Multiple sequence alignment - TraesCS7A01G241000

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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 TraesCS7A01G241000 chr7A 100.000 1641 0 0 501 2141 216421016 216422656 0.000000e+00 3031
1 TraesCS7A01G241000 chr7A 100.000 305 0 0 1 305 216420516 216420820 4.940000e-157 564
2 TraesCS7A01G241000 chr7A 100.000 243 0 0 2401 2643 216422916 216423158 1.440000e-122 449
3 TraesCS7A01G241000 chr7A 93.182 88 6 0 192 279 135923279 135923366 2.130000e-26 130
4 TraesCS7A01G241000 chr7A 94.737 76 3 1 1935 2010 350571867 350571793 1.660000e-22 117
5 TraesCS7A01G241000 chr7A 94.667 75 3 1 1936 2010 350571793 350571866 5.980000e-22 115
6 TraesCS7A01G241000 chr7D 92.348 954 35 14 798 1739 204448596 204449523 0.000000e+00 1323
7 TraesCS7A01G241000 chr7D 91.456 316 8 1 501 797 204448122 204448437 1.460000e-112 416
8 TraesCS7A01G241000 chr7D 96.335 191 6 1 1 191 204447548 204447737 1.980000e-81 313
9 TraesCS7A01G241000 chr7D 92.683 164 8 2 2444 2607 204450033 204450192 1.580000e-57 233
10 TraesCS7A01G241000 chr7D 91.083 157 10 2 1781 1937 204449685 204449837 2.670000e-50 209
11 TraesCS7A01G241000 chr7B 86.348 1150 94 30 842 1937 168355121 168356261 0.000000e+00 1195
12 TraesCS7A01G241000 chr7B 88.608 237 12 5 2404 2640 168356584 168356805 9.320000e-70 274
13 TraesCS7A01G241000 chr7B 86.957 115 13 2 192 304 143612262 143612376 7.680000e-26 128
14 TraesCS7A01G241000 chr7B 84.298 121 7 4 1 119 168354123 168354233 1.000000e-19 108
15 TraesCS7A01G241000 chr5D 86.726 113 12 2 192 301 66292296 66292408 3.570000e-24 122
16 TraesCS7A01G241000 chr3B 86.842 114 10 5 192 301 746848669 746848781 3.570000e-24 122
17 TraesCS7A01G241000 chr5B 86.364 110 15 0 192 301 596722352 596722243 1.280000e-23 121
18 TraesCS7A01G241000 chr5B 86.207 116 9 6 192 301 633667236 633667122 4.620000e-23 119
19 TraesCS7A01G241000 chr5B 90.588 85 4 4 1936 2020 473627200 473627280 2.780000e-20 110
20 TraesCS7A01G241000 chr4A 94.805 77 4 0 1934 2010 598725657 598725733 1.280000e-23 121
21 TraesCS7A01G241000 chr2B 86.087 115 11 2 192 301 697483991 697484105 4.620000e-23 119
22 TraesCS7A01G241000 chr6A 85.841 113 12 4 192 302 12879186 12879296 1.660000e-22 117
23 TraesCS7A01G241000 chr4D 85.470 117 11 4 192 302 11571828 11571712 1.660000e-22 117
24 TraesCS7A01G241000 chr4D 93.421 76 4 1 1936 2010 215459628 215459553 7.730000e-21 111
25 TraesCS7A01G241000 chr4D 91.358 81 4 3 1936 2014 215459553 215459632 1.000000e-19 108
26 TraesCS7A01G241000 chr2D 91.765 85 5 2 1929 2011 451974412 451974328 1.660000e-22 117
27 TraesCS7A01G241000 chr2D 92.593 81 3 3 1935 2013 586574590 586574669 2.150000e-21 113
28 TraesCS7A01G241000 chr5A 92.208 77 6 0 1934 2010 21453246 21453322 2.780000e-20 110


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 TraesCS7A01G241000 chr7A 216420516 216423158 2642 False 1348.000000 3031 100.000 1 2643 3 chr7A.!!$F3 2642
1 TraesCS7A01G241000 chr7D 204447548 204450192 2644 False 498.800000 1323 92.781 1 2607 5 chr7D.!!$F1 2606
2 TraesCS7A01G241000 chr7B 168354123 168356805 2682 False 525.666667 1195 86.418 1 2640 3 chr7B.!!$F2 2639

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
204 215 0.036765 CATGTTTCCCTCCGTCCGAA 60.037 55.0 0.0 0.0 0.0 4.30 F
206 217 0.469070 TGTTTCCCTCCGTCCGAAAA 59.531 50.0 0.0 0.0 0.0 2.29 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1393 1942 0.604780 AAGCGCAACTCAGCAGACAT 60.605 50.0 11.47 0.0 35.48 3.06 R
1695 2261 0.665369 GCACGAAGCTGCAAATTGCT 60.665 50.0 19.34 0.0 45.31 3.91 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
47 48 4.846779 TCTGATTGCAACTTTTGTACCC 57.153 40.909 0.00 0.00 0.00 3.69
90 91 4.632153 ACTTTCTCGCTGTGTATCAAGTT 58.368 39.130 0.00 0.00 0.00 2.66
96 97 5.348724 TCTCGCTGTGTATCAAGTTTGATTC 59.651 40.000 12.17 8.29 45.13 2.52
183 194 0.392595 GGTAGTAGGTGCTGGTTGCC 60.393 60.000 0.00 0.00 42.00 4.52
184 195 0.323629 GTAGTAGGTGCTGGTTGCCA 59.676 55.000 0.00 0.00 42.00 4.92
185 196 0.323629 TAGTAGGTGCTGGTTGCCAC 59.676 55.000 0.00 0.00 42.00 5.01
186 197 1.228124 GTAGGTGCTGGTTGCCACA 60.228 57.895 0.00 0.00 42.00 4.17
187 198 0.609131 GTAGGTGCTGGTTGCCACAT 60.609 55.000 0.00 0.00 42.00 3.21
188 199 0.608856 TAGGTGCTGGTTGCCACATG 60.609 55.000 0.00 0.00 42.00 3.21
190 201 1.741525 GTGCTGGTTGCCACATGTT 59.258 52.632 0.00 0.00 42.00 2.71
193 204 0.319813 GCTGGTTGCCACATGTTTCC 60.320 55.000 0.00 0.00 35.15 3.13
194 205 0.318120 CTGGTTGCCACATGTTTCCC 59.682 55.000 0.00 0.00 0.00 3.97
195 206 0.105760 TGGTTGCCACATGTTTCCCT 60.106 50.000 0.00 0.00 0.00 4.20
196 207 0.603065 GGTTGCCACATGTTTCCCTC 59.397 55.000 0.00 0.00 0.00 4.30
197 208 0.603065 GTTGCCACATGTTTCCCTCC 59.397 55.000 0.00 0.00 0.00 4.30
198 209 0.893270 TTGCCACATGTTTCCCTCCG 60.893 55.000 0.00 0.00 0.00 4.63
199 210 1.303317 GCCACATGTTTCCCTCCGT 60.303 57.895 0.00 0.00 0.00 4.69
200 211 1.305930 GCCACATGTTTCCCTCCGTC 61.306 60.000 0.00 0.00 0.00 4.79
201 212 0.676782 CCACATGTTTCCCTCCGTCC 60.677 60.000 0.00 0.00 0.00 4.79
202 213 1.019278 CACATGTTTCCCTCCGTCCG 61.019 60.000 0.00 0.00 0.00 4.79
203 214 1.189524 ACATGTTTCCCTCCGTCCGA 61.190 55.000 0.00 0.00 0.00 4.55
204 215 0.036765 CATGTTTCCCTCCGTCCGAA 60.037 55.000 0.00 0.00 0.00 4.30
205 216 0.688487 ATGTTTCCCTCCGTCCGAAA 59.312 50.000 0.00 0.00 0.00 3.46
206 217 0.469070 TGTTTCCCTCCGTCCGAAAA 59.531 50.000 0.00 0.00 0.00 2.29
207 218 1.072648 TGTTTCCCTCCGTCCGAAAAT 59.927 47.619 0.00 0.00 0.00 1.82
208 219 2.302445 TGTTTCCCTCCGTCCGAAAATA 59.698 45.455 0.00 0.00 0.00 1.40
209 220 2.674852 GTTTCCCTCCGTCCGAAAATAC 59.325 50.000 0.00 0.00 0.00 1.89
210 221 1.856629 TCCCTCCGTCCGAAAATACT 58.143 50.000 0.00 0.00 0.00 2.12
211 222 2.181975 TCCCTCCGTCCGAAAATACTT 58.818 47.619 0.00 0.00 0.00 2.24
212 223 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
213 224 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
214 225 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
215 226 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
216 227 4.181578 CTCCGTCCGAAAATACTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
217 228 4.178540 TCCGTCCGAAAATACTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
218 229 3.930229 CCGTCCGAAAATACTTGTCATCA 59.070 43.478 0.00 0.00 0.00 3.07
219 230 4.390603 CCGTCCGAAAATACTTGTCATCAA 59.609 41.667 0.00 0.00 0.00 2.57
220 231 5.106869 CCGTCCGAAAATACTTGTCATCAAA 60.107 40.000 0.00 0.00 32.87 2.69
221 232 6.367421 CGTCCGAAAATACTTGTCATCAAAA 58.633 36.000 0.00 0.00 32.87 2.44
222 233 7.021196 CGTCCGAAAATACTTGTCATCAAAAT 58.979 34.615 0.00 0.00 32.87 1.82
223 234 7.007367 CGTCCGAAAATACTTGTCATCAAAATG 59.993 37.037 0.00 0.00 32.87 2.32
224 235 7.273381 GTCCGAAAATACTTGTCATCAAAATGG 59.727 37.037 0.00 0.00 33.42 3.16
225 236 7.175816 TCCGAAAATACTTGTCATCAAAATGGA 59.824 33.333 0.00 0.00 33.42 3.41
226 237 7.975616 CCGAAAATACTTGTCATCAAAATGGAT 59.024 33.333 0.00 0.00 33.42 3.41
234 245 9.918630 ACTTGTCATCAAAATGGATAAAAAGAG 57.081 29.630 0.00 0.00 33.42 2.85
289 488 8.792830 ACATCTCTTTTTATCATCTTTTCGGA 57.207 30.769 0.00 0.00 0.00 4.55
290 489 8.669243 ACATCTCTTTTTATCATCTTTTCGGAC 58.331 33.333 0.00 0.00 0.00 4.79
291 490 7.290857 TCTCTTTTTATCATCTTTTCGGACG 57.709 36.000 0.00 0.00 0.00 4.79
292 491 6.312918 TCTCTTTTTATCATCTTTTCGGACGG 59.687 38.462 0.00 0.00 0.00 4.79
293 492 6.167685 TCTTTTTATCATCTTTTCGGACGGA 58.832 36.000 0.00 0.00 0.00 4.69
296 495 0.535335 TCATCTTTTCGGACGGAGGG 59.465 55.000 0.00 0.00 0.00 4.30
297 496 0.535335 CATCTTTTCGGACGGAGGGA 59.465 55.000 0.00 0.00 0.00 4.20
298 497 0.824759 ATCTTTTCGGACGGAGGGAG 59.175 55.000 0.00 0.00 0.00 4.30
299 498 0.541296 TCTTTTCGGACGGAGGGAGT 60.541 55.000 0.00 0.00 0.00 3.85
300 499 1.180029 CTTTTCGGACGGAGGGAGTA 58.820 55.000 0.00 0.00 0.00 2.59
301 500 1.755380 CTTTTCGGACGGAGGGAGTAT 59.245 52.381 0.00 0.00 0.00 2.12
302 501 1.856629 TTTCGGACGGAGGGAGTATT 58.143 50.000 0.00 0.00 0.00 1.89
303 502 1.856629 TTCGGACGGAGGGAGTATTT 58.143 50.000 0.00 0.00 0.00 1.40
304 503 1.856629 TCGGACGGAGGGAGTATTTT 58.143 50.000 0.00 0.00 0.00 1.82
534 733 4.881850 CCCACTCTGATTTTAATTACCGCT 59.118 41.667 0.00 0.00 0.00 5.52
545 744 0.519961 ATTACCGCTGCGTTGGTTTC 59.480 50.000 21.59 0.00 39.70 2.78
574 773 4.545823 TTGTTTTAGAAGGCTTCACACG 57.454 40.909 27.70 0.00 0.00 4.49
625 824 4.631131 TGTTGGTCTGACATGTAACTGAG 58.369 43.478 10.38 0.00 0.00 3.35
633 832 1.618837 ACATGTAACTGAGACTGCGGT 59.381 47.619 0.00 0.00 0.00 5.68
749 967 2.982488 GGATACATCCAGGGGTGAAGAT 59.018 50.000 5.40 0.00 46.38 2.40
948 1483 7.443879 ACGTGACAATTTGACATATATATGCCA 59.556 33.333 20.46 14.27 37.19 4.92
1195 1740 3.520290 TCGTAACTGAGCCGATTTGAT 57.480 42.857 0.00 0.00 0.00 2.57
1392 1941 1.202348 AGCGGTTTCTTTATTGCCAGC 59.798 47.619 0.00 0.00 0.00 4.85
1393 1942 1.067915 GCGGTTTCTTTATTGCCAGCA 60.068 47.619 0.00 0.00 0.00 4.41
1409 1958 1.134075 GCATGTCTGCTGAGTTGCG 59.866 57.895 10.59 0.00 45.32 4.85
1460 2013 6.597280 AGTTCCTCTTGCTTGCTTATTCTTAG 59.403 38.462 0.00 0.00 0.00 2.18
1485 2039 2.088423 GCAATAACCGTTGATCACCCA 58.912 47.619 0.00 0.00 0.00 4.51
1552 2118 8.264347 TCCATGCAGTAAATCAACTAGTTATCA 58.736 33.333 8.04 0.00 0.00 2.15
1593 2159 2.223377 CACAGGTAGACGTTTCCAAAGC 59.777 50.000 0.00 0.00 0.00 3.51
1594 2160 2.104281 ACAGGTAGACGTTTCCAAAGCT 59.896 45.455 0.00 0.00 0.00 3.74
1595 2161 2.737252 CAGGTAGACGTTTCCAAAGCTC 59.263 50.000 0.00 0.00 0.00 4.09
1596 2162 2.633481 AGGTAGACGTTTCCAAAGCTCT 59.367 45.455 0.00 0.00 0.00 4.09
1614 2180 3.482786 CTCTATCAACGTTGTTGCTTGC 58.517 45.455 26.47 0.00 0.00 4.01
1676 2242 1.125748 CGAAGTGAGCTTTCTTCTGCG 59.874 52.381 21.10 11.13 38.20 5.18
1683 2249 1.156736 GCTTTCTTCTGCGCAGGTTA 58.843 50.000 35.36 20.22 0.00 2.85
1695 2261 1.675714 CGCAGGTTAGCAACAGATGGA 60.676 52.381 0.00 0.00 0.00 3.41
1739 2306 1.176527 GCAGCATAGCCAACCAGAAA 58.823 50.000 0.00 0.00 0.00 2.52
1741 2308 2.167075 GCAGCATAGCCAACCAGAAAAT 59.833 45.455 0.00 0.00 0.00 1.82
1745 2334 4.098960 AGCATAGCCAACCAGAAAATCATG 59.901 41.667 0.00 0.00 0.00 3.07
1747 2336 5.625197 GCATAGCCAACCAGAAAATCATGTT 60.625 40.000 0.00 0.00 0.00 2.71
1766 2355 5.531122 TGTTCATATACTGCTACTGGGAC 57.469 43.478 0.00 0.00 0.00 4.46
1772 2361 1.352083 ACTGCTACTGGGACACACAT 58.648 50.000 0.00 0.00 0.00 3.21
1774 2363 2.233922 ACTGCTACTGGGACACACATAC 59.766 50.000 0.00 0.00 0.00 2.39
1777 2366 2.233922 GCTACTGGGACACACATACACT 59.766 50.000 0.00 0.00 0.00 3.55
1778 2367 2.839486 ACTGGGACACACATACACTG 57.161 50.000 0.00 0.00 0.00 3.66
1779 2368 1.347707 ACTGGGACACACATACACTGG 59.652 52.381 0.00 0.00 0.00 4.00
1858 2542 4.312443 TCTTTGTCCGGTTCTTCATGTAC 58.688 43.478 0.00 0.00 0.00 2.90
1911 2595 6.671190 TCTCGTTGTTTCTACTAAATCGACA 58.329 36.000 0.00 0.00 0.00 4.35
1919 2603 7.695201 TGTTTCTACTAAATCGACATGTACGAG 59.305 37.037 19.81 11.94 42.81 4.18
1932 2616 1.611977 TGTACGAGACAGGTGGAACAG 59.388 52.381 0.00 0.00 33.50 3.16
1937 2621 3.442977 ACGAGACAGGTGGAACAGTATAC 59.557 47.826 0.00 0.00 41.80 1.47
1938 2622 3.695060 CGAGACAGGTGGAACAGTATACT 59.305 47.826 0.00 0.00 41.80 2.12
1939 2623 4.201930 CGAGACAGGTGGAACAGTATACTC 60.202 50.000 1.26 0.00 41.80 2.59
1940 2624 4.024670 AGACAGGTGGAACAGTATACTCC 58.975 47.826 1.26 2.45 41.80 3.85
1941 2625 3.105283 ACAGGTGGAACAGTATACTCCC 58.895 50.000 1.26 5.56 41.80 4.30
1942 2626 3.246021 ACAGGTGGAACAGTATACTCCCT 60.246 47.826 1.26 0.00 41.80 4.20
1943 2627 3.385111 CAGGTGGAACAGTATACTCCCTC 59.615 52.174 1.26 5.84 41.80 4.30
1944 2628 2.699321 GGTGGAACAGTATACTCCCTCC 59.301 54.545 1.26 10.75 41.80 4.30
1945 2629 2.361438 GTGGAACAGTATACTCCCTCCG 59.639 54.545 1.26 0.00 41.80 4.63
1946 2630 2.024655 TGGAACAGTATACTCCCTCCGT 60.025 50.000 1.26 0.00 0.00 4.69
1947 2631 2.622470 GGAACAGTATACTCCCTCCGTC 59.378 54.545 1.26 0.00 0.00 4.79
1948 2632 2.361643 ACAGTATACTCCCTCCGTCC 57.638 55.000 1.26 0.00 0.00 4.79
1949 2633 1.133544 ACAGTATACTCCCTCCGTCCC 60.134 57.143 1.26 0.00 0.00 4.46
1950 2634 1.133575 CAGTATACTCCCTCCGTCCCA 60.134 57.143 1.26 0.00 0.00 4.37
1951 2635 1.572415 AGTATACTCCCTCCGTCCCAA 59.428 52.381 0.00 0.00 0.00 4.12
1952 2636 2.023695 AGTATACTCCCTCCGTCCCAAA 60.024 50.000 0.00 0.00 0.00 3.28
1953 2637 1.961133 ATACTCCCTCCGTCCCAAAA 58.039 50.000 0.00 0.00 0.00 2.44
1954 2638 1.961133 TACTCCCTCCGTCCCAAAAT 58.039 50.000 0.00 0.00 0.00 1.82
1955 2639 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
1956 2640 2.271777 ACTCCCTCCGTCCCAAAATAA 58.728 47.619 0.00 0.00 0.00 1.40
1957 2641 2.645797 ACTCCCTCCGTCCCAAAATAAA 59.354 45.455 0.00 0.00 0.00 1.40
1958 2642 3.268595 ACTCCCTCCGTCCCAAAATAAAT 59.731 43.478 0.00 0.00 0.00 1.40
1959 2643 3.626930 TCCCTCCGTCCCAAAATAAATG 58.373 45.455 0.00 0.00 0.00 2.32
1960 2644 2.100749 CCCTCCGTCCCAAAATAAATGC 59.899 50.000 0.00 0.00 0.00 3.56
1961 2645 2.100749 CCTCCGTCCCAAAATAAATGCC 59.899 50.000 0.00 0.00 0.00 4.40
1962 2646 3.023832 CTCCGTCCCAAAATAAATGCCT 58.976 45.455 0.00 0.00 0.00 4.75
1963 2647 3.020984 TCCGTCCCAAAATAAATGCCTC 58.979 45.455 0.00 0.00 0.00 4.70
1964 2648 2.757868 CCGTCCCAAAATAAATGCCTCA 59.242 45.455 0.00 0.00 0.00 3.86
1965 2649 3.194542 CCGTCCCAAAATAAATGCCTCAA 59.805 43.478 0.00 0.00 0.00 3.02
1966 2650 4.173256 CGTCCCAAAATAAATGCCTCAAC 58.827 43.478 0.00 0.00 0.00 3.18
1967 2651 4.082245 CGTCCCAAAATAAATGCCTCAACT 60.082 41.667 0.00 0.00 0.00 3.16
1968 2652 5.566627 CGTCCCAAAATAAATGCCTCAACTT 60.567 40.000 0.00 0.00 0.00 2.66
1969 2653 6.230472 GTCCCAAAATAAATGCCTCAACTTT 58.770 36.000 0.00 0.00 0.00 2.66
1970 2654 6.368791 GTCCCAAAATAAATGCCTCAACTTTC 59.631 38.462 0.00 0.00 0.00 2.62
1971 2655 5.348451 CCCAAAATAAATGCCTCAACTTTCG 59.652 40.000 0.00 0.00 0.00 3.46
1972 2656 5.925969 CCAAAATAAATGCCTCAACTTTCGT 59.074 36.000 0.00 0.00 0.00 3.85
1973 2657 7.087639 CCAAAATAAATGCCTCAACTTTCGTA 58.912 34.615 0.00 0.00 0.00 3.43
1974 2658 7.061789 CCAAAATAAATGCCTCAACTTTCGTAC 59.938 37.037 0.00 0.00 0.00 3.67
1975 2659 6.811253 AATAAATGCCTCAACTTTCGTACA 57.189 33.333 0.00 0.00 0.00 2.90
1976 2660 6.811253 ATAAATGCCTCAACTTTCGTACAA 57.189 33.333 0.00 0.00 0.00 2.41
1977 2661 5.508200 AAATGCCTCAACTTTCGTACAAA 57.492 34.783 0.00 0.00 0.00 2.83
1978 2662 4.749245 ATGCCTCAACTTTCGTACAAAG 57.251 40.909 13.08 13.08 0.00 2.77
1979 2663 2.289547 TGCCTCAACTTTCGTACAAAGC 59.710 45.455 14.06 4.95 0.00 3.51
1980 2664 2.548480 GCCTCAACTTTCGTACAAAGCT 59.452 45.455 14.06 3.86 0.00 3.74
1981 2665 3.607078 GCCTCAACTTTCGTACAAAGCTG 60.607 47.826 14.06 12.80 0.00 4.24
1982 2666 3.807622 CCTCAACTTTCGTACAAAGCTGA 59.192 43.478 16.18 16.18 33.10 4.26
1983 2667 4.084328 CCTCAACTTTCGTACAAAGCTGAG 60.084 45.833 25.18 25.18 44.17 3.35
1984 2668 4.689071 TCAACTTTCGTACAAAGCTGAGA 58.311 39.130 14.47 7.93 31.21 3.27
1985 2669 4.506654 TCAACTTTCGTACAAAGCTGAGAC 59.493 41.667 14.47 0.00 31.21 3.36
1986 2670 4.054780 ACTTTCGTACAAAGCTGAGACA 57.945 40.909 14.06 0.00 0.00 3.41
1987 2671 3.802685 ACTTTCGTACAAAGCTGAGACAC 59.197 43.478 14.06 0.00 0.00 3.67
1988 2672 3.728076 TTCGTACAAAGCTGAGACACT 57.272 42.857 0.00 0.00 0.00 3.55
1989 2673 3.728076 TCGTACAAAGCTGAGACACTT 57.272 42.857 0.00 0.00 0.00 3.16
1990 2674 4.841443 TCGTACAAAGCTGAGACACTTA 57.159 40.909 0.00 0.00 0.00 2.24
1991 2675 5.386958 TCGTACAAAGCTGAGACACTTAT 57.613 39.130 0.00 0.00 0.00 1.73
1992 2676 5.779922 TCGTACAAAGCTGAGACACTTATT 58.220 37.500 0.00 0.00 0.00 1.40
1993 2677 6.220930 TCGTACAAAGCTGAGACACTTATTT 58.779 36.000 0.00 0.00 0.00 1.40
1994 2678 6.704493 TCGTACAAAGCTGAGACACTTATTTT 59.296 34.615 0.00 0.00 0.00 1.82
1995 2679 6.792250 CGTACAAAGCTGAGACACTTATTTTG 59.208 38.462 0.00 0.00 0.00 2.44
1996 2680 6.076981 ACAAAGCTGAGACACTTATTTTGG 57.923 37.500 0.00 0.00 0.00 3.28
1997 2681 5.010012 ACAAAGCTGAGACACTTATTTTGGG 59.990 40.000 0.00 0.00 0.00 4.12
1998 2682 4.640771 AGCTGAGACACTTATTTTGGGA 57.359 40.909 0.00 0.00 0.00 4.37
1999 2683 4.327680 AGCTGAGACACTTATTTTGGGAC 58.672 43.478 0.00 0.00 0.00 4.46
2000 2684 3.125316 GCTGAGACACTTATTTTGGGACG 59.875 47.826 0.00 0.00 0.00 4.79
2001 2685 3.670625 TGAGACACTTATTTTGGGACGG 58.329 45.455 0.00 0.00 0.00 4.79
2002 2686 3.325425 TGAGACACTTATTTTGGGACGGA 59.675 43.478 0.00 0.00 0.00 4.69
2003 2687 3.933332 GAGACACTTATTTTGGGACGGAG 59.067 47.826 0.00 0.00 0.00 4.63
2004 2688 3.007635 GACACTTATTTTGGGACGGAGG 58.992 50.000 0.00 0.00 0.00 4.30
2005 2689 2.290705 ACACTTATTTTGGGACGGAGGG 60.291 50.000 0.00 0.00 0.00 4.30
2006 2690 2.026636 CACTTATTTTGGGACGGAGGGA 60.027 50.000 0.00 0.00 0.00 4.20
2007 2691 2.238898 ACTTATTTTGGGACGGAGGGAG 59.761 50.000 0.00 0.00 0.00 4.30
2008 2692 1.961133 TATTTTGGGACGGAGGGAGT 58.039 50.000 0.00 0.00 0.00 3.85
2009 2693 1.961133 ATTTTGGGACGGAGGGAGTA 58.039 50.000 0.00 0.00 0.00 2.59
2034 2718 7.633361 AAACACGTGTTAGTACTGTATTCTG 57.367 36.000 32.47 0.00 37.25 3.02
2086 2906 9.835389 AATCAAAATTCTGAAAAATGGAAGACA 57.165 25.926 0.00 0.00 0.00 3.41
2089 2909 9.748708 CAAAATTCTGAAAAATGGAAGACAGTA 57.251 29.630 0.00 0.00 0.00 2.74
2122 2950 7.733046 TGCGCAATAAATAAAATATATGCCG 57.267 32.000 8.16 0.00 0.00 5.69
2124 2952 8.451748 TGCGCAATAAATAAAATATATGCCGTA 58.548 29.630 8.16 0.00 0.00 4.02
2422 3250 5.455056 GAAGACAAGACAGGAACTCACTA 57.545 43.478 0.00 0.00 34.60 2.74
2433 3261 4.214332 CAGGAACTCACTAGCAAGTTTTCC 59.786 45.833 10.68 8.90 37.09 3.13
2441 3269 2.071778 AGCAAGTTTTCCAGCCAGAA 57.928 45.000 0.00 0.00 0.00 3.02
2442 3270 2.601905 AGCAAGTTTTCCAGCCAGAAT 58.398 42.857 0.00 0.00 0.00 2.40
2443 3271 2.298163 AGCAAGTTTTCCAGCCAGAATG 59.702 45.455 0.00 0.00 0.00 2.67
2444 3272 2.680577 CAAGTTTTCCAGCCAGAATGC 58.319 47.619 0.00 0.00 31.97 3.56
2445 3273 1.260544 AGTTTTCCAGCCAGAATGCC 58.739 50.000 0.00 0.00 31.97 4.40
2446 3274 0.968405 GTTTTCCAGCCAGAATGCCA 59.032 50.000 0.00 0.00 31.97 4.92
2447 3275 1.067354 GTTTTCCAGCCAGAATGCCAG 60.067 52.381 0.00 0.00 31.97 4.85
2448 3276 0.405198 TTTCCAGCCAGAATGCCAGA 59.595 50.000 0.00 0.00 31.97 3.86
2452 3280 0.106868 CAGCCAGAATGCCAGATCCA 60.107 55.000 0.00 0.00 31.97 3.41
2453 3281 0.851469 AGCCAGAATGCCAGATCCAT 59.149 50.000 0.00 0.00 31.97 3.41
2454 3282 1.217183 AGCCAGAATGCCAGATCCATT 59.783 47.619 0.00 0.00 35.73 3.16
2455 3283 2.037144 GCCAGAATGCCAGATCCATTT 58.963 47.619 0.00 0.00 33.34 2.32
2456 3284 2.035576 GCCAGAATGCCAGATCCATTTC 59.964 50.000 0.00 0.00 33.34 2.17
2457 3285 3.563223 CCAGAATGCCAGATCCATTTCT 58.437 45.455 0.00 0.00 33.34 2.52
2458 3286 3.958798 CCAGAATGCCAGATCCATTTCTT 59.041 43.478 0.00 0.00 33.34 2.52
2459 3287 4.037684 CCAGAATGCCAGATCCATTTCTTC 59.962 45.833 0.00 0.00 33.34 2.87
2460 3288 4.037684 CAGAATGCCAGATCCATTTCTTCC 59.962 45.833 0.00 0.00 33.34 3.46
2493 3321 4.277672 CGAAGGAGACCGATCTTTATACCA 59.722 45.833 0.00 0.00 34.34 3.25
2502 3330 6.553857 ACCGATCTTTATACCATCTCCTACT 58.446 40.000 0.00 0.00 0.00 2.57
2503 3331 7.696981 ACCGATCTTTATACCATCTCCTACTA 58.303 38.462 0.00 0.00 0.00 1.82
2504 3332 8.337739 ACCGATCTTTATACCATCTCCTACTAT 58.662 37.037 0.00 0.00 0.00 2.12
2513 3341 3.004839 CCATCTCCTACTATGGTCACACG 59.995 52.174 0.00 0.00 38.28 4.49
2575 3403 9.563748 AATATTAGTCCTACTCTACAGACACTC 57.436 37.037 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
47 48 1.476085 TGCACAAAAGACAACACCCTG 59.524 47.619 0.00 0.00 0.00 4.45
90 91 4.217550 GGAAATCCCACAACTTCGAATCAA 59.782 41.667 0.00 0.00 34.14 2.57
96 97 1.200020 GCTGGAAATCCCACAACTTCG 59.800 52.381 0.00 0.00 40.82 3.79
154 165 2.100989 CACCTACTACCCCAGTGACTC 58.899 57.143 0.00 0.00 38.24 3.36
156 167 0.535797 GCACCTACTACCCCAGTGAC 59.464 60.000 0.00 0.00 38.24 3.67
183 194 1.019278 CGGACGGAGGGAAACATGTG 61.019 60.000 0.00 0.00 0.00 3.21
184 195 1.189524 TCGGACGGAGGGAAACATGT 61.190 55.000 0.00 0.00 0.00 3.21
185 196 0.036765 TTCGGACGGAGGGAAACATG 60.037 55.000 0.00 0.00 0.00 3.21
186 197 0.688487 TTTCGGACGGAGGGAAACAT 59.312 50.000 0.00 0.00 0.00 2.71
187 198 0.469070 TTTTCGGACGGAGGGAAACA 59.531 50.000 0.00 0.00 30.06 2.83
188 199 1.817357 ATTTTCGGACGGAGGGAAAC 58.183 50.000 0.00 0.00 30.06 2.78
190 201 2.181975 AGTATTTTCGGACGGAGGGAA 58.818 47.619 0.00 0.00 0.00 3.97
193 204 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
194 205 3.581755 TGACAAGTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
195 206 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
196 207 3.930229 TGATGACAAGTATTTTCGGACGG 59.070 43.478 0.00 0.00 0.00 4.79
197 208 5.524511 TTGATGACAAGTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
198 209 7.273381 CCATTTTGATGACAAGTATTTTCGGAC 59.727 37.037 0.00 0.00 37.32 4.79
199 210 7.175816 TCCATTTTGATGACAAGTATTTTCGGA 59.824 33.333 0.00 0.00 37.32 4.55
200 211 7.312154 TCCATTTTGATGACAAGTATTTTCGG 58.688 34.615 0.00 0.00 37.32 4.30
201 212 8.915871 ATCCATTTTGATGACAAGTATTTTCG 57.084 30.769 0.00 0.00 37.32 3.46
208 219 9.918630 CTCTTTTTATCCATTTTGATGACAAGT 57.081 29.630 0.00 0.00 37.32 3.16
263 274 9.884636 TCCGAAAAGATGATAAAAAGAGATGTA 57.115 29.630 0.00 0.00 0.00 2.29
264 275 8.669243 GTCCGAAAAGATGATAAAAAGAGATGT 58.331 33.333 0.00 0.00 0.00 3.06
265 276 7.848051 CGTCCGAAAAGATGATAAAAAGAGATG 59.152 37.037 0.00 0.00 0.00 2.90
268 467 6.312918 TCCGTCCGAAAAGATGATAAAAAGAG 59.687 38.462 0.00 0.00 0.00 2.85
270 469 6.417191 TCCGTCCGAAAAGATGATAAAAAG 57.583 37.500 0.00 0.00 0.00 2.27
277 476 0.535335 CCCTCCGTCCGAAAAGATGA 59.465 55.000 0.00 0.00 0.00 2.92
281 480 1.180029 TACTCCCTCCGTCCGAAAAG 58.820 55.000 0.00 0.00 0.00 2.27
284 483 1.856629 AAATACTCCCTCCGTCCGAA 58.143 50.000 0.00 0.00 0.00 4.30
534 733 5.012328 ACAATAAAAAGGAAACCAACGCA 57.988 34.783 0.00 0.00 0.00 5.24
545 744 8.978539 GTGAAGCCTTCTAAAACAATAAAAAGG 58.021 33.333 5.96 0.00 35.88 3.11
574 773 4.036734 CAGAGCTCACTCCTGAGATTACTC 59.963 50.000 17.77 3.18 43.41 2.59
625 824 3.364366 GCATATATTGAGCAACCGCAGTC 60.364 47.826 0.00 0.00 42.27 3.51
633 832 5.067674 AGGCTTTTTCGCATATATTGAGCAA 59.932 36.000 0.00 0.00 0.00 3.91
749 967 1.918293 CCACTGGTCACCTGGCCTA 60.918 63.158 3.32 0.00 41.34 3.93
885 1420 3.891977 TGATGTATCCAGAGGTGTAGCTC 59.108 47.826 2.98 2.98 0.00 4.09
1225 1771 6.318144 GTGAAGTGGATGTCAAGATGATCATT 59.682 38.462 10.14 0.00 0.00 2.57
1239 1785 4.758674 ACAATGAGTTCTGTGAAGTGGATG 59.241 41.667 0.00 0.00 0.00 3.51
1392 1941 1.134075 GCGCAACTCAGCAGACATG 59.866 57.895 0.30 0.00 0.00 3.21
1393 1942 0.604780 AAGCGCAACTCAGCAGACAT 60.605 50.000 11.47 0.00 35.48 3.06
1460 2013 4.270325 GGTGATCAACGGTTATTGCTAGAC 59.730 45.833 0.00 0.00 0.00 2.59
1485 2039 8.163408 TCTAGGTAGCCAAATGTGCATTAATAT 58.837 33.333 0.00 0.00 0.00 1.28
1552 2118 8.506083 ACCTGTGAAGATGGGAAAATATTAGAT 58.494 33.333 0.00 0.00 0.00 1.98
1559 2125 5.501156 GTCTACCTGTGAAGATGGGAAAAT 58.499 41.667 0.00 0.00 0.00 1.82
1567 2133 3.576982 TGGAAACGTCTACCTGTGAAGAT 59.423 43.478 0.00 0.00 0.00 2.40
1593 2159 3.058983 TGCAAGCAACAACGTTGATAGAG 60.059 43.478 33.66 18.28 0.00 2.43
1594 2160 2.875317 TGCAAGCAACAACGTTGATAGA 59.125 40.909 33.66 6.86 0.00 1.98
1595 2161 3.228749 CTGCAAGCAACAACGTTGATAG 58.771 45.455 33.66 21.65 0.00 2.08
1596 2162 3.266541 CTGCAAGCAACAACGTTGATA 57.733 42.857 33.66 5.80 0.00 2.15
1614 2180 2.769893 CTTGTTTTCCCCCAAATGCTG 58.230 47.619 0.00 0.00 0.00 4.41
1624 2190 4.695217 TGATCAATACGCTTGTTTTCCC 57.305 40.909 0.00 0.00 0.00 3.97
1676 2242 2.012673 CTCCATCTGTTGCTAACCTGC 58.987 52.381 0.00 0.00 0.00 4.85
1683 2249 2.353406 GCAAATTGCTCCATCTGTTGCT 60.353 45.455 11.19 0.00 40.96 3.91
1695 2261 0.665369 GCACGAAGCTGCAAATTGCT 60.665 50.000 19.34 0.00 45.31 3.91
1739 2306 7.016563 TCCCAGTAGCAGTATATGAACATGATT 59.983 37.037 0.00 0.00 0.00 2.57
1741 2308 5.838521 TCCCAGTAGCAGTATATGAACATGA 59.161 40.000 0.00 0.00 0.00 3.07
1745 2334 5.163447 TGTGTCCCAGTAGCAGTATATGAAC 60.163 44.000 0.00 0.00 0.00 3.18
1747 2336 4.341235 GTGTGTCCCAGTAGCAGTATATGA 59.659 45.833 0.00 0.00 0.00 2.15
1766 2355 4.537135 AGAAGTACCCAGTGTATGTGTG 57.463 45.455 0.00 0.00 0.00 3.82
1903 2587 3.192844 ACCTGTCTCGTACATGTCGATTT 59.807 43.478 16.87 0.00 37.50 2.17
1911 2595 2.231478 CTGTTCCACCTGTCTCGTACAT 59.769 50.000 0.00 0.00 37.50 2.29
1919 2603 3.132467 GGGAGTATACTGTTCCACCTGTC 59.868 52.174 10.90 0.00 32.50 3.51
1932 2616 2.077687 TTGGGACGGAGGGAGTATAC 57.922 55.000 0.00 0.00 0.00 1.47
1937 2621 3.359695 TTTATTTTGGGACGGAGGGAG 57.640 47.619 0.00 0.00 0.00 4.30
1938 2622 3.626930 CATTTATTTTGGGACGGAGGGA 58.373 45.455 0.00 0.00 0.00 4.20
1939 2623 2.100749 GCATTTATTTTGGGACGGAGGG 59.899 50.000 0.00 0.00 0.00 4.30
1940 2624 2.100749 GGCATTTATTTTGGGACGGAGG 59.899 50.000 0.00 0.00 0.00 4.30
1941 2625 3.023832 AGGCATTTATTTTGGGACGGAG 58.976 45.455 0.00 0.00 0.00 4.63
1942 2626 3.020984 GAGGCATTTATTTTGGGACGGA 58.979 45.455 0.00 0.00 0.00 4.69
1943 2627 2.757868 TGAGGCATTTATTTTGGGACGG 59.242 45.455 0.00 0.00 0.00 4.79
1944 2628 4.082245 AGTTGAGGCATTTATTTTGGGACG 60.082 41.667 0.00 0.00 0.00 4.79
1945 2629 5.405935 AGTTGAGGCATTTATTTTGGGAC 57.594 39.130 0.00 0.00 0.00 4.46
1946 2630 6.432403 AAAGTTGAGGCATTTATTTTGGGA 57.568 33.333 0.00 0.00 0.00 4.37
1947 2631 5.348451 CGAAAGTTGAGGCATTTATTTTGGG 59.652 40.000 0.00 0.00 0.00 4.12
1948 2632 5.925969 ACGAAAGTTGAGGCATTTATTTTGG 59.074 36.000 0.00 0.00 46.40 3.28
1949 2633 7.593273 TGTACGAAAGTTGAGGCATTTATTTTG 59.407 33.333 0.00 0.00 46.40 2.44
1950 2634 7.653647 TGTACGAAAGTTGAGGCATTTATTTT 58.346 30.769 0.00 0.00 46.40 1.82
1951 2635 7.209471 TGTACGAAAGTTGAGGCATTTATTT 57.791 32.000 0.00 0.00 46.40 1.40
1952 2636 6.811253 TGTACGAAAGTTGAGGCATTTATT 57.189 33.333 0.00 0.00 46.40 1.40
1953 2637 6.811253 TTGTACGAAAGTTGAGGCATTTAT 57.189 33.333 0.00 0.00 46.40 1.40
1954 2638 6.621316 TTTGTACGAAAGTTGAGGCATTTA 57.379 33.333 0.00 0.00 46.40 1.40
1955 2639 5.508200 TTTGTACGAAAGTTGAGGCATTT 57.492 34.783 0.00 0.00 46.40 2.32
1956 2640 4.556699 GCTTTGTACGAAAGTTGAGGCATT 60.557 41.667 14.90 0.00 46.40 3.56
1957 2641 3.058224 GCTTTGTACGAAAGTTGAGGCAT 60.058 43.478 14.90 0.00 46.40 4.40
1958 2642 2.289547 GCTTTGTACGAAAGTTGAGGCA 59.710 45.455 14.90 0.00 46.40 4.75
1959 2643 2.548480 AGCTTTGTACGAAAGTTGAGGC 59.452 45.455 14.90 6.36 46.40 4.70
1960 2644 3.807622 TCAGCTTTGTACGAAAGTTGAGG 59.192 43.478 21.57 3.58 46.40 3.86
1962 2646 4.506654 GTCTCAGCTTTGTACGAAAGTTGA 59.493 41.667 22.78 22.78 46.40 3.18
1963 2647 4.270084 TGTCTCAGCTTTGTACGAAAGTTG 59.730 41.667 19.10 19.10 46.40 3.16
1964 2648 4.270325 GTGTCTCAGCTTTGTACGAAAGTT 59.730 41.667 14.90 9.23 46.40 2.66
1966 2650 4.051922 AGTGTCTCAGCTTTGTACGAAAG 58.948 43.478 11.27 11.27 0.00 2.62
1967 2651 4.054780 AGTGTCTCAGCTTTGTACGAAA 57.945 40.909 0.00 0.00 0.00 3.46
1968 2652 3.728076 AGTGTCTCAGCTTTGTACGAA 57.272 42.857 0.00 0.00 0.00 3.85
1969 2653 3.728076 AAGTGTCTCAGCTTTGTACGA 57.272 42.857 0.00 0.00 0.00 3.43
1970 2654 6.467723 AAATAAGTGTCTCAGCTTTGTACG 57.532 37.500 0.00 0.00 0.00 3.67
1971 2655 7.078228 CCAAAATAAGTGTCTCAGCTTTGTAC 58.922 38.462 0.00 0.00 0.00 2.90
1972 2656 6.206634 CCCAAAATAAGTGTCTCAGCTTTGTA 59.793 38.462 0.00 0.00 0.00 2.41
1973 2657 5.010012 CCCAAAATAAGTGTCTCAGCTTTGT 59.990 40.000 0.00 0.00 0.00 2.83
1974 2658 5.241506 TCCCAAAATAAGTGTCTCAGCTTTG 59.758 40.000 0.00 0.00 0.00 2.77
1975 2659 5.241728 GTCCCAAAATAAGTGTCTCAGCTTT 59.758 40.000 0.00 0.00 0.00 3.51
1976 2660 4.762251 GTCCCAAAATAAGTGTCTCAGCTT 59.238 41.667 0.00 0.00 0.00 3.74
1977 2661 4.327680 GTCCCAAAATAAGTGTCTCAGCT 58.672 43.478 0.00 0.00 0.00 4.24
1978 2662 3.125316 CGTCCCAAAATAAGTGTCTCAGC 59.875 47.826 0.00 0.00 0.00 4.26
1979 2663 3.684788 CCGTCCCAAAATAAGTGTCTCAG 59.315 47.826 0.00 0.00 0.00 3.35
1980 2664 3.325425 TCCGTCCCAAAATAAGTGTCTCA 59.675 43.478 0.00 0.00 0.00 3.27
1981 2665 3.933332 CTCCGTCCCAAAATAAGTGTCTC 59.067 47.826 0.00 0.00 0.00 3.36
1982 2666 3.307480 CCTCCGTCCCAAAATAAGTGTCT 60.307 47.826 0.00 0.00 0.00 3.41
1983 2667 3.007635 CCTCCGTCCCAAAATAAGTGTC 58.992 50.000 0.00 0.00 0.00 3.67
1984 2668 2.290705 CCCTCCGTCCCAAAATAAGTGT 60.291 50.000 0.00 0.00 0.00 3.55
1985 2669 2.026636 TCCCTCCGTCCCAAAATAAGTG 60.027 50.000 0.00 0.00 0.00 3.16
1986 2670 2.238898 CTCCCTCCGTCCCAAAATAAGT 59.761 50.000 0.00 0.00 0.00 2.24
1987 2671 2.238898 ACTCCCTCCGTCCCAAAATAAG 59.761 50.000 0.00 0.00 0.00 1.73
1988 2672 2.271777 ACTCCCTCCGTCCCAAAATAA 58.728 47.619 0.00 0.00 0.00 1.40
1989 2673 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
1990 2674 1.961133 TACTCCCTCCGTCCCAAAAT 58.039 50.000 0.00 0.00 0.00 1.82
1991 2675 1.732117 TTACTCCCTCCGTCCCAAAA 58.268 50.000 0.00 0.00 0.00 2.44
1992 2676 1.732117 TTTACTCCCTCCGTCCCAAA 58.268 50.000 0.00 0.00 0.00 3.28
1993 2677 1.348696 GTTTTACTCCCTCCGTCCCAA 59.651 52.381 0.00 0.00 0.00 4.12
1994 2678 0.978907 GTTTTACTCCCTCCGTCCCA 59.021 55.000 0.00 0.00 0.00 4.37
1995 2679 0.978907 TGTTTTACTCCCTCCGTCCC 59.021 55.000 0.00 0.00 0.00 4.46
1996 2680 1.670967 CGTGTTTTACTCCCTCCGTCC 60.671 57.143 0.00 0.00 0.00 4.79
1997 2681 1.000171 ACGTGTTTTACTCCCTCCGTC 60.000 52.381 0.00 0.00 0.00 4.79
1998 2682 1.043022 ACGTGTTTTACTCCCTCCGT 58.957 50.000 0.00 0.00 0.00 4.69
1999 2683 1.269936 ACACGTGTTTTACTCCCTCCG 60.270 52.381 17.22 0.00 0.00 4.63
2000 2684 2.538512 ACACGTGTTTTACTCCCTCC 57.461 50.000 17.22 0.00 0.00 4.30
2001 2685 4.625028 ACTAACACGTGTTTTACTCCCTC 58.375 43.478 36.26 0.00 39.31 4.30
2002 2686 4.677673 ACTAACACGTGTTTTACTCCCT 57.322 40.909 36.26 13.76 39.31 4.20
2003 2687 5.403466 CAGTACTAACACGTGTTTTACTCCC 59.597 44.000 36.26 18.27 39.31 4.30
2004 2688 5.979517 ACAGTACTAACACGTGTTTTACTCC 59.020 40.000 36.26 19.66 39.31 3.85
2005 2689 8.733857 ATACAGTACTAACACGTGTTTTACTC 57.266 34.615 36.26 22.07 39.31 2.59
2006 2690 9.185192 GAATACAGTACTAACACGTGTTTTACT 57.815 33.333 36.26 32.89 39.31 2.24
2007 2691 9.185192 AGAATACAGTACTAACACGTGTTTTAC 57.815 33.333 36.26 31.58 39.31 2.01
2008 2692 9.184062 CAGAATACAGTACTAACACGTGTTTTA 57.816 33.333 36.26 24.38 39.31 1.52
2009 2693 7.707893 ACAGAATACAGTACTAACACGTGTTTT 59.292 33.333 36.26 25.35 39.31 2.43
2034 2718 7.656137 TGAGTTTTCTGACACTTCCAAGTATAC 59.344 37.037 0.00 0.00 37.08 1.47
2400 3228 4.329462 AGTGAGTTCCTGTCTTGTCTTC 57.671 45.455 0.00 0.00 0.00 2.87
2401 3229 4.262249 GCTAGTGAGTTCCTGTCTTGTCTT 60.262 45.833 0.00 0.00 0.00 3.01
2402 3230 3.257127 GCTAGTGAGTTCCTGTCTTGTCT 59.743 47.826 0.00 0.00 0.00 3.41
2422 3250 2.071778 TTCTGGCTGGAAAACTTGCT 57.928 45.000 0.00 0.00 0.00 3.91
2433 3261 0.106868 TGGATCTGGCATTCTGGCTG 60.107 55.000 2.28 2.06 44.10 4.85
2441 3269 2.579873 CGGAAGAAATGGATCTGGCAT 58.420 47.619 0.00 0.00 0.00 4.40
2442 3270 1.408683 CCGGAAGAAATGGATCTGGCA 60.409 52.381 0.00 0.00 0.00 4.92
2443 3271 1.312815 CCGGAAGAAATGGATCTGGC 58.687 55.000 0.00 0.00 0.00 4.85
2444 3272 1.490490 TCCCGGAAGAAATGGATCTGG 59.510 52.381 0.73 0.00 0.00 3.86
2445 3273 3.209410 CTTCCCGGAAGAAATGGATCTG 58.791 50.000 21.05 0.00 41.71 2.90
2446 3274 2.173569 CCTTCCCGGAAGAAATGGATCT 59.826 50.000 26.26 0.00 41.71 2.75
2447 3275 2.172717 TCCTTCCCGGAAGAAATGGATC 59.827 50.000 26.26 0.00 41.71 3.36
2448 3276 2.092375 GTCCTTCCCGGAAGAAATGGAT 60.092 50.000 26.26 0.00 45.32 3.41
2452 3280 0.252197 CGGTCCTTCCCGGAAGAAAT 59.748 55.000 26.26 0.00 45.32 2.17
2453 3281 1.675219 CGGTCCTTCCCGGAAGAAA 59.325 57.895 26.26 12.46 45.32 2.52
2454 3282 3.384348 CGGTCCTTCCCGGAAGAA 58.616 61.111 26.26 5.22 45.32 2.52
2493 3321 4.138290 CTCGTGTGACCATAGTAGGAGAT 58.862 47.826 0.00 0.00 0.00 2.75
2502 3330 1.964933 TGGTGTTCTCGTGTGACCATA 59.035 47.619 0.00 0.00 31.64 2.74
2503 3331 0.756294 TGGTGTTCTCGTGTGACCAT 59.244 50.000 0.00 0.00 31.64 3.55
2504 3332 0.104120 CTGGTGTTCTCGTGTGACCA 59.896 55.000 0.00 0.00 35.41 4.02
2513 3341 0.667792 GTGAGGCGTCTGGTGTTCTC 60.668 60.000 8.06 0.00 0.00 2.87


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

AutoCloner maintained by Alex Coulton.