Multiple sequence alignment - TraesCS4B01G159700

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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 TraesCS4B01G159700 chr4B 100.000 2278 0 0 1 2278 310466158 310463881 0.000000e+00 4207
1 TraesCS4B01G159700 chr4B 95.035 141 7 0 2135 2275 304469737 304469877 2.950000e-54 222
2 TraesCS4B01G159700 chr4B 94.286 140 8 0 2136 2275 67744675 67744814 4.930000e-52 215
3 TraesCS4B01G159700 chrUn 96.547 1390 43 4 1 1387 257944380 257945767 0.000000e+00 2296
4 TraesCS4B01G159700 chrUn 96.115 1390 44 5 1 1387 233525000 233523618 0.000000e+00 2259
5 TraesCS4B01G159700 chrUn 96.693 756 21 3 1381 2132 257945803 257946558 0.000000e+00 1254
6 TraesCS4B01G159700 chrUn 96.561 756 22 3 1381 2132 233523582 233522827 0.000000e+00 1249
7 TraesCS4B01G159700 chrUn 96.561 756 22 3 1381 2132 369795861 369796616 0.000000e+00 1249
8 TraesCS4B01G159700 chr1D 96.331 1390 46 4 1 1387 212429137 212430524 0.000000e+00 2279
9 TraesCS4B01G159700 chr1D 96.561 756 22 3 1381 2132 212430560 212431315 0.000000e+00 1249
10 TraesCS4B01G159700 chr7A 96.187 1390 48 4 1 1387 211237866 211236479 0.000000e+00 2268
11 TraesCS4B01G159700 chr7A 96.693 756 21 3 1381 2132 60094512 60093757 0.000000e+00 1254
12 TraesCS4B01G159700 chr7B 96.187 1390 43 5 1 1387 698126665 698125283 0.000000e+00 2265
13 TraesCS4B01G159700 chr7B 95.899 1390 47 5 1 1387 716795570 716794188 0.000000e+00 2242
14 TraesCS4B01G159700 chr7B 96.429 756 23 3 1381 2132 742939166 742939921 0.000000e+00 1243
15 TraesCS4B01G159700 chr7B 96.296 756 24 3 1381 2132 716794152 716793397 0.000000e+00 1238
16 TraesCS4B01G159700 chr7B 93.836 146 9 0 2133 2278 8773578 8773723 1.060000e-53 220
17 TraesCS4B01G159700 chr4D 95.899 1390 52 4 1 1387 123689230 123690617 0.000000e+00 2246
18 TraesCS4B01G159700 chr4D 91.892 148 12 0 2131 2278 170042636 170042783 8.250000e-50 207
19 TraesCS4B01G159700 chr2D 95.827 1390 52 5 1 1387 306153152 306154538 0.000000e+00 2241
20 TraesCS4B01G159700 chr2D 96.689 755 22 2 1381 2132 637307015 637306261 0.000000e+00 1253
21 TraesCS4B01G159700 chr6B 95.827 1390 48 6 1 1387 128889715 128888333 0.000000e+00 2237
22 TraesCS4B01G159700 chr7D 96.296 756 24 3 1381 2132 578992437 578993192 0.000000e+00 1238
23 TraesCS4B01G159700 chr6D 95.205 146 7 0 2133 2278 64889546 64889401 4.890000e-57 231
24 TraesCS4B01G159700 chr6D 93.836 146 9 0 2133 2278 406765435 406765290 1.060000e-53 220
25 TraesCS4B01G159700 chr6D 94.286 140 8 0 2139 2278 56111718 56111857 4.930000e-52 215
26 TraesCS4B01G159700 chr6D 92.308 143 11 0 2136 2278 23962375 23962233 1.070000e-48 204
27 TraesCS4B01G159700 chr5B 90.604 149 13 1 2130 2278 197417473 197417326 1.790000e-46 196


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 TraesCS4B01G159700 chr4B 310463881 310466158 2277 True 4207 4207 100.0000 1 2278 1 chr4B.!!$R1 2277
1 TraesCS4B01G159700 chrUn 257944380 257946558 2178 False 1775 2296 96.6200 1 2132 2 chrUn.!!$F2 2131
2 TraesCS4B01G159700 chrUn 233522827 233525000 2173 True 1754 2259 96.3380 1 2132 2 chrUn.!!$R1 2131
3 TraesCS4B01G159700 chrUn 369795861 369796616 755 False 1249 1249 96.5610 1381 2132 1 chrUn.!!$F1 751
4 TraesCS4B01G159700 chr1D 212429137 212431315 2178 False 1764 2279 96.4460 1 2132 2 chr1D.!!$F1 2131
5 TraesCS4B01G159700 chr7A 211236479 211237866 1387 True 2268 2268 96.1870 1 1387 1 chr7A.!!$R2 1386
6 TraesCS4B01G159700 chr7A 60093757 60094512 755 True 1254 1254 96.6930 1381 2132 1 chr7A.!!$R1 751
7 TraesCS4B01G159700 chr7B 698125283 698126665 1382 True 2265 2265 96.1870 1 1387 1 chr7B.!!$R1 1386
8 TraesCS4B01G159700 chr7B 716793397 716795570 2173 True 1740 2242 96.0975 1 2132 2 chr7B.!!$R2 2131
9 TraesCS4B01G159700 chr7B 742939166 742939921 755 False 1243 1243 96.4290 1381 2132 1 chr7B.!!$F2 751
10 TraesCS4B01G159700 chr4D 123689230 123690617 1387 False 2246 2246 95.8990 1 1387 1 chr4D.!!$F1 1386
11 TraesCS4B01G159700 chr2D 306153152 306154538 1386 False 2241 2241 95.8270 1 1387 1 chr2D.!!$F1 1386
12 TraesCS4B01G159700 chr2D 637306261 637307015 754 True 1253 1253 96.6890 1381 2132 1 chr2D.!!$R1 751
13 TraesCS4B01G159700 chr6B 128888333 128889715 1382 True 2237 2237 95.8270 1 1387 1 chr6B.!!$R1 1386
14 TraesCS4B01G159700 chr7D 578992437 578993192 755 False 1238 1238 96.2960 1381 2132 1 chr7D.!!$F1 751

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
532 534 1.537202 CAGCCTTTGTTAAGCTTCGCT 59.463 47.619 0.0 0.0 42.56 4.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2145 2195 0.108138 CCTTGCTTACGCCTACAGCT 60.108 55.0 0.0 0.0 40.39 4.24 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
27 28 7.277098 CCAAATTGAACAAATGATAGCTCAAGG 59.723 37.037 0.00 0.00 34.37 3.61
65 67 4.325344 GGGAATTGAAAGGGGAGAATGAGA 60.325 45.833 0.00 0.00 0.00 3.27
184 186 4.771684 CTCGCAAGCAAATTCGGG 57.228 55.556 0.00 0.00 37.18 5.14
288 290 6.053632 TGGTACTTGTCTGATCAATCACAT 57.946 37.500 0.00 0.00 32.50 3.21
344 346 4.927425 GTCTTGAACCGCTTACTAATCACA 59.073 41.667 0.00 0.00 0.00 3.58
378 380 3.636231 CCCCTTCGCCAGTCCACA 61.636 66.667 0.00 0.00 0.00 4.17
513 515 9.814899 GTAGTAGTTGTCTCTATGTAGTAGTCA 57.185 37.037 0.00 0.00 0.00 3.41
532 534 1.537202 CAGCCTTTGTTAAGCTTCGCT 59.463 47.619 0.00 0.00 42.56 4.93
569 571 3.553917 GCTACTCGAATGCCTCTTTCTTC 59.446 47.826 0.00 0.00 0.00 2.87
605 607 6.013725 TGTGTATGGTCTAGTCTTTCCAATGT 60.014 38.462 0.00 0.00 33.55 2.71
606 608 7.179516 TGTGTATGGTCTAGTCTTTCCAATGTA 59.820 37.037 0.00 0.00 33.55 2.29
739 741 4.327357 GTGAATGATCGTGTCTTCGACATT 59.673 41.667 0.00 12.52 44.63 2.71
931 934 2.918774 ATAGGGGTCAGGAGGGAAAT 57.081 50.000 0.00 0.00 0.00 2.17
960 964 3.007506 TGTTTTCTATCAGTCCCAAGCGA 59.992 43.478 0.00 0.00 0.00 4.93
996 1000 3.534941 GGTCCGCTTACCGAGGAT 58.465 61.111 0.00 0.00 43.78 3.24
1046 1050 3.216230 AGTTGGGTTGGGGTATAGAGT 57.784 47.619 0.00 0.00 0.00 3.24
1076 1080 0.909610 GTGGGGGTGACAGAGGATGA 60.910 60.000 0.00 0.00 0.00 2.92
1118 1122 8.723365 AGTTGGGTATGATATTCTTGTGGATTA 58.277 33.333 0.00 0.00 0.00 1.75
1126 1130 9.833179 ATGATATTCTTGTGGATTATTGGGAAT 57.167 29.630 0.00 0.00 0.00 3.01
1133 1137 4.478317 TGTGGATTATTGGGAATGTCCTCT 59.522 41.667 0.00 0.00 36.57 3.69
1134 1138 5.669904 TGTGGATTATTGGGAATGTCCTCTA 59.330 40.000 0.00 0.00 36.57 2.43
1237 1241 1.859427 ATTGTGCGCCTTGTGAGCAG 61.859 55.000 4.18 0.00 41.93 4.24
1368 1372 1.707989 TGAGTTTTGGGTCATAGGGCA 59.292 47.619 0.00 0.00 0.00 5.36
1501 1548 0.858139 AAGGAGGGAGGAGAGAGGGT 60.858 60.000 0.00 0.00 0.00 4.34
1681 1731 0.469917 CACCAGGGCCTAATGTCGAT 59.530 55.000 5.28 0.00 0.00 3.59
1737 1787 3.330720 CCCGGCAGAGGAAAGGGT 61.331 66.667 0.00 0.00 37.36 4.34
1912 1962 2.666619 GCGACTGATGACTGCCTTTTTG 60.667 50.000 0.00 0.00 0.00 2.44
1952 2002 4.446311 GGTGGAATGTGGAGCTAATATGGT 60.446 45.833 0.00 0.00 0.00 3.55
1985 2035 7.187824 AGTATAGCCAAAGAAAGATGAGACA 57.812 36.000 0.00 0.00 0.00 3.41
2029 2079 0.119358 AGGACTACCAGGGGAAAGCT 59.881 55.000 0.00 0.00 38.94 3.74
2099 2149 6.319152 TCGAGATTTAGAATCTCTTTCCGACT 59.681 38.462 21.66 0.00 41.68 4.18
2145 2195 4.953940 CTTGGGATCAAGGTTGGAAAAA 57.046 40.909 0.00 0.00 44.89 1.94
2146 2196 4.886579 CTTGGGATCAAGGTTGGAAAAAG 58.113 43.478 0.00 0.00 44.89 2.27
2147 2197 2.632512 TGGGATCAAGGTTGGAAAAAGC 59.367 45.455 0.00 0.00 0.00 3.51
2148 2198 2.899900 GGGATCAAGGTTGGAAAAAGCT 59.100 45.455 0.00 0.00 0.00 3.74
2149 2199 3.306294 GGGATCAAGGTTGGAAAAAGCTG 60.306 47.826 0.00 0.00 0.00 4.24
2150 2200 3.321968 GGATCAAGGTTGGAAAAAGCTGT 59.678 43.478 0.00 0.00 0.00 4.40
2151 2201 4.522789 GGATCAAGGTTGGAAAAAGCTGTA 59.477 41.667 0.00 0.00 0.00 2.74
2152 2202 5.335976 GGATCAAGGTTGGAAAAAGCTGTAG 60.336 44.000 0.00 0.00 0.00 2.74
2153 2203 3.888930 TCAAGGTTGGAAAAAGCTGTAGG 59.111 43.478 0.00 0.00 0.00 3.18
2154 2204 2.239400 AGGTTGGAAAAAGCTGTAGGC 58.761 47.619 0.00 0.00 42.19 3.93
2171 2221 2.867472 CGTAAGCAAGGCGGTTGG 59.133 61.111 0.13 0.00 36.56 3.77
2172 2222 2.566529 GTAAGCAAGGCGGTTGGC 59.433 61.111 0.13 0.00 42.51 4.52
2188 2238 2.838225 GCCCTCGCCTAGTGCCTA 60.838 66.667 0.00 0.00 36.24 3.93
2189 2239 2.862223 GCCCTCGCCTAGTGCCTAG 61.862 68.421 3.06 3.06 36.24 3.02
2196 2246 1.005630 CCTAGTGCCTAGGCGATGC 60.006 63.158 28.28 17.54 45.64 3.91
2197 2247 1.467678 CCTAGTGCCTAGGCGATGCT 61.468 60.000 28.28 22.89 45.64 3.79
2198 2248 0.390860 CTAGTGCCTAGGCGATGCTT 59.609 55.000 28.28 12.12 45.51 3.91
2199 2249 1.613925 CTAGTGCCTAGGCGATGCTTA 59.386 52.381 28.28 6.43 45.51 3.09
2200 2250 0.830648 AGTGCCTAGGCGATGCTTAA 59.169 50.000 28.28 5.61 45.51 1.85
2201 2251 1.202580 AGTGCCTAGGCGATGCTTAAG 60.203 52.381 28.28 0.00 45.51 1.85
2202 2252 0.532862 TGCCTAGGCGATGCTTAAGC 60.533 55.000 28.28 20.84 45.51 3.09
2203 2253 1.560860 GCCTAGGCGATGCTTAAGCG 61.561 60.000 20.16 9.53 45.83 4.68
2208 2258 4.750460 CGATGCTTAAGCGCCCTA 57.250 55.556 21.97 4.91 45.83 3.53
2209 2259 2.522060 CGATGCTTAAGCGCCCTAG 58.478 57.895 21.97 6.84 45.83 3.02
2210 2260 0.946221 CGATGCTTAAGCGCCCTAGG 60.946 60.000 21.97 0.06 45.83 3.02
2211 2261 1.227973 ATGCTTAAGCGCCCTAGGC 60.228 57.895 21.97 9.12 46.75 3.93
2235 2285 4.548451 GGCCTAGGCGGTAATATAGTTT 57.452 45.455 27.24 0.00 43.06 2.66
2236 2286 4.903054 GGCCTAGGCGGTAATATAGTTTT 58.097 43.478 27.24 0.00 43.06 2.43
2237 2287 4.694037 GGCCTAGGCGGTAATATAGTTTTG 59.306 45.833 27.24 0.00 43.06 2.44
2238 2288 4.694037 GCCTAGGCGGTAATATAGTTTTGG 59.306 45.833 20.16 0.00 34.25 3.28
2239 2289 4.694037 CCTAGGCGGTAATATAGTTTTGGC 59.306 45.833 0.00 0.00 0.00 4.52
2240 2290 4.159244 AGGCGGTAATATAGTTTTGGCA 57.841 40.909 0.00 0.00 0.00 4.92
2241 2291 4.725490 AGGCGGTAATATAGTTTTGGCAT 58.275 39.130 0.00 0.00 0.00 4.40
2242 2292 4.760204 AGGCGGTAATATAGTTTTGGCATC 59.240 41.667 0.00 0.00 0.00 3.91
2243 2293 4.517453 GGCGGTAATATAGTTTTGGCATCA 59.483 41.667 0.00 0.00 0.00 3.07
2244 2294 5.183140 GGCGGTAATATAGTTTTGGCATCAT 59.817 40.000 0.00 0.00 0.00 2.45
2245 2295 6.086222 GCGGTAATATAGTTTTGGCATCATG 58.914 40.000 0.00 0.00 0.00 3.07
2246 2296 6.611381 CGGTAATATAGTTTTGGCATCATGG 58.389 40.000 0.00 0.00 0.00 3.66
2247 2297 6.206634 CGGTAATATAGTTTTGGCATCATGGT 59.793 38.462 0.00 0.00 0.00 3.55
2248 2298 7.370383 GGTAATATAGTTTTGGCATCATGGTG 58.630 38.462 0.10 0.10 0.00 4.17
2249 2299 7.014230 GGTAATATAGTTTTGGCATCATGGTGT 59.986 37.037 8.00 0.00 0.00 4.16
2250 2300 9.062524 GTAATATAGTTTTGGCATCATGGTGTA 57.937 33.333 8.00 0.00 0.00 2.90
2251 2301 8.710749 AATATAGTTTTGGCATCATGGTGTAT 57.289 30.769 8.00 0.00 0.00 2.29
2252 2302 8.710749 ATATAGTTTTGGCATCATGGTGTATT 57.289 30.769 8.00 0.00 0.00 1.89
2253 2303 5.743636 AGTTTTGGCATCATGGTGTATTT 57.256 34.783 8.00 0.00 0.00 1.40
2254 2304 5.481105 AGTTTTGGCATCATGGTGTATTTG 58.519 37.500 8.00 0.00 0.00 2.32
2255 2305 5.011943 AGTTTTGGCATCATGGTGTATTTGT 59.988 36.000 8.00 0.00 0.00 2.83
2256 2306 5.480642 TTTGGCATCATGGTGTATTTGTT 57.519 34.783 8.00 0.00 0.00 2.83
2257 2307 6.596309 TTTGGCATCATGGTGTATTTGTTA 57.404 33.333 8.00 0.00 0.00 2.41
2258 2308 5.833406 TGGCATCATGGTGTATTTGTTAG 57.167 39.130 8.00 0.00 0.00 2.34
2259 2309 5.260424 TGGCATCATGGTGTATTTGTTAGT 58.740 37.500 8.00 0.00 0.00 2.24
2260 2310 6.418946 TGGCATCATGGTGTATTTGTTAGTA 58.581 36.000 8.00 0.00 0.00 1.82
2261 2311 7.059788 TGGCATCATGGTGTATTTGTTAGTAT 58.940 34.615 8.00 0.00 0.00 2.12
2262 2312 7.559533 TGGCATCATGGTGTATTTGTTAGTATT 59.440 33.333 8.00 0.00 0.00 1.89
2263 2313 9.062524 GGCATCATGGTGTATTTGTTAGTATTA 57.937 33.333 8.00 0.00 0.00 0.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 5.782047 TCAATTCCCAATGAACAACATGAC 58.218 37.500 0.00 0.00 39.39 3.06
184 186 4.935808 TCTTTCGGTAGCCTTCTTTCATTC 59.064 41.667 0.00 0.00 0.00 2.67
313 315 1.144969 GCGGTTCAAGACATCGAACA 58.855 50.000 0.00 0.00 42.67 3.18
344 346 5.453158 GAAGGGGGCCTACTATACGTATAT 58.547 45.833 15.42 8.74 31.13 0.86
378 380 2.990479 GACCAAGACGGGCCAGAT 59.010 61.111 10.86 0.00 36.36 2.90
455 457 1.751924 GATAGTGAAGCCGTCAGAGGT 59.248 52.381 0.00 0.00 36.74 3.85
550 552 3.971245 AGAAGAAAGAGGCATTCGAGT 57.029 42.857 0.00 0.00 32.04 4.18
552 554 6.525578 TTAGTAGAAGAAAGAGGCATTCGA 57.474 37.500 0.00 0.00 32.04 3.71
605 607 0.393808 GTTGGCGGCAAGGAAGGATA 60.394 55.000 26.22 0.00 0.00 2.59
606 608 1.678970 GTTGGCGGCAAGGAAGGAT 60.679 57.895 26.22 0.00 0.00 3.24
663 665 3.120442 AGCTACCGTTTAACGAATGCAAC 60.120 43.478 19.61 1.87 46.05 4.17
787 789 7.337689 TCATCCTCATCATCGAAAAGAAAACAT 59.662 33.333 0.00 0.00 0.00 2.71
931 934 9.613428 CTTGGGACTGATAGAAAACAACATATA 57.387 33.333 0.00 0.00 0.00 0.86
960 964 0.541863 CGTGGAAGCTGGGGAGTATT 59.458 55.000 0.00 0.00 0.00 1.89
996 1000 2.764128 GGGTCCTCCCGCATCTCA 60.764 66.667 0.00 0.00 44.74 3.27
1076 1080 2.159282 CCAACTATGAACCGTACGAGCT 60.159 50.000 18.76 0.00 0.00 4.09
1118 1122 8.609617 TCGAATATATAGAGGACATTCCCAAT 57.390 34.615 0.00 0.00 37.19 3.16
1126 1130 9.201989 AGGCATATTTCGAATATATAGAGGACA 57.798 33.333 0.00 0.00 0.00 4.02
1134 1138 9.890629 TGCTAGAAAGGCATATTTCGAATATAT 57.109 29.630 0.00 3.11 42.73 0.86
1159 1163 1.526041 GAGCTGCAGATCGTAATGCTG 59.474 52.381 20.43 6.69 42.98 4.41
1237 1241 2.761195 GCCTTCGCGGATCCAAACC 61.761 63.158 13.41 0.00 33.16 3.27
1293 1297 2.750350 CTGCGGTTCCCTCTGGTT 59.250 61.111 0.00 0.00 0.00 3.67
1297 1301 2.249413 CTCATGCTGCGGTTCCCTCT 62.249 60.000 0.00 0.00 0.00 3.69
1474 1521 4.468829 CTCCCTCCTTGGAGCTCA 57.531 61.111 17.19 0.00 45.13 4.26
1501 1548 1.614903 CTGAAAGCATGGTTCTTGCCA 59.385 47.619 11.16 3.98 41.06 4.92
1603 1651 3.275271 ATGAAGGCCTTGGCCCCA 61.275 61.111 26.25 22.56 0.00 4.96
1623 1671 2.125106 GGCCGATCTGTCACCCAC 60.125 66.667 0.00 0.00 0.00 4.61
1681 1731 1.005037 GGGCGGCATCATCGTATGA 60.005 57.895 12.47 0.99 44.55 2.15
1737 1787 1.004320 AACGCGCCATCACCTACAA 60.004 52.632 5.73 0.00 0.00 2.41
1841 1891 5.411493 TGCCTATTATGAGAATAGGTCCCA 58.589 41.667 22.68 12.35 46.94 4.37
1912 1962 3.895041 TCCACCCTTTTTGATTTCTGACC 59.105 43.478 0.00 0.00 0.00 4.02
1985 2035 1.249407 GTCCTCTGACAGTCCGTCTT 58.751 55.000 1.59 0.00 45.60 3.01
2010 2060 0.119358 AGCTTTCCCCTGGTAGTCCT 59.881 55.000 0.00 0.00 34.23 3.85
2029 2079 3.534056 GTTAGCTAGCGGGGGCGA 61.534 66.667 9.55 0.00 0.00 5.54
2067 2117 9.770097 AAAGAGATTCTAAATCTCGAATATGCA 57.230 29.630 18.92 0.00 46.74 3.96
2132 2182 3.552890 GCCTACAGCTTTTTCCAACCTTG 60.553 47.826 0.00 0.00 38.99 3.61
2133 2183 2.628178 GCCTACAGCTTTTTCCAACCTT 59.372 45.455 0.00 0.00 38.99 3.50
2134 2184 2.239400 GCCTACAGCTTTTTCCAACCT 58.761 47.619 0.00 0.00 38.99 3.50
2135 2185 1.068541 CGCCTACAGCTTTTTCCAACC 60.069 52.381 0.00 0.00 40.39 3.77
2136 2186 1.607148 ACGCCTACAGCTTTTTCCAAC 59.393 47.619 0.00 0.00 40.39 3.77
2137 2187 1.975660 ACGCCTACAGCTTTTTCCAA 58.024 45.000 0.00 0.00 40.39 3.53
2138 2188 2.843401 TACGCCTACAGCTTTTTCCA 57.157 45.000 0.00 0.00 40.39 3.53
2139 2189 2.159558 GCTTACGCCTACAGCTTTTTCC 60.160 50.000 0.00 0.00 40.39 3.13
2140 2190 2.482721 TGCTTACGCCTACAGCTTTTTC 59.517 45.455 0.00 0.00 40.39 2.29
2141 2191 2.500229 TGCTTACGCCTACAGCTTTTT 58.500 42.857 0.00 0.00 40.39 1.94
2142 2192 2.178912 TGCTTACGCCTACAGCTTTT 57.821 45.000 0.00 0.00 40.39 2.27
2143 2193 2.076863 CTTGCTTACGCCTACAGCTTT 58.923 47.619 0.00 0.00 40.39 3.51
2144 2194 1.676014 CCTTGCTTACGCCTACAGCTT 60.676 52.381 0.00 0.00 40.39 3.74
2145 2195 0.108138 CCTTGCTTACGCCTACAGCT 60.108 55.000 0.00 0.00 40.39 4.24
2146 2196 1.706287 GCCTTGCTTACGCCTACAGC 61.706 60.000 0.00 0.00 38.52 4.40
2147 2197 1.421410 CGCCTTGCTTACGCCTACAG 61.421 60.000 0.00 0.00 34.43 2.74
2148 2198 1.447140 CGCCTTGCTTACGCCTACA 60.447 57.895 0.00 0.00 34.43 2.74
2149 2199 2.171725 CCGCCTTGCTTACGCCTAC 61.172 63.158 0.00 0.00 34.43 3.18
2150 2200 2.175035 AACCGCCTTGCTTACGCCTA 62.175 55.000 0.00 0.00 34.43 3.93
2151 2201 3.546714 AACCGCCTTGCTTACGCCT 62.547 57.895 0.00 0.00 34.43 5.52
2152 2202 3.053896 AACCGCCTTGCTTACGCC 61.054 61.111 0.00 0.00 34.43 5.68
2153 2203 2.175811 CAACCGCCTTGCTTACGC 59.824 61.111 0.00 0.00 0.00 4.42
2154 2204 2.867472 CCAACCGCCTTGCTTACG 59.133 61.111 0.00 0.00 0.00 3.18
2155 2205 2.566529 GCCAACCGCCTTGCTTAC 59.433 61.111 0.00 0.00 0.00 2.34
2180 2230 1.699730 TAAGCATCGCCTAGGCACTA 58.300 50.000 32.47 17.88 41.75 2.74
2181 2231 0.830648 TTAAGCATCGCCTAGGCACT 59.169 50.000 32.47 20.16 46.37 4.40
2182 2232 1.221414 CTTAAGCATCGCCTAGGCAC 58.779 55.000 32.47 18.27 42.06 5.01
2183 2233 0.532862 GCTTAAGCATCGCCTAGGCA 60.533 55.000 32.47 19.90 40.21 4.75
2184 2234 1.560860 CGCTTAAGCATCGCCTAGGC 61.561 60.000 24.75 24.75 42.21 3.93
2185 2235 1.560860 GCGCTTAAGCATCGCCTAGG 61.561 60.000 26.29 3.67 42.71 3.02
2186 2236 1.856012 GCGCTTAAGCATCGCCTAG 59.144 57.895 26.29 9.08 42.71 3.02
2187 2237 4.027755 GCGCTTAAGCATCGCCTA 57.972 55.556 26.29 0.00 42.71 3.93
2191 2241 0.946221 CCTAGGGCGCTTAAGCATCG 60.946 60.000 26.29 11.92 42.21 3.84
2192 2242 1.231296 GCCTAGGGCGCTTAAGCATC 61.231 60.000 26.29 16.62 39.62 3.91
2193 2243 1.227973 GCCTAGGGCGCTTAAGCAT 60.228 57.895 26.29 11.70 39.62 3.79
2194 2244 2.189521 GCCTAGGGCGCTTAAGCA 59.810 61.111 26.29 6.27 39.62 3.91
2212 2262 0.819582 TATATTACCGCCTAGGCCGC 59.180 55.000 28.09 3.58 46.52 6.53
2213 2263 2.097825 ACTATATTACCGCCTAGGCCG 58.902 52.381 28.09 23.38 46.52 6.13
2214 2264 4.548451 AAACTATATTACCGCCTAGGCC 57.452 45.455 28.09 10.55 46.52 5.19
2215 2265 4.694037 CCAAAACTATATTACCGCCTAGGC 59.306 45.833 24.75 24.75 46.52 3.93
2217 2267 5.302360 TGCCAAAACTATATTACCGCCTAG 58.698 41.667 0.00 0.00 0.00 3.02
2218 2268 5.293319 TGCCAAAACTATATTACCGCCTA 57.707 39.130 0.00 0.00 0.00 3.93
2219 2269 4.159244 TGCCAAAACTATATTACCGCCT 57.841 40.909 0.00 0.00 0.00 5.52
2220 2270 4.517453 TGATGCCAAAACTATATTACCGCC 59.483 41.667 0.00 0.00 0.00 6.13
2221 2271 5.682943 TGATGCCAAAACTATATTACCGC 57.317 39.130 0.00 0.00 0.00 5.68
2222 2272 6.206634 ACCATGATGCCAAAACTATATTACCG 59.793 38.462 0.00 0.00 0.00 4.02
2223 2273 7.014230 ACACCATGATGCCAAAACTATATTACC 59.986 37.037 0.00 0.00 0.00 2.85
2224 2274 7.940850 ACACCATGATGCCAAAACTATATTAC 58.059 34.615 0.00 0.00 0.00 1.89
2225 2275 9.806448 ATACACCATGATGCCAAAACTATATTA 57.194 29.630 0.00 0.00 0.00 0.98
2226 2276 8.710749 ATACACCATGATGCCAAAACTATATT 57.289 30.769 0.00 0.00 0.00 1.28
2227 2277 8.710749 AATACACCATGATGCCAAAACTATAT 57.289 30.769 0.00 0.00 0.00 0.86
2228 2278 8.412456 CAAATACACCATGATGCCAAAACTATA 58.588 33.333 0.00 0.00 0.00 1.31
2229 2279 7.093377 ACAAATACACCATGATGCCAAAACTAT 60.093 33.333 0.00 0.00 0.00 2.12
2230 2280 6.210385 ACAAATACACCATGATGCCAAAACTA 59.790 34.615 0.00 0.00 0.00 2.24
2231 2281 5.011943 ACAAATACACCATGATGCCAAAACT 59.988 36.000 0.00 0.00 0.00 2.66
2232 2282 5.237048 ACAAATACACCATGATGCCAAAAC 58.763 37.500 0.00 0.00 0.00 2.43
2233 2283 5.480642 ACAAATACACCATGATGCCAAAA 57.519 34.783 0.00 0.00 0.00 2.44
2234 2284 5.480642 AACAAATACACCATGATGCCAAA 57.519 34.783 0.00 0.00 0.00 3.28
2235 2285 5.714333 ACTAACAAATACACCATGATGCCAA 59.286 36.000 0.00 0.00 0.00 4.52
2236 2286 5.260424 ACTAACAAATACACCATGATGCCA 58.740 37.500 0.00 0.00 0.00 4.92
2237 2287 5.835113 ACTAACAAATACACCATGATGCC 57.165 39.130 0.00 0.00 0.00 4.40


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

AutoCloner maintained by Alex Coulton.