Multiple sequence alignment - TraesCS5D01G374800

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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 TraesCS5D01G374800 chr5D 100.000 2585 0 0 1 2585 447549857 447547273 0.000000e+00 4774
1 TraesCS5D01G374800 chr5D 92.291 1362 79 10 237 1580 522765582 522766935 0.000000e+00 1910
2 TraesCS5D01G374800 chr5D 95.000 1060 40 4 521 1580 452470076 452469030 0.000000e+00 1652
3 TraesCS5D01G374800 chr5D 96.116 1004 39 0 1582 2585 447537510 447536507 0.000000e+00 1639
4 TraesCS5D01G374800 chr5D 95.427 1006 42 4 1582 2585 73960376 73961379 0.000000e+00 1600
5 TraesCS5D01G374800 chr7A 92.193 1345 94 6 237 1580 729052403 729051069 0.000000e+00 1892
6 TraesCS5D01G374800 chr3B 92.273 1346 85 10 238 1580 738384061 738385390 0.000000e+00 1892
7 TraesCS5D01G374800 chr3B 90.330 1303 110 9 286 1580 715220548 715219254 0.000000e+00 1694
8 TraesCS5D01G374800 chr7D 91.691 1372 78 12 238 1580 411326404 411325040 0.000000e+00 1869
9 TraesCS5D01G374800 chr7D 89.749 1317 102 21 290 1580 327054355 327055664 0.000000e+00 1653
10 TraesCS5D01G374800 chr7D 95.513 1003 43 1 1583 2585 50170770 50171770 0.000000e+00 1602
11 TraesCS5D01G374800 chr7D 95.319 1004 45 1 1582 2585 50204108 50205109 0.000000e+00 1592
12 TraesCS5D01G374800 chr1D 91.183 1361 91 15 237 1580 427260512 427261860 0.000000e+00 1821
13 TraesCS5D01G374800 chr1D 96.215 1004 34 3 1583 2585 433520687 433521687 0.000000e+00 1640
14 TraesCS5D01G374800 chr1D 95.747 1011 39 3 1575 2585 63444624 63445630 0.000000e+00 1626
15 TraesCS5D01G374800 chr2D 89.207 1362 118 12 237 1580 50981658 50980308 0.000000e+00 1674
16 TraesCS5D01G374800 chr2D 93.090 796 38 7 238 1026 44489206 44489991 0.000000e+00 1149
17 TraesCS5D01G374800 chr6D 96.538 1011 32 3 1577 2585 431480052 431481061 0.000000e+00 1670
18 TraesCS5D01G374800 chr6D 95.319 1004 45 2 1582 2585 418942446 418943447 0.000000e+00 1592
19 TraesCS5D01G374800 chr4D 95.423 1005 44 2 1582 2585 476396638 476397641 0.000000e+00 1600
20 TraesCS5D01G374800 chr4A 90.909 1078 78 13 461 1535 692684733 692683673 0.000000e+00 1430
21 TraesCS5D01G374800 chr5B 81.448 221 24 7 27 236 546426252 546426038 5.720000e-37 165


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 TraesCS5D01G374800 chr5D 447547273 447549857 2584 True 4774 4774 100.000 1 2585 1 chr5D.!!$R2 2584
1 TraesCS5D01G374800 chr5D 522765582 522766935 1353 False 1910 1910 92.291 237 1580 1 chr5D.!!$F2 1343
2 TraesCS5D01G374800 chr5D 452469030 452470076 1046 True 1652 1652 95.000 521 1580 1 chr5D.!!$R3 1059
3 TraesCS5D01G374800 chr5D 447536507 447537510 1003 True 1639 1639 96.116 1582 2585 1 chr5D.!!$R1 1003
4 TraesCS5D01G374800 chr5D 73960376 73961379 1003 False 1600 1600 95.427 1582 2585 1 chr5D.!!$F1 1003
5 TraesCS5D01G374800 chr7A 729051069 729052403 1334 True 1892 1892 92.193 237 1580 1 chr7A.!!$R1 1343
6 TraesCS5D01G374800 chr3B 738384061 738385390 1329 False 1892 1892 92.273 238 1580 1 chr3B.!!$F1 1342
7 TraesCS5D01G374800 chr3B 715219254 715220548 1294 True 1694 1694 90.330 286 1580 1 chr3B.!!$R1 1294
8 TraesCS5D01G374800 chr7D 411325040 411326404 1364 True 1869 1869 91.691 238 1580 1 chr7D.!!$R1 1342
9 TraesCS5D01G374800 chr7D 327054355 327055664 1309 False 1653 1653 89.749 290 1580 1 chr7D.!!$F3 1290
10 TraesCS5D01G374800 chr7D 50170770 50171770 1000 False 1602 1602 95.513 1583 2585 1 chr7D.!!$F1 1002
11 TraesCS5D01G374800 chr7D 50204108 50205109 1001 False 1592 1592 95.319 1582 2585 1 chr7D.!!$F2 1003
12 TraesCS5D01G374800 chr1D 427260512 427261860 1348 False 1821 1821 91.183 237 1580 1 chr1D.!!$F2 1343
13 TraesCS5D01G374800 chr1D 433520687 433521687 1000 False 1640 1640 96.215 1583 2585 1 chr1D.!!$F3 1002
14 TraesCS5D01G374800 chr1D 63444624 63445630 1006 False 1626 1626 95.747 1575 2585 1 chr1D.!!$F1 1010
15 TraesCS5D01G374800 chr2D 50980308 50981658 1350 True 1674 1674 89.207 237 1580 1 chr2D.!!$R1 1343
16 TraesCS5D01G374800 chr2D 44489206 44489991 785 False 1149 1149 93.090 238 1026 1 chr2D.!!$F1 788
17 TraesCS5D01G374800 chr6D 431480052 431481061 1009 False 1670 1670 96.538 1577 2585 1 chr6D.!!$F2 1008
18 TraesCS5D01G374800 chr6D 418942446 418943447 1001 False 1592 1592 95.319 1582 2585 1 chr6D.!!$F1 1003
19 TraesCS5D01G374800 chr4D 476396638 476397641 1003 False 1600 1600 95.423 1582 2585 1 chr4D.!!$F1 1003
20 TraesCS5D01G374800 chr4A 692683673 692684733 1060 True 1430 1430 90.909 461 1535 1 chr4A.!!$R1 1074

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
181 182 0.034059 CGTGCTTCAAGAGTGGACCT 59.966 55.0 0.0 0.0 0.0 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1964 2054 1.405121 GCCACTAGTGAAACCTACGGG 60.405 57.143 24.68 4.31 37.8 5.28 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
25 26 4.767255 CCGGGTCAGCCTGCACTC 62.767 72.222 0.00 0.00 39.86 3.51
27 28 4.767255 GGGTCAGCCTGCACTCGG 62.767 72.222 0.00 0.00 34.45 4.63
33 34 4.704833 GCCTGCACTCGGCTTGGA 62.705 66.667 8.16 0.00 44.17 3.53
34 35 2.743928 CCTGCACTCGGCTTGGAC 60.744 66.667 0.00 0.00 45.15 4.02
35 36 2.743928 CTGCACTCGGCTTGGACC 60.744 66.667 0.00 0.00 45.15 4.46
36 37 3.535629 CTGCACTCGGCTTGGACCA 62.536 63.158 0.00 0.00 45.15 4.02
37 38 2.281484 GCACTCGGCTTGGACCAA 60.281 61.111 6.76 6.76 40.25 3.67
38 39 2.328099 GCACTCGGCTTGGACCAAG 61.328 63.158 27.16 27.16 43.57 3.61
39 40 1.071471 CACTCGGCTTGGACCAAGT 59.929 57.895 30.34 12.50 42.77 3.16
40 41 1.071471 ACTCGGCTTGGACCAAGTG 59.929 57.895 30.34 23.57 42.77 3.16
41 42 2.281484 TCGGCTTGGACCAAGTGC 60.281 61.111 30.34 20.25 42.77 4.40
42 43 2.594303 CGGCTTGGACCAAGTGCA 60.594 61.111 30.34 0.00 42.77 4.57
43 44 2.620112 CGGCTTGGACCAAGTGCAG 61.620 63.158 30.34 17.67 42.77 4.41
44 45 2.647297 GCTTGGACCAAGTGCAGC 59.353 61.111 30.34 16.48 42.77 5.25
45 46 2.949106 CTTGGACCAAGTGCAGCG 59.051 61.111 23.92 0.00 34.96 5.18
46 47 2.594303 TTGGACCAAGTGCAGCGG 60.594 61.111 1.69 0.00 34.96 5.52
47 48 3.414136 TTGGACCAAGTGCAGCGGT 62.414 57.895 1.69 1.31 34.96 5.68
48 49 3.357079 GGACCAAGTGCAGCGGTG 61.357 66.667 10.98 10.98 31.63 4.94
63 64 3.698820 GTGCTCGGGTACGGGGTT 61.699 66.667 0.00 0.00 42.08 4.11
64 65 2.924101 TGCTCGGGTACGGGGTTT 60.924 61.111 0.00 0.00 42.08 3.27
65 66 2.348620 GCTCGGGTACGGGGTTTT 59.651 61.111 0.00 0.00 42.08 2.43
66 67 1.742880 GCTCGGGTACGGGGTTTTC 60.743 63.158 0.00 0.00 42.08 2.29
67 68 1.672898 CTCGGGTACGGGGTTTTCA 59.327 57.895 0.00 0.00 41.39 2.69
68 69 0.390735 CTCGGGTACGGGGTTTTCAG 60.391 60.000 0.00 0.00 41.39 3.02
69 70 0.831288 TCGGGTACGGGGTTTTCAGA 60.831 55.000 0.00 0.00 41.39 3.27
70 71 0.671472 CGGGTACGGGGTTTTCAGAC 60.671 60.000 0.00 0.00 36.18 3.51
71 72 0.689055 GGGTACGGGGTTTTCAGACT 59.311 55.000 0.00 0.00 0.00 3.24
72 73 1.609841 GGGTACGGGGTTTTCAGACTG 60.610 57.143 0.00 0.00 0.00 3.51
73 74 1.154197 GTACGGGGTTTTCAGACTGC 58.846 55.000 0.00 0.00 0.00 4.40
74 75 0.320073 TACGGGGTTTTCAGACTGCG 60.320 55.000 0.00 0.00 0.00 5.18
75 76 2.325082 CGGGGTTTTCAGACTGCGG 61.325 63.158 0.00 0.00 0.00 5.69
76 77 1.072505 GGGGTTTTCAGACTGCGGA 59.927 57.895 0.00 0.00 0.00 5.54
77 78 0.955919 GGGGTTTTCAGACTGCGGAG 60.956 60.000 0.85 0.85 0.00 4.63
101 102 1.027357 GCTATGGCTTCATGGTGTGG 58.973 55.000 0.00 0.00 32.73 4.17
102 103 1.408683 GCTATGGCTTCATGGTGTGGA 60.409 52.381 0.00 0.00 32.73 4.02
103 104 2.750807 GCTATGGCTTCATGGTGTGGAT 60.751 50.000 0.00 0.00 32.73 3.41
104 105 1.771565 ATGGCTTCATGGTGTGGATG 58.228 50.000 0.00 0.00 0.00 3.51
105 106 0.697658 TGGCTTCATGGTGTGGATGA 59.302 50.000 0.00 0.00 0.00 2.92
106 107 1.098050 GGCTTCATGGTGTGGATGAC 58.902 55.000 0.00 0.00 29.39 3.06
107 108 1.340405 GGCTTCATGGTGTGGATGACT 60.340 52.381 0.00 0.00 29.39 3.41
108 109 2.012673 GCTTCATGGTGTGGATGACTC 58.987 52.381 0.00 0.00 29.39 3.36
109 110 2.616256 GCTTCATGGTGTGGATGACTCA 60.616 50.000 0.00 0.00 29.39 3.41
110 111 3.268330 CTTCATGGTGTGGATGACTCAG 58.732 50.000 0.00 0.00 29.39 3.35
111 112 1.556451 TCATGGTGTGGATGACTCAGG 59.444 52.381 0.00 0.00 0.00 3.86
112 113 0.914644 ATGGTGTGGATGACTCAGGG 59.085 55.000 0.00 0.00 0.00 4.45
113 114 1.078143 GGTGTGGATGACTCAGGGC 60.078 63.158 0.00 0.00 0.00 5.19
114 115 1.679311 GTGTGGATGACTCAGGGCA 59.321 57.895 0.00 0.00 0.00 5.36
115 116 0.392193 GTGTGGATGACTCAGGGCAG 60.392 60.000 0.00 0.00 0.00 4.85
116 117 1.222936 GTGGATGACTCAGGGCAGG 59.777 63.158 0.00 0.00 0.00 4.85
117 118 1.229625 TGGATGACTCAGGGCAGGT 60.230 57.895 0.00 0.00 0.00 4.00
118 119 0.042581 TGGATGACTCAGGGCAGGTA 59.957 55.000 0.00 0.00 0.00 3.08
119 120 0.466124 GGATGACTCAGGGCAGGTAC 59.534 60.000 0.00 0.00 0.00 3.34
120 121 0.466124 GATGACTCAGGGCAGGTACC 59.534 60.000 2.73 2.73 0.00 3.34
121 122 0.252696 ATGACTCAGGGCAGGTACCA 60.253 55.000 15.94 0.00 0.00 3.25
122 123 0.252696 TGACTCAGGGCAGGTACCAT 60.253 55.000 15.94 0.00 0.00 3.55
123 124 0.179000 GACTCAGGGCAGGTACCATG 59.821 60.000 15.94 10.60 42.89 3.66
124 125 1.274703 ACTCAGGGCAGGTACCATGG 61.275 60.000 15.94 11.19 41.82 3.66
125 126 1.987807 CTCAGGGCAGGTACCATGGG 61.988 65.000 18.09 0.00 41.82 4.00
126 127 2.000701 CAGGGCAGGTACCATGGGA 61.001 63.158 18.09 3.85 37.85 4.37
127 128 2.001269 AGGGCAGGTACCATGGGAC 61.001 63.158 19.90 19.90 0.00 4.46
128 129 2.595655 GGCAGGTACCATGGGACC 59.404 66.667 36.09 36.09 35.83 4.46
129 130 2.189521 GCAGGTACCATGGGACCG 59.810 66.667 35.97 30.04 40.91 4.79
130 131 2.189521 CAGGTACCATGGGACCGC 59.810 66.667 35.97 17.18 40.91 5.68
131 132 2.040606 AGGTACCATGGGACCGCT 59.959 61.111 35.97 20.56 40.91 5.52
132 133 2.064581 AGGTACCATGGGACCGCTC 61.065 63.158 35.97 16.08 40.91 5.03
133 134 2.106332 GTACCATGGGACCGCTCG 59.894 66.667 17.22 0.00 0.00 5.03
134 135 3.845259 TACCATGGGACCGCTCGC 61.845 66.667 18.09 0.00 0.00 5.03
151 152 3.374402 CCGACAGGAGCGGTGTCT 61.374 66.667 12.42 0.00 41.91 3.41
152 153 2.126307 CGACAGGAGCGGTGTCTG 60.126 66.667 11.53 11.53 41.91 3.51
153 154 2.920645 CGACAGGAGCGGTGTCTGT 61.921 63.158 16.79 16.79 41.91 3.41
154 155 1.583495 CGACAGGAGCGGTGTCTGTA 61.583 60.000 16.80 0.00 41.91 2.74
155 156 0.171455 GACAGGAGCGGTGTCTGTAG 59.829 60.000 16.80 0.00 41.24 2.74
156 157 1.153745 CAGGAGCGGTGTCTGTAGC 60.154 63.158 0.00 0.00 0.00 3.58
157 158 1.304547 AGGAGCGGTGTCTGTAGCT 60.305 57.895 0.00 0.00 43.33 3.32
158 159 0.900647 AGGAGCGGTGTCTGTAGCTT 60.901 55.000 0.00 0.00 40.39 3.74
159 160 0.458716 GGAGCGGTGTCTGTAGCTTC 60.459 60.000 0.00 0.00 40.39 3.86
160 161 0.798771 GAGCGGTGTCTGTAGCTTCG 60.799 60.000 0.00 0.00 40.39 3.79
161 162 1.805945 GCGGTGTCTGTAGCTTCGG 60.806 63.158 0.00 0.00 0.00 4.30
162 163 1.805945 CGGTGTCTGTAGCTTCGGC 60.806 63.158 0.00 0.00 42.17 5.54
172 173 2.174349 GCTTCGGCGTGCTTCAAG 59.826 61.111 17.10 9.35 0.00 3.02
173 174 2.317609 GCTTCGGCGTGCTTCAAGA 61.318 57.895 17.10 0.00 0.00 3.02
174 175 1.784062 CTTCGGCGTGCTTCAAGAG 59.216 57.895 6.85 0.00 0.00 2.85
175 176 0.946221 CTTCGGCGTGCTTCAAGAGT 60.946 55.000 6.85 0.00 0.00 3.24
176 177 1.221466 TTCGGCGTGCTTCAAGAGTG 61.221 55.000 6.85 0.00 0.00 3.51
177 178 2.671177 CGGCGTGCTTCAAGAGTGG 61.671 63.158 0.00 0.00 0.00 4.00
178 179 1.301716 GGCGTGCTTCAAGAGTGGA 60.302 57.895 0.00 0.00 0.00 4.02
179 180 1.569479 GGCGTGCTTCAAGAGTGGAC 61.569 60.000 0.00 0.00 0.00 4.02
180 181 1.569479 GCGTGCTTCAAGAGTGGACC 61.569 60.000 0.00 0.00 0.00 4.46
181 182 0.034059 CGTGCTTCAAGAGTGGACCT 59.966 55.000 0.00 0.00 0.00 3.85
182 183 1.517242 GTGCTTCAAGAGTGGACCTG 58.483 55.000 0.00 0.00 0.00 4.00
183 184 0.397941 TGCTTCAAGAGTGGACCTGG 59.602 55.000 0.00 0.00 0.00 4.45
184 185 0.687354 GCTTCAAGAGTGGACCTGGA 59.313 55.000 0.00 0.00 0.00 3.86
185 186 1.338579 GCTTCAAGAGTGGACCTGGAG 60.339 57.143 0.00 0.00 0.00 3.86
186 187 2.251818 CTTCAAGAGTGGACCTGGAGA 58.748 52.381 0.00 0.00 0.00 3.71
187 188 1.633774 TCAAGAGTGGACCTGGAGAC 58.366 55.000 0.00 0.00 0.00 3.36
188 189 1.148027 TCAAGAGTGGACCTGGAGACT 59.852 52.381 0.00 0.00 0.00 3.24
189 190 1.974236 CAAGAGTGGACCTGGAGACTT 59.026 52.381 0.00 0.00 0.00 3.01
190 191 1.638529 AGAGTGGACCTGGAGACTTG 58.361 55.000 0.00 0.00 0.00 3.16
191 192 0.610687 GAGTGGACCTGGAGACTTGG 59.389 60.000 0.00 0.00 0.00 3.61
192 193 0.838122 AGTGGACCTGGAGACTTGGG 60.838 60.000 0.00 0.00 0.00 4.12
193 194 2.224159 TGGACCTGGAGACTTGGGC 61.224 63.158 0.00 0.00 32.92 5.36
194 195 2.266055 GACCTGGAGACTTGGGCG 59.734 66.667 0.00 0.00 0.00 6.13
195 196 2.526873 ACCTGGAGACTTGGGCGT 60.527 61.111 0.00 0.00 0.00 5.68
196 197 2.266055 CCTGGAGACTTGGGCGTC 59.734 66.667 0.00 0.00 0.00 5.19
197 198 2.286523 CCTGGAGACTTGGGCGTCT 61.287 63.158 0.00 0.00 46.39 4.18
198 199 1.674057 CTGGAGACTTGGGCGTCTT 59.326 57.895 0.00 0.00 43.91 3.01
199 200 0.390472 CTGGAGACTTGGGCGTCTTC 60.390 60.000 0.00 0.00 43.91 2.87
200 201 0.832135 TGGAGACTTGGGCGTCTTCT 60.832 55.000 0.00 0.00 43.91 2.85
201 202 0.321996 GGAGACTTGGGCGTCTTCTT 59.678 55.000 0.00 0.00 43.91 2.52
202 203 1.673329 GGAGACTTGGGCGTCTTCTTC 60.673 57.143 0.00 0.00 43.91 2.87
203 204 1.273886 GAGACTTGGGCGTCTTCTTCT 59.726 52.381 0.00 0.00 43.91 2.85
204 205 2.492484 GAGACTTGGGCGTCTTCTTCTA 59.508 50.000 0.00 0.00 43.91 2.10
205 206 2.494073 AGACTTGGGCGTCTTCTTCTAG 59.506 50.000 0.00 0.00 41.27 2.43
206 207 1.066787 ACTTGGGCGTCTTCTTCTAGC 60.067 52.381 0.00 0.00 0.00 3.42
207 208 0.973632 TTGGGCGTCTTCTTCTAGCA 59.026 50.000 0.00 0.00 0.00 3.49
208 209 0.532573 TGGGCGTCTTCTTCTAGCAG 59.467 55.000 0.00 0.00 0.00 4.24
209 210 0.818296 GGGCGTCTTCTTCTAGCAGA 59.182 55.000 0.00 0.00 0.00 4.26
210 211 1.470112 GGGCGTCTTCTTCTAGCAGAC 60.470 57.143 0.00 0.00 35.57 3.51
211 212 1.474879 GGCGTCTTCTTCTAGCAGACT 59.525 52.381 0.00 0.00 36.54 3.24
212 213 2.525055 GCGTCTTCTTCTAGCAGACTG 58.475 52.381 0.00 0.00 36.54 3.51
213 214 2.525055 CGTCTTCTTCTAGCAGACTGC 58.475 52.381 20.12 20.12 45.46 4.40
222 223 3.797546 GCAGACTGCTTCGGCTGC 61.798 66.667 20.41 12.11 45.64 5.25
223 224 2.357881 CAGACTGCTTCGGCTGCA 60.358 61.111 0.50 0.00 42.49 4.41
224 225 1.744368 CAGACTGCTTCGGCTGCAT 60.744 57.895 0.50 0.00 42.49 3.96
225 226 0.460811 CAGACTGCTTCGGCTGCATA 60.461 55.000 0.50 0.00 42.49 3.14
226 227 0.467384 AGACTGCTTCGGCTGCATAT 59.533 50.000 0.50 0.00 42.49 1.78
227 228 0.585357 GACTGCTTCGGCTGCATATG 59.415 55.000 0.50 0.00 42.49 1.78
228 229 1.281960 CTGCTTCGGCTGCATATGC 59.718 57.895 21.09 21.09 42.37 3.14
229 230 2.126417 CTGCTTCGGCTGCATATGCC 62.126 60.000 24.54 10.19 46.42 4.40
243 244 3.636300 GCATATGCCATGAGGGTGTTTTA 59.364 43.478 17.26 0.00 39.65 1.52
272 274 7.977853 CCTTTTTACGTAGTTTAGCAGGATCTA 59.022 37.037 0.00 0.00 37.78 1.98
379 384 1.218316 CCTGGCAGTAGGTTCCGTC 59.782 63.158 14.43 0.00 32.99 4.79
595 612 3.996621 CCCCACCCAAGCACCCAT 61.997 66.667 0.00 0.00 0.00 4.00
613 630 2.042162 CCATTAGATCCCCCTCCATTGG 59.958 54.545 0.00 0.00 0.00 3.16
625 642 3.834231 CCCTCCATTGGTTGAGATTTGTT 59.166 43.478 1.86 0.00 0.00 2.83
643 660 4.626081 CGGTGGATCGGGGGCATC 62.626 72.222 0.00 0.00 0.00 3.91
669 686 0.195096 ACCCAAGGTACCTCTCCCAA 59.805 55.000 16.64 0.00 32.11 4.12
698 716 1.960689 CCCTTCGTTTGGTTGGTTGAT 59.039 47.619 0.00 0.00 0.00 2.57
750 772 5.836024 TTTTCAAGCCCTAGTTCTTCCTA 57.164 39.130 0.00 0.00 0.00 2.94
753 775 7.504926 TTTCAAGCCCTAGTTCTTCCTATAA 57.495 36.000 0.00 0.00 0.00 0.98
862 923 6.097753 AGGGGTTTAGTTAGGTTAGGGTTAA 58.902 40.000 0.00 0.00 0.00 2.01
1026 1100 0.318120 ATTTGGACAAGGCGGCTTTG 59.682 50.000 23.19 21.44 0.00 2.77
1076 1151 2.503356 AGGCCATGGTTTTTGACACAAA 59.497 40.909 14.67 0.00 0.00 2.83
1083 1158 4.195225 GGTTTTTGACACAAACCCAAGA 57.805 40.909 20.97 0.00 45.23 3.02
1133 1209 5.112129 AGCGTCCTTAATTGGATTAACCT 57.888 39.130 0.00 0.00 38.52 3.50
1149 1225 6.657541 GGATTAACCTAAGTGATGGTGTGAAA 59.342 38.462 0.00 0.00 36.57 2.69
1289 1365 5.359576 AGTCACTTGAGTTATTTGCCACAAA 59.640 36.000 0.00 0.00 0.00 2.83
1290 1366 6.040842 AGTCACTTGAGTTATTTGCCACAAAT 59.959 34.615 10.16 10.16 0.00 2.32
1433 1518 2.104451 AGGACATCAATGCTAGAGCCAG 59.896 50.000 0.00 0.00 41.18 4.85
1446 1531 2.107366 AGAGCCAGAGTTCTTCTAGGC 58.893 52.381 0.00 0.00 44.08 3.93
1465 1550 3.580022 AGGCGATGATCATGTTGGAGATA 59.420 43.478 14.30 0.00 0.00 1.98
1580 1665 3.994392 GTGTATGCGGAACAAGAAGAGAA 59.006 43.478 0.00 0.00 0.00 2.87
1679 1765 3.686016 TCCCTCAGTTATGAAACCAAGC 58.314 45.455 0.00 0.00 36.15 4.01
1958 2048 8.896744 CAAGGCAAATATATGAGAAAGAAGACA 58.103 33.333 0.00 0.00 0.00 3.41
1964 2054 2.496899 TGAGAAAGAAGACATGGGGC 57.503 50.000 0.00 0.00 0.00 5.80
2091 2182 5.008331 CAGGCAATGATCATTACATAGGCT 58.992 41.667 20.32 20.02 32.61 4.58
2189 2280 9.429359 AGCATGCATCTAGTATATTAAGTTCAC 57.571 33.333 21.98 0.00 0.00 3.18
2258 2349 5.503927 AGATCCATTTATCTATTGCGGCAT 58.496 37.500 2.28 0.00 34.40 4.40
2550 2641 0.753479 ATCCCAACAAACACACCGCA 60.753 50.000 0.00 0.00 0.00 5.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 4.767255 GAGTGCAGGCTGACCCGG 62.767 72.222 20.86 0.00 39.21 5.73
10 11 4.767255 CCGAGTGCAGGCTGACCC 62.767 72.222 20.86 4.44 36.11 4.46
17 18 2.743928 GTCCAAGCCGAGTGCAGG 60.744 66.667 0.00 0.00 44.83 4.85
18 19 2.743928 GGTCCAAGCCGAGTGCAG 60.744 66.667 0.00 0.00 44.83 4.41
19 20 3.113514 TTGGTCCAAGCCGAGTGCA 62.114 57.895 0.00 0.00 44.83 4.57
20 21 2.281484 TTGGTCCAAGCCGAGTGC 60.281 61.111 0.00 0.00 41.71 4.40
21 22 3.972227 CTTGGTCCAAGCCGAGTG 58.028 61.111 18.66 0.00 34.63 3.51
22 23 3.563512 ACTTGGTCCAAGCCGAGT 58.436 55.556 28.34 9.34 45.86 4.18
23 24 2.328099 GCACTTGGTCCAAGCCGAG 61.328 63.158 28.34 17.53 44.43 4.63
24 25 2.281484 GCACTTGGTCCAAGCCGA 60.281 61.111 28.34 0.00 44.43 5.54
25 26 2.594303 TGCACTTGGTCCAAGCCG 60.594 61.111 28.34 20.97 44.43 5.52
26 27 2.924105 GCTGCACTTGGTCCAAGCC 61.924 63.158 28.34 20.22 44.43 4.35
27 28 2.647297 GCTGCACTTGGTCCAAGC 59.353 61.111 28.34 18.34 44.43 4.01
28 29 2.620112 CCGCTGCACTTGGTCCAAG 61.620 63.158 27.09 27.09 45.85 3.61
29 30 2.594303 CCGCTGCACTTGGTCCAA 60.594 61.111 3.76 3.76 0.00 3.53
30 31 3.872603 ACCGCTGCACTTGGTCCA 61.873 61.111 0.00 0.00 0.00 4.02
31 32 3.357079 CACCGCTGCACTTGGTCC 61.357 66.667 0.00 0.00 32.48 4.46
32 33 4.030452 GCACCGCTGCACTTGGTC 62.030 66.667 0.00 0.00 43.62 4.02
33 34 4.569180 AGCACCGCTGCACTTGGT 62.569 61.111 5.35 0.00 46.97 3.67
34 35 3.730761 GAGCACCGCTGCACTTGG 61.731 66.667 5.35 0.00 46.97 3.61
35 36 4.081030 CGAGCACCGCTGCACTTG 62.081 66.667 5.35 0.00 46.97 3.16
46 47 2.736579 AAAACCCCGTACCCGAGCAC 62.737 60.000 0.00 0.00 35.63 4.40
47 48 2.453379 GAAAACCCCGTACCCGAGCA 62.453 60.000 0.00 0.00 35.63 4.26
48 49 1.742880 GAAAACCCCGTACCCGAGC 60.743 63.158 0.00 0.00 35.63 5.03
49 50 0.390735 CTGAAAACCCCGTACCCGAG 60.391 60.000 0.00 0.00 35.63 4.63
50 51 0.831288 TCTGAAAACCCCGTACCCGA 60.831 55.000 0.00 0.00 35.63 5.14
51 52 0.671472 GTCTGAAAACCCCGTACCCG 60.671 60.000 0.00 0.00 0.00 5.28
52 53 0.689055 AGTCTGAAAACCCCGTACCC 59.311 55.000 0.00 0.00 0.00 3.69
53 54 1.804601 CAGTCTGAAAACCCCGTACC 58.195 55.000 0.00 0.00 0.00 3.34
54 55 1.154197 GCAGTCTGAAAACCCCGTAC 58.846 55.000 3.32 0.00 0.00 3.67
55 56 0.320073 CGCAGTCTGAAAACCCCGTA 60.320 55.000 3.32 0.00 0.00 4.02
56 57 1.597027 CGCAGTCTGAAAACCCCGT 60.597 57.895 3.32 0.00 0.00 5.28
57 58 2.325082 CCGCAGTCTGAAAACCCCG 61.325 63.158 3.32 0.00 0.00 5.73
58 59 0.955919 CTCCGCAGTCTGAAAACCCC 60.956 60.000 3.32 0.00 0.00 4.95
59 60 1.578206 GCTCCGCAGTCTGAAAACCC 61.578 60.000 3.32 0.00 0.00 4.11
60 61 0.603975 AGCTCCGCAGTCTGAAAACC 60.604 55.000 3.32 0.00 0.00 3.27
61 62 0.514691 CAGCTCCGCAGTCTGAAAAC 59.485 55.000 3.32 0.00 0.00 2.43
62 63 0.392706 TCAGCTCCGCAGTCTGAAAA 59.607 50.000 3.32 0.00 32.89 2.29
63 64 0.037882 CTCAGCTCCGCAGTCTGAAA 60.038 55.000 3.32 0.00 34.43 2.69
64 65 1.588597 CTCAGCTCCGCAGTCTGAA 59.411 57.895 3.32 0.00 34.43 3.02
65 66 2.999485 GCTCAGCTCCGCAGTCTGA 61.999 63.158 3.32 1.45 34.00 3.27
66 67 1.661498 TAGCTCAGCTCCGCAGTCTG 61.661 60.000 0.00 0.00 40.44 3.51
67 68 0.754957 ATAGCTCAGCTCCGCAGTCT 60.755 55.000 0.00 0.00 40.44 3.24
68 69 0.597118 CATAGCTCAGCTCCGCAGTC 60.597 60.000 0.00 0.00 40.44 3.51
69 70 1.440893 CATAGCTCAGCTCCGCAGT 59.559 57.895 0.00 0.00 40.44 4.40
70 71 1.300775 CCATAGCTCAGCTCCGCAG 60.301 63.158 0.00 0.00 40.44 5.18
71 72 2.817424 CCATAGCTCAGCTCCGCA 59.183 61.111 0.00 0.00 40.44 5.69
72 73 2.664518 GCCATAGCTCAGCTCCGC 60.665 66.667 0.00 0.00 40.44 5.54
82 83 1.027357 CCACACCATGAAGCCATAGC 58.973 55.000 0.00 0.00 40.32 2.97
83 84 2.715749 TCCACACCATGAAGCCATAG 57.284 50.000 0.00 0.00 0.00 2.23
84 85 2.509131 TCATCCACACCATGAAGCCATA 59.491 45.455 0.00 0.00 0.00 2.74
85 86 1.285667 TCATCCACACCATGAAGCCAT 59.714 47.619 0.00 0.00 0.00 4.40
86 87 0.697658 TCATCCACACCATGAAGCCA 59.302 50.000 0.00 0.00 0.00 4.75
87 88 1.098050 GTCATCCACACCATGAAGCC 58.902 55.000 0.00 0.00 31.98 4.35
88 89 2.012673 GAGTCATCCACACCATGAAGC 58.987 52.381 0.00 0.00 31.98 3.86
89 90 3.268330 CTGAGTCATCCACACCATGAAG 58.732 50.000 0.00 0.00 31.98 3.02
90 91 2.026915 CCTGAGTCATCCACACCATGAA 60.027 50.000 0.00 0.00 31.98 2.57
91 92 1.556451 CCTGAGTCATCCACACCATGA 59.444 52.381 0.00 0.00 0.00 3.07
92 93 1.407851 CCCTGAGTCATCCACACCATG 60.408 57.143 0.00 0.00 0.00 3.66
93 94 0.914644 CCCTGAGTCATCCACACCAT 59.085 55.000 0.00 0.00 0.00 3.55
94 95 1.841302 GCCCTGAGTCATCCACACCA 61.841 60.000 0.00 0.00 0.00 4.17
95 96 1.078143 GCCCTGAGTCATCCACACC 60.078 63.158 0.00 0.00 0.00 4.16
96 97 0.392193 CTGCCCTGAGTCATCCACAC 60.392 60.000 0.00 0.00 0.00 3.82
97 98 1.556373 CCTGCCCTGAGTCATCCACA 61.556 60.000 0.00 0.00 0.00 4.17
98 99 1.222936 CCTGCCCTGAGTCATCCAC 59.777 63.158 0.00 0.00 0.00 4.02
99 100 0.042581 TACCTGCCCTGAGTCATCCA 59.957 55.000 0.00 0.00 0.00 3.41
100 101 0.466124 GTACCTGCCCTGAGTCATCC 59.534 60.000 0.00 0.00 0.00 3.51
101 102 0.466124 GGTACCTGCCCTGAGTCATC 59.534 60.000 4.06 0.00 0.00 2.92
102 103 0.252696 TGGTACCTGCCCTGAGTCAT 60.253 55.000 14.36 0.00 0.00 3.06
103 104 0.252696 ATGGTACCTGCCCTGAGTCA 60.253 55.000 14.36 0.00 0.00 3.41
104 105 0.179000 CATGGTACCTGCCCTGAGTC 59.821 60.000 14.36 0.00 0.00 3.36
105 106 1.274703 CCATGGTACCTGCCCTGAGT 61.275 60.000 14.36 0.00 0.00 3.41
106 107 1.528824 CCATGGTACCTGCCCTGAG 59.471 63.158 14.36 0.00 0.00 3.35
107 108 2.000701 CCCATGGTACCTGCCCTGA 61.001 63.158 14.36 0.00 0.00 3.86
108 109 2.000701 TCCCATGGTACCTGCCCTG 61.001 63.158 14.36 3.06 0.00 4.45
109 110 2.001269 GTCCCATGGTACCTGCCCT 61.001 63.158 14.36 0.00 0.00 5.19
110 111 2.595655 GTCCCATGGTACCTGCCC 59.404 66.667 14.36 0.00 0.00 5.36
111 112 2.595655 GGTCCCATGGTACCTGCC 59.404 66.667 18.99 3.78 32.72 4.85
112 113 2.189521 CGGTCCCATGGTACCTGC 59.810 66.667 22.94 0.00 33.34 4.85
113 114 2.189521 GCGGTCCCATGGTACCTG 59.810 66.667 22.94 16.97 33.34 4.00
114 115 2.040606 AGCGGTCCCATGGTACCT 59.959 61.111 22.94 3.65 33.34 3.08
115 116 2.504519 GAGCGGTCCCATGGTACC 59.495 66.667 16.48 16.48 0.00 3.34
116 117 2.106332 CGAGCGGTCCCATGGTAC 59.894 66.667 11.73 4.63 0.00 3.34
117 118 3.845259 GCGAGCGGTCCCATGGTA 61.845 66.667 11.73 0.00 0.00 3.25
135 136 1.583495 TACAGACACCGCTCCTGTCG 61.583 60.000 0.00 0.00 42.52 4.35
136 137 0.171455 CTACAGACACCGCTCCTGTC 59.829 60.000 0.00 0.00 41.01 3.51
137 138 1.878656 GCTACAGACACCGCTCCTGT 61.879 60.000 0.00 0.00 42.94 4.00
138 139 1.153745 GCTACAGACACCGCTCCTG 60.154 63.158 0.00 0.00 0.00 3.86
139 140 0.900647 AAGCTACAGACACCGCTCCT 60.901 55.000 0.00 0.00 31.30 3.69
140 141 0.458716 GAAGCTACAGACACCGCTCC 60.459 60.000 0.00 0.00 31.30 4.70
141 142 0.798771 CGAAGCTACAGACACCGCTC 60.799 60.000 0.00 0.00 31.30 5.03
142 143 1.213013 CGAAGCTACAGACACCGCT 59.787 57.895 0.00 0.00 0.00 5.52
143 144 1.805945 CCGAAGCTACAGACACCGC 60.806 63.158 0.00 0.00 0.00 5.68
144 145 1.805945 GCCGAAGCTACAGACACCG 60.806 63.158 0.00 0.00 35.50 4.94
145 146 1.805945 CGCCGAAGCTACAGACACC 60.806 63.158 0.00 0.00 36.60 4.16
146 147 1.080705 ACGCCGAAGCTACAGACAC 60.081 57.895 0.00 0.00 36.60 3.67
147 148 1.080772 CACGCCGAAGCTACAGACA 60.081 57.895 0.00 0.00 36.60 3.41
148 149 2.445438 GCACGCCGAAGCTACAGAC 61.445 63.158 0.00 0.00 36.60 3.51
149 150 2.126071 GCACGCCGAAGCTACAGA 60.126 61.111 0.00 0.00 36.60 3.41
150 151 1.687494 GAAGCACGCCGAAGCTACAG 61.687 60.000 8.97 0.00 40.90 2.74
151 152 1.736645 GAAGCACGCCGAAGCTACA 60.737 57.895 8.97 0.00 40.90 2.74
152 153 1.289109 TTGAAGCACGCCGAAGCTAC 61.289 55.000 8.97 0.00 40.90 3.58
153 154 1.005512 TTGAAGCACGCCGAAGCTA 60.006 52.632 8.97 0.00 40.90 3.32
154 155 2.280797 TTGAAGCACGCCGAAGCT 60.281 55.556 3.20 3.20 44.31 3.74
155 156 2.174349 CTTGAAGCACGCCGAAGC 59.826 61.111 0.00 0.00 0.00 3.86
156 157 0.946221 ACTCTTGAAGCACGCCGAAG 60.946 55.000 0.00 0.00 0.00 3.79
157 158 1.069090 ACTCTTGAAGCACGCCGAA 59.931 52.632 0.00 0.00 0.00 4.30
158 159 1.664649 CACTCTTGAAGCACGCCGA 60.665 57.895 0.00 0.00 0.00 5.54
159 160 2.671177 CCACTCTTGAAGCACGCCG 61.671 63.158 0.00 0.00 0.00 6.46
160 161 1.301716 TCCACTCTTGAAGCACGCC 60.302 57.895 0.00 0.00 0.00 5.68
161 162 1.569479 GGTCCACTCTTGAAGCACGC 61.569 60.000 0.00 0.00 0.00 5.34
162 163 0.034059 AGGTCCACTCTTGAAGCACG 59.966 55.000 0.00 0.00 0.00 5.34
163 164 1.517242 CAGGTCCACTCTTGAAGCAC 58.483 55.000 0.00 0.00 0.00 4.40
164 165 0.397941 CCAGGTCCACTCTTGAAGCA 59.602 55.000 0.00 0.00 0.00 3.91
165 166 0.687354 TCCAGGTCCACTCTTGAAGC 59.313 55.000 0.00 0.00 0.00 3.86
166 167 2.028567 GTCTCCAGGTCCACTCTTGAAG 60.029 54.545 0.00 0.00 0.00 3.02
167 168 1.971357 GTCTCCAGGTCCACTCTTGAA 59.029 52.381 0.00 0.00 0.00 2.69
168 169 1.148027 AGTCTCCAGGTCCACTCTTGA 59.852 52.381 0.00 0.00 0.00 3.02
169 170 1.638529 AGTCTCCAGGTCCACTCTTG 58.361 55.000 0.00 0.00 0.00 3.02
170 171 1.974236 CAAGTCTCCAGGTCCACTCTT 59.026 52.381 0.00 0.00 0.00 2.85
171 172 1.638529 CAAGTCTCCAGGTCCACTCT 58.361 55.000 0.00 0.00 0.00 3.24
172 173 0.610687 CCAAGTCTCCAGGTCCACTC 59.389 60.000 0.00 0.00 0.00 3.51
173 174 0.838122 CCCAAGTCTCCAGGTCCACT 60.838 60.000 0.00 0.00 0.00 4.00
174 175 1.679898 CCCAAGTCTCCAGGTCCAC 59.320 63.158 0.00 0.00 0.00 4.02
175 176 2.224159 GCCCAAGTCTCCAGGTCCA 61.224 63.158 0.00 0.00 0.00 4.02
176 177 2.671682 GCCCAAGTCTCCAGGTCC 59.328 66.667 0.00 0.00 0.00 4.46
177 178 2.266055 CGCCCAAGTCTCCAGGTC 59.734 66.667 0.00 0.00 0.00 3.85
178 179 2.526873 ACGCCCAAGTCTCCAGGT 60.527 61.111 0.00 0.00 0.00 4.00
179 180 2.266055 GACGCCCAAGTCTCCAGG 59.734 66.667 0.00 0.00 38.09 4.45
185 186 2.882324 CTAGAAGAAGACGCCCAAGTC 58.118 52.381 0.00 0.00 41.23 3.01
186 187 1.066787 GCTAGAAGAAGACGCCCAAGT 60.067 52.381 0.00 0.00 0.00 3.16
187 188 1.066858 TGCTAGAAGAAGACGCCCAAG 60.067 52.381 0.00 0.00 0.00 3.61
188 189 0.973632 TGCTAGAAGAAGACGCCCAA 59.026 50.000 0.00 0.00 0.00 4.12
189 190 0.532573 CTGCTAGAAGAAGACGCCCA 59.467 55.000 0.00 0.00 0.00 5.36
190 191 0.818296 TCTGCTAGAAGAAGACGCCC 59.182 55.000 0.00 0.00 0.00 6.13
191 192 1.915952 GTCTGCTAGAAGAAGACGCC 58.084 55.000 0.56 0.00 40.81 5.68
205 206 3.797546 GCAGCCGAAGCAGTCTGC 61.798 66.667 17.48 17.48 45.46 4.26
206 207 0.460811 TATGCAGCCGAAGCAGTCTG 60.461 55.000 0.00 0.00 46.36 3.51
207 208 0.467384 ATATGCAGCCGAAGCAGTCT 59.533 50.000 0.00 0.00 46.36 3.24
208 209 0.585357 CATATGCAGCCGAAGCAGTC 59.415 55.000 0.00 0.00 46.36 3.51
209 210 1.442526 GCATATGCAGCCGAAGCAGT 61.443 55.000 22.84 0.00 46.36 4.40
210 211 1.281960 GCATATGCAGCCGAAGCAG 59.718 57.895 22.84 0.00 46.36 4.24
212 213 2.641559 GGCATATGCAGCCGAAGC 59.358 61.111 28.07 5.34 43.15 3.86
218 219 0.538977 ACCCTCATGGCATATGCAGC 60.539 55.000 28.07 13.03 44.36 5.25
219 220 1.244816 CACCCTCATGGCATATGCAG 58.755 55.000 28.07 16.54 44.36 4.41
220 221 0.552363 ACACCCTCATGGCATATGCA 59.448 50.000 28.07 15.05 44.36 3.96
221 222 1.696063 AACACCCTCATGGCATATGC 58.304 50.000 19.79 19.79 37.83 3.14
222 223 5.451798 GGTTAAAACACCCTCATGGCATATG 60.452 44.000 0.00 0.00 37.83 1.78
223 224 4.649218 GGTTAAAACACCCTCATGGCATAT 59.351 41.667 0.00 0.00 37.83 1.78
224 225 4.020543 GGTTAAAACACCCTCATGGCATA 58.979 43.478 0.00 0.00 37.83 3.14
225 226 2.831526 GGTTAAAACACCCTCATGGCAT 59.168 45.455 0.00 0.00 37.83 4.40
226 227 2.243810 GGTTAAAACACCCTCATGGCA 58.756 47.619 0.00 0.00 37.83 4.92
235 236 7.026631 ACTACGTAAAAAGGGTTAAAACACC 57.973 36.000 0.00 0.00 35.88 4.16
243 244 5.471116 CCTGCTAAACTACGTAAAAAGGGTT 59.529 40.000 0.00 0.00 0.00 4.11
367 372 1.163554 GACTGTCGACGGAACCTACT 58.836 55.000 30.55 6.23 0.00 2.57
595 612 2.513738 CAACCAATGGAGGGGGATCTAA 59.486 50.000 6.16 0.00 0.00 2.10
613 630 3.181520 CGATCCACCGAACAAATCTCAAC 60.182 47.826 0.00 0.00 0.00 3.18
643 660 0.620556 AGGTACCTTGGGTGATGCAG 59.379 55.000 9.21 0.00 36.19 4.41
676 694 0.757561 AACCAACCAAACGAAGGGGG 60.758 55.000 0.00 0.00 0.00 5.40
677 695 0.387565 CAACCAACCAAACGAAGGGG 59.612 55.000 0.00 0.00 0.00 4.79
678 696 1.394618 TCAACCAACCAAACGAAGGG 58.605 50.000 0.00 0.00 0.00 3.95
679 697 4.457603 TGATATCAACCAACCAAACGAAGG 59.542 41.667 1.98 0.00 0.00 3.46
680 698 5.621197 TGATATCAACCAACCAAACGAAG 57.379 39.130 1.98 0.00 0.00 3.79
684 702 7.865706 AGTAGATGATATCAACCAACCAAAC 57.134 36.000 9.99 0.00 0.00 2.93
731 750 7.691993 AATTATAGGAAGAACTAGGGCTTGA 57.308 36.000 4.34 0.00 0.00 3.02
928 1002 1.478654 GGACCGGCCATTTCATATGGT 60.479 52.381 0.00 0.00 41.17 3.55
1000 1074 2.101249 CCGCCTTGTCCAAATAATGCAT 59.899 45.455 0.00 0.00 0.00 3.96
1026 1100 2.507484 TCATCGGCATTTCCATCCATC 58.493 47.619 0.00 0.00 34.01 3.51
1076 1151 6.875726 CACGACAATATCATCATATCTTGGGT 59.124 38.462 0.00 0.00 0.00 4.51
1083 1158 9.201127 CTCACTTTCACGACAATATCATCATAT 57.799 33.333 0.00 0.00 0.00 1.78
1133 1209 6.432783 CCCAATAAGTTTCACACCATCACTTA 59.567 38.462 0.00 0.00 35.09 2.24
1149 1225 6.339220 TCCCATATCATACCTCCCAATAAGT 58.661 40.000 0.00 0.00 0.00 2.24
1289 1365 2.567615 AGTAGCCGAGGAACTTCAACAT 59.432 45.455 0.00 0.00 41.55 2.71
1290 1366 1.968493 AGTAGCCGAGGAACTTCAACA 59.032 47.619 0.00 0.00 41.55 3.33
1433 1518 4.576216 TGATCATCGCCTAGAAGAACTC 57.424 45.455 0.00 0.00 29.73 3.01
1446 1531 4.391216 GCCTTATCTCCAACATGATCATCG 59.609 45.833 4.86 4.49 0.00 3.84
1465 1550 1.985473 TCAACATGAGCAACAGCCTT 58.015 45.000 0.00 0.00 0.00 4.35
1580 1665 5.278709 CGTAGTCCTAGCAGACATCATCAAT 60.279 44.000 4.64 0.00 39.34 2.57
1679 1765 3.952323 TGGTTCTCCTACTGGTTCGATAG 59.048 47.826 0.00 0.00 34.23 2.08
1958 2048 1.926489 TGAAACCTACGGGCCCCAT 60.926 57.895 18.66 7.44 35.63 4.00
1964 2054 1.405121 GCCACTAGTGAAACCTACGGG 60.405 57.143 24.68 4.31 37.80 5.28
2091 2182 4.142534 CGGTCTACTAATCTTGGACGTGAA 60.143 45.833 0.00 0.00 0.00 3.18
2177 2268 6.652062 ACTCCGTTTTTCCGTGAACTTAATAT 59.348 34.615 0.00 0.00 0.00 1.28
2189 2280 3.546002 TTGCATTACTCCGTTTTTCCG 57.454 42.857 0.00 0.00 0.00 4.30
2313 2404 3.557898 GCTTGATCCCAGTGACAGAAAGA 60.558 47.826 0.00 0.00 0.00 2.52
2550 2641 9.566432 GAGATCCATATGATGTAAGTCCTTTTT 57.434 33.333 3.65 0.00 32.41 1.94


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

AutoCloner maintained by Alex Coulton.