Multiple sequence alignment - TraesCS4A01G479200

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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 TraesCS4A01G479200 chr4A 100.000 3584 0 0 1 3584 736139647 736143230 0.000000e+00 6619
1 TraesCS4A01G479200 chr4A 90.850 2612 207 13 978 3581 736802939 736805526 0.000000e+00 3470
2 TraesCS4A01G479200 chr4A 86.043 2780 350 21 815 3581 734576360 734579114 0.000000e+00 2950
3 TraesCS4A01G479200 chr4A 85.458 2785 369 19 805 3581 736868354 736871110 0.000000e+00 2867
4 TraesCS4A01G479200 chr4A 90.503 2148 166 13 1441 3584 736459207 736457094 0.000000e+00 2802
5 TraesCS4A01G479200 chr4A 94.080 1419 79 5 1980 3397 736790563 736791977 0.000000e+00 2150
6 TraesCS4A01G479200 chr4A 89.898 1574 131 8 242 1797 736770424 736771987 0.000000e+00 2001
7 TraesCS4A01G479200 chr4A 84.717 1361 197 7 802 2158 735758986 735760339 0.000000e+00 1351
8 TraesCS4A01G479200 chr7D 91.941 2792 202 10 802 3584 5657285 5654508 0.000000e+00 3888
9 TraesCS4A01G479200 chr7D 89.647 2608 259 6 979 3584 575928500 575925902 0.000000e+00 3310
10 TraesCS4A01G479200 chr7D 86.869 198 23 3 330 526 575928842 575928647 6.020000e-53 219
11 TraesCS4A01G479200 chr7A 88.285 2612 266 18 979 3584 666797904 666795327 0.000000e+00 3092
12 TraesCS4A01G479200 chr5B 84.129 2722 376 32 885 3581 98510840 98513530 0.000000e+00 2582
13 TraesCS4A01G479200 chr2D 82.209 163 24 4 330 488 637641597 637641436 6.240000e-28 135
14 TraesCS4A01G479200 chr2B 81.707 164 23 6 330 488 795055723 795055562 2.900000e-26 130


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 TraesCS4A01G479200 chr4A 736139647 736143230 3583 False 6619.0 6619 100.000 1 3584 1 chr4A.!!$F3 3583
1 TraesCS4A01G479200 chr4A 736802939 736805526 2587 False 3470.0 3470 90.850 978 3581 1 chr4A.!!$F6 2603
2 TraesCS4A01G479200 chr4A 734576360 734579114 2754 False 2950.0 2950 86.043 815 3581 1 chr4A.!!$F1 2766
3 TraesCS4A01G479200 chr4A 736868354 736871110 2756 False 2867.0 2867 85.458 805 3581 1 chr4A.!!$F7 2776
4 TraesCS4A01G479200 chr4A 736457094 736459207 2113 True 2802.0 2802 90.503 1441 3584 1 chr4A.!!$R1 2143
5 TraesCS4A01G479200 chr4A 736790563 736791977 1414 False 2150.0 2150 94.080 1980 3397 1 chr4A.!!$F5 1417
6 TraesCS4A01G479200 chr4A 736770424 736771987 1563 False 2001.0 2001 89.898 242 1797 1 chr4A.!!$F4 1555
7 TraesCS4A01G479200 chr4A 735758986 735760339 1353 False 1351.0 1351 84.717 802 2158 1 chr4A.!!$F2 1356
8 TraesCS4A01G479200 chr7D 5654508 5657285 2777 True 3888.0 3888 91.941 802 3584 1 chr7D.!!$R1 2782
9 TraesCS4A01G479200 chr7D 575925902 575928842 2940 True 1764.5 3310 88.258 330 3584 2 chr7D.!!$R2 3254
10 TraesCS4A01G479200 chr7A 666795327 666797904 2577 True 3092.0 3092 88.285 979 3584 1 chr7A.!!$R1 2605
11 TraesCS4A01G479200 chr5B 98510840 98513530 2690 False 2582.0 2582 84.129 885 3581 1 chr5B.!!$F1 2696

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
185 186 0.036875 GCTGGTAGCACCTGAAACCT 59.963 55.0 13.67 0.0 41.89 3.50 F
469 472 0.178068 ACTACATGGCACGGGACATC 59.822 55.0 0.74 0.0 38.93 3.06 F
606 609 0.773644 ACTCCACCTTGCTCAACCAT 59.226 50.0 0.00 0.0 0.00 3.55 F
1761 1811 0.034089 AAGGCCCTTTTCCTCCATCG 60.034 55.0 0.00 0.0 32.45 3.84 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1380 1430 1.144936 GCCTGGGATCTCACCTTCG 59.855 63.158 0.00 0.00 0.00 3.79 R
1404 1454 1.317613 GAAGTGATGCACAACCACCA 58.682 50.000 0.00 0.00 36.74 4.17 R
1797 1847 1.407258 CCGGAAAACTTGTTGAAGGCA 59.593 47.619 0.00 0.00 32.95 4.75 R
3446 3534 0.040058 TGGAGTTTGGATGCAGCCAT 59.960 50.000 26.87 10.49 37.86 4.40 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
20 21 3.619233 CGACTGGTAACCAAAACCTTG 57.381 47.619 0.00 0.00 37.91 3.61
21 22 3.207778 CGACTGGTAACCAAAACCTTGA 58.792 45.455 0.00 0.00 37.91 3.02
22 23 3.002965 CGACTGGTAACCAAAACCTTGAC 59.997 47.826 0.00 0.00 37.91 3.18
23 24 2.946990 ACTGGTAACCAAAACCTTGACG 59.053 45.455 0.00 0.00 37.91 4.35
24 25 2.946990 CTGGTAACCAAAACCTTGACGT 59.053 45.455 0.00 0.00 37.91 4.34
25 26 2.944349 TGGTAACCAAAACCTTGACGTC 59.056 45.455 9.11 9.11 37.91 4.34
26 27 2.944349 GGTAACCAAAACCTTGACGTCA 59.056 45.455 15.76 15.76 34.14 4.35
27 28 3.377798 GGTAACCAAAACCTTGACGTCAA 59.622 43.478 28.07 28.07 34.14 3.18
28 29 3.497297 AACCAAAACCTTGACGTCAAC 57.503 42.857 26.53 0.00 34.14 3.18
29 30 1.746787 ACCAAAACCTTGACGTCAACC 59.253 47.619 26.53 0.00 34.14 3.77
30 31 1.268335 CCAAAACCTTGACGTCAACCG 60.268 52.381 26.53 20.32 44.03 4.44
31 32 1.666700 CAAAACCTTGACGTCAACCGA 59.333 47.619 26.53 7.21 40.70 4.69
32 33 1.292992 AAACCTTGACGTCAACCGAC 58.707 50.000 26.53 0.00 40.70 4.79
46 47 2.176055 CGACGACGGTGGTCAGAG 59.824 66.667 20.71 3.67 43.61 3.35
47 48 2.567049 GACGACGGTGGTCAGAGG 59.433 66.667 16.97 0.00 43.61 3.69
48 49 2.203451 ACGACGGTGGTCAGAGGT 60.203 61.111 0.00 0.00 43.61 3.85
49 50 2.197643 GACGACGGTGGTCAGAGGTC 62.198 65.000 16.97 0.00 43.61 3.85
50 51 2.971452 GACGGTGGTCAGAGGTCC 59.029 66.667 0.00 0.00 42.91 4.46
51 52 1.606889 GACGGTGGTCAGAGGTCCT 60.607 63.158 0.00 0.00 42.91 3.85
52 53 1.596895 GACGGTGGTCAGAGGTCCTC 61.597 65.000 11.31 11.31 42.91 3.71
53 54 2.701780 CGGTGGTCAGAGGTCCTCG 61.702 68.421 13.41 8.60 35.36 4.63
54 55 2.574399 GTGGTCAGAGGTCCTCGC 59.426 66.667 13.41 7.77 35.36 5.03
55 56 3.062466 TGGTCAGAGGTCCTCGCG 61.062 66.667 13.41 0.00 35.36 5.87
56 57 3.827898 GGTCAGAGGTCCTCGCGG 61.828 72.222 13.41 7.49 35.36 6.46
57 58 4.500116 GTCAGAGGTCCTCGCGGC 62.500 72.222 13.41 6.72 35.36 6.53
111 112 4.408821 GGTGGCATGCCCGTCTCA 62.409 66.667 33.44 11.50 35.87 3.27
112 113 3.127533 GTGGCATGCCCGTCTCAC 61.128 66.667 33.44 19.78 35.87 3.51
113 114 3.635191 TGGCATGCCCGTCTCACA 61.635 61.111 33.44 9.85 35.87 3.58
114 115 2.124570 GGCATGCCCGTCTCACAT 60.125 61.111 27.24 0.00 0.00 3.21
115 116 2.182842 GGCATGCCCGTCTCACATC 61.183 63.158 27.24 0.00 0.00 3.06
116 117 2.528743 GCATGCCCGTCTCACATCG 61.529 63.158 6.36 0.00 0.00 3.84
117 118 1.884464 CATGCCCGTCTCACATCGG 60.884 63.158 0.00 0.00 45.42 4.18
128 129 1.153978 CACATCGGGTGCACATTGC 60.154 57.895 20.43 0.00 45.29 3.56
137 138 3.364441 GCACATTGCGAGCCACCA 61.364 61.111 0.00 0.00 31.71 4.17
138 139 2.703798 GCACATTGCGAGCCACCAT 61.704 57.895 0.00 0.00 31.71 3.55
139 140 1.885157 CACATTGCGAGCCACCATT 59.115 52.632 0.00 0.00 0.00 3.16
140 141 1.093972 CACATTGCGAGCCACCATTA 58.906 50.000 0.00 0.00 0.00 1.90
141 142 1.472082 CACATTGCGAGCCACCATTAA 59.528 47.619 0.00 0.00 0.00 1.40
142 143 2.099592 CACATTGCGAGCCACCATTAAT 59.900 45.455 0.00 0.00 0.00 1.40
143 144 2.760092 ACATTGCGAGCCACCATTAATT 59.240 40.909 0.00 0.00 0.00 1.40
144 145 3.195396 ACATTGCGAGCCACCATTAATTT 59.805 39.130 0.00 0.00 0.00 1.82
145 146 2.937469 TGCGAGCCACCATTAATTTG 57.063 45.000 0.00 0.00 0.00 2.32
146 147 2.441410 TGCGAGCCACCATTAATTTGA 58.559 42.857 0.00 0.00 0.00 2.69
147 148 2.423185 TGCGAGCCACCATTAATTTGAG 59.577 45.455 0.00 0.00 0.00 3.02
148 149 2.796032 GCGAGCCACCATTAATTTGAGC 60.796 50.000 0.00 0.00 0.00 4.26
149 150 2.223572 CGAGCCACCATTAATTTGAGCC 60.224 50.000 0.00 0.00 0.00 4.70
150 151 3.026694 GAGCCACCATTAATTTGAGCCT 58.973 45.455 0.00 0.00 0.00 4.58
151 152 3.026694 AGCCACCATTAATTTGAGCCTC 58.973 45.455 0.00 0.00 0.00 4.70
152 153 3.026694 GCCACCATTAATTTGAGCCTCT 58.973 45.455 0.00 0.00 0.00 3.69
153 154 3.181483 GCCACCATTAATTTGAGCCTCTG 60.181 47.826 0.00 0.00 0.00 3.35
154 155 4.019174 CCACCATTAATTTGAGCCTCTGT 58.981 43.478 0.00 0.00 0.00 3.41
155 156 4.142315 CCACCATTAATTTGAGCCTCTGTG 60.142 45.833 0.00 0.00 0.00 3.66
156 157 3.445096 ACCATTAATTTGAGCCTCTGTGC 59.555 43.478 0.00 0.00 0.00 4.57
157 158 3.488047 CCATTAATTTGAGCCTCTGTGCG 60.488 47.826 0.00 0.00 36.02 5.34
158 159 2.760634 TAATTTGAGCCTCTGTGCGA 57.239 45.000 0.00 0.00 36.02 5.10
159 160 1.446907 AATTTGAGCCTCTGTGCGAG 58.553 50.000 0.00 0.00 39.57 5.03
160 161 0.610174 ATTTGAGCCTCTGTGCGAGA 59.390 50.000 0.00 0.00 42.62 4.04
161 162 0.392706 TTTGAGCCTCTGTGCGAGAA 59.607 50.000 0.00 0.00 42.62 2.87
162 163 0.319900 TTGAGCCTCTGTGCGAGAAC 60.320 55.000 0.00 0.00 42.62 3.01
163 164 1.803519 GAGCCTCTGTGCGAGAACG 60.804 63.158 0.00 0.00 42.62 3.95
173 174 2.579787 CGAGAACGCCGCTGGTAG 60.580 66.667 0.00 0.00 0.00 3.18
174 175 2.886124 GAGAACGCCGCTGGTAGC 60.886 66.667 0.00 0.00 38.02 3.58
175 176 3.642778 GAGAACGCCGCTGGTAGCA 62.643 63.158 1.45 0.00 42.58 3.49
176 177 3.488090 GAACGCCGCTGGTAGCAC 61.488 66.667 1.45 0.00 42.58 4.40
180 181 4.082523 GCCGCTGGTAGCACCTGA 62.083 66.667 13.67 0.00 42.58 3.86
181 182 2.662596 CCGCTGGTAGCACCTGAA 59.337 61.111 13.67 0.00 42.58 3.02
182 183 1.003839 CCGCTGGTAGCACCTGAAA 60.004 57.895 13.67 0.00 42.58 2.69
183 184 1.298859 CCGCTGGTAGCACCTGAAAC 61.299 60.000 13.67 0.00 42.58 2.78
184 185 1.298859 CGCTGGTAGCACCTGAAACC 61.299 60.000 13.67 0.00 42.58 3.27
185 186 0.036875 GCTGGTAGCACCTGAAACCT 59.963 55.000 13.67 0.00 41.89 3.50
186 187 1.813513 CTGGTAGCACCTGAAACCTG 58.186 55.000 6.83 0.00 39.29 4.00
187 188 1.347707 CTGGTAGCACCTGAAACCTGA 59.652 52.381 6.83 0.00 39.29 3.86
188 189 1.771854 TGGTAGCACCTGAAACCTGAA 59.228 47.619 6.83 0.00 39.58 3.02
189 190 2.224523 TGGTAGCACCTGAAACCTGAAG 60.225 50.000 6.83 0.00 39.58 3.02
190 191 2.427506 GTAGCACCTGAAACCTGAAGG 58.572 52.381 0.00 0.00 42.17 3.46
191 192 5.393129 GGTAGCACCTGAAACCTGAAGGT 62.393 52.174 0.00 0.00 45.32 3.50
202 203 2.205022 CCTGAAGGTTCCAGATTGCA 57.795 50.000 0.00 0.00 33.65 4.08
203 204 2.517959 CCTGAAGGTTCCAGATTGCAA 58.482 47.619 0.00 0.00 33.65 4.08
204 205 2.892852 CCTGAAGGTTCCAGATTGCAAA 59.107 45.455 1.71 0.00 33.65 3.68
205 206 3.057033 CCTGAAGGTTCCAGATTGCAAAG 60.057 47.826 1.71 0.00 33.65 2.77
206 207 2.297033 TGAAGGTTCCAGATTGCAAAGC 59.703 45.455 1.71 0.00 0.00 3.51
207 208 1.260544 AGGTTCCAGATTGCAAAGCC 58.739 50.000 1.71 0.00 27.83 4.35
208 209 1.203100 AGGTTCCAGATTGCAAAGCCT 60.203 47.619 1.71 0.00 27.83 4.58
209 210 1.620323 GGTTCCAGATTGCAAAGCCTT 59.380 47.619 1.71 0.00 27.83 4.35
210 211 2.611224 GGTTCCAGATTGCAAAGCCTTG 60.611 50.000 1.71 0.00 27.83 3.61
211 212 2.291209 TCCAGATTGCAAAGCCTTGA 57.709 45.000 1.71 0.00 34.14 3.02
212 213 2.811410 TCCAGATTGCAAAGCCTTGAT 58.189 42.857 1.71 0.00 34.14 2.57
213 214 3.167485 TCCAGATTGCAAAGCCTTGATT 58.833 40.909 1.71 0.00 34.14 2.57
214 215 3.579586 TCCAGATTGCAAAGCCTTGATTT 59.420 39.130 1.71 0.00 34.14 2.17
215 216 3.930848 CCAGATTGCAAAGCCTTGATTTC 59.069 43.478 1.71 0.00 34.14 2.17
216 217 4.561938 CCAGATTGCAAAGCCTTGATTTCA 60.562 41.667 1.71 0.00 34.14 2.69
217 218 4.625742 CAGATTGCAAAGCCTTGATTTCAG 59.374 41.667 1.71 0.00 34.14 3.02
218 219 4.525487 AGATTGCAAAGCCTTGATTTCAGA 59.475 37.500 1.71 0.00 34.14 3.27
219 220 3.928727 TGCAAAGCCTTGATTTCAGAG 57.071 42.857 0.00 0.00 34.14 3.35
220 221 3.489355 TGCAAAGCCTTGATTTCAGAGA 58.511 40.909 0.00 0.00 34.14 3.10
221 222 4.084287 TGCAAAGCCTTGATTTCAGAGAT 58.916 39.130 0.00 0.00 34.14 2.75
222 223 4.525487 TGCAAAGCCTTGATTTCAGAGATT 59.475 37.500 0.00 0.00 34.14 2.40
223 224 5.711506 TGCAAAGCCTTGATTTCAGAGATTA 59.288 36.000 0.00 0.00 34.14 1.75
224 225 6.379133 TGCAAAGCCTTGATTTCAGAGATTAT 59.621 34.615 0.00 0.00 34.14 1.28
225 226 7.093640 TGCAAAGCCTTGATTTCAGAGATTATT 60.094 33.333 0.00 0.00 34.14 1.40
226 227 7.763071 GCAAAGCCTTGATTTCAGAGATTATTT 59.237 33.333 0.00 0.00 34.14 1.40
227 228 9.649167 CAAAGCCTTGATTTCAGAGATTATTTT 57.351 29.630 0.00 0.00 34.14 1.82
229 230 9.866798 AAGCCTTGATTTCAGAGATTATTTTTC 57.133 29.630 0.00 0.00 0.00 2.29
230 231 9.028284 AGCCTTGATTTCAGAGATTATTTTTCA 57.972 29.630 0.00 0.00 0.00 2.69
231 232 9.813446 GCCTTGATTTCAGAGATTATTTTTCAT 57.187 29.630 0.00 0.00 0.00 2.57
258 259 4.219115 TCCTACATCCAGTTCTGATCTCC 58.781 47.826 1.00 0.00 0.00 3.71
286 288 5.505173 TCGGTAACTATAAGTTTCCTCCG 57.495 43.478 11.97 12.94 41.69 4.63
305 307 4.282496 TCCGCCATTATGGTTTGGTTTAT 58.718 39.130 13.28 0.00 40.46 1.40
338 340 3.023119 AGGTGACTTTTGTGATTGTGCA 58.977 40.909 0.00 0.00 37.44 4.57
341 343 3.240401 GTGACTTTTGTGATTGTGCAACG 59.760 43.478 0.00 0.00 42.39 4.10
361 363 6.345723 GCAACGTGAACATAAAATTCCAACTG 60.346 38.462 0.00 0.00 0.00 3.16
419 421 8.240682 CCGTTTCTTGTAACATCATTGGAATAA 58.759 33.333 0.00 0.00 0.00 1.40
462 465 0.447801 GCCTTCAACTACATGGCACG 59.552 55.000 0.00 0.00 42.79 5.34
469 472 0.178068 ACTACATGGCACGGGACATC 59.822 55.000 0.74 0.00 38.93 3.06
473 476 3.620419 ATGGCACGGGACATCGCAA 62.620 57.895 0.00 0.00 38.93 4.85
497 500 9.956720 CAATAGTCATTTTCACACTCTCTTTTT 57.043 29.630 0.00 0.00 0.00 1.94
596 599 9.347240 CAAGAATATGATAATCAACTCCACCTT 57.653 33.333 0.00 0.00 0.00 3.50
606 609 0.773644 ACTCCACCTTGCTCAACCAT 59.226 50.000 0.00 0.00 0.00 3.55
628 631 7.339721 ACCATGAGTTAAGAGATCTTCGAGTTA 59.660 37.037 0.00 0.00 37.40 2.24
634 637 8.365647 AGTTAAGAGATCTTCGAGTTAAAACCA 58.634 33.333 0.00 0.00 37.40 3.67
635 638 8.433893 GTTAAGAGATCTTCGAGTTAAAACCAC 58.566 37.037 0.00 0.00 37.40 4.16
676 679 6.716934 ATCTACGGAGATGTGTGTAAGATT 57.283 37.500 10.05 0.00 41.12 2.40
687 690 4.924462 TGTGTGTAAGATTCGCGTGAATTA 59.076 37.500 24.00 12.37 44.79 1.40
689 692 4.327898 TGTGTAAGATTCGCGTGAATTACC 59.672 41.667 24.00 16.57 44.79 2.85
705 708 8.975439 CGTGAATTACCTGTATTTACATAGACC 58.025 37.037 0.00 0.00 35.36 3.85
743 746 4.082300 TGAACACAAACTGCAACAATCTGT 60.082 37.500 0.00 0.00 0.00 3.41
744 747 3.772932 ACACAAACTGCAACAATCTGTG 58.227 40.909 8.58 8.58 38.85 3.66
750 753 2.292569 ACTGCAACAATCTGTGCAAGAG 59.707 45.455 0.00 0.00 38.67 2.85
764 767 3.447586 GTGCAAGAGATGGTACCTGTAGA 59.552 47.826 14.36 0.00 0.00 2.59
771 774 7.589958 AGAGATGGTACCTGTAGATAAACAG 57.410 40.000 14.36 0.00 45.33 3.16
775 778 9.263446 AGATGGTACCTGTAGATAAACAGTAAA 57.737 33.333 14.36 0.00 44.45 2.01
782 785 8.603304 ACCTGTAGATAAACAGTAAATGGTTCT 58.397 33.333 3.56 0.00 44.45 3.01
864 871 1.171308 ATGAATGAAAGCAGCGCTGT 58.829 45.000 35.80 21.13 39.62 4.40
940 951 7.410800 TTGTCTATTTAACAACCTACACACG 57.589 36.000 0.00 0.00 31.90 4.49
1042 1086 4.472470 TCATGGTCCATCTTCTCACTCATT 59.528 41.667 0.00 0.00 0.00 2.57
1043 1087 5.662657 TCATGGTCCATCTTCTCACTCATTA 59.337 40.000 0.00 0.00 0.00 1.90
1156 1204 2.028476 TCGTTCATAACCAGTGACCCTG 60.028 50.000 0.00 0.00 41.15 4.45
1179 1227 1.003233 GGCACTGTCCTCTTGGTCC 60.003 63.158 0.00 0.00 34.23 4.46
1213 1261 3.172099 AACGACACGAGCACGACGA 62.172 57.895 21.32 0.00 42.66 4.20
1363 1413 1.982395 CACCTCCGTGCCCTCAGTA 60.982 63.158 0.00 0.00 32.04 2.74
1380 1430 5.335191 CCTCAGTATTTCAGCCAACAACTTC 60.335 44.000 0.00 0.00 0.00 3.01
1404 1454 1.617536 TGAGATCCCAGGCAGCCTT 60.618 57.895 12.86 0.00 0.00 4.35
1568 1618 0.842030 TCCAACCTCACAGCCCTCAT 60.842 55.000 0.00 0.00 0.00 2.90
1699 1749 4.806952 ATCTCTCCAGCTCTAGGTAAGT 57.193 45.455 0.00 0.00 0.00 2.24
1712 1762 6.314152 GCTCTAGGTAAGTTGGACAATCTTTC 59.686 42.308 0.00 2.43 0.00 2.62
1761 1811 0.034089 AAGGCCCTTTTCCTCCATCG 60.034 55.000 0.00 0.00 32.45 3.84
1797 1847 6.065976 TCCTCCATCACATACTTCAACATT 57.934 37.500 0.00 0.00 0.00 2.71
1799 1849 5.449588 CCTCCATCACATACTTCAACATTGC 60.450 44.000 0.00 0.00 0.00 3.56
1807 1857 5.301551 ACATACTTCAACATTGCCTTCAACA 59.698 36.000 0.00 0.00 34.60 3.33
1815 1865 4.441792 ACATTGCCTTCAACAAGTTTTCC 58.558 39.130 0.00 0.00 34.60 3.13
1924 1980 0.379669 CTCCCTGTCAAATGCATCGC 59.620 55.000 0.00 0.00 0.00 4.58
2066 2122 3.134804 CCTAGTGATTGGGATTTCCTCGT 59.865 47.826 0.00 0.00 36.20 4.18
2186 2242 5.248477 AGCTCAACTGGATTTCACTAGGTAA 59.752 40.000 0.00 0.00 0.00 2.85
2206 2263 6.042322 AGGTAAAAACAAAATAACTGGGACCC 59.958 38.462 2.45 2.45 0.00 4.46
2297 2354 3.294214 CTTTGCCTCTTGATATTGGCCT 58.706 45.455 3.32 0.00 44.32 5.19
2485 2542 3.260884 TGATCTTTCCGCTAACTCCTTGT 59.739 43.478 0.00 0.00 0.00 3.16
2621 2679 3.660501 AGCGCAATCGACCTATCAATA 57.339 42.857 11.47 0.00 38.10 1.90
2756 2815 1.157585 GAGGCCTCGAAAAGTTGGAC 58.842 55.000 19.06 0.00 0.00 4.02
2971 3056 7.275920 CCTTCATGCCCATATATAGGTTCTAC 58.724 42.308 0.00 0.00 0.00 2.59
2973 3058 6.268414 TCATGCCCATATATAGGTTCTACCA 58.732 40.000 0.00 0.00 41.95 3.25
3077 3165 8.341173 GGATGCTACTTAATGAAGACAAGAATG 58.659 37.037 0.00 0.00 36.45 2.67
3140 3228 4.987408 AGAGATGCATGAGAGGATATCG 57.013 45.455 2.46 0.00 33.52 2.92
3270 3358 8.512138 GTTTATGTACTGTAGCAATCAAGGTTT 58.488 33.333 0.00 0.00 0.00 3.27
3366 3454 4.997395 GGAAGCTTGTCAAAGTGATCACTA 59.003 41.667 28.10 10.78 41.58 2.74
3446 3534 6.757897 ATCTGCAACGGAAATTTAGATGAA 57.242 33.333 7.33 0.00 0.00 2.57
3581 3672 6.131264 TCAAATTGAGCCATCCATAGTTCAT 58.869 36.000 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 3.002965 CGTCAAGGTTTTGGTTACCAGTC 59.997 47.826 3.65 0.00 38.16 3.51
3 4 2.946990 ACGTCAAGGTTTTGGTTACCAG 59.053 45.455 3.65 0.00 38.16 4.00
4 5 2.944349 GACGTCAAGGTTTTGGTTACCA 59.056 45.455 11.55 0.00 38.16 3.25
5 6 2.944349 TGACGTCAAGGTTTTGGTTACC 59.056 45.455 17.62 0.00 34.97 2.85
6 7 4.345288 GTTGACGTCAAGGTTTTGGTTAC 58.655 43.478 30.38 11.72 36.39 2.50
7 8 3.377798 GGTTGACGTCAAGGTTTTGGTTA 59.622 43.478 30.38 2.37 36.39 2.85
8 9 2.164827 GGTTGACGTCAAGGTTTTGGTT 59.835 45.455 30.38 0.00 36.39 3.67
9 10 1.746787 GGTTGACGTCAAGGTTTTGGT 59.253 47.619 30.38 0.00 36.39 3.67
10 11 1.268335 CGGTTGACGTCAAGGTTTTGG 60.268 52.381 30.38 11.10 36.39 3.28
11 12 1.666700 TCGGTTGACGTCAAGGTTTTG 59.333 47.619 30.38 15.94 44.69 2.44
12 13 1.667212 GTCGGTTGACGTCAAGGTTTT 59.333 47.619 30.38 0.00 44.69 2.43
13 14 1.292992 GTCGGTTGACGTCAAGGTTT 58.707 50.000 30.38 0.00 44.69 3.27
14 15 2.981997 GTCGGTTGACGTCAAGGTT 58.018 52.632 30.38 0.00 44.69 3.50
15 16 4.744316 GTCGGTTGACGTCAAGGT 57.256 55.556 30.38 0.00 44.69 3.50
29 30 2.176055 CTCTGACCACCGTCGTCG 59.824 66.667 0.00 0.00 42.37 5.12
30 31 2.197643 GACCTCTGACCACCGTCGTC 62.198 65.000 0.00 0.00 42.37 4.20
31 32 2.203451 ACCTCTGACCACCGTCGT 60.203 61.111 0.00 0.00 42.37 4.34
32 33 2.567049 GACCTCTGACCACCGTCG 59.433 66.667 0.00 0.00 42.37 5.12
33 34 1.596895 GAGGACCTCTGACCACCGTC 61.597 65.000 14.72 0.00 39.66 4.79
34 35 1.606889 GAGGACCTCTGACCACCGT 60.607 63.158 14.72 0.00 0.00 4.83
35 36 2.701780 CGAGGACCTCTGACCACCG 61.702 68.421 19.39 0.10 0.00 4.94
36 37 3.007973 GCGAGGACCTCTGACCACC 62.008 68.421 19.39 0.00 0.00 4.61
37 38 2.574399 GCGAGGACCTCTGACCAC 59.426 66.667 19.39 0.00 0.00 4.16
38 39 3.062466 CGCGAGGACCTCTGACCA 61.062 66.667 19.39 0.00 0.00 4.02
94 95 4.408821 TGAGACGGGCATGCCACC 62.409 66.667 36.56 23.69 37.98 4.61
95 96 3.127533 GTGAGACGGGCATGCCAC 61.128 66.667 36.56 25.49 37.98 5.01
96 97 2.874648 GATGTGAGACGGGCATGCCA 62.875 60.000 36.56 15.35 37.98 4.92
97 98 2.124570 ATGTGAGACGGGCATGCC 60.125 61.111 29.47 29.47 0.00 4.40
98 99 2.528743 CGATGTGAGACGGGCATGC 61.529 63.158 9.90 9.90 0.00 4.06
99 100 1.884464 CCGATGTGAGACGGGCATG 60.884 63.158 0.00 0.00 44.59 4.06
100 101 2.501128 CCGATGTGAGACGGGCAT 59.499 61.111 0.00 0.00 44.59 4.40
110 111 2.854079 CGCAATGTGCACCCGATGTG 62.854 60.000 15.69 10.49 45.36 3.21
111 112 2.689785 CGCAATGTGCACCCGATGT 61.690 57.895 15.69 0.00 45.36 3.06
112 113 2.100797 CGCAATGTGCACCCGATG 59.899 61.111 15.69 8.99 45.36 3.84
113 114 2.046411 TCGCAATGTGCACCCGAT 60.046 55.556 15.69 0.00 45.36 4.18
114 115 2.741985 CTCGCAATGTGCACCCGA 60.742 61.111 15.69 15.26 45.36 5.14
115 116 4.465512 GCTCGCAATGTGCACCCG 62.466 66.667 15.69 11.76 45.36 5.28
116 117 4.120331 GGCTCGCAATGTGCACCC 62.120 66.667 15.69 1.07 45.36 4.61
117 118 3.364441 TGGCTCGCAATGTGCACC 61.364 61.111 15.69 0.00 45.36 5.01
118 119 2.126734 GTGGCTCGCAATGTGCAC 60.127 61.111 10.75 10.75 45.36 4.57
119 120 3.364441 GGTGGCTCGCAATGTGCA 61.364 61.111 0.61 0.00 45.36 4.57
120 121 2.216750 AATGGTGGCTCGCAATGTGC 62.217 55.000 0.00 0.00 40.69 4.57
121 122 1.093972 TAATGGTGGCTCGCAATGTG 58.906 50.000 0.00 0.00 0.00 3.21
122 123 1.832883 TTAATGGTGGCTCGCAATGT 58.167 45.000 0.00 0.00 0.00 2.71
123 124 3.441496 AATTAATGGTGGCTCGCAATG 57.559 42.857 0.00 0.00 0.00 2.82
124 125 3.446873 TCAAATTAATGGTGGCTCGCAAT 59.553 39.130 0.00 0.00 0.00 3.56
125 126 2.822561 TCAAATTAATGGTGGCTCGCAA 59.177 40.909 0.00 0.00 0.00 4.85
126 127 2.423185 CTCAAATTAATGGTGGCTCGCA 59.577 45.455 0.00 0.00 0.00 5.10
127 128 2.796032 GCTCAAATTAATGGTGGCTCGC 60.796 50.000 0.00 0.00 0.00 5.03
128 129 2.223572 GGCTCAAATTAATGGTGGCTCG 60.224 50.000 0.00 0.00 0.00 5.03
129 130 3.026694 AGGCTCAAATTAATGGTGGCTC 58.973 45.455 10.71 0.00 0.00 4.70
130 131 3.026694 GAGGCTCAAATTAATGGTGGCT 58.973 45.455 10.25 14.37 34.68 4.75
131 132 3.026694 AGAGGCTCAAATTAATGGTGGC 58.973 45.455 18.26 0.00 0.00 5.01
132 133 4.019174 ACAGAGGCTCAAATTAATGGTGG 58.981 43.478 18.26 0.00 0.00 4.61
133 134 4.676196 GCACAGAGGCTCAAATTAATGGTG 60.676 45.833 18.26 10.61 0.00 4.17
134 135 3.445096 GCACAGAGGCTCAAATTAATGGT 59.555 43.478 18.26 0.00 0.00 3.55
135 136 3.488047 CGCACAGAGGCTCAAATTAATGG 60.488 47.826 18.26 0.33 0.00 3.16
136 137 3.374988 TCGCACAGAGGCTCAAATTAATG 59.625 43.478 18.26 6.70 0.00 1.90
137 138 3.609853 TCGCACAGAGGCTCAAATTAAT 58.390 40.909 18.26 0.00 0.00 1.40
138 139 3.002791 CTCGCACAGAGGCTCAAATTAA 58.997 45.455 18.26 0.00 43.20 1.40
139 140 2.233676 TCTCGCACAGAGGCTCAAATTA 59.766 45.455 18.26 0.00 46.82 1.40
140 141 1.002430 TCTCGCACAGAGGCTCAAATT 59.998 47.619 18.26 0.00 46.82 1.82
141 142 0.610174 TCTCGCACAGAGGCTCAAAT 59.390 50.000 18.26 0.00 46.82 2.32
142 143 0.392706 TTCTCGCACAGAGGCTCAAA 59.607 50.000 18.26 0.00 46.82 2.69
143 144 0.319900 GTTCTCGCACAGAGGCTCAA 60.320 55.000 18.26 0.00 46.82 3.02
144 145 1.290324 GTTCTCGCACAGAGGCTCA 59.710 57.895 18.26 0.00 46.82 4.26
145 146 1.803519 CGTTCTCGCACAGAGGCTC 60.804 63.158 6.34 6.34 46.82 4.70
146 147 2.259818 CGTTCTCGCACAGAGGCT 59.740 61.111 0.00 0.00 46.82 4.58
156 157 2.579787 CTACCAGCGGCGTTCTCG 60.580 66.667 9.37 0.00 40.37 4.04
157 158 2.886124 GCTACCAGCGGCGTTCTC 60.886 66.667 9.37 0.00 0.00 2.87
158 159 3.691342 TGCTACCAGCGGCGTTCT 61.691 61.111 9.37 0.00 46.26 3.01
159 160 3.488090 GTGCTACCAGCGGCGTTC 61.488 66.667 9.37 0.00 46.26 3.95
163 164 3.605749 TTCAGGTGCTACCAGCGGC 62.606 63.158 7.86 0.00 46.26 6.53
164 165 1.003839 TTTCAGGTGCTACCAGCGG 60.004 57.895 7.86 0.00 46.26 5.52
165 166 1.298859 GGTTTCAGGTGCTACCAGCG 61.299 60.000 7.86 0.00 46.26 5.18
166 167 0.036875 AGGTTTCAGGTGCTACCAGC 59.963 55.000 7.86 0.00 41.95 4.85
167 168 1.347707 TCAGGTTTCAGGTGCTACCAG 59.652 52.381 7.86 0.67 41.95 4.00
168 169 1.429930 TCAGGTTTCAGGTGCTACCA 58.570 50.000 7.86 0.00 41.95 3.25
169 170 2.427506 CTTCAGGTTTCAGGTGCTACC 58.572 52.381 0.00 0.00 38.99 3.18
170 171 2.427506 CCTTCAGGTTTCAGGTGCTAC 58.572 52.381 0.00 0.00 0.00 3.58
171 172 2.859165 CCTTCAGGTTTCAGGTGCTA 57.141 50.000 0.00 0.00 0.00 3.49
172 173 3.733709 CCTTCAGGTTTCAGGTGCT 57.266 52.632 0.00 0.00 0.00 4.40
183 184 2.205022 TGCAATCTGGAACCTTCAGG 57.795 50.000 0.00 0.00 42.17 3.86
184 185 3.613432 GCTTTGCAATCTGGAACCTTCAG 60.613 47.826 0.00 0.00 0.00 3.02
185 186 2.297033 GCTTTGCAATCTGGAACCTTCA 59.703 45.455 0.00 0.00 0.00 3.02
186 187 2.353109 GGCTTTGCAATCTGGAACCTTC 60.353 50.000 0.00 0.00 0.00 3.46
187 188 1.620323 GGCTTTGCAATCTGGAACCTT 59.380 47.619 0.00 0.00 0.00 3.50
188 189 1.203100 AGGCTTTGCAATCTGGAACCT 60.203 47.619 0.00 0.00 0.00 3.50
189 190 1.260544 AGGCTTTGCAATCTGGAACC 58.739 50.000 0.00 0.00 0.00 3.62
190 191 2.297033 TCAAGGCTTTGCAATCTGGAAC 59.703 45.455 0.00 0.00 34.21 3.62
191 192 2.596346 TCAAGGCTTTGCAATCTGGAA 58.404 42.857 0.00 0.00 34.21 3.53
192 193 2.291209 TCAAGGCTTTGCAATCTGGA 57.709 45.000 0.00 0.00 34.21 3.86
193 194 3.604875 AATCAAGGCTTTGCAATCTGG 57.395 42.857 0.00 0.00 34.21 3.86
194 195 4.562082 TGAAATCAAGGCTTTGCAATCTG 58.438 39.130 0.00 0.00 34.21 2.90
195 196 4.525487 TCTGAAATCAAGGCTTTGCAATCT 59.475 37.500 0.00 0.00 34.21 2.40
196 197 4.813027 TCTGAAATCAAGGCTTTGCAATC 58.187 39.130 0.00 2.47 34.21 2.67
197 198 4.525487 TCTCTGAAATCAAGGCTTTGCAAT 59.475 37.500 0.00 0.00 34.21 3.56
198 199 3.890756 TCTCTGAAATCAAGGCTTTGCAA 59.109 39.130 3.19 0.00 34.21 4.08
199 200 3.489355 TCTCTGAAATCAAGGCTTTGCA 58.511 40.909 3.19 0.00 34.21 4.08
200 201 4.715527 ATCTCTGAAATCAAGGCTTTGC 57.284 40.909 3.19 0.00 34.21 3.68
201 202 9.649167 AAAATAATCTCTGAAATCAAGGCTTTG 57.351 29.630 1.35 1.35 35.57 2.77
203 204 9.866798 GAAAAATAATCTCTGAAATCAAGGCTT 57.133 29.630 0.00 0.00 0.00 4.35
204 205 9.028284 TGAAAAATAATCTCTGAAATCAAGGCT 57.972 29.630 0.00 0.00 0.00 4.58
205 206 9.813446 ATGAAAAATAATCTCTGAAATCAAGGC 57.187 29.630 0.00 0.00 0.00 4.35
222 223 9.699410 ACTGGATGTAGGAATTCATGAAAAATA 57.301 29.630 13.09 0.88 0.00 1.40
223 224 8.599624 ACTGGATGTAGGAATTCATGAAAAAT 57.400 30.769 13.09 1.67 0.00 1.82
224 225 8.421249 AACTGGATGTAGGAATTCATGAAAAA 57.579 30.769 13.09 0.00 0.00 1.94
225 226 7.890127 AGAACTGGATGTAGGAATTCATGAAAA 59.110 33.333 13.09 0.00 0.00 2.29
226 227 7.337689 CAGAACTGGATGTAGGAATTCATGAAA 59.662 37.037 13.09 0.00 0.00 2.69
227 228 6.825213 CAGAACTGGATGTAGGAATTCATGAA 59.175 38.462 11.26 11.26 0.00 2.57
228 229 6.156775 TCAGAACTGGATGTAGGAATTCATGA 59.843 38.462 7.93 0.00 0.00 3.07
229 230 6.351711 TCAGAACTGGATGTAGGAATTCATG 58.648 40.000 7.93 0.00 0.00 3.07
230 231 6.566079 TCAGAACTGGATGTAGGAATTCAT 57.434 37.500 7.93 2.14 0.00 2.57
231 232 6.385176 AGATCAGAACTGGATGTAGGAATTCA 59.615 38.462 7.93 0.00 0.00 2.57
232 233 6.825610 AGATCAGAACTGGATGTAGGAATTC 58.174 40.000 0.00 0.00 0.00 2.17
233 234 6.183361 GGAGATCAGAACTGGATGTAGGAATT 60.183 42.308 0.00 0.00 0.00 2.17
234 235 5.306678 GGAGATCAGAACTGGATGTAGGAAT 59.693 44.000 0.00 0.00 0.00 3.01
235 236 4.651503 GGAGATCAGAACTGGATGTAGGAA 59.348 45.833 0.00 0.00 0.00 3.36
236 237 4.219115 GGAGATCAGAACTGGATGTAGGA 58.781 47.826 0.00 0.00 0.00 2.94
237 238 3.005261 CGGAGATCAGAACTGGATGTAGG 59.995 52.174 0.00 0.00 0.00 3.18
238 239 3.634448 ACGGAGATCAGAACTGGATGTAG 59.366 47.826 0.00 0.00 0.00 2.74
239 240 3.632333 ACGGAGATCAGAACTGGATGTA 58.368 45.455 0.00 0.00 0.00 2.29
240 241 2.428890 GACGGAGATCAGAACTGGATGT 59.571 50.000 0.00 0.00 0.00 3.06
247 248 2.196295 CGAAGGACGGAGATCAGAAC 57.804 55.000 0.00 0.00 38.46 3.01
258 259 5.745769 GGAAACTTATAGTTACCGAAGGACG 59.254 44.000 0.00 0.00 45.44 4.79
272 273 5.072600 ACCATAATGGCGGAGGAAACTTATA 59.927 40.000 0.00 0.00 42.67 0.98
286 288 6.969993 TCCTATAAACCAAACCATAATGGC 57.030 37.500 0.00 0.00 42.67 4.40
305 307 9.042450 TCACAAAAGTCACCTATAAGATTCCTA 57.958 33.333 0.00 0.00 0.00 2.94
338 340 7.033530 TCAGTTGGAATTTTATGTTCACGTT 57.966 32.000 0.00 0.00 0.00 3.99
341 343 7.382218 CAGGTTCAGTTGGAATTTTATGTTCAC 59.618 37.037 0.00 0.00 37.93 3.18
462 465 4.335315 TGAAAATGACTATTGCGATGTCCC 59.665 41.667 11.62 0.00 0.00 4.46
469 472 5.349817 AGAGAGTGTGAAAATGACTATTGCG 59.650 40.000 0.00 0.00 0.00 4.85
562 565 9.970395 GTTGATTATCATATTCTTGCAATTCCA 57.030 29.630 0.00 0.00 0.00 3.53
567 570 8.623903 GTGGAGTTGATTATCATATTCTTGCAA 58.376 33.333 0.00 0.00 0.00 4.08
568 571 7.229306 GGTGGAGTTGATTATCATATTCTTGCA 59.771 37.037 0.00 0.00 0.00 4.08
587 590 0.773644 ATGGTTGAGCAAGGTGGAGT 59.226 50.000 0.00 0.00 0.00 3.85
596 599 6.296087 AAGATCTCTTAACTCATGGTTGAGCA 60.296 38.462 0.00 0.00 42.70 4.26
606 609 9.408069 GTTTTAACTCGAAGATCTCTTAACTCA 57.592 33.333 0.00 0.00 36.11 3.41
613 616 6.347859 AGTGGTTTTAACTCGAAGATCTCT 57.652 37.500 0.00 0.00 33.89 3.10
628 631 6.658816 TGCATTGTCTATCACATAGTGGTTTT 59.341 34.615 0.00 0.00 33.90 2.43
634 637 7.087007 CGTAGATGCATTGTCTATCACATAGT 58.913 38.462 0.00 0.00 33.90 2.12
635 638 6.529477 CCGTAGATGCATTGTCTATCACATAG 59.471 42.308 0.00 0.00 33.90 2.23
676 679 5.409211 TGTAAATACAGGTAATTCACGCGA 58.591 37.500 15.93 0.00 0.00 5.87
687 690 6.203072 ACTGGAGGTCTATGTAAATACAGGT 58.797 40.000 0.00 0.00 39.92 4.00
689 692 7.348080 TGACTGGAGGTCTATGTAAATACAG 57.652 40.000 0.00 0.00 44.74 2.74
705 708 4.129380 TGTGTTCATGTCTTTGACTGGAG 58.871 43.478 0.00 0.00 33.15 3.86
706 709 4.149511 TGTGTTCATGTCTTTGACTGGA 57.850 40.909 0.00 0.00 33.15 3.86
743 746 3.708451 TCTACAGGTACCATCTCTTGCA 58.292 45.455 15.94 0.00 0.00 4.08
744 747 4.946478 ATCTACAGGTACCATCTCTTGC 57.054 45.455 15.94 0.00 0.00 4.01
764 767 7.759489 TTCTGCAGAACCATTTACTGTTTAT 57.241 32.000 25.16 0.00 34.60 1.40
771 774 6.017109 TGTCTTCTTTCTGCAGAACCATTTAC 60.017 38.462 28.46 20.30 33.13 2.01
775 778 3.817647 GTGTCTTCTTTCTGCAGAACCAT 59.182 43.478 28.46 0.00 33.13 3.55
782 785 0.106708 AGCCGTGTCTTCTTTCTGCA 59.893 50.000 0.00 0.00 0.00 4.41
881 888 5.242838 TCTCTGTTGTCGGCCAATTAAATTT 59.757 36.000 2.24 0.00 35.02 1.82
898 905 6.047511 AGACAATAATGCTCACTCTCTGTT 57.952 37.500 0.00 0.00 0.00 3.16
940 951 3.027412 TGTATTCTGCACTCCTCTCCTC 58.973 50.000 0.00 0.00 0.00 3.71
981 998 1.303643 GGTTGAGCAAGGAGGTGGG 60.304 63.158 0.00 0.00 0.00 4.61
1042 1086 4.565652 GCTGGATGTGAGAAAAAGGAGGTA 60.566 45.833 0.00 0.00 0.00 3.08
1043 1087 3.812167 GCTGGATGTGAGAAAAAGGAGGT 60.812 47.826 0.00 0.00 0.00 3.85
1179 1227 1.679898 GTTCCTGACAGGGTCCCAG 59.320 63.158 21.56 4.32 35.59 4.45
1213 1261 1.806542 CTTGCAGTAATCAGGCAACGT 59.193 47.619 0.00 0.00 42.12 3.99
1241 1289 3.357079 GGTTGCTGCAGGACACGG 61.357 66.667 17.12 0.00 0.00 4.94
1363 1413 3.004734 CCTTCGAAGTTGTTGGCTGAAAT 59.995 43.478 23.03 0.00 0.00 2.17
1380 1430 1.144936 GCCTGGGATCTCACCTTCG 59.855 63.158 0.00 0.00 0.00 3.79
1404 1454 1.317613 GAAGTGATGCACAACCACCA 58.682 50.000 0.00 0.00 36.74 4.17
1568 1618 4.472286 GTTTTTGCGCATACTAAGCTTCA 58.528 39.130 12.75 0.00 0.00 3.02
1699 1749 8.786826 ATATCAAACGTAGAAAGATTGTCCAA 57.213 30.769 0.00 0.00 0.00 3.53
1703 1753 7.495934 CCCTGATATCAAACGTAGAAAGATTGT 59.504 37.037 6.90 0.00 0.00 2.71
1712 1762 8.548721 GTTTGTTATCCCTGATATCAAACGTAG 58.451 37.037 22.26 0.00 45.02 3.51
1761 1811 7.156876 TGTGATGGAGGAAATATTGAACAAC 57.843 36.000 0.00 0.00 0.00 3.32
1797 1847 1.407258 CCGGAAAACTTGTTGAAGGCA 59.593 47.619 0.00 0.00 32.95 4.75
1799 1849 3.821033 AGATCCGGAAAACTTGTTGAAGG 59.179 43.478 9.01 0.00 32.95 3.46
1807 1857 2.296190 GTGGCAAAGATCCGGAAAACTT 59.704 45.455 9.01 12.06 0.00 2.66
1815 1865 4.261322 CCAATATCAAGTGGCAAAGATCCG 60.261 45.833 0.00 0.00 33.38 4.18
1924 1980 4.273235 GCCAAGAACCAAAAATTCAAGTGG 59.727 41.667 0.00 0.00 37.17 4.00
2066 2122 5.249852 AGGTTGCTACAGTTGGTTAAGGATA 59.750 40.000 0.00 0.00 0.00 2.59
2136 2192 4.640201 GCAGATAGGTTGGCAATAGAAACA 59.360 41.667 1.92 0.00 0.00 2.83
2186 2242 5.541101 GGTAGGGTCCCAGTTATTTTGTTTT 59.459 40.000 11.55 0.00 0.00 2.43
2286 2343 4.352001 AGGCTAGAAATCAGGCCAATATCA 59.648 41.667 5.01 0.00 46.23 2.15
2297 2354 4.520874 CGAGATACTGGAGGCTAGAAATCA 59.479 45.833 0.00 0.00 0.00 2.57
2364 2421 3.762823 TGCTCAATTGTGTGATATTGCCA 59.237 39.130 5.13 0.00 32.96 4.92
2463 2520 3.260884 ACAAGGAGTTAGCGGAAAGATCA 59.739 43.478 0.00 0.00 0.00 2.92
2499 2556 4.857509 AGGAATCGTAAGTATCTCCTGC 57.142 45.455 0.00 0.00 32.04 4.85
2621 2679 3.823304 GGATTTCACCAGAGAGCTTGTTT 59.177 43.478 0.00 0.00 0.00 2.83
2756 2815 7.442666 GGTCCTGCTAAGTTATTATCAGAAAGG 59.557 40.741 1.50 0.00 37.33 3.11
2993 3078 0.521291 TGCAAAACAGTATGAGCCGC 59.479 50.000 0.00 0.00 39.69 6.53
3005 3090 4.187694 TCAAAGTTCCAACCATGCAAAAC 58.812 39.130 0.00 0.00 0.00 2.43
3077 3165 4.215399 TGATCAAGACCATTGTTCGGTTTC 59.785 41.667 0.00 0.00 36.69 2.78
3270 3358 2.813754 CTCCTCGTTTGCCAAGATTGAA 59.186 45.455 0.00 0.00 0.00 2.69
3366 3454 1.071699 ACGGTCCAAACTGCTACACAT 59.928 47.619 0.00 0.00 34.94 3.21
3411 3499 6.222038 TCCGTTGCAGATAAACTCTAAGAT 57.778 37.500 0.00 0.00 31.13 2.40
3446 3534 0.040058 TGGAGTTTGGATGCAGCCAT 59.960 50.000 26.87 10.49 37.86 4.40


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

AutoCloner maintained by Alex Coulton.