Multiple sequence alignment - TraesCS4B01G367500

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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 TraesCS4B01G367500 chr4B 100.000 2420 0 0 1 2420 654454749 654452330 0.000000e+00 4470
1 TraesCS4B01G367500 chr4B 91.234 867 62 5 1 855 671060013 671059149 0.000000e+00 1168
2 TraesCS4B01G367500 chr4B 89.781 274 27 1 1151 1424 654466171 654465899 1.380000e-92 350
3 TraesCS4B01G367500 chr7B 92.042 867 56 6 1 856 604109890 604110754 0.000000e+00 1206
4 TraesCS4B01G367500 chr2B 91.455 866 65 5 1 860 200862323 200861461 0.000000e+00 1181
5 TraesCS4B01G367500 chr2B 83.137 255 40 1 1160 1414 618666492 618666241 1.870000e-56 230
6 TraesCS4B01G367500 chr1B 90.708 861 69 6 1 853 266931983 266932840 0.000000e+00 1136
7 TraesCS4B01G367500 chr1B 92.570 646 27 11 1485 2118 452739118 452738482 0.000000e+00 907
8 TraesCS4B01G367500 chr3B 90.570 859 68 7 5 853 632916732 632917587 0.000000e+00 1125
9 TraesCS4B01G367500 chr3B 91.184 828 61 7 1 818 743808032 743807207 0.000000e+00 1114
10 TraesCS4B01G367500 chr3B 86.667 375 40 4 1485 1859 674140486 674140850 8.050000e-110 407
11 TraesCS4B01G367500 chr5B 90.300 866 68 7 1 856 669509784 669508925 0.000000e+00 1120
12 TraesCS4B01G367500 chr5B 90.023 862 74 6 3 856 664671417 664670560 0.000000e+00 1105
13 TraesCS4B01G367500 chr6B 90.349 860 69 7 1 853 645518188 645517336 0.000000e+00 1116
14 TraesCS4B01G367500 chr5D 93.023 645 24 6 1485 2118 378118712 378118078 0.000000e+00 922
15 TraesCS4B01G367500 chr5D 92.617 447 25 3 1485 1931 94511473 94511911 9.440000e-179 636
16 TraesCS4B01G367500 chrUn 91.846 650 29 5 1481 2116 71120163 71120802 0.000000e+00 885
17 TraesCS4B01G367500 chr5A 91.708 603 34 10 852 1443 692058563 692057966 0.000000e+00 822
18 TraesCS4B01G367500 chr5A 89.781 274 27 1 1151 1424 692062530 692062258 1.380000e-92 350
19 TraesCS4B01G367500 chr4A 89.938 646 43 8 1485 2118 366721548 366722183 0.000000e+00 813
20 TraesCS4B01G367500 chr4D 89.236 641 41 10 864 1484 507124601 507125233 0.000000e+00 776
21 TraesCS4B01G367500 chr4D 90.146 274 26 1 1151 1424 507119682 507119954 2.960000e-94 355
22 TraesCS4B01G367500 chr4D 100.000 82 0 0 2265 2346 507125350 507125431 4.170000e-33 152
23 TraesCS4B01G367500 chr3D 88.704 540 44 5 1484 2015 511738671 511739201 0.000000e+00 643
24 TraesCS4B01G367500 chr3A 85.740 547 53 9 1485 2023 647792903 647793432 2.720000e-154 555
25 TraesCS4B01G367500 chr7A 87.160 405 41 6 1486 1890 18090458 18090851 1.320000e-122 449
26 TraesCS4B01G367500 chr7A 86.241 407 41 9 1486 1890 17750886 17751279 6.180000e-116 427
27 TraesCS4B01G367500 chr7D 86.667 405 42 8 1486 1890 18035391 18035783 2.860000e-119 438
28 TraesCS4B01G367500 chr2D 83.529 255 39 1 1160 1414 523738302 523738051 4.020000e-58 235
29 TraesCS4B01G367500 chr2A 82.745 255 41 1 1160 1414 669558145 669557894 8.710000e-55 224


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 TraesCS4B01G367500 chr4B 654452330 654454749 2419 True 4470 4470 100.0000 1 2420 1 chr4B.!!$R1 2419
1 TraesCS4B01G367500 chr4B 671059149 671060013 864 True 1168 1168 91.2340 1 855 1 chr4B.!!$R3 854
2 TraesCS4B01G367500 chr7B 604109890 604110754 864 False 1206 1206 92.0420 1 856 1 chr7B.!!$F1 855
3 TraesCS4B01G367500 chr2B 200861461 200862323 862 True 1181 1181 91.4550 1 860 1 chr2B.!!$R1 859
4 TraesCS4B01G367500 chr1B 266931983 266932840 857 False 1136 1136 90.7080 1 853 1 chr1B.!!$F1 852
5 TraesCS4B01G367500 chr1B 452738482 452739118 636 True 907 907 92.5700 1485 2118 1 chr1B.!!$R1 633
6 TraesCS4B01G367500 chr3B 632916732 632917587 855 False 1125 1125 90.5700 5 853 1 chr3B.!!$F1 848
7 TraesCS4B01G367500 chr3B 743807207 743808032 825 True 1114 1114 91.1840 1 818 1 chr3B.!!$R1 817
8 TraesCS4B01G367500 chr5B 669508925 669509784 859 True 1120 1120 90.3000 1 856 1 chr5B.!!$R2 855
9 TraesCS4B01G367500 chr5B 664670560 664671417 857 True 1105 1105 90.0230 3 856 1 chr5B.!!$R1 853
10 TraesCS4B01G367500 chr6B 645517336 645518188 852 True 1116 1116 90.3490 1 853 1 chr6B.!!$R1 852
11 TraesCS4B01G367500 chr5D 378118078 378118712 634 True 922 922 93.0230 1485 2118 1 chr5D.!!$R1 633
12 TraesCS4B01G367500 chrUn 71120163 71120802 639 False 885 885 91.8460 1481 2116 1 chrUn.!!$F1 635
13 TraesCS4B01G367500 chr5A 692057966 692062530 4564 True 586 822 90.7445 852 1443 2 chr5A.!!$R1 591
14 TraesCS4B01G367500 chr4A 366721548 366722183 635 False 813 813 89.9380 1485 2118 1 chr4A.!!$F1 633
15 TraesCS4B01G367500 chr4D 507124601 507125431 830 False 464 776 94.6180 864 2346 2 chr4D.!!$F2 1482
16 TraesCS4B01G367500 chr3D 511738671 511739201 530 False 643 643 88.7040 1484 2015 1 chr3D.!!$F1 531
17 TraesCS4B01G367500 chr3A 647792903 647793432 529 False 555 555 85.7400 1485 2023 1 chr3A.!!$F1 538

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
943 4065 0.104855 GACACACACAGCCAGAGTGA 59.895 55.0 10.48 0.0 40.74 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2244 5406 0.033601 AGCCAACACAACAAGGTCCA 60.034 50.0 0.0 0.0 0.0 4.02 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
63 64 3.894547 TTGGCCTCGGAACCTTCGC 62.895 63.158 3.32 0.00 0.00 4.70
186 187 3.431725 GGAGTTGGCGCCTTTCCG 61.432 66.667 29.70 0.00 0.00 4.30
226 227 2.149803 ATCGTCGCAAACACCGGAGA 62.150 55.000 9.46 0.00 0.00 3.71
252 253 1.227674 GCCATCTTAGCCTGACCGG 60.228 63.158 0.00 0.00 0.00 5.28
259 260 0.399949 TTAGCCTGACCGGGATGGAT 60.400 55.000 6.32 5.57 42.00 3.41
267 268 0.326618 ACCGGGATGGATGAGGAAGT 60.327 55.000 6.32 0.00 42.00 3.01
319 320 5.108254 GCAAGACATCATCAACGAAAAACAC 60.108 40.000 0.00 0.00 0.00 3.32
358 359 0.548989 CGGAGAGGGAGGAGAGAAGA 59.451 60.000 0.00 0.00 0.00 2.87
442 443 1.728069 GCTAGGAGATGCGTCGTCA 59.272 57.895 0.00 0.00 0.00 4.35
729 747 2.512515 CTGCTGGAGCGGTTAGGC 60.513 66.667 0.00 0.00 45.83 3.93
790 808 4.741781 CGCGCAAAACCCAGCTCG 62.742 66.667 8.75 0.00 32.51 5.03
821 840 4.515432 GGTATTCTCATTTTTAGCGCGAC 58.485 43.478 12.10 0.04 0.00 5.19
845 864 1.063327 CGTTGTGCGGCTGTTGAAA 59.937 52.632 0.00 0.00 36.85 2.69
907 4024 3.635373 TCTTGGTCTATAAGTAGCACCCG 59.365 47.826 0.00 0.00 32.06 5.28
923 4040 2.750350 CGGAGGTCCCTTGCACTT 59.250 61.111 0.00 0.00 0.00 3.16
941 4063 0.541392 TTGACACACACAGCCAGAGT 59.459 50.000 0.00 0.00 0.00 3.24
942 4064 0.179076 TGACACACACAGCCAGAGTG 60.179 55.000 3.39 3.39 43.42 3.51
943 4065 0.104855 GACACACACAGCCAGAGTGA 59.895 55.000 10.48 0.00 40.74 3.41
944 4066 0.105593 ACACACACAGCCAGAGTGAG 59.894 55.000 10.48 5.95 40.74 3.51
963 4085 5.069781 AGTGAGCTAGCTCTAATAAACCCTG 59.930 44.000 37.42 0.00 43.12 4.45
964 4086 4.962995 TGAGCTAGCTCTAATAAACCCTGT 59.037 41.667 37.42 3.97 43.12 4.00
965 4087 6.040616 GTGAGCTAGCTCTAATAAACCCTGTA 59.959 42.308 37.42 15.39 43.12 2.74
966 4088 6.040616 TGAGCTAGCTCTAATAAACCCTGTAC 59.959 42.308 37.42 12.71 43.12 2.90
990 4112 0.177373 TAGACTCGCAGTAGCTCGGA 59.823 55.000 0.00 0.00 39.10 4.55
1057 4179 2.064762 CACTGAACCTGCTCTTCTTCG 58.935 52.381 0.00 0.00 0.00 3.79
1369 4500 1.679305 GTCGACCTCAGCCTCCTCA 60.679 63.158 3.51 0.00 0.00 3.86
1433 4571 1.683917 CTCCTAGAAGACCCATCCACG 59.316 57.143 0.00 0.00 0.00 4.94
1467 4609 5.578336 CCGGCATATATGTCATTGACTAGTG 59.422 44.000 17.16 10.00 33.15 2.74
1475 4617 6.997239 ATGTCATTGACTAGTGTACTACGA 57.003 37.500 17.26 0.00 33.15 3.43
1476 4618 6.806388 TGTCATTGACTAGTGTACTACGAA 57.194 37.500 17.26 0.00 33.15 3.85
1477 4619 7.387119 TGTCATTGACTAGTGTACTACGAAT 57.613 36.000 17.26 0.00 33.15 3.34
1478 4620 7.248437 TGTCATTGACTAGTGTACTACGAATG 58.752 38.462 17.26 0.00 33.15 2.67
1479 4621 7.094506 TGTCATTGACTAGTGTACTACGAATGT 60.095 37.037 17.26 0.00 33.15 2.71
1480 4622 8.393366 GTCATTGACTAGTGTACTACGAATGTA 58.607 37.037 9.59 0.00 0.00 2.29
1644 4786 0.523072 CCACTTGATTTGCCTCACGG 59.477 55.000 0.00 0.00 0.00 4.94
1674 4817 2.991190 AGCAATGCTTGAAAGAAATGCG 59.009 40.909 0.00 0.00 33.89 4.73
1766 4909 1.955778 TCAAGGTGTCCACAGCAAATG 59.044 47.619 11.31 7.20 46.03 2.32
1790 4933 4.999950 AGCAATCTGATTCAACTTCGACTT 59.000 37.500 0.00 0.00 0.00 3.01
1816 4959 3.277602 CCGACGCTAGCCGCTAGA 61.278 66.667 28.18 0.00 41.76 2.43
1817 4960 2.713770 CGACGCTAGCCGCTAGAA 59.286 61.111 28.18 0.00 41.76 2.10
1818 4961 1.063649 CGACGCTAGCCGCTAGAAA 59.936 57.895 28.18 0.00 41.76 2.52
1859 5004 3.499537 CAGTAAGTTCAGCAGCATCAACA 59.500 43.478 0.00 0.00 0.00 3.33
1861 5006 5.352293 CAGTAAGTTCAGCAGCATCAACATA 59.648 40.000 0.00 0.00 0.00 2.29
1986 5141 4.915085 CACATTTATTTTCACCACACCGTC 59.085 41.667 0.00 0.00 0.00 4.79
2002 5157 1.611673 CCGTCACTTGGCTTCTTCCAT 60.612 52.381 0.00 0.00 35.77 3.41
2040 5195 5.448654 TCTGCTTGGCATTTTAGGTGATAT 58.551 37.500 0.00 0.00 38.13 1.63
2041 5196 5.893255 TCTGCTTGGCATTTTAGGTGATATT 59.107 36.000 0.00 0.00 38.13 1.28
2123 5283 4.097437 TCAATACCCTTGACACGTAGCTAG 59.903 45.833 0.00 0.00 0.00 3.42
2129 5289 4.164294 CCTTGACACGTAGCTAGTTGTAC 58.836 47.826 7.07 0.00 0.00 2.90
2130 5290 3.460362 TGACACGTAGCTAGTTGTACG 57.540 47.619 15.52 15.52 45.96 3.67
2144 5304 7.013083 AGCTAGTTGTACGTATATACTGCTTGT 59.987 37.037 11.05 3.85 0.00 3.16
2162 5322 7.912250 ACTGCTTGTTTGATAAATCAATCGATC 59.088 33.333 0.00 3.02 45.30 3.69
2169 5329 8.482429 GTTTGATAAATCAATCGATCATTTGCC 58.518 33.333 18.85 13.00 45.30 4.52
2180 5340 5.698832 TCGATCATTTGCCAGTTTGTTTAG 58.301 37.500 0.00 0.00 0.00 1.85
2189 5349 4.508861 TGCCAGTTTGTTTAGACTTCGTAC 59.491 41.667 0.00 0.00 0.00 3.67
2214 5376 1.212616 CGCCACTGCTAGCTAATGAC 58.787 55.000 17.23 3.14 34.43 3.06
2239 5401 3.928727 TCGACATCGAACAACTAGGTT 57.071 42.857 0.51 0.00 46.30 3.50
2241 5403 5.571784 TCGACATCGAACAACTAGGTTAT 57.428 39.130 0.51 0.00 46.30 1.89
2242 5404 6.682423 TCGACATCGAACAACTAGGTTATA 57.318 37.500 0.51 0.00 46.30 0.98
2243 5405 7.087409 TCGACATCGAACAACTAGGTTATAA 57.913 36.000 0.51 0.00 46.30 0.98
2244 5406 7.709947 TCGACATCGAACAACTAGGTTATAAT 58.290 34.615 0.51 0.00 46.30 1.28
2245 5407 7.646526 TCGACATCGAACAACTAGGTTATAATG 59.353 37.037 0.51 0.00 46.30 1.90
2246 5408 7.096189 CGACATCGAACAACTAGGTTATAATGG 60.096 40.741 0.00 0.00 43.02 3.16
2247 5409 7.788026 ACATCGAACAACTAGGTTATAATGGA 58.212 34.615 0.00 0.00 0.00 3.41
2248 5410 7.709613 ACATCGAACAACTAGGTTATAATGGAC 59.290 37.037 0.00 0.00 0.00 4.02
2249 5411 6.576185 TCGAACAACTAGGTTATAATGGACC 58.424 40.000 0.00 0.00 36.15 4.46
2251 5413 7.046033 CGAACAACTAGGTTATAATGGACCTT 58.954 38.462 0.00 0.00 43.64 3.50
2252 5414 7.011109 CGAACAACTAGGTTATAATGGACCTTG 59.989 40.741 0.00 1.66 43.64 3.61
2256 5418 7.266905 ACTAGGTTATAATGGACCTTGTTGT 57.733 36.000 0.00 0.00 45.43 3.32
2257 5419 7.110155 ACTAGGTTATAATGGACCTTGTTGTG 58.890 38.462 0.00 0.00 45.43 3.33
2258 5420 5.887754 AGGTTATAATGGACCTTGTTGTGT 58.112 37.500 0.00 0.00 43.64 3.72
2259 5421 6.311735 AGGTTATAATGGACCTTGTTGTGTT 58.688 36.000 0.00 0.00 43.64 3.32
2260 5422 6.208599 AGGTTATAATGGACCTTGTTGTGTTG 59.791 38.462 0.00 0.00 43.64 3.33
2261 5423 6.386654 GTTATAATGGACCTTGTTGTGTTGG 58.613 40.000 0.00 0.00 0.00 3.77
2262 5424 1.039856 ATGGACCTTGTTGTGTTGGC 58.960 50.000 0.00 0.00 0.00 4.52
2263 5425 0.033601 TGGACCTTGTTGTGTTGGCT 60.034 50.000 0.00 0.00 0.00 4.75
2264 5426 0.385390 GGACCTTGTTGTGTTGGCTG 59.615 55.000 0.00 0.00 0.00 4.85
2265 5427 0.385390 GACCTTGTTGTGTTGGCTGG 59.615 55.000 0.00 0.00 0.00 4.85
2346 5508 2.619177 ACGTAGCTAGGAGTACAGCATG 59.381 50.000 19.82 0.00 46.00 4.06
2366 5528 8.851416 CAGCATGTTAGACTAAATATACGTAGC 58.149 37.037 0.08 0.00 0.00 3.58
2367 5529 8.794553 AGCATGTTAGACTAAATATACGTAGCT 58.205 33.333 0.08 0.00 0.00 3.32
2368 5530 9.408069 GCATGTTAGACTAAATATACGTAGCTT 57.592 33.333 0.08 0.00 0.00 3.74
2372 5534 9.116054 GTTAGACTAAATATACGTAGCTTCTGC 57.884 37.037 0.08 0.00 40.05 4.26
2373 5535 7.273320 AGACTAAATATACGTAGCTTCTGCA 57.727 36.000 0.08 0.00 42.74 4.41
2374 5536 7.887381 AGACTAAATATACGTAGCTTCTGCAT 58.113 34.615 0.08 0.00 42.74 3.96
2375 5537 9.011095 AGACTAAATATACGTAGCTTCTGCATA 57.989 33.333 0.08 0.00 42.74 3.14
2376 5538 9.790389 GACTAAATATACGTAGCTTCTGCATAT 57.210 33.333 0.08 0.00 42.74 1.78
2377 5539 9.790389 ACTAAATATACGTAGCTTCTGCATATC 57.210 33.333 0.08 0.00 42.74 1.63
2379 5541 8.694975 AAATATACGTAGCTTCTGCATATCTG 57.305 34.615 0.08 0.00 42.74 2.90
2380 5542 5.713792 ATACGTAGCTTCTGCATATCTGT 57.286 39.130 0.08 0.00 42.74 3.41
2381 5543 6.819397 ATACGTAGCTTCTGCATATCTGTA 57.181 37.500 0.08 0.00 42.74 2.74
2382 5544 5.713792 ACGTAGCTTCTGCATATCTGTAT 57.286 39.130 0.00 0.00 42.74 2.29
2383 5545 6.090483 ACGTAGCTTCTGCATATCTGTATT 57.910 37.500 0.00 0.00 42.74 1.89
2384 5546 5.923114 ACGTAGCTTCTGCATATCTGTATTG 59.077 40.000 0.00 0.00 42.74 1.90
2385 5547 5.923114 CGTAGCTTCTGCATATCTGTATTGT 59.077 40.000 0.00 0.00 42.74 2.71
2386 5548 7.084486 CGTAGCTTCTGCATATCTGTATTGTA 58.916 38.462 0.00 0.00 42.74 2.41
2387 5549 7.595130 CGTAGCTTCTGCATATCTGTATTGTAA 59.405 37.037 0.00 0.00 42.74 2.41
2388 5550 9.429359 GTAGCTTCTGCATATCTGTATTGTAAT 57.571 33.333 0.00 0.00 42.74 1.89
2402 5564 9.062524 TCTGTATTGTAATATTGTATTGCACCC 57.937 33.333 0.00 0.00 0.00 4.61
2403 5565 8.172352 TGTATTGTAATATTGTATTGCACCCC 57.828 34.615 0.00 0.00 0.00 4.95
2404 5566 8.001875 TGTATTGTAATATTGTATTGCACCCCT 58.998 33.333 0.00 0.00 0.00 4.79
2405 5567 7.912778 ATTGTAATATTGTATTGCACCCCTT 57.087 32.000 0.00 0.00 0.00 3.95
2406 5568 6.707440 TGTAATATTGTATTGCACCCCTTG 57.293 37.500 0.00 0.00 0.00 3.61
2407 5569 5.596361 TGTAATATTGTATTGCACCCCTTGG 59.404 40.000 0.00 0.00 37.80 3.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 47 4.388499 GCGAAGGTTCCGAGGCCA 62.388 66.667 5.01 0.00 0.00 5.36
63 64 4.802051 CGCCATCCTGGGTGGTGG 62.802 72.222 28.34 16.62 42.22 4.61
155 156 4.154347 CTCCTGTGCCCGCTCCTC 62.154 72.222 0.00 0.00 0.00 3.71
226 227 1.522569 GCTAAGATGGCACTCCCGT 59.477 57.895 0.00 0.00 35.87 5.28
233 234 1.522092 CGGTCAGGCTAAGATGGCA 59.478 57.895 0.00 0.00 34.73 4.92
252 253 2.813354 GCCATGACTTCCTCATCCATCC 60.813 54.545 0.00 0.00 37.53 3.51
259 260 0.396435 ACAACGCCATGACTTCCTCA 59.604 50.000 0.00 0.00 0.00 3.86
267 268 2.359850 GCCTCCACAACGCCATGA 60.360 61.111 0.00 0.00 0.00 3.07
319 320 0.736053 CCCTCCTCTCGACGAAGAAG 59.264 60.000 0.00 0.00 0.00 2.85
724 742 1.468395 GCAAAATAAAGCGCGGCCTAA 60.468 47.619 8.83 0.00 0.00 2.69
726 744 1.153842 GCAAAATAAAGCGCGGCCT 60.154 52.632 8.83 0.00 0.00 5.19
826 845 1.649390 TTTCAACAGCCGCACAACGT 61.649 50.000 0.00 0.00 41.42 3.99
832 851 0.039256 GAGCATTTTCAACAGCCGCA 60.039 50.000 0.00 0.00 0.00 5.69
836 855 4.431661 AGCTTAGAGCATTTTCAACAGC 57.568 40.909 2.47 0.00 45.56 4.40
866 3983 5.450550 CCAAGAAGAAAGGAAGGTGTTGAAC 60.451 44.000 0.00 0.00 0.00 3.18
873 3990 7.237887 ACTTATAGACCAAGAAGAAAGGAAGGT 59.762 37.037 0.00 0.00 0.00 3.50
907 4024 0.606673 GTCAAGTGCAAGGGACCTCC 60.607 60.000 0.00 0.00 0.00 4.30
923 4040 0.179076 CACTCTGGCTGTGTGTGTCA 60.179 55.000 15.67 0.00 35.95 3.58
941 4063 4.962995 ACAGGGTTTATTAGAGCTAGCTCA 59.037 41.667 38.86 24.32 44.99 4.26
942 4064 5.538849 ACAGGGTTTATTAGAGCTAGCTC 57.461 43.478 33.21 33.21 43.03 4.09
943 4065 5.009811 CGTACAGGGTTTATTAGAGCTAGCT 59.990 44.000 19.45 19.45 0.00 3.32
944 4066 5.221130 CGTACAGGGTTTATTAGAGCTAGC 58.779 45.833 6.62 6.62 0.00 3.42
963 4085 3.060607 GCTACTGCGAGTCTACTACGTAC 60.061 52.174 0.00 0.00 0.00 3.67
964 4086 3.119291 GCTACTGCGAGTCTACTACGTA 58.881 50.000 0.00 0.00 0.00 3.57
965 4087 1.932511 GCTACTGCGAGTCTACTACGT 59.067 52.381 0.00 0.00 0.00 3.57
966 4088 2.203401 AGCTACTGCGAGTCTACTACG 58.797 52.381 0.00 0.00 45.42 3.51
976 4098 0.108019 TCCTATCCGAGCTACTGCGA 59.892 55.000 0.00 0.00 45.42 5.10
978 4100 1.336424 GCTTCCTATCCGAGCTACTGC 60.336 57.143 0.00 0.00 40.05 4.40
990 4112 1.617322 TCGTCGCCATAGCTTCCTAT 58.383 50.000 0.00 0.00 36.60 2.57
1038 4160 1.606737 GCGAAGAAGAGCAGGTTCAGT 60.607 52.381 0.00 0.00 0.00 3.41
1369 4500 2.076863 GTTCTTGCCGCAGTAGTTGAT 58.923 47.619 0.00 0.00 0.00 2.57
1433 4571 2.472695 TATATGCCGGAGATGTTGCC 57.527 50.000 5.05 0.00 0.00 4.52
1491 4633 5.756833 AGAAGTAAAGTGTTTTACCCGTCAG 59.243 40.000 6.57 0.00 46.36 3.51
1603 4745 4.142381 GGCGGATGAGTTAGCAAAGAATTT 60.142 41.667 0.00 0.00 40.26 1.82
1644 4786 0.097674 CAAGCATTGCTACCGTGAGC 59.902 55.000 12.39 0.00 40.39 4.26
1674 4817 0.595310 GCTAGCGATGGAGTTCGGAC 60.595 60.000 0.00 0.00 39.49 4.79
1766 4909 4.629200 AGTCGAAGTTGAATCAGATTGCTC 59.371 41.667 0.00 0.00 0.00 4.26
1790 4933 0.808453 GCTAGCGTCGGGTGCAATTA 60.808 55.000 0.00 0.00 33.85 1.40
1817 4960 4.003648 CTGCTATCAGGAACGGTCTTTTT 58.996 43.478 0.00 0.00 36.68 1.94
1818 4961 3.008049 ACTGCTATCAGGAACGGTCTTTT 59.992 43.478 0.00 0.00 44.54 2.27
1822 4965 3.130693 ACTTACTGCTATCAGGAACGGTC 59.869 47.826 0.00 0.00 44.54 4.79
1986 5141 3.018856 TGCATATGGAAGAAGCCAAGTG 58.981 45.455 4.56 0.00 42.16 3.16
2002 5157 3.370840 AGCAGAAAGGATGGTTGCATA 57.629 42.857 0.00 0.00 37.24 3.14
2040 5195 7.668469 TCCTAGCGACTAATTATATCAGGTCAA 59.332 37.037 0.00 0.00 0.00 3.18
2041 5196 7.120873 GTCCTAGCGACTAATTATATCAGGTCA 59.879 40.741 0.00 0.00 38.57 4.02
2123 5283 8.176814 TCAAACAAGCAGTATATACGTACAAC 57.823 34.615 7.23 0.00 0.00 3.32
2162 5322 5.399301 CGAAGTCTAAACAAACTGGCAAATG 59.601 40.000 0.00 0.00 0.00 2.32
2169 5329 5.653657 CACGTACGAAGTCTAAACAAACTG 58.346 41.667 24.41 0.00 43.93 3.16
2180 5340 4.174320 GCGCGCACGTACGAAGTC 62.174 66.667 29.10 7.24 40.63 3.01
2238 5400 5.047660 GCCAACACAACAAGGTCCATTATAA 60.048 40.000 0.00 0.00 0.00 0.98
2239 5401 4.461081 GCCAACACAACAAGGTCCATTATA 59.539 41.667 0.00 0.00 0.00 0.98
2240 5402 3.258123 GCCAACACAACAAGGTCCATTAT 59.742 43.478 0.00 0.00 0.00 1.28
2241 5403 2.625790 GCCAACACAACAAGGTCCATTA 59.374 45.455 0.00 0.00 0.00 1.90
2242 5404 1.412343 GCCAACACAACAAGGTCCATT 59.588 47.619 0.00 0.00 0.00 3.16
2243 5405 1.039856 GCCAACACAACAAGGTCCAT 58.960 50.000 0.00 0.00 0.00 3.41
2244 5406 0.033601 AGCCAACACAACAAGGTCCA 60.034 50.000 0.00 0.00 0.00 4.02
2245 5407 0.385390 CAGCCAACACAACAAGGTCC 59.615 55.000 0.00 0.00 0.00 4.46
2246 5408 0.385390 CCAGCCAACACAACAAGGTC 59.615 55.000 0.00 0.00 0.00 3.85
2247 5409 0.324275 ACCAGCCAACACAACAAGGT 60.324 50.000 0.00 0.00 0.00 3.50
2248 5410 0.823460 AACCAGCCAACACAACAAGG 59.177 50.000 0.00 0.00 0.00 3.61
2249 5411 1.476085 TCAACCAGCCAACACAACAAG 59.524 47.619 0.00 0.00 0.00 3.16
2250 5412 1.550327 TCAACCAGCCAACACAACAA 58.450 45.000 0.00 0.00 0.00 2.83
2251 5413 1.774110 ATCAACCAGCCAACACAACA 58.226 45.000 0.00 0.00 0.00 3.33
2252 5414 2.888834 AATCAACCAGCCAACACAAC 57.111 45.000 0.00 0.00 0.00 3.32
2253 5415 4.586421 TGAATAATCAACCAGCCAACACAA 59.414 37.500 0.00 0.00 30.99 3.33
2254 5416 4.022416 GTGAATAATCAACCAGCCAACACA 60.022 41.667 0.00 0.00 37.30 3.72
2255 5417 4.218417 AGTGAATAATCAACCAGCCAACAC 59.782 41.667 0.00 0.00 37.30 3.32
2256 5418 4.406456 AGTGAATAATCAACCAGCCAACA 58.594 39.130 0.00 0.00 37.30 3.33
2257 5419 5.048083 TCAAGTGAATAATCAACCAGCCAAC 60.048 40.000 0.00 0.00 37.30 3.77
2258 5420 5.076182 TCAAGTGAATAATCAACCAGCCAA 58.924 37.500 0.00 0.00 37.30 4.52
2259 5421 4.661222 TCAAGTGAATAATCAACCAGCCA 58.339 39.130 0.00 0.00 37.30 4.75
2260 5422 5.585390 CATCAAGTGAATAATCAACCAGCC 58.415 41.667 0.00 0.00 37.30 4.85
2261 5423 5.039333 GCATCAAGTGAATAATCAACCAGC 58.961 41.667 0.00 0.00 37.30 4.85
2262 5424 6.198650 TGCATCAAGTGAATAATCAACCAG 57.801 37.500 0.00 0.00 37.30 4.00
2263 5425 6.587206 TTGCATCAAGTGAATAATCAACCA 57.413 33.333 0.00 0.00 37.30 3.67
2264 5426 7.546667 ACAATTGCATCAAGTGAATAATCAACC 59.453 33.333 12.94 0.00 41.15 3.77
2265 5427 8.470040 ACAATTGCATCAAGTGAATAATCAAC 57.530 30.769 12.94 0.00 41.15 3.18
2346 5508 9.116054 GCAGAAGCTACGTATATTTAGTCTAAC 57.884 37.037 0.00 0.00 37.91 2.34
2347 5509 8.843262 TGCAGAAGCTACGTATATTTAGTCTAA 58.157 33.333 0.00 0.00 42.74 2.10
2348 5510 8.387190 TGCAGAAGCTACGTATATTTAGTCTA 57.613 34.615 0.00 0.00 42.74 2.59
2349 5511 7.273320 TGCAGAAGCTACGTATATTTAGTCT 57.727 36.000 0.00 0.00 42.74 3.24
2350 5512 9.790389 ATATGCAGAAGCTACGTATATTTAGTC 57.210 33.333 0.00 0.00 42.74 2.59
2351 5513 9.790389 GATATGCAGAAGCTACGTATATTTAGT 57.210 33.333 0.00 0.00 42.74 2.24
2353 5515 9.788960 CAGATATGCAGAAGCTACGTATATTTA 57.211 33.333 0.00 0.00 42.74 1.40
2354 5516 8.307483 ACAGATATGCAGAAGCTACGTATATTT 58.693 33.333 0.00 0.00 42.74 1.40
2355 5517 7.831753 ACAGATATGCAGAAGCTACGTATATT 58.168 34.615 0.00 0.00 42.74 1.28
2356 5518 7.397892 ACAGATATGCAGAAGCTACGTATAT 57.602 36.000 0.00 0.00 42.74 0.86
2357 5519 6.819397 ACAGATATGCAGAAGCTACGTATA 57.181 37.500 0.00 0.00 42.74 1.47
2358 5520 5.713792 ACAGATATGCAGAAGCTACGTAT 57.286 39.130 0.00 0.00 42.74 3.06
2359 5521 6.819397 ATACAGATATGCAGAAGCTACGTA 57.181 37.500 0.00 0.00 42.74 3.57
2360 5522 5.713792 ATACAGATATGCAGAAGCTACGT 57.286 39.130 0.00 0.00 42.74 3.57
2361 5523 5.923114 ACAATACAGATATGCAGAAGCTACG 59.077 40.000 0.00 0.00 42.74 3.51
2362 5524 8.818141 TTACAATACAGATATGCAGAAGCTAC 57.182 34.615 0.00 0.00 42.74 3.58
2376 5538 9.062524 GGGTGCAATACAATATTACAATACAGA 57.937 33.333 0.00 0.00 0.00 3.41
2377 5539 8.296713 GGGGTGCAATACAATATTACAATACAG 58.703 37.037 0.00 0.00 0.00 2.74
2378 5540 8.001875 AGGGGTGCAATACAATATTACAATACA 58.998 33.333 0.00 0.00 0.00 2.29
2379 5541 8.404107 AGGGGTGCAATACAATATTACAATAC 57.596 34.615 0.00 0.00 0.00 1.89
2380 5542 8.855110 CAAGGGGTGCAATACAATATTACAATA 58.145 33.333 0.00 0.00 0.00 1.90
2381 5543 7.201992 CCAAGGGGTGCAATACAATATTACAAT 60.202 37.037 0.00 0.00 0.00 2.71
2382 5544 6.097554 CCAAGGGGTGCAATACAATATTACAA 59.902 38.462 0.00 0.00 0.00 2.41
2383 5545 5.596361 CCAAGGGGTGCAATACAATATTACA 59.404 40.000 0.00 0.00 0.00 2.41
2384 5546 5.010617 CCCAAGGGGTGCAATACAATATTAC 59.989 44.000 0.00 0.00 38.25 1.89
2385 5547 5.144100 CCCAAGGGGTGCAATACAATATTA 58.856 41.667 0.00 0.00 38.25 0.98
2386 5548 3.966665 CCCAAGGGGTGCAATACAATATT 59.033 43.478 0.00 0.00 38.25 1.28
2387 5549 3.575805 CCCAAGGGGTGCAATACAATAT 58.424 45.455 0.00 0.00 38.25 1.28
2388 5550 3.025322 CCCAAGGGGTGCAATACAATA 57.975 47.619 0.00 0.00 38.25 1.90
2389 5551 1.864669 CCCAAGGGGTGCAATACAAT 58.135 50.000 0.00 0.00 38.25 2.71
2390 5552 3.372557 CCCAAGGGGTGCAATACAA 57.627 52.632 0.00 0.00 38.25 2.41


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

AutoCloner maintained by Alex Coulton.