Multiple sequence alignment - TraesCS2A01G068300

Loading Multiple Alignment...

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 TraesCS2A01G068300 chr2A 100.000 5465 0 0 1 5465 30189125 30183661 0.000000e+00 10093
1 TraesCS2A01G068300 chr2A 83.625 2632 336 67 204 2768 30165804 30163201 0.000000e+00 2385
2 TraesCS2A01G068300 chr2A 78.170 1443 200 71 1 1390 30213605 30212225 0.000000e+00 813
3 TraesCS2A01G068300 chr2A 87.443 661 75 6 3377 4032 30303208 30303865 0.000000e+00 754
4 TraesCS2A01G068300 chr2A 87.062 657 75 8 3377 4028 30254223 30253572 0.000000e+00 734
5 TraesCS2A01G068300 chr2A 87.559 635 71 6 3398 4028 30269850 30269220 0.000000e+00 728
6 TraesCS2A01G068300 chr2A 86.301 657 80 8 3377 4028 30244621 30243970 0.000000e+00 706
7 TraesCS2A01G068300 chr2A 87.411 421 43 5 4100 4517 30161986 30161573 4.950000e-130 475
8 TraesCS2A01G068300 chr2A 82.946 258 31 3 633 877 22435666 22435923 2.560000e-53 220
9 TraesCS2A01G068300 chr2A 96.296 81 3 0 5034 5114 30184034 30183954 3.430000e-27 134
10 TraesCS2A01G068300 chr2A 96.296 81 3 0 5092 5172 30184092 30184012 3.430000e-27 134
11 TraesCS2A01G068300 chr2D 93.215 5173 250 58 3 5114 28010291 28005159 0.000000e+00 7515
12 TraesCS2A01G068300 chr2D 85.458 2847 294 80 1 2768 27955711 27958516 0.000000e+00 2854
13 TraesCS2A01G068300 chr2D 86.113 1721 229 9 1054 2768 28001765 28000049 0.000000e+00 1845
14 TraesCS2A01G068300 chr2D 79.871 1545 188 70 25 1483 28095751 28094244 0.000000e+00 1016
15 TraesCS2A01G068300 chr2D 87.652 656 75 5 3377 4028 28416345 28415692 0.000000e+00 758
16 TraesCS2A01G068300 chr2D 88.361 421 48 1 4097 4517 27959730 27960149 6.320000e-139 505
17 TraesCS2A01G068300 chr2D 87.828 419 49 2 4100 4517 27998833 27998416 1.770000e-134 490
18 TraesCS2A01G068300 chr2D 80.282 639 74 26 4529 5143 28004898 28004288 8.410000e-118 435
19 TraesCS2A01G068300 chr2D 93.411 258 12 1 5213 5465 28004824 28004567 1.440000e-100 377
20 TraesCS2A01G068300 chr2D 81.236 437 67 4 4097 4521 28091806 28091373 6.780000e-89 339
21 TraesCS2A01G068300 chr2D 74.843 954 130 64 3 913 28002816 28001930 1.130000e-86 331
22 TraesCS2A01G068300 chr2D 88.462 234 18 6 508 734 28005155 28004924 1.940000e-69 274
23 TraesCS2A01G068300 chr2D 95.062 81 4 0 5092 5172 28005239 28005159 1.600000e-25 128
24 TraesCS2A01G068300 chr2B 96.091 3837 136 5 704 4530 45041697 45037865 0.000000e+00 6242
25 TraesCS2A01G068300 chr2B 97.659 2349 34 4 1637 3985 45534887 45537214 0.000000e+00 4013
26 TraesCS2A01G068300 chr2B 87.949 2058 211 20 735 2768 45033459 45031415 0.000000e+00 2392
27 TraesCS2A01G068300 chr2B 86.318 1703 227 6 1063 2762 44754727 44753028 0.000000e+00 1849
28 TraesCS2A01G068300 chr2B 85.924 1705 235 5 1060 2762 45542382 45544083 0.000000e+00 1814
29 TraesCS2A01G068300 chr2B 86.139 1681 227 6 1085 2762 44924486 44926163 0.000000e+00 1808
30 TraesCS2A01G068300 chr2B 81.471 2040 245 78 1 1952 45137947 45135953 0.000000e+00 1550
31 TraesCS2A01G068300 chr2B 93.646 661 30 3 4004 4655 45537205 45537862 0.000000e+00 977
32 TraesCS2A01G068300 chr2B 93.629 518 16 7 4598 5114 45037867 45037366 0.000000e+00 758
33 TraesCS2A01G068300 chr2B 88.707 611 66 3 3377 3985 44926721 44927330 0.000000e+00 743
34 TraesCS2A01G068300 chr2B 88.361 421 49 0 4097 4517 44751808 44751388 1.760000e-139 507
35 TraesCS2A01G068300 chr2B 88.517 418 47 1 4100 4517 45133887 45133471 6.320000e-139 505
36 TraesCS2A01G068300 chr2B 93.594 281 12 5 4743 5020 45538941 45539218 1.100000e-111 414
37 TraesCS2A01G068300 chr2B 86.329 395 32 11 5092 5465 45037447 45037054 1.420000e-110 411
38 TraesCS2A01G068300 chr2B 83.014 418 64 5 4101 4516 45626051 45626463 6.690000e-99 372
39 TraesCS2A01G068300 chr2B 79.046 482 65 25 449 913 44755354 44754892 1.150000e-76 298
40 TraesCS2A01G068300 chr2B 77.573 379 44 25 3 363 45540561 45540916 2.010000e-44 191
41 TraesCS2A01G068300 chr2B 84.530 181 20 5 5213 5393 45037862 45037690 7.280000e-39 172
42 TraesCS2A01G068300 chr2B 76.216 370 49 22 3 363 44762042 44761703 5.670000e-35 159
43 TraesCS2A01G068300 chr2B 94.595 74 3 1 551 623 105084032 105084105 4.470000e-21 113
44 TraesCS2A01G068300 chr2B 94.595 74 3 1 551 623 105097890 105097963 4.470000e-21 113
45 TraesCS2A01G068300 chr1A 82.470 251 38 6 632 877 240953846 240953597 1.190000e-51 215


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 TraesCS2A01G068300 chr2A 30183661 30189125 5464 True 10093.000000 10093 100.000000 1 5465 1 chr2A.!!$R1 5464
1 TraesCS2A01G068300 chr2A 30161573 30165804 4231 True 1430.000000 2385 85.518000 204 4517 2 chr2A.!!$R6 4313
2 TraesCS2A01G068300 chr2A 30212225 30213605 1380 True 813.000000 813 78.170000 1 1390 1 chr2A.!!$R2 1389
3 TraesCS2A01G068300 chr2A 30303208 30303865 657 False 754.000000 754 87.443000 3377 4032 1 chr2A.!!$F2 655
4 TraesCS2A01G068300 chr2A 30253572 30254223 651 True 734.000000 734 87.062000 3377 4028 1 chr2A.!!$R4 651
5 TraesCS2A01G068300 chr2A 30269220 30269850 630 True 728.000000 728 87.559000 3398 4028 1 chr2A.!!$R5 630
6 TraesCS2A01G068300 chr2A 30243970 30244621 651 True 706.000000 706 86.301000 3377 4028 1 chr2A.!!$R3 651
7 TraesCS2A01G068300 chr2D 27955711 27960149 4438 False 1679.500000 2854 86.909500 1 4517 2 chr2D.!!$F1 4516
8 TraesCS2A01G068300 chr2D 27998416 28010291 11875 True 1609.571429 7515 86.307714 3 5465 7 chr2D.!!$R3 5462
9 TraesCS2A01G068300 chr2D 28415692 28416345 653 True 758.000000 758 87.652000 3377 4028 1 chr2D.!!$R2 651
10 TraesCS2A01G068300 chr2D 28091373 28095751 4378 True 677.500000 1016 80.553500 25 4521 2 chr2D.!!$R4 4496
11 TraesCS2A01G068300 chr2B 45031415 45041697 10282 True 1995.000000 6242 89.705600 704 5465 5 chr2B.!!$R3 4761
12 TraesCS2A01G068300 chr2B 45534887 45544083 9196 False 1481.800000 4013 89.679200 3 5020 5 chr2B.!!$F5 5017
13 TraesCS2A01G068300 chr2B 44924486 44927330 2844 False 1275.500000 1808 87.423000 1085 3985 2 chr2B.!!$F4 2900
14 TraesCS2A01G068300 chr2B 45133471 45137947 4476 True 1027.500000 1550 84.994000 1 4517 2 chr2B.!!$R4 4516
15 TraesCS2A01G068300 chr2B 44751388 44755354 3966 True 884.666667 1849 84.575000 449 4517 3 chr2B.!!$R2 4068

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
397 506 0.033504 GGAAGACGAGTTGGTGAGCA 59.966 55.000 0.00 0.0 0.00 4.26 F
415 524 0.034896 CACCAGTTGCCGGTAAGTCT 59.965 55.000 9.96 0.0 34.02 3.24 F
503 613 0.179156 CCAATGTTCCATGCTGCGTC 60.179 55.000 0.00 0.0 0.00 5.19 F
743 901 0.315568 CGGTATGAGCCAGGACTAGC 59.684 60.000 0.00 0.0 0.00 3.42 F
1231 1456 1.140852 CCGGCATCAACTCTTATCCCA 59.859 52.381 0.00 0.0 0.00 4.37 F
1585 1811 2.077687 TACCGGTGGTATTCCTCTCC 57.922 55.000 19.93 0.0 37.09 3.71 F
4058 4450 0.039035 ACAGCGCATTTTCCCCCTAA 59.961 50.000 11.47 0.0 0.00 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1585 1811 1.303309 GAGGAGCAATCGGTCAATGG 58.697 55.000 0.00 0.00 41.62 3.16 R
1594 1820 1.338484 TGTGCTGAGTGAGGAGCAATC 60.338 52.381 0.00 0.00 46.49 2.67 R
2333 2592 1.800586 GCGACAAATCTTGCAGTCTCA 59.199 47.619 0.00 0.00 0.00 3.27 R
2949 3211 2.185310 ATTCCGGCACTGGACCAGAC 62.185 60.000 28.56 18.12 37.89 3.51 R
3981 4342 9.958180 AAACTATTTAATTGGGGATTTGGAAAG 57.042 29.630 0.00 0.00 0.00 2.62 R
4276 12022 1.001746 CTCCTCATGCGCCATATGAGT 59.998 52.381 25.70 0.00 46.38 3.41 R
5208 13983 0.322456 AGCAAACCCGCAGCAAGATA 60.322 50.000 0.00 0.00 0.00 1.98 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
70 72 2.431942 CGGTACCTGACGGTGTGC 60.432 66.667 10.90 0.00 45.18 4.57
137 170 4.785453 CTCCCCGGCCAGCAGTTC 62.785 72.222 2.24 0.00 0.00 3.01
141 174 4.431131 CCGGCCAGCAGTTCCCAT 62.431 66.667 2.24 0.00 0.00 4.00
143 176 2.440980 GGCCAGCAGTTCCCATCC 60.441 66.667 0.00 0.00 0.00 3.51
146 179 1.379044 CCAGCAGTTCCCATCCCAC 60.379 63.158 0.00 0.00 0.00 4.61
147 180 1.379044 CAGCAGTTCCCATCCCACC 60.379 63.158 0.00 0.00 0.00 4.61
150 183 1.609783 CAGTTCCCATCCCACCCTC 59.390 63.158 0.00 0.00 0.00 4.30
151 184 1.163309 AGTTCCCATCCCACCCTCA 59.837 57.895 0.00 0.00 0.00 3.86
152 185 1.208165 AGTTCCCATCCCACCCTCAC 61.208 60.000 0.00 0.00 0.00 3.51
153 186 1.163309 TTCCCATCCCACCCTCACT 59.837 57.895 0.00 0.00 0.00 3.41
156 189 0.409484 CCCATCCCACCCTCACTTTT 59.591 55.000 0.00 0.00 0.00 2.27
169 206 2.820037 CTTTTCCTCGCCGCCTCC 60.820 66.667 0.00 0.00 0.00 4.30
193 230 3.936535 GGTCTCCACCGTCCCTAG 58.063 66.667 0.00 0.00 31.06 3.02
194 231 1.000107 GGTCTCCACCGTCCCTAGT 60.000 63.158 0.00 0.00 31.06 2.57
195 232 0.614134 GGTCTCCACCGTCCCTAGTT 60.614 60.000 0.00 0.00 31.06 2.24
196 233 0.816373 GTCTCCACCGTCCCTAGTTC 59.184 60.000 0.00 0.00 0.00 3.01
198 235 1.305549 TCCACCGTCCCTAGTTCCC 60.306 63.158 0.00 0.00 0.00 3.97
199 236 1.611261 CCACCGTCCCTAGTTCCCA 60.611 63.158 0.00 0.00 0.00 4.37
200 237 1.595357 CACCGTCCCTAGTTCCCAC 59.405 63.158 0.00 0.00 0.00 4.61
201 238 1.980772 ACCGTCCCTAGTTCCCACG 60.981 63.158 0.00 0.00 0.00 4.94
202 239 1.679977 CCGTCCCTAGTTCCCACGA 60.680 63.158 0.00 0.00 32.08 4.35
278 338 0.895530 CCTCGCCTAGTGTTTCTCCA 59.104 55.000 0.00 0.00 0.00 3.86
279 348 1.404315 CCTCGCCTAGTGTTTCTCCAC 60.404 57.143 0.00 0.00 35.53 4.02
348 423 2.841988 GCTCAGGGCCTCCGAGAT 60.842 66.667 21.65 0.00 36.49 2.75
377 475 2.797278 GCAGGCTAGCCCTCGCTTA 61.797 63.158 30.42 0.00 45.55 3.09
395 504 3.839293 CTTAGGAAGACGAGTTGGTGAG 58.161 50.000 0.00 0.00 0.00 3.51
397 506 0.033504 GGAAGACGAGTTGGTGAGCA 59.966 55.000 0.00 0.00 0.00 4.26
415 524 0.034896 CACCAGTTGCCGGTAAGTCT 59.965 55.000 9.96 0.00 34.02 3.24
429 539 4.142138 CGGTAAGTCTTGCAGTAGATTCCT 60.142 45.833 2.95 0.00 0.00 3.36
431 541 6.239064 CGGTAAGTCTTGCAGTAGATTCCTAT 60.239 42.308 2.95 0.00 0.00 2.57
439 549 7.336931 TCTTGCAGTAGATTCCTATTTTTCCAC 59.663 37.037 0.00 0.00 0.00 4.02
440 550 6.480763 TGCAGTAGATTCCTATTTTTCCACA 58.519 36.000 0.00 0.00 0.00 4.17
443 553 7.769044 GCAGTAGATTCCTATTTTTCCACACTA 59.231 37.037 0.00 0.00 0.00 2.74
503 613 0.179156 CCAATGTTCCATGCTGCGTC 60.179 55.000 0.00 0.00 0.00 5.19
506 616 3.422303 GTTCCATGCTGCGTCGCA 61.422 61.111 20.44 20.44 45.10 5.10
540 658 4.826733 TCAGTTATGAAAGCATGTTGGTGT 59.173 37.500 0.00 0.00 35.94 4.16
541 659 4.919168 CAGTTATGAAAGCATGTTGGTGTG 59.081 41.667 0.00 0.00 35.94 3.82
547 665 1.370414 GCATGTTGGTGTGACACGC 60.370 57.895 9.90 10.77 34.83 5.34
563 681 3.052036 ACACGCAATTGCAATTCTGAAC 58.948 40.909 28.77 8.32 42.21 3.18
629 778 5.298276 TCAGGTTTGTTTATGTGTTCTGACC 59.702 40.000 0.00 0.00 0.00 4.02
667 816 1.595109 GCTTGGTTTGCCTTGGTGC 60.595 57.895 0.00 0.00 35.27 5.01
694 844 4.389374 TCTTGGTTTGTTCATCCTGTCTC 58.611 43.478 0.00 0.00 0.00 3.36
743 901 0.315568 CGGTATGAGCCAGGACTAGC 59.684 60.000 0.00 0.00 0.00 3.42
809 977 6.639632 TGCTCTTGGAATTTATATTCTGCC 57.360 37.500 5.97 0.00 40.07 4.85
831 1002 5.175856 GCCTACTGCAATTCTAATAGTCACG 59.824 44.000 0.00 0.00 40.77 4.35
847 1022 3.056749 AGTCACGGTACATTTCTCAGTCC 60.057 47.826 0.00 0.00 0.00 3.85
889 1064 8.283291 CACAAGTCTTTGTTTCATACTTCTACC 58.717 37.037 0.00 0.00 45.01 3.18
935 1130 3.069300 CAGGGTGAGATGACCTGTATCAG 59.931 52.174 0.00 0.00 45.21 2.90
989 1192 2.102578 CCATTCCTTCCGGCAGAAAAT 58.897 47.619 1.35 0.00 32.88 1.82
1047 1269 4.503991 CCAAGCTCCAGTCTAAAACACTCT 60.504 45.833 0.00 0.00 0.00 3.24
1077 1301 4.651778 TGGTTCTTCCACATCCTGTAAAG 58.348 43.478 0.00 0.00 41.93 1.85
1231 1456 1.140852 CCGGCATCAACTCTTATCCCA 59.859 52.381 0.00 0.00 0.00 4.37
1514 1740 5.650283 TCTTCAAGGTAACATCCCCATTTT 58.350 37.500 0.00 0.00 41.41 1.82
1545 1771 6.382608 CGCTAGCAATTCTCTTAGCTATGTA 58.617 40.000 16.45 0.00 38.73 2.29
1563 1789 6.089417 GCTATGTAAATCTTGCAAACAACACC 59.911 38.462 0.00 0.00 0.00 4.16
1585 1811 2.077687 TACCGGTGGTATTCCTCTCC 57.922 55.000 19.93 0.00 37.09 3.71
1594 1820 2.224305 GGTATTCCTCTCCCATTGACCG 60.224 54.545 0.00 0.00 0.00 4.79
1806 2032 3.881688 CTGGAAGCATACCTCCTTCAATG 59.118 47.826 0.00 0.00 39.30 2.82
1889 2115 5.133941 TCCAGAAGCTATAGGTCACACTAG 58.866 45.833 4.63 0.00 0.00 2.57
2333 2592 4.523943 TGCAGCAGTTGTTAATCTTTCCAT 59.476 37.500 0.00 0.00 0.00 3.41
3764 4125 2.680221 GCCAGAGGATATGCATAGCAGG 60.680 54.545 22.52 17.67 43.65 4.85
3981 4342 3.270877 CATAGCACCTGGTGAGTTTACC 58.729 50.000 30.23 10.43 41.24 2.85
3982 4343 1.435256 AGCACCTGGTGAGTTTACCT 58.565 50.000 30.23 12.59 41.43 3.08
3983 4344 1.774856 AGCACCTGGTGAGTTTACCTT 59.225 47.619 30.23 0.87 41.43 3.50
3984 4345 2.174854 AGCACCTGGTGAGTTTACCTTT 59.825 45.455 30.23 0.00 41.43 3.11
3985 4346 2.552743 GCACCTGGTGAGTTTACCTTTC 59.447 50.000 30.23 4.02 41.43 2.62
3986 4347 3.146847 CACCTGGTGAGTTTACCTTTCC 58.853 50.000 22.33 0.00 41.43 3.13
3987 4348 2.781174 ACCTGGTGAGTTTACCTTTCCA 59.219 45.455 0.00 0.00 41.43 3.53
3988 4349 3.203487 ACCTGGTGAGTTTACCTTTCCAA 59.797 43.478 0.00 0.00 41.43 3.53
3989 4350 4.211920 CCTGGTGAGTTTACCTTTCCAAA 58.788 43.478 0.00 0.00 41.43 3.28
3990 4351 4.832823 CCTGGTGAGTTTACCTTTCCAAAT 59.167 41.667 0.00 0.00 41.43 2.32
3991 4352 5.048013 CCTGGTGAGTTTACCTTTCCAAATC 60.048 44.000 0.00 0.00 41.43 2.17
3992 4353 4.830600 TGGTGAGTTTACCTTTCCAAATCC 59.169 41.667 0.00 0.00 41.43 3.01
3993 4354 4.219944 GGTGAGTTTACCTTTCCAAATCCC 59.780 45.833 0.00 0.00 37.74 3.85
3994 4355 4.219944 GTGAGTTTACCTTTCCAAATCCCC 59.780 45.833 0.00 0.00 0.00 4.81
3995 4356 4.140900 TGAGTTTACCTTTCCAAATCCCCA 60.141 41.667 0.00 0.00 0.00 4.96
3996 4357 4.821940 AGTTTACCTTTCCAAATCCCCAA 58.178 39.130 0.00 0.00 0.00 4.12
3997 4358 5.411493 AGTTTACCTTTCCAAATCCCCAAT 58.589 37.500 0.00 0.00 0.00 3.16
3998 4359 5.849475 AGTTTACCTTTCCAAATCCCCAATT 59.151 36.000 0.00 0.00 0.00 2.32
3999 4360 7.020009 AGTTTACCTTTCCAAATCCCCAATTA 58.980 34.615 0.00 0.00 0.00 1.40
4000 4361 7.514473 AGTTTACCTTTCCAAATCCCCAATTAA 59.486 33.333 0.00 0.00 0.00 1.40
4001 4362 7.873699 TTACCTTTCCAAATCCCCAATTAAA 57.126 32.000 0.00 0.00 0.00 1.52
4002 4363 6.968400 ACCTTTCCAAATCCCCAATTAAAT 57.032 33.333 0.00 0.00 0.00 1.40
4003 4364 9.562226 TTACCTTTCCAAATCCCCAATTAAATA 57.438 29.630 0.00 0.00 0.00 1.40
4004 4365 8.089625 ACCTTTCCAAATCCCCAATTAAATAG 57.910 34.615 0.00 0.00 0.00 1.73
4005 4366 7.682459 ACCTTTCCAAATCCCCAATTAAATAGT 59.318 33.333 0.00 0.00 0.00 2.12
4006 4367 8.548025 CCTTTCCAAATCCCCAATTAAATAGTT 58.452 33.333 0.00 0.00 0.00 2.24
4007 4368 9.958180 CTTTCCAAATCCCCAATTAAATAGTTT 57.042 29.630 0.00 0.00 0.00 2.66
4057 4449 0.913205 TACAGCGCATTTTCCCCCTA 59.087 50.000 11.47 0.00 0.00 3.53
4058 4450 0.039035 ACAGCGCATTTTCCCCCTAA 59.961 50.000 11.47 0.00 0.00 2.69
4094 4486 7.176515 TGCATGGTTTATTGAGTATTTGAGTGT 59.823 33.333 0.00 0.00 0.00 3.55
4260 12006 2.187958 TCCATGTTCCCTGACCTAGTG 58.812 52.381 0.00 0.00 0.00 2.74
4276 12022 2.294449 AGTGGCGGAGATGCTAGATA 57.706 50.000 0.00 0.00 34.52 1.98
4562 12329 2.070783 CAAGTGCCCAATGTGATTTGC 58.929 47.619 0.00 0.00 0.00 3.68
4565 12332 1.001181 GTGCCCAATGTGATTTGCAGT 59.999 47.619 0.00 0.00 30.75 4.40
4566 12333 1.001068 TGCCCAATGTGATTTGCAGTG 59.999 47.619 0.00 0.00 0.00 3.66
4620 12387 0.179124 TTTGTTGCGGGTTTGCTGAC 60.179 50.000 0.00 0.00 35.36 3.51
4655 13395 6.747414 TGATCTTAAGGTGTATGTATGGCT 57.253 37.500 1.85 0.00 0.00 4.75
4724 13464 7.630242 TTTCTGTCAAATCTTACATCCATCC 57.370 36.000 0.00 0.00 0.00 3.51
4725 13465 6.312141 TCTGTCAAATCTTACATCCATCCA 57.688 37.500 0.00 0.00 0.00 3.41
4770 13542 2.818751 TGGGTTAACTATTGGCTGGG 57.181 50.000 5.42 0.00 0.00 4.45
4784 13556 1.351350 GGCTGGGTCTAGTTTTGGTCT 59.649 52.381 0.00 0.00 0.00 3.85
4785 13557 2.615747 GGCTGGGTCTAGTTTTGGTCTC 60.616 54.545 0.00 0.00 0.00 3.36
4786 13558 2.303311 GCTGGGTCTAGTTTTGGTCTCT 59.697 50.000 0.00 0.00 0.00 3.10
4789 13561 5.512576 GCTGGGTCTAGTTTTGGTCTCTAAA 60.513 44.000 0.00 0.00 0.00 1.85
4790 13562 6.110411 TGGGTCTAGTTTTGGTCTCTAAAG 57.890 41.667 0.00 0.00 0.00 1.85
4791 13563 5.605488 TGGGTCTAGTTTTGGTCTCTAAAGT 59.395 40.000 0.00 0.00 0.00 2.66
4792 13564 6.164876 GGGTCTAGTTTTGGTCTCTAAAGTC 58.835 44.000 0.00 0.00 0.00 3.01
4793 13565 6.014413 GGGTCTAGTTTTGGTCTCTAAAGTCT 60.014 42.308 0.00 0.00 0.00 3.24
4794 13566 6.869388 GGTCTAGTTTTGGTCTCTAAAGTCTG 59.131 42.308 0.00 0.00 0.00 3.51
4796 13568 7.595875 GTCTAGTTTTGGTCTCTAAAGTCTGAC 59.404 40.741 0.00 0.00 0.00 3.51
4797 13569 6.235231 AGTTTTGGTCTCTAAAGTCTGACA 57.765 37.500 10.88 0.00 0.00 3.58
4940 13715 7.335924 TGGAATGGGAACGTTTTATTCTAGAAG 59.664 37.037 21.60 0.00 40.42 2.85
5023 13798 9.031360 GGAAATGTAAAAAGGAAGTTGAGAAAC 57.969 33.333 0.00 0.00 0.00 2.78
5050 13825 7.552458 TTAAGACGAATCATGCAACATGTAT 57.448 32.000 0.00 0.00 0.00 2.29
5051 13826 6.441093 AAGACGAATCATGCAACATGTATT 57.559 33.333 0.00 0.00 0.00 1.89
5052 13827 6.441093 AGACGAATCATGCAACATGTATTT 57.559 33.333 0.00 1.36 0.00 1.40
5053 13828 6.855836 AGACGAATCATGCAACATGTATTTT 58.144 32.000 0.00 0.00 0.00 1.82
5055 13830 7.485913 AGACGAATCATGCAACATGTATTTTTC 59.514 33.333 0.00 0.00 0.00 2.29
5059 13834 6.297080 TCATGCAACATGTATTTTTCCCAT 57.703 33.333 0.00 0.00 0.00 4.00
5060 13835 6.107343 TCATGCAACATGTATTTTTCCCATG 58.893 36.000 0.00 4.09 41.31 3.66
5061 13836 5.735285 TGCAACATGTATTTTTCCCATGA 57.265 34.783 0.00 0.00 38.56 3.07
5062 13837 6.106648 TGCAACATGTATTTTTCCCATGAA 57.893 33.333 0.00 0.00 38.56 2.57
5064 13839 6.594547 TGCAACATGTATTTTTCCCATGAATG 59.405 34.615 0.00 5.74 38.56 2.67
5066 13841 6.549433 ACATGTATTTTTCCCATGAATGCT 57.451 33.333 0.00 0.00 38.56 3.79
5069 13844 8.199449 ACATGTATTTTTCCCATGAATGCTTAG 58.801 33.333 0.00 0.00 38.56 2.18
5072 13847 8.469200 TGTATTTTTCCCATGAATGCTTAGAAG 58.531 33.333 0.00 0.00 0.00 2.85
5073 13848 7.722949 ATTTTTCCCATGAATGCTTAGAAGA 57.277 32.000 0.00 0.00 0.00 2.87
5074 13849 6.515272 TTTTCCCATGAATGCTTAGAAGAC 57.485 37.500 0.00 0.00 0.00 3.01
5077 13852 5.759059 TCCCATGAATGCTTAGAAGACATT 58.241 37.500 0.00 9.97 36.32 2.71
5079 13854 7.345691 TCCCATGAATGCTTAGAAGACATTTA 58.654 34.615 0.00 8.66 34.91 1.40
5080 13855 8.000709 TCCCATGAATGCTTAGAAGACATTTAT 58.999 33.333 0.00 9.97 34.91 1.40
5081 13856 8.080417 CCCATGAATGCTTAGAAGACATTTATG 58.920 37.037 21.27 21.27 40.67 1.90
5082 13857 8.843262 CCATGAATGCTTAGAAGACATTTATGA 58.157 33.333 25.08 10.80 41.73 2.15
5087 13862 7.870509 TGCTTAGAAGACATTTATGAAGCAT 57.129 32.000 9.06 0.00 42.14 3.79
5088 13863 7.923888 TGCTTAGAAGACATTTATGAAGCATC 58.076 34.615 9.06 0.00 42.14 3.91
5089 13864 7.553760 TGCTTAGAAGACATTTATGAAGCATCA 59.446 33.333 9.06 0.00 42.14 3.07
5090 13865 8.400947 GCTTAGAAGACATTTATGAAGCATCAA 58.599 33.333 0.00 0.00 39.49 2.57
5091 13866 9.932699 CTTAGAAGACATTTATGAAGCATCAAG 57.067 33.333 0.00 0.00 39.49 3.02
5092 13867 9.671279 TTAGAAGACATTTATGAAGCATCAAGA 57.329 29.630 0.00 0.00 39.49 3.02
5093 13868 8.571461 AGAAGACATTTATGAAGCATCAAGAA 57.429 30.769 0.00 0.00 39.49 2.52
5094 13869 9.017509 AGAAGACATTTATGAAGCATCAAGAAA 57.982 29.630 0.00 0.34 39.49 2.52
5095 13870 8.976986 AAGACATTTATGAAGCATCAAGAAAC 57.023 30.769 0.00 0.00 39.49 2.78
5097 13872 8.746530 AGACATTTATGAAGCATCAAGAAACAT 58.253 29.630 0.00 0.00 39.49 2.71
5098 13873 8.697846 ACATTTATGAAGCATCAAGAAACATG 57.302 30.769 0.00 0.00 39.49 3.21
5099 13874 7.277098 ACATTTATGAAGCATCAAGAAACATGC 59.723 33.333 0.00 0.00 44.96 4.06
5101 13876 4.587584 TGAAGCATCAAGAAACATGCAA 57.412 36.364 6.66 0.00 46.70 4.08
5102 13877 4.300803 TGAAGCATCAAGAAACATGCAAC 58.699 39.130 6.66 1.22 46.70 4.17
5104 13879 4.530710 AGCATCAAGAAACATGCAACAT 57.469 36.364 6.66 0.00 46.70 2.71
5105 13880 4.242475 AGCATCAAGAAACATGCAACATG 58.758 39.130 6.03 6.03 46.70 3.21
5148 13923 8.400947 GCTTAGAAGACATTTATGAAGCATCAA 58.599 33.333 0.00 0.00 39.49 2.57
5163 13938 5.648178 AGCATCAAGAAACATGCAACATA 57.352 34.783 6.66 0.00 46.70 2.29
5218 13993 6.867662 ATTAAGGTGTATGTATCTTGCTGC 57.132 37.500 0.00 0.00 0.00 5.25
5230 14024 2.467946 CTTGCTGCGGGTTTGCTGAG 62.468 60.000 0.00 0.00 36.04 3.35
5273 14067 4.134563 AGGTGTATGTATGGCGAAATTCC 58.865 43.478 0.00 0.00 0.00 3.01
5282 14076 6.408035 TGTATGGCGAAATTCCTGTACTTAA 58.592 36.000 0.00 0.00 0.00 1.85
5290 14084 9.783256 GCGAAATTCCTGTACTTAATAATTTGT 57.217 29.630 0.00 0.00 29.33 2.83
5319 14114 9.956720 ACTGTACGGTATATATCAAGTTGTTAC 57.043 33.333 5.26 0.00 0.00 2.50
5403 14198 5.749462 CTGAATCTAGTTTTGGTCCCTGAT 58.251 41.667 0.00 0.00 0.00 2.90
5414 14209 2.912295 TGGTCCCTGATGTCTGAAATGA 59.088 45.455 0.00 0.00 0.00 2.57
5419 14214 3.564644 CCCTGATGTCTGAAATGAGATGC 59.435 47.826 0.00 0.00 0.00 3.91
5450 14245 4.117685 ACACTCAACTTACGAAACCAGAC 58.882 43.478 0.00 0.00 0.00 3.51
5458 14253 6.937436 ACTTACGAAACCAGACAGATTTTT 57.063 33.333 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 1.819229 GGCTGAGAGCGGATCTTCA 59.181 57.895 0.00 0.00 43.62 3.02
18 19 3.376935 ATCCAACGGCTGAGAGCGG 62.377 63.158 0.00 0.00 43.62 5.52
20 21 0.107945 AAGATCCAACGGCTGAGAGC 60.108 55.000 0.00 0.00 41.46 4.09
130 163 2.616458 GGGTGGGATGGGAACTGCT 61.616 63.158 0.00 0.00 0.00 4.24
134 167 1.208165 AGTGAGGGTGGGATGGGAAC 61.208 60.000 0.00 0.00 0.00 3.62
135 168 0.477597 AAGTGAGGGTGGGATGGGAA 60.478 55.000 0.00 0.00 0.00 3.97
136 169 0.477597 AAAGTGAGGGTGGGATGGGA 60.478 55.000 0.00 0.00 0.00 4.37
137 170 0.409484 AAAAGTGAGGGTGGGATGGG 59.591 55.000 0.00 0.00 0.00 4.00
138 171 1.616994 GGAAAAGTGAGGGTGGGATGG 60.617 57.143 0.00 0.00 0.00 3.51
140 173 1.636003 GAGGAAAAGTGAGGGTGGGAT 59.364 52.381 0.00 0.00 0.00 3.85
141 174 1.064825 GAGGAAAAGTGAGGGTGGGA 58.935 55.000 0.00 0.00 0.00 4.37
143 176 0.955919 GCGAGGAAAAGTGAGGGTGG 60.956 60.000 0.00 0.00 0.00 4.61
146 179 1.741770 CGGCGAGGAAAAGTGAGGG 60.742 63.158 0.00 0.00 0.00 4.30
147 180 2.391389 GCGGCGAGGAAAAGTGAGG 61.391 63.158 12.98 0.00 0.00 3.86
150 183 2.358737 AGGCGGCGAGGAAAAGTG 60.359 61.111 12.98 0.00 0.00 3.16
151 184 2.047179 GAGGCGGCGAGGAAAAGT 60.047 61.111 12.98 0.00 0.00 2.66
152 185 2.820037 GGAGGCGGCGAGGAAAAG 60.820 66.667 12.98 0.00 0.00 2.27
153 186 3.632080 TGGAGGCGGCGAGGAAAA 61.632 61.111 12.98 0.00 0.00 2.29
169 206 4.778415 CGGTGGAGACCTCGCGTG 62.778 72.222 5.77 2.75 40.58 5.34
175 212 1.306970 CTAGGGACGGTGGAGACCT 59.693 63.158 0.00 0.00 40.58 3.85
180 217 1.305549 GGGAACTAGGGACGGTGGA 60.306 63.158 0.00 0.00 0.00 4.02
186 223 1.509923 CGTCGTGGGAACTAGGGAC 59.490 63.158 0.00 0.00 0.00 4.46
187 224 1.679977 CCGTCGTGGGAACTAGGGA 60.680 63.158 0.00 0.00 0.00 4.20
190 227 1.139095 GAGCCGTCGTGGGAACTAG 59.861 63.158 0.00 0.00 38.63 2.57
191 228 2.693762 CGAGCCGTCGTGGGAACTA 61.694 63.158 0.00 0.00 41.57 2.24
192 229 4.052229 CGAGCCGTCGTGGGAACT 62.052 66.667 0.00 0.00 41.57 3.01
218 255 4.338539 AGTGGTGGCGTCGTCGAC 62.339 66.667 15.51 15.51 46.54 4.20
219 256 4.337060 CAGTGGTGGCGTCGTCGA 62.337 66.667 6.17 0.00 39.71 4.20
333 405 0.617535 TTGAATCTCGGAGGCCCTGA 60.618 55.000 0.00 0.08 0.00 3.86
334 406 0.253044 TTTGAATCTCGGAGGCCCTG 59.747 55.000 0.00 0.00 0.00 4.45
343 418 1.089920 CTGCTGGGGTTTGAATCTCG 58.910 55.000 0.00 0.00 0.00 4.04
348 423 0.038166 CTAGCCTGCTGGGGTTTGAA 59.962 55.000 12.06 0.00 44.41 2.69
377 475 0.318762 GCTCACCAACTCGTCTTCCT 59.681 55.000 0.00 0.00 0.00 3.36
397 506 0.763035 AAGACTTACCGGCAACTGGT 59.237 50.000 0.00 3.17 44.00 4.00
399 508 0.517316 GCAAGACTTACCGGCAACTG 59.483 55.000 0.00 0.00 0.00 3.16
400 509 0.107831 TGCAAGACTTACCGGCAACT 59.892 50.000 0.00 0.00 0.00 3.16
403 512 0.970640 TACTGCAAGACTTACCGGCA 59.029 50.000 0.00 0.00 37.43 5.69
404 513 1.203994 TCTACTGCAAGACTTACCGGC 59.796 52.381 0.00 0.00 37.43 6.13
405 514 3.802948 ATCTACTGCAAGACTTACCGG 57.197 47.619 0.00 0.00 37.43 5.28
415 524 6.945435 TGTGGAAAAATAGGAATCTACTGCAA 59.055 34.615 0.00 0.00 0.00 4.08
453 563 7.837863 TCGAGTAGATAACCATATTTCATCCC 58.162 38.462 0.00 0.00 0.00 3.85
503 613 4.571984 TCATAACTGAATCTGAATGGTGCG 59.428 41.667 0.00 0.00 0.00 5.34
506 616 6.660521 TGCTTTCATAACTGAATCTGAATGGT 59.339 34.615 0.00 0.00 40.95 3.55
528 646 2.320215 CGTGTCACACCAACATGCT 58.680 52.632 1.24 0.00 0.00 3.79
540 658 2.292845 TCAGAATTGCAATTGCGTGTCA 59.707 40.909 28.67 4.55 45.83 3.58
541 659 2.932498 TCAGAATTGCAATTGCGTGTC 58.068 42.857 28.67 19.46 45.83 3.67
547 665 5.524646 ACAAACTGGTTCAGAATTGCAATTG 59.475 36.000 28.67 16.38 36.29 2.32
563 681 6.261826 AGACATTTCTTCAGAGAACAAACTGG 59.738 38.462 0.00 0.00 41.46 4.00
629 778 2.014857 CCATTGACTGATGCTGGAGTG 58.985 52.381 0.00 0.00 0.00 3.51
667 816 1.200020 GATGAACAAACCAAGAGGCGG 59.800 52.381 0.00 0.00 39.06 6.13
743 901 2.159517 GCGACACAAGGATGCTTTAAGG 60.160 50.000 0.00 0.00 0.00 2.69
748 906 0.250467 ACAGCGACACAAGGATGCTT 60.250 50.000 0.00 0.00 32.66 3.91
809 977 6.273825 ACCGTGACTATTAGAATTGCAGTAG 58.726 40.000 0.00 0.00 0.00 2.57
823 994 5.163540 GGACTGAGAAATGTACCGTGACTAT 60.164 44.000 0.00 0.00 0.00 2.12
831 1002 2.000447 GTGCGGACTGAGAAATGTACC 59.000 52.381 0.00 0.00 0.00 3.34
847 1022 0.927537 TGTGAGAGAAAACGTGTGCG 59.072 50.000 0.00 0.00 44.93 5.34
889 1064 2.095059 CGTGATGCAAGGGGAAAGAAAG 60.095 50.000 0.00 0.00 0.00 2.62
897 1072 1.308069 CCTGAACGTGATGCAAGGGG 61.308 60.000 0.00 0.00 0.00 4.79
935 1130 2.987821 GCTCGACTAAGTTGACTTGACC 59.012 50.000 6.64 0.00 37.40 4.02
989 1192 7.885922 TGTGTGTAGAGGCCATTTAAAGATTTA 59.114 33.333 5.01 0.00 0.00 1.40
1077 1301 2.425143 TTGAGGGCATGATTCCAGAC 57.575 50.000 0.00 0.00 0.00 3.51
1231 1456 7.348815 TCACTCCATGAATTTAGGATGTCAAT 58.651 34.615 0.00 0.00 33.02 2.57
1514 1740 2.695666 AGAGAATTGCTAGCGCCTAAGA 59.304 45.455 10.77 0.00 34.43 2.10
1545 1771 4.486125 AAGGGTGTTGTTTGCAAGATTT 57.514 36.364 0.00 0.00 34.94 2.17
1563 1789 2.364647 GAGAGGAATACCACCGGTAAGG 59.635 54.545 6.87 8.39 41.85 2.69
1578 1804 1.486310 CAATCGGTCAATGGGAGAGGA 59.514 52.381 0.00 0.00 0.00 3.71
1585 1811 1.303309 GAGGAGCAATCGGTCAATGG 58.697 55.000 0.00 0.00 41.62 3.16
1594 1820 1.338484 TGTGCTGAGTGAGGAGCAATC 60.338 52.381 0.00 0.00 46.49 2.67
1889 2115 2.620585 AGGTCAAGCTCAAGCAGTTTTC 59.379 45.455 4.59 0.00 45.16 2.29
2261 2520 3.219281 TCCAAGGACAACTTTGTAAGCC 58.781 45.455 0.00 0.00 42.43 4.35
2333 2592 1.800586 GCGACAAATCTTGCAGTCTCA 59.199 47.619 0.00 0.00 0.00 3.27
2949 3211 2.185310 ATTCCGGCACTGGACCAGAC 62.185 60.000 28.56 18.12 37.89 3.51
3981 4342 9.958180 AAACTATTTAATTGGGGATTTGGAAAG 57.042 29.630 0.00 0.00 0.00 2.62
4003 4364 9.865321 ACAATACACATACGTACAAGATAAACT 57.135 29.630 0.00 0.00 0.00 2.66
4007 4368 9.857957 TGAAACAATACACATACGTACAAGATA 57.142 29.630 0.00 0.00 0.00 1.98
4008 4369 8.653338 GTGAAACAATACACATACGTACAAGAT 58.347 33.333 0.00 0.00 37.05 2.40
4009 4370 7.116662 GGTGAAACAATACACATACGTACAAGA 59.883 37.037 0.00 0.00 39.98 3.02
4010 4371 7.117236 AGGTGAAACAATACACATACGTACAAG 59.883 37.037 0.00 0.00 39.98 3.16
4057 4449 9.970395 CTCAATAAACCATGCATACATACATTT 57.030 29.630 0.00 0.00 33.67 2.32
4058 4450 9.135189 ACTCAATAAACCATGCATACATACATT 57.865 29.630 0.00 0.00 33.67 2.71
4094 4486 1.134521 CCAGCCCGTACTCTGCAAATA 60.135 52.381 0.00 0.00 0.00 1.40
4260 12006 2.163509 TGAGTATCTAGCATCTCCGCC 58.836 52.381 0.00 0.00 34.92 6.13
4276 12022 1.001746 CTCCTCATGCGCCATATGAGT 59.998 52.381 25.70 0.00 46.38 3.41
4337 12095 2.672996 CCAGAGCAACCAACGGGG 60.673 66.667 0.00 0.00 44.81 5.73
4542 12309 2.070783 GCAAATCACATTGGGCACTTG 58.929 47.619 0.00 0.00 0.00 3.16
4562 12329 1.532868 GTAGCCAACTGTTGCTCACTG 59.467 52.381 14.94 1.75 39.00 3.66
4585 12352 5.505654 CGCAACAAAGGATAGTTGACACTTT 60.506 40.000 9.25 0.00 46.01 2.66
4722 13462 9.920946 AAGAAGGATTTATGCTATTAAACTGGA 57.079 29.630 0.00 0.00 0.00 3.86
4734 13474 8.094548 AGTTAACCCAAAAAGAAGGATTTATGC 58.905 33.333 0.88 0.00 0.00 3.14
4770 13542 7.595875 GTCAGACTTTAGAGACCAAAACTAGAC 59.404 40.741 0.00 0.00 0.00 2.59
4784 13556 4.760715 AGCTACGTCTTGTCAGACTTTAGA 59.239 41.667 1.31 0.00 46.67 2.10
4785 13557 4.854291 CAGCTACGTCTTGTCAGACTTTAG 59.146 45.833 1.31 3.16 46.67 1.85
4786 13558 4.517832 TCAGCTACGTCTTGTCAGACTTTA 59.482 41.667 1.31 0.00 46.67 1.85
4789 13561 2.226912 GTCAGCTACGTCTTGTCAGACT 59.773 50.000 1.31 0.00 46.67 3.24
4790 13562 2.031069 TGTCAGCTACGTCTTGTCAGAC 60.031 50.000 0.00 0.00 45.54 3.51
4791 13563 2.031069 GTGTCAGCTACGTCTTGTCAGA 60.031 50.000 0.00 0.00 0.00 3.27
4792 13564 2.030717 AGTGTCAGCTACGTCTTGTCAG 60.031 50.000 0.00 0.00 0.00 3.51
4793 13565 1.954382 AGTGTCAGCTACGTCTTGTCA 59.046 47.619 0.00 0.00 0.00 3.58
4794 13566 2.031069 TGAGTGTCAGCTACGTCTTGTC 60.031 50.000 0.00 0.00 0.00 3.18
4796 13568 2.706555 TGAGTGTCAGCTACGTCTTG 57.293 50.000 0.00 0.00 0.00 3.02
4797 13569 2.623889 AGTTGAGTGTCAGCTACGTCTT 59.376 45.455 0.00 0.00 36.14 3.01
4974 13749 7.436118 TCCTGTTCTTTTCCATTCTTCAAATG 58.564 34.615 0.00 0.00 0.00 2.32
5050 13825 6.493115 TGTCTTCTAAGCATTCATGGGAAAAA 59.507 34.615 0.00 0.00 36.43 1.94
5051 13826 6.009589 TGTCTTCTAAGCATTCATGGGAAAA 58.990 36.000 0.00 0.00 36.43 2.29
5052 13827 5.569355 TGTCTTCTAAGCATTCATGGGAAA 58.431 37.500 0.00 0.00 36.43 3.13
5053 13828 5.178096 TGTCTTCTAAGCATTCATGGGAA 57.822 39.130 0.00 0.00 37.45 3.97
5055 13830 6.461110 AAATGTCTTCTAAGCATTCATGGG 57.539 37.500 10.62 0.00 34.22 4.00
5059 13834 8.400947 GCTTCATAAATGTCTTCTAAGCATTCA 58.599 33.333 10.62 1.32 38.33 2.57
5060 13835 8.400947 TGCTTCATAAATGTCTTCTAAGCATTC 58.599 33.333 9.26 2.06 42.10 2.67
5061 13836 8.284945 TGCTTCATAAATGTCTTCTAAGCATT 57.715 30.769 9.26 6.57 42.10 3.56
5062 13837 7.870509 TGCTTCATAAATGTCTTCTAAGCAT 57.129 32.000 9.26 0.00 42.10 3.79
5064 13839 7.923888 TGATGCTTCATAAATGTCTTCTAAGC 58.076 34.615 0.00 0.00 38.78 3.09
5066 13841 9.671279 TCTTGATGCTTCATAAATGTCTTCTAA 57.329 29.630 2.75 0.00 0.00 2.10
5069 13844 9.070149 GTTTCTTGATGCTTCATAAATGTCTTC 57.930 33.333 2.75 0.00 0.00 2.87
5072 13847 8.804743 CATGTTTCTTGATGCTTCATAAATGTC 58.195 33.333 2.75 0.00 0.00 3.06
5073 13848 7.277098 GCATGTTTCTTGATGCTTCATAAATGT 59.723 33.333 2.75 0.00 41.52 2.71
5074 13849 7.276878 TGCATGTTTCTTGATGCTTCATAAATG 59.723 33.333 2.75 5.52 44.46 2.32
5077 13852 6.270156 TGCATGTTTCTTGATGCTTCATAA 57.730 33.333 2.75 0.00 44.46 1.90
5079 13854 4.794278 TGCATGTTTCTTGATGCTTCAT 57.206 36.364 2.75 0.00 44.46 2.57
5080 13855 4.202131 TGTTGCATGTTTCTTGATGCTTCA 60.202 37.500 0.00 0.00 44.46 3.02
5081 13856 4.300803 TGTTGCATGTTTCTTGATGCTTC 58.699 39.130 0.00 0.00 44.46 3.86
5082 13857 4.325028 TGTTGCATGTTTCTTGATGCTT 57.675 36.364 0.00 0.00 44.46 3.91
5087 13862 8.659925 AAAAATACATGTTGCATGTTTCTTGA 57.340 26.923 18.12 2.04 33.76 3.02
5191 13966 9.764363 CAGCAAGATACATACACCTTAATAAGA 57.236 33.333 0.83 0.00 0.00 2.10
5192 13967 8.499162 GCAGCAAGATACATACACCTTAATAAG 58.501 37.037 0.00 0.00 0.00 1.73
5193 13968 7.170828 CGCAGCAAGATACATACACCTTAATAA 59.829 37.037 0.00 0.00 0.00 1.40
5195 13970 5.466728 CGCAGCAAGATACATACACCTTAAT 59.533 40.000 0.00 0.00 0.00 1.40
5196 13971 4.808895 CGCAGCAAGATACATACACCTTAA 59.191 41.667 0.00 0.00 0.00 1.85
5197 13972 4.368315 CGCAGCAAGATACATACACCTTA 58.632 43.478 0.00 0.00 0.00 2.69
5198 13973 3.198068 CGCAGCAAGATACATACACCTT 58.802 45.455 0.00 0.00 0.00 3.50
5200 13975 1.867233 CCGCAGCAAGATACATACACC 59.133 52.381 0.00 0.00 0.00 4.16
5201 13976 1.867233 CCCGCAGCAAGATACATACAC 59.133 52.381 0.00 0.00 0.00 2.90
5202 13977 1.484653 ACCCGCAGCAAGATACATACA 59.515 47.619 0.00 0.00 0.00 2.29
5205 13980 1.745087 CAAACCCGCAGCAAGATACAT 59.255 47.619 0.00 0.00 0.00 2.29
5206 13981 1.164411 CAAACCCGCAGCAAGATACA 58.836 50.000 0.00 0.00 0.00 2.29
5208 13983 0.322456 AGCAAACCCGCAGCAAGATA 60.322 50.000 0.00 0.00 0.00 1.98
5209 13984 1.604593 AGCAAACCCGCAGCAAGAT 60.605 52.632 0.00 0.00 0.00 2.40
5210 13985 2.203337 AGCAAACCCGCAGCAAGA 60.203 55.556 0.00 0.00 0.00 3.02
5213 13988 2.979676 CTCAGCAAACCCGCAGCA 60.980 61.111 0.00 0.00 0.00 4.41
5214 13989 1.234615 TAACTCAGCAAACCCGCAGC 61.235 55.000 0.00 0.00 0.00 5.25
5215 13990 1.453155 ATAACTCAGCAAACCCGCAG 58.547 50.000 0.00 0.00 0.00 5.18
5216 13991 1.810151 GAATAACTCAGCAAACCCGCA 59.190 47.619 0.00 0.00 0.00 5.69
5218 13993 6.436843 AATAAGAATAACTCAGCAAACCCG 57.563 37.500 0.00 0.00 0.00 5.28
5312 14107 8.443937 GGATGTAAGATTTGACAGAGTAACAAC 58.556 37.037 0.00 0.00 0.00 3.32
5319 14114 7.678947 AAACTGGATGTAAGATTTGACAGAG 57.321 36.000 0.00 0.00 0.00 3.35
5372 14167 5.358160 ACCAAAACTAGATTCAGCCAATAGC 59.642 40.000 0.00 0.00 44.25 2.97
5386 14181 4.020218 TCAGACATCAGGGACCAAAACTAG 60.020 45.833 0.00 0.00 0.00 2.57
5403 14198 5.411831 ACTACTGCATCTCATTTCAGACA 57.588 39.130 0.00 0.00 0.00 3.41
5414 14209 4.607293 TTGAGTGTCAACTACTGCATCT 57.393 40.909 0.00 0.00 36.52 2.90


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

AutoCloner maintained by Alex Coulton.