Multiple sequence alignment - TraesCS6B01G165300

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 TraesCS6B01G165300 chr6B 100.000 2983 0 0 1 2983 172263843 172266825 0.000000e+00 5509.0
1 TraesCS6B01G165300 chr6B 97.368 684 18 0 2300 2983 489800903 489800220 0.000000e+00 1164.0
2 TraesCS6B01G165300 chr6B 93.241 503 31 1 2305 2807 275295220 275294721 0.000000e+00 737.0
3 TraesCS6B01G165300 chr6B 93.878 196 11 1 2788 2983 275294681 275294487 8.090000e-76 294.0
4 TraesCS6B01G165300 chr6B 89.427 227 22 2 1299 1524 172324148 172324373 4.870000e-73 285.0
5 TraesCS6B01G165300 chr6D 92.788 1553 68 19 658 2185 89733484 89735017 0.000000e+00 2207.0
6 TraesCS6B01G165300 chr6D 90.726 248 12 8 1 243 89732115 89732356 1.330000e-83 320.0
7 TraesCS6B01G165300 chr6D 89.640 222 21 2 1304 1524 89822809 89823029 6.300000e-72 281.0
8 TraesCS6B01G165300 chr6D 87.791 172 14 3 488 657 89733275 89733441 8.440000e-46 195.0
9 TraesCS6B01G165300 chr6D 84.181 177 10 13 238 403 89732958 89733127 3.980000e-34 156.0
10 TraesCS6B01G165300 chr6A 89.303 1636 88 39 658 2262 108179294 108180873 0.000000e+00 1971.0
11 TraesCS6B01G165300 chr6A 92.713 247 11 6 1 243 108178138 108178381 1.700000e-92 350.0
12 TraesCS6B01G165300 chr6A 89.427 227 22 2 1299 1524 108201635 108201860 4.870000e-73 285.0
13 TraesCS6B01G165300 chr2B 98.222 675 12 0 2309 2983 572101216 572101890 0.000000e+00 1181.0
14 TraesCS6B01G165300 chr2A 95.609 501 22 0 2307 2807 100234931 100234431 0.000000e+00 804.0
15 TraesCS6B01G165300 chr2A 98.343 181 3 0 2803 2983 100234377 100234197 4.800000e-83 318.0
16 TraesCS6B01G165300 chr2A 91.667 96 8 0 2307 2402 655436888 655436983 1.870000e-27 134.0
17 TraesCS6B01G165300 chr7B 93.137 510 30 3 2299 2807 336595516 336596021 0.000000e+00 743.0
18 TraesCS6B01G165300 chr7B 95.789 285 12 0 2523 2807 139715272 139715556 7.530000e-126 460.0
19 TraesCS6B01G165300 chr7B 95.408 196 8 1 2788 2983 336596061 336596255 8.030000e-81 311.0
20 TraesCS6B01G165300 chr7B 94.388 196 10 1 2788 2983 139715596 139715790 1.740000e-77 300.0
21 TraesCS6B01G165300 chr4A 93.763 497 21 5 2311 2807 90353049 90352563 0.000000e+00 737.0
22 TraesCS6B01G165300 chr4A 96.951 164 5 0 2820 2983 90343664 90343501 2.930000e-70 276.0
23 TraesCS6B01G165300 chr3A 81.278 673 97 18 2303 2956 720610852 720610190 4.410000e-143 518.0
24 TraesCS6B01G165300 chr4B 95.820 311 13 0 2307 2617 314548629 314548319 1.230000e-138 503.0
25 TraesCS6B01G165300 chr4B 94.822 309 16 0 2309 2617 658789113 658789421 1.610000e-132 483.0
26 TraesCS6B01G165300 chr4B 93.367 196 12 1 2788 2983 314548125 314547931 3.760000e-74 289.0
27 TraesCS6B01G165300 chr4B 93.367 196 12 1 2788 2983 658789615 658789809 3.760000e-74 289.0
28 TraesCS6B01G165300 chr4B 96.667 150 5 0 2658 2807 658789426 658789575 1.780000e-62 250.0
29 TraesCS6B01G165300 chr4B 96.000 150 6 0 2658 2807 314548314 314548165 8.260000e-61 244.0
30 TraesCS6B01G165300 chr1B 93.878 49 2 1 2261 2309 403199735 403199782 4.120000e-09 73.1


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 TraesCS6B01G165300 chr6B 172263843 172266825 2982 False 5509.000000 5509 100.000000 1 2983 1 chr6B.!!$F1 2982
1 TraesCS6B01G165300 chr6B 489800220 489800903 683 True 1164.000000 1164 97.368000 2300 2983 1 chr6B.!!$R1 683
2 TraesCS6B01G165300 chr6B 275294487 275295220 733 True 515.500000 737 93.559500 2305 2983 2 chr6B.!!$R2 678
3 TraesCS6B01G165300 chr6D 89732115 89735017 2902 False 719.500000 2207 88.871500 1 2185 4 chr6D.!!$F2 2184
4 TraesCS6B01G165300 chr6A 108178138 108180873 2735 False 1160.500000 1971 91.008000 1 2262 2 chr6A.!!$F2 2261
5 TraesCS6B01G165300 chr2B 572101216 572101890 674 False 1181.000000 1181 98.222000 2309 2983 1 chr2B.!!$F1 674
6 TraesCS6B01G165300 chr2A 100234197 100234931 734 True 561.000000 804 96.976000 2307 2983 2 chr2A.!!$R1 676
7 TraesCS6B01G165300 chr7B 336595516 336596255 739 False 527.000000 743 94.272500 2299 2983 2 chr7B.!!$F2 684
8 TraesCS6B01G165300 chr7B 139715272 139715790 518 False 380.000000 460 95.088500 2523 2983 2 chr7B.!!$F1 460
9 TraesCS6B01G165300 chr3A 720610190 720610852 662 True 518.000000 518 81.278000 2303 2956 1 chr3A.!!$R1 653
10 TraesCS6B01G165300 chr4B 314547931 314548629 698 True 345.333333 503 95.062333 2307 2983 3 chr4B.!!$R1 676
11 TraesCS6B01G165300 chr4B 658789113 658789809 696 False 340.666667 483 94.952000 2309 2983 3 chr4B.!!$F1 674

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
863 1831 0.179062 GGCACTACAGCTCATGAGGG 60.179 60.0 23.89 0.81 34.17 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2276 3281 0.891904 GGCAAAAACCGGGCACTCTA 60.892 55.0 6.32 0.0 0.0 2.43 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
30 31 6.197364 AGTAGGAGTAGACAACAAGAATCG 57.803 41.667 0.00 0.00 0.00 3.34
101 108 7.995488 TCAAAAGAAGACTTTCTGAAGGATTCT 59.005 33.333 6.52 11.37 44.41 2.40
162 170 2.437359 GCTGGCTTCACGCTCCAT 60.437 61.111 0.00 0.00 39.13 3.41
163 171 2.042831 GCTGGCTTCACGCTCCATT 61.043 57.895 0.00 0.00 39.13 3.16
173 183 1.533731 CACGCTCCATTTTACCGTTGT 59.466 47.619 0.00 0.00 0.00 3.32
196 206 3.430862 GCATCGCGGTTTGAGCCA 61.431 61.111 6.13 0.00 0.00 4.75
198 208 1.353103 CATCGCGGTTTGAGCCATC 59.647 57.895 6.13 0.00 0.00 3.51
199 209 1.091771 CATCGCGGTTTGAGCCATCT 61.092 55.000 6.13 0.00 0.00 2.90
200 210 0.464036 ATCGCGGTTTGAGCCATCTA 59.536 50.000 6.13 0.00 0.00 1.98
212 222 8.639761 GGTTTGAGCCATCTACTAGTCTTTATA 58.360 37.037 0.00 0.00 0.00 0.98
219 229 8.368668 GCCATCTACTAGTCTTTATAACCATGT 58.631 37.037 0.00 0.00 0.00 3.21
284 903 2.029918 GCCAGTTTTTGTCCTCACCATC 60.030 50.000 0.00 0.00 0.00 3.51
371 1007 4.394920 CCATACAAGTAACTGAAACGCCAT 59.605 41.667 0.00 0.00 0.00 4.40
405 1253 7.881775 AAGTGGCTGGAACCTAAAATAATAG 57.118 36.000 0.00 0.00 0.00 1.73
433 1309 4.460382 ACACCTGCATTTTATCAAGTCAGG 59.540 41.667 0.00 0.00 43.73 3.86
436 1312 6.757897 CCTGCATTTTATCAAGTCAGGTAA 57.242 37.500 0.00 0.00 35.97 2.85
447 1326 7.693969 ATCAAGTCAGGTAAGGAAAAATCAG 57.306 36.000 0.00 0.00 0.00 2.90
452 1331 6.070767 AGTCAGGTAAGGAAAAATCAGATCGA 60.071 38.462 0.00 0.00 0.00 3.59
470 1349 7.857389 TCAGATCGAATGTTTCAAAGTTCAAAG 59.143 33.333 0.00 0.00 0.00 2.77
475 1354 5.535753 ATGTTTCAAAGTTCAAAGAGGGG 57.464 39.130 0.00 0.00 0.00 4.79
476 1355 3.132111 TGTTTCAAAGTTCAAAGAGGGGC 59.868 43.478 0.00 0.00 0.00 5.80
477 1356 1.995376 TCAAAGTTCAAAGAGGGGCC 58.005 50.000 0.00 0.00 0.00 5.80
478 1357 1.499007 TCAAAGTTCAAAGAGGGGCCT 59.501 47.619 0.84 0.00 0.00 5.19
479 1358 1.889170 CAAAGTTCAAAGAGGGGCCTC 59.111 52.381 0.84 0.00 43.03 4.70
481 1360 0.695347 AGTTCAAAGAGGGGCCTCAG 59.305 55.000 4.79 0.00 44.99 3.35
482 1361 0.962855 GTTCAAAGAGGGGCCTCAGC 60.963 60.000 4.79 0.00 44.99 4.26
483 1362 1.136329 TTCAAAGAGGGGCCTCAGCT 61.136 55.000 4.79 0.00 44.99 4.24
486 1365 1.213926 CAAAGAGGGGCCTCAGCTAAT 59.786 52.381 4.79 0.00 44.99 1.73
488 1367 2.496679 AGAGGGGCCTCAGCTAATTA 57.503 50.000 4.79 0.00 44.99 1.40
489 1368 2.776665 AGAGGGGCCTCAGCTAATTAA 58.223 47.619 4.79 0.00 44.99 1.40
490 1369 3.331120 AGAGGGGCCTCAGCTAATTAAT 58.669 45.455 4.79 0.00 44.99 1.40
491 1370 3.329225 AGAGGGGCCTCAGCTAATTAATC 59.671 47.826 4.79 0.00 44.99 1.75
493 1372 3.073650 AGGGGCCTCAGCTAATTAATCAG 59.926 47.826 4.79 0.00 39.73 2.90
494 1373 2.816672 GGGCCTCAGCTAATTAATCAGC 59.183 50.000 1.98 1.98 39.73 4.26
495 1374 3.480470 GGCCTCAGCTAATTAATCAGCA 58.520 45.455 13.17 0.00 40.36 4.41
529 1445 0.321919 GACCAACTTAACGGGACCCC 60.322 60.000 4.46 0.00 0.00 4.95
530 1446 1.061324 ACCAACTTAACGGGACCCCA 61.061 55.000 4.46 0.00 35.37 4.96
545 1461 2.028733 CCCAACGGCAATGCAAAGC 61.029 57.895 7.79 5.26 0.00 3.51
564 1480 1.446907 CGCATGCATCCTATTCCTCC 58.553 55.000 19.57 0.00 0.00 4.30
583 1499 3.324671 CGTCGTCGTTGCACGGTT 61.325 61.111 8.46 0.00 42.81 4.44
584 1500 2.542896 GTCGTCGTTGCACGGTTC 59.457 61.111 8.46 1.19 42.81 3.62
585 1501 3.025743 TCGTCGTTGCACGGTTCG 61.026 61.111 8.46 10.33 42.81 3.95
586 1502 4.054455 CGTCGTTGCACGGTTCGG 62.054 66.667 8.46 0.00 42.81 4.30
587 1503 2.963320 GTCGTTGCACGGTTCGGT 60.963 61.111 8.46 0.00 42.81 4.69
590 1506 2.314647 CGTTGCACGGTTCGGTGAT 61.315 57.895 13.24 0.00 40.38 3.06
603 1519 1.373435 GGTGATTGACCGACCACCA 59.627 57.895 0.00 0.00 46.13 4.17
682 1648 3.693807 AGCCATGAATATATGCCTGTGG 58.306 45.455 0.00 3.55 0.00 4.17
752 1718 0.461548 CAGCAGAGAGGACGCCATTA 59.538 55.000 0.00 0.00 0.00 1.90
857 1825 2.656646 CGTGGGCACTACAGCTCA 59.343 61.111 0.00 0.00 44.13 4.26
863 1831 0.179062 GGCACTACAGCTCATGAGGG 60.179 60.000 23.89 0.81 34.17 4.30
864 1832 0.813210 GCACTACAGCTCATGAGGGC 60.813 60.000 23.89 11.75 31.40 5.19
865 1833 0.179062 CACTACAGCTCATGAGGGCC 60.179 60.000 23.89 7.74 0.00 5.80
911 1879 3.130160 GGCGGCCTCAAGCTCTTG 61.130 66.667 12.87 3.32 43.05 3.02
925 1893 1.130140 CTCTTGCATCTCATCGAGCG 58.870 55.000 0.00 0.00 0.00 5.03
942 1918 1.743252 CGGAGGAAGAAGCACCTGC 60.743 63.158 0.00 0.00 40.41 4.85
988 1964 7.837689 TGACTGTCTAGCTAGGGAGTTAATTTA 59.162 37.037 20.58 0.00 0.00 1.40
1034 2010 1.301953 GTTACGGGCTTGGGTTCGT 60.302 57.895 0.00 0.00 39.30 3.85
1035 2011 1.004679 TTACGGGCTTGGGTTCGTC 60.005 57.895 0.00 0.00 37.10 4.20
1192 2168 3.945921 CACTCTAGGTAATCCAGACACGA 59.054 47.826 0.00 0.00 35.89 4.35
1197 2173 3.223435 AGGTAATCCAGACACGATCGAT 58.777 45.455 24.34 9.45 35.89 3.59
1201 2177 0.738975 TCCAGACACGATCGATCACC 59.261 55.000 24.34 10.10 0.00 4.02
1202 2178 0.741326 CCAGACACGATCGATCACCT 59.259 55.000 24.34 12.04 0.00 4.00
1203 2179 1.135139 CCAGACACGATCGATCACCTT 59.865 52.381 24.34 5.91 0.00 3.50
1204 2180 2.455032 CAGACACGATCGATCACCTTC 58.545 52.381 24.34 14.05 0.00 3.46
1205 2181 1.064208 AGACACGATCGATCACCTTCG 59.936 52.381 24.34 13.73 40.46 3.79
1206 2182 0.100682 ACACGATCGATCACCTTCGG 59.899 55.000 24.34 9.17 39.56 4.30
1207 2183 0.595053 CACGATCGATCACCTTCGGG 60.595 60.000 24.34 8.96 39.56 5.14
1213 2189 1.521681 GATCACCTTCGGGCTTCGG 60.522 63.158 0.00 0.00 39.77 4.30
1282 2259 5.762218 ACCTCTTCTTCTTCTTGATGTGTTG 59.238 40.000 0.00 0.00 0.00 3.33
1294 2271 6.299922 TCTTGATGTGTTGTTAATGGTGGTA 58.700 36.000 0.00 0.00 0.00 3.25
1635 2612 4.308458 CGACGCCCACCTCACCAA 62.308 66.667 0.00 0.00 0.00 3.67
1636 2613 2.668550 GACGCCCACCTCACCAAC 60.669 66.667 0.00 0.00 0.00 3.77
1874 2866 4.770362 TCATCGTCCCCGCCTCCA 62.770 66.667 0.00 0.00 0.00 3.86
2001 2993 3.692406 GCGTGACCGGAGAAGGGT 61.692 66.667 9.46 0.00 41.48 4.34
2083 3083 4.500837 CGACTATCGATTGACCTCTTTGTG 59.499 45.833 13.87 0.00 43.74 3.33
2097 3097 7.543172 TGACCTCTTTGTGTTGTATACGTATTC 59.457 37.037 14.33 9.40 0.00 1.75
2115 3115 5.050363 CGTATTCGTTTTCCATCGGATGAAT 60.050 40.000 19.30 10.88 0.00 2.57
2116 3116 4.614555 TTCGTTTTCCATCGGATGAATG 57.385 40.909 19.30 10.84 0.00 2.67
2117 3117 3.867857 TCGTTTTCCATCGGATGAATGA 58.132 40.909 19.30 12.79 0.00 2.57
2118 3118 4.257731 TCGTTTTCCATCGGATGAATGAA 58.742 39.130 19.30 11.09 0.00 2.57
2129 3129 8.288208 CCATCGGATGAATGAAATAAGAAAGAG 58.712 37.037 19.30 0.00 0.00 2.85
2151 3152 5.529791 AGACGACGAGATTCTTGAGAAAAA 58.470 37.500 7.95 0.00 37.61 1.94
2154 3155 4.433022 CGACGAGATTCTTGAGAAAAACGG 60.433 45.833 7.95 3.08 37.61 4.44
2159 3164 5.054477 AGATTCTTGAGAAAAACGGTCGAA 58.946 37.500 0.00 0.00 37.61 3.71
2160 3165 5.526111 AGATTCTTGAGAAAAACGGTCGAAA 59.474 36.000 0.00 0.00 37.61 3.46
2167 3172 1.223187 AAAACGGTCGAAACTCGCAT 58.777 45.000 0.00 0.00 40.21 4.73
2234 3239 1.631071 GGGAGCCAGGAAAGAGAGGG 61.631 65.000 0.00 0.00 0.00 4.30
2235 3240 1.223211 GAGCCAGGAAAGAGAGGGC 59.777 63.158 0.00 0.00 44.92 5.19
2267 3272 4.201679 CGTGCGCGATGGAGGGTA 62.202 66.667 16.08 0.00 41.33 3.69
2268 3273 2.279517 GTGCGCGATGGAGGGTAG 60.280 66.667 12.10 0.00 0.00 3.18
2269 3274 2.441348 TGCGCGATGGAGGGTAGA 60.441 61.111 12.10 0.00 0.00 2.59
2270 3275 2.055633 TGCGCGATGGAGGGTAGAA 61.056 57.895 12.10 0.00 0.00 2.10
2271 3276 1.143183 GCGCGATGGAGGGTAGAAA 59.857 57.895 12.10 0.00 0.00 2.52
2272 3277 0.876342 GCGCGATGGAGGGTAGAAAG 60.876 60.000 12.10 0.00 0.00 2.62
2273 3278 0.744874 CGCGATGGAGGGTAGAAAGA 59.255 55.000 0.00 0.00 0.00 2.52
2274 3279 1.269309 CGCGATGGAGGGTAGAAAGAG 60.269 57.143 0.00 0.00 0.00 2.85
2275 3280 2.032620 GCGATGGAGGGTAGAAAGAGA 58.967 52.381 0.00 0.00 0.00 3.10
2276 3281 2.630580 GCGATGGAGGGTAGAAAGAGAT 59.369 50.000 0.00 0.00 0.00 2.75
2277 3282 3.827302 GCGATGGAGGGTAGAAAGAGATA 59.173 47.826 0.00 0.00 0.00 1.98
2278 3283 4.082463 GCGATGGAGGGTAGAAAGAGATAG 60.082 50.000 0.00 0.00 0.00 2.08
2279 3284 5.317808 CGATGGAGGGTAGAAAGAGATAGA 58.682 45.833 0.00 0.00 0.00 1.98
2280 3285 5.414454 CGATGGAGGGTAGAAAGAGATAGAG 59.586 48.000 0.00 0.00 0.00 2.43
2281 3286 5.735733 TGGAGGGTAGAAAGAGATAGAGT 57.264 43.478 0.00 0.00 0.00 3.24
2282 3287 5.450453 TGGAGGGTAGAAAGAGATAGAGTG 58.550 45.833 0.00 0.00 0.00 3.51
2283 3288 4.279922 GGAGGGTAGAAAGAGATAGAGTGC 59.720 50.000 0.00 0.00 0.00 4.40
2284 3289 4.219919 AGGGTAGAAAGAGATAGAGTGCC 58.780 47.826 0.00 0.00 0.00 5.01
2285 3290 3.322541 GGGTAGAAAGAGATAGAGTGCCC 59.677 52.174 0.00 0.00 0.00 5.36
2286 3291 3.004944 GGTAGAAAGAGATAGAGTGCCCG 59.995 52.174 0.00 0.00 0.00 6.13
2287 3292 2.035632 AGAAAGAGATAGAGTGCCCGG 58.964 52.381 0.00 0.00 0.00 5.73
2288 3293 1.757699 GAAAGAGATAGAGTGCCCGGT 59.242 52.381 0.00 0.00 0.00 5.28
2289 3294 1.867363 AAGAGATAGAGTGCCCGGTT 58.133 50.000 0.00 0.00 0.00 4.44
2290 3295 1.867363 AGAGATAGAGTGCCCGGTTT 58.133 50.000 0.00 0.00 0.00 3.27
2291 3296 2.188817 AGAGATAGAGTGCCCGGTTTT 58.811 47.619 0.00 0.00 0.00 2.43
2292 3297 2.572104 AGAGATAGAGTGCCCGGTTTTT 59.428 45.455 0.00 0.00 0.00 1.94
2293 3298 2.678336 GAGATAGAGTGCCCGGTTTTTG 59.322 50.000 0.00 0.00 0.00 2.44
2294 3299 1.132453 GATAGAGTGCCCGGTTTTTGC 59.868 52.381 0.00 0.00 0.00 3.68
2295 3300 0.891904 TAGAGTGCCCGGTTTTTGCC 60.892 55.000 0.00 0.00 0.00 4.52
2370 3375 1.064017 CGGGGATTTGGGAGGATTTGA 60.064 52.381 0.00 0.00 0.00 2.69
2438 3443 2.912295 CAAAACCCCTTCATCCCCAATT 59.088 45.455 0.00 0.00 0.00 2.32
2471 3476 3.577805 AGTTTCTGTTTGGTAGGCAGT 57.422 42.857 0.00 0.00 0.00 4.40
2919 4103 5.689068 GCTTGAGAACCTGATGAAACAAAAG 59.311 40.000 0.00 0.00 0.00 2.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 1.660607 CGCATAGCACACGATTCTTGT 59.339 47.619 0.00 0.00 0.00 3.16
162 170 2.151881 TGCGAGCTACAACGGTAAAA 57.848 45.000 0.00 0.00 0.00 1.52
163 171 2.264813 GATGCGAGCTACAACGGTAAA 58.735 47.619 0.00 0.00 0.00 2.01
198 208 9.751542 CCAGAACATGGTTATAAAGACTAGTAG 57.248 37.037 0.00 0.00 44.91 2.57
219 229 1.066430 CCCTAGCTAAACGTGCCAGAA 60.066 52.381 0.00 0.00 0.00 3.02
264 883 3.004734 GTGATGGTGAGGACAAAAACTGG 59.995 47.826 0.00 0.00 0.00 4.00
324 960 9.010029 TGGAGTTTCCACTTATTCTGTTATTTC 57.990 33.333 0.00 0.00 42.67 2.17
341 977 7.570691 CGTTTCAGTTACTTGTATGGAGTTTCC 60.571 40.741 0.00 0.00 36.96 3.13
344 980 5.178809 GCGTTTCAGTTACTTGTATGGAGTT 59.821 40.000 0.00 0.00 0.00 3.01
353 989 3.980775 CCAAATGGCGTTTCAGTTACTTG 59.019 43.478 0.71 0.00 0.00 3.16
371 1007 3.025322 TCCAGCCACTTTTTCTCCAAA 57.975 42.857 0.00 0.00 0.00 3.28
405 1253 2.754552 TGATAAAATGCAGGTGTCTGGC 59.245 45.455 0.00 0.00 41.19 4.85
433 1309 9.278734 GAAACATTCGATCTGATTTTTCCTTAC 57.721 33.333 2.79 0.00 0.00 2.34
436 1312 7.452880 TGAAACATTCGATCTGATTTTTCCT 57.547 32.000 11.23 0.00 0.00 3.36
444 1323 6.859420 TGAACTTTGAAACATTCGATCTGA 57.141 33.333 2.79 0.00 0.00 3.27
447 1326 7.324616 CCTCTTTGAACTTTGAAACATTCGATC 59.675 37.037 0.00 0.00 0.00 3.69
452 1331 5.684813 GCCCCTCTTTGAACTTTGAAACATT 60.685 40.000 0.00 0.00 0.00 2.71
470 1349 3.073062 TGATTAATTAGCTGAGGCCCCTC 59.927 47.826 7.39 7.39 43.01 4.30
475 1354 4.758674 TGATGCTGATTAATTAGCTGAGGC 59.241 41.667 26.77 14.70 39.81 4.70
476 1355 5.411977 CCTGATGCTGATTAATTAGCTGAGG 59.588 44.000 26.77 23.04 39.81 3.86
477 1356 5.106634 GCCTGATGCTGATTAATTAGCTGAG 60.107 44.000 26.77 19.58 39.81 3.35
478 1357 4.758674 GCCTGATGCTGATTAATTAGCTGA 59.241 41.667 26.77 12.76 39.81 4.26
479 1358 4.517832 TGCCTGATGCTGATTAATTAGCTG 59.482 41.667 26.77 16.22 39.81 4.24
481 1360 5.415077 AGATGCCTGATGCTGATTAATTAGC 59.585 40.000 21.90 21.90 42.00 3.09
482 1361 6.183360 CGAGATGCCTGATGCTGATTAATTAG 60.183 42.308 2.91 2.91 42.00 1.73
483 1362 5.640783 CGAGATGCCTGATGCTGATTAATTA 59.359 40.000 0.00 0.00 42.00 1.40
486 1365 3.181462 ACGAGATGCCTGATGCTGATTAA 60.181 43.478 0.00 0.00 42.00 1.40
488 1367 1.140452 ACGAGATGCCTGATGCTGATT 59.860 47.619 0.00 0.00 42.00 2.57
489 1368 0.757512 ACGAGATGCCTGATGCTGAT 59.242 50.000 0.00 0.00 42.00 2.90
490 1369 0.103755 GACGAGATGCCTGATGCTGA 59.896 55.000 0.00 0.00 42.00 4.26
491 1370 1.213733 CGACGAGATGCCTGATGCTG 61.214 60.000 0.00 0.00 42.00 4.41
493 1372 1.066422 TCGACGAGATGCCTGATGC 59.934 57.895 0.00 0.00 41.77 3.91
494 1373 0.596083 GGTCGACGAGATGCCTGATG 60.596 60.000 9.92 0.00 0.00 3.07
495 1374 1.037579 TGGTCGACGAGATGCCTGAT 61.038 55.000 9.92 0.00 0.00 2.90
529 1445 3.002404 GCGCTTTGCATTGCCGTTG 62.002 57.895 6.12 0.00 45.45 4.10
530 1446 2.734346 GCGCTTTGCATTGCCGTT 60.734 55.556 6.12 0.00 45.45 4.44
545 1461 1.002888 AGGAGGAATAGGATGCATGCG 59.997 52.381 14.09 0.00 0.00 4.73
548 1464 2.564947 GACGAGGAGGAATAGGATGCAT 59.435 50.000 0.00 0.00 0.00 3.96
585 1501 4.296265 GGTGGTCGGTCAATCACC 57.704 61.111 0.00 0.00 42.11 4.02
586 1502 2.676342 GTTATGGTGGTCGGTCAATCAC 59.324 50.000 0.00 0.00 0.00 3.06
587 1503 2.675603 CGTTATGGTGGTCGGTCAATCA 60.676 50.000 0.00 0.00 0.00 2.57
590 1506 0.680618 ACGTTATGGTGGTCGGTCAA 59.319 50.000 0.00 0.00 0.00 3.18
603 1519 1.138247 GAGGGTCGCGACACGTTAT 59.862 57.895 37.26 20.87 44.19 1.89
682 1648 3.435186 GGAGCCTTTGCGGAGTGC 61.435 66.667 0.00 0.00 44.33 4.40
752 1718 3.736996 TTGTGCTTGCCCTGGCTGT 62.737 57.895 9.97 0.00 42.51 4.40
846 1814 0.179062 GGCCCTCATGAGCTGTAGTG 60.179 60.000 17.76 1.57 0.00 2.74
865 1833 4.609247 GTCCTCGATCGACGCCCG 62.609 72.222 15.15 3.84 42.26 6.13
911 1879 1.372748 CCTCCGCTCGATGAGATGC 60.373 63.158 7.98 0.00 0.00 3.91
925 1893 1.743252 CGCAGGTGCTTCTTCCTCC 60.743 63.158 0.00 0.00 39.32 4.30
942 1918 0.298707 CACGACCGATCAAGATTGCG 59.701 55.000 0.00 0.00 0.00 4.85
988 1964 1.267806 CTTCGCCATCACTGCAAAACT 59.732 47.619 0.00 0.00 0.00 2.66
1070 2046 2.664851 CGCCGACCTTGAACTGCA 60.665 61.111 0.00 0.00 0.00 4.41
1173 2149 3.813724 CGATCGTGTCTGGATTACCTAGA 59.186 47.826 7.03 0.00 37.04 2.43
1201 2177 2.876368 ATCCTTGCCGAAGCCCGAAG 62.876 60.000 0.00 0.00 41.76 3.79
1202 2178 2.869503 GATCCTTGCCGAAGCCCGAA 62.870 60.000 0.00 0.00 41.76 4.30
1203 2179 3.385749 GATCCTTGCCGAAGCCCGA 62.386 63.158 0.00 0.00 41.76 5.14
1204 2180 2.897350 GATCCTTGCCGAAGCCCG 60.897 66.667 0.00 0.00 38.69 6.13
1205 2181 1.378514 TTGATCCTTGCCGAAGCCC 60.379 57.895 0.00 0.00 38.69 5.19
1206 2182 0.392998 TCTTGATCCTTGCCGAAGCC 60.393 55.000 0.00 0.00 38.69 4.35
1207 2183 1.673168 ATCTTGATCCTTGCCGAAGC 58.327 50.000 0.00 0.00 40.48 3.86
1213 2189 3.486542 GCAGACGAAATCTTGATCCTTGC 60.487 47.826 0.00 0.00 34.41 4.01
1282 2259 5.160641 CACAAGCACAATACCACCATTAAC 58.839 41.667 0.00 0.00 0.00 2.01
1356 2333 2.089887 TTGCAGGCGTTGTAGTCGGA 62.090 55.000 0.00 0.00 0.00 4.55
1358 2335 1.218875 TGTTGCAGGCGTTGTAGTCG 61.219 55.000 0.00 0.00 0.00 4.18
1574 2551 0.247736 GAGGTGGAGATGACGTTGCT 59.752 55.000 0.00 0.00 0.00 3.91
1826 2818 1.179814 AGTTCGTGCTTCCTCCGTCT 61.180 55.000 0.00 0.00 0.00 4.18
1923 2915 3.518998 CGATCCGGCGAGACCTGT 61.519 66.667 9.30 0.00 35.61 4.00
2001 2993 9.212641 CAGTAGTTACTGTAGTTGTAGTAGTCA 57.787 37.037 10.45 0.00 46.51 3.41
2097 3097 4.614555 TTCATTCATCCGATGGAAAACG 57.385 40.909 8.54 0.00 34.34 3.60
2115 3115 6.250344 TCTCGTCGTCTCTTTCTTATTTCA 57.750 37.500 0.00 0.00 0.00 2.69
2116 3116 7.698970 AGAATCTCGTCGTCTCTTTCTTATTTC 59.301 37.037 0.00 0.00 0.00 2.17
2117 3117 7.540299 AGAATCTCGTCGTCTCTTTCTTATTT 58.460 34.615 0.00 0.00 0.00 1.40
2118 3118 7.090953 AGAATCTCGTCGTCTCTTTCTTATT 57.909 36.000 0.00 0.00 0.00 1.40
2129 3129 5.600648 GTTTTTCTCAAGAATCTCGTCGTC 58.399 41.667 0.00 0.00 33.54 4.20
2151 3152 1.736645 CCATGCGAGTTTCGACCGT 60.737 57.895 2.20 0.00 43.74 4.83
2211 3216 1.919600 CTCTTTCCTGGCTCCCCCTG 61.920 65.000 0.00 0.00 0.00 4.45
2217 3222 1.223211 GCCCTCTCTTTCCTGGCTC 59.777 63.158 0.00 0.00 39.05 4.70
2222 3227 2.664081 CCGCTGCCCTCTCTTTCCT 61.664 63.158 0.00 0.00 0.00 3.36
2262 3267 4.219919 GGCACTCTATCTCTTTCTACCCT 58.780 47.826 0.00 0.00 0.00 4.34
2263 3268 3.322541 GGGCACTCTATCTCTTTCTACCC 59.677 52.174 0.00 0.00 0.00 3.69
2264 3269 3.004944 CGGGCACTCTATCTCTTTCTACC 59.995 52.174 0.00 0.00 0.00 3.18
2265 3270 3.004944 CCGGGCACTCTATCTCTTTCTAC 59.995 52.174 0.00 0.00 0.00 2.59
2266 3271 3.223435 CCGGGCACTCTATCTCTTTCTA 58.777 50.000 0.00 0.00 0.00 2.10
2267 3272 2.035632 CCGGGCACTCTATCTCTTTCT 58.964 52.381 0.00 0.00 0.00 2.52
2268 3273 1.757699 ACCGGGCACTCTATCTCTTTC 59.242 52.381 6.32 0.00 0.00 2.62
2269 3274 1.867363 ACCGGGCACTCTATCTCTTT 58.133 50.000 6.32 0.00 0.00 2.52
2270 3275 1.867363 AACCGGGCACTCTATCTCTT 58.133 50.000 6.32 0.00 0.00 2.85
2271 3276 1.867363 AAACCGGGCACTCTATCTCT 58.133 50.000 6.32 0.00 0.00 3.10
2272 3277 2.678336 CAAAAACCGGGCACTCTATCTC 59.322 50.000 6.32 0.00 0.00 2.75
2273 3278 2.711542 CAAAAACCGGGCACTCTATCT 58.288 47.619 6.32 0.00 0.00 1.98
2274 3279 1.132453 GCAAAAACCGGGCACTCTATC 59.868 52.381 6.32 0.00 0.00 2.08
2275 3280 1.173913 GCAAAAACCGGGCACTCTAT 58.826 50.000 6.32 0.00 0.00 1.98
2276 3281 0.891904 GGCAAAAACCGGGCACTCTA 60.892 55.000 6.32 0.00 0.00 2.43
2277 3282 2.200337 GGCAAAAACCGGGCACTCT 61.200 57.895 6.32 0.00 0.00 3.24
2278 3283 2.338620 GGCAAAAACCGGGCACTC 59.661 61.111 6.32 0.00 0.00 3.51
2298 3303 3.257127 CCAAACGAGGCCTAATGGAAAAA 59.743 43.478 4.42 0.00 34.57 1.94
2299 3304 2.823154 CCAAACGAGGCCTAATGGAAAA 59.177 45.455 4.42 0.00 34.57 2.29
2300 3305 2.442413 CCAAACGAGGCCTAATGGAAA 58.558 47.619 4.42 0.00 34.57 3.13
2301 3306 2.122783 CCAAACGAGGCCTAATGGAA 57.877 50.000 4.42 0.00 34.57 3.53
2302 3307 3.873781 CCAAACGAGGCCTAATGGA 57.126 52.632 4.42 0.00 34.57 3.41
2370 3375 1.226311 GGTGGAAGGGAGGGATTCAT 58.774 55.000 0.00 0.00 0.00 2.57
2438 3443 7.120138 ACCAAACAGAAACTTTAAACGAAGAGA 59.880 33.333 0.00 0.00 0.00 3.10
2625 3632 3.587923 GCAAAATTATGTTGCTGCTGGA 58.412 40.909 12.47 0.00 46.31 3.86
2758 3768 5.067674 GGGCTATGATGAATTGTTGTTGCTA 59.932 40.000 0.00 0.00 0.00 3.49
2919 4103 6.821388 TGAAGGCACTCTAATATTCTTCTCC 58.179 40.000 10.43 0.60 38.49 3.71


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

AutoCloner maintained by Alex Coulton.