Multiple sequence alignment - TraesCS3B01G315000

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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 TraesCS3B01G315000 chr3B 100.000 1315 0 0 1 1315 506733252 506734566 0.000000e+00 2429.0
1 TraesCS3B01G315000 chr3B 100.000 149 0 0 2050 2198 506733478 506733330 2.150000e-70 276.0
2 TraesCS3B01G315000 chr3B 100.000 149 0 0 2050 2198 506735301 506735449 2.150000e-70 276.0
3 TraesCS3B01G315000 chr7B 92.027 740 9 4 1 691 742603411 742602673 0.000000e+00 994.0
4 TraesCS3B01G315000 chr7B 96.364 440 12 3 60 496 579822380 579822818 0.000000e+00 721.0
5 TraesCS3B01G315000 chr7B 89.275 345 31 5 352 691 439422171 439421828 5.610000e-116 427.0
6 TraesCS3B01G315000 chr7B 99.329 149 1 0 2050 2198 742603166 742603314 1.000000e-68 270.0
7 TraesCS3B01G315000 chr7B 95.973 149 6 0 2050 2198 579822547 579822399 2.180000e-60 243.0
8 TraesCS3B01G315000 chr7B 95.973 149 6 0 2050 2198 579822623 579822475 2.180000e-60 243.0
9 TraesCS3B01G315000 chr2B 91.445 713 25 8 10 690 170087915 170087207 0.000000e+00 946.0
10 TraesCS3B01G315000 chr2B 94.380 516 8 3 1 496 217266821 217267335 0.000000e+00 773.0
11 TraesCS3B01G315000 chr2B 93.061 490 26 7 10 495 353852266 353851781 0.000000e+00 710.0
12 TraesCS3B01G315000 chr2B 88.696 345 29 7 354 691 549908109 549907768 1.570000e-111 412.0
13 TraesCS3B01G315000 chr2B 88.696 345 29 7 354 691 549940624 549940283 1.570000e-111 412.0
14 TraesCS3B01G315000 chr2B 99.329 149 1 0 2050 2198 170087775 170087923 1.000000e-68 270.0
15 TraesCS3B01G315000 chr2B 97.987 149 3 0 2050 2198 217267066 217266918 2.160000e-65 259.0
16 TraesCS3B01G315000 chr3A 90.679 633 24 13 693 1315 510006768 510007375 0.000000e+00 809.0
17 TraesCS3B01G315000 chr5B 87.407 675 59 23 1 656 545590746 545591413 0.000000e+00 752.0
18 TraesCS3B01G315000 chr5B 93.686 491 24 6 10 496 616976483 616976970 0.000000e+00 728.0
19 TraesCS3B01G315000 chr5B 99.329 149 1 0 2050 2198 616976775 616976627 1.000000e-68 270.0
20 TraesCS3B01G315000 chr6B 93.483 491 25 6 10 496 664721805 664721318 0.000000e+00 723.0
21 TraesCS3B01G315000 chr6B 97.987 149 3 0 2050 2198 525184406 525184554 2.160000e-65 259.0
22 TraesCS3B01G315000 chr6B 96.644 149 5 0 2050 2198 345240033 345240181 4.690000e-62 248.0
23 TraesCS3B01G315000 chr3D 88.376 628 38 16 693 1315 389136283 389136880 0.000000e+00 723.0
24 TraesCS3B01G315000 chr1B 85.933 718 49 26 5 690 578641291 578641988 0.000000e+00 719.0
25 TraesCS3B01G315000 chr1B 91.717 495 30 10 9 495 469169119 469168628 0.000000e+00 676.0
26 TraesCS3B01G315000 chr1B 80.612 98 16 1 1097 1191 669751579 669751676 3.030000e-09 73.1
27 TraesCS3B01G315000 chrUn 88.986 345 28 7 354 691 392615630 392615971 3.380000e-113 418.0
28 TraesCS3B01G315000 chr7A 87.042 355 29 7 354 691 714678802 714678448 3.420000e-103 385.0


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 TraesCS3B01G315000 chr3B 506733252 506735449 2197 False 1352.5 2429 100.000 1 2198 2 chr3B.!!$F1 2197
1 TraesCS3B01G315000 chr7B 742602673 742603411 738 True 994.0 994 92.027 1 691 1 chr7B.!!$R2 690
2 TraesCS3B01G315000 chr2B 170087207 170087915 708 True 946.0 946 91.445 10 690 1 chr2B.!!$R1 680
3 TraesCS3B01G315000 chr2B 217266821 217267335 514 False 773.0 773 94.380 1 496 1 chr2B.!!$F2 495
4 TraesCS3B01G315000 chr3A 510006768 510007375 607 False 809.0 809 90.679 693 1315 1 chr3A.!!$F1 622
5 TraesCS3B01G315000 chr5B 545590746 545591413 667 False 752.0 752 87.407 1 656 1 chr5B.!!$F1 655
6 TraesCS3B01G315000 chr3D 389136283 389136880 597 False 723.0 723 88.376 693 1315 1 chr3D.!!$F1 622
7 TraesCS3B01G315000 chr1B 578641291 578641988 697 False 719.0 719 85.933 5 690 1 chr1B.!!$F1 685

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
753 823 0.539669 GGCTGGTGGGCTAAAAGTGT 60.54 55.0 0.0 0.0 37.53 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2149 2232 0.039527 ACAAATTTGGAAGCGCGGAC 60.04 50.0 21.74 0.0 0.0 4.79 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
552 622 1.687563 CCAAAACCGTTCAGGAACCT 58.312 50.000 6.59 0.00 45.00 3.50
670 740 3.609258 GACAAGTCGACGCAACGT 58.391 55.556 10.46 4.03 45.10 3.99
698 768 7.380423 TCCAATAGGATTTTCCCAAAAACAA 57.620 32.000 0.00 0.00 39.61 2.83
705 775 5.419155 GGATTTTCCCAAAAACAACCCAAAA 59.581 36.000 0.00 0.00 37.20 2.44
753 823 0.539669 GGCTGGTGGGCTAAAAGTGT 60.540 55.000 0.00 0.00 37.53 3.55
778 848 3.202706 GTCGGCCCATTTCCTCGC 61.203 66.667 0.00 0.00 0.00 5.03
785 855 1.675310 CCATTTCCTCGCTGTGCCA 60.675 57.895 0.00 0.00 0.00 4.92
897 977 1.719378 TCCTCTCCTCTGGTTCTCCTT 59.281 52.381 0.00 0.00 34.23 3.36
898 978 2.107366 CCTCTCCTCTGGTTCTCCTTC 58.893 57.143 0.00 0.00 34.23 3.46
917 999 4.520111 CCTTCCATCATCACAACTCACAAA 59.480 41.667 0.00 0.00 0.00 2.83
918 1000 5.335426 CCTTCCATCATCACAACTCACAAAG 60.335 44.000 0.00 0.00 0.00 2.77
919 1001 3.503363 TCCATCATCACAACTCACAAAGC 59.497 43.478 0.00 0.00 0.00 3.51
920 1002 3.504906 CCATCATCACAACTCACAAAGCT 59.495 43.478 0.00 0.00 0.00 3.74
921 1003 4.473199 CATCATCACAACTCACAAAGCTG 58.527 43.478 0.00 0.00 0.00 4.24
922 1004 2.291465 TCATCACAACTCACAAAGCTGC 59.709 45.455 0.00 0.00 0.00 5.25
923 1005 1.748950 TCACAACTCACAAAGCTGCA 58.251 45.000 1.02 0.00 0.00 4.41
924 1006 2.090760 TCACAACTCACAAAGCTGCAA 58.909 42.857 1.02 0.00 0.00 4.08
925 1007 2.689471 TCACAACTCACAAAGCTGCAAT 59.311 40.909 1.02 0.00 0.00 3.56
926 1008 3.882288 TCACAACTCACAAAGCTGCAATA 59.118 39.130 1.02 0.00 0.00 1.90
927 1009 4.520111 TCACAACTCACAAAGCTGCAATAT 59.480 37.500 1.02 0.00 0.00 1.28
928 1010 4.855388 CACAACTCACAAAGCTGCAATATC 59.145 41.667 1.02 0.00 0.00 1.63
929 1011 4.082571 ACAACTCACAAAGCTGCAATATCC 60.083 41.667 1.02 0.00 0.00 2.59
930 1012 3.689347 ACTCACAAAGCTGCAATATCCA 58.311 40.909 1.02 0.00 0.00 3.41
931 1013 4.081406 ACTCACAAAGCTGCAATATCCAA 58.919 39.130 1.02 0.00 0.00 3.53
932 1014 4.523943 ACTCACAAAGCTGCAATATCCAAA 59.476 37.500 1.02 0.00 0.00 3.28
933 1015 5.010922 ACTCACAAAGCTGCAATATCCAAAA 59.989 36.000 1.02 0.00 0.00 2.44
934 1016 5.851720 TCACAAAGCTGCAATATCCAAAAA 58.148 33.333 1.02 0.00 0.00 1.94
997 1079 2.125552 CACGATTGGCAGAGGCGA 60.126 61.111 7.23 0.00 42.47 5.54
1202 1284 0.183014 CTCTCCCCCGTGTAGCTCTA 59.817 60.000 0.00 0.00 0.00 2.43
2086 2169 3.907894 AAAAATTGTCCGCGCTTCTAA 57.092 38.095 5.56 0.00 0.00 2.10
2087 2170 3.907894 AAAATTGTCCGCGCTTCTAAA 57.092 38.095 5.56 0.00 0.00 1.85
2088 2171 4.434713 AAAATTGTCCGCGCTTCTAAAT 57.565 36.364 5.56 0.00 0.00 1.40
2089 2172 4.434713 AAATTGTCCGCGCTTCTAAATT 57.565 36.364 5.56 2.55 0.00 1.82
2090 2173 4.434713 AATTGTCCGCGCTTCTAAATTT 57.565 36.364 5.56 0.00 0.00 1.82
2091 2174 2.892373 TGTCCGCGCTTCTAAATTTG 57.108 45.000 5.56 0.00 0.00 2.32
2092 2175 2.147958 TGTCCGCGCTTCTAAATTTGT 58.852 42.857 5.56 0.00 0.00 2.83
2093 2176 2.550606 TGTCCGCGCTTCTAAATTTGTT 59.449 40.909 5.56 0.00 0.00 2.83
2094 2177 3.161306 GTCCGCGCTTCTAAATTTGTTC 58.839 45.455 5.56 0.00 0.00 3.18
2095 2178 3.071479 TCCGCGCTTCTAAATTTGTTCT 58.929 40.909 5.56 0.00 0.00 3.01
2096 2179 3.124636 TCCGCGCTTCTAAATTTGTTCTC 59.875 43.478 5.56 0.00 0.00 2.87
2097 2180 3.417185 CGCGCTTCTAAATTTGTTCTCC 58.583 45.455 5.56 0.00 0.00 3.71
2098 2181 3.120338 CGCGCTTCTAAATTTGTTCTCCA 60.120 43.478 5.56 0.00 0.00 3.86
2099 2182 4.437390 CGCGCTTCTAAATTTGTTCTCCAT 60.437 41.667 5.56 0.00 0.00 3.41
2100 2183 5.402398 GCGCTTCTAAATTTGTTCTCCATT 58.598 37.500 0.00 0.00 0.00 3.16
2101 2184 5.863935 GCGCTTCTAAATTTGTTCTCCATTT 59.136 36.000 0.00 0.00 0.00 2.32
2102 2185 6.033937 GCGCTTCTAAATTTGTTCTCCATTTC 59.966 38.462 0.00 0.00 0.00 2.17
2103 2186 7.083858 CGCTTCTAAATTTGTTCTCCATTTCA 58.916 34.615 0.00 0.00 0.00 2.69
2104 2187 7.594758 CGCTTCTAAATTTGTTCTCCATTTCAA 59.405 33.333 0.00 0.00 0.00 2.69
2105 2188 9.260002 GCTTCTAAATTTGTTCTCCATTTCAAA 57.740 29.630 0.00 0.00 34.95 2.69
2114 2197 9.447157 TTTGTTCTCCATTTCAAAATTTGTTCT 57.553 25.926 5.56 0.00 0.00 3.01
2115 2198 8.647143 TGTTCTCCATTTCAAAATTTGTTCTC 57.353 30.769 5.56 0.00 0.00 2.87
2116 2199 8.256605 TGTTCTCCATTTCAAAATTTGTTCTCA 58.743 29.630 5.56 0.00 0.00 3.27
2117 2200 9.097257 GTTCTCCATTTCAAAATTTGTTCTCAA 57.903 29.630 5.56 0.00 0.00 3.02
2118 2201 8.647143 TCTCCATTTCAAAATTTGTTCTCAAC 57.353 30.769 5.56 0.00 32.93 3.18
2119 2202 8.256605 TCTCCATTTCAAAATTTGTTCTCAACA 58.743 29.630 5.56 0.00 40.21 3.33
2120 2203 8.961294 TCCATTTCAAAATTTGTTCTCAACAT 57.039 26.923 5.56 0.00 41.79 2.71
2121 2204 9.393512 TCCATTTCAAAATTTGTTCTCAACATT 57.606 25.926 5.56 0.00 41.79 2.71
2122 2205 9.654417 CCATTTCAAAATTTGTTCTCAACATTC 57.346 29.630 5.56 0.00 41.79 2.67
2134 2217 7.893824 TGTTCTCAACATTCAAAAATTGTTCG 58.106 30.769 0.00 0.00 36.25 3.95
2135 2218 7.543868 TGTTCTCAACATTCAAAAATTGTTCGT 59.456 29.630 0.00 0.00 36.25 3.85
2136 2219 7.448588 TCTCAACATTCAAAAATTGTTCGTG 57.551 32.000 0.00 0.00 0.00 4.35
2137 2220 6.019961 TCTCAACATTCAAAAATTGTTCGTGC 60.020 34.615 0.00 0.00 0.00 5.34
2138 2221 5.809562 TCAACATTCAAAAATTGTTCGTGCT 59.190 32.000 0.00 0.00 0.00 4.40
2139 2222 6.312426 TCAACATTCAAAAATTGTTCGTGCTT 59.688 30.769 0.00 0.00 0.00 3.91
2140 2223 6.660887 ACATTCAAAAATTGTTCGTGCTTT 57.339 29.167 0.00 0.00 0.00 3.51
2141 2224 6.704819 ACATTCAAAAATTGTTCGTGCTTTC 58.295 32.000 0.00 0.00 0.00 2.62
2142 2225 6.312426 ACATTCAAAAATTGTTCGTGCTTTCA 59.688 30.769 0.00 0.00 0.00 2.69
2143 2226 6.712241 TTCAAAAATTGTTCGTGCTTTCAA 57.288 29.167 0.00 0.00 0.00 2.69
2144 2227 6.712241 TCAAAAATTGTTCGTGCTTTCAAA 57.288 29.167 0.00 0.00 0.00 2.69
2145 2228 7.121974 TCAAAAATTGTTCGTGCTTTCAAAA 57.878 28.000 0.00 0.00 0.00 2.44
2146 2229 7.576236 TCAAAAATTGTTCGTGCTTTCAAAAA 58.424 26.923 0.00 0.00 0.00 1.94
2147 2230 8.233190 TCAAAAATTGTTCGTGCTTTCAAAAAT 58.767 25.926 0.00 0.00 0.00 1.82
2148 2231 8.848528 CAAAAATTGTTCGTGCTTTCAAAAATT 58.151 25.926 0.00 0.00 0.00 1.82
2149 2232 7.951706 AAATTGTTCGTGCTTTCAAAAATTG 57.048 28.000 0.00 0.00 0.00 2.32
2150 2233 6.660887 ATTGTTCGTGCTTTCAAAAATTGT 57.339 29.167 0.00 0.00 0.00 2.71
2151 2234 5.694674 TGTTCGTGCTTTCAAAAATTGTC 57.305 34.783 0.00 0.00 0.00 3.18
2152 2235 4.564769 TGTTCGTGCTTTCAAAAATTGTCC 59.435 37.500 0.00 0.00 0.00 4.02
2153 2236 3.367607 TCGTGCTTTCAAAAATTGTCCG 58.632 40.909 0.00 0.00 0.00 4.79
2154 2237 2.097444 CGTGCTTTCAAAAATTGTCCGC 60.097 45.455 0.00 0.00 0.00 5.54
2155 2238 2.097444 GTGCTTTCAAAAATTGTCCGCG 60.097 45.455 0.00 0.00 0.00 6.46
2156 2239 1.136639 GCTTTCAAAAATTGTCCGCGC 60.137 47.619 0.00 0.00 0.00 6.86
2157 2240 2.393764 CTTTCAAAAATTGTCCGCGCT 58.606 42.857 5.56 0.00 0.00 5.92
2158 2241 2.500509 TTCAAAAATTGTCCGCGCTT 57.499 40.000 5.56 0.00 0.00 4.68
2159 2242 2.044888 TCAAAAATTGTCCGCGCTTC 57.955 45.000 5.56 0.00 0.00 3.86
2160 2243 1.059942 CAAAAATTGTCCGCGCTTCC 58.940 50.000 5.56 0.00 0.00 3.46
2161 2244 0.671251 AAAAATTGTCCGCGCTTCCA 59.329 45.000 5.56 0.00 0.00 3.53
2162 2245 0.671251 AAAATTGTCCGCGCTTCCAA 59.329 45.000 5.56 5.34 0.00 3.53
2163 2246 0.671251 AAATTGTCCGCGCTTCCAAA 59.329 45.000 5.56 0.00 0.00 3.28
2164 2247 0.887933 AATTGTCCGCGCTTCCAAAT 59.112 45.000 5.56 0.00 0.00 2.32
2165 2248 0.887933 ATTGTCCGCGCTTCCAAATT 59.112 45.000 5.56 0.00 0.00 1.82
2166 2249 0.671251 TTGTCCGCGCTTCCAAATTT 59.329 45.000 5.56 0.00 0.00 1.82
2167 2250 0.039617 TGTCCGCGCTTCCAAATTTG 60.040 50.000 11.40 11.40 0.00 2.32
2168 2251 0.039527 GTCCGCGCTTCCAAATTTGT 60.040 50.000 16.73 0.00 0.00 2.83
2169 2252 0.671251 TCCGCGCTTCCAAATTTGTT 59.329 45.000 16.73 0.00 0.00 2.83
2170 2253 1.059942 CCGCGCTTCCAAATTTGTTC 58.940 50.000 16.73 2.50 0.00 3.18
2171 2254 1.335872 CCGCGCTTCCAAATTTGTTCT 60.336 47.619 16.73 0.00 0.00 3.01
2172 2255 1.978782 CGCGCTTCCAAATTTGTTCTC 59.021 47.619 16.73 3.14 0.00 2.87
2173 2256 2.328473 GCGCTTCCAAATTTGTTCTCC 58.672 47.619 16.73 1.12 0.00 3.71
2174 2257 2.288152 GCGCTTCCAAATTTGTTCTCCA 60.288 45.455 16.73 0.00 0.00 3.86
2175 2258 3.614870 GCGCTTCCAAATTTGTTCTCCAT 60.615 43.478 16.73 0.00 0.00 3.41
2176 2259 4.559153 CGCTTCCAAATTTGTTCTCCATT 58.441 39.130 16.73 0.00 0.00 3.16
2177 2260 4.990426 CGCTTCCAAATTTGTTCTCCATTT 59.010 37.500 16.73 0.00 0.00 2.32
2178 2261 5.119125 CGCTTCCAAATTTGTTCTCCATTTC 59.881 40.000 16.73 0.00 0.00 2.17
2179 2262 5.990996 GCTTCCAAATTTGTTCTCCATTTCA 59.009 36.000 16.73 0.00 0.00 2.69
2180 2263 6.482973 GCTTCCAAATTTGTTCTCCATTTCAA 59.517 34.615 16.73 0.00 0.00 2.69
2181 2264 7.012232 GCTTCCAAATTTGTTCTCCATTTCAAA 59.988 33.333 16.73 0.00 34.95 2.69
2182 2265 8.798859 TTCCAAATTTGTTCTCCATTTCAAAA 57.201 26.923 16.73 0.00 34.32 2.44
2183 2266 8.798859 TCCAAATTTGTTCTCCATTTCAAAAA 57.201 26.923 16.73 0.00 34.32 1.94
2184 2267 9.406113 TCCAAATTTGTTCTCCATTTCAAAAAT 57.594 25.926 16.73 0.00 34.32 1.82
2190 2273 9.447157 TTTGTTCTCCATTTCAAAAATTGTTCT 57.553 25.926 0.00 0.00 0.00 3.01
2191 2274 8.647143 TGTTCTCCATTTCAAAAATTGTTCTC 57.353 30.769 0.00 0.00 0.00 2.87
2192 2275 8.256605 TGTTCTCCATTTCAAAAATTGTTCTCA 58.743 29.630 0.00 0.00 0.00 3.27
2193 2276 9.097257 GTTCTCCATTTCAAAAATTGTTCTCAA 57.903 29.630 0.00 0.00 37.98 3.02
2194 2277 8.647143 TCTCCATTTCAAAAATTGTTCTCAAC 57.353 30.769 0.00 0.00 36.33 3.18
2195 2278 8.256605 TCTCCATTTCAAAAATTGTTCTCAACA 58.743 29.630 0.00 0.00 40.21 3.33
2196 2279 8.961294 TCCATTTCAAAAATTGTTCTCAACAT 57.039 26.923 0.00 0.00 41.79 2.71
2197 2280 9.393512 TCCATTTCAAAAATTGTTCTCAACATT 57.606 25.926 0.00 0.00 41.79 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
632 702 1.809209 GGCTTCGCACAGAGAGCTC 60.809 63.158 5.27 5.27 35.12 4.09
670 740 2.025793 TGGGAAAATCCTATTGGACGCA 60.026 45.455 0.00 0.00 46.51 5.24
691 761 2.041755 TGGGCCTTTTTGGGTTGTTTTT 59.958 40.909 4.53 0.00 36.00 1.94
753 823 0.179004 AAATGGGCCGACAACACTCA 60.179 50.000 0.00 0.00 0.00 3.41
785 855 3.864983 TTCCCAGTCTTCGGGCCCT 62.865 63.158 22.43 0.00 44.11 5.19
792 867 0.606673 GGCCTGTGTTCCCAGTCTTC 60.607 60.000 0.00 0.00 0.00 2.87
795 870 2.358737 CGGCCTGTGTTCCCAGTC 60.359 66.667 0.00 0.00 0.00 3.51
897 977 3.503363 GCTTTGTGAGTTGTGATGATGGA 59.497 43.478 0.00 0.00 0.00 3.41
898 978 3.504906 AGCTTTGTGAGTTGTGATGATGG 59.495 43.478 0.00 0.00 0.00 3.51
934 1016 6.941436 TGGAATTTTGGATATTGCAGCTTTTT 59.059 30.769 0.00 0.00 31.07 1.94
935 1017 6.474630 TGGAATTTTGGATATTGCAGCTTTT 58.525 32.000 0.00 0.00 31.07 2.27
936 1018 6.052405 TGGAATTTTGGATATTGCAGCTTT 57.948 33.333 0.00 0.00 31.07 3.51
937 1019 5.680594 TGGAATTTTGGATATTGCAGCTT 57.319 34.783 0.00 0.00 31.07 3.74
938 1020 5.680594 TTGGAATTTTGGATATTGCAGCT 57.319 34.783 0.00 0.00 35.27 4.24
997 1079 1.575447 GCCTTCCCCTTCTCCATGGT 61.575 60.000 12.58 0.00 0.00 3.55
1070 1152 3.925630 ATGGCCCAAGTGCTCCACG 62.926 63.158 0.00 0.00 39.64 4.94
1086 1168 0.443869 CCACCTTCGCGTTCTTCATG 59.556 55.000 5.77 0.00 0.00 3.07
2066 2149 3.907894 TTAGAAGCGCGGACAATTTTT 57.092 38.095 8.83 0.00 0.00 1.94
2067 2150 3.907894 TTTAGAAGCGCGGACAATTTT 57.092 38.095 8.83 0.00 0.00 1.82
2068 2151 4.434713 AATTTAGAAGCGCGGACAATTT 57.565 36.364 8.83 0.00 0.00 1.82
2069 2152 4.165779 CAAATTTAGAAGCGCGGACAATT 58.834 39.130 8.83 1.74 0.00 2.32
2070 2153 3.190535 ACAAATTTAGAAGCGCGGACAAT 59.809 39.130 8.83 0.00 0.00 2.71
2071 2154 2.550606 ACAAATTTAGAAGCGCGGACAA 59.449 40.909 8.83 0.00 0.00 3.18
2072 2155 2.147958 ACAAATTTAGAAGCGCGGACA 58.852 42.857 8.83 0.00 0.00 4.02
2073 2156 2.894307 ACAAATTTAGAAGCGCGGAC 57.106 45.000 8.83 0.00 0.00 4.79
2074 2157 3.071479 AGAACAAATTTAGAAGCGCGGA 58.929 40.909 8.83 0.00 0.00 5.54
2075 2158 3.417185 GAGAACAAATTTAGAAGCGCGG 58.583 45.455 8.83 0.00 0.00 6.46
2076 2159 3.120338 TGGAGAACAAATTTAGAAGCGCG 60.120 43.478 0.00 0.00 0.00 6.86
2077 2160 4.419522 TGGAGAACAAATTTAGAAGCGC 57.580 40.909 0.00 0.00 0.00 5.92
2078 2161 7.083858 TGAAATGGAGAACAAATTTAGAAGCG 58.916 34.615 0.00 0.00 0.00 4.68
2079 2162 8.816640 TTGAAATGGAGAACAAATTTAGAAGC 57.183 30.769 0.00 0.00 0.00 3.86
2088 2171 9.447157 AGAACAAATTTTGAAATGGAGAACAAA 57.553 25.926 15.81 0.00 0.00 2.83
2089 2172 9.097257 GAGAACAAATTTTGAAATGGAGAACAA 57.903 29.630 15.81 0.00 0.00 2.83
2090 2173 8.256605 TGAGAACAAATTTTGAAATGGAGAACA 58.743 29.630 15.81 0.61 0.00 3.18
2091 2174 8.647143 TGAGAACAAATTTTGAAATGGAGAAC 57.353 30.769 15.81 0.00 0.00 3.01
2092 2175 9.097257 GTTGAGAACAAATTTTGAAATGGAGAA 57.903 29.630 15.81 0.00 37.77 2.87
2093 2176 8.256605 TGTTGAGAACAAATTTTGAAATGGAGA 58.743 29.630 15.81 0.00 38.72 3.71
2094 2177 8.422973 TGTTGAGAACAAATTTTGAAATGGAG 57.577 30.769 15.81 0.00 38.72 3.86
2095 2178 8.961294 ATGTTGAGAACAAATTTTGAAATGGA 57.039 26.923 15.81 0.00 45.86 3.41
2096 2179 9.654417 GAATGTTGAGAACAAATTTTGAAATGG 57.346 29.630 15.81 0.00 45.86 3.16
2108 2191 8.379161 CGAACAATTTTTGAATGTTGAGAACAA 58.621 29.630 0.00 0.00 45.86 2.83
2109 2192 7.543868 ACGAACAATTTTTGAATGTTGAGAACA 59.456 29.630 0.00 0.00 46.94 3.18
2110 2193 7.840797 CACGAACAATTTTTGAATGTTGAGAAC 59.159 33.333 0.00 0.00 37.41 3.01
2111 2194 7.463913 GCACGAACAATTTTTGAATGTTGAGAA 60.464 33.333 0.00 0.00 37.41 2.87
2112 2195 6.019961 GCACGAACAATTTTTGAATGTTGAGA 60.020 34.615 0.00 0.00 37.41 3.27
2113 2196 6.019640 AGCACGAACAATTTTTGAATGTTGAG 60.020 34.615 0.00 0.00 37.41 3.02
2114 2197 5.809562 AGCACGAACAATTTTTGAATGTTGA 59.190 32.000 0.00 0.00 37.41 3.18
2115 2198 6.035070 AGCACGAACAATTTTTGAATGTTG 57.965 33.333 0.00 0.00 37.41 3.33
2116 2199 6.660887 AAGCACGAACAATTTTTGAATGTT 57.339 29.167 0.00 0.00 39.82 2.71
2117 2200 6.312426 TGAAAGCACGAACAATTTTTGAATGT 59.688 30.769 0.00 0.00 0.00 2.71
2118 2201 6.703857 TGAAAGCACGAACAATTTTTGAATG 58.296 32.000 0.00 0.00 0.00 2.67
2119 2202 6.900568 TGAAAGCACGAACAATTTTTGAAT 57.099 29.167 0.00 0.00 0.00 2.57
2120 2203 6.712241 TTGAAAGCACGAACAATTTTTGAA 57.288 29.167 0.00 0.00 0.00 2.69
2121 2204 6.712241 TTTGAAAGCACGAACAATTTTTGA 57.288 29.167 0.00 0.00 0.00 2.69
2122 2205 7.772721 TTTTTGAAAGCACGAACAATTTTTG 57.227 28.000 0.00 0.00 0.00 2.44
2123 2206 8.848528 CAATTTTTGAAAGCACGAACAATTTTT 58.151 25.926 0.00 0.00 0.00 1.94
2124 2207 8.020244 ACAATTTTTGAAAGCACGAACAATTTT 58.980 25.926 0.00 0.00 0.00 1.82
2125 2208 7.525759 ACAATTTTTGAAAGCACGAACAATTT 58.474 26.923 0.00 0.00 0.00 1.82
2126 2209 7.071014 ACAATTTTTGAAAGCACGAACAATT 57.929 28.000 0.00 0.00 0.00 2.32
2127 2210 6.238076 GGACAATTTTTGAAAGCACGAACAAT 60.238 34.615 0.00 0.00 0.00 2.71
2128 2211 5.062809 GGACAATTTTTGAAAGCACGAACAA 59.937 36.000 0.00 0.00 0.00 2.83
2129 2212 4.564769 GGACAATTTTTGAAAGCACGAACA 59.435 37.500 0.00 0.00 0.00 3.18
2130 2213 4.317069 CGGACAATTTTTGAAAGCACGAAC 60.317 41.667 0.00 0.00 0.00 3.95
2131 2214 3.794028 CGGACAATTTTTGAAAGCACGAA 59.206 39.130 0.00 0.00 0.00 3.85
2132 2215 3.367607 CGGACAATTTTTGAAAGCACGA 58.632 40.909 0.00 0.00 0.00 4.35
2133 2216 2.097444 GCGGACAATTTTTGAAAGCACG 60.097 45.455 0.00 0.00 0.00 5.34
2134 2217 2.097444 CGCGGACAATTTTTGAAAGCAC 60.097 45.455 0.00 0.00 0.00 4.40
2135 2218 2.123342 CGCGGACAATTTTTGAAAGCA 58.877 42.857 0.00 0.00 0.00 3.91
2136 2219 1.136639 GCGCGGACAATTTTTGAAAGC 60.137 47.619 8.83 0.00 0.00 3.51
2137 2220 2.393764 AGCGCGGACAATTTTTGAAAG 58.606 42.857 8.83 0.00 0.00 2.62
2138 2221 2.500509 AGCGCGGACAATTTTTGAAA 57.499 40.000 8.83 0.00 0.00 2.69
2139 2222 2.389998 GAAGCGCGGACAATTTTTGAA 58.610 42.857 8.83 0.00 0.00 2.69
2140 2223 1.335506 GGAAGCGCGGACAATTTTTGA 60.336 47.619 8.83 0.00 0.00 2.69
2141 2224 1.059942 GGAAGCGCGGACAATTTTTG 58.940 50.000 8.83 0.00 0.00 2.44
2142 2225 0.671251 TGGAAGCGCGGACAATTTTT 59.329 45.000 8.83 0.00 0.00 1.94
2143 2226 0.671251 TTGGAAGCGCGGACAATTTT 59.329 45.000 8.83 0.00 0.00 1.82
2144 2227 0.671251 TTTGGAAGCGCGGACAATTT 59.329 45.000 8.83 0.00 0.00 1.82
2145 2228 0.887933 ATTTGGAAGCGCGGACAATT 59.112 45.000 8.83 8.08 0.00 2.32
2146 2229 0.887933 AATTTGGAAGCGCGGACAAT 59.112 45.000 8.83 2.52 0.00 2.71
2147 2230 0.671251 AAATTTGGAAGCGCGGACAA 59.329 45.000 8.83 5.61 0.00 3.18
2148 2231 0.039617 CAAATTTGGAAGCGCGGACA 60.040 50.000 8.83 0.00 0.00 4.02
2149 2232 0.039527 ACAAATTTGGAAGCGCGGAC 60.040 50.000 21.74 0.00 0.00 4.79
2150 2233 0.671251 AACAAATTTGGAAGCGCGGA 59.329 45.000 21.74 0.00 0.00 5.54
2151 2234 1.059942 GAACAAATTTGGAAGCGCGG 58.940 50.000 21.74 0.00 0.00 6.46
2152 2235 1.978782 GAGAACAAATTTGGAAGCGCG 59.021 47.619 21.74 0.00 0.00 6.86
2153 2236 2.288152 TGGAGAACAAATTTGGAAGCGC 60.288 45.455 21.74 0.00 0.00 5.92
2154 2237 3.641437 TGGAGAACAAATTTGGAAGCG 57.359 42.857 21.74 0.00 0.00 4.68
2155 2238 5.990996 TGAAATGGAGAACAAATTTGGAAGC 59.009 36.000 21.74 8.61 0.00 3.86
2156 2239 8.436046 TTTGAAATGGAGAACAAATTTGGAAG 57.564 30.769 21.74 0.00 0.00 3.46
2157 2240 8.798859 TTTTGAAATGGAGAACAAATTTGGAA 57.201 26.923 21.74 1.79 33.38 3.53
2158 2241 8.798859 TTTTTGAAATGGAGAACAAATTTGGA 57.201 26.923 21.74 0.00 33.38 3.53
2164 2247 9.447157 AGAACAATTTTTGAAATGGAGAACAAA 57.553 25.926 0.00 0.00 0.00 2.83
2165 2248 9.097257 GAGAACAATTTTTGAAATGGAGAACAA 57.903 29.630 0.00 0.00 0.00 2.83
2166 2249 8.256605 TGAGAACAATTTTTGAAATGGAGAACA 58.743 29.630 0.00 0.00 0.00 3.18
2167 2250 8.647143 TGAGAACAATTTTTGAAATGGAGAAC 57.353 30.769 0.00 0.00 0.00 3.01
2168 2251 9.097257 GTTGAGAACAATTTTTGAAATGGAGAA 57.903 29.630 0.00 0.00 38.32 2.87
2169 2252 8.256605 TGTTGAGAACAATTTTTGAAATGGAGA 58.743 29.630 0.00 0.00 38.72 3.71
2170 2253 8.422973 TGTTGAGAACAATTTTTGAAATGGAG 57.577 30.769 0.00 0.00 38.72 3.86
2171 2254 8.961294 ATGTTGAGAACAATTTTTGAAATGGA 57.039 26.923 0.00 0.00 45.86 3.41


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

AutoCloner maintained by Alex Coulton.