Multiple sequence alignment - TraesCS2D01G112200

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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 TraesCS2D01G112200 chr2D 100.000 4974 0 0 530 5503 62284764 62289737 0.000000e+00 9186
1 TraesCS2D01G112200 chr2D 100.000 327 0 0 1 327 62284235 62284561 6.100000e-169 604
2 TraesCS2D01G112200 chr2D 78.427 496 71 17 4910 5369 62552550 62553045 1.940000e-74 291
3 TraesCS2D01G112200 chr2D 79.180 317 40 17 4909 5202 62558950 62559263 4.350000e-46 196
4 TraesCS2D01G112200 chr2D 75.710 317 51 17 4909 5202 62564308 62564621 9.620000e-28 135
5 TraesCS2D01G112200 chr2A 94.989 3253 115 24 2153 5386 63134747 63137970 0.000000e+00 5060
6 TraesCS2D01G112200 chr2A 94.635 1603 58 10 530 2123 63133163 63134746 0.000000e+00 2459
7 TraesCS2D01G112200 chr2A 96.070 229 8 1 99 327 63132884 63133111 6.730000e-99 372
8 TraesCS2D01G112200 chr2A 80.483 497 62 19 4910 5372 63588247 63588742 1.130000e-91 348
9 TraesCS2D01G112200 chr2A 80.198 303 46 11 4910 5202 63606478 63606776 1.200000e-51 215
10 TraesCS2D01G112200 chr2B 92.146 3094 169 41 2437 5503 97930707 97933753 0.000000e+00 4300
11 TraesCS2D01G112200 chr2B 86.138 1789 154 47 530 2275 97928862 97930599 0.000000e+00 1844
12 TraesCS2D01G112200 chr2B 94.850 233 8 1 99 327 97928577 97928809 1.460000e-95 361
13 TraesCS2D01G112200 chr2B 77.778 495 61 29 4909 5360 98263925 98264413 5.470000e-65 259
14 TraesCS2D01G112200 chr2B 79.939 329 46 12 5064 5372 98256435 98256763 1.990000e-54 224
15 TraesCS2D01G112200 chr2B 77.070 314 44 19 4909 5198 98285992 98286301 7.380000e-34 156


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 TraesCS2D01G112200 chr2D 62284235 62289737 5502 False 4895.000000 9186 100.000000 1 5503 2 chr2D.!!$F4 5502
1 TraesCS2D01G112200 chr2A 63132884 63137970 5086 False 2630.333333 5060 95.231333 99 5386 3 chr2A.!!$F3 5287
2 TraesCS2D01G112200 chr2B 97928577 97933753 5176 False 2168.333333 4300 91.044667 99 5503 3 chr2B.!!$F4 5404

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
38 39 0.179081 GCCCTTTAGTAGCCCGTGAG 60.179 60.000 0.00 0.0 0.00 3.51 F
70 71 0.317799 TCGTTGTTAGCAGCCCGTTA 59.682 50.000 0.00 0.0 0.00 3.18 F
71 72 0.719465 CGTTGTTAGCAGCCCGTTAG 59.281 55.000 0.00 0.0 0.00 2.34 F
120 121 0.810031 CGTTAGGCCCAATCGTGAGG 60.810 60.000 0.00 0.0 0.00 3.86 F
853 860 1.401905 GAAGTAGGCCAGCGATTTTGG 59.598 52.381 5.01 0.0 38.78 3.28 F
2368 2421 1.879737 GCCCAGCATGCACATTGACA 61.880 55.000 21.98 0.0 31.97 3.58 F
3206 3262 0.326048 ACTGAGCTCCTATGGCCTGT 60.326 55.000 12.15 0.0 0.00 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2016 2062 3.118112 CAGCCTTTCTCATATGGTCCTGT 60.118 47.826 2.13 0.0 0.00 4.00 R
2116 2169 8.812513 TTTGACAATCTCTGGTGAATATGATT 57.187 30.769 0.00 0.0 0.00 2.57 R
2150 2203 9.624373 AGTGAAGTGATTTCTCTAATAATGCAT 57.376 29.630 0.00 0.0 37.74 3.96 R
2151 2204 9.453572 AAGTGAAGTGATTTCTCTAATAATGCA 57.546 29.630 0.00 0.0 38.37 3.96 R
2624 2677 2.169769 ACCAGAAGTGACACCGAAAAGA 59.830 45.455 0.84 0.0 0.00 2.52 R
4308 4367 0.102120 CGGGCTGAGCAAAAACAACA 59.898 50.000 6.82 0.0 0.00 3.33 R
5069 5140 0.532862 CGGCGCCATCAAGAGGTAAT 60.533 55.000 28.98 0.0 0.00 1.89 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
31 32 8.139350 TCTTTTTAACAAAAGCCCTTTAGTAGC 58.861 33.333 3.05 0.00 46.01 3.58
32 33 5.970317 TTAACAAAAGCCCTTTAGTAGCC 57.030 39.130 0.00 0.00 31.63 3.93
33 34 2.803956 ACAAAAGCCCTTTAGTAGCCC 58.196 47.619 0.00 0.00 31.63 5.19
34 35 1.743394 CAAAAGCCCTTTAGTAGCCCG 59.257 52.381 0.00 0.00 31.63 6.13
35 36 0.989602 AAAGCCCTTTAGTAGCCCGT 59.010 50.000 0.00 0.00 0.00 5.28
36 37 0.252197 AAGCCCTTTAGTAGCCCGTG 59.748 55.000 0.00 0.00 0.00 4.94
37 38 0.616679 AGCCCTTTAGTAGCCCGTGA 60.617 55.000 0.00 0.00 0.00 4.35
38 39 0.179081 GCCCTTTAGTAGCCCGTGAG 60.179 60.000 0.00 0.00 0.00 3.51
39 40 1.481871 CCCTTTAGTAGCCCGTGAGA 58.518 55.000 0.00 0.00 0.00 3.27
40 41 1.829222 CCCTTTAGTAGCCCGTGAGAA 59.171 52.381 0.00 0.00 0.00 2.87
41 42 2.418334 CCCTTTAGTAGCCCGTGAGAAC 60.418 54.545 0.00 0.00 0.00 3.01
42 43 2.527100 CTTTAGTAGCCCGTGAGAACG 58.473 52.381 0.00 0.00 0.00 3.95
43 44 1.538047 TTAGTAGCCCGTGAGAACGT 58.462 50.000 0.00 0.00 0.00 3.99
44 45 0.806868 TAGTAGCCCGTGAGAACGTG 59.193 55.000 0.00 0.00 0.00 4.49
45 46 0.892358 AGTAGCCCGTGAGAACGTGA 60.892 55.000 0.00 0.00 0.00 4.35
46 47 0.456312 GTAGCCCGTGAGAACGTGAG 60.456 60.000 0.00 0.00 0.00 3.51
47 48 0.607217 TAGCCCGTGAGAACGTGAGA 60.607 55.000 0.00 0.00 0.00 3.27
48 49 1.215647 GCCCGTGAGAACGTGAGAT 59.784 57.895 0.00 0.00 0.00 2.75
49 50 0.389948 GCCCGTGAGAACGTGAGATT 60.390 55.000 0.00 0.00 0.00 2.40
50 51 1.630148 CCCGTGAGAACGTGAGATTC 58.370 55.000 0.00 0.00 0.00 2.52
51 52 1.202582 CCCGTGAGAACGTGAGATTCT 59.797 52.381 0.00 0.00 39.15 2.40
61 62 3.243336 ACGTGAGATTCTCGTTGTTAGC 58.757 45.455 9.07 0.00 42.91 3.09
62 63 3.242518 CGTGAGATTCTCGTTGTTAGCA 58.757 45.455 9.07 0.00 32.35 3.49
63 64 3.301906 CGTGAGATTCTCGTTGTTAGCAG 59.698 47.826 9.07 0.00 32.35 4.24
64 65 3.061429 GTGAGATTCTCGTTGTTAGCAGC 59.939 47.826 9.07 0.00 32.35 5.25
65 66 2.605366 GAGATTCTCGTTGTTAGCAGCC 59.395 50.000 0.00 0.00 0.00 4.85
66 67 1.666189 GATTCTCGTTGTTAGCAGCCC 59.334 52.381 0.00 0.00 0.00 5.19
67 68 0.669318 TTCTCGTTGTTAGCAGCCCG 60.669 55.000 0.00 0.00 0.00 6.13
68 69 1.374252 CTCGTTGTTAGCAGCCCGT 60.374 57.895 0.00 0.00 0.00 5.28
69 70 0.949105 CTCGTTGTTAGCAGCCCGTT 60.949 55.000 0.00 0.00 0.00 4.44
70 71 0.317799 TCGTTGTTAGCAGCCCGTTA 59.682 50.000 0.00 0.00 0.00 3.18
71 72 0.719465 CGTTGTTAGCAGCCCGTTAG 59.281 55.000 0.00 0.00 0.00 2.34
72 73 1.084289 GTTGTTAGCAGCCCGTTAGG 58.916 55.000 0.00 0.00 39.47 2.69
91 92 3.111853 GGCCCAACCTTTCTTTTCTTG 57.888 47.619 0.00 0.00 34.51 3.02
92 93 2.698274 GGCCCAACCTTTCTTTTCTTGA 59.302 45.455 0.00 0.00 34.51 3.02
93 94 3.243873 GGCCCAACCTTTCTTTTCTTGAG 60.244 47.826 0.00 0.00 34.51 3.02
94 95 3.636764 GCCCAACCTTTCTTTTCTTGAGA 59.363 43.478 0.00 0.00 0.00 3.27
95 96 4.099419 GCCCAACCTTTCTTTTCTTGAGAA 59.901 41.667 0.00 0.00 0.00 2.87
96 97 5.592054 CCCAACCTTTCTTTTCTTGAGAAC 58.408 41.667 0.00 0.00 33.15 3.01
97 98 5.360999 CCCAACCTTTCTTTTCTTGAGAACT 59.639 40.000 0.00 0.00 33.15 3.01
120 121 0.810031 CGTTAGGCCCAATCGTGAGG 60.810 60.000 0.00 0.00 0.00 3.86
152 153 4.753662 ACTAGACTCCGGCCCGCA 62.754 66.667 0.00 0.00 0.00 5.69
774 781 4.952482 CCTTGGGGGTTGAAAGCT 57.048 55.556 0.00 0.00 0.00 3.74
793 800 2.742204 GCTTAGGCTACTTTTCTCGGGG 60.742 54.545 0.00 0.00 35.22 5.73
796 803 1.982958 AGGCTACTTTTCTCGGGGAAA 59.017 47.619 0.00 0.00 41.58 3.13
797 804 2.576648 AGGCTACTTTTCTCGGGGAAAT 59.423 45.455 3.48 0.00 42.63 2.17
798 805 2.943690 GGCTACTTTTCTCGGGGAAATC 59.056 50.000 3.48 0.00 42.63 2.17
799 806 3.370633 GGCTACTTTTCTCGGGGAAATCT 60.371 47.826 3.48 0.00 42.63 2.40
800 807 3.872182 GCTACTTTTCTCGGGGAAATCTC 59.128 47.826 3.48 0.00 42.63 2.75
802 809 4.367039 ACTTTTCTCGGGGAAATCTCAA 57.633 40.909 3.48 0.00 42.63 3.02
804 811 2.781681 TTCTCGGGGAAATCTCAACC 57.218 50.000 0.00 0.00 0.00 3.77
805 812 1.952621 TCTCGGGGAAATCTCAACCT 58.047 50.000 0.00 0.00 0.00 3.50
808 815 3.841845 TCTCGGGGAAATCTCAACCTAAA 59.158 43.478 0.00 0.00 0.00 1.85
813 820 6.495526 TCGGGGAAATCTCAACCTAAATTTTT 59.504 34.615 0.00 0.00 0.00 1.94
853 860 1.401905 GAAGTAGGCCAGCGATTTTGG 59.598 52.381 5.01 0.00 38.78 3.28
890 897 5.029654 GTCGTGTAAATTTGTTCGTGGTTT 58.970 37.500 0.00 0.00 0.00 3.27
949 956 9.432982 AGATATTCCTGTCAGTCTTCTTTCTAT 57.567 33.333 0.00 0.00 0.00 1.98
1117 1144 9.654663 GTATTCCCACTTCCATTACTATATGTC 57.345 37.037 0.00 0.00 0.00 3.06
1118 1145 7.931015 TTCCCACTTCCATTACTATATGTCT 57.069 36.000 0.00 0.00 0.00 3.41
1120 1147 9.442062 TTCCCACTTCCATTACTATATGTCTTA 57.558 33.333 0.00 0.00 0.00 2.10
1121 1148 9.442062 TCCCACTTCCATTACTATATGTCTTAA 57.558 33.333 0.00 0.00 0.00 1.85
1155 1182 4.520111 TGAAGGTGATGAAACAATGACAGG 59.480 41.667 0.00 0.00 0.00 4.00
1166 1193 9.733556 ATGAAACAATGACAGGTGTATTTAGTA 57.266 29.630 0.00 0.00 0.00 1.82
1268 1313 7.331026 TGAGTGGTATAAGATAGCATTATGGC 58.669 38.462 2.03 0.00 0.00 4.40
1295 1340 8.134895 TGTGCCACTCACTTTTAAGAAAATAAG 58.865 33.333 0.00 0.00 45.81 1.73
1330 1375 8.734386 ACTAATTTGATCTGTTGATTGGAGTTC 58.266 33.333 0.00 0.00 32.19 3.01
1649 1695 5.468540 TTGTAGCTTGCTCTTCTCAGTTA 57.531 39.130 0.00 0.00 0.00 2.24
1653 1699 4.314121 AGCTTGCTCTTCTCAGTTAACAG 58.686 43.478 8.61 0.00 0.00 3.16
1794 1840 7.201410 GGAGTATCGTGGTACGCAAAATATATG 60.201 40.741 0.00 0.00 42.21 1.78
1799 1845 6.638063 TCGTGGTACGCAAAATATATGTCTAC 59.362 38.462 0.00 0.00 42.21 2.59
1907 1953 2.572290 TCTGCATCATGGCAAGATCTG 58.428 47.619 1.56 0.00 44.40 2.90
1932 1978 8.521176 TGAAGGTCTGTAGAAAGAGTACAATAC 58.479 37.037 0.00 0.00 30.04 1.89
2116 2169 2.549563 CCTGCTGCAGTTCTCTTCTTCA 60.550 50.000 26.41 0.00 0.00 3.02
2131 2184 8.082672 TCTCTTCTTCAATCATATTCACCAGA 57.917 34.615 0.00 0.00 0.00 3.86
2139 2192 7.567458 TCAATCATATTCACCAGAGATTGTCA 58.433 34.615 11.33 0.00 41.65 3.58
2140 2193 8.048514 TCAATCATATTCACCAGAGATTGTCAA 58.951 33.333 11.33 0.00 41.65 3.18
2148 2201 4.037208 CACCAGAGATTGTCAAAAGTTGCT 59.963 41.667 0.00 0.00 0.00 3.91
2150 2203 5.827797 ACCAGAGATTGTCAAAAGTTGCTTA 59.172 36.000 0.00 0.00 0.00 3.09
2151 2204 6.491403 ACCAGAGATTGTCAAAAGTTGCTTAT 59.509 34.615 0.00 0.00 0.00 1.73
2269 2322 6.550938 ACTGATGTCTTTATCCAGATCACA 57.449 37.500 0.00 0.00 0.00 3.58
2368 2421 1.879737 GCCCAGCATGCACATTGACA 61.880 55.000 21.98 0.00 31.97 3.58
2624 2677 5.799213 AGTATGCTGTAAGTTCTGCTTCTT 58.201 37.500 0.00 0.00 38.57 2.52
2729 2782 5.534278 TGAACATATGGTTTTTGAGCTGTCA 59.466 36.000 7.80 0.00 40.63 3.58
2731 2784 6.199937 ACATATGGTTTTTGAGCTGTCATC 57.800 37.500 7.80 0.00 30.85 2.92
2793 2849 5.179452 ACCTTTTGCAGATAAGGAAGCTA 57.821 39.130 23.31 0.00 42.90 3.32
2928 2984 4.642885 CCACCTTGTTGTTTTCTGAAGGTA 59.357 41.667 0.00 0.00 43.67 3.08
3027 3083 5.552178 AGTCCAAGGTCAGTCTTTGATTAC 58.448 41.667 0.00 0.00 38.29 1.89
3206 3262 0.326048 ACTGAGCTCCTATGGCCTGT 60.326 55.000 12.15 0.00 0.00 4.00
3219 3275 1.617947 GGCCTGTGTACCTCCTCCTG 61.618 65.000 0.00 0.00 0.00 3.86
3312 3368 6.532826 TGCTTGATATGTTGGCACATCTATA 58.467 36.000 5.95 0.00 43.06 1.31
3344 3400 6.619801 AGTATGTTCTGGTTGAAACTTGAC 57.380 37.500 0.00 0.00 36.30 3.18
3443 3501 6.115446 TCTGACATCCTAAATGTCCATGTTC 58.885 40.000 13.88 0.00 45.70 3.18
3470 3528 2.578480 TGGCAATACACCATAACCCTCA 59.422 45.455 0.00 0.00 30.29 3.86
3529 3587 7.833285 AGTTAAACCTGCTGATTTTTCCTAA 57.167 32.000 0.00 0.00 0.00 2.69
3554 3612 7.296628 TGTTAAATGGAAAACTAGTGGCATT 57.703 32.000 0.00 0.00 0.00 3.56
3771 3830 0.773644 ACCAGCTCCATTGGTTGACT 59.226 50.000 1.86 0.00 46.57 3.41
3794 3853 6.099845 ACTGAGGTATGGTAATAAACTGGGAG 59.900 42.308 0.00 0.00 0.00 4.30
3795 3854 5.163237 TGAGGTATGGTAATAAACTGGGAGC 60.163 44.000 0.00 0.00 0.00 4.70
3878 3937 1.126488 CAGAGCTTGGGCATAGAGGA 58.874 55.000 0.00 0.00 41.70 3.71
3879 3938 1.698532 CAGAGCTTGGGCATAGAGGAT 59.301 52.381 0.00 0.00 41.70 3.24
3880 3939 2.106166 CAGAGCTTGGGCATAGAGGATT 59.894 50.000 0.00 0.00 41.70 3.01
3881 3940 2.106166 AGAGCTTGGGCATAGAGGATTG 59.894 50.000 0.00 0.00 41.70 2.67
3882 3941 1.849039 AGCTTGGGCATAGAGGATTGT 59.151 47.619 0.00 0.00 41.70 2.71
3915 3974 7.092668 ACTCTGGAAGTAGAGCATTAAGGATTT 60.093 37.037 2.87 0.00 46.44 2.17
3944 4003 0.657840 GACTATGACGGCACAATGGC 59.342 55.000 0.00 0.00 39.85 4.40
4001 4060 3.507162 TCACAGGCTTCAAATTGGAGA 57.493 42.857 5.27 0.00 0.00 3.71
4012 4071 5.489792 TCAAATTGGAGAGCTGTTCTAGT 57.510 39.130 0.00 0.00 35.87 2.57
4021 4080 5.242838 GGAGAGCTGTTCTAGTGTATATGCT 59.757 44.000 0.00 0.00 35.87 3.79
4022 4081 6.325919 AGAGCTGTTCTAGTGTATATGCTC 57.674 41.667 0.00 0.00 43.01 4.26
4023 4082 5.830457 AGAGCTGTTCTAGTGTATATGCTCA 59.170 40.000 12.56 0.00 44.49 4.26
4043 4102 4.579564 TCACGTAACATTGACACAAAACG 58.420 39.130 0.00 0.00 35.38 3.60
4104 4163 6.872585 TTGATTTTAATTTCCATGAGCCCT 57.127 33.333 0.00 0.00 0.00 5.19
4170 4229 6.493458 AGGTTCTTGGAAGCAAGCTATTAAAA 59.507 34.615 11.19 0.00 32.52 1.52
4172 4231 7.371159 GTTCTTGGAAGCAAGCTATTAAAACT 58.629 34.615 0.00 0.00 32.52 2.66
4235 4294 2.449464 CAGATCACCAGCAAAATCCCA 58.551 47.619 0.00 0.00 0.00 4.37
4273 4332 8.374327 TGCATCTGTAAGTATTCTCAATCATG 57.626 34.615 0.00 0.00 33.76 3.07
4413 4472 9.011095 CGGTCTCCTGATGTAATATAACTCTTA 57.989 37.037 0.00 0.00 0.00 2.10
4441 4500 6.707440 TGTGTTGACTTATTGTTGATTGGT 57.293 33.333 0.00 0.00 0.00 3.67
4443 4502 8.402798 TGTGTTGACTTATTGTTGATTGGTAT 57.597 30.769 0.00 0.00 0.00 2.73
4465 4524 9.542462 GGTATGTGTTCATTGCTCTTATACTAA 57.458 33.333 0.00 0.00 35.70 2.24
4585 4644 0.815095 TCTTCGCCGACTTCTGCATA 59.185 50.000 0.00 0.00 0.00 3.14
4629 4690 5.350640 GTGTTCGGTTATTCTAGGTTCCTTG 59.649 44.000 0.00 0.00 0.00 3.61
4630 4691 5.246656 TGTTCGGTTATTCTAGGTTCCTTGA 59.753 40.000 0.00 0.00 0.00 3.02
4632 4693 5.914033 TCGGTTATTCTAGGTTCCTTGATG 58.086 41.667 4.10 0.00 0.00 3.07
4634 4695 6.070424 TCGGTTATTCTAGGTTCCTTGATGTT 60.070 38.462 4.10 0.00 0.00 2.71
4636 4697 7.201617 CGGTTATTCTAGGTTCCTTGATGTTTC 60.202 40.741 4.10 0.00 0.00 2.78
4638 4699 8.669243 GTTATTCTAGGTTCCTTGATGTTTCTG 58.331 37.037 4.10 0.00 0.00 3.02
4639 4700 5.825593 TCTAGGTTCCTTGATGTTTCTGT 57.174 39.130 0.00 0.00 0.00 3.41
4660 4721 8.017418 TCTGTAAAACTTGTTTGGATGGATTT 57.983 30.769 0.00 0.00 0.00 2.17
4729 4790 4.415881 TTATCTATGCATGGTCGTTGGT 57.584 40.909 10.16 0.00 0.00 3.67
4763 4824 4.937696 TGAATACAGTAACATTGCCGTG 57.062 40.909 0.00 0.00 0.00 4.94
4774 4835 0.810648 ATTGCCGTGTGTAATGCTGG 59.189 50.000 0.00 0.00 0.00 4.85
4860 4926 1.509644 ATCACTTGCACGCACACAGG 61.510 55.000 0.00 0.00 0.00 4.00
4865 4931 2.280119 GCACGCACACAGGACTCA 60.280 61.111 0.00 0.00 0.00 3.41
4875 4941 3.679980 CACACAGGACTCAGGATTTTACG 59.320 47.826 0.00 0.00 0.00 3.18
5033 5104 4.142687 CGTCCATGTTCAGATAAAACCCAC 60.143 45.833 0.00 0.00 0.00 4.61
5037 5108 1.471287 GTTCAGATAAAACCCACGGCC 59.529 52.381 0.00 0.00 0.00 6.13
5069 5140 1.199789 GCTTGCGGAACACATCATCAA 59.800 47.619 0.00 0.00 0.00 2.57
5202 5277 1.065491 AGACCATGCACCTGCGATTTA 60.065 47.619 0.00 0.00 45.83 1.40
5203 5278 1.949525 GACCATGCACCTGCGATTTAT 59.050 47.619 0.00 0.00 45.83 1.40
5204 5279 2.358898 GACCATGCACCTGCGATTTATT 59.641 45.455 0.00 0.00 45.83 1.40
5205 5280 2.760092 ACCATGCACCTGCGATTTATTT 59.240 40.909 0.00 0.00 45.83 1.40
5206 5281 3.117794 CCATGCACCTGCGATTTATTTG 58.882 45.455 0.00 0.00 45.83 2.32
5208 5283 1.135141 TGCACCTGCGATTTATTTGGC 60.135 47.619 0.00 0.00 45.83 4.52
5209 5284 1.135141 GCACCTGCGATTTATTTGGCA 60.135 47.619 0.00 0.00 0.00 4.92
5210 5285 2.481795 GCACCTGCGATTTATTTGGCAT 60.482 45.455 0.00 0.00 34.49 4.40
5211 5286 3.117794 CACCTGCGATTTATTTGGCATG 58.882 45.455 0.00 0.00 34.49 4.06
5212 5287 2.760092 ACCTGCGATTTATTTGGCATGT 59.240 40.909 0.00 0.00 34.49 3.21
5217 5292 5.339177 TGCGATTTATTTGGCATGTTACAG 58.661 37.500 0.00 0.00 0.00 2.74
5218 5293 5.124617 TGCGATTTATTTGGCATGTTACAGA 59.875 36.000 0.00 0.00 0.00 3.41
5219 5294 6.033341 GCGATTTATTTGGCATGTTACAGAA 58.967 36.000 0.00 0.00 0.00 3.02
5220 5295 6.529829 GCGATTTATTTGGCATGTTACAGAAA 59.470 34.615 0.00 0.00 0.00 2.52
5221 5296 7.222611 GCGATTTATTTGGCATGTTACAGAAAT 59.777 33.333 0.00 0.00 0.00 2.17
5222 5297 8.533965 CGATTTATTTGGCATGTTACAGAAATG 58.466 33.333 0.00 0.00 0.00 2.32
5223 5298 9.369904 GATTTATTTGGCATGTTACAGAAATGT 57.630 29.630 0.00 0.00 0.00 2.71
5224 5299 8.755696 TTTATTTGGCATGTTACAGAAATGTC 57.244 30.769 0.00 0.00 0.00 3.06
5228 5312 4.696877 TGGCATGTTACAGAAATGTCTCTG 59.303 41.667 0.00 0.00 46.94 3.35
5248 5332 2.936570 GATCGAGCAATGCGGCGAG 61.937 63.158 24.39 7.11 41.41 5.03
5270 5355 2.341176 GGTCGTGGCTGTTACCGT 59.659 61.111 0.00 0.00 0.00 4.83
5283 5368 3.576932 TACCGTGTTGGCGACGCAT 62.577 57.895 23.09 8.13 43.94 4.73
5407 5492 1.115930 AGCTCCAGTTCACCACGAGT 61.116 55.000 0.00 0.00 0.00 4.18
5408 5493 0.601558 GCTCCAGTTCACCACGAGTA 59.398 55.000 0.00 0.00 0.00 2.59
5417 5502 1.203052 TCACCACGAGTATTCCGAACC 59.797 52.381 0.00 0.00 0.00 3.62
5421 5506 2.480759 CCACGAGTATTCCGAACCGAAT 60.481 50.000 0.00 0.00 36.45 3.34
5438 5523 6.530019 ACCGAATCAAAGCTGGAAATTAAT 57.470 33.333 0.00 0.00 0.00 1.40
5440 5525 6.152661 ACCGAATCAAAGCTGGAAATTAATGA 59.847 34.615 0.00 0.00 0.00 2.57
5441 5526 7.147846 ACCGAATCAAAGCTGGAAATTAATGAT 60.148 33.333 0.00 0.00 0.00 2.45
5443 5528 7.168637 CGAATCAAAGCTGGAAATTAATGATGG 59.831 37.037 0.00 0.00 0.00 3.51
5444 5529 6.224665 TCAAAGCTGGAAATTAATGATGGG 57.775 37.500 0.00 0.00 0.00 4.00
5445 5530 5.129155 TCAAAGCTGGAAATTAATGATGGGG 59.871 40.000 0.00 0.00 0.00 4.96
5446 5531 4.270317 AGCTGGAAATTAATGATGGGGT 57.730 40.909 0.00 0.00 0.00 4.95
5447 5532 4.623863 AGCTGGAAATTAATGATGGGGTT 58.376 39.130 0.00 0.00 0.00 4.11
5450 5535 3.454082 TGGAAATTAATGATGGGGTTGGC 59.546 43.478 0.00 0.00 0.00 4.52
5451 5536 3.492482 GGAAATTAATGATGGGGTTGGCG 60.492 47.826 0.00 0.00 0.00 5.69
5452 5537 2.746279 ATTAATGATGGGGTTGGCGA 57.254 45.000 0.00 0.00 0.00 5.54
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 7.211573 GGCTACTAAAGGGCTTTTGTTAAAAA 58.788 34.615 4.68 0.00 38.85 1.94
8 9 6.239373 GGGCTACTAAAGGGCTTTTGTTAAAA 60.239 38.462 4.68 0.00 38.85 1.52
9 10 5.244402 GGGCTACTAAAGGGCTTTTGTTAAA 59.756 40.000 4.68 0.00 38.85 1.52
10 11 4.768448 GGGCTACTAAAGGGCTTTTGTTAA 59.232 41.667 4.68 0.00 38.85 2.01
11 12 4.338012 GGGCTACTAAAGGGCTTTTGTTA 58.662 43.478 4.68 0.00 38.85 2.41
12 13 3.162666 GGGCTACTAAAGGGCTTTTGTT 58.837 45.455 4.68 0.00 38.85 2.83
13 14 2.803956 GGGCTACTAAAGGGCTTTTGT 58.196 47.619 4.68 4.01 40.49 2.83
14 15 1.743394 CGGGCTACTAAAGGGCTTTTG 59.257 52.381 4.68 0.00 34.23 2.44
15 16 1.353358 ACGGGCTACTAAAGGGCTTTT 59.647 47.619 0.00 0.00 34.23 2.27
16 17 0.989602 ACGGGCTACTAAAGGGCTTT 59.010 50.000 0.00 0.00 36.63 3.51
17 18 0.252197 CACGGGCTACTAAAGGGCTT 59.748 55.000 0.00 0.00 0.00 4.35
18 19 0.616679 TCACGGGCTACTAAAGGGCT 60.617 55.000 0.00 0.00 0.00 5.19
19 20 0.179081 CTCACGGGCTACTAAAGGGC 60.179 60.000 0.00 0.00 0.00 5.19
20 21 1.481871 TCTCACGGGCTACTAAAGGG 58.518 55.000 0.00 0.00 0.00 3.95
21 22 2.734492 CGTTCTCACGGGCTACTAAAGG 60.734 54.545 0.00 0.00 43.16 3.11
22 23 2.527100 CGTTCTCACGGGCTACTAAAG 58.473 52.381 0.00 0.00 43.16 1.85
23 24 2.642139 CGTTCTCACGGGCTACTAAA 57.358 50.000 0.00 0.00 43.16 1.85
40 41 3.243336 GCTAACAACGAGAATCTCACGT 58.757 45.455 11.18 0.90 45.01 4.49
41 42 3.242518 TGCTAACAACGAGAATCTCACG 58.757 45.455 11.18 0.21 36.55 4.35
42 43 3.061429 GCTGCTAACAACGAGAATCTCAC 59.939 47.826 11.18 0.00 0.00 3.51
43 44 3.254060 GCTGCTAACAACGAGAATCTCA 58.746 45.455 11.18 0.00 0.00 3.27
44 45 2.605366 GGCTGCTAACAACGAGAATCTC 59.395 50.000 0.00 0.00 0.00 2.75
45 46 2.622436 GGCTGCTAACAACGAGAATCT 58.378 47.619 0.00 0.00 0.00 2.40
46 47 1.666189 GGGCTGCTAACAACGAGAATC 59.334 52.381 0.00 0.00 0.00 2.52
47 48 1.739067 GGGCTGCTAACAACGAGAAT 58.261 50.000 0.00 0.00 0.00 2.40
48 49 0.669318 CGGGCTGCTAACAACGAGAA 60.669 55.000 0.00 0.00 0.00 2.87
49 50 1.080093 CGGGCTGCTAACAACGAGA 60.080 57.895 0.00 0.00 0.00 4.04
50 51 0.949105 AACGGGCTGCTAACAACGAG 60.949 55.000 0.00 0.00 0.00 4.18
51 52 0.317799 TAACGGGCTGCTAACAACGA 59.682 50.000 0.00 0.00 0.00 3.85
52 53 0.719465 CTAACGGGCTGCTAACAACG 59.281 55.000 0.00 0.00 0.00 4.10
53 54 1.084289 CCTAACGGGCTGCTAACAAC 58.916 55.000 0.00 0.00 0.00 3.32
54 55 3.543884 CCTAACGGGCTGCTAACAA 57.456 52.632 0.00 0.00 0.00 2.83
71 72 2.698274 TCAAGAAAAGAAAGGTTGGGCC 59.302 45.455 0.00 0.00 37.58 5.80
72 73 3.636764 TCTCAAGAAAAGAAAGGTTGGGC 59.363 43.478 0.00 0.00 0.00 5.36
73 74 5.360999 AGTTCTCAAGAAAAGAAAGGTTGGG 59.639 40.000 0.00 0.00 34.68 4.12
74 75 6.268566 CAGTTCTCAAGAAAAGAAAGGTTGG 58.731 40.000 0.00 0.00 34.68 3.77
75 76 5.745769 GCAGTTCTCAAGAAAAGAAAGGTTG 59.254 40.000 0.00 0.00 34.68 3.77
76 77 5.163509 GGCAGTTCTCAAGAAAAGAAAGGTT 60.164 40.000 0.00 0.00 34.68 3.50
77 78 4.339530 GGCAGTTCTCAAGAAAAGAAAGGT 59.660 41.667 0.00 0.00 34.68 3.50
78 79 4.261783 GGGCAGTTCTCAAGAAAAGAAAGG 60.262 45.833 0.00 0.00 34.68 3.11
79 80 4.555511 CGGGCAGTTCTCAAGAAAAGAAAG 60.556 45.833 0.00 0.00 34.68 2.62
80 81 3.315191 CGGGCAGTTCTCAAGAAAAGAAA 59.685 43.478 0.00 0.00 34.68 2.52
81 82 2.878406 CGGGCAGTTCTCAAGAAAAGAA 59.122 45.455 0.00 0.00 35.58 2.52
82 83 2.158813 ACGGGCAGTTCTCAAGAAAAGA 60.159 45.455 0.00 0.00 35.58 2.52
83 84 2.222027 ACGGGCAGTTCTCAAGAAAAG 58.778 47.619 0.00 0.00 35.58 2.27
84 85 2.341846 ACGGGCAGTTCTCAAGAAAA 57.658 45.000 0.00 0.00 35.58 2.29
85 86 2.341846 AACGGGCAGTTCTCAAGAAA 57.658 45.000 0.00 0.00 39.16 2.52
86 87 2.289444 CCTAACGGGCAGTTCTCAAGAA 60.289 50.000 6.22 0.00 43.06 2.52
87 88 1.275291 CCTAACGGGCAGTTCTCAAGA 59.725 52.381 6.22 0.00 43.06 3.02
88 89 1.726853 CCTAACGGGCAGTTCTCAAG 58.273 55.000 6.22 0.00 43.06 3.02
89 90 3.927555 CCTAACGGGCAGTTCTCAA 57.072 52.632 6.22 0.00 43.06 3.02
120 121 0.248296 CTAGTCGAGCTCGGAGTTGC 60.248 60.000 33.98 17.24 40.29 4.17
152 153 2.125269 GCATGAGGCGTAACGGGT 60.125 61.111 0.00 0.00 0.00 5.28
165 166 1.820906 CTGATGTGGGTCCGGCATG 60.821 63.158 0.00 0.00 0.00 4.06
772 779 2.552031 CCCGAGAAAAGTAGCCTAAGC 58.448 52.381 0.00 0.00 40.32 3.09
774 781 2.823959 TCCCCGAGAAAAGTAGCCTAA 58.176 47.619 0.00 0.00 0.00 2.69
813 820 0.535553 AGGCCGGTAAAAGCACGAAA 60.536 50.000 1.90 0.00 0.00 3.46
853 860 0.229753 CACGACGAACAAGCACACTC 59.770 55.000 0.00 0.00 0.00 3.51
890 897 2.740981 CAGCAAACAAAACAGCCAACAA 59.259 40.909 0.00 0.00 0.00 2.83
949 956 5.705441 CCCAGAAGAGCACAGTTATTACAAA 59.295 40.000 0.00 0.00 0.00 2.83
951 958 4.832248 CCCAGAAGAGCACAGTTATTACA 58.168 43.478 0.00 0.00 0.00 2.41
1132 1159 4.520111 CCTGTCATTGTTTCATCACCTTCA 59.480 41.667 0.00 0.00 0.00 3.02
1282 1327 7.443259 AGTAACTGCGCCTTATTTTCTTAAA 57.557 32.000 4.18 0.00 0.00 1.52
1295 1340 4.332819 ACAGATCAAATTAGTAACTGCGCC 59.667 41.667 4.18 0.00 0.00 6.53
1330 1375 8.420222 AGATCTTCACACAGAATCCAAGTATAG 58.580 37.037 0.00 0.00 35.25 1.31
1479 1524 7.021196 CCAACAAATCTAACAGTAATCAACCG 58.979 38.462 0.00 0.00 0.00 4.44
1649 1695 6.156256 TGTGCATAGTAGGGATTAGAACTGTT 59.844 38.462 0.00 0.00 0.00 3.16
1653 1699 5.070580 ACCTGTGCATAGTAGGGATTAGAAC 59.929 44.000 9.80 0.00 35.89 3.01
1794 1840 7.776933 TGAGCAATCAATATTCTGTGTAGAC 57.223 36.000 0.00 0.00 31.21 2.59
1799 1845 9.582431 AAGAATTTGAGCAATCAATATTCTGTG 57.418 29.630 18.33 0.00 37.43 3.66
1907 1953 7.975058 GGTATTGTACTCTTTCTACAGACCTTC 59.025 40.741 0.00 0.00 33.32 3.46
1932 1978 9.994432 GAACAGAAAAGTTGACAGAATATATGG 57.006 33.333 0.00 0.00 0.00 2.74
2016 2062 3.118112 CAGCCTTTCTCATATGGTCCTGT 60.118 47.826 2.13 0.00 0.00 4.00
2116 2169 8.812513 TTTGACAATCTCTGGTGAATATGATT 57.187 30.769 0.00 0.00 0.00 2.57
2150 2203 9.624373 AGTGAAGTGATTTCTCTAATAATGCAT 57.376 29.630 0.00 0.00 37.74 3.96
2151 2204 9.453572 AAGTGAAGTGATTTCTCTAATAATGCA 57.546 29.630 0.00 0.00 38.37 3.96
2311 2364 3.431922 CACAGCATGAGCCTAAAATGG 57.568 47.619 0.00 0.00 43.56 3.16
2368 2421 6.420913 TGAGTCCTCTTTTGTACTAAGCTT 57.579 37.500 3.48 3.48 0.00 3.74
2624 2677 2.169769 ACCAGAAGTGACACCGAAAAGA 59.830 45.455 0.84 0.00 0.00 2.52
2729 2782 8.477419 TTTCTCCACCTTTATGAAAAAGTGAT 57.523 30.769 2.05 0.00 38.70 3.06
2928 2984 4.151883 TGCTTTTTCCAGCATACTCCTTT 58.848 39.130 0.00 0.00 45.14 3.11
3027 3083 8.041323 AGTTACATTATACAGGACCAACAGAAG 58.959 37.037 0.00 0.00 0.00 2.85
3206 3262 2.040606 GGGGCAGGAGGAGGTACA 59.959 66.667 0.00 0.00 0.00 2.90
3219 3275 6.112734 TCTTTCTTTTTCTTTTTCTTGGGGC 58.887 36.000 0.00 0.00 0.00 5.80
3312 3368 7.639113 TCAACCAGAACATACTTCTTTTGTT 57.361 32.000 0.00 0.00 36.34 2.83
3529 3587 6.909550 TGCCACTAGTTTTCCATTTAACAT 57.090 33.333 0.00 0.00 0.00 2.71
3771 3830 5.163237 GCTCCCAGTTTATTACCATACCTCA 60.163 44.000 0.00 0.00 0.00 3.86
3794 3853 5.376854 TGATTTTTAGCTTCCAGTTCAGC 57.623 39.130 0.00 0.00 36.16 4.26
3795 3854 7.388460 AGATGATTTTTAGCTTCCAGTTCAG 57.612 36.000 0.00 0.00 0.00 3.02
3829 3888 7.973048 ATCAGTTACAGTCCATTAGGTAAGA 57.027 36.000 0.00 0.00 35.89 2.10
3830 3889 9.530633 GTAATCAGTTACAGTCCATTAGGTAAG 57.469 37.037 0.00 0.00 39.95 2.34
3878 3937 6.601332 TCTACTTCCAGAGTTCCAAAACAAT 58.399 36.000 0.00 0.00 39.86 2.71
3879 3938 5.996644 TCTACTTCCAGAGTTCCAAAACAA 58.003 37.500 0.00 0.00 39.86 2.83
3880 3939 5.611374 CTCTACTTCCAGAGTTCCAAAACA 58.389 41.667 0.00 0.00 39.86 2.83
3881 3940 4.452795 GCTCTACTTCCAGAGTTCCAAAAC 59.547 45.833 2.38 0.00 43.41 2.43
3882 3941 4.102524 TGCTCTACTTCCAGAGTTCCAAAA 59.897 41.667 2.38 0.00 43.41 2.44
3915 3974 1.067425 CCGTCATAGTCCAAACCGTCA 60.067 52.381 0.00 0.00 0.00 4.35
4001 4060 5.506483 CGTGAGCATATACACTAGAACAGCT 60.506 44.000 0.00 0.00 35.23 4.24
4012 4071 6.254804 GTGTCAATGTTACGTGAGCATATACA 59.745 38.462 0.00 5.42 0.00 2.29
4021 4080 4.579564 CGTTTTGTGTCAATGTTACGTGA 58.420 39.130 0.00 0.00 0.00 4.35
4022 4081 3.176867 GCGTTTTGTGTCAATGTTACGTG 59.823 43.478 0.00 0.00 0.00 4.49
4023 4082 3.064271 AGCGTTTTGTGTCAATGTTACGT 59.936 39.130 0.00 0.00 0.00 3.57
4084 4143 9.448438 GTAAAAAGGGCTCATGGAAATTAAAAT 57.552 29.630 0.00 0.00 0.00 1.82
4095 4154 3.940209 TGCAAGTAAAAAGGGCTCATG 57.060 42.857 0.00 0.00 0.00 3.07
4096 4155 5.240121 CAAATGCAAGTAAAAAGGGCTCAT 58.760 37.500 0.00 0.00 0.00 2.90
4104 4163 4.450419 CCAATCGCCAAATGCAAGTAAAAA 59.550 37.500 0.00 0.00 41.33 1.94
4204 4263 3.243501 GCTGGTGATCTGCAAAAAGTTCA 60.244 43.478 0.00 0.00 39.69 3.18
4235 4294 1.153086 GATGCAGCGACAGGGGATT 60.153 57.895 0.00 0.00 0.00 3.01
4308 4367 0.102120 CGGGCTGAGCAAAAACAACA 59.898 50.000 6.82 0.00 0.00 3.33
4413 4472 9.897744 CAATCAACAATAAGTCAACACAAGTAT 57.102 29.630 0.00 0.00 0.00 2.12
4424 4483 8.511321 TGAACACATACCAATCAACAATAAGTC 58.489 33.333 0.00 0.00 0.00 3.01
4434 4493 5.255687 AGAGCAATGAACACATACCAATCA 58.744 37.500 0.00 0.00 0.00 2.57
4443 4502 8.531982 ACTCTTAGTATAAGAGCAATGAACACA 58.468 33.333 21.04 0.00 45.78 3.72
4465 4524 5.163478 GCCTGAAAATGCAATTGGATACTCT 60.163 40.000 13.27 0.00 36.10 3.24
4466 4525 5.045872 GCCTGAAAATGCAATTGGATACTC 58.954 41.667 13.27 12.43 36.10 2.59
4585 4644 6.939132 ACACAGATAGTACTATAACAGCGT 57.061 37.500 15.42 5.98 0.00 5.07
4629 4690 8.755018 CATCCAAACAAGTTTTACAGAAACATC 58.245 33.333 4.68 0.00 32.81 3.06
4630 4691 7.710475 CCATCCAAACAAGTTTTACAGAAACAT 59.290 33.333 4.68 0.00 32.81 2.71
4632 4693 7.262048 TCCATCCAAACAAGTTTTACAGAAAC 58.738 34.615 0.00 0.00 0.00 2.78
4634 4695 7.595819 ATCCATCCAAACAAGTTTTACAGAA 57.404 32.000 0.00 0.00 0.00 3.02
4636 4697 8.661352 AAAATCCATCCAAACAAGTTTTACAG 57.339 30.769 0.00 0.00 0.00 2.74
4638 4699 9.103861 TCAAAAATCCATCCAAACAAGTTTTAC 57.896 29.630 0.00 0.00 0.00 2.01
4639 4700 9.323985 CTCAAAAATCCATCCAAACAAGTTTTA 57.676 29.630 0.00 0.00 0.00 1.52
4717 4778 0.796312 CTTCCGAACCAACGACCATG 59.204 55.000 0.00 0.00 35.09 3.66
4718 4779 0.682852 TCTTCCGAACCAACGACCAT 59.317 50.000 0.00 0.00 35.09 3.55
4719 4780 0.682852 ATCTTCCGAACCAACGACCA 59.317 50.000 0.00 0.00 35.09 4.02
4720 4781 2.660189 TATCTTCCGAACCAACGACC 57.340 50.000 0.00 0.00 35.09 4.79
4729 4790 9.878667 TGTTACTGTATTCAAATATCTTCCGAA 57.121 29.630 0.00 0.00 0.00 4.30
4763 4824 6.770785 TCCAGGTTATATTTCCAGCATTACAC 59.229 38.462 0.00 0.00 0.00 2.90
4860 4926 7.481642 TGTATCTCTTCGTAAAATCCTGAGTC 58.518 38.462 0.00 0.00 0.00 3.36
4865 4931 7.042335 CCTGTTGTATCTCTTCGTAAAATCCT 58.958 38.462 0.00 0.00 0.00 3.24
4875 4941 2.815478 CCGAGCCTGTTGTATCTCTTC 58.185 52.381 0.00 0.00 0.00 2.87
4911 4977 2.229784 CAGCCCAAGTCCAAGAAATGAC 59.770 50.000 0.00 0.00 0.00 3.06
5051 5122 4.142491 GGTAATTGATGATGTGTTCCGCAA 60.142 41.667 0.00 0.00 0.00 4.85
5069 5140 0.532862 CGGCGCCATCAAGAGGTAAT 60.533 55.000 28.98 0.00 0.00 1.89
5202 5277 6.435277 AGAGACATTTCTGTAACATGCCAAAT 59.565 34.615 0.00 0.00 35.14 2.32
5203 5278 5.769662 AGAGACATTTCTGTAACATGCCAAA 59.230 36.000 0.00 0.00 35.14 3.28
5204 5279 5.181811 CAGAGACATTTCTGTAACATGCCAA 59.818 40.000 0.00 0.00 39.76 4.52
5205 5280 4.696877 CAGAGACATTTCTGTAACATGCCA 59.303 41.667 0.00 0.00 39.76 4.92
5206 5281 5.227238 CAGAGACATTTCTGTAACATGCC 57.773 43.478 0.00 0.00 39.76 4.40
5217 5292 3.515630 TGCTCGATCACAGAGACATTTC 58.484 45.455 0.75 0.00 37.93 2.17
5218 5293 3.599730 TGCTCGATCACAGAGACATTT 57.400 42.857 0.75 0.00 37.93 2.32
5219 5294 3.599730 TTGCTCGATCACAGAGACATT 57.400 42.857 0.75 0.00 37.93 2.71
5220 5295 3.455327 CATTGCTCGATCACAGAGACAT 58.545 45.455 0.75 0.00 37.93 3.06
5221 5296 2.884827 CATTGCTCGATCACAGAGACA 58.115 47.619 0.75 0.00 37.93 3.41
5222 5297 1.592081 GCATTGCTCGATCACAGAGAC 59.408 52.381 0.16 0.00 37.93 3.36
5223 5298 1.800286 CGCATTGCTCGATCACAGAGA 60.800 52.381 7.12 0.00 37.93 3.10
5224 5299 0.575859 CGCATTGCTCGATCACAGAG 59.424 55.000 7.12 0.00 38.68 3.35
5228 5312 2.325857 GCCGCATTGCTCGATCAC 59.674 61.111 7.12 0.00 0.00 3.06
5248 5332 3.248446 TAACAGCCACGACCCCTGC 62.248 63.158 0.00 0.00 0.00 4.85
5250 5334 2.590114 GGTAACAGCCACGACCCCT 61.590 63.158 0.00 0.00 0.00 4.79
5270 5355 2.817834 GCCTATGCGTCGCCAACA 60.818 61.111 15.88 0.00 0.00 3.33
5340 5425 3.703127 GGGGACGTGGTGAGGGTC 61.703 72.222 0.00 0.00 0.00 4.46
5407 5492 3.621268 CAGCTTTGATTCGGTTCGGAATA 59.379 43.478 5.77 0.00 36.79 1.75
5408 5493 2.420022 CAGCTTTGATTCGGTTCGGAAT 59.580 45.455 5.52 5.52 39.27 3.01
5417 5502 7.168637 CCATCATTAATTTCCAGCTTTGATTCG 59.831 37.037 0.00 0.00 0.00 3.34
5421 5506 5.129155 CCCCATCATTAATTTCCAGCTTTGA 59.871 40.000 0.00 0.00 0.00 2.69
5438 5523 4.402528 CGGTCGCCAACCCCATCA 62.403 66.667 0.00 0.00 46.27 3.07


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

AutoCloner maintained by Alex Coulton.