Multiple sequence alignment - TraesCS7D01G205000

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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 TraesCS7D01G205000 chr7D 100.000 3870 0 0 1 3870 162824834 162820965 0.000000e+00 7147
1 TraesCS7D01G205000 chr7D 88.705 1027 111 4 2490 3511 162793765 162792739 0.000000e+00 1249
2 TraesCS7D01G205000 chr7D 91.990 387 29 1 2108 2492 162794248 162793862 3.400000e-150 542
3 TraesCS7D01G205000 chr7D 86.455 347 44 3 1 345 490884139 490884484 1.010000e-100 377
4 TraesCS7D01G205000 chr7A 94.217 1712 89 6 2168 3870 163616019 163614309 0.000000e+00 2604
5 TraesCS7D01G205000 chr7A 90.963 1693 65 25 479 2155 163618413 163616793 0.000000e+00 2198
6 TraesCS7D01G205000 chr7A 89.278 485 48 4 2 484 163619197 163618715 4.280000e-169 604
7 TraesCS7D01G205000 chr7A 86.082 194 19 5 519 707 112969559 112969369 6.560000e-48 202
8 TraesCS7D01G205000 chr5D 85.977 870 107 11 1181 2048 549262026 549261170 0.000000e+00 917
9 TraesCS7D01G205000 chr5D 85.287 870 113 11 1181 2048 549229691 549228835 0.000000e+00 883
10 TraesCS7D01G205000 chr5D 85.080 878 102 17 1187 2063 549548153 549547304 0.000000e+00 869
11 TraesCS7D01G205000 chr5D 84.571 875 106 16 1187 2060 549430068 549429222 0.000000e+00 841
12 TraesCS7D01G205000 chr5D 79.160 643 98 12 2176 2816 549228741 549228133 2.780000e-111 412
13 TraesCS7D01G205000 chr5D 86.979 192 15 7 523 707 482454464 482454276 1.410000e-49 207
14 TraesCS7D01G205000 chr4A 85.977 870 107 11 1181 2048 620704610 620703754 0.000000e+00 917
15 TraesCS7D01G205000 chr4A 87.166 187 17 4 524 707 186476575 186476393 5.070000e-49 206
16 TraesCS7D01G205000 chr5B 85.287 870 113 10 1181 2048 700856499 700855643 0.000000e+00 883
17 TraesCS7D01G205000 chr5B 85.673 349 44 6 1 346 635099098 635099443 2.840000e-96 363
18 TraesCS7D01G205000 chr2D 84.009 863 104 19 1187 2048 110843195 110842366 0.000000e+00 798
19 TraesCS7D01G205000 chr2D 86.686 338 44 1 10 346 638817918 638817581 1.310000e-99 374
20 TraesCS7D01G205000 chr2D 85.591 347 46 4 1 345 604074430 604074774 1.020000e-95 361
21 TraesCS7D01G205000 chr2D 86.322 329 45 0 17 345 641489788 641490116 3.680000e-95 359
22 TraesCS7D01G205000 chr2B 83.681 864 105 21 1187 2048 159971028 159970199 0.000000e+00 782
23 TraesCS7D01G205000 chr2B 88.415 328 35 3 19 345 5474913 5475238 3.620000e-105 392
24 TraesCS7D01G205000 chr2A 83.800 858 103 21 1187 2042 107182762 107181939 0.000000e+00 782
25 TraesCS7D01G205000 chr6D 85.838 346 47 2 1 345 394209564 394209908 2.200000e-97 366
26 TraesCS7D01G205000 chr6D 85.799 338 42 3 10 345 461867067 461867400 1.710000e-93 353
27 TraesCS7D01G205000 chr1D 87.568 185 15 5 525 704 314506192 314506373 1.410000e-49 207
28 TraesCS7D01G205000 chr1D 87.845 181 14 4 529 704 493673645 493673822 5.070000e-49 206
29 TraesCS7D01G205000 chr1A 87.568 185 16 6 524 704 420572848 420573029 1.410000e-49 207
30 TraesCS7D01G205000 chr1A 86.702 188 21 2 524 707 530756360 530756173 5.070000e-49 206
31 TraesCS7D01G205000 chr5A 87.027 185 18 4 523 703 362736220 362736402 1.820000e-48 204
32 TraesCS7D01G205000 chr3A 85.641 195 20 5 514 704 701344475 701344665 8.480000e-47 198


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 TraesCS7D01G205000 chr7D 162820965 162824834 3869 True 7147.0 7147 100.0000 1 3870 1 chr7D.!!$R1 3869
1 TraesCS7D01G205000 chr7D 162792739 162794248 1509 True 895.5 1249 90.3475 2108 3511 2 chr7D.!!$R2 1403
2 TraesCS7D01G205000 chr7A 163614309 163619197 4888 True 1802.0 2604 91.4860 2 3870 3 chr7A.!!$R2 3868
3 TraesCS7D01G205000 chr5D 549261170 549262026 856 True 917.0 917 85.9770 1181 2048 1 chr5D.!!$R2 867
4 TraesCS7D01G205000 chr5D 549547304 549548153 849 True 869.0 869 85.0800 1187 2063 1 chr5D.!!$R4 876
5 TraesCS7D01G205000 chr5D 549429222 549430068 846 True 841.0 841 84.5710 1187 2060 1 chr5D.!!$R3 873
6 TraesCS7D01G205000 chr5D 549228133 549229691 1558 True 647.5 883 82.2235 1181 2816 2 chr5D.!!$R5 1635
7 TraesCS7D01G205000 chr4A 620703754 620704610 856 True 917.0 917 85.9770 1181 2048 1 chr4A.!!$R2 867
8 TraesCS7D01G205000 chr5B 700855643 700856499 856 True 883.0 883 85.2870 1181 2048 1 chr5B.!!$R1 867
9 TraesCS7D01G205000 chr2D 110842366 110843195 829 True 798.0 798 84.0090 1187 2048 1 chr2D.!!$R1 861
10 TraesCS7D01G205000 chr2B 159970199 159971028 829 True 782.0 782 83.6810 1187 2048 1 chr2B.!!$R1 861
11 TraesCS7D01G205000 chr2A 107181939 107182762 823 True 782.0 782 83.8000 1187 2042 1 chr2A.!!$R1 855

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
105 106 0.036858 TCACCGAACGATCATTGCCA 60.037 50.0 0.00 0.00 0.00 4.92 F
248 249 0.179250 CAGTCGTCGCCGTTGAATTG 60.179 55.0 0.00 0.00 35.01 2.32 F
251 252 0.233590 TCGTCGCCGTTGAATTGTTG 59.766 50.0 0.00 0.00 35.01 3.33 F
539 849 0.400594 AGTGGGTTTGTCTAGGGCAC 59.599 55.0 0.00 0.00 0.00 5.01 F
1027 1340 0.539986 GACGGCCTCCTCCACATTAA 59.460 55.0 0.00 0.00 0.00 1.40 F
1044 1357 0.544697 TAATTCTGGGACGCCCTTCC 59.455 55.0 14.76 0.00 45.70 3.46 F
1655 1981 0.605319 TGGACGTCAGGCATGTTTCC 60.605 55.0 18.91 3.57 0.00 3.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1598 1918 0.167470 ACGACGACGACGACAATGAT 59.833 50.000 25.15 0.0 42.66 2.45 R
2022 2348 1.294659 GACTGCGCTTTGACCTCCTG 61.295 60.000 9.73 0.0 0.00 3.86 R
2055 2381 1.354101 AGTGGTTAACCGTGGATGGA 58.646 50.000 19.65 0.0 39.43 3.41 R
2287 3382 1.033746 CCATCACCTCTGGCGCATTT 61.034 55.000 10.83 0.0 0.00 2.32 R
2387 3482 1.600636 CACGGACACATGCCTTGGT 60.601 57.895 0.00 0.0 0.00 3.67 R
2572 3766 2.212652 GCCATATTGATGTGACGCTCA 58.787 47.619 0.00 0.0 0.00 4.26 R
3335 4534 0.031994 CTTGAAGGTTTGGTTGGCCG 59.968 55.000 0.00 0.0 37.67 6.13 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
97 98 3.637229 AGGTCTATGAATCACCGAACGAT 59.363 43.478 0.00 0.00 35.13 3.73
104 105 1.299541 ATCACCGAACGATCATTGCC 58.700 50.000 0.00 0.00 0.00 4.52
105 106 0.036858 TCACCGAACGATCATTGCCA 60.037 50.000 0.00 0.00 0.00 4.92
108 109 1.348250 CGAACGATCATTGCCACCG 59.652 57.895 0.00 0.00 0.00 4.94
110 111 1.369091 GAACGATCATTGCCACCGCT 61.369 55.000 0.00 0.00 35.36 5.52
115 116 2.498167 GATCATTGCCACCGCTAGAAT 58.502 47.619 0.00 0.00 35.36 2.40
121 122 1.592669 CCACCGCTAGAATGAGCCG 60.593 63.158 0.00 0.00 39.43 5.52
122 123 2.107141 ACCGCTAGAATGAGCCGC 59.893 61.111 0.00 0.00 39.43 6.53
123 124 2.663188 CCGCTAGAATGAGCCGCC 60.663 66.667 0.00 0.00 39.43 6.13
151 152 2.758327 TGTCGCCGCTCCCATACT 60.758 61.111 0.00 0.00 0.00 2.12
152 153 2.279517 GTCGCCGCTCCCATACTG 60.280 66.667 0.00 0.00 0.00 2.74
162 163 3.164269 CCATACTGGAGCCGGGCT 61.164 66.667 24.13 24.13 40.96 5.19
171 172 3.959991 GAGCCGGGCTGACCTTGTC 62.960 68.421 29.31 5.46 39.88 3.18
183 184 3.197790 CTTGTCGATGGCAGCCGG 61.198 66.667 7.03 0.00 0.00 6.13
192 193 0.678048 ATGGCAGCCGGAAAGTCTTC 60.678 55.000 5.05 0.00 0.00 2.87
193 194 2.391389 GGCAGCCGGAAAGTCTTCG 61.391 63.158 5.05 0.00 31.77 3.79
198 199 1.298859 GCCGGAAAGTCTTCGTGCAT 61.299 55.000 5.05 0.00 32.12 3.96
204 205 1.568612 AAGTCTTCGTGCATGTGCCG 61.569 55.000 5.68 6.09 41.18 5.69
207 208 2.047750 TTCGTGCATGTGCCGCTA 60.048 55.556 5.68 0.00 41.18 4.26
213 214 1.450312 GCATGTGCCGCTAAGGACT 60.450 57.895 0.00 0.00 45.00 3.85
221 222 3.539842 GCTAAGGACTAGCGCCCT 58.460 61.111 2.29 0.00 43.64 5.19
223 224 1.392710 GCTAAGGACTAGCGCCCTGA 61.393 60.000 2.29 0.00 43.64 3.86
236 237 2.811317 CCTGAAGCCGCAGTCGTC 60.811 66.667 0.00 0.00 34.06 4.20
248 249 0.179250 CAGTCGTCGCCGTTGAATTG 60.179 55.000 0.00 0.00 35.01 2.32
251 252 0.233590 TCGTCGCCGTTGAATTGTTG 59.766 50.000 0.00 0.00 35.01 3.33
270 271 6.908870 TGTTGAATCGATCTGAATAACCTG 57.091 37.500 0.00 0.00 0.00 4.00
284 285 5.295787 TGAATAACCTGACACCAAATATCGC 59.704 40.000 0.00 0.00 0.00 4.58
285 286 1.651987 ACCTGACACCAAATATCGCG 58.348 50.000 0.00 0.00 0.00 5.87
312 313 2.263540 GCACGGCGAGAAACCCTA 59.736 61.111 16.62 0.00 0.00 3.53
322 323 2.046604 AAACCCTAACCTCGCCGC 60.047 61.111 0.00 0.00 0.00 6.53
327 328 2.511600 CTAACCTCGCCGCCCAAG 60.512 66.667 0.00 0.00 0.00 3.61
337 339 2.435586 CGCCCAAGGAGCTGACAG 60.436 66.667 0.00 0.00 0.00 3.51
348 350 6.239829 CCAAGGAGCTGACAGGAATCTATAAT 60.240 42.308 4.26 0.00 0.00 1.28
350 352 7.003402 AGGAGCTGACAGGAATCTATAATTC 57.997 40.000 4.26 0.00 0.00 2.17
458 461 3.181510 GCAAACCCAAGTGTTAGCGATAG 60.182 47.826 0.00 0.00 0.00 2.08
511 821 2.095059 GTGTGATGGTGTCAATCTTGCC 60.095 50.000 0.00 0.00 38.90 4.52
535 845 4.360951 TGGTAAAGTGGGTTTGTCTAGG 57.639 45.455 0.00 0.00 0.00 3.02
536 846 3.073356 TGGTAAAGTGGGTTTGTCTAGGG 59.927 47.826 0.00 0.00 0.00 3.53
537 847 2.287977 AAAGTGGGTTTGTCTAGGGC 57.712 50.000 0.00 0.00 0.00 5.19
539 849 0.400594 AGTGGGTTTGTCTAGGGCAC 59.599 55.000 0.00 0.00 0.00 5.01
542 852 1.004277 TGGGTTTGTCTAGGGCACATC 59.996 52.381 0.00 0.00 0.00 3.06
543 853 1.282157 GGGTTTGTCTAGGGCACATCT 59.718 52.381 0.00 0.00 0.00 2.90
544 854 2.504175 GGGTTTGTCTAGGGCACATCTA 59.496 50.000 0.00 0.00 0.00 1.98
545 855 3.432326 GGGTTTGTCTAGGGCACATCTAG 60.432 52.174 0.00 0.00 36.46 2.43
546 856 3.451178 GGTTTGTCTAGGGCACATCTAGA 59.549 47.826 0.00 0.00 40.38 2.43
547 857 4.101741 GGTTTGTCTAGGGCACATCTAGAT 59.898 45.833 0.00 0.00 43.25 1.98
566 876 5.972107 AGATGCCCTAATTATTGCACATC 57.028 39.130 10.27 8.02 36.41 3.06
575 887 9.778741 CCCTAATTATTGCACATCTAAGTCTTA 57.221 33.333 0.00 0.00 0.00 2.10
632 944 5.422214 AAAAGATACCCACACGAATCTCT 57.578 39.130 0.00 0.00 0.00 3.10
633 945 6.540438 AAAAGATACCCACACGAATCTCTA 57.460 37.500 0.00 0.00 0.00 2.43
634 946 6.732896 AAAGATACCCACACGAATCTCTAT 57.267 37.500 0.00 0.00 0.00 1.98
664 976 7.993821 ATCAATGACATAAGACTTAGACGTG 57.006 36.000 0.00 0.00 0.00 4.49
665 977 5.805486 TCAATGACATAAGACTTAGACGTGC 59.195 40.000 0.00 0.00 0.00 5.34
676 988 3.994392 ACTTAGACGTGCAACACTTATGG 59.006 43.478 0.00 0.00 35.74 2.74
731 1043 7.765307 TCGGATTTTCTTACATCTAACTACGT 58.235 34.615 0.00 0.00 0.00 3.57
745 1057 6.509656 TCTAACTACGTTCTGCTTTTCTCAA 58.490 36.000 0.00 0.00 0.00 3.02
751 1063 5.542779 ACGTTCTGCTTTTCTCAACTAGAT 58.457 37.500 0.00 0.00 33.05 1.98
785 1097 8.006298 AGACATAAGGAAATCTCAGACTACTG 57.994 38.462 0.00 0.00 44.66 2.74
863 1176 6.600246 TGTGACGTCAGCTACTATTACTAG 57.400 41.667 20.73 0.00 0.00 2.57
867 1180 5.062528 ACGTCAGCTACTATTACTAGGTCC 58.937 45.833 0.00 0.00 0.00 4.46
871 1184 5.011586 CAGCTACTATTACTAGGTCCTCCC 58.988 50.000 0.00 0.00 0.00 4.30
959 1272 5.046591 CCACTAGTGTGATCTTTGGGTCTAA 60.047 44.000 21.18 0.00 46.55 2.10
960 1273 5.869888 CACTAGTGTGATCTTTGGGTCTAAC 59.130 44.000 15.06 0.00 46.55 2.34
962 1275 3.000727 GTGTGATCTTTGGGTCTAACCG 58.999 50.000 0.00 0.00 39.83 4.44
963 1276 2.635915 TGTGATCTTTGGGTCTAACCGT 59.364 45.455 0.00 0.00 39.83 4.83
964 1277 3.071892 TGTGATCTTTGGGTCTAACCGTT 59.928 43.478 0.00 0.00 39.83 4.44
1022 1335 4.459089 GCAGACGGCCTCCTCCAC 62.459 72.222 0.00 0.00 36.11 4.02
1023 1336 2.997315 CAGACGGCCTCCTCCACA 60.997 66.667 0.00 0.00 0.00 4.17
1024 1337 2.039624 AGACGGCCTCCTCCACAT 59.960 61.111 0.00 0.00 0.00 3.21
1027 1340 0.539986 GACGGCCTCCTCCACATTAA 59.460 55.000 0.00 0.00 0.00 1.40
1028 1341 1.141053 GACGGCCTCCTCCACATTAAT 59.859 52.381 0.00 0.00 0.00 1.40
1029 1342 1.564348 ACGGCCTCCTCCACATTAATT 59.436 47.619 0.00 0.00 0.00 1.40
1030 1343 2.222027 CGGCCTCCTCCACATTAATTC 58.778 52.381 0.00 0.00 0.00 2.17
1031 1344 2.158755 CGGCCTCCTCCACATTAATTCT 60.159 50.000 0.00 0.00 0.00 2.40
1032 1345 3.217626 GGCCTCCTCCACATTAATTCTG 58.782 50.000 0.00 0.00 0.00 3.02
1033 1346 3.217626 GCCTCCTCCACATTAATTCTGG 58.782 50.000 3.32 3.32 0.00 3.86
1034 1347 3.825328 CCTCCTCCACATTAATTCTGGG 58.175 50.000 8.49 0.00 0.00 4.45
1035 1348 3.459598 CCTCCTCCACATTAATTCTGGGA 59.540 47.826 8.49 2.72 0.00 4.37
1036 1349 4.455606 CTCCTCCACATTAATTCTGGGAC 58.544 47.826 8.49 0.00 0.00 4.46
1037 1350 3.118408 TCCTCCACATTAATTCTGGGACG 60.118 47.826 8.49 0.00 0.00 4.79
1038 1351 2.614057 CTCCACATTAATTCTGGGACGC 59.386 50.000 8.49 0.00 0.00 5.19
1039 1352 1.676006 CCACATTAATTCTGGGACGCC 59.324 52.381 2.06 0.00 0.00 5.68
1040 1353 1.676006 CACATTAATTCTGGGACGCCC 59.324 52.381 7.87 7.87 45.71 6.13
1041 1354 1.564348 ACATTAATTCTGGGACGCCCT 59.436 47.619 14.76 0.00 45.70 5.19
1042 1355 2.025321 ACATTAATTCTGGGACGCCCTT 60.025 45.455 14.76 4.87 45.70 3.95
1043 1356 2.413310 TTAATTCTGGGACGCCCTTC 57.587 50.000 14.76 0.00 45.70 3.46
1044 1357 0.544697 TAATTCTGGGACGCCCTTCC 59.455 55.000 14.76 0.00 45.70 3.46
1045 1358 1.208165 AATTCTGGGACGCCCTTCCT 61.208 55.000 14.76 0.00 45.70 3.36
1046 1359 1.627297 ATTCTGGGACGCCCTTCCTC 61.627 60.000 14.76 0.00 45.70 3.71
1047 1360 3.787001 CTGGGACGCCCTTCCTCC 61.787 72.222 14.76 0.00 45.70 4.30
1048 1361 4.332543 TGGGACGCCCTTCCTCCT 62.333 66.667 14.76 0.00 45.70 3.69
1049 1362 3.471806 GGGACGCCCTTCCTCCTC 61.472 72.222 7.58 0.00 41.34 3.71
1050 1363 2.364448 GGACGCCCTTCCTCCTCT 60.364 66.667 0.00 0.00 32.24 3.69
1051 1364 2.726351 GGACGCCCTTCCTCCTCTG 61.726 68.421 0.00 0.00 32.24 3.35
1052 1365 1.985116 GACGCCCTTCCTCCTCTGT 60.985 63.158 0.00 0.00 0.00 3.41
1053 1366 0.683504 GACGCCCTTCCTCCTCTGTA 60.684 60.000 0.00 0.00 0.00 2.74
1054 1367 0.684805 ACGCCCTTCCTCCTCTGTAG 60.685 60.000 0.00 0.00 0.00 2.74
1055 1368 1.826709 GCCCTTCCTCCTCTGTAGC 59.173 63.158 0.00 0.00 0.00 3.58
1143 1462 1.352083 ATATCCTATGCGGTGCTGGT 58.648 50.000 0.00 0.00 0.00 4.00
1146 1465 3.204827 CTATGCGGTGCTGGTGCC 61.205 66.667 0.00 0.00 38.71 5.01
1598 1918 1.073763 CACAACCTCATCACCAAGGGA 59.926 52.381 0.00 0.00 36.95 4.20
1607 1927 2.401583 TCACCAAGGGATCATTGTCG 57.598 50.000 8.56 1.20 0.00 4.35
1608 1928 1.628340 TCACCAAGGGATCATTGTCGT 59.372 47.619 8.56 0.00 0.00 4.34
1609 1929 2.009774 CACCAAGGGATCATTGTCGTC 58.990 52.381 8.56 0.00 0.00 4.20
1622 1948 3.767230 TCGTCGTCGTCGTCGTCC 61.767 66.667 18.44 3.60 45.27 4.79
1655 1981 0.605319 TGGACGTCAGGCATGTTTCC 60.605 55.000 18.91 3.57 0.00 3.13
2049 2375 1.003718 AAAGCGCAGTCCCAGGTAC 60.004 57.895 11.47 0.00 0.00 3.34
2051 2377 4.065281 GCGCAGTCCCAGGTACGT 62.065 66.667 0.30 0.00 0.00 3.57
2052 2378 2.703798 GCGCAGTCCCAGGTACGTA 61.704 63.158 0.30 0.00 0.00 3.57
2053 2379 1.138247 CGCAGTCCCAGGTACGTAC 59.862 63.158 17.56 17.56 0.00 3.67
2054 2380 1.310933 CGCAGTCCCAGGTACGTACT 61.311 60.000 24.07 8.57 0.00 2.73
2055 2381 0.893447 GCAGTCCCAGGTACGTACTT 59.107 55.000 24.07 15.22 0.00 2.24
2056 2382 1.135170 GCAGTCCCAGGTACGTACTTC 60.135 57.143 24.07 9.57 0.00 3.01
2057 2383 1.475682 CAGTCCCAGGTACGTACTTCC 59.524 57.143 24.07 9.06 0.00 3.46
2058 2384 1.076024 AGTCCCAGGTACGTACTTCCA 59.924 52.381 24.07 3.59 0.00 3.53
2059 2385 2.105766 GTCCCAGGTACGTACTTCCAT 58.894 52.381 24.07 4.22 0.00 3.41
2060 2386 2.100418 GTCCCAGGTACGTACTTCCATC 59.900 54.545 24.07 7.42 0.00 3.51
2061 2387 1.411612 CCCAGGTACGTACTTCCATCC 59.588 57.143 24.07 6.84 0.00 3.51
2062 2388 2.104967 CCAGGTACGTACTTCCATCCA 58.895 52.381 24.07 0.00 0.00 3.41
2063 2389 2.159142 CCAGGTACGTACTTCCATCCAC 60.159 54.545 24.07 5.30 0.00 4.02
2064 2390 1.747355 AGGTACGTACTTCCATCCACG 59.253 52.381 24.07 0.00 40.15 4.94
2094 2425 9.452287 AACCACTTTTACAACAAGAAGTTACTA 57.548 29.630 0.00 0.00 38.74 1.82
2095 2426 8.886719 ACCACTTTTACAACAAGAAGTTACTAC 58.113 33.333 0.00 0.00 38.74 2.73
2098 2429 9.322773 ACTTTTACAACAAGAAGTTACTACTCC 57.677 33.333 0.00 0.00 38.74 3.85
2099 2430 9.543783 CTTTTACAACAAGAAGTTACTACTCCT 57.456 33.333 0.00 0.00 38.74 3.69
2101 2432 9.971922 TTTACAACAAGAAGTTACTACTCCTAC 57.028 33.333 0.00 0.00 38.74 3.18
2102 2433 6.990798 ACAACAAGAAGTTACTACTCCTACC 58.009 40.000 0.00 0.00 38.74 3.18
2151 2484 7.574021 ACATTCCCAAGCATCCTATAAGATA 57.426 36.000 0.00 0.00 0.00 1.98
2215 3310 2.125431 GCAATGCATGGTGGTGCC 60.125 61.111 8.79 0.00 44.43 5.01
2236 3331 2.095314 CGTGCAGGACATAACATTTGCA 60.095 45.455 0.00 0.00 39.03 4.08
2287 3382 4.119363 GCCCTGGCAGAGATGGCA 62.119 66.667 22.59 4.36 41.76 4.92
2387 3482 2.432146 GACATCCCACAGCTCATCTACA 59.568 50.000 0.00 0.00 0.00 2.74
2503 3697 2.991540 GTGCCCAAGGGAAGCCAC 60.992 66.667 9.92 3.56 37.50 5.01
2515 3709 1.207329 GGAAGCCACGTTATCCTCAGT 59.793 52.381 0.00 0.00 0.00 3.41
2572 3766 4.767255 CCGCTCCGCTTCAAGCCT 62.767 66.667 3.08 0.00 38.18 4.58
2617 3811 1.973281 CAGTGATGGTGGTGTGGCC 60.973 63.158 0.00 0.00 37.90 5.36
2659 3853 1.860641 TCATCTCCTTTAGCACCGGA 58.139 50.000 9.46 0.00 0.00 5.14
2827 4021 1.089481 CGTTGGTGCTACATGCCGAT 61.089 55.000 0.00 0.00 42.00 4.18
2872 4066 2.487265 CCCTGCCACCACCATCTAATAC 60.487 54.545 0.00 0.00 0.00 1.89
3057 4251 3.520290 TGTCCCTTCTATACTTGCACG 57.480 47.619 0.00 0.00 0.00 5.34
3116 4310 7.434492 CCTTAGAATCGGCAAAGTATCTCTTA 58.566 38.462 0.00 0.00 35.02 2.10
3144 4338 7.410174 TGAGTATTGTATTTTGGGATCCAAGT 58.590 34.615 15.23 0.00 44.84 3.16
3246 4440 2.905415 TGGATCACAAATTCCCAGCT 57.095 45.000 0.00 0.00 0.00 4.24
3289 4483 2.103153 TCCCTATCCCAAGCTTCGAT 57.897 50.000 0.00 3.24 0.00 3.59
3325 4524 8.885346 AGGGAGAAGAGAGATTTAAGAGAAAAA 58.115 33.333 0.00 0.00 0.00 1.94
3335 4534 9.794685 GAGATTTAAGAGAAAAACCAATGATCC 57.205 33.333 0.00 0.00 0.00 3.36
3343 4542 0.970427 AACCAATGATCCGGCCAACC 60.970 55.000 2.24 0.00 0.00 3.77
3357 4556 0.031994 CCAACCAAACCTTCAAGCCG 59.968 55.000 0.00 0.00 0.00 5.52
3388 4587 0.721718 CTTGCCGAGTTTCCATCGTC 59.278 55.000 0.00 0.00 38.50 4.20
3391 4590 1.140407 GCCGAGTTTCCATCGTCTCG 61.140 60.000 6.47 6.47 45.89 4.04
3416 4615 6.318900 GGTTACTCTTGGAATTTGGATACCTG 59.681 42.308 0.00 0.00 0.00 4.00
3422 4621 7.214381 TCTTGGAATTTGGATACCTGTATACG 58.786 38.462 0.00 0.00 0.00 3.06
3533 4733 6.980978 TGGTTGATTTTAGAATTTGCGTGAAA 59.019 30.769 0.00 0.00 0.00 2.69
3551 4751 4.756642 GTGAAACTGAGGATGTGATTGTCA 59.243 41.667 0.00 0.00 0.00 3.58
3600 4800 7.872138 AGGTAGATCCCTCTCATAGATTAGAG 58.128 42.308 0.00 0.00 39.19 2.43
3605 4805 5.569355 TCCCTCTCATAGATTAGAGCTCTG 58.431 45.833 26.78 8.53 38.33 3.35
3616 4816 1.439543 AGAGCTCTGGGGACAAAACT 58.560 50.000 17.42 0.00 42.06 2.66
3617 4817 1.777272 AGAGCTCTGGGGACAAAACTT 59.223 47.619 17.42 0.00 42.06 2.66
3619 4819 2.959030 GAGCTCTGGGGACAAAACTTTT 59.041 45.455 6.43 0.00 42.06 2.27
3621 4821 4.145052 AGCTCTGGGGACAAAACTTTTAG 58.855 43.478 0.00 0.00 42.06 1.85
3624 4824 3.117284 TCTGGGGACAAAACTTTTAGCCT 60.117 43.478 5.16 0.00 42.06 4.58
3629 4829 3.506455 GGACAAAACTTTTAGCCTCTCCC 59.494 47.826 0.00 0.00 0.00 4.30
3630 4830 3.146847 ACAAAACTTTTAGCCTCTCCCG 58.853 45.455 0.00 0.00 0.00 5.14
3644 4844 3.297736 CTCTCCCGTGGGTTAACTCTAT 58.702 50.000 7.09 0.00 36.47 1.98
3736 4944 9.392259 GAGTTGCTAGGTTTATATAGGTTGTTT 57.608 33.333 0.00 0.00 0.00 2.83
3774 4982 9.048446 GCATTAGGTAACCTTTACATTTCGATA 57.952 33.333 0.00 0.00 34.61 2.92
3837 5045 6.709018 TTTCTTTTCACCCTCCTTTAGTTG 57.291 37.500 0.00 0.00 0.00 3.16
3850 5058 6.187727 TCCTTTAGTTGTCACCTTTGATCT 57.812 37.500 0.00 0.00 33.11 2.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 2.808543 GGTGCTTTGTACTTCTGGTGAG 59.191 50.000 0.00 0.00 0.00 3.51
36 37 4.893424 TGTTTGAGGTGCTTTGTACTTC 57.107 40.909 0.00 0.00 0.00 3.01
70 71 4.648651 TCGGTGATTCATAGACCTCGATA 58.351 43.478 0.00 0.00 0.00 2.92
79 80 5.613360 GCAATGATCGTTCGGTGATTCATAG 60.613 44.000 0.00 0.00 0.00 2.23
97 98 1.209261 TCATTCTAGCGGTGGCAATGA 59.791 47.619 16.00 16.00 43.41 2.57
104 105 2.240500 GCGGCTCATTCTAGCGGTG 61.241 63.158 0.00 0.00 43.74 4.94
105 106 2.107141 GCGGCTCATTCTAGCGGT 59.893 61.111 0.00 0.00 43.74 5.68
108 109 1.951631 GTCGGCGGCTCATTCTAGC 60.952 63.158 3.23 0.00 41.99 3.42
110 111 2.411701 CGTCGGCGGCTCATTCTA 59.588 61.111 10.76 0.00 0.00 2.10
152 153 4.785453 CAAGGTCAGCCCGGCTCC 62.785 72.222 9.68 9.18 36.40 4.70
162 163 1.375908 GCTGCCATCGACAAGGTCA 60.376 57.895 0.00 0.00 32.09 4.02
171 172 2.436646 ACTTTCCGGCTGCCATCG 60.437 61.111 20.29 4.55 0.00 3.84
183 184 1.400242 GGCACATGCACGAAGACTTTC 60.400 52.381 6.15 0.00 44.36 2.62
192 193 2.400798 CTTAGCGGCACATGCACG 59.599 61.111 6.15 8.12 44.36 5.34
193 194 1.745115 TCCTTAGCGGCACATGCAC 60.745 57.895 6.15 0.00 44.36 4.57
198 199 1.515954 GCTAGTCCTTAGCGGCACA 59.484 57.895 1.45 0.00 44.90 4.57
236 237 1.904412 CGATTCAACAATTCAACGGCG 59.096 47.619 4.80 4.80 0.00 6.46
248 249 6.535150 TGTCAGGTTATTCAGATCGATTCAAC 59.465 38.462 0.00 0.00 0.00 3.18
251 252 5.463724 GGTGTCAGGTTATTCAGATCGATTC 59.536 44.000 0.00 0.00 0.00 2.52
270 271 1.531058 GCAACCGCGATATTTGGTGTC 60.531 52.381 8.23 0.00 35.79 3.67
295 296 1.375013 TTAGGGTTTCTCGCCGTGC 60.375 57.895 0.00 0.00 0.00 5.34
302 303 0.459759 CGGCGAGGTTAGGGTTTCTC 60.460 60.000 0.00 0.00 0.00 2.87
309 310 4.090588 TTGGGCGGCGAGGTTAGG 62.091 66.667 12.98 0.00 0.00 2.69
310 311 2.511600 CTTGGGCGGCGAGGTTAG 60.512 66.667 12.98 0.00 0.00 2.34
322 323 0.622665 ATTCCTGTCAGCTCCTTGGG 59.377 55.000 0.00 0.00 0.00 4.12
325 326 7.385894 AATTATAGATTCCTGTCAGCTCCTT 57.614 36.000 0.00 0.00 0.00 3.36
327 328 5.866633 CGAATTATAGATTCCTGTCAGCTCC 59.133 44.000 0.00 0.00 0.00 4.70
329 330 6.412362 ACGAATTATAGATTCCTGTCAGCT 57.588 37.500 0.00 0.00 0.00 4.24
334 336 6.821388 AGAGCAACGAATTATAGATTCCTGT 58.179 36.000 0.00 0.00 0.00 4.00
337 339 6.382821 CGAGAGCAACGAATTATAGATTCC 57.617 41.667 0.00 0.00 0.00 3.01
511 821 3.562182 AGACAAACCCACTTTACCAAGG 58.438 45.455 0.00 0.00 33.82 3.61
536 846 6.404074 GCAATAATTAGGGCATCTAGATGTGC 60.404 42.308 28.92 22.32 40.80 4.57
537 847 6.656270 TGCAATAATTAGGGCATCTAGATGTG 59.344 38.462 28.92 17.76 40.80 3.21
539 849 6.656270 TGTGCAATAATTAGGGCATCTAGATG 59.344 38.462 25.64 25.64 38.68 2.90
542 852 6.883217 AGATGTGCAATAATTAGGGCATCTAG 59.117 38.462 14.61 0.00 39.67 2.43
543 853 6.782986 AGATGTGCAATAATTAGGGCATCTA 58.217 36.000 14.61 7.32 39.67 1.98
544 854 5.638133 AGATGTGCAATAATTAGGGCATCT 58.362 37.500 14.61 11.91 38.68 2.90
545 855 5.972107 AGATGTGCAATAATTAGGGCATC 57.028 39.130 14.61 10.30 38.68 3.91
546 856 7.006509 ACTTAGATGTGCAATAATTAGGGCAT 58.993 34.615 14.61 2.99 38.68 4.40
547 857 6.364701 ACTTAGATGTGCAATAATTAGGGCA 58.635 36.000 9.15 9.15 0.00 5.36
553 863 9.890629 TGACTAAGACTTAGATGTGCAATAATT 57.109 29.630 25.65 1.60 36.73 1.40
600 912 7.067737 TCGTGTGGGTATCTTTTTCTTTTTCTT 59.932 33.333 0.00 0.00 0.00 2.52
601 913 6.544564 TCGTGTGGGTATCTTTTTCTTTTTCT 59.455 34.615 0.00 0.00 0.00 2.52
602 914 6.731164 TCGTGTGGGTATCTTTTTCTTTTTC 58.269 36.000 0.00 0.00 0.00 2.29
603 915 6.702716 TCGTGTGGGTATCTTTTTCTTTTT 57.297 33.333 0.00 0.00 0.00 1.94
604 916 6.702716 TTCGTGTGGGTATCTTTTTCTTTT 57.297 33.333 0.00 0.00 0.00 2.27
605 917 6.715264 AGATTCGTGTGGGTATCTTTTTCTTT 59.285 34.615 0.00 0.00 0.00 2.52
606 918 6.238648 AGATTCGTGTGGGTATCTTTTTCTT 58.761 36.000 0.00 0.00 0.00 2.52
607 919 5.805728 AGATTCGTGTGGGTATCTTTTTCT 58.194 37.500 0.00 0.00 0.00 2.52
608 920 5.875359 AGAGATTCGTGTGGGTATCTTTTTC 59.125 40.000 0.00 0.00 0.00 2.29
609 921 5.805728 AGAGATTCGTGTGGGTATCTTTTT 58.194 37.500 0.00 0.00 0.00 1.94
610 922 5.422214 AGAGATTCGTGTGGGTATCTTTT 57.578 39.130 0.00 0.00 0.00 2.27
611 923 6.098409 ACATAGAGATTCGTGTGGGTATCTTT 59.902 38.462 0.00 0.00 0.00 2.52
612 924 5.598830 ACATAGAGATTCGTGTGGGTATCTT 59.401 40.000 0.00 0.00 0.00 2.40
613 925 5.141182 ACATAGAGATTCGTGTGGGTATCT 58.859 41.667 0.00 0.00 0.00 1.98
614 926 5.455056 ACATAGAGATTCGTGTGGGTATC 57.545 43.478 0.00 0.00 0.00 2.24
615 927 6.971726 TTACATAGAGATTCGTGTGGGTAT 57.028 37.500 0.00 0.00 0.00 2.73
616 928 6.971726 ATTACATAGAGATTCGTGTGGGTA 57.028 37.500 0.00 0.00 0.00 3.69
617 929 5.871396 ATTACATAGAGATTCGTGTGGGT 57.129 39.130 0.00 0.00 0.00 4.51
618 930 7.602753 TGATATTACATAGAGATTCGTGTGGG 58.397 38.462 0.00 0.00 0.00 4.61
619 931 9.645059 ATTGATATTACATAGAGATTCGTGTGG 57.355 33.333 0.00 0.00 0.00 4.17
651 963 3.454371 AGTGTTGCACGTCTAAGTCTT 57.546 42.857 0.00 0.00 39.64 3.01
652 964 3.454371 AAGTGTTGCACGTCTAAGTCT 57.546 42.857 0.00 0.00 39.64 3.24
653 965 4.091509 CCATAAGTGTTGCACGTCTAAGTC 59.908 45.833 0.00 0.00 39.64 3.01
661 973 3.383026 GTGCCATAAGTGTTGCACG 57.617 52.632 0.00 0.00 43.83 5.34
664 976 4.191544 TCTAGATGTGCCATAAGTGTTGC 58.808 43.478 0.00 0.00 0.00 4.17
665 977 6.296365 CATCTAGATGTGCCATAAGTGTTG 57.704 41.667 22.42 0.00 34.23 3.33
691 1003 9.626045 AAGAAAATCCGAATAGTTTTGCTAAAG 57.374 29.630 0.00 0.00 32.72 1.85
694 1006 9.221933 TGTAAGAAAATCCGAATAGTTTTGCTA 57.778 29.630 0.00 0.00 0.00 3.49
706 1018 7.765307 ACGTAGTTAGATGTAAGAAAATCCGA 58.235 34.615 0.00 0.00 37.78 4.55
727 1039 6.080648 TCTAGTTGAGAAAAGCAGAACGTA 57.919 37.500 0.00 0.00 0.00 3.57
728 1040 4.945246 TCTAGTTGAGAAAAGCAGAACGT 58.055 39.130 0.00 0.00 0.00 3.99
729 1041 7.489435 TCATATCTAGTTGAGAAAAGCAGAACG 59.511 37.037 0.00 0.00 37.85 3.95
731 1043 8.535335 AGTCATATCTAGTTGAGAAAAGCAGAA 58.465 33.333 0.00 0.00 37.85 3.02
760 1072 7.836685 TCAGTAGTCTGAGATTTCCTTATGTCT 59.163 37.037 0.00 0.00 44.58 3.41
761 1073 8.001881 TCAGTAGTCTGAGATTTCCTTATGTC 57.998 38.462 0.00 0.00 44.58 3.06
762 1074 7.962995 TCAGTAGTCTGAGATTTCCTTATGT 57.037 36.000 0.00 0.00 44.58 2.29
827 1140 3.262420 GACGTCACAAGTAGGCATCATT 58.738 45.455 11.55 0.00 0.00 2.57
863 1176 9.138596 GATTATATAGAGATACAAGGGAGGACC 57.861 40.741 0.00 0.00 40.67 4.46
891 1204 3.065371 GCACACAAGCAAAGTACAAGAGT 59.935 43.478 0.00 0.00 0.00 3.24
959 1272 1.226746 CAAAAAGAGCTCCGAACGGT 58.773 50.000 10.93 0.00 36.47 4.83
960 1273 0.110192 GCAAAAAGAGCTCCGAACGG 60.110 55.000 10.93 6.94 0.00 4.44
1034 1347 0.683504 TACAGAGGAGGAAGGGCGTC 60.684 60.000 0.00 0.00 0.00 5.19
1035 1348 0.684805 CTACAGAGGAGGAAGGGCGT 60.685 60.000 0.00 0.00 0.00 5.68
1036 1349 2.022240 GCTACAGAGGAGGAAGGGCG 62.022 65.000 0.00 0.00 0.00 6.13
1037 1350 1.691195 GGCTACAGAGGAGGAAGGGC 61.691 65.000 0.00 0.00 0.00 5.19
1038 1351 1.395826 CGGCTACAGAGGAGGAAGGG 61.396 65.000 0.00 0.00 0.00 3.95
1039 1352 2.022240 GCGGCTACAGAGGAGGAAGG 62.022 65.000 0.00 0.00 0.00 3.46
1040 1353 1.439644 GCGGCTACAGAGGAGGAAG 59.560 63.158 0.00 0.00 0.00 3.46
1041 1354 2.415608 CGCGGCTACAGAGGAGGAA 61.416 63.158 0.00 0.00 0.00 3.36
1042 1355 2.829003 CGCGGCTACAGAGGAGGA 60.829 66.667 0.00 0.00 0.00 3.71
1043 1356 2.343163 CTTCGCGGCTACAGAGGAGG 62.343 65.000 6.13 0.00 0.00 4.30
1044 1357 1.064946 CTTCGCGGCTACAGAGGAG 59.935 63.158 6.13 0.00 0.00 3.69
1045 1358 2.415608 CCTTCGCGGCTACAGAGGA 61.416 63.158 6.13 0.00 0.00 3.71
1046 1359 2.105128 CCTTCGCGGCTACAGAGG 59.895 66.667 6.13 0.00 0.00 3.69
1121 1434 1.466167 CAGCACCGCATAGGATATTGC 59.534 52.381 0.00 0.00 45.00 3.56
1598 1918 0.167470 ACGACGACGACGACAATGAT 59.833 50.000 25.15 0.00 42.66 2.45
2022 2348 1.294659 GACTGCGCTTTGACCTCCTG 61.295 60.000 9.73 0.00 0.00 3.86
2049 2375 2.925563 GTTAACCGTGGATGGAAGTACG 59.074 50.000 0.00 0.00 36.39 3.67
2051 2377 2.905085 TGGTTAACCGTGGATGGAAGTA 59.095 45.455 19.65 0.00 39.43 2.24
2052 2378 1.700739 TGGTTAACCGTGGATGGAAGT 59.299 47.619 19.65 0.00 39.43 3.01
2053 2379 2.081462 GTGGTTAACCGTGGATGGAAG 58.919 52.381 19.65 0.00 39.43 3.46
2054 2380 1.700739 AGTGGTTAACCGTGGATGGAA 59.299 47.619 19.65 0.00 39.43 3.53
2055 2381 1.354101 AGTGGTTAACCGTGGATGGA 58.646 50.000 19.65 0.00 39.43 3.41
2056 2382 2.194201 AAGTGGTTAACCGTGGATGG 57.806 50.000 19.65 0.00 39.43 3.51
2057 2383 4.515944 TGTAAAAGTGGTTAACCGTGGATG 59.484 41.667 19.65 0.00 39.43 3.51
2058 2384 4.716794 TGTAAAAGTGGTTAACCGTGGAT 58.283 39.130 19.65 8.47 39.43 3.41
2059 2385 4.148128 TGTAAAAGTGGTTAACCGTGGA 57.852 40.909 19.65 0.00 39.43 4.02
2060 2386 4.096081 TGTTGTAAAAGTGGTTAACCGTGG 59.904 41.667 19.65 0.00 39.43 4.94
2061 2387 5.232610 TGTTGTAAAAGTGGTTAACCGTG 57.767 39.130 19.65 0.00 39.43 4.94
2062 2388 5.647225 TCTTGTTGTAAAAGTGGTTAACCGT 59.353 36.000 19.65 6.82 39.43 4.83
2063 2389 6.121613 TCTTGTTGTAAAAGTGGTTAACCG 57.878 37.500 19.65 0.41 39.43 4.44
2064 2390 7.541162 ACTTCTTGTTGTAAAAGTGGTTAACC 58.459 34.615 18.27 18.27 31.05 2.85
2094 2425 2.048444 CATGCATGCAAGGTAGGAGT 57.952 50.000 26.68 0.80 0.00 3.85
2151 2484 9.209175 GTTAGTGAGAGATATTTCTGTTGTTGT 57.791 33.333 0.00 0.00 30.30 3.32
2215 3310 2.095314 TGCAAATGTTATGTCCTGCACG 60.095 45.455 0.00 0.00 35.02 5.34
2287 3382 1.033746 CCATCACCTCTGGCGCATTT 61.034 55.000 10.83 0.00 0.00 2.32
2387 3482 1.600636 CACGGACACATGCCTTGGT 60.601 57.895 0.00 0.00 0.00 3.67
2503 3697 2.351835 CCCTATGCGACTGAGGATAACG 60.352 54.545 0.00 0.00 31.45 3.18
2572 3766 2.212652 GCCATATTGATGTGACGCTCA 58.787 47.619 0.00 0.00 0.00 4.26
2659 3853 4.712425 GCTACACACCCGCGACGT 62.712 66.667 8.23 0.00 0.00 4.34
3019 4213 4.098501 GGGACATGAAAATCTTGGATGGAC 59.901 45.833 0.00 0.00 0.00 4.02
3057 4251 5.875359 ACCATTCGACCTAAACTTGAGATTC 59.125 40.000 0.00 0.00 0.00 2.52
3101 4295 8.768955 CAATACTCATGTAAGAGATACTTTGCC 58.231 37.037 0.00 0.00 39.72 4.52
3116 4310 7.353525 TGGATCCCAAAATACAATACTCATGT 58.646 34.615 9.90 0.00 34.81 3.21
3144 4338 3.544684 ACACAAGAGTCATGCAAGAACA 58.455 40.909 0.00 0.00 0.00 3.18
3246 4440 3.972950 GTGAAGAGCACTCTAGCGATA 57.027 47.619 0.00 0.00 44.27 2.92
3289 4483 3.580458 CTCTCTTCTCCCTCACAAAAGGA 59.420 47.826 0.00 0.00 38.87 3.36
3325 4524 1.379843 GGTTGGCCGGATCATTGGT 60.380 57.895 5.05 0.00 0.00 3.67
3335 4534 0.031994 CTTGAAGGTTTGGTTGGCCG 59.968 55.000 0.00 0.00 37.67 6.13
3343 4542 4.379499 GGTTATTCTCGGCTTGAAGGTTTG 60.379 45.833 0.00 0.00 0.00 2.93
3357 4556 2.280628 CTCGGCAAGTGGGTTATTCTC 58.719 52.381 0.00 0.00 0.00 2.87
3388 4587 4.575885 TCCAAATTCCAAGAGTAACCGAG 58.424 43.478 0.00 0.00 0.00 4.63
3391 4590 6.318900 CAGGTATCCAAATTCCAAGAGTAACC 59.681 42.308 0.00 0.00 0.00 2.85
3416 4615 8.931385 TGTTTTATAGGACTCCAAACGTATAC 57.069 34.615 0.00 0.00 31.24 1.47
3422 4621 7.605410 TTCGATGTTTTATAGGACTCCAAAC 57.395 36.000 0.00 0.24 0.00 2.93
3533 4733 3.837146 AGTCTGACAATCACATCCTCAGT 59.163 43.478 10.88 0.00 31.94 3.41
3551 4751 5.190925 TCCTTGCTAGAGAGTCTAAGAGTCT 59.809 44.000 6.23 0.00 44.03 3.24
3598 4798 2.278332 AAGTTTTGTCCCCAGAGCTC 57.722 50.000 5.27 5.27 0.00 4.09
3600 4800 3.305403 GCTAAAAGTTTTGTCCCCAGAGC 60.305 47.826 11.18 5.53 0.00 4.09
3605 4805 3.497332 AGAGGCTAAAAGTTTTGTCCCC 58.503 45.455 11.18 5.85 0.00 4.81
3616 4816 0.838987 ACCCACGGGAGAGGCTAAAA 60.839 55.000 9.72 0.00 39.47 1.52
3617 4817 0.838987 AACCCACGGGAGAGGCTAAA 60.839 55.000 9.72 0.00 39.47 1.85
3619 4819 0.041535 TTAACCCACGGGAGAGGCTA 59.958 55.000 9.72 0.00 39.47 3.93
3621 4821 1.078637 GTTAACCCACGGGAGAGGC 60.079 63.158 9.72 0.00 39.47 4.70
3624 4824 2.905415 TAGAGTTAACCCACGGGAGA 57.095 50.000 9.72 0.00 38.96 3.71
3629 4829 4.092968 GCAAAGTGATAGAGTTAACCCACG 59.907 45.833 0.88 0.00 0.00 4.94
3630 4830 4.395231 GGCAAAGTGATAGAGTTAACCCAC 59.605 45.833 0.88 3.68 0.00 4.61
3644 4844 2.951642 CCAAGTTGAGAAGGCAAAGTGA 59.048 45.455 3.87 0.00 0.00 3.41
3709 4909 8.320338 ACAACCTATATAAACCTAGCAACTCT 57.680 34.615 0.00 0.00 0.00 3.24
3736 4944 6.889722 AGGTTACCTAATGCAATTTCTTGCTA 59.110 34.615 0.15 0.00 44.68 3.49
3824 5032 3.790089 AAGGTGACAACTAAAGGAGGG 57.210 47.619 0.00 0.00 0.00 4.30


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

AutoCloner maintained by Alex Coulton.