Multiple sequence alignment - TraesCS3B01G323700

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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 TraesCS3B01G323700 chr3B 100.000 2892 0 0 1 2892 523572088 523569197 0.000000e+00 5341
1 TraesCS3B01G323700 chr3A 90.529 2682 110 64 36 2651 517097166 517094563 0.000000e+00 3413
2 TraesCS3B01G323700 chr3A 88.172 93 9 2 2795 2885 517080618 517080526 3.050000e-20 110
3 TraesCS3B01G323700 chr3A 95.652 69 1 2 2642 2708 517094325 517094257 3.050000e-20 110
4 TraesCS3B01G323700 chr3D 93.811 2246 68 28 36 2251 397800561 397798357 0.000000e+00 3312
5 TraesCS3B01G323700 chr3D 95.113 266 9 2 2320 2583 397796110 397795847 1.600000e-112 416
6 TraesCS3B01G323700 chr3D 92.593 162 7 3 2572 2732 397784175 397784018 8.060000e-56 228
7 TraesCS3B01G323700 chr3D 91.018 167 6 4 2732 2892 397783951 397783788 1.750000e-52 217


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 TraesCS3B01G323700 chr3B 523569197 523572088 2891 True 5341.0 5341 100.0000 1 2892 1 chr3B.!!$R1 2891
1 TraesCS3B01G323700 chr3A 517094257 517097166 2909 True 1761.5 3413 93.0905 36 2708 2 chr3A.!!$R2 2672
2 TraesCS3B01G323700 chr3D 397795847 397800561 4714 True 1864.0 3312 94.4620 36 2583 2 chr3D.!!$R2 2547

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
530 554 0.036306 GCCTTCGACCTTCCCTTTCA 59.964 55.0 0.00 0.0 0.00 2.69 F
571 603 0.179062 ATGGAGCTCGGAACTGCATC 60.179 55.0 9.28 0.0 41.75 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1412 1455 0.249699 TGTGTTCTCGTTCATGGCGT 60.25 50.0 9.65 0.0 0.0 5.68 R
2213 2279 0.320421 GCCACAACTCGCAGGACTAA 60.32 55.0 0.00 0.0 0.0 2.24 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
22 23 5.720371 CTAGGAGAGAGAGAGAGAGAGAG 57.280 52.174 0.00 0.00 0.00 3.20
23 24 4.271807 AGGAGAGAGAGAGAGAGAGAGA 57.728 50.000 0.00 0.00 0.00 3.10
24 25 4.222336 AGGAGAGAGAGAGAGAGAGAGAG 58.778 52.174 0.00 0.00 0.00 3.20
25 26 4.078922 AGGAGAGAGAGAGAGAGAGAGAGA 60.079 50.000 0.00 0.00 0.00 3.10
26 27 4.280677 GGAGAGAGAGAGAGAGAGAGAGAG 59.719 54.167 0.00 0.00 0.00 3.20
27 28 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
28 29 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
29 30 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
30 31 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
31 32 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
32 33 4.892934 AGAGAGAGAGAGAGAGAGAGAGAC 59.107 50.000 0.00 0.00 0.00 3.36
33 34 3.634448 AGAGAGAGAGAGAGAGAGAGACG 59.366 52.174 0.00 0.00 0.00 4.18
34 35 3.632333 AGAGAGAGAGAGAGAGAGACGA 58.368 50.000 0.00 0.00 0.00 4.20
107 108 1.401409 CCATAAACACACCAGCAAGCG 60.401 52.381 0.00 0.00 0.00 4.68
109 110 1.098129 TAAACACACCAGCAAGCGCA 61.098 50.000 11.47 0.00 42.27 6.09
191 200 3.672295 GAGTGCCCTGGAAGCCTCG 62.672 68.421 0.00 0.00 0.00 4.63
221 231 4.610228 CCCCCTTTCTTCTCCCCT 57.390 61.111 0.00 0.00 0.00 4.79
222 232 3.752757 CCCCCTTTCTTCTCCCCTA 57.247 57.895 0.00 0.00 0.00 3.53
223 233 1.512735 CCCCCTTTCTTCTCCCCTAG 58.487 60.000 0.00 0.00 0.00 3.02
224 234 1.512735 CCCCTTTCTTCTCCCCTAGG 58.487 60.000 0.06 0.06 0.00 3.02
225 235 1.512735 CCCTTTCTTCTCCCCTAGGG 58.487 60.000 22.25 22.25 46.11 3.53
226 236 0.840617 CCTTTCTTCTCCCCTAGGGC 59.159 60.000 23.84 0.00 43.94 5.19
227 237 1.626631 CCTTTCTTCTCCCCTAGGGCT 60.627 57.143 23.84 0.00 43.94 5.19
228 238 1.765904 CTTTCTTCTCCCCTAGGGCTC 59.234 57.143 23.84 0.00 43.94 4.70
229 239 1.019650 TTCTTCTCCCCTAGGGCTCT 58.980 55.000 23.84 0.00 43.94 4.09
230 240 0.558712 TCTTCTCCCCTAGGGCTCTC 59.441 60.000 23.84 0.00 43.94 3.20
231 241 0.471022 CTTCTCCCCTAGGGCTCTCC 60.471 65.000 23.84 0.00 43.94 3.71
355 379 1.089920 CCCTGAGTGGAAAAGATGCG 58.910 55.000 0.00 0.00 38.35 4.73
468 492 3.185594 TCGTTTACTGGTTGCTTGATTCG 59.814 43.478 0.00 0.00 0.00 3.34
492 516 0.045002 CGATTCGTGTCGCGTGATTC 60.045 55.000 5.77 5.75 42.13 2.52
530 554 0.036306 GCCTTCGACCTTCCCTTTCA 59.964 55.000 0.00 0.00 0.00 2.69
571 603 0.179062 ATGGAGCTCGGAACTGCATC 60.179 55.000 9.28 0.00 41.75 3.91
596 628 4.144297 TGTAAATCCTTGTTGAAGCAGCT 58.856 39.130 0.00 0.00 0.00 4.24
654 686 3.391227 GCTTCTGCTGTTTATCCGTTC 57.609 47.619 0.00 0.00 36.03 3.95
821 861 6.687105 CCGGTTAATCAATCATCGTTCTTTTC 59.313 38.462 0.00 0.00 0.00 2.29
822 862 7.414098 CCGGTTAATCAATCATCGTTCTTTTCT 60.414 37.037 0.00 0.00 0.00 2.52
823 863 7.962918 CGGTTAATCAATCATCGTTCTTTTCTT 59.037 33.333 0.00 0.00 0.00 2.52
824 864 9.626045 GGTTAATCAATCATCGTTCTTTTCTTT 57.374 29.630 0.00 0.00 0.00 2.52
882 922 7.880059 ATGAGTAAAAGCAAAAGCTGAAATC 57.120 32.000 0.00 0.00 0.00 2.17
1022 1062 2.664851 CAACTGCGCCGACCAGAA 60.665 61.111 4.18 0.00 34.47 3.02
1195 1235 1.457346 CAATCTCAAGCCCACTGGAC 58.543 55.000 0.00 0.00 0.00 4.02
1241 1281 3.706373 GCTCAGAACCGGCTCCCA 61.706 66.667 0.00 0.00 0.00 4.37
1412 1455 4.337177 TTCGGTTGGCCATGGCGA 62.337 61.111 29.90 24.63 43.06 5.54
1455 1498 4.682860 GGCTTTGTTCAATGTGATTGTGAG 59.317 41.667 0.00 0.00 41.02 3.51
1485 1528 1.520120 CACCTGCGTGATCGAGCAT 60.520 57.895 6.66 0.00 43.14 3.79
1575 1618 2.493278 CAAGAGGCCGATTTTCACCATT 59.507 45.455 0.00 0.00 0.00 3.16
1602 1645 2.993008 GAGGAGCAGTCATGGCCA 59.007 61.111 8.56 8.56 0.00 5.36
1642 1688 0.034059 CACTTCTGGTTCGTGCTCCT 59.966 55.000 0.00 0.00 0.00 3.69
1647 1693 0.603569 CTGGTTCGTGCTCCTACTGT 59.396 55.000 0.00 0.00 0.00 3.55
1703 1749 3.317150 TGTATCTGTGAGCACTGAAACG 58.683 45.455 13.02 0.00 41.47 3.60
1733 1780 5.304101 TGCTTCCATCTGTTTTTATGTGGTT 59.696 36.000 0.00 0.00 0.00 3.67
1734 1781 5.634859 GCTTCCATCTGTTTTTATGTGGTTG 59.365 40.000 0.00 0.00 0.00 3.77
1773 1828 2.361104 GTTGGAATGCAGGGGCGA 60.361 61.111 0.00 0.00 45.35 5.54
1774 1829 2.045045 TTGGAATGCAGGGGCGAG 60.045 61.111 0.00 0.00 45.35 5.03
1775 1830 2.601702 TTGGAATGCAGGGGCGAGA 61.602 57.895 0.00 0.00 45.35 4.04
1825 1880 0.319727 GCTGCATCGAGGAGGAGATG 60.320 60.000 0.00 1.47 45.06 2.90
1925 1982 1.534476 TAGTGGTGGTGGCGAGGAA 60.534 57.895 0.00 0.00 0.00 3.36
1955 2013 3.546815 CCACAAGCGTCTGTTCTTTCTTG 60.547 47.826 0.00 0.00 37.51 3.02
1962 2021 3.791353 CGTCTGTTCTTTCTTGTTTTGGC 59.209 43.478 0.00 0.00 0.00 4.52
1963 2022 4.112634 GTCTGTTCTTTCTTGTTTTGGCC 58.887 43.478 0.00 0.00 0.00 5.36
1972 2031 3.904717 TCTTGTTTTGGCCTGGAACTTA 58.095 40.909 3.32 0.00 0.00 2.24
2048 2111 5.779241 TTTGTATGAATGGAGGAGAGGTT 57.221 39.130 0.00 0.00 0.00 3.50
2049 2112 5.779241 TTGTATGAATGGAGGAGAGGTTT 57.221 39.130 0.00 0.00 0.00 3.27
2050 2113 5.779241 TGTATGAATGGAGGAGAGGTTTT 57.221 39.130 0.00 0.00 0.00 2.43
2051 2114 5.500234 TGTATGAATGGAGGAGAGGTTTTG 58.500 41.667 0.00 0.00 0.00 2.44
2052 2115 4.934797 ATGAATGGAGGAGAGGTTTTGA 57.065 40.909 0.00 0.00 0.00 2.69
2147 2210 7.321153 GCTGTAAGACTGGTAGAAATACTCAA 58.679 38.462 0.00 0.00 34.07 3.02
2235 2322 3.357079 CCTGCGAGTTGTGGCCAC 61.357 66.667 29.67 29.67 0.00 5.01
2248 2335 0.178975 TGGCCACCCGAATTTGTTCT 60.179 50.000 0.00 0.00 0.00 3.01
2249 2336 0.243636 GGCCACCCGAATTTGTTCTG 59.756 55.000 0.00 0.00 0.00 3.02
2250 2337 0.388520 GCCACCCGAATTTGTTCTGC 60.389 55.000 0.00 0.00 0.00 4.26
2251 2338 0.109781 CCACCCGAATTTGTTCTGCG 60.110 55.000 0.00 0.00 0.00 5.18
2252 2339 0.729140 CACCCGAATTTGTTCTGCGC 60.729 55.000 0.00 0.00 0.00 6.09
2253 2340 1.154035 CCCGAATTTGTTCTGCGCC 60.154 57.895 4.18 0.00 0.00 6.53
2255 2342 1.511887 CGAATTTGTTCTGCGCCGG 60.512 57.895 4.18 0.00 0.00 6.13
2256 2343 1.154035 GAATTTGTTCTGCGCCGGG 60.154 57.895 4.18 0.00 0.00 5.73
2257 2344 2.542211 GAATTTGTTCTGCGCCGGGG 62.542 60.000 15.40 15.40 0.00 5.73
2264 2351 4.545706 CTGCGCCGGGGCTGATTA 62.546 66.667 38.77 20.98 39.32 1.75
2265 2352 4.102815 TGCGCCGGGGCTGATTAA 62.103 61.111 38.77 19.13 39.32 1.40
2266 2353 2.594592 GCGCCGGGGCTGATTAAT 60.595 61.111 34.09 0.00 39.32 1.40
2267 2354 2.908073 GCGCCGGGGCTGATTAATG 61.908 63.158 34.09 0.00 39.32 1.90
2268 2355 1.227823 CGCCGGGGCTGATTAATGA 60.228 57.895 5.22 0.00 39.32 2.57
2273 2360 2.958355 CCGGGGCTGATTAATGATTGTT 59.042 45.455 0.00 0.00 0.00 2.83
2288 4551 5.883685 TGATTGTTCATCATAGAGAGCCT 57.116 39.130 0.00 0.00 36.94 4.58
2303 4566 2.634940 AGAGCCTTTGTTACTCTCTGCA 59.365 45.455 0.00 0.00 35.96 4.41
2307 4570 2.999355 CCTTTGTTACTCTCTGCAGCTC 59.001 50.000 9.47 0.00 0.00 4.09
2308 4571 3.555795 CCTTTGTTACTCTCTGCAGCTCA 60.556 47.826 9.47 0.00 0.00 4.26
2309 4572 3.969287 TTGTTACTCTCTGCAGCTCAT 57.031 42.857 9.47 0.00 0.00 2.90
2310 4573 3.516981 TGTTACTCTCTGCAGCTCATC 57.483 47.619 9.47 0.00 0.00 2.92
2311 4574 2.159324 TGTTACTCTCTGCAGCTCATCG 60.159 50.000 9.47 0.00 0.00 3.84
2312 4575 1.028130 TACTCTCTGCAGCTCATCGG 58.972 55.000 9.47 0.00 0.00 4.18
2313 4576 1.592131 CTCTCTGCAGCTCATCGGC 60.592 63.158 9.47 0.00 36.38 5.54
2314 4577 2.960659 CTCTGCAGCTCATCGGCG 60.961 66.667 9.47 0.00 38.80 6.46
2315 4578 3.421687 CTCTGCAGCTCATCGGCGA 62.422 63.158 13.87 13.87 38.80 5.54
2316 4579 2.510012 CTGCAGCTCATCGGCGAA 60.510 61.111 15.93 0.00 38.80 4.70
2317 4580 1.886313 CTGCAGCTCATCGGCGAAT 60.886 57.895 15.93 0.00 38.80 3.34
2318 4581 2.102394 CTGCAGCTCATCGGCGAATG 62.102 60.000 15.93 13.07 38.80 2.67
2355 4619 9.676861 AAAGGTAAAAGTGAAAACTACAGTAGT 57.323 29.630 7.48 7.48 41.73 2.73
2380 4644 3.341202 ATGCTCTGCTCTGGTGGGC 62.341 63.158 0.00 0.00 0.00 5.36
2388 4652 2.061220 CTCTGGTGGGCAGTCAGAA 58.939 57.895 0.00 0.00 37.13 3.02
2537 4810 1.078848 AGCCTAAGCGCTTGACAGG 60.079 57.895 32.23 28.96 46.67 4.00
2539 4812 0.462759 GCCTAAGCGCTTGACAGGAT 60.463 55.000 32.21 10.13 0.00 3.24
2590 4863 2.478335 AATGCGCCCGGAGAAAGGAA 62.478 55.000 0.73 0.00 0.00 3.36
2593 4866 1.520600 GCGCCCGGAGAAAGGAAAAA 61.521 55.000 0.73 0.00 0.00 1.94
2635 4914 1.660607 TCATTCATCGCTTGCGACTTC 59.339 47.619 20.01 0.00 0.00 3.01
2640 4919 1.357258 ATCGCTTGCGACTTCAGCAG 61.357 55.000 20.01 0.00 46.01 4.24
2701 5227 1.529865 GGGTCGTTTCAGTTTTCCTCG 59.470 52.381 0.00 0.00 0.00 4.63
2704 5230 1.413445 TCGTTTCAGTTTTCCTCGGGA 59.587 47.619 0.00 0.00 0.00 5.14
2705 5231 1.798813 CGTTTCAGTTTTCCTCGGGAG 59.201 52.381 0.00 0.00 31.21 4.30
2719 5245 3.705043 TCGGGAGAGCGATTTACTTAC 57.295 47.619 0.00 0.00 0.00 2.34
2720 5246 3.018856 TCGGGAGAGCGATTTACTTACA 58.981 45.455 0.00 0.00 0.00 2.41
2721 5247 3.635373 TCGGGAGAGCGATTTACTTACAT 59.365 43.478 0.00 0.00 0.00 2.29
2722 5248 4.098960 TCGGGAGAGCGATTTACTTACATT 59.901 41.667 0.00 0.00 0.00 2.71
2723 5249 4.809426 CGGGAGAGCGATTTACTTACATTT 59.191 41.667 0.00 0.00 0.00 2.32
2724 5250 5.293569 CGGGAGAGCGATTTACTTACATTTT 59.706 40.000 0.00 0.00 0.00 1.82
2725 5251 6.183360 CGGGAGAGCGATTTACTTACATTTTT 60.183 38.462 0.00 0.00 0.00 1.94
2745 5271 4.864704 TTTTACATTTGGGAGCTGGTTC 57.135 40.909 0.00 0.00 0.00 3.62
2746 5272 2.507407 TACATTTGGGAGCTGGTTCC 57.493 50.000 0.00 0.00 36.46 3.62
2747 5273 0.482446 ACATTTGGGAGCTGGTTCCA 59.518 50.000 1.88 1.88 39.09 3.53
2748 5274 0.890683 CATTTGGGAGCTGGTTCCAC 59.109 55.000 6.32 0.00 39.09 4.02
2749 5275 0.251787 ATTTGGGAGCTGGTTCCACC 60.252 55.000 6.32 0.00 39.09 4.61
2751 5277 2.034221 GGGAGCTGGTTCCACCAC 59.966 66.667 0.00 0.00 44.79 4.16
2752 5278 2.829384 GGGAGCTGGTTCCACCACA 61.829 63.158 0.00 0.00 44.79 4.17
2753 5279 1.150536 GGAGCTGGTTCCACCACAA 59.849 57.895 0.00 0.00 44.79 3.33
2754 5280 0.890996 GGAGCTGGTTCCACCACAAG 60.891 60.000 0.00 0.00 44.79 3.16
2755 5281 0.179018 GAGCTGGTTCCACCACAAGT 60.179 55.000 0.00 0.00 44.79 3.16
2756 5282 1.071699 GAGCTGGTTCCACCACAAGTA 59.928 52.381 0.00 0.00 44.79 2.24
2757 5283 1.493022 AGCTGGTTCCACCACAAGTAA 59.507 47.619 0.00 0.00 44.79 2.24
2758 5284 1.607148 GCTGGTTCCACCACAAGTAAC 59.393 52.381 0.00 0.00 44.79 2.50
2759 5285 2.227194 CTGGTTCCACCACAAGTAACC 58.773 52.381 0.00 0.00 44.79 2.85
2760 5286 1.564818 TGGTTCCACCACAAGTAACCA 59.435 47.619 0.00 0.00 44.79 3.67
2761 5287 2.175931 TGGTTCCACCACAAGTAACCAT 59.824 45.455 0.00 0.00 44.79 3.55
2762 5288 2.556622 GGTTCCACCACAAGTAACCATG 59.443 50.000 0.00 0.00 39.51 3.66
2763 5289 3.482436 GTTCCACCACAAGTAACCATGA 58.518 45.455 0.00 0.00 0.00 3.07
2764 5290 4.079253 GTTCCACCACAAGTAACCATGAT 58.921 43.478 0.00 0.00 0.00 2.45
2765 5291 3.684908 TCCACCACAAGTAACCATGATG 58.315 45.455 0.00 0.00 0.00 3.07
2766 5292 3.329225 TCCACCACAAGTAACCATGATGA 59.671 43.478 0.00 0.00 0.00 2.92
2767 5293 4.018506 TCCACCACAAGTAACCATGATGAT 60.019 41.667 0.00 0.00 0.00 2.45
2768 5294 4.336433 CCACCACAAGTAACCATGATGATC 59.664 45.833 0.00 0.00 0.00 2.92
2769 5295 5.188434 CACCACAAGTAACCATGATGATCT 58.812 41.667 0.00 0.00 0.00 2.75
2770 5296 6.348498 CACCACAAGTAACCATGATGATCTA 58.652 40.000 0.00 0.00 0.00 1.98
2771 5297 6.994496 CACCACAAGTAACCATGATGATCTAT 59.006 38.462 0.00 0.00 0.00 1.98
2772 5298 6.994496 ACCACAAGTAACCATGATGATCTATG 59.006 38.462 0.00 0.00 0.00 2.23
2773 5299 6.072838 CCACAAGTAACCATGATGATCTATGC 60.073 42.308 0.00 0.00 0.00 3.14
2774 5300 6.709397 CACAAGTAACCATGATGATCTATGCT 59.291 38.462 0.00 0.00 0.00 3.79
2775 5301 6.933521 ACAAGTAACCATGATGATCTATGCTC 59.066 38.462 0.00 0.00 0.00 4.26
2776 5302 6.931790 AGTAACCATGATGATCTATGCTCT 57.068 37.500 0.00 0.00 0.00 4.09
2777 5303 6.699366 AGTAACCATGATGATCTATGCTCTG 58.301 40.000 0.00 0.00 0.00 3.35
2778 5304 5.563876 AACCATGATGATCTATGCTCTGT 57.436 39.130 0.00 0.00 0.00 3.41
2779 5305 5.563876 ACCATGATGATCTATGCTCTGTT 57.436 39.130 0.00 0.00 0.00 3.16
2780 5306 5.549347 ACCATGATGATCTATGCTCTGTTC 58.451 41.667 0.00 0.00 0.00 3.18
2781 5307 4.626172 CCATGATGATCTATGCTCTGTTCG 59.374 45.833 0.00 0.00 0.00 3.95
2782 5308 3.646946 TGATGATCTATGCTCTGTTCGC 58.353 45.455 0.00 0.00 0.00 4.70
2783 5309 2.125461 TGATCTATGCTCTGTTCGCG 57.875 50.000 0.00 0.00 0.00 5.87
2784 5310 1.269257 TGATCTATGCTCTGTTCGCGG 60.269 52.381 6.13 0.00 0.00 6.46
2785 5311 0.747255 ATCTATGCTCTGTTCGCGGT 59.253 50.000 6.13 0.00 0.00 5.68
2786 5312 1.385528 TCTATGCTCTGTTCGCGGTA 58.614 50.000 6.13 0.00 0.00 4.02
2787 5313 1.954382 TCTATGCTCTGTTCGCGGTAT 59.046 47.619 6.13 0.00 0.00 2.73
2788 5314 3.143728 TCTATGCTCTGTTCGCGGTATA 58.856 45.455 6.13 0.00 0.00 1.47
2789 5315 3.756963 TCTATGCTCTGTTCGCGGTATAT 59.243 43.478 6.13 0.00 0.00 0.86
2790 5316 2.134201 TGCTCTGTTCGCGGTATATG 57.866 50.000 6.13 0.00 0.00 1.78
2791 5317 1.679153 TGCTCTGTTCGCGGTATATGA 59.321 47.619 6.13 0.00 0.00 2.15
2792 5318 2.296190 TGCTCTGTTCGCGGTATATGAT 59.704 45.455 6.13 0.00 0.00 2.45
2793 5319 3.243737 TGCTCTGTTCGCGGTATATGATT 60.244 43.478 6.13 0.00 0.00 2.57
2794 5320 3.741344 GCTCTGTTCGCGGTATATGATTT 59.259 43.478 6.13 0.00 0.00 2.17
2795 5321 4.211374 GCTCTGTTCGCGGTATATGATTTT 59.789 41.667 6.13 0.00 0.00 1.82
2796 5322 5.277345 GCTCTGTTCGCGGTATATGATTTTT 60.277 40.000 6.13 0.00 0.00 1.94
2820 5346 7.737972 TTTGACGATTGAAATAGGAAGAACA 57.262 32.000 0.00 0.00 0.00 3.18
2821 5347 6.721571 TGACGATTGAAATAGGAAGAACAC 57.278 37.500 0.00 0.00 0.00 3.32
2822 5348 6.227522 TGACGATTGAAATAGGAAGAACACA 58.772 36.000 0.00 0.00 0.00 3.72
2823 5349 6.878923 TGACGATTGAAATAGGAAGAACACAT 59.121 34.615 0.00 0.00 0.00 3.21
2824 5350 8.038351 TGACGATTGAAATAGGAAGAACACATA 58.962 33.333 0.00 0.00 0.00 2.29
2825 5351 8.786826 ACGATTGAAATAGGAAGAACACATAA 57.213 30.769 0.00 0.00 0.00 1.90
2826 5352 9.396022 ACGATTGAAATAGGAAGAACACATAAT 57.604 29.630 0.00 0.00 0.00 1.28
2842 5368 5.184892 ACATAATTGTGAGAAAGAGGCCT 57.815 39.130 3.86 3.86 33.85 5.19
2843 5369 5.574188 ACATAATTGTGAGAAAGAGGCCTT 58.426 37.500 6.77 0.00 33.85 4.35
2844 5370 6.012745 ACATAATTGTGAGAAAGAGGCCTTT 58.987 36.000 6.77 0.00 38.83 3.11
2845 5371 6.494835 ACATAATTGTGAGAAAGAGGCCTTTT 59.505 34.615 6.77 4.05 37.43 2.27
2846 5372 5.876651 AATTGTGAGAAAGAGGCCTTTTT 57.123 34.783 20.60 20.60 42.30 1.94
2871 5397 8.696410 TTTTTGCTTTCGAGAGTACAAAATTT 57.304 26.923 16.57 0.00 37.00 1.82
2872 5398 7.908193 TTTGCTTTCGAGAGTACAAAATTTC 57.092 32.000 4.73 0.00 0.00 2.17
2873 5399 6.861065 TGCTTTCGAGAGTACAAAATTTCT 57.139 33.333 4.73 0.00 0.00 2.52
2874 5400 7.259290 TGCTTTCGAGAGTACAAAATTTCTT 57.741 32.000 4.73 0.00 0.00 2.52
2875 5401 8.373048 TGCTTTCGAGAGTACAAAATTTCTTA 57.627 30.769 4.73 0.00 0.00 2.10
2876 5402 8.999431 TGCTTTCGAGAGTACAAAATTTCTTAT 58.001 29.630 4.73 0.00 0.00 1.73
2877 5403 9.827411 GCTTTCGAGAGTACAAAATTTCTTATT 57.173 29.630 4.73 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.389520 TCTCTCTCTCTCTCTCTCTCCTAG 58.610 50.000 0.00 0.00 0.00 3.02
1 2 5.134509 TCTCTCTCTCTCTCTCTCTCTCCTA 59.865 48.000 0.00 0.00 0.00 2.94
2 3 4.078922 TCTCTCTCTCTCTCTCTCTCTCCT 60.079 50.000 0.00 0.00 0.00 3.69
3 4 4.219115 TCTCTCTCTCTCTCTCTCTCTCC 58.781 52.174 0.00 0.00 0.00 3.71
4 5 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
5 6 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
6 7 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
7 8 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
8 9 5.009610 GTCTCTCTCTCTCTCTCTCTCTCTC 59.990 52.000 0.00 0.00 0.00 3.20
9 10 4.892934 GTCTCTCTCTCTCTCTCTCTCTCT 59.107 50.000 0.00 0.00 0.00 3.10
10 11 4.261405 CGTCTCTCTCTCTCTCTCTCTCTC 60.261 54.167 0.00 0.00 0.00 3.20
11 12 3.634448 CGTCTCTCTCTCTCTCTCTCTCT 59.366 52.174 0.00 0.00 0.00 3.10
12 13 3.632604 TCGTCTCTCTCTCTCTCTCTCTC 59.367 52.174 0.00 0.00 0.00 3.20
13 14 3.632333 TCGTCTCTCTCTCTCTCTCTCT 58.368 50.000 0.00 0.00 0.00 3.10
14 15 3.797184 GCTCGTCTCTCTCTCTCTCTCTC 60.797 56.522 0.00 0.00 0.00 3.20
15 16 2.101582 GCTCGTCTCTCTCTCTCTCTCT 59.898 54.545 0.00 0.00 0.00 3.10
16 17 2.474816 GCTCGTCTCTCTCTCTCTCTC 58.525 57.143 0.00 0.00 0.00 3.20
17 18 1.139058 GGCTCGTCTCTCTCTCTCTCT 59.861 57.143 0.00 0.00 0.00 3.10
18 19 1.583054 GGCTCGTCTCTCTCTCTCTC 58.417 60.000 0.00 0.00 0.00 3.20
19 20 0.180406 GGGCTCGTCTCTCTCTCTCT 59.820 60.000 0.00 0.00 0.00 3.10
20 21 1.157870 CGGGCTCGTCTCTCTCTCTC 61.158 65.000 0.00 0.00 0.00 3.20
21 22 1.153249 CGGGCTCGTCTCTCTCTCT 60.153 63.158 0.00 0.00 0.00 3.10
22 23 3.416490 CGGGCTCGTCTCTCTCTC 58.584 66.667 0.00 0.00 0.00 3.20
107 108 1.586154 CCATGTGGTTTCTCGGGTGC 61.586 60.000 0.00 0.00 0.00 5.01
109 110 0.768622 TTCCATGTGGTTTCTCGGGT 59.231 50.000 0.00 0.00 36.34 5.28
145 146 1.065600 CTCTAGACTCGCTGCTGCC 59.934 63.158 10.24 0.00 35.36 4.85
225 235 1.331399 ACTAAGAAGGGCCGGAGAGC 61.331 60.000 5.05 0.00 0.00 4.09
226 236 0.747852 GACTAAGAAGGGCCGGAGAG 59.252 60.000 5.05 0.00 0.00 3.20
227 237 0.686769 GGACTAAGAAGGGCCGGAGA 60.687 60.000 5.05 0.00 0.00 3.71
228 238 1.687297 GGGACTAAGAAGGGCCGGAG 61.687 65.000 5.05 0.00 0.00 4.63
229 239 1.688187 GGGACTAAGAAGGGCCGGA 60.688 63.158 5.05 0.00 0.00 5.14
230 240 2.908796 GGGACTAAGAAGGGCCGG 59.091 66.667 0.00 0.00 0.00 6.13
231 241 2.294132 GACGGGACTAAGAAGGGCCG 62.294 65.000 0.00 0.00 0.00 6.13
265 275 4.101448 GGATGCTCAGGCGGTGGT 62.101 66.667 0.00 0.00 42.25 4.16
294 308 1.815003 TACCTCGCGGTCGATTCGA 60.815 57.895 6.13 4.29 44.21 3.71
355 379 2.084546 ACAAATCTAGAAAGTGCGGCC 58.915 47.619 0.00 0.00 0.00 6.13
361 385 6.127897 GCCAAGCATACACAAATCTAGAAAGT 60.128 38.462 0.00 0.00 0.00 2.66
564 588 3.010584 ACAAGGATTTACAGGGATGCAGT 59.989 43.478 0.00 0.00 0.00 4.40
571 603 3.826157 TGCTTCAACAAGGATTTACAGGG 59.174 43.478 0.00 0.00 0.00 4.45
596 628 6.395780 TCTTATTACTCCCAAATCCCAACA 57.604 37.500 0.00 0.00 0.00 3.33
654 686 2.099098 AGAAAACAAGAACACCAAGCCG 59.901 45.455 0.00 0.00 0.00 5.52
788 826 6.647481 CGATGATTGATTAACCGGGTACATTA 59.353 38.462 6.32 0.00 0.00 1.90
821 861 9.136952 GGATCAATCAATCAAAGAGAACAAAAG 57.863 33.333 0.00 0.00 0.00 2.27
822 862 8.863086 AGGATCAATCAATCAAAGAGAACAAAA 58.137 29.630 0.00 0.00 0.00 2.44
823 863 8.413309 AGGATCAATCAATCAAAGAGAACAAA 57.587 30.769 0.00 0.00 0.00 2.83
824 864 8.413309 AAGGATCAATCAATCAAAGAGAACAA 57.587 30.769 0.00 0.00 0.00 2.83
825 865 8.301720 CAAAGGATCAATCAATCAAAGAGAACA 58.698 33.333 0.00 0.00 0.00 3.18
882 922 6.367422 ACGAGAGCAAAGAAAAGTTCAGATAG 59.633 38.462 0.00 0.00 0.00 2.08
947 987 5.391950 GCAAGTTGTCTCTGAAACAGTCAAA 60.392 40.000 4.48 0.00 35.22 2.69
1022 1062 2.475371 AATGCTCCTCTGCGCAAGGT 62.475 55.000 26.93 13.11 39.89 3.50
1195 1235 1.300775 CAGCCTCGATGCCTAGCAG 60.301 63.158 9.21 0.00 43.65 4.24
1241 1281 2.438795 GGCCGAGACCGACTCTCT 60.439 66.667 8.05 0.00 43.22 3.10
1377 1420 0.966920 AACCGGTCTTCTGACACGAT 59.033 50.000 8.04 0.00 44.61 3.73
1412 1455 0.249699 TGTGTTCTCGTTCATGGCGT 60.250 50.000 9.65 0.00 0.00 5.68
1455 1498 1.204941 ACGCAGGTGTACTCTTCATCC 59.795 52.381 0.00 0.00 0.00 3.51
1575 1618 2.364186 TGCTCCTCGATGGGCTCA 60.364 61.111 13.92 0.00 34.48 4.26
1602 1645 4.552365 CCACCAGCCGGCATCGAT 62.552 66.667 31.54 3.61 39.00 3.59
1624 1667 1.272769 GTAGGAGCACGAACCAGAAGT 59.727 52.381 0.00 0.00 0.00 3.01
1642 1688 1.515954 GCAGCCGCTTCCTACAGTA 59.484 57.895 0.00 0.00 34.30 2.74
1647 1693 2.754254 TCTCGCAGCCGCTTCCTA 60.754 61.111 0.00 0.00 35.30 2.94
1703 1749 8.992073 ACATAAAAACAGATGGAAGCAAAAATC 58.008 29.630 0.00 0.00 0.00 2.17
1733 1780 5.218885 CACAAAACTCAACAACTGAACACA 58.781 37.500 0.00 0.00 32.17 3.72
1734 1781 5.219633 ACACAAAACTCAACAACTGAACAC 58.780 37.500 0.00 0.00 32.17 3.32
1773 1828 1.227943 TTGCTGCAGAACGCCTTCT 60.228 52.632 20.43 0.00 41.33 2.85
1774 1829 1.081840 GTTGCTGCAGAACGCCTTC 60.082 57.895 20.43 0.00 41.33 3.46
1775 1830 2.896801 CGTTGCTGCAGAACGCCTT 61.897 57.895 26.61 0.00 39.71 4.35
1825 1880 1.977293 GCTCCACCTCCACCTCATCC 61.977 65.000 0.00 0.00 0.00 3.51
1955 2013 3.756963 CCTACTAAGTTCCAGGCCAAAAC 59.243 47.826 5.01 6.13 0.00 2.43
1962 2021 3.131400 GCTGAGTCCTACTAAGTTCCAGG 59.869 52.174 0.00 0.00 28.95 4.45
1963 2022 3.764434 TGCTGAGTCCTACTAAGTTCCAG 59.236 47.826 0.00 0.00 28.95 3.86
1972 2031 0.975040 CCCTGCTGCTGAGTCCTACT 60.975 60.000 8.20 0.00 0.00 2.57
2028 2088 5.250543 TCAAAACCTCTCCTCCATTCATACA 59.749 40.000 0.00 0.00 0.00 2.29
2041 2104 7.391833 AGACACTGGATAAATTCAAAACCTCTC 59.608 37.037 0.00 0.00 0.00 3.20
2042 2105 7.175641 CAGACACTGGATAAATTCAAAACCTCT 59.824 37.037 0.00 0.00 0.00 3.69
2044 2107 6.294731 GCAGACACTGGATAAATTCAAAACCT 60.295 38.462 0.00 0.00 31.21 3.50
2045 2108 5.863935 GCAGACACTGGATAAATTCAAAACC 59.136 40.000 0.00 0.00 31.21 3.27
2046 2109 5.863935 GGCAGACACTGGATAAATTCAAAAC 59.136 40.000 0.00 0.00 31.21 2.43
2048 2111 5.076182 TGGCAGACACTGGATAAATTCAAA 58.924 37.500 0.00 0.00 31.21 2.69
2049 2112 4.661222 TGGCAGACACTGGATAAATTCAA 58.339 39.130 0.00 0.00 31.21 2.69
2050 2113 4.299586 TGGCAGACACTGGATAAATTCA 57.700 40.909 0.00 0.00 31.21 2.57
2051 2114 5.049129 GCTATGGCAGACACTGGATAAATTC 60.049 44.000 0.00 0.00 38.54 2.17
2052 2115 4.823989 GCTATGGCAGACACTGGATAAATT 59.176 41.667 0.00 0.00 38.54 1.82
2210 2276 2.875933 CCACAACTCGCAGGACTAAAAA 59.124 45.455 0.00 0.00 0.00 1.94
2211 2277 2.489971 CCACAACTCGCAGGACTAAAA 58.510 47.619 0.00 0.00 0.00 1.52
2213 2279 0.320421 GCCACAACTCGCAGGACTAA 60.320 55.000 0.00 0.00 0.00 2.24
2214 2280 1.292223 GCCACAACTCGCAGGACTA 59.708 57.895 0.00 0.00 0.00 2.59
2216 2282 3.050275 GGCCACAACTCGCAGGAC 61.050 66.667 0.00 0.00 0.00 3.85
2223 2310 0.893727 AATTCGGGTGGCCACAACTC 60.894 55.000 35.78 19.02 33.77 3.01
2235 2322 1.154035 GGCGCAGAACAAATTCGGG 60.154 57.895 10.83 0.00 40.04 5.14
2251 2338 1.270550 CAATCATTAATCAGCCCCGGC 59.729 52.381 0.00 0.00 42.33 6.13
2252 2339 2.586425 ACAATCATTAATCAGCCCCGG 58.414 47.619 0.00 0.00 0.00 5.73
2253 2340 3.631686 TGAACAATCATTAATCAGCCCCG 59.368 43.478 0.00 0.00 0.00 5.73
2255 2342 6.395426 TGATGAACAATCATTAATCAGCCC 57.605 37.500 0.00 0.00 46.30 5.19
2267 2354 6.541641 ACAAAGGCTCTCTATGATGAACAATC 59.458 38.462 0.00 0.00 35.67 2.67
2268 2355 6.421485 ACAAAGGCTCTCTATGATGAACAAT 58.579 36.000 0.00 0.00 0.00 2.71
2273 2360 6.609212 AGAGTAACAAAGGCTCTCTATGATGA 59.391 38.462 0.00 0.00 34.86 2.92
2288 4551 3.751479 TGAGCTGCAGAGAGTAACAAA 57.249 42.857 20.43 0.00 0.00 2.83
2303 4566 1.593750 GAGCATTCGCCGATGAGCT 60.594 57.895 7.95 7.95 39.83 4.09
2307 4570 1.220169 CTCAGGAGCATTCGCCGATG 61.220 60.000 0.00 0.00 39.83 3.84
2308 4571 1.068753 CTCAGGAGCATTCGCCGAT 59.931 57.895 0.00 0.00 39.83 4.18
2309 4572 2.496341 CTCAGGAGCATTCGCCGA 59.504 61.111 0.00 0.00 39.83 5.54
2310 4573 2.578163 TTCCTCAGGAGCATTCGCCG 62.578 60.000 0.00 0.00 39.83 6.46
2311 4574 0.392998 TTTCCTCAGGAGCATTCGCC 60.393 55.000 0.00 0.00 39.83 5.54
2312 4575 1.399791 CTTTTCCTCAGGAGCATTCGC 59.600 52.381 0.00 0.00 38.99 4.70
2313 4576 2.012673 CCTTTTCCTCAGGAGCATTCG 58.987 52.381 0.00 0.00 32.41 3.34
2314 4577 3.078891 ACCTTTTCCTCAGGAGCATTC 57.921 47.619 0.00 0.00 35.14 2.67
2315 4578 4.657814 TTACCTTTTCCTCAGGAGCATT 57.342 40.909 0.00 0.00 35.14 3.56
2316 4579 4.657814 TTTACCTTTTCCTCAGGAGCAT 57.342 40.909 0.00 0.00 35.14 3.79
2317 4580 4.141251 ACTTTTACCTTTTCCTCAGGAGCA 60.141 41.667 0.00 0.00 35.14 4.26
2318 4581 4.216472 CACTTTTACCTTTTCCTCAGGAGC 59.784 45.833 0.00 0.00 35.14 4.70
2354 4618 3.320541 ACCAGAGCAGAGCATCATACTAC 59.679 47.826 0.00 0.00 37.82 2.73
2355 4619 3.320256 CACCAGAGCAGAGCATCATACTA 59.680 47.826 0.00 0.00 37.82 1.82
2380 4644 5.127693 ACTGTAGTTAGTGCTTCTGACTG 57.872 43.478 13.76 4.14 41.91 3.51
2388 4652 1.887198 ACTGCGACTGTAGTTAGTGCT 59.113 47.619 0.00 0.00 37.86 4.40
2531 4804 0.904649 CTGTAGCACCCATCCTGTCA 59.095 55.000 0.00 0.00 0.00 3.58
2590 4863 4.745172 GCTGAAGTCAAGAGTCCTCCTTTT 60.745 45.833 0.00 0.00 0.00 2.27
2593 4866 1.899142 GCTGAAGTCAAGAGTCCTCCT 59.101 52.381 0.00 0.00 0.00 3.69
2635 4914 3.007635 TGTTCAAGATGCTGATCTGCTG 58.992 45.455 23.02 13.98 39.04 4.41
2640 4919 4.880120 TGATCCTTGTTCAAGATGCTGATC 59.120 41.667 13.29 14.47 0.00 2.92
2701 5227 6.679327 AAAATGTAAGTAAATCGCTCTCCC 57.321 37.500 0.00 0.00 0.00 4.30
2723 5249 4.039852 GGAACCAGCTCCCAAATGTAAAAA 59.960 41.667 0.00 0.00 0.00 1.94
2724 5250 3.576550 GGAACCAGCTCCCAAATGTAAAA 59.423 43.478 0.00 0.00 0.00 1.52
2725 5251 3.161866 GGAACCAGCTCCCAAATGTAAA 58.838 45.455 0.00 0.00 0.00 2.01
2726 5252 2.109128 TGGAACCAGCTCCCAAATGTAA 59.891 45.455 0.00 0.00 34.22 2.41
2727 5253 1.707989 TGGAACCAGCTCCCAAATGTA 59.292 47.619 0.00 0.00 34.22 2.29
2728 5254 0.482446 TGGAACCAGCTCCCAAATGT 59.518 50.000 0.00 0.00 34.22 2.71
2729 5255 0.890683 GTGGAACCAGCTCCCAAATG 59.109 55.000 0.00 0.00 34.22 2.32
2730 5256 3.363787 GTGGAACCAGCTCCCAAAT 57.636 52.632 0.00 0.00 34.22 2.32
2731 5257 4.920828 GTGGAACCAGCTCCCAAA 57.079 55.556 0.00 0.00 34.22 3.28
2742 5268 3.482436 TCATGGTTACTTGTGGTGGAAC 58.518 45.455 0.00 0.00 0.00 3.62
2743 5269 3.866703 TCATGGTTACTTGTGGTGGAA 57.133 42.857 0.00 0.00 0.00 3.53
2744 5270 3.329225 TCATCATGGTTACTTGTGGTGGA 59.671 43.478 0.00 0.00 0.00 4.02
2745 5271 3.684908 TCATCATGGTTACTTGTGGTGG 58.315 45.455 0.00 0.00 0.00 4.61
2746 5272 5.188434 AGATCATCATGGTTACTTGTGGTG 58.812 41.667 0.00 0.00 0.00 4.17
2747 5273 5.441718 AGATCATCATGGTTACTTGTGGT 57.558 39.130 0.00 0.00 0.00 4.16
2748 5274 6.072838 GCATAGATCATCATGGTTACTTGTGG 60.073 42.308 0.00 0.00 0.00 4.17
2749 5275 6.709397 AGCATAGATCATCATGGTTACTTGTG 59.291 38.462 0.00 0.00 28.81 3.33
2750 5276 6.835174 AGCATAGATCATCATGGTTACTTGT 58.165 36.000 0.00 0.00 28.81 3.16
2751 5277 7.117956 CAGAGCATAGATCATCATGGTTACTTG 59.882 40.741 0.00 0.00 33.25 3.16
2752 5278 7.160049 CAGAGCATAGATCATCATGGTTACTT 58.840 38.462 0.00 0.00 33.25 2.24
2753 5279 6.269538 ACAGAGCATAGATCATCATGGTTACT 59.730 38.462 0.00 0.00 33.25 2.24
2754 5280 6.462500 ACAGAGCATAGATCATCATGGTTAC 58.538 40.000 0.00 0.00 33.25 2.50
2755 5281 6.676990 ACAGAGCATAGATCATCATGGTTA 57.323 37.500 0.00 0.00 33.25 2.85
2756 5282 5.563876 ACAGAGCATAGATCATCATGGTT 57.436 39.130 0.00 0.00 33.25 3.67
2757 5283 5.549347 GAACAGAGCATAGATCATCATGGT 58.451 41.667 6.43 6.43 35.67 3.55
2758 5284 4.626172 CGAACAGAGCATAGATCATCATGG 59.374 45.833 0.00 0.00 0.00 3.66
2759 5285 4.091655 GCGAACAGAGCATAGATCATCATG 59.908 45.833 0.00 0.00 34.19 3.07
2760 5286 4.244066 GCGAACAGAGCATAGATCATCAT 58.756 43.478 0.00 0.00 34.19 2.45
2761 5287 3.646946 GCGAACAGAGCATAGATCATCA 58.353 45.455 0.00 0.00 34.19 3.07
2762 5288 2.660715 CGCGAACAGAGCATAGATCATC 59.339 50.000 0.00 0.00 34.19 2.92
2763 5289 2.608998 CCGCGAACAGAGCATAGATCAT 60.609 50.000 8.23 0.00 34.19 2.45
2764 5290 1.269257 CCGCGAACAGAGCATAGATCA 60.269 52.381 8.23 0.00 34.19 2.92
2765 5291 1.269309 ACCGCGAACAGAGCATAGATC 60.269 52.381 8.23 0.00 34.19 2.75
2766 5292 0.747255 ACCGCGAACAGAGCATAGAT 59.253 50.000 8.23 0.00 34.19 1.98
2767 5293 1.385528 TACCGCGAACAGAGCATAGA 58.614 50.000 8.23 0.00 34.19 1.98
2768 5294 2.423926 ATACCGCGAACAGAGCATAG 57.576 50.000 8.23 0.00 34.19 2.23
2769 5295 3.504520 TCATATACCGCGAACAGAGCATA 59.495 43.478 8.23 0.00 34.19 3.14
2770 5296 2.296190 TCATATACCGCGAACAGAGCAT 59.704 45.455 8.23 0.00 34.19 3.79
2771 5297 1.679153 TCATATACCGCGAACAGAGCA 59.321 47.619 8.23 0.00 34.19 4.26
2772 5298 2.417339 TCATATACCGCGAACAGAGC 57.583 50.000 8.23 0.00 0.00 4.09
2773 5299 5.907197 AAAATCATATACCGCGAACAGAG 57.093 39.130 8.23 0.00 0.00 3.35
2794 5320 8.625651 TGTTCTTCCTATTTCAATCGTCAAAAA 58.374 29.630 0.00 0.00 0.00 1.94
2795 5321 8.073768 GTGTTCTTCCTATTTCAATCGTCAAAA 58.926 33.333 0.00 0.00 0.00 2.44
2796 5322 7.227711 TGTGTTCTTCCTATTTCAATCGTCAAA 59.772 33.333 0.00 0.00 0.00 2.69
2797 5323 6.708502 TGTGTTCTTCCTATTTCAATCGTCAA 59.291 34.615 0.00 0.00 0.00 3.18
2798 5324 6.227522 TGTGTTCTTCCTATTTCAATCGTCA 58.772 36.000 0.00 0.00 0.00 4.35
2799 5325 6.721571 TGTGTTCTTCCTATTTCAATCGTC 57.278 37.500 0.00 0.00 0.00 4.20
2800 5326 8.786826 TTATGTGTTCTTCCTATTTCAATCGT 57.213 30.769 0.00 0.00 0.00 3.73
2818 5344 8.397612 AAAGGCCTCTTTCTCACAATTATGTGT 61.398 37.037 5.23 0.00 46.16 3.72
2819 5345 6.071728 AAAGGCCTCTTTCTCACAATTATGTG 60.072 38.462 5.23 2.60 46.75 3.21
2820 5346 5.184892 AGGCCTCTTTCTCACAATTATGT 57.815 39.130 0.00 0.00 41.61 2.29
2821 5347 6.521151 AAAGGCCTCTTTCTCACAATTATG 57.479 37.500 5.23 0.00 38.76 1.90
2822 5348 7.544804 AAAAAGGCCTCTTTCTCACAATTAT 57.455 32.000 5.23 0.00 41.92 1.28
2823 5349 6.976934 AAAAAGGCCTCTTTCTCACAATTA 57.023 33.333 5.23 0.00 41.92 1.40
2824 5350 5.876651 AAAAAGGCCTCTTTCTCACAATT 57.123 34.783 5.23 0.00 41.92 2.32
2846 5372 8.696410 AAATTTTGTACTCTCGAAAGCAAAAA 57.304 26.923 7.91 3.36 38.64 1.94
2847 5373 8.188139 AGAAATTTTGTACTCTCGAAAGCAAAA 58.812 29.630 6.70 6.70 39.21 2.44
2848 5374 7.703328 AGAAATTTTGTACTCTCGAAAGCAAA 58.297 30.769 0.00 0.00 0.00 3.68
2849 5375 7.259290 AGAAATTTTGTACTCTCGAAAGCAA 57.741 32.000 0.00 0.00 0.00 3.91
2850 5376 6.861065 AGAAATTTTGTACTCTCGAAAGCA 57.139 33.333 0.00 0.00 0.00 3.91
2851 5377 9.827411 AATAAGAAATTTTGTACTCTCGAAAGC 57.173 29.630 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.