Multiple sequence alignment - TraesCS7D01G181100

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 TraesCS7D01G181100 chr7D 100.000 2962 0 0 1 2962 134485537 134482576 0.000000e+00 5470.0
1 TraesCS7D01G181100 chr7D 84.942 943 85 20 59 960 135023458 135022532 0.000000e+00 902.0
2 TraesCS7D01G181100 chr7D 85.206 703 55 18 281 953 134851465 134850782 0.000000e+00 676.0
3 TraesCS7D01G181100 chr7D 85.838 346 31 12 2598 2935 123774123 123774458 4.700000e-93 351.0
4 TraesCS7D01G181100 chr7D 78.205 156 21 8 2054 2207 593009242 593009386 1.460000e-13 87.9
5 TraesCS7D01G181100 chr7B 87.939 2222 168 56 32 2176 96806112 96803914 0.000000e+00 2527.0
6 TraesCS7D01G181100 chr7B 84.588 571 62 20 2410 2961 96603488 96602925 7.220000e-151 544.0
7 TraesCS7D01G181100 chr7B 84.211 76 11 1 1002 1077 96805022 96805096 4.100000e-09 73.1
8 TraesCS7D01G181100 chr7A 89.662 1625 105 32 521 2094 133669341 133667729 0.000000e+00 2012.0
9 TraesCS7D01G181100 chr7A 87.453 797 59 14 196 960 134033924 134033137 0.000000e+00 880.0
10 TraesCS7D01G181100 chr7A 90.102 394 25 9 2573 2961 133640855 133640471 1.590000e-137 499.0
11 TraesCS7D01G181100 chr7A 88.084 428 42 4 1528 1955 133643456 133643038 1.590000e-137 499.0
12 TraesCS7D01G181100 chr7A 87.647 340 29 8 2573 2908 126750547 126750877 1.670000e-102 383.0
13 TraesCS7D01G181100 chr7A 87.336 229 25 4 2586 2810 61777645 61777873 2.930000e-65 259.0
14 TraesCS7D01G181100 chr7A 92.903 155 10 1 281 435 133675537 133675384 1.070000e-54 224.0
15 TraesCS7D01G181100 chr7A 98.020 101 2 0 437 537 133669461 133669361 3.030000e-40 176.0
16 TraesCS7D01G181100 chr1D 87.649 251 25 6 2585 2830 439309065 439309314 1.340000e-73 287.0
17 TraesCS7D01G181100 chr4A 84.694 294 27 10 2595 2884 674363063 674362784 8.090000e-71 278.0
18 TraesCS7D01G181100 chr1A 86.454 251 28 6 2585 2830 535449377 535449626 1.350000e-68 270.0
19 TraesCS7D01G181100 chr1B 86.076 237 27 6 2599 2830 596116580 596116815 1.760000e-62 250.0


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 TraesCS7D01G181100 chr7D 134482576 134485537 2961 True 5470 5470 100.000 1 2962 1 chr7D.!!$R1 2961
1 TraesCS7D01G181100 chr7D 135022532 135023458 926 True 902 902 84.942 59 960 1 chr7D.!!$R3 901
2 TraesCS7D01G181100 chr7D 134850782 134851465 683 True 676 676 85.206 281 953 1 chr7D.!!$R2 672
3 TraesCS7D01G181100 chr7B 96803914 96806112 2198 True 2527 2527 87.939 32 2176 1 chr7B.!!$R2 2144
4 TraesCS7D01G181100 chr7B 96602925 96603488 563 True 544 544 84.588 2410 2961 1 chr7B.!!$R1 551
5 TraesCS7D01G181100 chr7A 133667729 133669461 1732 True 1094 2012 93.841 437 2094 2 chr7A.!!$R4 1657
6 TraesCS7D01G181100 chr7A 134033137 134033924 787 True 880 880 87.453 196 960 1 chr7A.!!$R2 764
7 TraesCS7D01G181100 chr7A 133640471 133643456 2985 True 499 499 89.093 1528 2961 2 chr7A.!!$R3 1433

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
55 56 0.038892 GCCTGCACACCAACTCAATG 60.039 55.0 0.00 0.0 0.0 2.82 F
1338 1489 0.106708 GAGCGGCCATTGTCTCCATA 59.893 55.0 2.24 0.0 0.0 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1500 1651 0.096628 GCAGCAAGAGAAGCGTCATG 59.903 55.0 1.61 0.00 37.01 3.07 R
2392 3005 0.107017 GTGGTGGCTGTCCTATGCAT 60.107 55.0 3.79 3.79 0.00 3.96 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
17 18 2.638719 TGTGCTGTGCAATCACGC 59.361 55.556 0.00 0.00 46.01 5.34
18 19 2.126734 GTGCTGTGCAATCACGCC 60.127 61.111 0.00 0.00 46.01 5.68
19 20 3.725459 TGCTGTGCAATCACGCCG 61.725 61.111 0.00 0.00 46.01 6.46
20 21 3.422303 GCTGTGCAATCACGCCGA 61.422 61.111 0.00 0.00 46.01 5.54
21 22 2.476051 CTGTGCAATCACGCCGAC 59.524 61.111 0.00 0.00 46.01 4.79
22 23 2.280457 TGTGCAATCACGCCGACA 60.280 55.556 0.00 0.00 46.01 4.35
23 24 2.173382 GTGCAATCACGCCGACAC 59.827 61.111 0.00 0.00 32.98 3.67
24 25 2.280457 TGCAATCACGCCGACACA 60.280 55.556 0.00 0.00 0.00 3.72
25 26 1.889573 TGCAATCACGCCGACACAA 60.890 52.632 0.00 0.00 0.00 3.33
26 27 1.233950 TGCAATCACGCCGACACAAT 61.234 50.000 0.00 0.00 0.00 2.71
27 28 0.521242 GCAATCACGCCGACACAATC 60.521 55.000 0.00 0.00 0.00 2.67
38 39 0.099436 GACACAATCGAGCCATTGCC 59.901 55.000 0.00 0.00 37.28 4.52
46 47 2.993264 AGCCATTGCCTGCACACC 60.993 61.111 0.00 0.00 38.69 4.16
47 48 3.304721 GCCATTGCCTGCACACCA 61.305 61.111 0.00 0.00 0.00 4.17
49 50 1.005867 CCATTGCCTGCACACCAAC 60.006 57.895 0.00 0.00 0.00 3.77
54 55 0.467844 TGCCTGCACACCAACTCAAT 60.468 50.000 0.00 0.00 0.00 2.57
55 56 0.038892 GCCTGCACACCAACTCAATG 60.039 55.000 0.00 0.00 0.00 2.82
67 68 4.978099 CCAACTCAATGGTAGATGCCTAT 58.022 43.478 0.00 0.00 35.65 2.57
71 72 2.912956 TCAATGGTAGATGCCTATCCCC 59.087 50.000 0.00 0.00 33.64 4.81
94 95 4.720775 TTTTTGGCTTTTGGATGGGAAT 57.279 36.364 0.00 0.00 0.00 3.01
112 113 7.324388 TGGGAATACCGTCCTATATTGATTT 57.676 36.000 0.00 0.00 44.64 2.17
113 114 8.438618 TGGGAATACCGTCCTATATTGATTTA 57.561 34.615 0.00 0.00 44.64 1.40
115 116 8.537858 GGGAATACCGTCCTATATTGATTTACT 58.462 37.037 0.00 0.00 37.85 2.24
116 117 9.939802 GGAATACCGTCCTATATTGATTTACTT 57.060 33.333 0.00 0.00 34.56 2.24
163 164 5.101648 TGCATCATAGGACATCACAGAAA 57.898 39.130 0.00 0.00 0.00 2.52
169 170 2.996631 AGGACATCACAGAAATCAGGC 58.003 47.619 0.00 0.00 0.00 4.85
176 177 2.938451 TCACAGAAATCAGGCGCATTAG 59.062 45.455 10.83 0.00 0.00 1.73
187 188 2.757868 AGGCGCATTAGGTTATTGCAAA 59.242 40.909 10.83 0.00 35.42 3.68
191 192 5.925969 GGCGCATTAGGTTATTGCAAATTAT 59.074 36.000 10.83 0.00 35.42 1.28
192 193 7.040062 AGGCGCATTAGGTTATTGCAAATTATA 60.040 33.333 10.83 0.00 35.42 0.98
223 237 4.692228 TGCCTTGACTTTTGTTGGATTTC 58.308 39.130 0.00 0.00 0.00 2.17
269 283 1.347707 TCCAACTCTGGGTGTGATCAC 59.652 52.381 19.27 19.27 43.71 3.06
333 347 5.536161 AGTTCTCATTACATGGCAGTTTGTT 59.464 36.000 0.00 0.00 0.00 2.83
340 354 0.681175 ATGGCAGTTTGTTTGGAGGC 59.319 50.000 0.00 0.00 0.00 4.70
561 656 1.424403 TGTTGCTTGACCGTACGATG 58.576 50.000 18.76 3.00 0.00 3.84
680 786 5.140454 GCAATATTTGGGGTACTCAGGAAT 58.860 41.667 0.00 0.00 0.00 3.01
681 787 5.598417 GCAATATTTGGGGTACTCAGGAATT 59.402 40.000 0.00 0.00 0.00 2.17
785 892 1.580845 GCTGCCAGATTGCTCGTTGT 61.581 55.000 0.00 0.00 0.00 3.32
795 902 5.686841 CAGATTGCTCGTTGTTGATTTTTGA 59.313 36.000 0.00 0.00 0.00 2.69
881 1018 6.270815 TCGTGATTTTCGGGAGTATTAGAAG 58.729 40.000 0.00 0.00 0.00 2.85
942 1081 5.209818 TGAAACTGAAGTACTGAACCGAT 57.790 39.130 0.00 0.00 0.00 4.18
966 1105 5.719563 TGATCTTAGGACAGTGTTGGATGTA 59.280 40.000 0.00 0.00 0.00 2.29
979 1118 5.572896 GTGTTGGATGTAAGCAGTTATTTGC 59.427 40.000 0.00 0.00 44.41 3.68
1034 1173 3.249799 CGAGTTTAGCACATCCAACACAA 59.750 43.478 0.00 0.00 0.00 3.33
1035 1174 4.083324 CGAGTTTAGCACATCCAACACAAT 60.083 41.667 0.00 0.00 0.00 2.71
1036 1175 5.121611 CGAGTTTAGCACATCCAACACAATA 59.878 40.000 0.00 0.00 0.00 1.90
1089 1228 3.703001 TTCTTGTGGGGAGAATCTCAC 57.297 47.619 12.79 8.47 37.29 3.51
1095 1235 3.146847 GTGGGGAGAATCTCACGTTTTT 58.853 45.455 12.79 0.00 37.29 1.94
1169 1313 3.377485 GCTGACGTAGGTGAAGATAGTCA 59.623 47.826 0.00 0.00 36.04 3.41
1187 1331 2.047061 TCATGGTGTAGCCCCAGTATC 58.953 52.381 0.00 0.00 34.92 2.24
1269 1415 0.792640 CTGGAAACTGCTGCTACGTG 59.207 55.000 0.00 0.00 0.00 4.49
1283 1432 0.795358 TACGTGCGCACTCGTGTATG 60.795 55.000 35.27 20.60 44.92 2.39
1296 1445 4.338682 ACTCGTGTATGTCCAGTTATCTCC 59.661 45.833 0.00 0.00 0.00 3.71
1308 1457 4.566488 CCAGTTATCTCCAAGCTGACCTTT 60.566 45.833 0.00 0.00 0.00 3.11
1309 1458 4.394300 CAGTTATCTCCAAGCTGACCTTTG 59.606 45.833 0.00 0.00 0.00 2.77
1310 1459 4.287067 AGTTATCTCCAAGCTGACCTTTGA 59.713 41.667 0.00 0.00 0.00 2.69
1328 1479 2.010582 GAGAAGAGACGAGCGGCCAT 62.011 60.000 2.24 0.00 0.00 4.40
1338 1489 0.106708 GAGCGGCCATTGTCTCCATA 59.893 55.000 2.24 0.00 0.00 2.74
1435 1586 5.480772 CCTCTACACCCAGACCGATTATATT 59.519 44.000 0.00 0.00 0.00 1.28
1451 1602 0.542805 TATTACCCTCCACCGCAACC 59.457 55.000 0.00 0.00 0.00 3.77
1464 1615 2.196229 CAACCCACGGACCCCAAA 59.804 61.111 0.00 0.00 0.00 3.28
1465 1616 1.901464 CAACCCACGGACCCCAAAG 60.901 63.158 0.00 0.00 0.00 2.77
1466 1617 3.141421 AACCCACGGACCCCAAAGG 62.141 63.158 0.00 0.00 43.78 3.11
1500 1651 0.802494 CTACGGCAACATCCAACACC 59.198 55.000 0.00 0.00 0.00 4.16
1521 1672 1.224069 TGACGCTTCTCTTGCTGCAC 61.224 55.000 0.00 0.00 0.00 4.57
1567 1721 1.449778 GCAGCAGCAGCATCTGAGA 60.450 57.895 15.66 0.00 45.49 3.27
1568 1722 0.816018 GCAGCAGCAGCATCTGAGAT 60.816 55.000 15.66 0.00 45.49 2.75
1578 1732 0.596083 CATCTGAGATCGGCGACACC 60.596 60.000 13.76 4.51 0.00 4.16
1830 2002 2.156343 ACAACGAGTCTGCTTCTTCC 57.844 50.000 0.00 0.00 0.00 3.46
1903 2075 3.181434 ACCATGTCTCTTGCTTTGGGTTA 60.181 43.478 0.00 0.00 0.00 2.85
1937 2109 0.468226 ACACTGAAGCCTCGTCCAAA 59.532 50.000 0.00 0.00 0.00 3.28
1943 2115 3.218453 TGAAGCCTCGTCCAAAATCAAA 58.782 40.909 0.00 0.00 0.00 2.69
1951 2123 6.088824 CCTCGTCCAAAATCAAAAGAAGATG 58.911 40.000 0.00 0.00 0.00 2.90
1984 2168 7.042335 GCCATAAAGAAAGCTGTACTAGAAGA 58.958 38.462 0.00 0.00 0.00 2.87
1986 2170 9.436957 CCATAAAGAAAGCTGTACTAGAAGAAA 57.563 33.333 0.00 0.00 0.00 2.52
2000 2185 0.307760 AAGAAAAGTGCGTCTTGCCG 59.692 50.000 0.00 0.00 45.60 5.69
2008 2193 4.368808 CGTCTTGCCGCACCGTTG 62.369 66.667 0.00 0.00 0.00 4.10
2012 2197 3.855209 CTTGCCGCACCGTTGTTCG 62.855 63.158 0.00 0.00 39.52 3.95
2056 2251 5.045012 TCTATAGCGGAAGTACCTTCTCA 57.955 43.478 4.18 0.00 40.07 3.27
2142 2341 7.164230 TCTGTTCTTTTGGCAAAGTTTAAGA 57.836 32.000 13.04 9.74 40.47 2.10
2152 2351 8.655651 TTGGCAAAGTTTAAGAAATGTTTAGG 57.344 30.769 0.00 0.00 0.00 2.69
2156 2355 7.923878 GCAAAGTTTAAGAAATGTTTAGGGTGA 59.076 33.333 0.00 0.00 0.00 4.02
2163 2362 6.610075 AGAAATGTTTAGGGTGATTGCAAT 57.390 33.333 12.83 12.83 0.00 3.56
2169 2368 5.757320 TGTTTAGGGTGATTGCAATGTTTTG 59.243 36.000 18.59 0.00 35.85 2.44
2176 2375 6.128580 GGGTGATTGCAATGTTTTGTTATGAC 60.129 38.462 18.59 0.00 35.17 3.06
2178 2377 7.282916 GTGATTGCAATGTTTTGTTATGACAC 58.717 34.615 18.59 9.74 34.98 3.67
2179 2378 6.982724 TGATTGCAATGTTTTGTTATGACACA 59.017 30.769 18.59 0.00 34.98 3.72
2180 2379 7.656542 TGATTGCAATGTTTTGTTATGACACAT 59.343 29.630 18.59 0.00 34.98 3.21
2182 2381 5.628606 TGCAATGTTTTGTTATGACACATCG 59.371 36.000 0.00 0.00 34.98 3.84
2183 2382 5.443170 GCAATGTTTTGTTATGACACATCGC 60.443 40.000 0.00 0.00 34.98 4.58
2184 2383 4.820284 TGTTTTGTTATGACACATCGCA 57.180 36.364 0.00 0.00 34.98 5.10
2186 2385 5.767269 TGTTTTGTTATGACACATCGCATT 58.233 33.333 0.00 0.00 34.98 3.56
2188 2387 4.354071 TTGTTATGACACATCGCATTGG 57.646 40.909 0.00 0.00 34.98 3.16
2189 2388 3.342719 TGTTATGACACATCGCATTGGT 58.657 40.909 0.00 0.00 0.00 3.67
2190 2389 3.126686 TGTTATGACACATCGCATTGGTG 59.873 43.478 0.00 0.00 38.47 4.17
2191 2390 1.097232 ATGACACATCGCATTGGTGG 58.903 50.000 0.00 0.00 36.87 4.61
2193 2392 1.164411 GACACATCGCATTGGTGGAA 58.836 50.000 0.00 0.00 36.87 3.53
2194 2393 1.131126 GACACATCGCATTGGTGGAAG 59.869 52.381 0.00 0.00 36.87 3.46
2195 2394 0.179156 CACATCGCATTGGTGGAAGC 60.179 55.000 0.00 0.00 0.00 3.86
2196 2395 1.315257 ACATCGCATTGGTGGAAGCC 61.315 55.000 0.00 0.00 0.00 4.35
2197 2396 1.001020 ATCGCATTGGTGGAAGCCA 60.001 52.632 0.00 0.00 36.62 4.75
2198 2397 0.396139 ATCGCATTGGTGGAAGCCAT 60.396 50.000 0.00 0.00 38.48 4.40
2199 2398 1.140161 CGCATTGGTGGAAGCCATG 59.860 57.895 0.00 0.00 38.48 3.66
2200 2399 1.518774 GCATTGGTGGAAGCCATGG 59.481 57.895 7.63 7.63 38.48 3.66
2201 2400 1.259840 GCATTGGTGGAAGCCATGGT 61.260 55.000 14.67 0.00 38.48 3.55
2205 2404 2.685106 TGGTGGAAGCCATGGTAAAA 57.315 45.000 14.67 0.00 35.28 1.52
2207 2406 2.896685 TGGTGGAAGCCATGGTAAAAAG 59.103 45.455 14.67 0.00 35.28 2.27
2208 2407 2.233676 GGTGGAAGCCATGGTAAAAAGG 59.766 50.000 14.67 0.00 35.28 3.11
2209 2408 3.161866 GTGGAAGCCATGGTAAAAAGGA 58.838 45.455 14.67 0.00 35.28 3.36
2210 2409 3.576550 GTGGAAGCCATGGTAAAAAGGAA 59.423 43.478 14.67 0.00 35.28 3.36
2211 2410 4.039852 GTGGAAGCCATGGTAAAAAGGAAA 59.960 41.667 14.67 0.00 35.28 3.13
2239 2438 3.141398 TCAGAGCTCAAAAATGCGTTCT 58.859 40.909 17.77 0.00 0.00 3.01
2241 2440 4.754618 TCAGAGCTCAAAAATGCGTTCTAA 59.245 37.500 17.77 0.00 0.00 2.10
2242 2441 5.238432 TCAGAGCTCAAAAATGCGTTCTAAA 59.762 36.000 17.77 0.00 0.00 1.85
2243 2442 5.566774 CAGAGCTCAAAAATGCGTTCTAAAG 59.433 40.000 17.77 0.00 0.00 1.85
2244 2443 5.239525 AGAGCTCAAAAATGCGTTCTAAAGT 59.760 36.000 17.77 0.00 0.00 2.66
2245 2444 6.426937 AGAGCTCAAAAATGCGTTCTAAAGTA 59.573 34.615 17.77 0.00 0.00 2.24
2246 2445 6.371389 AGCTCAAAAATGCGTTCTAAAGTAC 58.629 36.000 0.00 0.00 0.00 2.73
2249 2448 7.209471 TCAAAAATGCGTTCTAAAGTACCAT 57.791 32.000 0.00 0.00 0.00 3.55
2250 2449 7.302524 TCAAAAATGCGTTCTAAAGTACCATC 58.697 34.615 0.00 0.00 0.00 3.51
2251 2450 6.811253 AAAATGCGTTCTAAAGTACCATCA 57.189 33.333 0.00 0.00 0.00 3.07
2252 2451 5.796350 AATGCGTTCTAAAGTACCATCAC 57.204 39.130 0.00 0.00 0.00 3.06
2253 2452 4.530710 TGCGTTCTAAAGTACCATCACT 57.469 40.909 0.00 0.00 0.00 3.41
2254 2453 5.648178 TGCGTTCTAAAGTACCATCACTA 57.352 39.130 0.00 0.00 0.00 2.74
2255 2454 5.647589 TGCGTTCTAAAGTACCATCACTAG 58.352 41.667 0.00 0.00 0.00 2.57
2256 2455 5.041940 GCGTTCTAAAGTACCATCACTAGG 58.958 45.833 0.00 0.00 0.00 3.02
2257 2456 5.393896 GCGTTCTAAAGTACCATCACTAGGT 60.394 44.000 0.00 0.00 43.14 3.08
2258 2457 6.628185 CGTTCTAAAGTACCATCACTAGGTT 58.372 40.000 0.00 0.00 40.54 3.50
2259 2458 7.095270 CGTTCTAAAGTACCATCACTAGGTTT 58.905 38.462 0.00 0.00 40.54 3.27
2260 2459 7.601508 CGTTCTAAAGTACCATCACTAGGTTTT 59.398 37.037 0.00 0.00 40.54 2.43
2261 2460 9.281371 GTTCTAAAGTACCATCACTAGGTTTTT 57.719 33.333 0.00 0.00 40.54 1.94
2262 2461 9.498176 TTCTAAAGTACCATCACTAGGTTTTTC 57.502 33.333 0.00 0.00 40.54 2.29
2263 2462 8.877195 TCTAAAGTACCATCACTAGGTTTTTCT 58.123 33.333 0.00 0.00 40.54 2.52
2264 2463 9.503399 CTAAAGTACCATCACTAGGTTTTTCTT 57.497 33.333 0.00 0.00 40.54 2.52
2265 2464 8.762481 AAAGTACCATCACTAGGTTTTTCTTT 57.238 30.769 0.00 0.00 40.54 2.52
2267 2466 8.762481 AGTACCATCACTAGGTTTTTCTTTTT 57.238 30.769 0.00 0.00 40.54 1.94
2284 2483 2.552268 TTTTTGCGCGCGAGTACC 59.448 55.556 37.18 16.43 0.00 3.34
2314 2927 2.711009 TGTTGGGATCCTCAAGAACAGT 59.289 45.455 12.58 0.00 0.00 3.55
2317 2930 3.251484 TGGGATCCTCAAGAACAGTCTT 58.749 45.455 12.58 0.00 45.36 3.01
2319 2932 4.257731 GGGATCCTCAAGAACAGTCTTTC 58.742 47.826 12.58 0.00 41.55 2.62
2321 2934 3.386768 TCCTCAAGAACAGTCTTTCGG 57.613 47.619 0.00 0.00 41.55 4.30
2322 2935 2.963101 TCCTCAAGAACAGTCTTTCGGA 59.037 45.455 0.00 0.00 41.55 4.55
2323 2936 3.386726 TCCTCAAGAACAGTCTTTCGGAA 59.613 43.478 0.00 0.00 41.55 4.30
2324 2937 3.495001 CCTCAAGAACAGTCTTTCGGAAC 59.505 47.826 0.00 0.00 41.55 3.62
2325 2938 4.372656 CTCAAGAACAGTCTTTCGGAACT 58.627 43.478 0.00 0.00 41.55 3.01
2326 2939 4.766375 TCAAGAACAGTCTTTCGGAACTT 58.234 39.130 0.00 0.00 41.55 2.66
2327 2940 4.570772 TCAAGAACAGTCTTTCGGAACTTG 59.429 41.667 0.00 0.00 41.55 3.16
2328 2941 4.138487 AGAACAGTCTTTCGGAACTTGT 57.862 40.909 0.00 0.00 0.00 3.16
2329 2942 3.871594 AGAACAGTCTTTCGGAACTTGTG 59.128 43.478 0.00 0.00 0.00 3.33
2330 2943 2.561569 ACAGTCTTTCGGAACTTGTGG 58.438 47.619 0.00 0.00 0.00 4.17
2335 2948 1.336755 CTTTCGGAACTTGTGGTTGGG 59.663 52.381 0.00 0.00 38.41 4.12
2347 2960 1.302192 GGTTGGGTGCTGCTACGAA 60.302 57.895 0.00 0.00 0.00 3.85
2365 2978 0.035152 AACCCATCTCAGCGATGCAA 60.035 50.000 0.00 0.00 46.61 4.08
2367 2980 1.442526 CCCATCTCAGCGATGCAACC 61.443 60.000 0.00 0.00 46.61 3.77
2379 2992 3.512516 GCAACCAGCGGCCTCATC 61.513 66.667 0.00 0.00 0.00 2.92
2380 2993 2.046023 CAACCAGCGGCCTCATCA 60.046 61.111 0.00 0.00 0.00 3.07
2381 2994 2.110967 CAACCAGCGGCCTCATCAG 61.111 63.158 0.00 0.00 0.00 2.90
2382 2995 3.984193 AACCAGCGGCCTCATCAGC 62.984 63.158 0.00 0.00 0.00 4.26
2422 4243 1.178534 AGCCACCACAATGTTTCCGG 61.179 55.000 0.00 0.00 0.00 5.14
2457 4283 7.961325 AAAAGAAAAAGTTCAGCAAACAAGA 57.039 28.000 5.00 0.00 40.56 3.02
2459 4285 7.961325 AAGAAAAAGTTCAGCAAACAAGAAA 57.039 28.000 5.00 0.00 40.56 2.52
2461 4287 8.552083 AGAAAAAGTTCAGCAAACAAGAAAAT 57.448 26.923 5.00 0.00 40.56 1.82
2478 4304 8.676401 ACAAGAAAATTCAAATCAAACTTTGGG 58.324 29.630 1.62 0.00 36.87 4.12
2495 4322 1.790755 GGGGACCGAAACAAAAATGC 58.209 50.000 0.00 0.00 40.86 3.56
2509 4336 4.394610 ACAAAAATGCAAACCAAGTCCAAC 59.605 37.500 0.00 0.00 0.00 3.77
2513 4340 4.853924 ATGCAAACCAAGTCCAACTAAG 57.146 40.909 0.00 0.00 0.00 2.18
2519 4346 6.293462 GCAAACCAAGTCCAACTAAGAAGTAG 60.293 42.308 0.00 0.00 33.75 2.57
2520 4347 6.742559 AACCAAGTCCAACTAAGAAGTAGA 57.257 37.500 0.00 0.00 33.75 2.59
2550 4378 3.260475 AGGCAAAACAAAACCAAGACC 57.740 42.857 0.00 0.00 0.00 3.85
2551 4379 2.093181 AGGCAAAACAAAACCAAGACCC 60.093 45.455 0.00 0.00 0.00 4.46
2552 4380 2.355209 GGCAAAACAAAACCAAGACCCA 60.355 45.455 0.00 0.00 0.00 4.51
2553 4381 3.339141 GCAAAACAAAACCAAGACCCAA 58.661 40.909 0.00 0.00 0.00 4.12
2556 4384 5.105957 GCAAAACAAAACCAAGACCCAAAAT 60.106 36.000 0.00 0.00 0.00 1.82
2559 4387 7.618502 AAACAAAACCAAGACCCAAAATAAC 57.381 32.000 0.00 0.00 0.00 1.89
2560 4388 6.553953 ACAAAACCAAGACCCAAAATAACT 57.446 33.333 0.00 0.00 0.00 2.24
2561 4389 6.345298 ACAAAACCAAGACCCAAAATAACTG 58.655 36.000 0.00 0.00 0.00 3.16
2562 4390 6.155393 ACAAAACCAAGACCCAAAATAACTGA 59.845 34.615 0.00 0.00 0.00 3.41
2565 4393 6.994421 ACCAAGACCCAAAATAACTGATTT 57.006 33.333 0.00 0.00 39.56 2.17
2566 4394 7.373617 ACCAAGACCCAAAATAACTGATTTT 57.626 32.000 0.00 0.00 46.60 1.82
2567 4395 7.801104 ACCAAGACCCAAAATAACTGATTTTT 58.199 30.769 0.00 0.00 43.83 1.94
2705 4540 2.304761 GTGTACCACTCCTCATTTCCCA 59.695 50.000 0.00 0.00 0.00 4.37
2731 4566 3.949754 CTGCCTGAAGGATCATGCTTTTA 59.050 43.478 0.00 0.00 44.61 1.52
2811 4647 3.005897 CCGAGGTGGGACTAATATGTCTG 59.994 52.174 0.00 0.00 37.16 3.51
2831 4667 4.821589 GCCTCGCTGAACCCTCGG 62.822 72.222 0.00 0.00 0.00 4.63
2832 4668 3.382832 CCTCGCTGAACCCTCGGT 61.383 66.667 0.00 0.00 37.65 4.69
2835 4671 4.452733 CGCTGAACCCTCGGTCCC 62.453 72.222 0.00 0.00 33.12 4.46
2838 4674 2.678934 TGAACCCTCGGTCCCTCG 60.679 66.667 0.00 0.00 33.12 4.63
2928 4767 4.158949 GGCCGGTCATTAGGTAAAACATTT 59.841 41.667 0.00 0.00 0.00 2.32
2929 4768 5.357596 GGCCGGTCATTAGGTAAAACATTTA 59.642 40.000 0.00 0.00 0.00 1.40
2935 4774 7.255569 GTCATTAGGTAAAACATTTAGCCCAC 58.744 38.462 8.07 0.00 0.00 4.61
2939 4778 3.057104 GGTAAAACATTTAGCCCACGCTT 60.057 43.478 1.60 0.00 45.55 4.68
2945 4784 1.161843 TTTAGCCCACGCTTGTTAGC 58.838 50.000 0.00 0.00 45.55 3.09
2950 4789 0.605319 CCCACGCTTGTTAGCCTTCA 60.605 55.000 0.00 0.00 44.86 3.02
2961 4800 2.248280 TAGCCTTCACGTTGCAGAAA 57.752 45.000 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.638719 GCGTGATTGCACAGCACA 59.361 55.556 14.51 0.00 45.41 4.57
1 2 2.126734 GGCGTGATTGCACAGCAC 60.127 61.111 0.00 7.06 45.41 4.40
3 4 3.422303 TCGGCGTGATTGCACAGC 61.422 61.111 6.85 0.00 45.41 4.40
4 5 2.316867 TGTCGGCGTGATTGCACAG 61.317 57.895 6.85 0.00 45.41 3.66
5 6 2.280457 TGTCGGCGTGATTGCACA 60.280 55.556 6.85 0.00 45.41 4.57
6 7 2.111932 TTGTGTCGGCGTGATTGCAC 62.112 55.000 6.85 8.39 41.67 4.57
7 8 1.233950 ATTGTGTCGGCGTGATTGCA 61.234 50.000 6.85 0.00 36.28 4.08
8 9 0.521242 GATTGTGTCGGCGTGATTGC 60.521 55.000 6.85 0.00 0.00 3.56
9 10 0.247262 CGATTGTGTCGGCGTGATTG 60.247 55.000 6.85 0.00 46.47 2.67
10 11 2.078226 CGATTGTGTCGGCGTGATT 58.922 52.632 6.85 0.00 46.47 2.57
11 12 3.780693 CGATTGTGTCGGCGTGAT 58.219 55.556 6.85 0.00 46.47 3.06
18 19 3.505502 GGCAATGGCTCGATTGTGTCG 62.506 57.143 0.00 0.00 43.78 4.35
19 20 0.099436 GGCAATGGCTCGATTGTGTC 59.901 55.000 0.00 0.00 40.87 3.67
20 21 0.322816 AGGCAATGGCTCGATTGTGT 60.323 50.000 2.53 0.00 40.87 3.72
21 22 0.099968 CAGGCAATGGCTCGATTGTG 59.900 55.000 6.27 0.00 40.87 3.33
22 23 1.660560 GCAGGCAATGGCTCGATTGT 61.661 55.000 6.27 0.00 40.87 2.71
23 24 1.065273 GCAGGCAATGGCTCGATTG 59.935 57.895 6.27 0.00 40.87 2.67
24 25 1.378911 TGCAGGCAATGGCTCGATT 60.379 52.632 6.27 0.00 40.87 3.34
25 26 2.117156 GTGCAGGCAATGGCTCGAT 61.117 57.895 6.27 0.00 40.87 3.59
26 27 2.747460 GTGCAGGCAATGGCTCGA 60.747 61.111 6.27 0.00 40.87 4.04
27 28 3.057548 TGTGCAGGCAATGGCTCG 61.058 61.111 6.27 4.14 40.87 5.03
28 29 2.570181 GTGTGCAGGCAATGGCTC 59.430 61.111 6.27 2.85 40.87 4.70
29 30 2.993264 GGTGTGCAGGCAATGGCT 60.993 61.111 2.53 2.53 40.87 4.75
30 31 2.870119 TTGGTGTGCAGGCAATGGC 61.870 57.895 0.00 0.00 40.13 4.40
46 47 4.999950 GGATAGGCATCTACCATTGAGTTG 59.000 45.833 0.00 0.00 0.00 3.16
47 48 4.042187 GGGATAGGCATCTACCATTGAGTT 59.958 45.833 0.00 0.00 0.00 3.01
49 50 3.054802 GGGGATAGGCATCTACCATTGAG 60.055 52.174 0.00 0.00 32.08 3.02
54 55 2.815357 AAGGGGATAGGCATCTACCA 57.185 50.000 0.00 0.00 33.35 3.25
55 56 4.455070 AAAAAGGGGATAGGCATCTACC 57.545 45.455 0.00 0.00 0.00 3.18
139 140 5.300411 TCTGTGATGTCCTATGATGCAAT 57.700 39.130 0.00 0.00 0.00 3.56
140 141 4.758773 TCTGTGATGTCCTATGATGCAA 57.241 40.909 0.00 0.00 0.00 4.08
163 164 2.554032 GCAATAACCTAATGCGCCTGAT 59.446 45.455 4.18 0.00 0.00 2.90
191 192 7.288810 ACAAAAGTCAAGGCAGATCAAAATA 57.711 32.000 0.00 0.00 0.00 1.40
192 193 6.165700 ACAAAAGTCAAGGCAGATCAAAAT 57.834 33.333 0.00 0.00 0.00 1.82
211 225 2.094100 TGCCTGGGAAATCCAACAAA 57.906 45.000 1.22 0.00 46.51 2.83
223 237 4.201910 CGTTACATACTTTCAATGCCTGGG 60.202 45.833 0.00 0.00 0.00 4.45
232 246 7.330946 CAGAGTTGGAATCGTTACATACTTTCA 59.669 37.037 0.00 0.00 0.00 2.69
269 283 3.853355 AATAGCCAATCCTCAGACAGG 57.147 47.619 0.00 0.00 45.15 4.00
279 293 1.595489 CGCGAGTGCAAATAGCCAATC 60.595 52.381 0.00 0.00 44.83 2.67
333 347 1.980765 ACATCTTGAGTCAGCCTCCAA 59.019 47.619 0.00 0.00 39.65 3.53
340 354 4.818546 ACAAACCTTGACATCTTGAGTCAG 59.181 41.667 0.00 0.00 45.72 3.51
543 604 1.389106 GACATCGTACGGTCAAGCAAC 59.611 52.381 16.52 0.00 34.22 4.17
561 656 3.806521 GCATCATACTGTGATCTGGTGAC 59.193 47.826 0.00 0.00 45.76 3.67
698 804 1.231963 ACCAACAGGAGGGGAAAAGT 58.768 50.000 0.00 0.00 0.00 2.66
744 851 4.442706 CAAGTACATAAGCCGAACCAGAT 58.557 43.478 0.00 0.00 0.00 2.90
826 961 6.261826 CACCCTGAGATTTCCAGATAATTGAC 59.738 42.308 0.00 0.00 33.65 3.18
842 977 1.177401 CACGAGTGATCACCCTGAGA 58.823 55.000 22.21 0.00 0.00 3.27
942 1081 4.532126 ACATCCAACACTGTCCTAAGATCA 59.468 41.667 0.00 0.00 0.00 2.92
966 1105 3.062042 GCAGCTTTGCAAATAACTGCTT 58.938 40.909 32.99 15.42 45.36 3.91
979 1118 3.245990 GCTAAACACAAAAGGCAGCTTTG 59.754 43.478 5.74 5.74 39.26 2.77
1054 1193 5.460646 CCACAAGAAACACGAATTTAGCAT 58.539 37.500 0.00 0.00 0.00 3.79
1062 1201 1.487142 TCTCCCCACAAGAAACACGAA 59.513 47.619 0.00 0.00 0.00 3.85
1089 1228 6.639279 CCTACCATACTTTTCCAACAAAAACG 59.361 38.462 0.00 0.00 0.00 3.60
1095 1235 4.076394 GTGCCTACCATACTTTTCCAACA 58.924 43.478 0.00 0.00 0.00 3.33
1169 1313 1.345009 TGGATACTGGGGCTACACCAT 60.345 52.381 0.00 0.00 37.38 3.55
1187 1331 5.959652 TTATATCGATTCAACGTGTGTGG 57.040 39.130 1.71 0.00 34.70 4.17
1269 1415 1.413767 CTGGACATACACGAGTGCGC 61.414 60.000 0.00 0.00 42.48 6.09
1283 1432 3.526534 GTCAGCTTGGAGATAACTGGAC 58.473 50.000 0.00 0.00 0.00 4.02
1296 1445 3.745458 GTCTCTTCTCAAAGGTCAGCTTG 59.255 47.826 0.00 0.00 33.03 4.01
1308 1457 2.701780 GGCCGCTCGTCTCTTCTCA 61.702 63.158 0.00 0.00 0.00 3.27
1309 1458 2.010582 ATGGCCGCTCGTCTCTTCTC 62.011 60.000 0.00 0.00 0.00 2.87
1310 1459 1.608717 AATGGCCGCTCGTCTCTTCT 61.609 55.000 0.00 0.00 0.00 2.85
1338 1489 1.550976 GCCCTACGCTAGCTTATGGAT 59.449 52.381 21.74 0.00 0.00 3.41
1360 1511 2.864114 CATGTGTTGGAGGCTGAGG 58.136 57.895 0.00 0.00 0.00 3.86
1383 1534 1.675310 ATGCACCGTGACACATGGG 60.675 57.895 13.46 0.00 44.23 4.00
1435 1586 3.324108 GGGTTGCGGTGGAGGGTA 61.324 66.667 0.00 0.00 0.00 3.69
1451 1602 0.843984 ATATCCTTTGGGGTCCGTGG 59.156 55.000 0.00 0.00 36.25 4.94
1459 1610 4.772100 AGTTGTTGTTGGATATCCTTTGGG 59.228 41.667 22.35 0.00 36.82 4.12
1464 1615 4.766375 CCGTAGTTGTTGTTGGATATCCT 58.234 43.478 22.35 1.57 36.82 3.24
1465 1616 3.311596 GCCGTAGTTGTTGTTGGATATCC 59.688 47.826 15.39 15.39 0.00 2.59
1466 1617 3.936453 TGCCGTAGTTGTTGTTGGATATC 59.064 43.478 0.00 0.00 0.00 1.63
1500 1651 0.096628 GCAGCAAGAGAAGCGTCATG 59.903 55.000 1.61 0.00 37.01 3.07
1547 1698 2.750237 CAGATGCTGCTGCTGCCA 60.750 61.111 25.44 15.33 40.48 4.92
1653 1825 3.547513 GGAGGGCCGCCGTAGATT 61.548 66.667 11.61 0.00 0.00 2.40
1903 2075 2.103432 TCAGTGTTCACCGTTACACCAT 59.897 45.455 9.15 0.00 44.38 3.55
1937 2109 4.265073 CGAGTCCCCATCTTCTTTTGATT 58.735 43.478 0.00 0.00 0.00 2.57
1943 2115 0.909610 TGGCGAGTCCCCATCTTCTT 60.910 55.000 0.00 0.00 0.00 2.52
1951 2123 2.289565 CTTTCTTTATGGCGAGTCCCC 58.710 52.381 0.00 0.00 0.00 4.81
2008 2193 2.712466 GCTTTACAACGACAAAGCGAAC 59.288 45.455 3.57 0.00 44.97 3.95
2056 2251 2.576298 GCCAGGAGCATTTGAGCTT 58.424 52.632 0.00 0.00 46.75 3.74
2119 2314 7.826260 TTCTTAAACTTTGCCAAAAGAACAG 57.174 32.000 5.27 0.00 44.81 3.16
2121 2316 8.664798 ACATTTCTTAAACTTTGCCAAAAGAAC 58.335 29.630 5.27 0.00 44.81 3.01
2129 2324 7.170828 CACCCTAAACATTTCTTAAACTTTGCC 59.829 37.037 0.00 0.00 0.00 4.52
2142 2341 6.112927 ACATTGCAATCACCCTAAACATTT 57.887 33.333 9.53 0.00 0.00 2.32
2152 2351 6.423302 TGTCATAACAAAACATTGCAATCACC 59.577 34.615 9.53 0.00 30.70 4.02
2156 2355 7.148771 CGATGTGTCATAACAAAACATTGCAAT 60.149 33.333 5.99 5.99 37.08 3.56
2163 2362 4.820284 TGCGATGTGTCATAACAAAACA 57.180 36.364 0.00 0.00 37.08 2.83
2169 2368 3.487376 CCACCAATGCGATGTGTCATAAC 60.487 47.826 0.00 0.00 0.00 1.89
2176 2375 0.179156 GCTTCCACCAATGCGATGTG 60.179 55.000 0.00 0.00 0.00 3.21
2178 2377 1.314534 TGGCTTCCACCAATGCGATG 61.315 55.000 0.00 0.00 36.55 3.84
2179 2378 0.396139 ATGGCTTCCACCAATGCGAT 60.396 50.000 0.00 0.00 44.65 4.58
2180 2379 1.001020 ATGGCTTCCACCAATGCGA 60.001 52.632 0.00 0.00 44.65 5.10
2182 2381 1.259840 ACCATGGCTTCCACCAATGC 61.260 55.000 13.04 0.00 44.65 3.56
2183 2382 2.142356 TACCATGGCTTCCACCAATG 57.858 50.000 13.04 0.00 44.65 2.82
2184 2383 2.917713 TTACCATGGCTTCCACCAAT 57.082 45.000 13.04 0.00 44.65 3.16
2186 2385 2.685106 TTTTACCATGGCTTCCACCA 57.315 45.000 13.04 0.00 45.82 4.17
2188 2387 3.161866 TCCTTTTTACCATGGCTTCCAC 58.838 45.455 13.04 0.00 35.80 4.02
2189 2388 3.534357 TCCTTTTTACCATGGCTTCCA 57.466 42.857 13.04 0.00 38.19 3.53
2190 2389 4.882842 TTTCCTTTTTACCATGGCTTCC 57.117 40.909 13.04 0.00 0.00 3.46
2216 2415 4.217118 AGAACGCATTTTTGAGCTCTGAAT 59.783 37.500 16.19 9.31 0.00 2.57
2217 2416 3.565482 AGAACGCATTTTTGAGCTCTGAA 59.435 39.130 16.19 7.14 0.00 3.02
2218 2417 3.141398 AGAACGCATTTTTGAGCTCTGA 58.859 40.909 16.19 0.25 0.00 3.27
2219 2418 3.549299 AGAACGCATTTTTGAGCTCTG 57.451 42.857 16.19 5.36 0.00 3.35
2226 2425 7.060633 GTGATGGTACTTTAGAACGCATTTTTG 59.939 37.037 0.00 0.00 0.00 2.44
2227 2426 7.040686 AGTGATGGTACTTTAGAACGCATTTTT 60.041 33.333 0.00 0.00 0.00 1.94
2239 2438 9.856162 AAAGAAAAACCTAGTGATGGTACTTTA 57.144 29.630 0.00 0.00 36.69 1.85
2241 2440 8.762481 AAAAGAAAAACCTAGTGATGGTACTT 57.238 30.769 0.00 0.00 36.69 2.24
2242 2441 8.762481 AAAAAGAAAAACCTAGTGATGGTACT 57.238 30.769 0.00 0.00 36.69 2.73
2267 2466 2.552268 GGTACTCGCGCGCAAAAA 59.448 55.556 32.61 10.73 0.00 1.94
2268 2467 3.769358 CGGTACTCGCGCGCAAAA 61.769 61.111 32.61 14.83 0.00 2.44
2273 2472 2.660612 AAAAACCGGTACTCGCGCG 61.661 57.895 26.76 26.76 37.59 6.86
2299 2912 3.929610 CCGAAAGACTGTTCTTGAGGATC 59.070 47.826 3.55 0.00 41.56 3.36
2314 2927 2.294074 CCAACCACAAGTTCCGAAAGA 58.706 47.619 0.00 0.00 36.18 2.52
2317 2930 0.256464 ACCCAACCACAAGTTCCGAA 59.744 50.000 0.00 0.00 36.18 4.30
2319 2932 2.029743 CACCCAACCACAAGTTCCG 58.970 57.895 0.00 0.00 36.18 4.30
2321 2934 0.385390 CAGCACCCAACCACAAGTTC 59.615 55.000 0.00 0.00 36.18 3.01
2322 2935 1.675720 GCAGCACCCAACCACAAGTT 61.676 55.000 0.00 0.00 40.16 2.66
2323 2936 2.127232 GCAGCACCCAACCACAAGT 61.127 57.895 0.00 0.00 0.00 3.16
2324 2937 0.537143 TAGCAGCACCCAACCACAAG 60.537 55.000 0.00 0.00 0.00 3.16
2325 2938 0.821711 GTAGCAGCACCCAACCACAA 60.822 55.000 0.00 0.00 0.00 3.33
2326 2939 1.228124 GTAGCAGCACCCAACCACA 60.228 57.895 0.00 0.00 0.00 4.17
2327 2940 2.325082 CGTAGCAGCACCCAACCAC 61.325 63.158 0.00 0.00 0.00 4.16
2328 2941 2.031919 CGTAGCAGCACCCAACCA 59.968 61.111 0.00 0.00 0.00 3.67
2329 2942 1.302192 TTCGTAGCAGCACCCAACC 60.302 57.895 0.00 0.00 0.00 3.77
2330 2943 1.574702 GGTTCGTAGCAGCACCCAAC 61.575 60.000 0.00 0.00 0.00 3.77
2335 2948 0.108138 AGATGGGTTCGTAGCAGCAC 60.108 55.000 0.00 0.00 0.00 4.40
2365 2978 4.479993 GCTGATGAGGCCGCTGGT 62.480 66.667 8.34 0.00 0.00 4.00
2386 2999 1.825285 GCTGTCCTATGCATCGCGTG 61.825 60.000 0.19 5.06 0.00 5.34
2387 3000 1.592669 GCTGTCCTATGCATCGCGT 60.593 57.895 0.19 0.00 0.00 6.01
2388 3001 2.313172 GGCTGTCCTATGCATCGCG 61.313 63.158 0.19 0.00 0.00 5.87
2389 3002 1.227645 TGGCTGTCCTATGCATCGC 60.228 57.895 0.19 0.00 0.00 4.58
2391 3004 0.181114 TGGTGGCTGTCCTATGCATC 59.819 55.000 0.19 0.00 0.00 3.91
2392 3005 0.107017 GTGGTGGCTGTCCTATGCAT 60.107 55.000 3.79 3.79 0.00 3.96
2394 3007 0.322456 TTGTGGTGGCTGTCCTATGC 60.322 55.000 0.00 0.00 0.00 3.14
2395 3008 2.019249 CATTGTGGTGGCTGTCCTATG 58.981 52.381 0.00 0.00 0.00 2.23
2396 3009 1.635487 ACATTGTGGTGGCTGTCCTAT 59.365 47.619 0.00 0.00 0.00 2.57
2443 4264 8.389603 TGATTTGAATTTTCTTGTTTGCTGAAC 58.610 29.630 0.00 0.00 38.78 3.18
2444 4265 8.489990 TGATTTGAATTTTCTTGTTTGCTGAA 57.510 26.923 0.00 0.00 0.00 3.02
2456 4282 7.255104 GGTCCCCAAAGTTTGATTTGAATTTTC 60.255 37.037 17.33 0.00 41.71 2.29
2457 4283 6.545666 GGTCCCCAAAGTTTGATTTGAATTTT 59.454 34.615 17.33 0.00 41.71 1.82
2459 4285 5.620206 GGTCCCCAAAGTTTGATTTGAATT 58.380 37.500 17.33 0.00 41.71 2.17
2461 4287 3.068873 CGGTCCCCAAAGTTTGATTTGAA 59.931 43.478 17.33 0.00 41.71 2.69
2478 4304 3.001838 GGTTTGCATTTTTGTTTCGGTCC 59.998 43.478 0.00 0.00 0.00 4.46
2483 4310 5.123027 TGGACTTGGTTTGCATTTTTGTTTC 59.877 36.000 0.00 0.00 0.00 2.78
2494 4321 4.338400 ACTTCTTAGTTGGACTTGGTTTGC 59.662 41.667 0.00 0.00 0.00 3.68
2495 4322 6.990349 TCTACTTCTTAGTTGGACTTGGTTTG 59.010 38.462 0.00 0.00 35.78 2.93
2527 4355 5.011227 GGGTCTTGGTTTTGTTTTGCCTATA 59.989 40.000 0.00 0.00 0.00 1.31
2542 4370 6.994421 AAATCAGTTATTTTGGGTCTTGGT 57.006 33.333 0.00 0.00 33.91 3.67
2593 4427 3.210232 ACCATCTGATCCTGAATGCAG 57.790 47.619 0.00 0.00 41.93 4.41
2594 4428 4.776435 TTACCATCTGATCCTGAATGCA 57.224 40.909 0.00 0.00 0.00 3.96
2595 4429 5.766670 TGATTTACCATCTGATCCTGAATGC 59.233 40.000 0.00 0.00 0.00 3.56
2596 4430 6.073385 CGTGATTTACCATCTGATCCTGAATG 60.073 42.308 0.00 0.00 0.00 2.67
2705 4540 2.307768 CATGATCCTTCAGGCAGCAAT 58.692 47.619 0.00 0.00 34.73 3.56
2832 4668 2.922503 TTGTCCAGCAGCGAGGGA 60.923 61.111 7.04 3.53 0.00 4.20
2835 4671 0.947244 AAAAGTTGTCCAGCAGCGAG 59.053 50.000 0.00 0.00 33.27 5.03
2838 4674 1.000938 CCTCAAAAGTTGTCCAGCAGC 60.001 52.381 0.00 0.00 0.00 5.25
2887 4723 0.949105 CCCACTTGTGTACGCCTGAC 60.949 60.000 3.51 0.00 0.00 3.51
2935 4774 0.865769 AACGTGAAGGCTAACAAGCG 59.134 50.000 0.00 5.64 35.24 4.68
2939 4778 1.202592 TCTGCAACGTGAAGGCTAACA 60.203 47.619 0.00 0.00 0.00 2.41


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

AutoCloner maintained by Alex Coulton.