Multiple sequence alignment - TraesCS4A01G223900

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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 TraesCS4A01G223900 chr4A 100.000 2732 0 0 1 2732 531324926 531327657 0.000000e+00 5046.0
1 TraesCS4A01G223900 chr4A 82.675 1189 165 19 1507 2670 531247721 531248893 0.000000e+00 1016.0
2 TraesCS4A01G223900 chr4A 78.827 1535 229 45 1200 2719 531312049 531313502 0.000000e+00 946.0
3 TraesCS4A01G223900 chr4A 80.827 266 41 9 920 1177 531311715 531311978 1.660000e-47 200.0
4 TraesCS4A01G223900 chr4A 87.578 161 15 5 655 812 531303666 531303824 6.010000e-42 182.0
5 TraesCS4A01G223900 chr4B 94.529 1316 63 5 1200 2508 95109230 95107917 0.000000e+00 2023.0
6 TraesCS4A01G223900 chr4B 80.390 1540 223 41 1200 2719 95218430 95216950 0.000000e+00 1098.0
7 TraesCS4A01G223900 chr4B 83.320 1235 157 26 1509 2717 95366125 95367336 0.000000e+00 1094.0
8 TraesCS4A01G223900 chr4B 83.055 1198 162 21 1514 2684 95318122 95316939 0.000000e+00 1050.0
9 TraesCS4A01G223900 chr4B 88.567 691 34 17 530 1203 95109947 95109285 0.000000e+00 797.0
10 TraesCS4A01G223900 chr4B 83.032 277 36 7 655 922 95219151 95218877 9.780000e-60 241.0
11 TraesCS4A01G223900 chr4B 90.286 175 16 1 1 174 95111954 95111780 7.610000e-56 228.0
12 TraesCS4A01G223900 chr4B 86.631 187 24 1 995 1180 95218686 95218500 3.570000e-49 206.0
13 TraesCS4A01G223900 chr4B 84.921 126 14 4 2534 2658 95107801 95107680 3.690000e-24 122.0
14 TraesCS4A01G223900 chr4B 87.654 81 6 4 456 534 267119375 267119297 1.040000e-14 91.6
15 TraesCS4A01G223900 chr4B 92.500 40 2 1 262 301 160528049 160528087 3.800000e-04 56.5
16 TraesCS4A01G223900 chr4D 93.005 915 45 9 1823 2723 64605208 64604299 0.000000e+00 1317.0
17 TraesCS4A01G223900 chr4D 97.611 628 13 1 1200 1825 64605914 64605287 0.000000e+00 1075.0
18 TraesCS4A01G223900 chr4D 94.551 679 20 8 535 1203 64606640 64605969 0.000000e+00 1033.0
19 TraesCS4A01G223900 chr4D 79.245 1537 220 44 1200 2719 64617152 64615698 0.000000e+00 979.0
20 TraesCS4A01G223900 chr4D 87.045 494 35 4 1 470 64607149 64606661 5.180000e-147 531.0
21 TraesCS4A01G223900 chr4D 87.565 193 22 2 989 1180 64617411 64617220 3.540000e-54 222.0
22 TraesCS4A01G223900 chr3B 85.714 210 20 5 32 240 498731785 498731585 2.130000e-51 213.0
23 TraesCS4A01G223900 chr3B 84.211 209 29 1 32 240 528711235 528711031 1.660000e-47 200.0
24 TraesCS4A01G223900 chr3B 77.778 153 25 3 344 487 771759757 771759909 4.850000e-13 86.1
25 TraesCS4A01G223900 chr7D 75.306 490 93 22 1591 2055 620985576 620985090 2.760000e-50 209.0
26 TraesCS4A01G223900 chr6D 85.366 205 27 1 32 236 365738765 365738966 2.760000e-50 209.0
27 TraesCS4A01G223900 chr1B 83.962 212 27 4 32 242 402153423 402153628 2.150000e-46 196.0
28 TraesCS4A01G223900 chr1B 81.013 79 8 6 265 340 671804947 671804873 3.800000e-04 56.5
29 TraesCS4A01G223900 chr5B 83.491 212 27 6 32 241 708194593 708194388 9.990000e-45 191.0
30 TraesCS4A01G223900 chr2A 83.495 206 30 4 32 236 510071954 510072156 3.590000e-44 189.0
31 TraesCS4A01G223900 chr5A 82.629 213 31 4 29 240 531896529 531896736 1.670000e-42 183.0
32 TraesCS4A01G223900 chr2B 77.778 180 27 9 350 518 566614151 566614328 6.230000e-17 99.0
33 TraesCS4A01G223900 chr2B 89.474 76 8 0 265 340 653612037 653611962 2.240000e-16 97.1
34 TraesCS4A01G223900 chr2B 100.000 28 0 0 460 487 48216884 48216857 5.000000e-03 52.8
35 TraesCS4A01G223900 chr3A 76.382 199 35 6 344 531 180397783 180397980 2.240000e-16 97.1
36 TraesCS4A01G223900 chr3A 75.377 199 27 13 346 531 64991600 64991789 2.920000e-10 76.8
37 TraesCS4A01G223900 chr3A 82.278 79 13 1 262 340 461310112 461310189 1.760000e-07 67.6
38 TraesCS4A01G223900 chr3A 92.500 40 2 1 262 301 144702764 144702802 3.800000e-04 56.5
39 TraesCS4A01G223900 chr7B 79.861 144 18 5 353 487 706130994 706130853 8.050000e-16 95.3
40 TraesCS4A01G223900 chr7B 80.263 76 14 1 265 340 185832154 185832080 3.800000e-04 56.5
41 TraesCS4A01G223900 chr3D 76.500 200 27 11 344 531 53612675 53612866 1.040000e-14 91.6
42 TraesCS4A01G223900 chr7A 87.500 64 8 0 278 341 484567919 484567982 1.050000e-09 75.0
43 TraesCS4A01G223900 chr1A 86.567 67 8 1 344 409 573385714 573385780 3.770000e-09 73.1
44 TraesCS4A01G223900 chr5D 90.196 51 4 1 343 392 423257901 423257951 6.310000e-07 65.8
45 TraesCS4A01G223900 chr6B 100.000 29 0 0 455 483 590562677 590562705 1.000000e-03 54.7


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 TraesCS4A01G223900 chr4A 531324926 531327657 2731 False 5046.0 5046 100.00000 1 2732 1 chr4A.!!$F3 2731
1 TraesCS4A01G223900 chr4A 531247721 531248893 1172 False 1016.0 1016 82.67500 1507 2670 1 chr4A.!!$F1 1163
2 TraesCS4A01G223900 chr4A 531311715 531313502 1787 False 573.0 946 79.82700 920 2719 2 chr4A.!!$F4 1799
3 TraesCS4A01G223900 chr4B 95366125 95367336 1211 False 1094.0 1094 83.32000 1509 2717 1 chr4B.!!$F1 1208
4 TraesCS4A01G223900 chr4B 95316939 95318122 1183 True 1050.0 1050 83.05500 1514 2684 1 chr4B.!!$R1 1170
5 TraesCS4A01G223900 chr4B 95107680 95111954 4274 True 792.5 2023 89.57575 1 2658 4 chr4B.!!$R3 2657
6 TraesCS4A01G223900 chr4B 95216950 95219151 2201 True 515.0 1098 83.35100 655 2719 3 chr4B.!!$R4 2064
7 TraesCS4A01G223900 chr4D 64604299 64607149 2850 True 989.0 1317 93.05300 1 2723 4 chr4D.!!$R1 2722
8 TraesCS4A01G223900 chr4D 64615698 64617411 1713 True 600.5 979 83.40500 989 2719 2 chr4D.!!$R2 1730

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
800 2594 0.107214 TCCTCATCCCCATTTCGTGC 60.107 55.0 0.00 0.0 0.00 5.34 F
1415 3400 1.755200 TTACCCAAGGGAAGCCTTCT 58.245 50.0 13.15 0.0 38.96 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1729 3718 1.819305 GCCAAAGAGCCTGGAAAGTCA 60.819 52.381 0.0 0.0 35.85 3.41 R
2594 4809 3.753294 ATTATCACCATCCACCTCGAC 57.247 47.619 0.0 0.0 0.00 4.20 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
77 79 1.810031 CGTTGGTGTCAAGCTCAAGGA 60.810 52.381 0.00 0.00 32.92 3.36
104 106 7.519032 TTTTCGGTCCTGATTGTAATTTTCT 57.481 32.000 0.00 0.00 0.00 2.52
159 161 4.105486 GCGTTTTGCTCTCTTTTCAGTTT 58.895 39.130 0.00 0.00 41.73 2.66
165 167 6.455360 TTGCTCTCTTTTCAGTTTTGTCAT 57.545 33.333 0.00 0.00 0.00 3.06
193 1829 6.204359 GGTGTATACGTGACTTGTAGTATGG 58.796 44.000 0.00 0.00 32.71 2.74
275 2038 5.705609 CTACCTAAGCAAACCAACATGTT 57.294 39.130 4.92 4.92 0.00 2.71
276 2039 4.320608 ACCTAAGCAAACCAACATGTTG 57.679 40.909 28.18 28.18 40.13 3.33
293 2056 2.714250 TGTTGTTGGATGGTTAGAGGGT 59.286 45.455 0.00 0.00 0.00 4.34
305 2068 3.371965 GTTAGAGGGTCAGTGGTATCCA 58.628 50.000 0.00 0.00 0.00 3.41
327 2090 5.187967 CCACATTCTACTAGGGTTCAAGTCT 59.812 44.000 0.00 0.00 0.00 3.24
340 2103 1.800586 TCAAGTCTTGTTGCTCGCATC 59.199 47.619 12.30 0.00 0.00 3.91
341 2104 1.135859 CAAGTCTTGTTGCTCGCATCC 60.136 52.381 4.27 0.00 0.00 3.51
344 2130 0.737367 TCTTGTTGCTCGCATCCTCG 60.737 55.000 0.00 0.00 0.00 4.63
357 2143 1.315257 ATCCTCGGCAATGCGCTTTT 61.315 50.000 9.73 0.00 41.91 2.27
363 2149 1.078201 GGCAATGCGCTTTTAGTGGC 61.078 55.000 9.73 6.30 41.91 5.01
399 2185 2.502080 GACGAGACGCTCACGGTG 60.502 66.667 0.56 0.56 46.04 4.94
417 2204 6.071560 TCACGGTGACTTTGTAAGAGATATGT 60.072 38.462 6.76 0.00 0.00 2.29
420 2207 6.331061 GGTGACTTTGTAAGAGATATGTCGT 58.669 40.000 0.00 0.00 0.00 4.34
425 2212 9.784680 GACTTTGTAAGAGATATGTCGTCTTAA 57.215 33.333 10.63 0.96 35.17 1.85
445 2232 9.823647 GTCTTAATCTCTTGAAGGTGATCATAA 57.176 33.333 0.00 0.00 0.00 1.90
448 2235 7.443302 AATCTCTTGAAGGTGATCATAAGGA 57.557 36.000 0.00 0.96 0.00 3.36
451 2238 8.553085 TCTCTTGAAGGTGATCATAAGGATAA 57.447 34.615 0.00 0.00 36.00 1.75
467 2254 2.480419 GGATAAGATATGCGTGTGTGCC 59.520 50.000 0.00 0.00 0.00 5.01
470 2257 1.656652 AGATATGCGTGTGTGCCTTC 58.343 50.000 0.00 0.00 0.00 3.46
471 2258 1.066215 AGATATGCGTGTGTGCCTTCA 60.066 47.619 0.00 0.00 0.00 3.02
472 2259 1.942657 GATATGCGTGTGTGCCTTCAT 59.057 47.619 0.00 0.00 0.00 2.57
473 2260 2.682155 TATGCGTGTGTGCCTTCATA 57.318 45.000 0.00 0.00 0.00 2.15
474 2261 1.372582 ATGCGTGTGTGCCTTCATAG 58.627 50.000 0.00 0.00 0.00 2.23
477 2264 0.744414 CGTGTGTGCCTTCATAGGGG 60.744 60.000 0.00 0.00 42.25 4.79
487 2274 5.720041 GTGCCTTCATAGGGGTGAGTATATA 59.280 44.000 0.00 0.00 42.25 0.86
488 2275 5.958380 TGCCTTCATAGGGGTGAGTATATAG 59.042 44.000 0.00 0.00 42.25 1.31
489 2276 6.195700 GCCTTCATAGGGGTGAGTATATAGA 58.804 44.000 0.00 0.00 42.25 1.98
492 2279 7.841729 CCTTCATAGGGGTGAGTATATAGACAT 59.158 40.741 0.00 0.00 37.94 3.06
495 2282 9.868160 TCATAGGGGTGAGTATATAGACATATG 57.132 37.037 0.00 0.00 0.00 1.78
496 2283 9.647918 CATAGGGGTGAGTATATAGACATATGT 57.352 37.037 8.43 8.43 0.00 2.29
499 2286 9.702253 AGGGGTGAGTATATAGACATATGTAAG 57.298 37.037 8.71 0.00 0.00 2.34
500 2287 9.696572 GGGGTGAGTATATAGACATATGTAAGA 57.303 37.037 8.71 0.00 0.00 2.10
503 2290 9.923786 GTGAGTATATAGACATATGTAAGAGCG 57.076 37.037 8.71 0.00 0.00 5.03
504 2291 8.613482 TGAGTATATAGACATATGTAAGAGCGC 58.387 37.037 8.71 0.00 0.00 5.92
505 2292 8.740123 AGTATATAGACATATGTAAGAGCGCT 57.260 34.615 11.27 11.27 0.00 5.92
506 2293 9.179909 AGTATATAGACATATGTAAGAGCGCTT 57.820 33.333 13.26 8.09 38.15 4.68
507 2294 9.227490 GTATATAGACATATGTAAGAGCGCTTG 57.773 37.037 13.26 5.50 35.56 4.01
508 2295 3.126831 AGACATATGTAAGAGCGCTTGC 58.873 45.455 13.26 12.27 37.27 4.01
509 2296 1.860950 ACATATGTAAGAGCGCTTGCG 59.139 47.619 13.26 10.90 45.69 4.85
510 2297 1.860950 CATATGTAAGAGCGCTTGCGT 59.139 47.619 13.26 16.32 45.69 5.24
511 2298 1.556564 TATGTAAGAGCGCTTGCGTC 58.443 50.000 13.26 11.96 45.69 5.19
512 2299 0.108615 ATGTAAGAGCGCTTGCGTCT 60.109 50.000 13.26 13.17 45.69 4.18
513 2300 1.008875 TGTAAGAGCGCTTGCGTCTG 61.009 55.000 13.26 0.00 45.69 3.51
514 2301 1.009389 GTAAGAGCGCTTGCGTCTGT 61.009 55.000 13.26 9.53 45.69 3.41
515 2302 0.524414 TAAGAGCGCTTGCGTCTGTA 59.476 50.000 13.26 9.64 45.69 2.74
516 2303 1.009389 AAGAGCGCTTGCGTCTGTAC 61.009 55.000 13.26 0.00 45.69 2.90
517 2304 1.444553 GAGCGCTTGCGTCTGTACT 60.445 57.895 13.26 3.73 45.69 2.73
518 2305 1.678269 GAGCGCTTGCGTCTGTACTG 61.678 60.000 13.26 0.00 45.69 2.74
519 2306 2.022129 GCGCTTGCGTCTGTACTGT 61.022 57.895 16.38 0.00 0.00 3.55
520 2307 1.775344 CGCTTGCGTCTGTACTGTG 59.225 57.895 6.86 0.00 0.00 3.66
521 2308 0.939577 CGCTTGCGTCTGTACTGTGT 60.940 55.000 6.86 0.00 0.00 3.72
522 2309 1.217882 GCTTGCGTCTGTACTGTGTT 58.782 50.000 0.00 0.00 0.00 3.32
523 2310 2.400399 GCTTGCGTCTGTACTGTGTTA 58.600 47.619 0.00 0.00 0.00 2.41
524 2311 2.798283 GCTTGCGTCTGTACTGTGTTAA 59.202 45.455 0.00 0.00 0.00 2.01
525 2312 3.246699 GCTTGCGTCTGTACTGTGTTAAA 59.753 43.478 0.00 0.00 0.00 1.52
526 2313 4.260456 GCTTGCGTCTGTACTGTGTTAAAA 60.260 41.667 0.00 0.00 0.00 1.52
527 2314 5.728344 GCTTGCGTCTGTACTGTGTTAAAAA 60.728 40.000 0.00 0.00 0.00 1.94
591 2383 0.508641 CAGTATAATCCAGCGCGCAC 59.491 55.000 35.10 19.70 0.00 5.34
686 2479 1.772453 TCCCCCGTCTTCTTTGAAAGT 59.228 47.619 4.68 0.00 0.00 2.66
799 2593 2.645838 ATCCTCATCCCCATTTCGTG 57.354 50.000 0.00 0.00 0.00 4.35
800 2594 0.107214 TCCTCATCCCCATTTCGTGC 60.107 55.000 0.00 0.00 0.00 5.34
838 2637 2.704572 AGCATAGCTCAAGTGTTCCAC 58.295 47.619 0.00 0.00 30.62 4.02
860 2659 2.550830 TCTCCAGGTCAGTGCTTTTC 57.449 50.000 0.00 0.00 0.00 2.29
862 2661 1.876156 CTCCAGGTCAGTGCTTTTCAC 59.124 52.381 0.00 0.00 45.98 3.18
1328 3313 2.775911 TGCCATGAAGGACAGAAGAG 57.224 50.000 0.00 0.00 41.22 2.85
1332 3317 3.859443 CCATGAAGGACAGAAGAGAGTG 58.141 50.000 0.00 0.00 41.22 3.51
1415 3400 1.755200 TTACCCAAGGGAAGCCTTCT 58.245 50.000 13.15 0.00 38.96 2.85
1422 3407 3.563043 CCAAGGGAAGCCTTCTGAAGAAT 60.563 47.826 18.68 3.91 33.01 2.40
1432 3417 5.047519 AGCCTTCTGAAGAATCATTTTGGTG 60.048 40.000 18.68 0.00 34.37 4.17
1729 3718 1.684450 ACCCAAAAATCGCGGACTTTT 59.316 42.857 6.13 7.67 0.00 2.27
1761 3750 2.731217 CTCTTTGGCCAAGAACAAACG 58.269 47.619 19.48 2.35 41.25 3.60
1984 4056 2.509166 TCATCGAGACTACCACTGGT 57.491 50.000 5.88 5.88 40.16 4.00
2023 4095 0.387929 AGAACGAACCGTCAGCAAGA 59.612 50.000 0.00 0.00 39.99 3.02
2178 4271 3.677121 CGCATAGCATCCAGATACTCAAC 59.323 47.826 0.00 0.00 0.00 3.18
2434 4553 2.052690 GTAGTCTGGCCGCTCTGGA 61.053 63.158 0.00 0.00 42.00 3.86
2456 4575 5.048573 GGAAAACCTACCGCTGAAATTGTTA 60.049 40.000 0.00 0.00 0.00 2.41
2515 4668 5.385198 AGTTCCACAAAAGTCCATGTGTAT 58.615 37.500 5.32 0.00 44.21 2.29
2516 4669 6.539173 AGTTCCACAAAAGTCCATGTGTATA 58.461 36.000 5.32 0.00 44.21 1.47
2517 4670 7.175104 AGTTCCACAAAAGTCCATGTGTATAT 58.825 34.615 5.32 0.00 44.21 0.86
2518 4671 8.325787 AGTTCCACAAAAGTCCATGTGTATATA 58.674 33.333 5.32 0.00 44.21 0.86
2550 4765 8.085909 TGAAATGTATGTAGATATGGTGTACCG 58.914 37.037 0.00 0.00 39.43 4.02
2555 4770 5.509716 TGTAGATATGGTGTACCGTTCAG 57.490 43.478 0.37 0.00 39.43 3.02
2562 4777 4.345859 TGGTGTACCGTTCAGAATTCTT 57.654 40.909 4.86 0.00 39.43 2.52
2594 4809 6.364701 TGTTCAAATTAGACTATGGATGGGG 58.635 40.000 0.00 0.00 0.00 4.96
2606 4821 1.447643 GATGGGGTCGAGGTGGATG 59.552 63.158 0.00 0.00 0.00 3.51
2719 4936 2.266554 CACAACACAAAACAACCGCAT 58.733 42.857 0.00 0.00 0.00 4.73
2723 4940 4.142359 ACAACACAAAACAACCGCATTCTA 60.142 37.500 0.00 0.00 0.00 2.10
2724 4941 4.846779 ACACAAAACAACCGCATTCTAT 57.153 36.364 0.00 0.00 0.00 1.98
2725 4942 5.195001 ACACAAAACAACCGCATTCTATT 57.805 34.783 0.00 0.00 0.00 1.73
2726 4943 5.219633 ACACAAAACAACCGCATTCTATTC 58.780 37.500 0.00 0.00 0.00 1.75
2727 4944 5.009610 ACACAAAACAACCGCATTCTATTCT 59.990 36.000 0.00 0.00 0.00 2.40
2728 4945 5.920273 CACAAAACAACCGCATTCTATTCTT 59.080 36.000 0.00 0.00 0.00 2.52
2729 4946 6.420604 CACAAAACAACCGCATTCTATTCTTT 59.579 34.615 0.00 0.00 0.00 2.52
2730 4947 6.420604 ACAAAACAACCGCATTCTATTCTTTG 59.579 34.615 0.00 0.00 0.00 2.77
2731 4948 5.705609 AACAACCGCATTCTATTCTTTGT 57.294 34.783 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
77 79 9.203421 GAAAATTACAATCAGGACCGAAAAATT 57.797 29.630 0.00 0.00 0.00 1.82
104 106 5.350633 CACAAAGAAACATCAGCCAAGAAA 58.649 37.500 0.00 0.00 0.00 2.52
142 144 5.895636 TGACAAAACTGAAAAGAGAGCAA 57.104 34.783 0.00 0.00 0.00 3.91
159 161 5.297527 AGTCACGTATACACCGATATGACAA 59.702 40.000 3.32 0.00 38.11 3.18
165 167 5.817296 ACTACAAGTCACGTATACACCGATA 59.183 40.000 3.32 0.00 0.00 2.92
271 2034 3.333680 ACCCTCTAACCATCCAACAACAT 59.666 43.478 0.00 0.00 0.00 2.71
272 2035 2.714250 ACCCTCTAACCATCCAACAACA 59.286 45.455 0.00 0.00 0.00 3.33
273 2036 3.244770 TGACCCTCTAACCATCCAACAAC 60.245 47.826 0.00 0.00 0.00 3.32
274 2037 2.983192 TGACCCTCTAACCATCCAACAA 59.017 45.455 0.00 0.00 0.00 2.83
275 2038 2.571653 CTGACCCTCTAACCATCCAACA 59.428 50.000 0.00 0.00 0.00 3.33
276 2039 2.572104 ACTGACCCTCTAACCATCCAAC 59.428 50.000 0.00 0.00 0.00 3.77
305 2068 6.270231 ACAAGACTTGAACCCTAGTAGAATGT 59.730 38.462 21.95 0.00 0.00 2.71
308 2071 6.522054 CAACAAGACTTGAACCCTAGTAGAA 58.478 40.000 21.95 0.00 0.00 2.10
309 2072 5.510861 GCAACAAGACTTGAACCCTAGTAGA 60.511 44.000 21.95 0.00 0.00 2.59
311 2074 4.347000 AGCAACAAGACTTGAACCCTAGTA 59.653 41.667 21.95 0.00 0.00 1.82
314 2077 3.740115 GAGCAACAAGACTTGAACCCTA 58.260 45.455 21.95 0.00 0.00 3.53
327 2090 1.741401 CCGAGGATGCGAGCAACAA 60.741 57.895 0.57 0.00 0.00 2.83
357 2143 1.672854 CGGGAACATCTCCGCCACTA 61.673 60.000 0.00 0.00 46.51 2.74
363 2149 1.226603 GTCGACGGGAACATCTCCG 60.227 63.158 0.00 0.00 46.51 4.63
393 2179 6.100004 ACATATCTCTTACAAAGTCACCGTG 58.900 40.000 0.00 0.00 0.00 4.94
399 2185 9.784680 TTAAGACGACATATCTCTTACAAAGTC 57.215 33.333 0.00 0.00 30.69 3.01
417 2204 5.977489 TCACCTTCAAGAGATTAAGACGA 57.023 39.130 0.00 0.00 0.00 4.20
425 2212 7.630005 ATCCTTATGATCACCTTCAAGAGAT 57.370 36.000 0.00 0.00 0.00 2.75
445 2232 3.393800 GCACACACGCATATCTTATCCT 58.606 45.455 0.00 0.00 0.00 3.24
448 2235 3.475566 AGGCACACACGCATATCTTAT 57.524 42.857 0.00 0.00 0.00 1.73
451 2238 1.066215 TGAAGGCACACACGCATATCT 60.066 47.619 0.00 0.00 0.00 1.98
467 2254 8.830915 ATGTCTATATACTCACCCCTATGAAG 57.169 38.462 0.00 0.00 0.00 3.02
470 2257 9.647918 ACATATGTCTATATACTCACCCCTATG 57.352 37.037 1.41 0.00 0.00 2.23
473 2260 9.702253 CTTACATATGTCTATATACTCACCCCT 57.298 37.037 12.68 0.00 0.00 4.79
474 2261 9.696572 TCTTACATATGTCTATATACTCACCCC 57.303 37.037 12.68 0.00 0.00 4.95
477 2264 9.923786 CGCTCTTACATATGTCTATATACTCAC 57.076 37.037 12.68 0.00 0.00 3.51
487 2274 3.126831 GCAAGCGCTCTTACATATGTCT 58.873 45.455 12.06 0.00 34.30 3.41
488 2275 2.097202 CGCAAGCGCTCTTACATATGTC 60.097 50.000 12.06 0.00 35.30 3.06
489 2276 1.860950 CGCAAGCGCTCTTACATATGT 59.139 47.619 12.06 13.93 35.30 2.29
492 2279 1.134367 AGACGCAAGCGCTCTTACATA 59.866 47.619 12.06 0.00 44.19 2.29
495 2282 1.009389 ACAGACGCAAGCGCTCTTAC 61.009 55.000 12.06 1.58 44.19 2.34
496 2283 0.524414 TACAGACGCAAGCGCTCTTA 59.476 50.000 12.06 8.75 44.19 2.10
497 2284 1.009389 GTACAGACGCAAGCGCTCTT 61.009 55.000 12.06 0.00 44.19 2.85
498 2285 1.444553 GTACAGACGCAAGCGCTCT 60.445 57.895 12.06 13.06 44.19 4.09
499 2286 1.444553 AGTACAGACGCAAGCGCTC 60.445 57.895 12.06 11.06 44.19 5.03
500 2287 1.734477 CAGTACAGACGCAAGCGCT 60.734 57.895 15.09 2.64 44.19 5.92
501 2288 2.022129 ACAGTACAGACGCAAGCGC 61.022 57.895 15.09 0.00 44.19 5.92
502 2289 0.939577 ACACAGTACAGACGCAAGCG 60.940 55.000 13.50 13.50 46.03 4.68
503 2290 1.217882 AACACAGTACAGACGCAAGC 58.782 50.000 0.00 0.00 45.62 4.01
505 2292 5.798015 TTTTTAACACAGTACAGACGCAA 57.202 34.783 0.00 0.00 0.00 4.85
707 2500 2.834549 ACGAGATCTGGGTTGAGTTGAT 59.165 45.455 9.72 0.00 0.00 2.57
1328 3313 3.600388 CTCCCATTGTTCAGTACCACTC 58.400 50.000 0.00 0.00 0.00 3.51
1332 3317 4.772886 ATACCTCCCATTGTTCAGTACC 57.227 45.455 0.00 0.00 0.00 3.34
1415 3400 5.505489 CGTCACACACCAAAATGATTCTTCA 60.505 40.000 0.00 0.00 36.00 3.02
1422 3407 1.674359 AGCGTCACACACCAAAATGA 58.326 45.000 0.00 0.00 0.00 2.57
1432 3417 1.705256 TGTATCGGAAAGCGTCACAC 58.295 50.000 0.00 0.00 0.00 3.82
1729 3718 1.819305 GCCAAAGAGCCTGGAAAGTCA 60.819 52.381 0.00 0.00 35.85 3.41
1761 3750 2.325082 ACATTCTGTGTTCGCCCGC 61.325 57.895 0.00 0.00 38.01 6.13
1984 4056 5.047566 TCTGTTTGGGTTGATTCTTCTCA 57.952 39.130 0.00 0.00 0.00 3.27
2060 4145 6.012745 ACTCCAACATAAGCTTCCAGATTTT 58.987 36.000 0.00 0.00 0.00 1.82
2178 4271 4.475944 CTGGAGGTCATTTGCTTTTAACG 58.524 43.478 0.00 0.00 0.00 3.18
2391 4496 6.476378 TGAAAGAGATTAGAAGTTCCCCTTG 58.524 40.000 0.00 0.00 32.03 3.61
2434 4553 4.929819 AACAATTTCAGCGGTAGGTTTT 57.070 36.364 0.00 0.00 0.00 2.43
2456 4575 6.240549 ACATTAGTGTATAGGAAGCAAGCT 57.759 37.500 0.00 0.00 36.63 3.74
2530 4683 6.973843 TGAACGGTACACCATATCTACATAC 58.026 40.000 0.00 0.00 35.14 2.39
2543 4758 8.025243 TCAATAAAGAATTCTGAACGGTACAC 57.975 34.615 9.17 0.00 0.00 2.90
2594 4809 3.753294 ATTATCACCATCCACCTCGAC 57.247 47.619 0.00 0.00 0.00 4.20
2606 4821 8.989980 GGCTAGTTAGACAAATGTATTATCACC 58.010 37.037 0.00 0.00 0.00 4.02
2658 4875 9.515020 CAAAAACTAGCTGATGTGAAAAACTAA 57.485 29.630 0.00 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.