278729 TCTTGAAAAAGGAAAATGCATGTTTT 57.721 26.923 2.99 0.08 34.19 2.43
7702 8212 8.738106 TCTTGAAAAAGGAAAATGCATGTTTTT 58.262 25.926 2.99 9.36 31.80 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 0.391228 GCAGGAGCTTAGTAGGCCTC 59.609 60.000 9.68 0.21 37.91 4.70
51 52 6.937436 AATGTTAAGTTCACCTCGACTTTT 57.063 33.333 0.00 0.00 37.32 2.27
52 53 6.649557 CCTAATGTTAAGTTCACCTCGACTTT 59.350 38.462 0.00 0.00 37.32 2.66
56 57 5.988310 TCCTAATGTTAAGTTCACCTCGA 57.012 39.130 0.00 0.00 0.00 4.04
57 58 7.429636 TTTTCCTAATGTTAAGTTCACCTCG 57.570 36.000 0.00 0.00 0.00 4.63
251 518 4.604156 GATGAAAACCCCTCTTCCTTGAT 58.396 43.478 0.00 0.00 0.00 2.57
281 548 0.613777 ATCTTCTTCGCCGGGAAAGT 59.386 50.000 2.18 0.00 33.34 2.66
350 617 5.123936 GGTAGGAGTGCACCCTTAATTAAG 58.876 45.833 25.68 16.90 35.30 1.85
372 639 4.334759 CAGTAGAAAGTGCCTGAATGATGG 59.665 45.833 0.00 0.00 0.00 3.51
555 822 8.778358 TCTTCTTCTATTGCTTCTCAAGTTTTC 58.222 33.333 0.00 0.00 38.22 2.29
711 978 1.002888 AGTGCACTCCTTCACAGATGG 59.997 52.381 15.25 0.00 35.76 3.51
776 1043 5.747951 ACCTAGAAACGAGTAGGATAACG 57.252 43.478 2.39 0.00 38.54 3.18
791 1058 0.392461 GGTGCGATGCCAACCTAGAA 60.392 55.000 0.00 0.00 0.00 2.10
950 1217 2.112522 CGTGTGTCTATTGCTCTAGCG 58.887 52.381 0.00 0.00 45.83 4.26
981 1248 3.403038 CATGCTATGCCTACCAGGTAAC 58.597 50.000 0.00 0.00 37.80 2.50
1034 1301 2.382305 TCCTCTTCTCCACCCTTGACTA 59.618 50.000 0.00 0.00 0.00 2.59
1593 2033 2.525105 AATAATGGGAAAGGCCACGT 57.475 45.000 5.01 0.00 38.95 4.49
2035 2475 6.018098 GCATGATATCTCTGGTAAGCATATGC 60.018 42.308 20.36 20.36 42.49 3.14
2718 3158 8.661257 TCGTTCATGATTACGTTATCAACAAAT 58.339 29.630 19.90 1.84 38.01 2.32
2728 3168 4.387862 GGACTTGTCGTTCATGATTACGTT 59.612 41.667 17.09 1.69 38.79 3.99
2815 3255 7.824289 CCTTCTTTATGAGATTGTTGTACTGGA 59.176 37.037 0.00 0.00 33.49 3.86
3233 3674 2.436417 ACAATCTGTATGCGGCAACTT 58.564 42.857 6.82 0.00 0.00 2.66
4337 4778 0.034089 GTAGGGCCAGGCAAGTTGAT 60.034 55.000 15.19 0.00 0.00 2.57
4745 5186 3.087031 CAGGATGATCAAACCAAGCAGT 58.913 45.455 19.66 1.02 39.69 4.40
5201 5643 8.540388 TGTTAATCAGCTGTTCTAAGTTATCCT 58.460 33.333 14.67 0.00 0.00 3.24
5981 6425 9.559732 TCTCAGAATAACAGTGAGAAAATGAAA 57.440 29.630 0.00 0.00 42.91 2.69
6178 6623 7.588497 ACTGAGCTTTAGGTTTTTGATTTCT 57.412 32.000 0.00 0.00 0.00 2.52
6298 6743 1.472376 CCAGCAATCTCTTCCTCGGTC 60.472 57.143 0.00 0.00 0.00 4.79
6825 7303 1.818060 CGCAAATCTTCACCCATGGAA 59.182 47.619 15.22 0.00 0.00 3.53
6845 7323 2.931068 CGTTCCCCTTTTGGCTGCC 61.931 63.158 12.87 12.87 38.58 4.85
6855 7333 1.376812 GGAAATGTCGCGTTCCCCT 60.377 57.895 13.69 0.00 37.87 4.79
6881 7360 6.866770 TGTATGCTAGATTTATACAGAACGCC 59.133 38.462 0.00 0.00 33.65 5.68
6906 7385 5.717119 CAAACATACGACCTTAGGTACACT 58.283 41.667 2.88 0.00 35.25 3.55
6934 7413 0.978907 TGCAAGCACTGATCTGGAGA 59.021 50.000 4.49 0.00 0.00 3.71
6947 7426 4.044426 GGATTATTCGGTTTGATGCAAGC 58.956 43.478 0.00 0.00 0.00 4.01
6949 7428 5.451659 CCATGGATTATTCGGTTTGATGCAA 60.452 40.000 5.56 0.00 0.00 4.08
6951 7430 4.549458 CCATGGATTATTCGGTTTGATGC 58.451 43.478 5.56 0.00 0.00 3.91
7004 7488 0.538287 ACCCTTGGCTTCAGCAGTTC 60.538 55.000 0.30 0.00 44.36 3.01
7005 7489 0.771127 TACCCTTGGCTTCAGCAGTT 59.229 50.000 0.30 0.00 44.36 3.16
7006 7490 0.995024 ATACCCTTGGCTTCAGCAGT 59.005 50.000 0.30 0.00 44.36 4.40
7007 7491 2.019984 GAATACCCTTGGCTTCAGCAG 58.980 52.381 0.30 0.00 44.36 4.24
7008 7492 1.678728 CGAATACCCTTGGCTTCAGCA 60.679 52.381 0.30 0.00 44.36 4.41
7009 7493 1.017387 CGAATACCCTTGGCTTCAGC 58.983 55.000 0.00 0.00 41.14 4.26
7010 7494 1.017387 GCGAATACCCTTGGCTTCAG 58.983 55.000 0.00 0.00 0.00 3.02
7011 7495 0.326595 TGCGAATACCCTTGGCTTCA 59.673 50.000 0.00 0.00 0.00 3.02
7012 7496 1.017387 CTGCGAATACCCTTGGCTTC 58.983 55.000 0.00 0.00 0.00 3.86
7378 7888 1.676529 GTCGCAGCTGTGGTCTAGATA 59.323 52.381 26.23 2.02 0.00 1.98
7416 7926 0.392729 CTCTTGCAGGGCTCTCCAAG 60.393 60.000 11.35 11.35 38.24 3.61
7443 7953 4.205323 ACAAAAAGTCGTCTAAAAGCCG 57.795 40.909 0.00 0.00 0.00 5.52
7444 7954 5.170803 CGAAACAAAAAGTCGTCTAAAAGCC 59.829 40.000 0.00 0.00 0.00 4.35
7445 7955 5.961263 TCGAAACAAAAAGTCGTCTAAAAGC 59.039 36.000 0.00 0.00 36.21 3.51
7446 7956 8.543071 AATCGAAACAAAAAGTCGTCTAAAAG 57.457 30.769 0.00 0.00 36.21 2.27
7447 7957 8.898983 AAATCGAAACAAAAAGTCGTCTAAAA 57.101 26.923 0.00 0.00 36.21 1.52
7448 7958 8.898983 AAAATCGAAACAAAAAGTCGTCTAAA 57.101 26.923 0.00 0.00 36.21 1.85
7449 7959 8.898983 AAAAATCGAAACAAAAAGTCGTCTAA 57.101 26.923 0.00 0.00 36.21 2.10
7471 7981 5.752955 CAGAGAAATCCAAAAAGCCGAAAAA 59.247 36.000 0.00 0.00 0.00 1.94
7472 7982 5.288804 CAGAGAAATCCAAAAAGCCGAAAA 58.711 37.500 0.00 0.00 0.00 2.29
7473 7983 4.261994 CCAGAGAAATCCAAAAAGCCGAAA 60.262 41.667 0.00 0.00 0.00 3.46
7474 7984 3.255642 CCAGAGAAATCCAAAAAGCCGAA 59.744 43.478 0.00 0.00 0.00 4.30
7475 7985 2.819608 CCAGAGAAATCCAAAAAGCCGA 59.180 45.455 0.00 0.00 0.00 5.54
7476 7986 2.558359 ACCAGAGAAATCCAAAAAGCCG 59.442 45.455 0.00 0.00 0.00 5.52
7477 7987 4.607293 AACCAGAGAAATCCAAAAAGCC 57.393 40.909 0.00 0.00 0.00 4.35
7478 7988 6.283694 AGAAAACCAGAGAAATCCAAAAAGC 58.716 36.000 0.00 0.00 0.00 3.51
7479 7989 8.722480 AAAGAAAACCAGAGAAATCCAAAAAG 57.278 30.769 0.00 0.00 0.00 2.27
7480 7990 9.816354 CTAAAGAAAACCAGAGAAATCCAAAAA 57.184 29.630 0.00 0.00 0.00 1.94
7481 7991 8.421002 CCTAAAGAAAACCAGAGAAATCCAAAA 58.579 33.333 0.00 0.00 0.00 2.44
7482 7992 7.563556 ACCTAAAGAAAACCAGAGAAATCCAAA 59.436 33.333 0.00 0.00 0.00 3.28
7483 7993 7.066781 ACCTAAAGAAAACCAGAGAAATCCAA 58.933 34.615 0.00 0.00 0.00 3.53
7484 7994 6.610830 ACCTAAAGAAAACCAGAGAAATCCA 58.389 36.000 0.00 0.00 0.00 3.41
7485 7995 7.526142 AACCTAAAGAAAACCAGAGAAATCC 57.474 36.000 0.00 0.00 0.00 3.01
7486 7996 9.249457 CAAAACCTAAAGAAAACCAGAGAAATC 57.751 33.333 0.00 0.00 0.00 2.17
7487 7997 8.977412 TCAAAACCTAAAGAAAACCAGAGAAAT 58.023 29.630 0.00 0.00 0.00 2.17
7488 7998 8.356000 TCAAAACCTAAAGAAAACCAGAGAAA 57.644 30.769 0.00 0.00 0.00 2.52
7489 7999 7.948034 TCAAAACCTAAAGAAAACCAGAGAA 57.052 32.000 0.00 0.00 0.00 2.87
7490 8000 7.394923 TGTTCAAAACCTAAAGAAAACCAGAGA 59.605 33.333 0.00 0.00 0.00 3.10
7491 8001 7.543756 TGTTCAAAACCTAAAGAAAACCAGAG 58.456 34.615 0.00 0.00 0.00 3.35
7492 8002 7.469537 TGTTCAAAACCTAAAGAAAACCAGA 57.530 32.000 0.00 0.00 0.00 3.86
7493 8003 8.032451 TCTTGTTCAAAACCTAAAGAAAACCAG 58.968 33.333 0.00 0.00 0.00 4.00
7494 8004 7.897864 TCTTGTTCAAAACCTAAAGAAAACCA 58.102 30.769 0.00 0.00 0.00 3.67
7495 8005 8.766000 TTCTTGTTCAAAACCTAAAGAAAACC 57.234 30.769 0.00 0.00 31.82 3.27
7528 8038 3.068024 TGCGCCTCTCACAAATTTCTTTT 59.932 39.130 4.18 0.00 0.00 2.27
7529 8039 2.622942 TGCGCCTCTCACAAATTTCTTT 59.377 40.909 4.18 0.00 0.00 2.52
7530 8040 2.229792 TGCGCCTCTCACAAATTTCTT 58.770 42.857 4.18 0.00 0.00 2.52
7531 8041 1.896220 TGCGCCTCTCACAAATTTCT 58.104 45.000 4.18 0.00 0.00 2.52
7532 8042 2.927553 ATGCGCCTCTCACAAATTTC 57.072 45.000 4.18 0.00 0.00 2.17
7533 8043 4.989279 AATATGCGCCTCTCACAAATTT 57.011 36.364 4.18 0.00 0.00 1.82
7534 8044 4.989279 AAATATGCGCCTCTCACAAATT 57.011 36.364 4.18 0.00 0.00 1.82
7535 8045 5.126067 AGTAAATATGCGCCTCTCACAAAT 58.874 37.500 4.18 0.00 0.00 2.32
7536 8046 4.513442 AGTAAATATGCGCCTCTCACAAA 58.487 39.130 4.18 0.00 0.00 2.83
7537 8047 4.137116 AGTAAATATGCGCCTCTCACAA 57.863 40.909 4.18 0.00 0.00 3.33
7538 8048 3.819564 AGTAAATATGCGCCTCTCACA 57.180 42.857 4.18 0.00 0.00 3.58
7539 8049 4.024809 GGAAAGTAAATATGCGCCTCTCAC 60.025 45.833 4.18 0.00 0.00 3.51
7540 8050 4.127171 GGAAAGTAAATATGCGCCTCTCA 58.873 43.478 4.18 0.00 0.00 3.27
7541 8051 3.184581 CGGAAAGTAAATATGCGCCTCTC 59.815 47.826 4.18 0.00 0.00 3.20
7542 8052 3.131396 CGGAAAGTAAATATGCGCCTCT 58.869 45.455 4.18 0.00 0.00 3.69
7543 8053 2.870411 ACGGAAAGTAAATATGCGCCTC 59.130 45.455 4.18 0.00 0.00 4.70
7544 8054 2.914059 ACGGAAAGTAAATATGCGCCT 58.086 42.857 4.18 0.00 0.00 5.52
7545 8055 4.053295 TCTACGGAAAGTAAATATGCGCC 58.947 43.478 4.18 0.00 34.45 6.53
7546 8056 4.150098 CCTCTACGGAAAGTAAATATGCGC 59.850 45.833 0.00 0.00 34.45 6.09
7547 8057 4.150098 GCCTCTACGGAAAGTAAATATGCG 59.850 45.833 0.00 0.00 34.45 4.73
7548 8058 5.054477 TGCCTCTACGGAAAGTAAATATGC 58.946 41.667 0.00 0.00 34.45 3.14
7549 8059 6.089551 CGATGCCTCTACGGAAAGTAAATATG 59.910 42.308 0.00 0.00 34.45 1.78
7550 8060 6.015688 TCGATGCCTCTACGGAAAGTAAATAT 60.016 38.462 0.00 0.00 34.45 1.28
7551 8061 5.300034 TCGATGCCTCTACGGAAAGTAAATA 59.700 40.000 0.00 0.00 34.45 1.40
7552 8062 4.098960 TCGATGCCTCTACGGAAAGTAAAT 59.901 41.667 0.00 0.00 34.45 1.40
7553 8063 3.444742 TCGATGCCTCTACGGAAAGTAAA 59.555 43.478 0.00 0.00 34.45 2.01
7554 8064 3.018856 TCGATGCCTCTACGGAAAGTAA 58.981 45.455 0.00 0.00 34.45 2.24
7555 8065 2.646930 TCGATGCCTCTACGGAAAGTA 58.353 47.619 0.00 0.00 33.16 2.24
7556 8066 1.471119 TCGATGCCTCTACGGAAAGT 58.529 50.000 0.00 0.00 33.16 2.66
7557 8067 2.802787 ATCGATGCCTCTACGGAAAG 57.197 50.000 0.00 0.00 33.16 2.62
7558 8068 3.194861 CAAATCGATGCCTCTACGGAAA 58.805 45.455 0.00 0.00 33.16 3.13
7559 8069 2.821546 CAAATCGATGCCTCTACGGAA 58.178 47.619 0.00 0.00 33.16 4.30
7560 8070 1.538204 GCAAATCGATGCCTCTACGGA 60.538 52.381 0.00 0.00 40.49 4.69
7561 8071 0.861837 GCAAATCGATGCCTCTACGG 59.138 55.000 0.00 0.00 40.49 4.02
7569 8079 1.652329 CGCCGAAGCAAATCGATGC 60.652 57.895 0.00 0.00 45.48 3.91
7570 8080 0.042708 CTCGCCGAAGCAAATCGATG 60.043 55.000 0.00 0.00 45.48 3.84
7571 8081 0.179111 TCTCGCCGAAGCAAATCGAT 60.179 50.000 7.97 0.00 45.48 3.59
7572 8082 0.802222 CTCTCGCCGAAGCAAATCGA 60.802 55.000 7.97 0.00 45.48 3.59
7573 8083 1.633171 CTCTCGCCGAAGCAAATCG 59.367 57.895 0.00 0.22 42.37 3.34
7574 8084 2.009888 CCTCTCGCCGAAGCAAATC 58.990 57.895 0.00 0.00 39.83 2.17
7575 8085 2.109126 GCCTCTCGCCGAAGCAAAT 61.109 57.895 0.00 0.00 39.83 2.32
7576 8086 2.742372 GCCTCTCGCCGAAGCAAA 60.742 61.111 0.00 0.00 39.83 3.68
7577 8087 3.939837 CTGCCTCTCGCCGAAGCAA 62.940 63.158 7.41 0.00 38.54 3.91
7578 8088 4.441695 CTGCCTCTCGCCGAAGCA 62.442 66.667 6.06 6.06 36.76 3.91
7580 8090 4.140599 AGCTGCCTCTCGCCGAAG 62.141 66.667 0.00 0.00 36.24 3.79
7581 8091 4.441695 CAGCTGCCTCTCGCCGAA 62.442 66.667 0.00 0.00 36.24 4.30
7592 8102 1.230635 TTTTCGAGAGGCACAGCTGC 61.231 55.000 15.27 0.33 43.41 5.25
7593 8103 1.229428 TTTTTCGAGAGGCACAGCTG 58.771 50.000 13.48 13.48 0.00 4.24
7594 8104 3.706055 TTTTTCGAGAGGCACAGCT 57.294 47.368 0.00 0.00 0.00 4.24
7620 8130 9.936759 TCAAGGTAGAAAAAGAAAAACACATTT 57.063 25.926 0.00 0.00 0.00 2.32
7621 8131 9.586435 CTCAAGGTAGAAAAAGAAAAACACATT 57.414 29.630 0.00 0.00 0.00 2.71
7622 8132 8.966868 TCTCAAGGTAGAAAAAGAAAAACACAT 58.033 29.630 0.00 0.00 0.00 3.21
7623 8133 8.343168 TCTCAAGGTAGAAAAAGAAAAACACA 57.657 30.769 0.00 0.00 0.00 3.72
7624 8134 7.915923 CCTCTCAAGGTAGAAAAAGAAAAACAC 59.084 37.037 0.00 0.00 37.94 3.32
7625 8135 7.416326 GCCTCTCAAGGTAGAAAAAGAAAAACA 60.416 37.037 0.00 0.00 45.34 2.83
7626 8136 6.918569 GCCTCTCAAGGTAGAAAAAGAAAAAC 59.081 38.462 0.00 0.00 45.34 2.43
7627 8137 6.605594 TGCCTCTCAAGGTAGAAAAAGAAAAA 59.394 34.615 0.00 0.00 45.34 1.94
7628 8138 6.039382 GTGCCTCTCAAGGTAGAAAAAGAAAA 59.961 38.462 0.00 0.00 45.34 2.29
7629 8139 5.531287 GTGCCTCTCAAGGTAGAAAAAGAAA 59.469 40.000 0.00 0.00 45.34 2.52
7630 8140 5.063880 GTGCCTCTCAAGGTAGAAAAAGAA 58.936 41.667 0.00 0.00 45.34 2.52
7631 8141 4.102524 TGTGCCTCTCAAGGTAGAAAAAGA 59.897 41.667 0.00 0.00 45.34 2.52
7632 8142 4.389374 TGTGCCTCTCAAGGTAGAAAAAG 58.611 43.478 0.00 0.00 45.34 2.27
7633 8143 4.102524 TCTGTGCCTCTCAAGGTAGAAAAA 59.897 41.667 0.00 0.00 45.34 1.94
7634 8144 3.646162 TCTGTGCCTCTCAAGGTAGAAAA 59.354 43.478 0.00 0.00 45.34 2.29
7635 8145 3.239449 TCTGTGCCTCTCAAGGTAGAAA 58.761 45.455 0.00 0.00 45.34 2.52
7636 8146 2.889512 TCTGTGCCTCTCAAGGTAGAA 58.110 47.619 0.00 0.00 45.34 2.10
7637 8147 2.604912 TCTGTGCCTCTCAAGGTAGA 57.395 50.000 0.00 0.00 45.34 2.59
7638 8148 3.902881 AATCTGTGCCTCTCAAGGTAG 57.097 47.619 0.00 0.00 45.34 3.18
7639 8149 3.869912 GCAAATCTGTGCCTCTCAAGGTA 60.870 47.826 0.00 0.00 45.34 3.08
7640 8150 2.787994 CAAATCTGTGCCTCTCAAGGT 58.212 47.619 0.00 0.00 45.34 3.50
7641 8151 1.471684 GCAAATCTGTGCCTCTCAAGG 59.528 52.381 0.00 0.00 46.44 3.61
7642 8152 2.434428 AGCAAATCTGTGCCTCTCAAG 58.566 47.619 0.00 0.00 46.14 3.02
7643 8153 2.574006 AGCAAATCTGTGCCTCTCAA 57.426 45.000 0.00 0.00 46.14 3.02
7644 8154 2.574006 AAGCAAATCTGTGCCTCTCA 57.426 45.000 0.00 0.00 46.14 3.27
7645 8155 3.572584 CAAAAGCAAATCTGTGCCTCTC 58.427 45.455 0.00 0.00 46.14 3.20
7646 8156 2.288640 GCAAAAGCAAATCTGTGCCTCT 60.289 45.455 0.00 0.00 46.14 3.69
7647 8157 2.064014 GCAAAAGCAAATCTGTGCCTC 58.936 47.619 0.00 0.00 46.14 4.70
7648 8158 1.603678 CGCAAAAGCAAATCTGTGCCT 60.604 47.619 0.00 0.00 46.14 4.75
7649 8159 0.785979 CGCAAAAGCAAATCTGTGCC 59.214 50.000 0.00 0.00 46.14 5.01
7650 8160 1.717645 CTCGCAAAAGCAAATCTGTGC 59.282 47.619 0.00 0.00 45.28 4.57
7651 8161 3.231965 CTCTCGCAAAAGCAAATCTGTG 58.768 45.455 0.00 0.00 0.00 3.66
7652 8162 2.227388 CCTCTCGCAAAAGCAAATCTGT 59.773 45.455 0.00 0.00 0.00 3.41
7653 8163 2.860062 CCTCTCGCAAAAGCAAATCTG 58.140 47.619 0.00 0.00 0.00 2.90
7654 8164 1.200948 GCCTCTCGCAAAAGCAAATCT 59.799 47.619 0.00 0.00 37.47 2.40
7655 8165 1.622232 GCCTCTCGCAAAAGCAAATC 58.378 50.000 0.00 0.00 37.47 2.17
7656 8166 0.244721 GGCCTCTCGCAAAAGCAAAT 59.755 50.000 0.00 0.00 40.31 2.32
7657 8167 0.823356 AGGCCTCTCGCAAAAGCAAA 60.823 50.000 0.00 0.00 40.31 3.68
7658 8168 1.228245 AGGCCTCTCGCAAAAGCAA 60.228 52.632 0.00 0.00 40.31 3.91
7659 8169 1.672356 GAGGCCTCTCGCAAAAGCA 60.672 57.895 26.25 0.00 40.31 3.91
7660 8170 0.957888 AAGAGGCCTCTCGCAAAAGC 60.958 55.000 35.18 3.94 44.47 3.51
7661 8171 0.801251 CAAGAGGCCTCTCGCAAAAG 59.199 55.000 35.18 14.87 44.47 2.27
7662 8172 0.396435 TCAAGAGGCCTCTCGCAAAA 59.604 50.000 35.18 14.16 44.47 2.44
7663 8173 0.396435 TTCAAGAGGCCTCTCGCAAA 59.604 50.000 35.18 22.01 44.47 3.68
7664 8174 0.396435 TTTCAAGAGGCCTCTCGCAA 59.604 50.000 35.18 23.26 44.47 4.85
7665 8175 0.396435 TTTTCAAGAGGCCTCTCGCA 59.604 50.000 35.18 18.89 44.47 5.10
7666 8176 1.466558 CTTTTTCAAGAGGCCTCTCGC 59.533 52.381 35.18 8.62 44.47 5.03
7667 8177 2.079925 CCTTTTTCAAGAGGCCTCTCG 58.920 52.381 35.18 25.69 44.47 4.04
7668 8178 3.425162 TCCTTTTTCAAGAGGCCTCTC 57.575 47.619 35.18 10.20 39.39 3.20
7669 8179 3.884037 TTCCTTTTTCAAGAGGCCTCT 57.116 42.857 30.40 30.40 42.75 3.69
7670 8180 4.937201 TTTTCCTTTTTCAAGAGGCCTC 57.063 40.909 26.22 26.22 32.93 4.70
7671 8181 4.503817 GCATTTTCCTTTTTCAAGAGGCCT 60.504 41.667 3.86 3.86 32.93 5.19
7672 8182 3.748048 GCATTTTCCTTTTTCAAGAGGCC 59.252 43.478 0.00 0.00 32.93 5.19
7673 8183 4.379652 TGCATTTTCCTTTTTCAAGAGGC 58.620 39.130 0.00 0.00 32.93 4.70
7674 8184 5.993441 ACATGCATTTTCCTTTTTCAAGAGG 59.007 36.000 0.00 0.00 30.57 3.69
7675 8185 7.486802 AACATGCATTTTCCTTTTTCAAGAG 57.513 32.000 0.00 0.00 30.57 2.85
7676 8186 7.862512 AAACATGCATTTTCCTTTTTCAAGA 57.137 28.000 0.00 0.00 30.57 3.02
7677 8187 8.914328 AAAAACATGCATTTTCCTTTTTCAAG 57.086 26.923 0.00 0.00 31.35 3.02
7702 8212 3.119316 TGTGCCTCTTGCGAAAAGAAAAA 60.119 39.130 3.05 0.00 45.60 1.94
7703 8213 2.425312 TGTGCCTCTTGCGAAAAGAAAA 59.575 40.909 3.05 0.00 45.60 2.29
7704 8214 2.020720 TGTGCCTCTTGCGAAAAGAAA 58.979 42.857 3.05 0.00 45.60 2.52
7705 8215 1.674359 TGTGCCTCTTGCGAAAAGAA 58.326 45.000 3.05 0.00 45.60 2.52
7706 8216 1.896220 ATGTGCCTCTTGCGAAAAGA 58.104 45.000 0.00 0.00 45.60 2.52
7707 8217 4.361451 AATATGTGCCTCTTGCGAAAAG 57.639 40.909 0.00 0.00 45.60 2.27
7708 8218 4.782019 AAATATGTGCCTCTTGCGAAAA 57.218 36.364 0.00 0.00 45.60 2.29


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

AutoCloner maintained by Alex Coulton.