Multiple sequence alignment - TraesCS2A01G348900

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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 TraesCS2A01G348900 chr2A 100.000 2856 0 0 1 2856 587749786 587752641 0.000000e+00 5275
1 TraesCS2A01G348900 chr2A 93.694 1237 34 12 996 2201 610710587 610711810 0.000000e+00 1812
2 TraesCS2A01G348900 chr2A 97.354 718 13 4 2140 2856 610711795 610712507 0.000000e+00 1216
3 TraesCS2A01G348900 chr2A 87.288 236 16 4 699 934 610710342 610710563 1.020000e-64 257
4 TraesCS2A01G348900 chr2A 92.105 114 8 1 403 515 610710118 610710231 2.950000e-35 159
5 TraesCS2A01G348900 chr2D 94.425 2296 73 22 582 2856 445395963 445398224 0.000000e+00 3480
6 TraesCS2A01G348900 chr2B 90.797 2521 132 47 407 2856 523759957 523762448 0.000000e+00 3278
7 TraesCS2A01G348900 chr2B 100.000 267 0 0 1 267 58077813 58078079 7.110000e-136 494
8 TraesCS2A01G348900 chr3B 100.000 269 0 0 1 269 452094681 452094413 5.500000e-137 497
9 TraesCS2A01G348900 chr3B 100.000 268 0 0 1 268 452096663 452096396 1.980000e-136 496
10 TraesCS2A01G348900 chr3B 100.000 268 0 0 1 268 452098646 452098379 1.980000e-136 496
11 TraesCS2A01G348900 chr3B 78.073 301 38 10 1194 1487 452907784 452907505 6.330000e-37 165
12 TraesCS2A01G348900 chr7B 100.000 268 0 0 1 268 712256061 712256328 1.980000e-136 496
13 TraesCS2A01G348900 chr7B 79.545 308 35 17 1186 1487 692827474 692827189 8.070000e-46 195
14 TraesCS2A01G348900 chr7B 78.571 308 38 17 1186 1487 226424494 226424209 8.130000e-41 178
15 TraesCS2A01G348900 chr7B 81.188 202 25 10 1292 1487 692796978 692796784 1.770000e-32 150
16 TraesCS2A01G348900 chr5B 100.000 268 0 0 1 268 142987747 142988014 1.980000e-136 496
17 TraesCS2A01G348900 chr5B 100.000 267 0 0 1 267 142989730 142989996 7.110000e-136 494
18 TraesCS2A01G348900 chr1B 99.627 268 1 0 1 268 286728345 286728078 9.200000e-135 490
19 TraesCS2A01G348900 chr1B 99.625 267 1 0 1 267 245287063 245286797 3.310000e-134 488
20 TraesCS2A01G348900 chr6A 80.727 550 88 14 972 1511 398253168 398253709 2.050000e-111 412
21 TraesCS2A01G348900 chr6B 81.296 540 66 27 997 1511 439022262 439021733 3.430000e-109 405
22 TraesCS2A01G348900 chr6B 90.323 93 7 2 1186 1278 317213282 317213372 1.390000e-23 121
23 TraesCS2A01G348900 chr6D 80.586 546 83 18 988 1514 277100778 277100237 1.590000e-107 399
24 TraesCS2A01G348900 chr7A 91.946 149 10 2 270 418 129261444 129261590 1.040000e-49 207
25 TraesCS2A01G348900 chr7A 93.525 139 9 0 270 408 492342977 492342839 1.040000e-49 207
26 TraesCS2A01G348900 chr7A 93.478 138 9 0 270 407 722444559 722444696 3.730000e-49 206
27 TraesCS2A01G348900 chr7A 92.701 137 10 0 270 406 51034204 51034068 6.240000e-47 198
28 TraesCS2A01G348900 chr7A 78.333 300 38 11 1194 1487 709417751 709417473 4.890000e-38 169
29 TraesCS2A01G348900 chr7A 90.323 93 7 2 1186 1278 17370095 17370005 1.390000e-23 121
30 TraesCS2A01G348900 chr3A 92.857 140 9 1 270 408 705945153 705945292 4.820000e-48 202
31 TraesCS2A01G348900 chr3A 77.670 309 40 10 1186 1487 617439709 617439423 8.190000e-36 161
32 TraesCS2A01G348900 chr5A 92.754 138 10 0 270 407 566193496 566193633 1.740000e-47 200
33 TraesCS2A01G348900 chr5A 92.701 137 10 0 270 406 654113028 654112892 6.240000e-47 198
34 TraesCS2A01G348900 chr5A 91.011 89 7 1 1190 1278 23904454 23904541 5.000000e-23 119
35 TraesCS2A01G348900 chr4A 91.608 143 11 1 270 412 682026745 682026604 2.240000e-46 196
36 TraesCS2A01G348900 chr1A 92.086 139 11 0 270 408 305006819 305006681 2.240000e-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 TraesCS2A01G348900 chr2A 587749786 587752641 2855 False 5275.000000 5275 100.00000 1 2856 1 chr2A.!!$F1 2855
1 TraesCS2A01G348900 chr2A 610710118 610712507 2389 False 861.000000 1812 92.61025 403 2856 4 chr2A.!!$F2 2453
2 TraesCS2A01G348900 chr2D 445395963 445398224 2261 False 3480.000000 3480 94.42500 582 2856 1 chr2D.!!$F1 2274
3 TraesCS2A01G348900 chr2B 523759957 523762448 2491 False 3278.000000 3278 90.79700 407 2856 1 chr2B.!!$F2 2449
4 TraesCS2A01G348900 chr3B 452094413 452098646 4233 True 496.333333 497 100.00000 1 269 3 chr3B.!!$R2 268
5 TraesCS2A01G348900 chr5B 142987747 142989996 2249 False 495.000000 496 100.00000 1 268 2 chr5B.!!$F1 267
6 TraesCS2A01G348900 chr6A 398253168 398253709 541 False 412.000000 412 80.72700 972 1511 1 chr6A.!!$F1 539
7 TraesCS2A01G348900 chr6B 439021733 439022262 529 True 405.000000 405 81.29600 997 1511 1 chr6B.!!$R1 514
8 TraesCS2A01G348900 chr6D 277100237 277100778 541 True 399.000000 399 80.58600 988 1514 1 chr6D.!!$R1 526

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
722 4702 1.075836 CCCCGTCCACCCAAAATCA 59.924 57.895 0.0 0.0 0.00 2.57 F
1526 5961 0.322906 AAGGCAAGGAGCTAGGCAAC 60.323 55.000 0.0 0.0 44.79 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1586 6027 0.032540 CCCTTCTGCAACAGCAAACC 59.967 55.0 0.00 0.00 37.91 3.27 R
2383 7325 0.103937 ACTGCAATCTAGCGAGCTCC 59.896 55.0 8.47 0.68 37.31 4.70 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
269 4235 3.717707 GCTAGTCCGTGCTTCATCAATA 58.282 45.455 0.00 0.00 0.00 1.90
270 4236 4.119862 GCTAGTCCGTGCTTCATCAATAA 58.880 43.478 0.00 0.00 0.00 1.40
271 4237 4.570772 GCTAGTCCGTGCTTCATCAATAAA 59.429 41.667 0.00 0.00 0.00 1.40
272 4238 5.064707 GCTAGTCCGTGCTTCATCAATAAAA 59.935 40.000 0.00 0.00 0.00 1.52
273 4239 5.957842 AGTCCGTGCTTCATCAATAAAAA 57.042 34.783 0.00 0.00 0.00 1.94
274 4240 6.515272 AGTCCGTGCTTCATCAATAAAAAT 57.485 33.333 0.00 0.00 0.00 1.82
275 4241 7.624360 AGTCCGTGCTTCATCAATAAAAATA 57.376 32.000 0.00 0.00 0.00 1.40
276 4242 8.225603 AGTCCGTGCTTCATCAATAAAAATAT 57.774 30.769 0.00 0.00 0.00 1.28
277 4243 9.337396 AGTCCGTGCTTCATCAATAAAAATATA 57.663 29.630 0.00 0.00 0.00 0.86
311 4277 7.150783 ACTTCAGATGCTCTATTTTCAAACC 57.849 36.000 0.00 0.00 0.00 3.27
312 4278 5.801350 TCAGATGCTCTATTTTCAAACCG 57.199 39.130 0.00 0.00 0.00 4.44
313 4279 5.245531 TCAGATGCTCTATTTTCAAACCGT 58.754 37.500 0.00 0.00 0.00 4.83
314 4280 6.403049 TCAGATGCTCTATTTTCAAACCGTA 58.597 36.000 0.00 0.00 0.00 4.02
315 4281 7.047891 TCAGATGCTCTATTTTCAAACCGTAT 58.952 34.615 0.00 0.00 0.00 3.06
316 4282 8.201464 TCAGATGCTCTATTTTCAAACCGTATA 58.799 33.333 0.00 0.00 0.00 1.47
317 4283 8.826710 CAGATGCTCTATTTTCAAACCGTATAA 58.173 33.333 0.00 0.00 0.00 0.98
318 4284 9.561069 AGATGCTCTATTTTCAAACCGTATAAT 57.439 29.630 0.00 0.00 0.00 1.28
366 4332 7.881775 AAGGTGATAAAATTAGCAACCTAGG 57.118 36.000 7.41 7.41 37.46 3.02
367 4333 6.970191 AGGTGATAAAATTAGCAACCTAGGT 58.030 36.000 9.21 9.21 37.46 3.08
368 4334 8.097791 AGGTGATAAAATTAGCAACCTAGGTA 57.902 34.615 16.67 0.00 37.46 3.08
369 4335 8.724310 AGGTGATAAAATTAGCAACCTAGGTAT 58.276 33.333 16.67 7.15 37.46 2.73
372 4338 9.701098 TGATAAAATTAGCAACCTAGGTATACG 57.299 33.333 16.67 5.52 0.00 3.06
373 4339 6.856135 AAAATTAGCAACCTAGGTATACGC 57.144 37.500 16.67 15.34 0.00 4.42
374 4340 5.540400 AATTAGCAACCTAGGTATACGCA 57.460 39.130 16.67 1.75 0.00 5.24
375 4341 5.740290 ATTAGCAACCTAGGTATACGCAT 57.260 39.130 16.67 8.35 0.00 4.73
376 4342 6.845758 ATTAGCAACCTAGGTATACGCATA 57.154 37.500 16.67 8.17 0.00 3.14
377 4343 6.653526 TTAGCAACCTAGGTATACGCATAA 57.346 37.500 16.67 12.13 0.00 1.90
378 4344 5.135508 AGCAACCTAGGTATACGCATAAG 57.864 43.478 16.67 0.00 0.00 1.73
379 4345 4.831155 AGCAACCTAGGTATACGCATAAGA 59.169 41.667 16.67 0.00 0.00 2.10
380 4346 5.480772 AGCAACCTAGGTATACGCATAAGAT 59.519 40.000 16.67 0.00 0.00 2.40
381 4347 6.014499 AGCAACCTAGGTATACGCATAAGATT 60.014 38.462 16.67 0.00 0.00 2.40
382 4348 6.649557 GCAACCTAGGTATACGCATAAGATTT 59.350 38.462 16.67 0.00 0.00 2.17
383 4349 7.816031 GCAACCTAGGTATACGCATAAGATTTA 59.184 37.037 16.67 0.00 0.00 1.40
384 4350 9.871238 CAACCTAGGTATACGCATAAGATTTAT 57.129 33.333 16.67 0.00 0.00 1.40
396 4362 9.445786 ACGCATAAGATTTATAAATTGAAACGG 57.554 29.630 11.92 3.85 0.00 4.44
397 4363 9.658475 CGCATAAGATTTATAAATTGAAACGGA 57.342 29.630 11.92 0.00 0.00 4.69
416 4382 3.132925 GGAGGTAGTACTACGAGAGCAG 58.867 54.545 23.40 0.00 36.94 4.24
420 4386 2.783609 AGTACTACGAGAGCAGACCA 57.216 50.000 0.00 0.00 0.00 4.02
440 4406 3.930229 CCAACCAGTCGATTATCACGAAA 59.070 43.478 0.00 0.00 41.31 3.46
506 4473 2.203972 TTAGCGTCTCCCCGTTCGTG 62.204 60.000 0.00 0.00 0.00 4.35
651 4630 2.569354 GCCACCGCACAATTTCCCA 61.569 57.895 0.00 0.00 34.03 4.37
652 4631 2.045280 CCACCGCACAATTTCCCAA 58.955 52.632 0.00 0.00 0.00 4.12
722 4702 1.075836 CCCCGTCCACCCAAAATCA 59.924 57.895 0.00 0.00 0.00 2.57
725 4705 1.899142 CCCGTCCACCCAAAATCAAAT 59.101 47.619 0.00 0.00 0.00 2.32
726 4706 2.094234 CCCGTCCACCCAAAATCAAATC 60.094 50.000 0.00 0.00 0.00 2.17
727 4707 2.415357 CCGTCCACCCAAAATCAAATCG 60.415 50.000 0.00 0.00 0.00 3.34
728 4708 2.486203 CGTCCACCCAAAATCAAATCGA 59.514 45.455 0.00 0.00 0.00 3.59
729 4709 3.057876 CGTCCACCCAAAATCAAATCGAA 60.058 43.478 0.00 0.00 0.00 3.71
753 4733 1.373590 AATCAAATTCCCGGTCGCGG 61.374 55.000 6.13 0.00 0.00 6.46
798 4782 2.509336 CCGTCGCCTAACTGCAGG 60.509 66.667 19.93 1.24 38.86 4.85
899 4883 1.406860 GCCTCTCCACTCCCATCTCC 61.407 65.000 0.00 0.00 0.00 3.71
917 4902 2.169352 CTCCCATCATTTCTCGACCAGT 59.831 50.000 0.00 0.00 0.00 4.00
982 4967 2.483745 CGTAGAGCGAGCGACCAA 59.516 61.111 0.00 0.00 44.77 3.67
1056 5053 4.481617 ACGGTGGTGTGCTGTGCA 62.482 61.111 0.00 0.00 35.60 4.57
1516 5951 2.032528 CCAGCGACAAGGCAAGGA 59.967 61.111 0.00 0.00 33.70 3.36
1526 5961 0.322906 AAGGCAAGGAGCTAGGCAAC 60.323 55.000 0.00 0.00 44.79 4.17
1527 5962 1.002134 GGCAAGGAGCTAGGCAACA 60.002 57.895 0.00 0.00 44.79 3.33
1528 5963 0.609131 GGCAAGGAGCTAGGCAACAA 60.609 55.000 0.00 0.00 44.79 2.83
1538 5973 1.802365 CTAGGCAACAAACCACGTACC 59.198 52.381 0.00 0.00 41.41 3.34
1585 6026 3.238108 ACATCTCAACGTGTCTCCATC 57.762 47.619 0.00 0.00 0.00 3.51
1586 6027 2.188524 CATCTCAACGTGTCTCCATCG 58.811 52.381 0.00 0.00 0.00 3.84
1805 6662 1.229209 AAGAAGGCGAGGGTGGAGA 60.229 57.895 0.00 0.00 0.00 3.71
1885 6747 9.742144 ATCTGAACTGAATATATAGGTCGTACT 57.258 33.333 0.00 0.00 33.33 2.73
2172 7069 1.541147 GCATGCTTGAACTACAGCCAA 59.459 47.619 11.37 0.00 0.00 4.52
2173 7070 2.165030 GCATGCTTGAACTACAGCCAAT 59.835 45.455 11.37 0.00 0.00 3.16
2174 7071 3.378112 GCATGCTTGAACTACAGCCAATA 59.622 43.478 11.37 0.00 0.00 1.90
2175 7072 4.037208 GCATGCTTGAACTACAGCCAATAT 59.963 41.667 11.37 0.00 0.00 1.28
2214 7155 0.184451 ACAGCAGCCTGGGATAATGG 59.816 55.000 0.00 0.00 43.53 3.16
2256 7198 8.791327 AATGAACAAAAAGGAAATCAACAAGT 57.209 26.923 0.00 0.00 0.00 3.16
2257 7199 9.883142 AATGAACAAAAAGGAAATCAACAAGTA 57.117 25.926 0.00 0.00 0.00 2.24
2341 7283 2.675844 TCATGTAAGCACGCACCATAAC 59.324 45.455 0.00 0.00 0.00 1.89
2383 7325 8.124823 CAGGTTACTAATTATGCAACATCACAG 58.875 37.037 0.00 0.00 0.00 3.66
2723 7756 2.011947 CGCAGATGCTCCTCAAAATCA 58.988 47.619 2.95 0.00 39.32 2.57
2783 7816 5.087323 TCCAGCCTATCTAGATACAAAGGG 58.913 45.833 17.38 13.53 0.00 3.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
340 4306 9.403583 CCTAGGTTGCTAATTTTATCACCTTAA 57.596 33.333 0.00 0.00 0.00 1.85
341 4307 8.554011 ACCTAGGTTGCTAATTTTATCACCTTA 58.446 33.333 9.21 0.00 0.00 2.69
342 4308 7.410991 ACCTAGGTTGCTAATTTTATCACCTT 58.589 34.615 9.21 0.00 0.00 3.50
343 4309 6.970191 ACCTAGGTTGCTAATTTTATCACCT 58.030 36.000 9.21 0.00 0.00 4.00
344 4310 8.919777 ATACCTAGGTTGCTAATTTTATCACC 57.080 34.615 22.11 0.00 0.00 4.02
346 4312 9.701098 CGTATACCTAGGTTGCTAATTTTATCA 57.299 33.333 22.11 0.00 0.00 2.15
347 4313 8.654215 GCGTATACCTAGGTTGCTAATTTTATC 58.346 37.037 22.11 0.00 0.00 1.75
348 4314 8.152246 TGCGTATACCTAGGTTGCTAATTTTAT 58.848 33.333 22.11 5.71 0.00 1.40
349 4315 7.499292 TGCGTATACCTAGGTTGCTAATTTTA 58.501 34.615 22.11 0.00 0.00 1.52
350 4316 6.350906 TGCGTATACCTAGGTTGCTAATTTT 58.649 36.000 22.11 0.00 0.00 1.82
351 4317 5.920903 TGCGTATACCTAGGTTGCTAATTT 58.079 37.500 22.11 0.00 0.00 1.82
352 4318 5.540400 TGCGTATACCTAGGTTGCTAATT 57.460 39.130 22.11 0.00 0.00 1.40
353 4319 5.740290 ATGCGTATACCTAGGTTGCTAAT 57.260 39.130 22.11 9.64 0.00 1.73
354 4320 6.491062 TCTTATGCGTATACCTAGGTTGCTAA 59.509 38.462 22.11 15.71 0.00 3.09
355 4321 6.005823 TCTTATGCGTATACCTAGGTTGCTA 58.994 40.000 22.11 1.21 0.00 3.49
356 4322 4.831155 TCTTATGCGTATACCTAGGTTGCT 59.169 41.667 22.11 8.13 0.00 3.91
357 4323 5.130292 TCTTATGCGTATACCTAGGTTGC 57.870 43.478 22.11 18.70 0.00 4.17
358 4324 9.871238 ATAAATCTTATGCGTATACCTAGGTTG 57.129 33.333 22.11 9.15 0.00 3.77
370 4336 9.445786 CCGTTTCAATTTATAAATCTTATGCGT 57.554 29.630 11.08 0.00 0.00 5.24
371 4337 9.658475 TCCGTTTCAATTTATAAATCTTATGCG 57.342 29.630 11.08 11.00 0.00 4.73
377 4343 9.901172 ACTACCTCCGTTTCAATTTATAAATCT 57.099 29.630 11.08 0.04 0.00 2.40
383 4349 7.917505 CGTAGTACTACCTCCGTTTCAATTTAT 59.082 37.037 24.06 0.00 32.61 1.40
384 4350 7.120579 TCGTAGTACTACCTCCGTTTCAATTTA 59.879 37.037 24.06 0.00 32.61 1.40
385 4351 6.071952 TCGTAGTACTACCTCCGTTTCAATTT 60.072 38.462 24.06 0.00 32.61 1.82
386 4352 5.415701 TCGTAGTACTACCTCCGTTTCAATT 59.584 40.000 24.06 0.00 32.61 2.32
387 4353 4.943705 TCGTAGTACTACCTCCGTTTCAAT 59.056 41.667 24.06 0.00 32.61 2.57
388 4354 4.323417 TCGTAGTACTACCTCCGTTTCAA 58.677 43.478 24.06 0.00 32.61 2.69
389 4355 3.935203 CTCGTAGTACTACCTCCGTTTCA 59.065 47.826 24.06 0.00 32.61 2.69
390 4356 4.184629 TCTCGTAGTACTACCTCCGTTTC 58.815 47.826 24.06 0.00 32.61 2.78
391 4357 4.187694 CTCTCGTAGTACTACCTCCGTTT 58.812 47.826 24.06 0.00 32.61 3.60
392 4358 3.791245 CTCTCGTAGTACTACCTCCGTT 58.209 50.000 24.06 0.00 32.61 4.44
393 4359 2.482839 GCTCTCGTAGTACTACCTCCGT 60.483 54.545 24.06 0.00 32.61 4.69
394 4360 2.134346 GCTCTCGTAGTACTACCTCCG 58.866 57.143 24.06 14.36 32.61 4.63
395 4361 3.132925 CTGCTCTCGTAGTACTACCTCC 58.867 54.545 24.06 10.84 32.61 4.30
396 4362 3.803778 GTCTGCTCTCGTAGTACTACCTC 59.196 52.174 24.06 11.11 32.61 3.85
397 4363 3.432046 GGTCTGCTCTCGTAGTACTACCT 60.432 52.174 24.06 0.00 32.61 3.08
398 4364 2.871633 GGTCTGCTCTCGTAGTACTACC 59.128 54.545 24.06 12.16 32.61 3.18
399 4365 3.529533 TGGTCTGCTCTCGTAGTACTAC 58.470 50.000 21.06 21.06 0.00 2.73
400 4366 3.900966 TGGTCTGCTCTCGTAGTACTA 57.099 47.619 0.00 0.00 0.00 1.82
401 4367 2.748532 GTTGGTCTGCTCTCGTAGTACT 59.251 50.000 0.00 0.00 0.00 2.73
405 4371 0.888619 TGGTTGGTCTGCTCTCGTAG 59.111 55.000 0.00 0.00 0.00 3.51
416 4382 2.858344 CGTGATAATCGACTGGTTGGTC 59.142 50.000 0.00 0.00 0.00 4.02
420 4386 4.817517 ACTTTCGTGATAATCGACTGGTT 58.182 39.130 0.00 0.00 37.05 3.67
440 4406 3.502211 GTGTAATTGCTTGCTGTGGTACT 59.498 43.478 0.00 0.00 0.00 2.73
589 4568 2.631428 CAGTTGTCACGTTGCGGG 59.369 61.111 0.00 0.00 0.00 6.13
632 4611 2.126502 GGAAATTGTGCGGTGGCG 60.127 61.111 0.00 0.00 44.10 5.69
651 4630 1.004918 CTCGCGGGAACTGAAGGTT 60.005 57.895 0.00 0.00 41.40 3.50
652 4631 1.258445 ATCTCGCGGGAACTGAAGGT 61.258 55.000 15.24 0.00 36.31 3.50
722 4702 5.178061 GGGAATTTGATTTGGCTTCGATTT 58.822 37.500 0.00 0.00 0.00 2.17
725 4705 2.163412 CGGGAATTTGATTTGGCTTCGA 59.837 45.455 0.00 0.00 0.00 3.71
726 4706 2.529151 CGGGAATTTGATTTGGCTTCG 58.471 47.619 0.00 0.00 0.00 3.79
727 4707 2.233676 ACCGGGAATTTGATTTGGCTTC 59.766 45.455 6.32 0.00 0.00 3.86
728 4708 2.233676 GACCGGGAATTTGATTTGGCTT 59.766 45.455 6.32 0.00 0.00 4.35
729 4709 1.824852 GACCGGGAATTTGATTTGGCT 59.175 47.619 6.32 0.00 0.00 4.75
753 4733 1.882167 GATGAGCAGTGCCTCTCGC 60.882 63.158 12.58 0.00 38.31 5.03
793 4777 3.071206 GACGAGAGAGGCCCTGCA 61.071 66.667 0.00 0.00 0.00 4.41
798 4782 2.574399 GTGTGGACGAGAGAGGCC 59.426 66.667 0.00 0.00 0.00 5.19
899 4883 3.126831 GCTACTGGTCGAGAAATGATGG 58.873 50.000 0.00 0.00 0.00 3.51
917 4902 2.277949 GCGTGCGTCGATCAGCTA 60.278 61.111 0.00 0.00 42.86 3.32
951 4936 1.065600 CTACGGCTCAGCTCAGCTC 59.934 63.158 10.24 0.00 36.40 4.09
952 4937 1.379176 TCTACGGCTCAGCTCAGCT 60.379 57.895 10.24 0.00 40.77 4.24
954 4939 1.065600 GCTCTACGGCTCAGCTCAG 59.934 63.158 0.00 0.00 0.00 3.35
955 4940 2.765356 CGCTCTACGGCTCAGCTCA 61.765 63.158 0.00 0.00 38.44 4.26
965 4950 1.134530 CTTTGGTCGCTCGCTCTACG 61.135 60.000 0.00 0.00 45.62 3.51
982 4967 0.407139 ATGCCTTCACTTCCTGGCTT 59.593 50.000 0.00 0.00 45.11 4.35
1230 5239 1.506718 GATGGAGTCGTCGCAGTCA 59.493 57.895 0.00 0.00 0.00 3.41
1516 5951 0.179029 ACGTGGTTTGTTGCCTAGCT 60.179 50.000 0.00 0.00 0.00 3.32
1526 5961 2.132762 GAGACAGTGGTACGTGGTTTG 58.867 52.381 0.00 0.00 0.00 2.93
1527 5962 1.069668 GGAGACAGTGGTACGTGGTTT 59.930 52.381 0.00 0.00 0.00 3.27
1528 5963 0.677842 GGAGACAGTGGTACGTGGTT 59.322 55.000 0.00 0.00 0.00 3.67
1538 5973 1.686052 GGAGATAGCAGGGAGACAGTG 59.314 57.143 0.00 0.00 0.00 3.66
1585 6026 0.318107 CCTTCTGCAACAGCAAACCG 60.318 55.000 0.00 0.00 37.91 4.44
1586 6027 0.032540 CCCTTCTGCAACAGCAAACC 59.967 55.000 0.00 0.00 37.91 3.27
1805 6662 4.471726 GTCGTCGTCGTCGGGCAT 62.472 66.667 11.74 0.00 38.33 4.40
2172 7069 6.040054 TGTGCACGGTGATTACAGTACTATAT 59.960 38.462 13.29 0.00 33.35 0.86
2173 7070 5.357596 TGTGCACGGTGATTACAGTACTATA 59.642 40.000 13.29 0.00 33.35 1.31
2174 7071 4.158949 TGTGCACGGTGATTACAGTACTAT 59.841 41.667 13.29 0.00 33.35 2.12
2175 7072 3.506844 TGTGCACGGTGATTACAGTACTA 59.493 43.478 13.29 0.00 33.35 1.82
2204 7145 4.473196 TGTTGTAGAAGAGCCATTATCCCA 59.527 41.667 0.00 0.00 0.00 4.37
2214 7155 6.902341 TGTTCATTCATTGTTGTAGAAGAGC 58.098 36.000 0.00 0.00 0.00 4.09
2256 7198 4.999310 AGCAGTAGCCATCCTATGTAGTA 58.001 43.478 0.00 0.00 43.56 1.82
2257 7199 3.850752 AGCAGTAGCCATCCTATGTAGT 58.149 45.455 0.00 0.00 43.56 2.73
2341 7283 7.251704 AGTAACCTGAAATATCGCAATCAAG 57.748 36.000 0.00 0.00 0.00 3.02
2383 7325 0.103937 ACTGCAATCTAGCGAGCTCC 59.896 55.000 8.47 0.68 37.31 4.70
2521 7464 6.243811 AGCCAAACATTTATGTGCAATTTG 57.756 33.333 0.00 0.00 41.61 2.32
2525 7468 5.973899 TCTAGCCAAACATTTATGTGCAA 57.026 34.783 0.00 0.00 41.61 4.08
2723 7756 8.834465 CCAGAAAAAGTCGATAATGAATCAGAT 58.166 33.333 0.00 0.00 33.87 2.90


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

AutoCloner maintained by Alex Coulton.