Multiple sequence alignment - TraesCS6B01G145000

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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 TraesCS6B01G145000 chr6B 100.000 4846 0 0 1 4846 144954484 144959329 0.000000e+00 8949.0
1 TraesCS6B01G145000 chr4A 99.650 3715 13 0 634 4348 583958291 583954577 0.000000e+00 6789.0
2 TraesCS6B01G145000 chr4A 99.720 2143 6 0 2206 4348 583960985 583958843 0.000000e+00 3925.0
3 TraesCS6B01G145000 chr4A 99.145 117 1 0 96 212 583963061 583962945 1.370000e-50 211.0
4 TraesCS6B01G145000 chr4A 96.875 32 1 0 708 739 583958324 583958293 2.000000e-03 54.7
5 TraesCS6B01G145000 chr2A 94.788 4298 168 25 94 4351 468301457 468297176 0.000000e+00 6645.0
6 TraesCS6B01G145000 chr2D 96.365 4017 112 9 82 4086 465150253 465154247 0.000000e+00 6578.0
7 TraesCS6B01G145000 chr2D 96.604 265 8 1 4085 4348 465154329 465154593 5.760000e-119 438.0
8 TraesCS6B01G145000 chr2D 93.878 196 7 2 4349 4544 521821917 521821727 1.710000e-74 291.0
9 TraesCS6B01G145000 chr2D 89.437 142 12 2 4623 4764 297600336 297600198 4.980000e-40 176.0
10 TraesCS6B01G145000 chr2D 94.030 67 4 0 30 96 613874252 613874318 8.580000e-18 102.0
11 TraesCS6B01G145000 chr2D 92.537 67 5 0 30 96 521821980 521821914 3.990000e-16 97.1
12 TraesCS6B01G145000 chr7A 99.763 2948 7 0 93 3040 577208611 577211558 0.000000e+00 5406.0
13 TraesCS6B01G145000 chr7A 97.092 2098 50 5 899 2989 654303679 654305772 0.000000e+00 3526.0
14 TraesCS6B01G145000 chr7A 99.829 1173 2 0 3183 4355 577211950 577213122 0.000000e+00 2156.0
15 TraesCS6B01G145000 chr7A 90.453 817 57 8 94 899 654302831 654303637 0.000000e+00 1057.0
16 TraesCS6B01G145000 chr6A 94.549 3467 164 13 897 4348 137335703 137339159 0.000000e+00 5332.0
17 TraesCS6B01G145000 chr6A 96.759 2098 56 4 899 2989 201757241 201759333 0.000000e+00 3487.0
18 TraesCS6B01G145000 chr6A 94.349 1628 80 10 2466 4086 577735415 577737037 0.000000e+00 2486.0
19 TraesCS6B01G145000 chr6A 95.700 1186 43 5 3167 4348 201759413 201760594 0.000000e+00 1901.0
20 TraesCS6B01G145000 chr6A 91.902 815 45 8 96 899 201756395 201757199 0.000000e+00 1120.0
21 TraesCS6B01G145000 chr6A 90.763 498 14 8 4349 4846 87753480 87753945 1.900000e-178 636.0
22 TraesCS6B01G145000 chr6A 78.044 501 67 25 98 565 137334891 137335381 4.780000e-70 276.0
23 TraesCS6B01G145000 chr6A 98.864 88 1 0 3020 3107 201759331 201759418 1.810000e-34 158.0
24 TraesCS6B01G145000 chr6A 95.833 96 4 0 1 96 87753388 87753483 6.490000e-34 156.0
25 TraesCS6B01G145000 chr2B 94.212 3473 172 19 897 4351 289896411 289892950 0.000000e+00 5273.0
26 TraesCS6B01G145000 chr2B 92.537 67 5 0 30 96 763203970 763203904 3.990000e-16 97.1
27 TraesCS6B01G145000 chr3D 96.456 1834 53 4 1307 3131 18300171 18302001 0.000000e+00 3016.0
28 TraesCS6B01G145000 chrUn 100.000 1561 0 0 208 1768 389146193 389147753 0.000000e+00 2883.0
29 TraesCS6B01G145000 chr6D 94.980 498 9 3 4349 4846 69940235 69940716 0.000000e+00 767.0
30 TraesCS6B01G145000 chr6D 92.857 196 9 2 4349 4544 68664495 68664685 3.690000e-71 279.0
31 TraesCS6B01G145000 chr6D 92.784 194 9 2 4349 4542 409263656 409263844 4.780000e-70 276.0
32 TraesCS6B01G145000 chr6D 92.347 196 10 2 4349 4544 10821592 10821402 1.720000e-69 274.0
33 TraesCS6B01G145000 chr6D 92.537 67 5 0 30 96 10821655 10821589 3.990000e-16 97.1
34 TraesCS6B01G145000 chr5D 92.347 196 10 2 4349 4544 62116299 62116109 1.720000e-69 274.0
35 TraesCS6B01G145000 chr5D 93.243 74 4 1 30 103 62116362 62116290 1.840000e-19 108.0
36 TraesCS6B01G145000 chr3A 92.347 196 10 2 4349 4544 467752975 467752785 1.720000e-69 274.0
37 TraesCS6B01G145000 chr1B 92.347 196 10 2 4349 4544 668456280 668456470 1.720000e-69 274.0
38 TraesCS6B01G145000 chr1B 85.294 68 8 2 36 103 123148830 123148895 8.700000e-08 69.4
39 TraesCS6B01G145000 chr1B 90.196 51 5 0 46 96 123078006 123078056 3.130000e-07 67.6
40 TraesCS6B01G145000 chr7B 91.837 196 12 2 4349 4544 636367017 636367208 2.220000e-68 270.0
41 TraesCS6B01G145000 chr7D 76.673 493 73 29 98 565 81373608 81373133 8.110000e-58 235.0
42 TraesCS6B01G145000 chr7D 76.411 496 69 30 98 565 81228364 81228839 1.760000e-54 224.0


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 TraesCS6B01G145000 chr6B 144954484 144959329 4845 False 8949.000 8949 100.00000 1 4846 1 chr6B.!!$F1 4845
1 TraesCS6B01G145000 chr4A 583954577 583963061 8484 True 2744.925 6789 98.84750 96 4348 4 chr4A.!!$R1 4252
2 TraesCS6B01G145000 chr2A 468297176 468301457 4281 True 6645.000 6645 94.78800 94 4351 1 chr2A.!!$R1 4257
3 TraesCS6B01G145000 chr2D 465150253 465154593 4340 False 3508.000 6578 96.48450 82 4348 2 chr2D.!!$F2 4266
4 TraesCS6B01G145000 chr7A 577208611 577213122 4511 False 3781.000 5406 99.79600 93 4355 2 chr7A.!!$F1 4262
5 TraesCS6B01G145000 chr7A 654302831 654305772 2941 False 2291.500 3526 93.77250 94 2989 2 chr7A.!!$F2 2895
6 TraesCS6B01G145000 chr6A 137334891 137339159 4268 False 2804.000 5332 86.29650 98 4348 2 chr6A.!!$F3 4250
7 TraesCS6B01G145000 chr6A 577735415 577737037 1622 False 2486.000 2486 94.34900 2466 4086 1 chr6A.!!$F1 1620
8 TraesCS6B01G145000 chr6A 201756395 201760594 4199 False 1666.500 3487 95.80625 96 4348 4 chr6A.!!$F4 4252
9 TraesCS6B01G145000 chr6A 87753388 87753945 557 False 396.000 636 93.29800 1 4846 2 chr6A.!!$F2 4845
10 TraesCS6B01G145000 chr2B 289892950 289896411 3461 True 5273.000 5273 94.21200 897 4351 1 chr2B.!!$R1 3454
11 TraesCS6B01G145000 chr3D 18300171 18302001 1830 False 3016.000 3016 96.45600 1307 3131 1 chr3D.!!$F1 1824
12 TraesCS6B01G145000 chrUn 389146193 389147753 1560 False 2883.000 2883 100.00000 208 1768 1 chrUn.!!$F1 1560

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
56 57 1.334243 CTCGTGCTAGTAGTGGTAGCC 59.666 57.143 0.0 0.0 42.00 3.93 F
1935 6698 5.680594 AATTTTATTTGGCTGATGCTGGA 57.319 34.783 0.0 0.0 39.59 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
3181 7966 6.618287 TTGTTTGAGTAGTCTGGTCAATTG 57.382 37.5 0.00 0.0 30.5 2.32 R
4377 9495 0.109597 CGCCTGATTCAGCCAACAAC 60.110 55.0 8.23 0.0 0.0 3.32 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
56 57 1.334243 CTCGTGCTAGTAGTGGTAGCC 59.666 57.143 0.00 0.00 42.00 3.93
1935 6698 5.680594 AATTTTATTTGGCTGATGCTGGA 57.319 34.783 0.00 0.00 39.59 3.86
3820 8851 1.659098 CAAGTACGACGGCAAAGATCC 59.341 52.381 0.00 0.00 0.00 3.36
4355 9473 0.549950 CCAATCAGCCTCCATGTCCT 59.450 55.000 0.00 0.00 0.00 3.85
4356 9474 1.676746 CAATCAGCCTCCATGTCCTG 58.323 55.000 0.00 0.00 0.00 3.86
4357 9475 1.211212 CAATCAGCCTCCATGTCCTGA 59.789 52.381 0.00 0.00 38.54 3.86
4358 9476 1.588239 ATCAGCCTCCATGTCCTGAA 58.412 50.000 6.11 0.00 37.80 3.02
4359 9477 1.361204 TCAGCCTCCATGTCCTGAAA 58.639 50.000 0.00 0.00 31.90 2.69
4360 9478 1.704628 TCAGCCTCCATGTCCTGAAAA 59.295 47.619 0.00 0.00 31.90 2.29
4361 9479 2.108075 TCAGCCTCCATGTCCTGAAAAA 59.892 45.455 0.00 0.00 31.90 1.94
4362 9480 2.490903 CAGCCTCCATGTCCTGAAAAAG 59.509 50.000 0.00 0.00 0.00 2.27
4363 9481 2.376518 AGCCTCCATGTCCTGAAAAAGA 59.623 45.455 0.00 0.00 0.00 2.52
4364 9482 2.489722 GCCTCCATGTCCTGAAAAAGAC 59.510 50.000 0.00 0.00 0.00 3.01
4365 9483 2.744202 CCTCCATGTCCTGAAAAAGACG 59.256 50.000 0.00 0.00 35.71 4.18
4366 9484 3.403038 CTCCATGTCCTGAAAAAGACGT 58.597 45.455 0.00 0.00 35.71 4.34
4367 9485 3.399330 TCCATGTCCTGAAAAAGACGTC 58.601 45.455 7.70 7.70 35.71 4.34
4368 9486 3.071023 TCCATGTCCTGAAAAAGACGTCT 59.929 43.478 13.58 13.58 35.71 4.18
4369 9487 3.815401 CCATGTCCTGAAAAAGACGTCTT 59.185 43.478 24.93 24.93 35.71 3.01
4370 9488 4.083802 CCATGTCCTGAAAAAGACGTCTTC 60.084 45.833 29.82 18.73 35.71 2.87
4371 9489 4.402056 TGTCCTGAAAAAGACGTCTTCT 57.598 40.909 29.82 20.07 35.71 2.85
4373 9491 5.909477 TGTCCTGAAAAAGACGTCTTCTTA 58.091 37.500 29.82 15.93 44.41 2.10
4374 9492 6.522054 TGTCCTGAAAAAGACGTCTTCTTAT 58.478 36.000 29.82 16.35 44.41 1.73
4375 9493 6.990349 TGTCCTGAAAAAGACGTCTTCTTATT 59.010 34.615 29.82 20.93 44.41 1.40
4376 9494 7.042051 TGTCCTGAAAAAGACGTCTTCTTATTG 60.042 37.037 29.82 17.25 44.41 1.90
4377 9495 6.426937 TCCTGAAAAAGACGTCTTCTTATTGG 59.573 38.462 29.82 24.06 44.41 3.16
4378 9496 6.204882 CCTGAAAAAGACGTCTTCTTATTGGT 59.795 38.462 29.82 10.05 44.41 3.67
4379 9497 7.255139 CCTGAAAAAGACGTCTTCTTATTGGTT 60.255 37.037 29.82 15.40 44.41 3.67
4380 9498 7.414436 TGAAAAAGACGTCTTCTTATTGGTTG 58.586 34.615 29.82 0.00 44.41 3.77
4381 9499 6.937436 AAAAGACGTCTTCTTATTGGTTGT 57.063 33.333 29.82 8.03 44.41 3.32
4382 9500 6.937436 AAAGACGTCTTCTTATTGGTTGTT 57.063 33.333 29.82 7.82 44.41 2.83
4383 9501 5.924475 AGACGTCTTCTTATTGGTTGTTG 57.076 39.130 13.58 0.00 0.00 3.33
4384 9502 4.755123 AGACGTCTTCTTATTGGTTGTTGG 59.245 41.667 13.58 0.00 0.00 3.77
4385 9503 3.252458 ACGTCTTCTTATTGGTTGTTGGC 59.748 43.478 0.00 0.00 0.00 4.52
4386 9504 3.502211 CGTCTTCTTATTGGTTGTTGGCT 59.498 43.478 0.00 0.00 0.00 4.75
4387 9505 4.613622 CGTCTTCTTATTGGTTGTTGGCTG 60.614 45.833 0.00 0.00 0.00 4.85
4388 9506 4.518970 GTCTTCTTATTGGTTGTTGGCTGA 59.481 41.667 0.00 0.00 0.00 4.26
4389 9507 5.009610 GTCTTCTTATTGGTTGTTGGCTGAA 59.990 40.000 0.00 0.00 0.00 3.02
4390 9508 5.774690 TCTTCTTATTGGTTGTTGGCTGAAT 59.225 36.000 0.00 0.00 0.00 2.57
4391 9509 5.643379 TCTTATTGGTTGTTGGCTGAATC 57.357 39.130 0.00 0.00 0.00 2.52
4392 9510 5.076182 TCTTATTGGTTGTTGGCTGAATCA 58.924 37.500 0.00 0.00 0.00 2.57
4393 9511 3.947910 ATTGGTTGTTGGCTGAATCAG 57.052 42.857 5.78 5.78 34.12 2.90
4394 9512 1.619654 TGGTTGTTGGCTGAATCAGG 58.380 50.000 12.66 0.00 31.21 3.86
4403 9521 3.615849 GGCTGAATCAGGCGAATTAAG 57.384 47.619 20.85 0.00 46.35 1.85
4404 9522 3.206150 GGCTGAATCAGGCGAATTAAGA 58.794 45.455 20.85 0.00 46.35 2.10
4405 9523 3.627577 GGCTGAATCAGGCGAATTAAGAA 59.372 43.478 20.85 0.00 46.35 2.52
4406 9524 4.096382 GGCTGAATCAGGCGAATTAAGAAA 59.904 41.667 20.85 0.00 46.35 2.52
4407 9525 5.393027 GGCTGAATCAGGCGAATTAAGAAAA 60.393 40.000 20.85 0.00 46.35 2.29
4408 9526 5.513141 GCTGAATCAGGCGAATTAAGAAAAC 59.487 40.000 12.66 0.00 31.21 2.43
4409 9527 6.567687 TGAATCAGGCGAATTAAGAAAACA 57.432 33.333 0.00 0.00 0.00 2.83
4410 9528 7.156876 TGAATCAGGCGAATTAAGAAAACAT 57.843 32.000 0.00 0.00 0.00 2.71
4411 9529 7.028962 TGAATCAGGCGAATTAAGAAAACATG 58.971 34.615 0.00 0.00 0.00 3.21
4412 9530 5.309323 TCAGGCGAATTAAGAAAACATGG 57.691 39.130 0.00 0.00 0.00 3.66
4413 9531 4.764823 TCAGGCGAATTAAGAAAACATGGT 59.235 37.500 0.00 0.00 0.00 3.55
4414 9532 5.095490 CAGGCGAATTAAGAAAACATGGTC 58.905 41.667 0.00 0.00 0.00 4.02
4415 9533 4.764823 AGGCGAATTAAGAAAACATGGTCA 59.235 37.500 0.00 0.00 0.00 4.02
4416 9534 5.242838 AGGCGAATTAAGAAAACATGGTCAA 59.757 36.000 0.00 0.00 0.00 3.18
4417 9535 5.572896 GGCGAATTAAGAAAACATGGTCAAG 59.427 40.000 0.00 0.00 0.00 3.02
4418 9536 6.149633 GCGAATTAAGAAAACATGGTCAAGT 58.850 36.000 0.00 0.00 0.00 3.16
4419 9537 6.088085 GCGAATTAAGAAAACATGGTCAAGTG 59.912 38.462 0.00 0.00 0.00 3.16
4420 9538 7.359595 CGAATTAAGAAAACATGGTCAAGTGA 58.640 34.615 0.00 0.00 0.00 3.41
4421 9539 7.860373 CGAATTAAGAAAACATGGTCAAGTGAA 59.140 33.333 0.00 0.00 0.00 3.18
4422 9540 8.871686 AATTAAGAAAACATGGTCAAGTGAAC 57.128 30.769 0.00 0.00 0.00 3.18
4423 9541 5.913137 AAGAAAACATGGTCAAGTGAACA 57.087 34.783 0.67 0.67 46.96 3.18
4424 9542 5.248870 AGAAAACATGGTCAAGTGAACAC 57.751 39.130 0.06 0.00 45.59 3.32
4425 9543 4.097892 AGAAAACATGGTCAAGTGAACACC 59.902 41.667 0.06 0.00 45.59 4.16
4426 9544 2.727123 ACATGGTCAAGTGAACACCA 57.273 45.000 0.06 0.00 45.59 4.17
4427 9545 2.575532 ACATGGTCAAGTGAACACCAG 58.424 47.619 0.06 0.00 45.59 4.00
4450 9568 4.558226 ACCATGTCAGCAAAGAGTATGA 57.442 40.909 0.00 0.00 0.00 2.15
4456 9574 4.696877 TGTCAGCAAAGAGTATGACAATGG 59.303 41.667 4.50 0.00 46.57 3.16
4475 9593 4.329638 TGGCCATCCATTCTTTAGGAAA 57.670 40.909 0.00 0.00 37.47 3.13
4506 9624 8.603304 AGAAGGATATTTACTACCAGTTGTTGT 58.397 33.333 0.00 0.00 36.82 3.32
4507 9625 9.227777 GAAGGATATTTACTACCAGTTGTTGTT 57.772 33.333 0.00 0.00 34.66 2.83
4508 9626 8.561738 AGGATATTTACTACCAGTTGTTGTTG 57.438 34.615 0.00 0.00 34.66 3.33
4509 9627 7.610305 AGGATATTTACTACCAGTTGTTGTTGG 59.390 37.037 0.00 0.00 40.38 3.77
4511 9629 6.628919 ATTTACTACCAGTTGTTGTTGGTC 57.371 37.500 0.00 0.00 44.16 4.02
4512 9630 3.926058 ACTACCAGTTGTTGTTGGTCT 57.074 42.857 0.00 0.00 44.16 3.85
4513 9631 3.805207 ACTACCAGTTGTTGTTGGTCTC 58.195 45.455 0.00 0.00 44.16 3.36
4514 9632 3.454812 ACTACCAGTTGTTGTTGGTCTCT 59.545 43.478 0.00 0.00 44.16 3.10
4515 9633 4.652421 ACTACCAGTTGTTGTTGGTCTCTA 59.348 41.667 0.00 0.00 44.16 2.43
4516 9634 4.706842 ACCAGTTGTTGTTGGTCTCTAT 57.293 40.909 0.00 0.00 44.16 1.98
4517 9635 5.048846 ACCAGTTGTTGTTGGTCTCTATT 57.951 39.130 0.00 0.00 44.16 1.73
4518 9636 6.182507 ACCAGTTGTTGTTGGTCTCTATTA 57.817 37.500 0.00 0.00 44.16 0.98
4519 9637 5.995897 ACCAGTTGTTGTTGGTCTCTATTAC 59.004 40.000 0.00 0.00 44.16 1.89
4520 9638 6.183361 ACCAGTTGTTGTTGGTCTCTATTACT 60.183 38.462 0.00 0.00 44.16 2.24
4521 9639 6.710744 CCAGTTGTTGTTGGTCTCTATTACTT 59.289 38.462 0.00 0.00 0.00 2.24
4522 9640 7.307989 CCAGTTGTTGTTGGTCTCTATTACTTG 60.308 40.741 0.00 0.00 0.00 3.16
4559 9677 8.839310 ATTTCTGCGCTATATCAAAATCTAGT 57.161 30.769 9.73 0.00 0.00 2.57
4567 9685 8.246871 CGCTATATCAAAATCTAGTCATCTCCA 58.753 37.037 0.00 0.00 0.00 3.86
4568 9686 9.585099 GCTATATCAAAATCTAGTCATCTCCAG 57.415 37.037 0.00 0.00 0.00 3.86
4571 9689 5.423015 TCAAAATCTAGTCATCTCCAGTGC 58.577 41.667 0.00 0.00 0.00 4.40
4572 9690 5.046376 TCAAAATCTAGTCATCTCCAGTGCA 60.046 40.000 0.00 0.00 0.00 4.57
4573 9691 5.627182 AAATCTAGTCATCTCCAGTGCAT 57.373 39.130 0.00 0.00 0.00 3.96
4574 9692 4.870123 ATCTAGTCATCTCCAGTGCATC 57.130 45.455 0.00 0.00 0.00 3.91
4575 9693 2.961741 TCTAGTCATCTCCAGTGCATCC 59.038 50.000 0.00 0.00 0.00 3.51
4576 9694 1.876849 AGTCATCTCCAGTGCATCCT 58.123 50.000 0.00 0.00 0.00 3.24
4577 9695 2.194859 AGTCATCTCCAGTGCATCCTT 58.805 47.619 0.00 0.00 0.00 3.36
4578 9696 2.093075 AGTCATCTCCAGTGCATCCTTG 60.093 50.000 0.00 0.00 0.00 3.61
4682 9800 4.057406 TGCATTTTGCTGCTGTTTTAGT 57.943 36.364 0.00 0.00 45.31 2.24
4696 9814 7.199766 TGCTGTTTTAGTTTGTTCATGGTAAG 58.800 34.615 0.00 0.00 0.00 2.34
4731 9849 4.631377 TGATGAGTTAATTTGAGAGCCACG 59.369 41.667 0.00 0.00 0.00 4.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 1.275291 ACTACAACACTAGCGTGCCAT 59.725 47.619 0.00 0.00 45.10 4.40
89 90 3.118298 GCAAACCAATTAGGCCCATGAAT 60.118 43.478 0.00 0.00 43.14 2.57
206 208 1.680338 AGACAGGCGGCCAATATTTC 58.320 50.000 23.09 7.53 0.00 2.17
3181 7966 6.618287 TTGTTTGAGTAGTCTGGTCAATTG 57.382 37.500 0.00 0.00 30.50 2.32
4355 9473 7.066525 ACAACCAATAAGAAGACGTCTTTTTCA 59.933 33.333 30.56 19.56 44.64 2.69
4356 9474 7.415229 ACAACCAATAAGAAGACGTCTTTTTC 58.585 34.615 30.56 19.83 44.64 2.29
4357 9475 7.329588 ACAACCAATAAGAAGACGTCTTTTT 57.670 32.000 29.81 29.81 44.64 1.94
4358 9476 6.937436 ACAACCAATAAGAAGACGTCTTTT 57.063 33.333 30.22 22.82 44.64 2.27
4359 9477 6.238648 CCAACAACCAATAAGAAGACGTCTTT 60.239 38.462 30.22 18.63 44.64 2.52
4361 9479 4.755123 CCAACAACCAATAAGAAGACGTCT 59.245 41.667 13.58 13.58 38.69 4.18
4362 9480 4.612939 GCCAACAACCAATAAGAAGACGTC 60.613 45.833 7.70 7.70 0.00 4.34
4363 9481 3.252458 GCCAACAACCAATAAGAAGACGT 59.748 43.478 0.00 0.00 0.00 4.34
4364 9482 3.502211 AGCCAACAACCAATAAGAAGACG 59.498 43.478 0.00 0.00 0.00 4.18
4365 9483 4.518970 TCAGCCAACAACCAATAAGAAGAC 59.481 41.667 0.00 0.00 0.00 3.01
4366 9484 4.724399 TCAGCCAACAACCAATAAGAAGA 58.276 39.130 0.00 0.00 0.00 2.87
4367 9485 5.452078 TTCAGCCAACAACCAATAAGAAG 57.548 39.130 0.00 0.00 0.00 2.85
4368 9486 5.538053 TGATTCAGCCAACAACCAATAAGAA 59.462 36.000 0.00 0.00 0.00 2.52
4369 9487 5.076182 TGATTCAGCCAACAACCAATAAGA 58.924 37.500 0.00 0.00 0.00 2.10
4370 9488 5.389859 TGATTCAGCCAACAACCAATAAG 57.610 39.130 0.00 0.00 0.00 1.73
4371 9489 4.220382 CCTGATTCAGCCAACAACCAATAA 59.780 41.667 8.23 0.00 0.00 1.40
4372 9490 3.763360 CCTGATTCAGCCAACAACCAATA 59.237 43.478 8.23 0.00 0.00 1.90
4373 9491 2.564062 CCTGATTCAGCCAACAACCAAT 59.436 45.455 8.23 0.00 0.00 3.16
4374 9492 1.962807 CCTGATTCAGCCAACAACCAA 59.037 47.619 8.23 0.00 0.00 3.67
4375 9493 1.619654 CCTGATTCAGCCAACAACCA 58.380 50.000 8.23 0.00 0.00 3.67
4376 9494 0.244721 GCCTGATTCAGCCAACAACC 59.755 55.000 8.23 0.00 0.00 3.77
4377 9495 0.109597 CGCCTGATTCAGCCAACAAC 60.110 55.000 8.23 0.00 0.00 3.32
4378 9496 0.250684 TCGCCTGATTCAGCCAACAA 60.251 50.000 8.23 0.00 0.00 2.83
4379 9497 0.250684 TTCGCCTGATTCAGCCAACA 60.251 50.000 8.23 0.00 0.00 3.33
4380 9498 1.098050 ATTCGCCTGATTCAGCCAAC 58.902 50.000 8.23 0.00 0.00 3.77
4381 9499 1.838112 AATTCGCCTGATTCAGCCAA 58.162 45.000 8.23 1.02 0.00 4.52
4382 9500 2.708216 TAATTCGCCTGATTCAGCCA 57.292 45.000 8.23 0.00 0.00 4.75
4383 9501 3.206150 TCTTAATTCGCCTGATTCAGCC 58.794 45.455 8.23 0.00 0.00 4.85
4384 9502 4.882671 TTCTTAATTCGCCTGATTCAGC 57.117 40.909 8.23 3.45 0.00 4.26
4385 9503 6.611381 TGTTTTCTTAATTCGCCTGATTCAG 58.389 36.000 6.70 6.70 0.00 3.02
4386 9504 6.567687 TGTTTTCTTAATTCGCCTGATTCA 57.432 33.333 0.00 0.00 0.00 2.57
4387 9505 6.473455 CCATGTTTTCTTAATTCGCCTGATTC 59.527 38.462 0.00 0.00 0.00 2.52
4388 9506 6.071391 ACCATGTTTTCTTAATTCGCCTGATT 60.071 34.615 0.00 0.00 0.00 2.57
4389 9507 5.418840 ACCATGTTTTCTTAATTCGCCTGAT 59.581 36.000 0.00 0.00 0.00 2.90
4390 9508 4.764823 ACCATGTTTTCTTAATTCGCCTGA 59.235 37.500 0.00 0.00 0.00 3.86
4391 9509 5.059404 ACCATGTTTTCTTAATTCGCCTG 57.941 39.130 0.00 0.00 0.00 4.85
4392 9510 4.764823 TGACCATGTTTTCTTAATTCGCCT 59.235 37.500 0.00 0.00 0.00 5.52
4393 9511 5.054390 TGACCATGTTTTCTTAATTCGCC 57.946 39.130 0.00 0.00 0.00 5.54
4394 9512 6.088085 CACTTGACCATGTTTTCTTAATTCGC 59.912 38.462 0.00 0.00 0.00 4.70
4395 9513 7.359595 TCACTTGACCATGTTTTCTTAATTCG 58.640 34.615 0.00 0.00 0.00 3.34
4396 9514 8.968242 GTTCACTTGACCATGTTTTCTTAATTC 58.032 33.333 0.00 0.00 0.00 2.17
4397 9515 8.474025 TGTTCACTTGACCATGTTTTCTTAATT 58.526 29.630 0.00 0.00 0.00 1.40
4398 9516 7.920682 GTGTTCACTTGACCATGTTTTCTTAAT 59.079 33.333 0.00 0.00 0.00 1.40
4399 9517 7.254852 GTGTTCACTTGACCATGTTTTCTTAA 58.745 34.615 0.00 0.00 0.00 1.85
4400 9518 6.183360 GGTGTTCACTTGACCATGTTTTCTTA 60.183 38.462 2.98 0.00 0.00 2.10
4401 9519 5.394115 GGTGTTCACTTGACCATGTTTTCTT 60.394 40.000 2.98 0.00 0.00 2.52
4402 9520 4.097892 GGTGTTCACTTGACCATGTTTTCT 59.902 41.667 2.98 0.00 0.00 2.52
4403 9521 4.142271 TGGTGTTCACTTGACCATGTTTTC 60.142 41.667 2.98 0.00 34.75 2.29
4404 9522 3.766591 TGGTGTTCACTTGACCATGTTTT 59.233 39.130 2.98 0.00 34.75 2.43
4405 9523 3.360867 TGGTGTTCACTTGACCATGTTT 58.639 40.909 2.98 0.00 34.75 2.83
4406 9524 2.951642 CTGGTGTTCACTTGACCATGTT 59.048 45.455 0.00 0.00 39.06 2.71
4407 9525 2.172505 TCTGGTGTTCACTTGACCATGT 59.827 45.455 0.00 0.00 39.06 3.21
4408 9526 2.849942 TCTGGTGTTCACTTGACCATG 58.150 47.619 0.00 0.00 39.06 3.66
4409 9527 3.214328 GTTCTGGTGTTCACTTGACCAT 58.786 45.455 0.00 0.00 39.06 3.55
4410 9528 2.639065 GTTCTGGTGTTCACTTGACCA 58.361 47.619 2.98 0.00 37.43 4.02
4411 9529 1.947456 GGTTCTGGTGTTCACTTGACC 59.053 52.381 2.98 0.00 0.00 4.02
4412 9530 2.639065 TGGTTCTGGTGTTCACTTGAC 58.361 47.619 2.98 0.00 0.00 3.18
4413 9531 3.213506 CATGGTTCTGGTGTTCACTTGA 58.786 45.455 2.98 0.00 0.00 3.02
4414 9532 2.951642 ACATGGTTCTGGTGTTCACTTG 59.048 45.455 0.00 0.00 0.00 3.16
4415 9533 3.214328 GACATGGTTCTGGTGTTCACTT 58.786 45.455 0.00 0.00 0.00 3.16
4416 9534 2.172505 TGACATGGTTCTGGTGTTCACT 59.827 45.455 0.00 0.00 0.00 3.41
4417 9535 2.549754 CTGACATGGTTCTGGTGTTCAC 59.450 50.000 0.00 0.00 0.00 3.18
4418 9536 2.849942 CTGACATGGTTCTGGTGTTCA 58.150 47.619 0.00 0.00 0.00 3.18
4419 9537 1.537202 GCTGACATGGTTCTGGTGTTC 59.463 52.381 0.00 0.00 0.00 3.18
4420 9538 1.133823 TGCTGACATGGTTCTGGTGTT 60.134 47.619 0.00 0.00 0.00 3.32
4421 9539 0.473755 TGCTGACATGGTTCTGGTGT 59.526 50.000 0.00 0.00 0.00 4.16
4422 9540 1.608055 TTGCTGACATGGTTCTGGTG 58.392 50.000 0.00 0.00 0.00 4.17
4423 9541 2.158623 TCTTTGCTGACATGGTTCTGGT 60.159 45.455 0.00 0.00 0.00 4.00
4424 9542 2.486982 CTCTTTGCTGACATGGTTCTGG 59.513 50.000 0.00 0.00 0.00 3.86
4425 9543 3.144506 ACTCTTTGCTGACATGGTTCTG 58.855 45.455 0.00 0.00 0.00 3.02
4426 9544 3.498774 ACTCTTTGCTGACATGGTTCT 57.501 42.857 0.00 0.00 0.00 3.01
4427 9545 4.937620 TCATACTCTTTGCTGACATGGTTC 59.062 41.667 0.00 0.00 0.00 3.62
4479 9597 9.449719 CAACAACTGGTAGTAAATATCCTTCTT 57.550 33.333 0.00 0.00 0.00 2.52
4481 9599 8.788325 ACAACAACTGGTAGTAAATATCCTTC 57.212 34.615 0.00 0.00 0.00 3.46
4489 9607 5.747342 AGACCAACAACAACTGGTAGTAAA 58.253 37.500 0.00 0.00 46.12 2.01
4506 9624 6.237901 ACATTGTGCAAGTAATAGAGACCAA 58.762 36.000 0.00 0.00 0.00 3.67
4507 9625 5.804639 ACATTGTGCAAGTAATAGAGACCA 58.195 37.500 0.00 0.00 0.00 4.02
4508 9626 6.403636 CCAACATTGTGCAAGTAATAGAGACC 60.404 42.308 0.00 0.00 0.00 3.85
4509 9627 6.371548 TCCAACATTGTGCAAGTAATAGAGAC 59.628 38.462 0.00 0.00 0.00 3.36
4510 9628 6.472016 TCCAACATTGTGCAAGTAATAGAGA 58.528 36.000 0.00 0.00 0.00 3.10
4511 9629 6.741992 TCCAACATTGTGCAAGTAATAGAG 57.258 37.500 0.00 0.00 0.00 2.43
4512 9630 7.701539 AATCCAACATTGTGCAAGTAATAGA 57.298 32.000 0.00 0.00 0.00 1.98
4513 9631 8.246180 AGAAATCCAACATTGTGCAAGTAATAG 58.754 33.333 0.00 0.00 0.00 1.73
4514 9632 8.028354 CAGAAATCCAACATTGTGCAAGTAATA 58.972 33.333 0.00 0.00 0.00 0.98
4515 9633 6.869913 CAGAAATCCAACATTGTGCAAGTAAT 59.130 34.615 0.00 0.00 0.00 1.89
4516 9634 6.215121 CAGAAATCCAACATTGTGCAAGTAA 58.785 36.000 0.00 0.00 0.00 2.24
4517 9635 5.771469 CAGAAATCCAACATTGTGCAAGTA 58.229 37.500 0.00 0.00 0.00 2.24
4518 9636 4.624015 CAGAAATCCAACATTGTGCAAGT 58.376 39.130 0.00 0.00 0.00 3.16
4519 9637 3.430895 GCAGAAATCCAACATTGTGCAAG 59.569 43.478 0.00 0.00 43.17 4.01
4520 9638 3.391965 GCAGAAATCCAACATTGTGCAA 58.608 40.909 0.00 0.00 43.17 4.08
4521 9639 2.607526 CGCAGAAATCCAACATTGTGCA 60.608 45.455 8.11 0.00 43.67 4.57
4522 9640 1.987770 CGCAGAAATCCAACATTGTGC 59.012 47.619 0.00 0.00 41.05 4.57
4559 9677 2.169978 CTCAAGGATGCACTGGAGATGA 59.830 50.000 3.11 0.00 40.35 2.92
4570 9688 1.404391 CAAGGATGCACTCAAGGATGC 59.596 52.381 0.00 0.00 42.40 3.91
4571 9689 2.943690 CTCAAGGATGCACTCAAGGATG 59.056 50.000 0.00 0.00 0.00 3.51
4572 9690 2.575279 ACTCAAGGATGCACTCAAGGAT 59.425 45.455 0.00 0.00 0.00 3.24
4573 9691 1.980765 ACTCAAGGATGCACTCAAGGA 59.019 47.619 0.00 0.00 0.00 3.36
4574 9692 2.354259 GACTCAAGGATGCACTCAAGG 58.646 52.381 0.00 0.00 0.00 3.61
4575 9693 1.998315 CGACTCAAGGATGCACTCAAG 59.002 52.381 0.00 0.00 0.00 3.02
4576 9694 1.344438 ACGACTCAAGGATGCACTCAA 59.656 47.619 0.00 0.00 0.00 3.02
4577 9695 0.969149 ACGACTCAAGGATGCACTCA 59.031 50.000 0.00 0.00 0.00 3.41
4578 9696 1.067565 TCACGACTCAAGGATGCACTC 60.068 52.381 0.00 0.00 0.00 3.51
4682 9800 7.484975 ACGTTTCAAATCTTACCATGAACAAA 58.515 30.769 0.00 0.00 31.96 2.83
4696 9814 9.993881 CAAATTAACTCATCAACGTTTCAAATC 57.006 29.630 0.00 0.00 0.00 2.17
4762 9880 9.727859 TGTAGTATAGAACAAGTAAATGCCAAA 57.272 29.630 0.00 0.00 0.00 3.28


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

AutoCloner maintained by Alex Coulton.