Multiple sequence alignment - TraesCS3A01G158700

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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 TraesCS3A01G158700 chr3A 100.000 5718 0 0 1 5718 157021407 157027124 0.000000e+00 10560
1 TraesCS3A01G158700 chr3B 94.714 2989 112 19 2748 5718 201872245 201875205 0.000000e+00 4602
2 TraesCS3A01G158700 chr3B 94.859 2587 89 15 186 2748 201869599 201872165 0.000000e+00 4000
3 TraesCS3A01G158700 chr3B 91.753 97 7 1 76 172 729205882 729205977 3.590000e-27 134
4 TraesCS3A01G158700 chr3D 96.494 2453 72 11 2748 5192 138887424 138889870 0.000000e+00 4041
5 TraesCS3A01G158700 chr3D 95.851 2314 51 7 456 2748 138885055 138887344 0.000000e+00 3699
6 TraesCS3A01G158700 chr3D 92.495 533 21 9 5189 5718 138889950 138890466 0.000000e+00 745
7 TraesCS3A01G158700 chr3D 94.048 84 5 0 80 163 455100575 455100658 1.670000e-25 128
8 TraesCS3A01G158700 chr4D 95.238 84 4 0 80 163 317189953 317189870 3.590000e-27 134
9 TraesCS3A01G158700 chr6B 94.253 87 4 1 77 163 696086779 696086864 1.290000e-26 132
10 TraesCS3A01G158700 chr1B 94.118 85 5 0 79 163 562890135 562890051 4.650000e-26 130
11 TraesCS3A01G158700 chr5B 94.048 84 5 0 80 163 42939014 42938931 1.670000e-25 128
12 TraesCS3A01G158700 chr5D 92.857 84 6 0 83 166 548003592 548003509 7.780000e-24 122
13 TraesCS3A01G158700 chr2B 91.011 89 8 0 78 166 773746250 773746162 2.800000e-23 121
14 TraesCS3A01G158700 chr2A 90.323 93 7 1 77 167 711885062 711885154 2.800000e-23 121


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 TraesCS3A01G158700 chr3A 157021407 157027124 5717 False 10560.000000 10560 100.000000 1 5718 1 chr3A.!!$F1 5717
1 TraesCS3A01G158700 chr3B 201869599 201875205 5606 False 4301.000000 4602 94.786500 186 5718 2 chr3B.!!$F2 5532
2 TraesCS3A01G158700 chr3D 138885055 138890466 5411 False 2828.333333 4041 94.946667 456 5718 3 chr3D.!!$F2 5262

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
20 21 0.106819 CTCCTTCTTGCTCCCATGGG 60.107 60.000 26.30 26.3 0.00 4.00 F
84 85 0.248565 GAACCCGTGGGAAGTACTCC 59.751 60.000 13.01 0.0 44.54 3.85 F
167 168 0.972134 TGAGACTGAGGGAGTGCTTG 59.028 55.000 0.00 0.0 33.83 4.01 F
178 179 1.072331 GGAGTGCTTGAAGAAGTGGGA 59.928 52.381 0.00 0.0 0.00 4.37 F
623 624 1.170442 ATTTTTCCAACCGTAGCCCG 58.830 50.000 0.00 0.0 0.00 6.13 F
2185 2203 1.089920 CGCTCAAACATTCCTCCCTG 58.910 55.000 0.00 0.0 0.00 4.45 F
2659 2694 1.196808 CCATTTGGTAGCACGACACAC 59.803 52.381 0.00 0.0 0.00 3.82 F
4045 4186 1.133790 GAGTCATGGCACCAGAATTGC 59.866 52.381 0.00 0.0 39.41 3.56 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1310 1325 2.244695 TCTCTTTACCTTGCTCGTGGA 58.755 47.619 0.00 0.0 0.00 4.02 R
1595 1610 2.494870 GTTTTCTGGCCTGATGCATCTT 59.505 45.455 26.32 0.0 43.89 2.40 R
1924 1942 2.787994 CCACTGCATTCAGACCTTTCT 58.212 47.619 0.00 0.0 42.95 2.52 R
2185 2203 3.080319 AGAGCATCAGGAAAAGCAGAAC 58.920 45.455 0.00 0.0 37.82 3.01 R
2231 2249 1.277557 CTGAAGGTGAGAGGTTCTGGG 59.722 57.143 0.00 0.0 0.00 4.45 R
3952 4092 1.001048 CCCATCTTATGCAATGCCACG 60.001 52.381 1.53 0.0 0.00 4.94 R
4481 4622 0.176219 TTCGGACACAAACCTCACGT 59.824 50.000 0.00 0.0 0.00 4.49 R
5441 5669 0.109597 CAAGCAAGGTTCGCCATCAC 60.110 55.000 0.00 0.0 40.60 3.06 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
19 20 0.622665 ACTCCTTCTTGCTCCCATGG 59.377 55.000 4.14 4.14 0.00 3.66
20 21 0.106819 CTCCTTCTTGCTCCCATGGG 60.107 60.000 26.30 26.30 0.00 4.00
21 22 0.549902 TCCTTCTTGCTCCCATGGGA 60.550 55.000 31.83 31.83 42.90 4.37
22 23 0.332632 CCTTCTTGCTCCCATGGGAA 59.667 55.000 33.13 18.09 44.66 3.97
23 24 1.272648 CCTTCTTGCTCCCATGGGAAA 60.273 52.381 33.13 23.85 44.66 3.13
24 25 2.625087 CCTTCTTGCTCCCATGGGAAAT 60.625 50.000 33.13 0.00 44.66 2.17
25 26 2.148446 TCTTGCTCCCATGGGAAATG 57.852 50.000 33.13 22.73 44.66 2.32
26 27 1.358787 TCTTGCTCCCATGGGAAATGT 59.641 47.619 33.13 0.00 44.66 2.71
27 28 2.181975 CTTGCTCCCATGGGAAATGTT 58.818 47.619 33.13 0.00 44.66 2.71
28 29 2.323999 TGCTCCCATGGGAAATGTTT 57.676 45.000 33.13 0.00 44.66 2.83
29 30 2.618794 TGCTCCCATGGGAAATGTTTT 58.381 42.857 33.13 0.00 44.66 2.43
30 31 2.978278 TGCTCCCATGGGAAATGTTTTT 59.022 40.909 33.13 0.00 44.66 1.94
49 50 4.615588 TTTTTAGGCAACCAATGGGAAG 57.384 40.909 3.55 0.00 38.05 3.46
50 51 2.990740 TTAGGCAACCAATGGGAAGT 57.009 45.000 3.55 0.00 38.05 3.01
51 52 4.390129 TTTAGGCAACCAATGGGAAGTA 57.610 40.909 3.55 0.00 38.05 2.24
52 53 2.215942 AGGCAACCAATGGGAAGTAC 57.784 50.000 3.55 0.00 38.05 2.73
53 54 1.710809 AGGCAACCAATGGGAAGTACT 59.289 47.619 3.55 0.00 38.05 2.73
54 55 2.110011 AGGCAACCAATGGGAAGTACTT 59.890 45.455 8.13 8.13 38.05 2.24
55 56 2.897326 GGCAACCAATGGGAAGTACTTT 59.103 45.455 10.02 0.00 38.05 2.66
56 57 3.323691 GGCAACCAATGGGAAGTACTTTT 59.676 43.478 10.02 0.00 38.05 2.27
57 58 4.202315 GGCAACCAATGGGAAGTACTTTTT 60.202 41.667 10.02 0.00 38.05 1.94
76 77 3.294038 TTTTTAAGTGAACCCGTGGGA 57.706 42.857 13.01 0.00 38.96 4.37
77 78 3.294038 TTTTAAGTGAACCCGTGGGAA 57.706 42.857 13.01 0.00 38.96 3.97
78 79 2.554370 TTAAGTGAACCCGTGGGAAG 57.446 50.000 13.01 0.00 38.96 3.46
79 80 1.426751 TAAGTGAACCCGTGGGAAGT 58.573 50.000 13.01 0.00 38.96 3.01
80 81 1.426751 AAGTGAACCCGTGGGAAGTA 58.573 50.000 13.01 0.00 38.96 2.24
81 82 0.683412 AGTGAACCCGTGGGAAGTAC 59.317 55.000 13.01 5.23 38.96 2.73
82 83 0.683412 GTGAACCCGTGGGAAGTACT 59.317 55.000 13.01 0.00 38.96 2.73
83 84 0.971386 TGAACCCGTGGGAAGTACTC 59.029 55.000 13.01 0.00 38.96 2.59
84 85 0.248565 GAACCCGTGGGAAGTACTCC 59.751 60.000 13.01 0.00 44.54 3.85
93 94 1.849977 GGAAGTACTCCCTTCGTCCT 58.150 55.000 0.00 0.00 41.44 3.85
94 95 3.010200 GGAAGTACTCCCTTCGTCCTA 57.990 52.381 0.00 0.00 41.44 2.94
95 96 3.564264 GGAAGTACTCCCTTCGTCCTAT 58.436 50.000 0.00 0.00 41.44 2.57
96 97 4.723309 GGAAGTACTCCCTTCGTCCTATA 58.277 47.826 0.00 0.00 41.44 1.31
97 98 5.136105 GGAAGTACTCCCTTCGTCCTATAA 58.864 45.833 0.00 0.00 41.44 0.98
98 99 5.774184 GGAAGTACTCCCTTCGTCCTATAAT 59.226 44.000 0.00 0.00 41.44 1.28
99 100 6.944862 GGAAGTACTCCCTTCGTCCTATAATA 59.055 42.308 0.00 0.00 41.44 0.98
100 101 7.614974 GGAAGTACTCCCTTCGTCCTATAATAT 59.385 40.741 0.00 0.00 41.44 1.28
101 102 9.678260 GAAGTACTCCCTTCGTCCTATAATATA 57.322 37.037 0.00 0.00 32.23 0.86
106 107 9.993454 ACTCCCTTCGTCCTATAATATAAAAAC 57.007 33.333 0.00 0.00 0.00 2.43
107 108 9.136952 CTCCCTTCGTCCTATAATATAAAAACG 57.863 37.037 0.00 0.00 0.00 3.60
108 109 8.641541 TCCCTTCGTCCTATAATATAAAAACGT 58.358 33.333 7.91 0.00 0.00 3.99
109 110 9.264719 CCCTTCGTCCTATAATATAAAAACGTT 57.735 33.333 0.00 0.00 0.00 3.99
127 128 8.920509 AAAACGTTTTTCAAGTTAACATAGCT 57.079 26.923 20.26 0.00 0.00 3.32
128 129 8.920509 AAACGTTTTTCAAGTTAACATAGCTT 57.079 26.923 7.96 0.00 0.00 3.74
129 130 7.908193 ACGTTTTTCAAGTTAACATAGCTTG 57.092 32.000 8.61 3.39 45.01 4.01
137 138 7.908193 CAAGTTAACATAGCTTGAAAAACGT 57.092 32.000 8.61 0.00 46.07 3.99
138 139 8.335256 CAAGTTAACATAGCTTGAAAAACGTT 57.665 30.769 8.61 0.00 46.07 3.99
139 140 8.469125 CAAGTTAACATAGCTTGAAAAACGTTC 58.531 33.333 8.61 0.00 46.07 3.95
140 141 7.927048 AGTTAACATAGCTTGAAAAACGTTCT 58.073 30.769 8.61 0.00 0.00 3.01
141 142 8.403236 AGTTAACATAGCTTGAAAAACGTTCTT 58.597 29.630 8.61 0.00 0.00 2.52
142 143 9.654417 GTTAACATAGCTTGAAAAACGTTCTTA 57.346 29.630 0.00 0.00 0.00 2.10
158 159 9.751542 AAACGTTCTTATATTATGAGACTGAGG 57.248 33.333 0.00 0.00 0.00 3.86
159 160 7.887381 ACGTTCTTATATTATGAGACTGAGGG 58.113 38.462 0.00 0.00 0.00 4.30
160 161 7.724506 ACGTTCTTATATTATGAGACTGAGGGA 59.275 37.037 0.00 0.00 0.00 4.20
161 162 8.240682 CGTTCTTATATTATGAGACTGAGGGAG 58.759 40.741 0.00 0.00 0.00 4.30
162 163 9.084533 GTTCTTATATTATGAGACTGAGGGAGT 57.915 37.037 0.00 0.00 37.76 3.85
163 164 8.642935 TCTTATATTATGAGACTGAGGGAGTG 57.357 38.462 0.00 0.00 33.83 3.51
164 165 5.736951 ATATTATGAGACTGAGGGAGTGC 57.263 43.478 0.00 0.00 33.83 4.40
165 166 2.836636 TATGAGACTGAGGGAGTGCT 57.163 50.000 0.00 0.00 33.83 4.40
166 167 1.949799 ATGAGACTGAGGGAGTGCTT 58.050 50.000 0.00 0.00 33.83 3.91
167 168 0.972134 TGAGACTGAGGGAGTGCTTG 59.028 55.000 0.00 0.00 33.83 4.01
168 169 1.261480 GAGACTGAGGGAGTGCTTGA 58.739 55.000 0.00 0.00 33.83 3.02
169 170 1.620819 GAGACTGAGGGAGTGCTTGAA 59.379 52.381 0.00 0.00 33.83 2.69
170 171 1.622811 AGACTGAGGGAGTGCTTGAAG 59.377 52.381 0.00 0.00 33.83 3.02
171 172 1.620819 GACTGAGGGAGTGCTTGAAGA 59.379 52.381 0.00 0.00 33.83 2.87
172 173 2.037772 GACTGAGGGAGTGCTTGAAGAA 59.962 50.000 0.00 0.00 33.83 2.52
173 174 2.038295 ACTGAGGGAGTGCTTGAAGAAG 59.962 50.000 0.00 0.00 31.75 2.85
174 175 2.038295 CTGAGGGAGTGCTTGAAGAAGT 59.962 50.000 0.00 0.00 0.00 3.01
175 176 2.224378 TGAGGGAGTGCTTGAAGAAGTG 60.224 50.000 0.00 0.00 0.00 3.16
176 177 1.072965 AGGGAGTGCTTGAAGAAGTGG 59.927 52.381 0.00 0.00 0.00 4.00
177 178 1.528129 GGAGTGCTTGAAGAAGTGGG 58.472 55.000 0.00 0.00 0.00 4.61
178 179 1.072331 GGAGTGCTTGAAGAAGTGGGA 59.928 52.381 0.00 0.00 0.00 4.37
179 180 2.487265 GGAGTGCTTGAAGAAGTGGGAA 60.487 50.000 0.00 0.00 0.00 3.97
180 181 2.810852 GAGTGCTTGAAGAAGTGGGAAG 59.189 50.000 0.00 0.00 0.00 3.46
181 182 2.173569 AGTGCTTGAAGAAGTGGGAAGT 59.826 45.455 0.00 0.00 0.00 3.01
182 183 3.391296 AGTGCTTGAAGAAGTGGGAAGTA 59.609 43.478 0.00 0.00 0.00 2.24
183 184 3.498777 GTGCTTGAAGAAGTGGGAAGTAC 59.501 47.826 0.00 0.00 0.00 2.73
184 185 3.391296 TGCTTGAAGAAGTGGGAAGTACT 59.609 43.478 0.00 0.00 0.00 2.73
190 191 5.307196 TGAAGAAGTGGGAAGTACTTAGCTT 59.693 40.000 8.42 10.08 38.42 3.74
193 194 5.307196 AGAAGTGGGAAGTACTTAGCTTGAA 59.693 40.000 8.42 0.00 38.42 2.69
244 245 1.827399 TTCGGCCCACTCAGACCTTC 61.827 60.000 0.00 0.00 0.00 3.46
259 260 2.662156 GACCTTCAAGTTACGAGCTTCG 59.338 50.000 0.00 0.00 46.93 3.79
260 261 1.993370 CCTTCAAGTTACGAGCTTCGG 59.007 52.381 9.75 0.00 45.59 4.30
261 262 1.390463 CTTCAAGTTACGAGCTTCGGC 59.610 52.381 9.75 0.00 45.59 5.54
277 278 4.722700 GCTTCTGCCGAGGCCCAA 62.723 66.667 12.05 3.33 41.09 4.12
278 279 2.747855 CTTCTGCCGAGGCCCAAC 60.748 66.667 12.05 0.00 41.09 3.77
368 369 2.450479 AAACCCTCTCCGCCGAACAG 62.450 60.000 0.00 0.00 0.00 3.16
456 457 4.779733 TCCCCACCTCCTCCGCTC 62.780 72.222 0.00 0.00 0.00 5.03
466 467 2.224670 CCTCCTCCGCTCTACAGTATCT 60.225 54.545 0.00 0.00 0.00 1.98
505 506 2.639065 TCCGCACCTGTATTGATTTCC 58.361 47.619 0.00 0.00 0.00 3.13
528 529 1.310904 GTTGGCAACGAACCCTAACA 58.689 50.000 15.49 0.00 42.51 2.41
617 618 4.098807 ACAGCAGTTTATTTTTCCAACCGT 59.901 37.500 0.00 0.00 0.00 4.83
623 624 1.170442 ATTTTTCCAACCGTAGCCCG 58.830 50.000 0.00 0.00 0.00 6.13
715 716 4.262506 GCACTAGTGTGGTTTCCTCTTAGT 60.263 45.833 23.44 0.00 43.97 2.24
1310 1325 4.932200 CGTTGAGAAGGACAAAGAAGCTAT 59.068 41.667 0.00 0.00 0.00 2.97
1401 1416 6.768381 AGAAAGACCACAGTAAGGAAGAAAAG 59.232 38.462 0.00 0.00 0.00 2.27
1482 1497 6.436532 ACAGCAAGGAAGAAAATGATGATTCT 59.563 34.615 0.00 0.00 37.49 2.40
1789 1804 8.329203 AGATGAACTTTGTCAGGTAGATTTTC 57.671 34.615 0.00 0.00 0.00 2.29
1790 1805 8.160106 AGATGAACTTTGTCAGGTAGATTTTCT 58.840 33.333 0.00 0.00 0.00 2.52
2185 2203 1.089920 CGCTCAAACATTCCTCCCTG 58.910 55.000 0.00 0.00 0.00 4.45
2231 2249 1.244019 ATGGCAACGCTTCAGTTCCC 61.244 55.000 0.00 0.00 42.51 3.97
2427 2445 7.517893 CGGTAACAACCTTACTTTTCTCTTGAC 60.518 40.741 0.00 0.00 0.00 3.18
2443 2461 3.248363 TCTTGACAGTGCAGTTTCATTCG 59.752 43.478 11.06 4.06 0.00 3.34
2482 2508 6.592207 AACTATTCATTACCCCTTTAGCCT 57.408 37.500 0.00 0.00 0.00 4.58
2493 2519 3.456277 CCCCTTTAGCCTATTCTGTGACT 59.544 47.826 0.00 0.00 0.00 3.41
2658 2693 1.518325 CCATTTGGTAGCACGACACA 58.482 50.000 0.00 0.00 0.00 3.72
2659 2694 1.196808 CCATTTGGTAGCACGACACAC 59.803 52.381 0.00 0.00 0.00 3.82
2660 2695 2.143122 CATTTGGTAGCACGACACACT 58.857 47.619 0.00 0.00 0.00 3.55
2661 2696 2.319136 TTTGGTAGCACGACACACTT 57.681 45.000 0.00 0.00 0.00 3.16
2662 2697 1.577468 TTGGTAGCACGACACACTTG 58.423 50.000 0.00 0.00 0.00 3.16
2752 2878 9.706691 CATAACTGGTGGTAATATTGTAGTAGG 57.293 37.037 0.00 0.00 0.00 3.18
2770 2896 9.661563 TGTAGTAGGTAATCTGGTAAATTGTTG 57.338 33.333 0.00 0.00 0.00 3.33
2791 2918 9.522804 TTGTTGTTTTAGTGGACATTGTAAATC 57.477 29.630 0.00 0.00 0.00 2.17
2871 2998 6.560003 TCTTTCCTCATACTCTGCCATAAA 57.440 37.500 0.00 0.00 0.00 1.40
2885 3012 7.603784 ACTCTGCCATAAATTTTTCAAATGTCC 59.396 33.333 0.00 0.00 0.00 4.02
2900 3027 8.795786 TTCAAATGTCCGTTTCTTATTTTGAG 57.204 30.769 0.00 0.00 0.00 3.02
2955 3092 4.275810 AGCATTGGAGTTTGCTATGACAT 58.724 39.130 0.00 0.00 46.92 3.06
3239 3377 1.609208 TGAGGAAGCTGTCAAAAGCC 58.391 50.000 0.00 0.00 44.68 4.35
3329 3467 5.291971 GTCTGCTTTTGTTGGATTGAACAT 58.708 37.500 0.00 0.00 35.77 2.71
3332 3470 7.599998 GTCTGCTTTTGTTGGATTGAACATATT 59.400 33.333 0.00 0.00 35.77 1.28
3384 3522 2.421424 AGATCTTTGCCTTGACGAATGC 59.579 45.455 0.00 0.00 0.00 3.56
3408 3547 9.237187 TGCCAACTTCATCTGTTATTTTACATA 57.763 29.630 0.00 0.00 0.00 2.29
3892 4032 5.510349 GCAAAGCTCCTCTTTCTTTGGAAAT 60.510 40.000 13.59 0.00 42.82 2.17
3952 4092 2.749621 CCAGATTTGGTCACCAGTTAGC 59.250 50.000 0.00 0.00 39.79 3.09
3997 4137 2.481952 GCAAGAGTTTTGATGCGAGACT 59.518 45.455 0.00 0.00 0.00 3.24
4045 4186 1.133790 GAGTCATGGCACCAGAATTGC 59.866 52.381 0.00 0.00 39.41 3.56
4057 4198 2.554142 CAGAATTGCAGTCGCCATCTA 58.446 47.619 0.00 0.00 37.32 1.98
4067 4208 5.163764 TGCAGTCGCCATCTAATTAACAAAG 60.164 40.000 0.00 0.00 37.32 2.77
4156 4297 8.297426 GGCTTTAATAGGCCATAAGTTCATAAC 58.703 37.037 5.01 0.00 46.84 1.89
4237 4378 2.385013 TGTTGGTGATCCGATGTCAG 57.615 50.000 0.00 0.00 36.30 3.51
4284 4425 3.075882 ACAGAGGAATGGGTGGATTTTCA 59.924 43.478 0.00 0.00 0.00 2.69
4356 4497 7.255569 AGCAACATCAGAAAACATCATGTATG 58.744 34.615 0.00 0.00 41.74 2.39
4481 4622 9.070179 CATGATGGAGGTTGTTTGAATATGATA 57.930 33.333 0.00 0.00 0.00 2.15
4484 4625 6.411376 TGGAGGTTGTTTGAATATGATACGT 58.589 36.000 0.00 0.00 0.00 3.57
4501 4642 1.202604 ACGTGAGGTTTGTGTCCGAAT 60.203 47.619 0.00 0.00 0.00 3.34
4514 4657 2.547634 TGTCCGAATGTTGTGTCATGTG 59.452 45.455 0.00 0.00 0.00 3.21
4532 4675 6.765989 GTCATGTGGCATATCTGGTTAACTAA 59.234 38.462 5.42 0.00 0.00 2.24
4533 4676 7.445402 GTCATGTGGCATATCTGGTTAACTAAT 59.555 37.037 5.42 0.00 0.00 1.73
4534 4677 7.445096 TCATGTGGCATATCTGGTTAACTAATG 59.555 37.037 5.42 1.88 0.00 1.90
4535 4678 6.658849 TGTGGCATATCTGGTTAACTAATGT 58.341 36.000 5.42 0.00 0.00 2.71
4536 4679 6.542005 TGTGGCATATCTGGTTAACTAATGTG 59.458 38.462 5.42 6.66 0.00 3.21
4537 4680 6.542370 GTGGCATATCTGGTTAACTAATGTGT 59.458 38.462 5.42 0.00 0.00 3.72
4538 4681 7.713507 GTGGCATATCTGGTTAACTAATGTGTA 59.286 37.037 5.42 0.00 0.00 2.90
4539 4682 8.436778 TGGCATATCTGGTTAACTAATGTGTAT 58.563 33.333 5.42 0.00 0.00 2.29
4540 4683 8.721478 GGCATATCTGGTTAACTAATGTGTATG 58.279 37.037 5.42 6.93 0.00 2.39
4544 4687 8.948631 ATCTGGTTAACTAATGTGTATGACTG 57.051 34.615 5.42 0.00 0.00 3.51
4545 4688 8.129496 TCTGGTTAACTAATGTGTATGACTGA 57.871 34.615 5.42 0.00 0.00 3.41
4546 4689 8.033038 TCTGGTTAACTAATGTGTATGACTGAC 58.967 37.037 5.42 0.00 0.00 3.51
4547 4690 7.672240 TGGTTAACTAATGTGTATGACTGACA 58.328 34.615 5.42 0.00 0.00 3.58
4548 4691 8.318412 TGGTTAACTAATGTGTATGACTGACAT 58.682 33.333 5.42 0.00 42.39 3.06
4549 4692 9.811995 GGTTAACTAATGTGTATGACTGACATA 57.188 33.333 5.42 0.00 40.07 2.29
4600 4743 6.078202 TCAGGAGCTAAGATAACAATCGAG 57.922 41.667 0.00 0.00 0.00 4.04
4609 4752 2.004583 TAACAATCGAGGAACCGCTG 57.995 50.000 0.00 0.00 0.00 5.18
5049 5192 7.959733 GTTGGAAAGTTTCTAACCTTTTTGTG 58.040 34.615 26.13 0.00 43.01 3.33
5059 5202 3.382083 ACCTTTTTGTGTGAGAACCCT 57.618 42.857 0.00 0.00 0.00 4.34
5065 5208 6.884295 CCTTTTTGTGTGAGAACCCTATCATA 59.116 38.462 0.00 0.00 0.00 2.15
5145 5288 8.565896 TTTGTCTGACATCTGCATTATTAAGT 57.434 30.769 11.86 0.00 0.00 2.24
5167 5310 2.205074 CTGACATGACCACTATTCGCC 58.795 52.381 0.00 0.00 0.00 5.54
5311 5539 4.599041 AGGCCTTTGCAGTGACATATTTA 58.401 39.130 0.00 0.00 40.13 1.40
5425 5653 5.463499 TGTTGTTGCTATAACATACTGCG 57.537 39.130 6.39 0.00 31.43 5.18
5441 5669 2.254459 CTGCGTACAACACTGCTCTAG 58.746 52.381 0.00 0.00 0.00 2.43
5462 5690 1.228552 ATGGCGAACCTTGCTTGGT 60.229 52.632 0.00 0.00 43.11 3.67
5599 5830 3.644805 ATTTTGTTATGTACCGCGACG 57.355 42.857 8.23 0.00 0.00 5.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.622665 CCATGGGAGCAAGAAGGAGT 59.377 55.000 2.85 0.00 0.00 3.85
3 4 0.332632 TTCCCATGGGAGCAAGAAGG 59.667 55.000 31.96 2.09 46.06 3.46
5 6 2.225343 ACATTTCCCATGGGAGCAAGAA 60.225 45.455 31.96 23.36 46.06 2.52
6 7 1.358787 ACATTTCCCATGGGAGCAAGA 59.641 47.619 31.96 15.84 46.06 3.02
7 8 1.856629 ACATTTCCCATGGGAGCAAG 58.143 50.000 31.96 23.84 46.06 4.01
8 9 2.323999 AACATTTCCCATGGGAGCAA 57.676 45.000 31.96 24.80 46.06 3.91
9 10 2.323999 AAACATTTCCCATGGGAGCA 57.676 45.000 31.96 23.22 46.06 4.26
10 11 3.701205 AAAAACATTTCCCATGGGAGC 57.299 42.857 31.96 0.00 46.06 4.70
28 29 3.970640 ACTTCCCATTGGTTGCCTAAAAA 59.029 39.130 1.20 0.00 0.00 1.94
29 30 3.582164 ACTTCCCATTGGTTGCCTAAAA 58.418 40.909 1.20 0.00 0.00 1.52
30 31 3.252554 ACTTCCCATTGGTTGCCTAAA 57.747 42.857 1.20 0.00 0.00 1.85
31 32 2.990740 ACTTCCCATTGGTTGCCTAA 57.009 45.000 1.20 0.00 0.00 2.69
32 33 2.916934 AGTACTTCCCATTGGTTGCCTA 59.083 45.455 1.20 0.00 0.00 3.93
33 34 1.710809 AGTACTTCCCATTGGTTGCCT 59.289 47.619 1.20 0.00 0.00 4.75
34 35 2.215942 AGTACTTCCCATTGGTTGCC 57.784 50.000 1.20 0.00 0.00 4.52
35 36 4.600692 AAAAGTACTTCCCATTGGTTGC 57.399 40.909 8.95 0.00 0.00 4.17
56 57 3.294038 TCCCACGGGTTCACTTAAAAA 57.706 42.857 1.07 0.00 36.47 1.94
57 58 3.215975 CTTCCCACGGGTTCACTTAAAA 58.784 45.455 1.07 0.00 36.47 1.52
58 59 2.173143 ACTTCCCACGGGTTCACTTAAA 59.827 45.455 1.07 0.00 36.47 1.52
59 60 1.770061 ACTTCCCACGGGTTCACTTAA 59.230 47.619 1.07 0.00 36.47 1.85
60 61 1.426751 ACTTCCCACGGGTTCACTTA 58.573 50.000 1.07 0.00 36.47 2.24
61 62 1.071228 GTACTTCCCACGGGTTCACTT 59.929 52.381 1.07 0.00 36.47 3.16
62 63 0.683412 GTACTTCCCACGGGTTCACT 59.317 55.000 1.07 0.00 36.47 3.41
63 64 0.683412 AGTACTTCCCACGGGTTCAC 59.317 55.000 1.07 0.00 36.47 3.18
64 65 0.971386 GAGTACTTCCCACGGGTTCA 59.029 55.000 1.07 0.00 36.47 3.18
65 66 0.248565 GGAGTACTTCCCACGGGTTC 59.751 60.000 1.07 0.00 40.37 3.62
66 67 2.369654 GGAGTACTTCCCACGGGTT 58.630 57.895 1.07 0.00 40.37 4.11
67 68 4.125239 GGAGTACTTCCCACGGGT 57.875 61.111 1.07 0.00 40.37 5.28
74 75 1.849977 AGGACGAAGGGAGTACTTCC 58.150 55.000 12.91 12.91 43.01 3.46
75 76 6.897706 ATTATAGGACGAAGGGAGTACTTC 57.102 41.667 0.00 0.00 42.63 3.01
80 81 9.993454 GTTTTTATATTATAGGACGAAGGGAGT 57.007 33.333 0.00 0.00 0.00 3.85
81 82 9.136952 CGTTTTTATATTATAGGACGAAGGGAG 57.863 37.037 0.00 0.00 0.00 4.30
82 83 8.641541 ACGTTTTTATATTATAGGACGAAGGGA 58.358 33.333 15.94 0.00 33.86 4.20
83 84 8.822652 ACGTTTTTATATTATAGGACGAAGGG 57.177 34.615 15.94 0.00 33.86 3.95
101 102 9.361315 AGCTATGTTAACTTGAAAAACGTTTTT 57.639 25.926 32.90 32.90 42.60 1.94
102 103 8.920509 AGCTATGTTAACTTGAAAAACGTTTT 57.079 26.923 20.26 20.26 0.00 2.43
103 104 8.803799 CAAGCTATGTTAACTTGAAAAACGTTT 58.196 29.630 7.96 7.96 42.71 3.60
104 105 8.185505 TCAAGCTATGTTAACTTGAAAAACGTT 58.814 29.630 7.22 0.00 44.97 3.99
105 106 7.699566 TCAAGCTATGTTAACTTGAAAAACGT 58.300 30.769 7.22 0.00 44.97 3.99
112 113 7.699566 ACGTTTTTCAAGCTATGTTAACTTGA 58.300 30.769 7.22 5.23 45.95 3.02
113 114 7.908193 ACGTTTTTCAAGCTATGTTAACTTG 57.092 32.000 7.22 2.84 41.70 3.16
114 115 8.403236 AGAACGTTTTTCAAGCTATGTTAACTT 58.597 29.630 0.46 3.03 0.00 2.66
115 116 7.927048 AGAACGTTTTTCAAGCTATGTTAACT 58.073 30.769 0.46 0.00 0.00 2.24
116 117 8.556517 AAGAACGTTTTTCAAGCTATGTTAAC 57.443 30.769 0.46 0.00 0.00 2.01
132 133 9.751542 CCTCAGTCTCATAATATAAGAACGTTT 57.248 33.333 0.46 0.00 0.00 3.60
133 134 8.361139 CCCTCAGTCTCATAATATAAGAACGTT 58.639 37.037 0.00 0.00 0.00 3.99
134 135 7.724506 TCCCTCAGTCTCATAATATAAGAACGT 59.275 37.037 0.00 0.00 0.00 3.99
135 136 8.112016 TCCCTCAGTCTCATAATATAAGAACG 57.888 38.462 0.00 0.00 0.00 3.95
136 137 9.084533 ACTCCCTCAGTCTCATAATATAAGAAC 57.915 37.037 0.00 0.00 0.00 3.01
137 138 9.083422 CACTCCCTCAGTCTCATAATATAAGAA 57.917 37.037 0.00 0.00 30.26 2.52
138 139 7.177568 GCACTCCCTCAGTCTCATAATATAAGA 59.822 40.741 0.00 0.00 30.26 2.10
139 140 7.178274 AGCACTCCCTCAGTCTCATAATATAAG 59.822 40.741 0.00 0.00 30.26 1.73
140 141 7.013220 AGCACTCCCTCAGTCTCATAATATAA 58.987 38.462 0.00 0.00 30.26 0.98
141 142 6.556639 AGCACTCCCTCAGTCTCATAATATA 58.443 40.000 0.00 0.00 30.26 0.86
142 143 5.401750 AGCACTCCCTCAGTCTCATAATAT 58.598 41.667 0.00 0.00 30.26 1.28
143 144 4.809193 AGCACTCCCTCAGTCTCATAATA 58.191 43.478 0.00 0.00 30.26 0.98
144 145 3.652055 AGCACTCCCTCAGTCTCATAAT 58.348 45.455 0.00 0.00 30.26 1.28
145 146 3.107402 AGCACTCCCTCAGTCTCATAA 57.893 47.619 0.00 0.00 30.26 1.90
146 147 2.762887 CAAGCACTCCCTCAGTCTCATA 59.237 50.000 0.00 0.00 30.26 2.15
147 148 1.554160 CAAGCACTCCCTCAGTCTCAT 59.446 52.381 0.00 0.00 30.26 2.90
148 149 0.972134 CAAGCACTCCCTCAGTCTCA 59.028 55.000 0.00 0.00 30.26 3.27
149 150 1.261480 TCAAGCACTCCCTCAGTCTC 58.739 55.000 0.00 0.00 30.26 3.36
150 151 1.622811 CTTCAAGCACTCCCTCAGTCT 59.377 52.381 0.00 0.00 30.26 3.24
151 152 1.620819 TCTTCAAGCACTCCCTCAGTC 59.379 52.381 0.00 0.00 30.26 3.51
152 153 1.722034 TCTTCAAGCACTCCCTCAGT 58.278 50.000 0.00 0.00 34.67 3.41
153 154 2.038295 ACTTCTTCAAGCACTCCCTCAG 59.962 50.000 0.00 0.00 32.09 3.35
154 155 2.050144 ACTTCTTCAAGCACTCCCTCA 58.950 47.619 0.00 0.00 32.09 3.86
155 156 2.421619 CACTTCTTCAAGCACTCCCTC 58.578 52.381 0.00 0.00 32.09 4.30
156 157 1.072965 CCACTTCTTCAAGCACTCCCT 59.927 52.381 0.00 0.00 32.09 4.20
157 158 1.528129 CCACTTCTTCAAGCACTCCC 58.472 55.000 0.00 0.00 32.09 4.30
158 159 1.072331 TCCCACTTCTTCAAGCACTCC 59.928 52.381 0.00 0.00 32.09 3.85
159 160 2.550830 TCCCACTTCTTCAAGCACTC 57.449 50.000 0.00 0.00 32.09 3.51
160 161 2.173569 ACTTCCCACTTCTTCAAGCACT 59.826 45.455 0.00 0.00 32.09 4.40
161 162 2.576615 ACTTCCCACTTCTTCAAGCAC 58.423 47.619 0.00 0.00 32.09 4.40
162 163 3.391296 AGTACTTCCCACTTCTTCAAGCA 59.609 43.478 0.00 0.00 32.09 3.91
163 164 4.009370 AGTACTTCCCACTTCTTCAAGC 57.991 45.455 0.00 0.00 32.09 4.01
164 165 5.639931 GCTAAGTACTTCCCACTTCTTCAAG 59.360 44.000 12.39 0.06 37.42 3.02
165 166 5.307196 AGCTAAGTACTTCCCACTTCTTCAA 59.693 40.000 12.39 0.00 37.42 2.69
166 167 4.838986 AGCTAAGTACTTCCCACTTCTTCA 59.161 41.667 12.39 0.00 37.42 3.02
167 168 5.408880 AGCTAAGTACTTCCCACTTCTTC 57.591 43.478 12.39 0.00 37.42 2.87
168 169 5.307196 TCAAGCTAAGTACTTCCCACTTCTT 59.693 40.000 12.39 3.72 37.42 2.52
169 170 4.838986 TCAAGCTAAGTACTTCCCACTTCT 59.161 41.667 12.39 0.00 37.42 2.85
170 171 5.148651 TCAAGCTAAGTACTTCCCACTTC 57.851 43.478 12.39 0.00 37.42 3.01
171 172 5.307196 TCTTCAAGCTAAGTACTTCCCACTT 59.693 40.000 12.39 8.70 39.50 3.16
172 173 4.838986 TCTTCAAGCTAAGTACTTCCCACT 59.161 41.667 12.39 2.69 0.00 4.00
173 174 5.148651 TCTTCAAGCTAAGTACTTCCCAC 57.851 43.478 12.39 0.23 0.00 4.61
174 175 5.818678 TTCTTCAAGCTAAGTACTTCCCA 57.181 39.130 12.39 0.00 0.00 4.37
175 176 6.094186 CCAATTCTTCAAGCTAAGTACTTCCC 59.906 42.308 12.39 4.36 0.00 3.97
176 177 6.879458 TCCAATTCTTCAAGCTAAGTACTTCC 59.121 38.462 12.39 4.74 0.00 3.46
177 178 7.819900 TCTCCAATTCTTCAAGCTAAGTACTTC 59.180 37.037 12.39 0.00 0.00 3.01
178 179 7.680730 TCTCCAATTCTTCAAGCTAAGTACTT 58.319 34.615 13.68 13.68 0.00 2.24
179 180 7.246171 TCTCCAATTCTTCAAGCTAAGTACT 57.754 36.000 0.00 0.00 0.00 2.73
180 181 6.536941 CCTCTCCAATTCTTCAAGCTAAGTAC 59.463 42.308 0.00 0.00 0.00 2.73
181 182 6.352222 CCCTCTCCAATTCTTCAAGCTAAGTA 60.352 42.308 0.00 0.00 0.00 2.24
182 183 5.495640 CCTCTCCAATTCTTCAAGCTAAGT 58.504 41.667 0.00 0.00 0.00 2.24
183 184 4.880696 CCCTCTCCAATTCTTCAAGCTAAG 59.119 45.833 0.00 0.00 0.00 2.18
184 185 4.848357 CCCTCTCCAATTCTTCAAGCTAA 58.152 43.478 0.00 0.00 0.00 3.09
190 191 0.253044 CGGCCCTCTCCAATTCTTCA 59.747 55.000 0.00 0.00 0.00 3.02
193 194 0.326238 TACCGGCCCTCTCCAATTCT 60.326 55.000 0.00 0.00 0.00 2.40
260 261 4.722700 TTGGGCCTCGGCAGAAGC 62.723 66.667 10.51 0.00 44.11 3.86
261 262 2.747855 GTTGGGCCTCGGCAGAAG 60.748 66.667 10.51 0.00 44.11 2.85
262 263 2.632602 TTTGTTGGGCCTCGGCAGAA 62.633 55.000 10.51 0.00 44.11 3.02
263 264 2.632602 TTTTGTTGGGCCTCGGCAGA 62.633 55.000 10.51 0.00 44.11 4.26
264 265 2.146073 CTTTTGTTGGGCCTCGGCAG 62.146 60.000 10.51 0.00 44.11 4.85
456 457 1.264557 CGCTCCACGGAGATACTGTAG 59.735 57.143 17.47 0.00 44.53 2.74
505 506 0.535102 AGGGTTCGTTGCCAACAGAG 60.535 55.000 8.51 0.00 0.00 3.35
528 529 2.108250 ACTTCCCGGGCAATATAAGCAT 59.892 45.455 18.49 0.00 0.00 3.79
562 563 3.341823 CCAAGTAGCAAACAGAGAGCAT 58.658 45.455 0.00 0.00 0.00 3.79
617 618 2.307768 CTAGTGAAGTCCATCGGGCTA 58.692 52.381 0.00 0.00 0.00 3.93
715 716 5.611374 GTGCTACTTCTAATGCCAGGATTA 58.389 41.667 0.00 0.00 0.00 1.75
929 944 6.884295 AGAAATTAGCTACTGTGCCAATAACA 59.116 34.615 0.00 0.00 0.00 2.41
1310 1325 2.244695 TCTCTTTACCTTGCTCGTGGA 58.755 47.619 0.00 0.00 0.00 4.02
1401 1416 3.438087 CGTGGGCATTATCTGAATCATCC 59.562 47.826 0.00 0.00 0.00 3.51
1482 1497 6.367422 CCAACTTTGTAGTTTTTGCAACAGAA 59.633 34.615 0.00 0.00 41.85 3.02
1595 1610 2.494870 GTTTTCTGGCCTGATGCATCTT 59.505 45.455 26.32 0.00 43.89 2.40
1825 1840 8.903820 AGCAAAGTCTTTACACTACAAAAGATT 58.096 29.630 0.00 0.00 42.11 2.40
1845 1863 9.565213 CAGAACTATAATCTTCCAAAAGCAAAG 57.435 33.333 0.00 0.00 32.18 2.77
1924 1942 2.787994 CCACTGCATTCAGACCTTTCT 58.212 47.619 0.00 0.00 42.95 2.52
2185 2203 3.080319 AGAGCATCAGGAAAAGCAGAAC 58.920 45.455 0.00 0.00 37.82 3.01
2231 2249 1.277557 CTGAAGGTGAGAGGTTCTGGG 59.722 57.143 0.00 0.00 0.00 4.45
2345 2363 9.035890 TCTGACTTTGGAATAGTCTCAAGAATA 57.964 33.333 8.32 0.00 41.99 1.75
2351 2369 6.857437 TCATCTGACTTTGGAATAGTCTCA 57.143 37.500 0.00 0.00 41.99 3.27
2427 2445 8.417176 GTTTATTTAACGAATGAAACTGCACTG 58.583 33.333 0.00 0.00 0.00 3.66
2505 2531 7.973388 TCATTTTAATCCTTAAATGCCTTCACG 59.027 33.333 0.00 0.00 35.26 4.35
2547 2573 5.734720 TCTAGAAACGCTGGAGAATGAAAT 58.265 37.500 0.00 0.00 29.85 2.17
2652 2687 2.666508 GGTACTGCATACAAGTGTGTCG 59.333 50.000 0.00 0.00 39.30 4.35
2653 2688 3.659786 TGGTACTGCATACAAGTGTGTC 58.340 45.455 0.00 0.00 39.30 3.67
2654 2689 3.762407 TGGTACTGCATACAAGTGTGT 57.238 42.857 0.00 0.00 42.09 3.72
2655 2690 5.412594 AGAAATGGTACTGCATACAAGTGTG 59.587 40.000 0.00 0.00 35.23 3.82
2656 2691 5.560724 AGAAATGGTACTGCATACAAGTGT 58.439 37.500 0.00 0.00 35.23 3.55
2657 2692 6.317088 CAAGAAATGGTACTGCATACAAGTG 58.683 40.000 0.00 0.00 35.23 3.16
2658 2693 5.415701 CCAAGAAATGGTACTGCATACAAGT 59.584 40.000 0.00 0.00 44.85 3.16
2659 2694 5.883661 CCAAGAAATGGTACTGCATACAAG 58.116 41.667 0.00 0.00 44.85 3.16
2660 2695 5.895636 CCAAGAAATGGTACTGCATACAA 57.104 39.130 0.00 0.00 44.85 2.41
2791 2918 4.269183 TGTGCCATACAACCTTCTAATGG 58.731 43.478 0.00 0.00 40.10 3.16
2885 3012 4.788100 CCGCATGTCTCAAAATAAGAAACG 59.212 41.667 0.00 0.00 0.00 3.60
2900 3027 2.282701 AACAATGAATGCCGCATGTC 57.717 45.000 6.63 7.49 0.00 3.06
3239 3377 8.437360 TGTCTTTGCTCAACACTATTATATGG 57.563 34.615 0.00 0.00 0.00 2.74
3453 3593 7.775053 TTCTGCAGTTAATTAACCTGGAAAT 57.225 32.000 21.92 1.94 36.88 2.17
3952 4092 1.001048 CCCATCTTATGCAATGCCACG 60.001 52.381 1.53 0.00 0.00 4.94
3997 4137 7.669427 AGATTAATTCACAACAAATCAGGCAA 58.331 30.769 0.00 0.00 0.00 4.52
4045 4186 6.092122 TGACTTTGTTAATTAGATGGCGACTG 59.908 38.462 0.00 0.00 0.00 3.51
4140 4281 5.061684 GCAAAAACGTTATGAACTTATGGCC 59.938 40.000 15.84 0.00 0.00 5.36
4156 4297 5.761234 TGGTATAGGGCTATAAGCAAAAACG 59.239 40.000 0.78 0.00 44.75 3.60
4237 4378 3.152341 CCATTCCAGGAATGCCAGATAC 58.848 50.000 30.43 0.00 45.48 2.24
4284 4425 4.086457 ACACAAGACAAGAAACAAACCCT 58.914 39.130 0.00 0.00 0.00 4.34
4316 4457 5.185635 TGATGTTGCTAATCAAAAGGGAAGG 59.814 40.000 0.00 0.00 36.26 3.46
4379 4520 2.846206 TGGCCTAGATGAATGAACAGGT 59.154 45.455 3.32 0.00 0.00 4.00
4481 4622 0.176219 TTCGGACACAAACCTCACGT 59.824 50.000 0.00 0.00 0.00 4.49
4484 4625 2.616376 CAACATTCGGACACAAACCTCA 59.384 45.455 0.00 0.00 0.00 3.86
4501 4642 3.690628 CAGATATGCCACATGACACAACA 59.309 43.478 0.00 0.00 0.00 3.33
4514 4657 8.721478 CATACACATTAGTTAACCAGATATGCC 58.279 37.037 0.88 0.00 0.00 4.40
4600 4743 2.115291 GGAATCAGCCAGCGGTTCC 61.115 63.158 9.60 9.60 0.00 3.62
4609 4752 2.107204 AGGTGTATCCATGGAATCAGCC 59.893 50.000 30.35 25.01 39.02 4.85
5049 5192 5.455056 ACATCGTATGATAGGGTTCTCAC 57.545 43.478 0.00 0.00 32.18 3.51
5065 5208 6.594159 CCCTTTATAGAAGTTCACAACATCGT 59.406 38.462 5.50 0.00 34.50 3.73
5122 5265 8.478066 AGTACTTAATAATGCAGATGTCAGACA 58.522 33.333 5.50 5.50 0.00 3.41
5145 5288 3.181479 GGCGAATAGTGGTCATGTCAGTA 60.181 47.826 0.00 1.01 0.00 2.74
5167 5310 8.763984 ATACTAGATATTAGGGTATTGGTCCG 57.236 38.462 0.00 0.00 0.00 4.79
5223 5451 4.039973 ACAGGACACTAGGAAACGATTTGA 59.960 41.667 0.00 0.00 0.00 2.69
5224 5452 4.315803 ACAGGACACTAGGAAACGATTTG 58.684 43.478 0.00 0.00 0.00 2.32
5340 5568 6.488006 CCAACAGGTGCAATATATTAAGCTCT 59.512 38.462 8.69 4.70 0.00 4.09
5341 5569 6.486657 TCCAACAGGTGCAATATATTAAGCTC 59.513 38.462 8.69 5.64 0.00 4.09
5400 5628 6.799441 CGCAGTATGTTATAGCAACAACAAAA 59.201 34.615 0.00 0.00 38.11 2.44
5404 5632 5.464965 ACGCAGTATGTTATAGCAACAAC 57.535 39.130 0.00 0.00 41.94 3.32
5441 5669 0.109597 CAAGCAAGGTTCGCCATCAC 60.110 55.000 0.00 0.00 40.60 3.06
5569 5800 7.647715 GCGGTACATAACAAAATTTGCAGATAT 59.352 33.333 5.52 0.00 0.00 1.63
5570 5801 6.970043 GCGGTACATAACAAAATTTGCAGATA 59.030 34.615 5.52 0.00 0.00 1.98
5571 5802 5.804979 GCGGTACATAACAAAATTTGCAGAT 59.195 36.000 5.52 0.00 0.00 2.90
5572 5803 5.157781 GCGGTACATAACAAAATTTGCAGA 58.842 37.500 5.52 0.00 0.00 4.26
5580 5811 2.402305 ACGTCGCGGTACATAACAAAA 58.598 42.857 6.13 0.00 0.00 2.44
5583 5814 1.063912 CCTACGTCGCGGTACATAACA 59.936 52.381 6.13 0.00 0.00 2.41
5592 5823 3.681897 ACTAGTAATATCCTACGTCGCGG 59.318 47.826 6.13 0.00 0.00 6.46


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

AutoCloner maintained by Alex Coulton.