Multiple sequence alignment - TraesCS2B01G059600

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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 TraesCS2B01G059600 chr2B 100.000 2240 0 0 1 2240 28906301 28908540 0.000000e+00 4137
1 TraesCS2B01G059600 chr2B 89.633 1746 145 18 250 1972 29994174 29992442 0.000000e+00 2189
2 TraesCS2B01G059600 chr2B 87.868 1088 100 17 250 1312 29043854 29044934 0.000000e+00 1249
3 TraesCS2B01G059600 chr2B 87.263 581 48 17 1475 2035 29045210 29045784 6.750000e-180 640
4 TraesCS2B01G059600 chr2B 97.368 152 4 0 2089 2240 3020845 3020996 2.210000e-65 259
5 TraesCS2B01G059600 chr2B 95.597 159 7 0 2082 2240 657024311 657024469 2.850000e-64 255
6 TraesCS2B01G059600 chr2B 85.455 220 18 11 1265 1483 29044977 29045183 1.350000e-52 217
7 TraesCS2B01G059600 chr2B 82.222 135 9 4 1961 2095 29992482 29992363 3.940000e-18 102
8 TraesCS2B01G059600 chr2D 92.847 2083 97 26 30 2095 17309736 17311783 0.000000e+00 2974
9 TraesCS2B01G059600 chr2D 88.485 1155 59 26 1 1113 17164771 17165893 0.000000e+00 1328
10 TraesCS2B01G059600 chr2D 95.411 828 35 2 1269 2095 17167897 17168722 0.000000e+00 1315
11 TraesCS2B01G059600 chr2D 85.714 210 29 1 275 483 17208053 17208262 1.040000e-53 220
12 TraesCS2B01G059600 chr2D 98.095 105 2 0 1167 1271 17165886 17165990 1.370000e-42 183
13 TraesCS2B01G059600 chr2A 94.832 1161 48 5 919 2077 18634282 18635432 0.000000e+00 1801
14 TraesCS2B01G059600 chr2A 89.117 634 62 6 225 854 18583758 18584388 0.000000e+00 782
15 TraesCS2B01G059600 chr2A 91.865 504 30 3 822 1314 18584403 18584906 0.000000e+00 693
16 TraesCS2B01G059600 chr2A 88.400 500 43 7 1598 2095 18585373 18585859 2.480000e-164 588
17 TraesCS2B01G059600 chr2A 83.607 183 29 1 275 456 18662263 18662445 1.060000e-38 171
18 TraesCS2B01G059600 chr2A 91.525 118 7 2 1367 1483 18585124 18585239 2.300000e-35 159
19 TraesCS2B01G059600 chr5B 98.013 151 3 0 2090 2240 490144889 490145039 1.710000e-66 263
20 TraesCS2B01G059600 chr4B 98.639 147 2 0 2094 2240 513695096 513695242 6.140000e-66 261
21 TraesCS2B01G059600 chr6B 97.368 152 3 1 2090 2240 27935422 27935271 7.940000e-65 257
22 TraesCS2B01G059600 chr7B 96.178 157 5 1 2085 2240 615871854 615872010 2.850000e-64 255
23 TraesCS2B01G059600 chr7B 96.178 157 5 1 2085 2240 615896836 615896992 2.850000e-64 255
24 TraesCS2B01G059600 chr7B 93.529 170 7 3 2071 2240 728910374 728910539 1.330000e-62 250
25 TraesCS2B01G059600 chr7B 92.442 172 7 6 2071 2240 745677903 745678070 7.990000e-60 241


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 TraesCS2B01G059600 chr2B 28906301 28908540 2239 False 4137.0 4137 100.00000 1 2240 1 chr2B.!!$F2 2239
1 TraesCS2B01G059600 chr2B 29992363 29994174 1811 True 1145.5 2189 85.92750 250 2095 2 chr2B.!!$R1 1845
2 TraesCS2B01G059600 chr2B 29043854 29045784 1930 False 702.0 1249 86.86200 250 2035 3 chr2B.!!$F4 1785
3 TraesCS2B01G059600 chr2D 17309736 17311783 2047 False 2974.0 2974 92.84700 30 2095 1 chr2D.!!$F2 2065
4 TraesCS2B01G059600 chr2D 17164771 17168722 3951 False 942.0 1328 93.99700 1 2095 3 chr2D.!!$F3 2094
5 TraesCS2B01G059600 chr2A 18634282 18635432 1150 False 1801.0 1801 94.83200 919 2077 1 chr2A.!!$F1 1158
6 TraesCS2B01G059600 chr2A 18583758 18585859 2101 False 555.5 782 90.22675 225 2095 4 chr2A.!!$F3 1870

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
791 836 1.34108 CTTGCCCCACCAGAAATTGT 58.659 50.0 0.0 0.0 0.0 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2220 4489 0.035725 ACCGGTGCTAAAGGTTAGCC 60.036 55.0 6.12 8.21 39.69 3.93 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 71 9.105206 CTTTCATCTTTGTGTTGTTTGTTTTTG 57.895 29.630 0.00 0.00 0.00 2.44
542 585 8.946085 TCATAGTCAACTTTAGCCAAACTTATG 58.054 33.333 0.00 0.00 0.00 1.90
645 690 8.397951 TGAGATATAATAATGCCCTTCTCCAT 57.602 34.615 0.00 0.00 0.00 3.41
717 762 8.465999 ACTTATCTCTATCTGGAGCATTATTCG 58.534 37.037 0.00 0.00 33.70 3.34
761 806 4.238514 CCGAGAAAGTTACTGAGTTGGAG 58.761 47.826 0.00 0.00 0.00 3.86
791 836 1.341080 CTTGCCCCACCAGAAATTGT 58.659 50.000 0.00 0.00 0.00 2.71
795 840 1.453155 CCCCACCAGAAATTGTCTCG 58.547 55.000 0.00 0.00 32.70 4.04
868 973 8.454106 CGAATGGAAATCAACATAGAGAAACTT 58.546 33.333 0.00 0.00 0.00 2.66
962 1082 5.260424 TCATTATAGGAAAACCAGCAAGCA 58.740 37.500 0.00 0.00 0.00 3.91
963 1083 5.714333 TCATTATAGGAAAACCAGCAAGCAA 59.286 36.000 0.00 0.00 0.00 3.91
984 1107 9.969001 AAGCAATTATAACACTTCTAGGGTTTA 57.031 29.630 0.00 0.00 39.11 2.01
1036 1159 2.489329 CTGTTTGTCCTTGCCATGGTAG 59.511 50.000 14.67 11.07 0.00 3.18
1051 1174 3.147553 TGGTAGTGGTTAATGCTTGCA 57.852 42.857 0.00 0.00 0.00 4.08
1093 1216 4.069304 ACCGAGAGAGCATGTACTAGATC 58.931 47.826 0.00 0.00 0.00 2.75
1129 1252 4.790962 CGACGGGAGAGGGGACGA 62.791 72.222 0.00 0.00 0.00 4.20
1374 3573 8.951787 TCGTTGTGCTACCTATATGTAAATTT 57.048 30.769 0.00 0.00 0.00 1.82
1391 3590 0.331278 TTTTGGGTGAGCCGGATCAT 59.669 50.000 27.42 0.00 34.97 2.45
1395 3594 1.690219 GGGTGAGCCGGATCATGTCT 61.690 60.000 27.42 0.00 34.97 3.41
1396 3595 1.040646 GGTGAGCCGGATCATGTCTA 58.959 55.000 27.42 0.00 0.00 2.59
1402 3601 6.183360 GGTGAGCCGGATCATGTCTATATATT 60.183 42.308 27.42 0.00 0.00 1.28
1809 4075 5.742453 GCATGCAATTGTTAATGAGAGTCTG 59.258 40.000 14.21 0.00 0.00 3.51
1859 4125 9.979270 CAATTGCACACTAGTTAAGATCTTTAG 57.021 33.333 14.36 11.72 0.00 1.85
1885 4151 6.994992 TGTTGAAATAAAGTTTTTGGCGAAC 58.005 32.000 0.00 0.00 0.00 3.95
1951 4219 6.573664 TGCATTGTTATGTAAGCTGAAACT 57.426 33.333 0.00 0.00 34.12 2.66
2058 4327 9.683069 CTTCACTGAAAGCACTTTACATAAATT 57.317 29.630 0.00 0.00 37.60 1.82
2117 4386 8.843885 ATACACTAGTAGAAAAAGGGTCAAAC 57.156 34.615 3.59 0.00 32.86 2.93
2118 4387 5.756833 ACACTAGTAGAAAAAGGGTCAAACG 59.243 40.000 3.59 0.00 0.00 3.60
2119 4388 5.756833 CACTAGTAGAAAAAGGGTCAAACGT 59.243 40.000 3.59 0.00 0.00 3.99
2120 4389 5.756833 ACTAGTAGAAAAAGGGTCAAACGTG 59.243 40.000 3.59 0.00 0.00 4.49
2121 4390 4.773013 AGTAGAAAAAGGGTCAAACGTGA 58.227 39.130 0.00 0.00 0.00 4.35
2122 4391 5.187687 AGTAGAAAAAGGGTCAAACGTGAA 58.812 37.500 0.00 0.00 34.87 3.18
2123 4392 4.632538 AGAAAAAGGGTCAAACGTGAAG 57.367 40.909 0.00 0.00 34.87 3.02
2124 4393 2.863401 AAAAGGGTCAAACGTGAAGC 57.137 45.000 0.00 0.00 34.87 3.86
2125 4394 1.757682 AAAGGGTCAAACGTGAAGCA 58.242 45.000 0.00 0.00 34.87 3.91
2126 4395 1.021968 AAGGGTCAAACGTGAAGCAC 58.978 50.000 0.00 0.00 34.87 4.40
2127 4396 0.107410 AGGGTCAAACGTGAAGCACA 60.107 50.000 0.00 0.00 34.87 4.57
2128 4397 0.951558 GGGTCAAACGTGAAGCACAT 59.048 50.000 0.00 0.00 34.87 3.21
2129 4398 1.336755 GGGTCAAACGTGAAGCACATT 59.663 47.619 0.00 0.00 34.87 2.71
2130 4399 2.550606 GGGTCAAACGTGAAGCACATTA 59.449 45.455 0.00 0.00 34.87 1.90
2131 4400 3.364964 GGGTCAAACGTGAAGCACATTAG 60.365 47.826 0.00 0.00 34.87 1.73
2132 4401 3.250040 GGTCAAACGTGAAGCACATTAGT 59.750 43.478 0.00 0.00 34.87 2.24
2133 4402 4.211389 GTCAAACGTGAAGCACATTAGTG 58.789 43.478 0.00 0.00 41.33 2.74
2145 4414 4.695217 CACATTAGTGCCGGTTTGTATT 57.305 40.909 1.90 0.00 39.21 1.89
2146 4415 5.804692 CACATTAGTGCCGGTTTGTATTA 57.195 39.130 1.90 0.00 39.21 0.98
2147 4416 5.806286 CACATTAGTGCCGGTTTGTATTAG 58.194 41.667 1.90 0.00 39.21 1.73
2148 4417 5.583061 CACATTAGTGCCGGTTTGTATTAGA 59.417 40.000 1.90 0.00 39.21 2.10
2149 4418 5.815740 ACATTAGTGCCGGTTTGTATTAGAG 59.184 40.000 1.90 0.00 0.00 2.43
2150 4419 2.629051 AGTGCCGGTTTGTATTAGAGC 58.371 47.619 1.90 0.00 0.00 4.09
2151 4420 1.669265 GTGCCGGTTTGTATTAGAGCC 59.331 52.381 1.90 0.00 0.00 4.70
2152 4421 0.935196 GCCGGTTTGTATTAGAGCCG 59.065 55.000 1.90 0.00 38.99 5.52
2154 4423 0.935196 CGGTTTGTATTAGAGCCGGC 59.065 55.000 21.89 21.89 36.05 6.13
2155 4424 1.741055 CGGTTTGTATTAGAGCCGGCA 60.741 52.381 31.54 8.23 36.05 5.69
2156 4425 1.669265 GGTTTGTATTAGAGCCGGCAC 59.331 52.381 31.54 24.27 0.00 5.01
2157 4426 2.352388 GTTTGTATTAGAGCCGGCACA 58.648 47.619 31.54 20.30 0.00 4.57
2158 4427 2.745281 GTTTGTATTAGAGCCGGCACAA 59.255 45.455 31.54 24.97 0.00 3.33
2159 4428 2.772077 TGTATTAGAGCCGGCACAAA 57.228 45.000 31.54 19.15 0.00 2.83
2160 4429 3.275617 TGTATTAGAGCCGGCACAAAT 57.724 42.857 31.54 24.28 0.00 2.32
2161 4430 2.942376 TGTATTAGAGCCGGCACAAATG 59.058 45.455 31.54 0.00 0.00 2.32
2162 4431 2.128771 ATTAGAGCCGGCACAAATGT 57.871 45.000 31.54 8.56 0.00 2.71
2163 4432 2.772077 TTAGAGCCGGCACAAATGTA 57.228 45.000 31.54 7.38 0.00 2.29
2164 4433 3.275617 TTAGAGCCGGCACAAATGTAT 57.724 42.857 31.54 3.33 0.00 2.29
2165 4434 4.409718 TTAGAGCCGGCACAAATGTATA 57.590 40.909 31.54 4.27 0.00 1.47
2166 4435 2.561569 AGAGCCGGCACAAATGTATAC 58.438 47.619 31.54 0.00 0.00 1.47
2167 4436 2.093181 AGAGCCGGCACAAATGTATACA 60.093 45.455 31.54 8.27 0.00 2.29
2168 4437 2.878406 GAGCCGGCACAAATGTATACAT 59.122 45.455 31.54 12.75 38.41 2.29
2170 4439 4.456535 AGCCGGCACAAATGTATACATTA 58.543 39.130 31.54 0.00 45.06 1.90
2171 4440 4.515191 AGCCGGCACAAATGTATACATTAG 59.485 41.667 31.54 20.66 45.06 1.73
2172 4441 4.274950 GCCGGCACAAATGTATACATTAGT 59.725 41.667 27.15 13.13 45.06 2.24
2173 4442 5.747565 CCGGCACAAATGTATACATTAGTG 58.252 41.667 27.15 23.76 45.06 2.74
2174 4443 5.204833 CGGCACAAATGTATACATTAGTGC 58.795 41.667 27.15 25.04 45.06 4.40
2176 4445 5.204833 GCACAAATGTATACATTAGTGCCG 58.795 41.667 27.15 18.30 45.06 5.69
2177 4446 5.747565 CACAAATGTATACATTAGTGCCGG 58.252 41.667 27.15 13.99 45.06 6.13
2178 4447 5.295787 CACAAATGTATACATTAGTGCCGGT 59.704 40.000 27.15 15.13 45.06 5.28
2179 4448 5.883673 ACAAATGTATACATTAGTGCCGGTT 59.116 36.000 27.15 9.19 45.06 4.44
2180 4449 6.037830 ACAAATGTATACATTAGTGCCGGTTC 59.962 38.462 27.15 0.00 45.06 3.62
2181 4450 4.062677 TGTATACATTAGTGCCGGTTCC 57.937 45.455 1.90 0.00 0.00 3.62
2182 4451 3.451540 TGTATACATTAGTGCCGGTTCCA 59.548 43.478 1.90 0.00 0.00 3.53
2183 4452 3.637911 ATACATTAGTGCCGGTTCCAA 57.362 42.857 1.90 0.00 0.00 3.53
2184 4453 1.530323 ACATTAGTGCCGGTTCCAAC 58.470 50.000 1.90 0.00 0.00 3.77
2185 4454 0.446222 CATTAGTGCCGGTTCCAACG 59.554 55.000 1.90 0.00 0.00 4.10
2191 4460 3.569902 CCGGTTCCAACGGTTAGC 58.430 61.111 0.00 0.00 46.03 3.09
2192 4461 2.036571 CCGGTTCCAACGGTTAGCC 61.037 63.158 0.00 0.00 46.03 3.93
2193 4462 1.301874 CGGTTCCAACGGTTAGCCA 60.302 57.895 0.00 0.00 34.09 4.75
2194 4463 1.296056 CGGTTCCAACGGTTAGCCAG 61.296 60.000 0.00 0.00 34.09 4.85
2195 4464 0.958876 GGTTCCAACGGTTAGCCAGG 60.959 60.000 0.00 0.00 34.09 4.45
2196 4465 1.302993 TTCCAACGGTTAGCCAGGC 60.303 57.895 1.84 1.84 34.09 4.85
2197 4466 2.750237 CCAACGGTTAGCCAGGCC 60.750 66.667 8.22 0.00 34.09 5.19
2202 4471 4.858680 GGTTAGCCAGGCCGCTCC 62.859 72.222 8.22 1.67 40.39 4.70
2203 4472 4.858680 GTTAGCCAGGCCGCTCCC 62.859 72.222 8.22 0.00 40.39 4.30
2207 4476 4.189580 GCCAGGCCGCTCCCATTA 62.190 66.667 0.00 0.00 34.51 1.90
2208 4477 2.111878 CCAGGCCGCTCCCATTAG 59.888 66.667 0.00 0.00 34.51 1.73
2209 4478 2.746375 CCAGGCCGCTCCCATTAGT 61.746 63.158 0.00 0.00 34.51 2.24
2210 4479 1.407656 CCAGGCCGCTCCCATTAGTA 61.408 60.000 0.00 0.00 34.51 1.82
2211 4480 0.249911 CAGGCCGCTCCCATTAGTAC 60.250 60.000 0.00 0.00 34.51 2.73
2212 4481 1.070957 GGCCGCTCCCATTAGTACC 59.929 63.158 0.00 0.00 0.00 3.34
2213 4482 1.300697 GCCGCTCCCATTAGTACCG 60.301 63.158 0.00 0.00 0.00 4.02
2214 4483 1.366366 CCGCTCCCATTAGTACCGG 59.634 63.158 0.00 0.00 0.00 5.28
2215 4484 1.397390 CCGCTCCCATTAGTACCGGT 61.397 60.000 13.98 13.98 0.00 5.28
2216 4485 0.462789 CGCTCCCATTAGTACCGGTT 59.537 55.000 15.04 0.00 0.00 4.44
2217 4486 1.537562 CGCTCCCATTAGTACCGGTTC 60.538 57.143 15.04 8.12 0.00 3.62
2218 4487 1.537562 GCTCCCATTAGTACCGGTTCG 60.538 57.143 15.04 0.00 0.00 3.95
2219 4488 1.753073 CTCCCATTAGTACCGGTTCGT 59.247 52.381 15.04 0.00 0.00 3.85
2220 4489 1.477700 TCCCATTAGTACCGGTTCGTG 59.522 52.381 15.04 9.74 0.00 4.35
2221 4490 1.472026 CCCATTAGTACCGGTTCGTGG 60.472 57.143 15.04 17.95 0.00 4.94
2222 4491 1.283736 CATTAGTACCGGTTCGTGGC 58.716 55.000 15.04 0.00 0.00 5.01
2223 4492 1.134907 CATTAGTACCGGTTCGTGGCT 60.135 52.381 15.04 4.60 0.00 4.75
2224 4493 1.832883 TTAGTACCGGTTCGTGGCTA 58.167 50.000 15.04 3.58 0.00 3.93
2225 4494 1.832883 TAGTACCGGTTCGTGGCTAA 58.167 50.000 15.04 0.00 0.00 3.09
2226 4495 0.244721 AGTACCGGTTCGTGGCTAAC 59.755 55.000 15.04 0.15 0.00 2.34
2227 4496 0.737367 GTACCGGTTCGTGGCTAACC 60.737 60.000 15.04 6.84 42.52 2.85
2228 4497 0.899717 TACCGGTTCGTGGCTAACCT 60.900 55.000 15.04 0.00 43.55 3.50
2229 4498 1.004200 CCGGTTCGTGGCTAACCTT 60.004 57.895 12.80 0.00 43.55 3.50
2230 4499 0.604511 CCGGTTCGTGGCTAACCTTT 60.605 55.000 12.80 0.00 43.55 3.11
2231 4500 1.338011 CCGGTTCGTGGCTAACCTTTA 60.338 52.381 12.80 0.00 43.55 1.85
2232 4501 1.997606 CGGTTCGTGGCTAACCTTTAG 59.002 52.381 12.80 0.00 43.55 1.85
2233 4502 1.736126 GGTTCGTGGCTAACCTTTAGC 59.264 52.381 9.08 9.08 42.63 3.09
2234 4503 2.419667 GTTCGTGGCTAACCTTTAGCA 58.580 47.619 17.42 3.86 42.06 3.49
2235 4504 2.088950 TCGTGGCTAACCTTTAGCAC 57.911 50.000 17.42 12.64 42.06 4.40
2236 4505 1.084289 CGTGGCTAACCTTTAGCACC 58.916 55.000 17.42 7.76 42.06 5.01
2237 4506 1.084289 GTGGCTAACCTTTAGCACCG 58.916 55.000 17.42 0.00 42.06 4.94
2238 4507 0.035820 TGGCTAACCTTTAGCACCGG 60.036 55.000 17.42 0.00 42.06 5.28
2239 4508 0.035725 GGCTAACCTTTAGCACCGGT 60.036 55.000 17.42 0.00 42.06 5.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
185 186 9.829507 ACAATCCATGAGTTTAAAAATGTTCAA 57.170 25.926 0.00 0.00 0.00 2.69
316 358 2.004808 TAGATGCCTGTCGTGCCTCG 62.005 60.000 0.00 0.00 41.41 4.63
415 458 4.284490 GCCCCCTTTTCTCTTTTCTTCAAT 59.716 41.667 0.00 0.00 0.00 2.57
418 461 3.501349 AGCCCCCTTTTCTCTTTTCTTC 58.499 45.455 0.00 0.00 0.00 2.87
542 585 2.124403 CAGGGAGCATGGCAGGTC 60.124 66.667 0.00 4.41 35.36 3.85
645 690 8.421784 CCTCACTACTGGATAGCTGTAATTTAA 58.578 37.037 0.00 0.00 33.73 1.52
717 762 6.858993 TCGGTGCAAAACATTTTAGTATTGTC 59.141 34.615 0.00 0.00 0.00 3.18
761 806 0.904394 TGGGGCAAGGGCATTTTCTC 60.904 55.000 0.00 0.00 43.71 2.87
795 840 4.787735 TGGACTCTCCACCTAGGC 57.212 61.111 9.30 0.00 42.67 3.93
809 854 4.777896 AGTGCCTCTTTACTATCTTGTGGA 59.222 41.667 0.00 0.00 0.00 4.02
962 1082 8.542926 ACGGTAAACCCTAGAAGTGTTATAATT 58.457 33.333 0.00 0.00 0.00 1.40
963 1083 8.082672 ACGGTAAACCCTAGAAGTGTTATAAT 57.917 34.615 0.00 0.00 0.00 1.28
1036 1159 0.596082 ACGGTGCAAGCATTAACCAC 59.404 50.000 0.00 0.00 34.56 4.16
1080 1203 5.926214 TCACTACTCGATCTAGTACATGC 57.074 43.478 3.07 0.00 0.00 4.06
1093 1216 1.565305 GCTGCCATCTTCACTACTCG 58.435 55.000 0.00 0.00 0.00 4.18
1129 1252 1.290203 GCATGGTGATTGTCGATCGT 58.710 50.000 15.94 0.00 37.60 3.73
1286 3320 7.709947 TCAAAAGAGTATGTATACGTACCCTG 58.290 38.462 25.11 16.88 38.73 4.45
1374 3573 1.224315 CATGATCCGGCTCACCCAA 59.776 57.895 10.77 0.00 0.00 4.12
1800 4066 0.681733 GACAACAGGCCAGACTCTCA 59.318 55.000 5.01 0.00 0.00 3.27
1859 4125 6.994992 TCGCCAAAAACTTTATTTCAACAAC 58.005 32.000 0.00 0.00 0.00 3.32
1878 4144 3.567585 TCATCAAAGTGAAATGTTCGCCA 59.432 39.130 0.00 0.00 40.99 5.69
1879 4145 4.159377 TCATCAAAGTGAAATGTTCGCC 57.841 40.909 0.00 0.00 40.99 5.54
1885 4151 6.860023 GGACTGTCTTTCATCAAAGTGAAATG 59.140 38.462 7.85 0.00 44.48 2.32
1903 4169 2.495669 CCTTTGAGGAGAGAGGACTGTC 59.504 54.545 0.00 0.00 37.67 3.51
2095 4364 5.756833 ACGTTTGACCCTTTTTCTACTAGTG 59.243 40.000 5.39 0.00 0.00 2.74
2096 4365 5.756833 CACGTTTGACCCTTTTTCTACTAGT 59.243 40.000 0.00 0.00 0.00 2.57
2097 4366 5.987347 TCACGTTTGACCCTTTTTCTACTAG 59.013 40.000 0.00 0.00 0.00 2.57
2098 4367 5.916318 TCACGTTTGACCCTTTTTCTACTA 58.084 37.500 0.00 0.00 0.00 1.82
2099 4368 4.773013 TCACGTTTGACCCTTTTTCTACT 58.227 39.130 0.00 0.00 0.00 2.57
2100 4369 5.488645 TTCACGTTTGACCCTTTTTCTAC 57.511 39.130 0.00 0.00 0.00 2.59
2101 4370 4.035909 GCTTCACGTTTGACCCTTTTTCTA 59.964 41.667 0.00 0.00 0.00 2.10
2102 4371 3.181490 GCTTCACGTTTGACCCTTTTTCT 60.181 43.478 0.00 0.00 0.00 2.52
2103 4372 3.113322 GCTTCACGTTTGACCCTTTTTC 58.887 45.455 0.00 0.00 0.00 2.29
2104 4373 2.494073 TGCTTCACGTTTGACCCTTTTT 59.506 40.909 0.00 0.00 0.00 1.94
2105 4374 2.096248 TGCTTCACGTTTGACCCTTTT 58.904 42.857 0.00 0.00 0.00 2.27
2106 4375 1.404035 GTGCTTCACGTTTGACCCTTT 59.596 47.619 0.00 0.00 0.00 3.11
2107 4376 1.021968 GTGCTTCACGTTTGACCCTT 58.978 50.000 0.00 0.00 0.00 3.95
2108 4377 0.107410 TGTGCTTCACGTTTGACCCT 60.107 50.000 0.00 0.00 37.14 4.34
2109 4378 0.951558 ATGTGCTTCACGTTTGACCC 59.048 50.000 0.00 0.00 37.14 4.46
2110 4379 2.774439 AATGTGCTTCACGTTTGACC 57.226 45.000 0.00 0.00 40.16 4.02
2111 4380 4.211389 CACTAATGTGCTTCACGTTTGAC 58.789 43.478 16.11 0.00 40.16 3.18
2112 4381 4.466567 CACTAATGTGCTTCACGTTTGA 57.533 40.909 16.11 0.00 40.16 2.69
2124 4393 4.695217 AATACAAACCGGCACTAATGTG 57.305 40.909 0.00 0.00 46.37 3.21
2125 4394 5.736813 TCTAATACAAACCGGCACTAATGT 58.263 37.500 0.00 0.11 0.00 2.71
2126 4395 5.277345 GCTCTAATACAAACCGGCACTAATG 60.277 44.000 0.00 0.00 0.00 1.90
2127 4396 4.814771 GCTCTAATACAAACCGGCACTAAT 59.185 41.667 0.00 0.00 0.00 1.73
2128 4397 4.186159 GCTCTAATACAAACCGGCACTAA 58.814 43.478 0.00 0.00 0.00 2.24
2129 4398 3.431207 GGCTCTAATACAAACCGGCACTA 60.431 47.826 0.00 0.00 0.00 2.74
2130 4399 2.629051 GCTCTAATACAAACCGGCACT 58.371 47.619 0.00 0.00 0.00 4.40
2131 4400 1.669265 GGCTCTAATACAAACCGGCAC 59.331 52.381 0.00 0.00 0.00 5.01
2132 4401 1.741055 CGGCTCTAATACAAACCGGCA 60.741 52.381 0.00 0.00 37.04 5.69
2133 4402 0.935196 CGGCTCTAATACAAACCGGC 59.065 55.000 0.00 0.00 37.04 6.13
2135 4404 0.935196 GCCGGCTCTAATACAAACCG 59.065 55.000 22.15 0.00 40.30 4.44
2136 4405 1.669265 GTGCCGGCTCTAATACAAACC 59.331 52.381 29.70 0.00 0.00 3.27
2137 4406 2.352388 TGTGCCGGCTCTAATACAAAC 58.648 47.619 29.70 13.68 0.00 2.93
2138 4407 2.772077 TGTGCCGGCTCTAATACAAA 57.228 45.000 29.70 1.97 0.00 2.83
2139 4408 2.772077 TTGTGCCGGCTCTAATACAA 57.228 45.000 29.70 24.25 0.00 2.41
2140 4409 2.772077 TTTGTGCCGGCTCTAATACA 57.228 45.000 29.70 19.55 0.00 2.29
2141 4410 2.943033 ACATTTGTGCCGGCTCTAATAC 59.057 45.455 28.79 18.88 0.00 1.89
2142 4411 3.275617 ACATTTGTGCCGGCTCTAATA 57.724 42.857 28.79 11.32 0.00 0.98
2143 4412 2.128771 ACATTTGTGCCGGCTCTAAT 57.871 45.000 29.70 27.24 0.00 1.73
2144 4413 2.772077 TACATTTGTGCCGGCTCTAA 57.228 45.000 29.70 26.24 0.00 2.10
2145 4414 3.133183 TGTATACATTTGTGCCGGCTCTA 59.867 43.478 29.70 18.80 0.00 2.43
2146 4415 2.093181 TGTATACATTTGTGCCGGCTCT 60.093 45.455 29.70 10.27 0.00 4.09
2147 4416 2.285083 TGTATACATTTGTGCCGGCTC 58.715 47.619 29.70 25.38 0.00 4.70
2148 4417 2.411628 TGTATACATTTGTGCCGGCT 57.588 45.000 29.70 7.80 0.00 5.52
2149 4418 3.708563 AATGTATACATTTGTGCCGGC 57.291 42.857 22.70 22.73 43.48 6.13
2156 4425 6.371809 AACCGGCACTAATGTATACATTTG 57.628 37.500 30.62 28.99 43.48 2.32
2157 4426 5.529800 GGAACCGGCACTAATGTATACATTT 59.470 40.000 30.62 15.12 43.48 2.32
2159 4428 4.101898 TGGAACCGGCACTAATGTATACAT 59.898 41.667 12.75 12.75 38.41 2.29
2160 4429 3.451540 TGGAACCGGCACTAATGTATACA 59.548 43.478 8.27 8.27 0.00 2.29
2161 4430 4.062677 TGGAACCGGCACTAATGTATAC 57.937 45.455 0.00 0.00 0.00 1.47
2162 4431 4.444536 GTTGGAACCGGCACTAATGTATA 58.555 43.478 0.00 0.00 0.00 1.47
2163 4432 3.275999 GTTGGAACCGGCACTAATGTAT 58.724 45.455 0.00 0.00 0.00 2.29
2164 4433 2.702261 GTTGGAACCGGCACTAATGTA 58.298 47.619 0.00 0.00 0.00 2.29
2165 4434 1.530323 GTTGGAACCGGCACTAATGT 58.470 50.000 0.00 0.00 0.00 2.71
2166 4435 0.446222 CGTTGGAACCGGCACTAATG 59.554 55.000 0.00 1.62 0.00 1.90
2167 4436 0.675522 CCGTTGGAACCGGCACTAAT 60.676 55.000 0.00 0.00 38.85 1.73
2168 4437 1.301874 CCGTTGGAACCGGCACTAA 60.302 57.895 0.00 0.00 38.85 2.24
2169 4438 2.344500 CCGTTGGAACCGGCACTA 59.656 61.111 0.00 0.00 38.85 2.74
2175 4444 1.296056 CTGGCTAACCGTTGGAACCG 61.296 60.000 0.00 0.00 39.70 4.44
2176 4445 0.958876 CCTGGCTAACCGTTGGAACC 60.959 60.000 0.00 0.00 39.70 3.62
2177 4446 1.583495 GCCTGGCTAACCGTTGGAAC 61.583 60.000 12.43 0.00 39.70 3.62
2178 4447 1.302993 GCCTGGCTAACCGTTGGAA 60.303 57.895 12.43 0.00 39.70 3.53
2179 4448 2.349755 GCCTGGCTAACCGTTGGA 59.650 61.111 12.43 0.00 39.70 3.53
2180 4449 2.750237 GGCCTGGCTAACCGTTGG 60.750 66.667 19.68 0.00 39.70 3.77
2181 4450 3.124921 CGGCCTGGCTAACCGTTG 61.125 66.667 19.68 0.00 42.01 4.10
2185 4454 4.858680 GGAGCGGCCTGGCTAACC 62.859 72.222 19.68 12.92 44.93 2.85
2186 4455 4.858680 GGGAGCGGCCTGGCTAAC 62.859 72.222 19.68 8.29 44.93 2.34
2190 4459 4.189580 TAATGGGAGCGGCCTGGC 62.190 66.667 11.05 11.05 36.66 4.85
2191 4460 1.407656 TACTAATGGGAGCGGCCTGG 61.408 60.000 0.00 0.00 36.66 4.45
2192 4461 0.249911 GTACTAATGGGAGCGGCCTG 60.250 60.000 0.00 0.00 36.66 4.85
2193 4462 1.408453 GGTACTAATGGGAGCGGCCT 61.408 60.000 0.00 0.00 36.66 5.19
2194 4463 1.070957 GGTACTAATGGGAGCGGCC 59.929 63.158 0.00 0.00 0.00 6.13
2195 4464 1.300697 CGGTACTAATGGGAGCGGC 60.301 63.158 0.00 0.00 0.00 6.53
2196 4465 1.366366 CCGGTACTAATGGGAGCGG 59.634 63.158 4.81 4.81 46.44 5.52
2197 4466 0.462789 AACCGGTACTAATGGGAGCG 59.537 55.000 8.00 0.00 0.00 5.03
2198 4467 1.537562 CGAACCGGTACTAATGGGAGC 60.538 57.143 8.00 0.00 0.00 4.70
2199 4468 1.753073 ACGAACCGGTACTAATGGGAG 59.247 52.381 8.00 0.00 0.00 4.30
2200 4469 1.477700 CACGAACCGGTACTAATGGGA 59.522 52.381 8.00 0.00 0.00 4.37
2201 4470 1.472026 CCACGAACCGGTACTAATGGG 60.472 57.143 8.00 0.00 0.00 4.00
2202 4471 1.930567 CCACGAACCGGTACTAATGG 58.069 55.000 8.00 8.26 0.00 3.16
2203 4472 1.134907 AGCCACGAACCGGTACTAATG 60.135 52.381 8.00 2.10 0.00 1.90
2204 4473 1.188863 AGCCACGAACCGGTACTAAT 58.811 50.000 8.00 0.00 0.00 1.73
2205 4474 1.832883 TAGCCACGAACCGGTACTAA 58.167 50.000 8.00 0.00 0.00 2.24
2206 4475 1.472480 GTTAGCCACGAACCGGTACTA 59.528 52.381 8.00 0.15 0.00 1.82
2207 4476 0.244721 GTTAGCCACGAACCGGTACT 59.755 55.000 8.00 0.00 0.00 2.73
2208 4477 0.737367 GGTTAGCCACGAACCGGTAC 60.737 60.000 8.00 0.00 37.22 3.34
2209 4478 1.591183 GGTTAGCCACGAACCGGTA 59.409 57.895 8.00 0.00 37.22 4.02
2210 4479 2.344872 GGTTAGCCACGAACCGGT 59.655 61.111 0.00 0.00 37.22 5.28
2213 4482 1.736126 GCTAAAGGTTAGCCACGAACC 59.264 52.381 8.52 1.79 45.76 3.62
2214 4483 2.159037 GTGCTAAAGGTTAGCCACGAAC 59.841 50.000 15.48 5.02 39.69 3.95
2215 4484 2.419667 GTGCTAAAGGTTAGCCACGAA 58.580 47.619 15.48 0.00 39.69 3.85
2216 4485 1.338389 GGTGCTAAAGGTTAGCCACGA 60.338 52.381 15.48 0.00 39.69 4.35
2217 4486 1.084289 GGTGCTAAAGGTTAGCCACG 58.916 55.000 15.48 0.00 39.69 4.94
2218 4487 1.084289 CGGTGCTAAAGGTTAGCCAC 58.916 55.000 15.48 12.98 39.69 5.01
2219 4488 0.035820 CCGGTGCTAAAGGTTAGCCA 60.036 55.000 15.48 3.60 39.69 4.75
2220 4489 0.035725 ACCGGTGCTAAAGGTTAGCC 60.036 55.000 6.12 8.21 39.69 3.93
2221 4490 3.545724 ACCGGTGCTAAAGGTTAGC 57.454 52.632 6.12 12.12 40.76 3.09


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

AutoCloner maintained by Alex Coulton.