Multiple sequence alignment - TraesCS5D01G498200

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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 TraesCS5D01G498200 chr5D 100.000 6090 0 0 1 6090 528149490 528143401 0.000000e+00 11247
1 TraesCS5D01G498200 chr5D 86.730 633 74 6 5463 6090 527905132 527905759 0.000000e+00 695
2 TraesCS5D01G498200 chr5D 84.367 371 48 10 418 782 499619505 499619139 7.510000e-94 355
3 TraesCS5D01G498200 chr5A 95.279 2796 82 20 899 3650 655996854 655994065 0.000000e+00 4386
4 TraesCS5D01G498200 chr5A 96.852 2446 75 1 3647 6090 655993943 655991498 0.000000e+00 4089
5 TraesCS5D01G498200 chr5A 86.465 761 62 26 25 782 655997642 655996920 0.000000e+00 797
6 TraesCS5D01G498200 chr5A 87.087 635 72 6 5461 6090 655461807 655462436 0.000000e+00 710
7 TraesCS5D01G498200 chr5A 90.034 291 26 2 492 782 649710271 649710558 2.070000e-99 374
8 TraesCS5D01G498200 chr5A 82.005 439 58 18 358 782 623929193 623928762 2.700000e-93 353
9 TraesCS5D01G498200 chr5A 83.682 239 37 2 5820 6057 597686606 597686843 2.210000e-54 224
10 TraesCS5D01G498200 chr5B 96.907 2425 65 6 3620 6041 664951397 664948980 0.000000e+00 4054
11 TraesCS5D01G498200 chr5B 98.033 1830 28 4 1809 3631 664953381 664951553 0.000000e+00 3173
12 TraesCS5D01G498200 chr5B 93.101 1406 59 17 389 1756 664954786 664953381 0.000000e+00 2025
13 TraesCS5D01G498200 chr5B 87.678 633 68 6 5463 6090 664682970 664683597 0.000000e+00 728
14 TraesCS5D01G498200 chr5B 82.870 432 55 16 358 782 620767651 620767232 2.680000e-98 370
15 TraesCS5D01G498200 chr5B 89.931 288 24 4 496 782 657596031 657596314 3.470000e-97 366
16 TraesCS5D01G498200 chr5B 89.273 289 26 5 496 782 650165672 650165387 2.090000e-94 357
17 TraesCS5D01G498200 chr5B 78.090 178 28 7 39 207 664955434 664955259 1.080000e-17 102
18 TraesCS5D01G498200 chrUn 87.389 563 61 6 5533 6090 263458910 263458353 6.660000e-179 638
19 TraesCS5D01G498200 chrUn 95.513 156 5 1 4547 4700 147292299 147292144 1.310000e-61 248
20 TraesCS5D01G498200 chrUn 96.078 153 4 1 4547 4697 436597949 436598101 1.310000e-61 248
21 TraesCS5D01G498200 chrUn 94.872 156 6 1 4547 4700 147140841 147140686 6.100000e-60 243
22 TraesCS5D01G498200 chr3B 90.909 275 21 4 510 782 78291028 78290756 3.470000e-97 366
23 TraesCS5D01G498200 chr6B 96.795 156 3 1 4547 4700 62221126 62220971 6.060000e-65 259
24 TraesCS5D01G498200 chr6B 96.154 156 4 1 4547 4700 647635746 647635591 2.820000e-63 254
25 TraesCS5D01G498200 chr7B 96.154 156 4 1 4547 4700 670987400 670987245 2.820000e-63 254
26 TraesCS5D01G498200 chr7B 96.154 156 4 1 4547 4700 671242899 671242744 2.820000e-63 254
27 TraesCS5D01G498200 chr7B 92.453 106 3 4 3531 3635 428966843 428966944 4.920000e-31 147
28 TraesCS5D01G498200 chr1A 82.156 269 42 6 5825 6090 334448345 334448080 6.140000e-55 226
29 TraesCS5D01G498200 chr1B 91.304 161 7 5 3214 3371 550282040 550281884 4.780000e-51 213
30 TraesCS5D01G498200 chr1D 81.154 260 43 6 5834 6090 294227755 294227499 2.880000e-48 204
31 TraesCS5D01G498200 chr1D 89.655 116 6 5 3531 3644 209139361 209139250 6.360000e-30 143
32 TraesCS5D01G498200 chr3D 95.745 94 2 1 3528 3621 302930384 302930475 3.800000e-32 150
33 TraesCS5D01G498200 chr2B 95.745 94 2 1 3528 3621 354879122 354879213 3.800000e-32 150
34 TraesCS5D01G498200 chr2B 92.308 104 3 4 3525 3626 142869514 142869614 6.360000e-30 143
35 TraesCS5D01G498200 chr4D 93.939 99 4 1 3527 3625 64347449 64347353 1.370000e-31 148
36 TraesCS5D01G498200 chr2D 93.069 101 4 2 3530 3630 382456025 382455928 1.770000e-30 145
37 TraesCS5D01G498200 chr2D 87.705 122 11 3 3530 3650 573891899 573891781 8.230000e-29 139


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 TraesCS5D01G498200 chr5D 528143401 528149490 6089 True 11247.000000 11247 100.000000 1 6090 1 chr5D.!!$R2 6089
1 TraesCS5D01G498200 chr5D 527905132 527905759 627 False 695.000000 695 86.730000 5463 6090 1 chr5D.!!$F1 627
2 TraesCS5D01G498200 chr5A 655991498 655997642 6144 True 3090.666667 4386 92.865333 25 6090 3 chr5A.!!$R2 6065
3 TraesCS5D01G498200 chr5A 655461807 655462436 629 False 710.000000 710 87.087000 5461 6090 1 chr5A.!!$F3 629
4 TraesCS5D01G498200 chr5B 664948980 664955434 6454 True 2338.500000 4054 91.532750 39 6041 4 chr5B.!!$R3 6002
5 TraesCS5D01G498200 chr5B 664682970 664683597 627 False 728.000000 728 87.678000 5463 6090 1 chr5B.!!$F2 627
6 TraesCS5D01G498200 chrUn 263458353 263458910 557 True 638.000000 638 87.389000 5533 6090 1 chrUn.!!$R3 557

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
294 650 0.041312 TTTTCGAGCGCAGTTTGAGC 60.041 50.0 11.47 0.0 43.69 4.26 F
1300 1719 0.036875 CTATTCTGGGGCGGAATCCC 59.963 60.0 0.00 0.0 45.80 3.85 F
1763 2194 0.179004 TGCCAAACCGTGATCCTTGT 60.179 50.0 0.00 0.0 0.00 3.16 F
2558 2991 0.465460 TGGTGCTTTGACCACTGGAC 60.465 55.0 0.71 0.0 41.30 4.02 F
4062 4828 0.101399 CTACTGTACTCTGCTGGGCG 59.899 60.0 0.00 0.0 0.00 6.13 F
4899 5667 5.179368 ACCGTTTGACAGATGTATGAACAAG 59.821 40.0 0.00 0.0 39.58 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1933 2364 1.630148 GCTCGACATACTTTCGTGCT 58.370 50.000 10.56 0.00 46.94 4.40 R
3055 3488 1.138859 CGCCATCCTCCTACAACATCA 59.861 52.381 0.00 0.00 0.00 3.07 R
3458 3891 0.762842 AAAAGGGTGGTGGAAAGGGC 60.763 55.000 0.00 0.00 0.00 5.19 R
4224 4990 2.982488 AGGAATGAGGGTCACACTTTCT 59.018 45.455 0.00 0.00 0.00 2.52 R
4906 5674 0.318762 TTAAATTGGTTGGCGCCACC 59.681 50.000 32.95 31.05 38.42 4.61 R
6057 6825 2.205749 TGGGAGCAGGTGGTGGTA 59.794 61.111 0.00 0.00 36.87 3.25 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
31 32 9.640952 AAAAAGGGTGTGTGCAATATAGTATAT 57.359 29.630 0.00 0.00 0.00 0.86
34 35 7.168219 AGGGTGTGTGCAATATAGTATATTGG 58.832 38.462 30.69 19.02 35.92 3.16
105 145 7.222872 AGAATCAGATCAGTTTTGAACAGAGT 58.777 34.615 0.00 0.00 36.78 3.24
136 176 9.390795 GTGATTTGCTAATCTATATTGCAACAG 57.609 33.333 19.31 0.00 40.68 3.16
139 179 7.572523 TTGCTAATCTATATTGCAACAGCTT 57.427 32.000 0.00 0.16 35.80 3.74
148 188 2.057137 TGCAACAGCTTGAGGAAAGT 57.943 45.000 0.00 0.00 38.25 2.66
149 189 1.949525 TGCAACAGCTTGAGGAAAGTC 59.050 47.619 0.00 0.00 38.25 3.01
178 218 7.630242 TCCAATTCATGATACTCTTCCAAAC 57.370 36.000 0.00 0.00 0.00 2.93
188 228 7.282585 TGATACTCTTCCAAACTGGGATTATG 58.717 38.462 0.00 0.00 38.32 1.90
238 278 2.563179 TCCGTCTCTTCTTTCAGGGAAG 59.437 50.000 0.00 0.00 40.85 3.46
242 282 4.503296 CGTCTCTTCTTTCAGGGAAGGAAA 60.503 45.833 5.28 0.00 37.24 3.13
243 283 5.565509 GTCTCTTCTTTCAGGGAAGGAAAT 58.434 41.667 5.28 0.00 37.24 2.17
266 621 2.107950 TTGCCATGGTTTCGAGTAGG 57.892 50.000 14.67 0.00 0.00 3.18
274 629 3.735591 TGGTTTCGAGTAGGACCTTTTG 58.264 45.455 0.00 0.00 33.33 2.44
283 639 3.813724 AGTAGGACCTTTTGTTTTCGAGC 59.186 43.478 0.00 0.00 0.00 5.03
294 650 0.041312 TTTTCGAGCGCAGTTTGAGC 60.041 50.000 11.47 0.00 43.69 4.26
297 653 2.175322 GAGCGCAGTTTGAGCAGC 59.825 61.111 11.47 0.00 45.82 5.25
300 656 2.901292 GCGCAGTTTGAGCAGCACT 61.901 57.895 0.30 0.00 42.85 4.40
363 739 4.881850 AGAACGGAATTTGAGTGAACAACT 59.118 37.500 0.00 0.00 43.85 3.16
371 747 5.484173 TTTGAGTGAACAACTAGCACAAG 57.516 39.130 0.00 0.00 40.07 3.16
440 816 1.026718 GCCCAGATACAGCAAACGCT 61.027 55.000 0.00 0.00 41.67 5.07
461 837 1.082117 GCCCACTGATCCAACGTACG 61.082 60.000 15.01 15.01 0.00 3.67
651 1028 1.471119 CTCGTGGCCTAGGTTAGTGA 58.529 55.000 11.31 1.88 0.00 3.41
666 1043 2.949177 AGTGACCCACATTGCACTTA 57.051 45.000 0.00 0.00 38.34 2.24
723 1100 5.637810 GGAGAGTGAACGTCATAATTTGTGA 59.362 40.000 0.00 0.00 0.00 3.58
789 1166 8.744568 AAAATTAAATTTTGGTCCAAAGCAGA 57.255 26.923 16.47 3.13 40.69 4.26
790 1167 7.967890 AATTAAATTTTGGTCCAAAGCAGAG 57.032 32.000 16.47 0.00 34.72 3.35
804 1203 1.202580 AGCAGAGCAAAGAGTCGTTGT 60.203 47.619 18.20 7.03 0.00 3.32
818 1217 7.264373 AGAGTCGTTGTTCAATTTTCATTCT 57.736 32.000 0.00 0.00 0.00 2.40
842 1246 1.375140 CTGTCCAGTGATGCGCTGT 60.375 57.895 9.73 0.00 39.99 4.40
848 1252 2.677836 TCCAGTGATGCGCTGTAATTTC 59.322 45.455 9.73 0.00 39.99 2.17
857 1261 3.376859 TGCGCTGTAATTTCTAACATGGG 59.623 43.478 9.73 0.00 0.00 4.00
868 1272 4.116782 TCTAACATGGGCCATATTGCAT 57.883 40.909 20.10 5.17 0.00 3.96
873 1277 5.410355 ACATGGGCCATATTGCATATTTC 57.590 39.130 20.73 0.00 0.00 2.17
882 1286 7.134815 GCCATATTGCATATTTCATCGGATAC 58.865 38.462 0.00 0.00 0.00 2.24
885 1289 8.896744 CATATTGCATATTTCATCGGATACCTT 58.103 33.333 0.00 0.00 0.00 3.50
888 1292 8.862325 TTGCATATTTCATCGGATACCTTTAT 57.138 30.769 0.00 0.00 0.00 1.40
889 1293 9.952030 TTGCATATTTCATCGGATACCTTTATA 57.048 29.630 0.00 0.00 0.00 0.98
976 1393 4.261888 CGTTAGGCTCAACGTGCT 57.738 55.556 16.08 0.00 44.77 4.40
988 1407 2.494471 TCAACGTGCTAAGCTAAGCCTA 59.506 45.455 0.00 0.00 42.05 3.93
1095 1514 4.814294 CGCCTACCTCGCCCACAC 62.814 72.222 0.00 0.00 0.00 3.82
1300 1719 0.036875 CTATTCTGGGGCGGAATCCC 59.963 60.000 0.00 0.00 45.80 3.85
1456 1878 1.202582 CCCGTGAGCTTATATCCCTCG 59.797 57.143 0.00 0.00 0.00 4.63
1763 2194 0.179004 TGCCAAACCGTGATCCTTGT 60.179 50.000 0.00 0.00 0.00 3.16
1780 2211 3.434637 CTTGTGCAGTTGCGTTTAAAGT 58.565 40.909 0.00 0.00 45.83 2.66
1798 2229 1.999735 AGTGGTCATACAAATGCGTCG 59.000 47.619 0.00 0.00 32.76 5.12
1807 2238 7.149015 GGTCATACAAATGCGTCGTATAGTTAG 60.149 40.741 0.00 0.00 32.76 2.34
1882 2313 4.196971 GTTTGGTCCAGTGTTACTTGTCT 58.803 43.478 0.00 0.00 0.00 3.41
2026 2459 1.162698 GTGGCCTCCTTTTCGGTTAC 58.837 55.000 3.32 0.00 0.00 2.50
2115 2548 5.353394 TTTCCTATAGTTGATGTTCGCCT 57.647 39.130 0.00 0.00 0.00 5.52
2558 2991 0.465460 TGGTGCTTTGACCACTGGAC 60.465 55.000 0.71 0.00 41.30 4.02
2636 3069 2.222027 GTTTGGTGAGTAGCTGCAAGT 58.778 47.619 4.12 0.00 35.30 3.16
2751 3184 6.009589 TGATCAACTAAAGGCTTGAATGGAA 58.990 36.000 0.00 0.00 30.32 3.53
2752 3185 6.664816 TGATCAACTAAAGGCTTGAATGGAAT 59.335 34.615 0.00 0.00 30.32 3.01
2780 3213 6.535508 AGTGTCTGTTTGTGTTCTCTAACTTC 59.464 38.462 0.00 0.00 36.51 3.01
3397 3830 1.978580 GGAGGACTGGTTCTCTTCCAA 59.021 52.381 8.69 0.00 34.35 3.53
3471 3904 0.958876 CTTACCGCCCTTTCCACCAC 60.959 60.000 0.00 0.00 0.00 4.16
3498 3934 7.309990 CCTTTTAGATTTGAAATTCTCTGCCCA 60.310 37.037 0.00 0.00 0.00 5.36
4062 4828 0.101399 CTACTGTACTCTGCTGGGCG 59.899 60.000 0.00 0.00 0.00 6.13
4210 4976 8.859236 ACCCTTTCCTACAACTTATTTAAGTC 57.141 34.615 3.58 0.00 45.17 3.01
4822 5590 7.272978 TGGTACTAGAATTGTTATCTCCTTGC 58.727 38.462 0.00 0.00 0.00 4.01
4899 5667 5.179368 ACCGTTTGACAGATGTATGAACAAG 59.821 40.000 0.00 0.00 39.58 3.16
4906 5674 4.389992 ACAGATGTATGAACAAGCTGAACG 59.610 41.667 14.64 0.00 41.21 3.95
4926 5694 1.671556 GGTGGCGCCAACCAATTTAAG 60.672 52.381 34.88 0.00 42.70 1.85
5103 5871 4.038271 AGAAGTGAATGGAAATGCCTGA 57.962 40.909 0.00 0.00 37.63 3.86
5107 5875 3.698040 AGTGAATGGAAATGCCTGATGAC 59.302 43.478 0.00 0.00 37.63 3.06
5197 5965 2.611518 CGTCTCCCTGTAAAGCTCTTG 58.388 52.381 0.00 0.00 0.00 3.02
5331 6099 1.739466 GTCGATGCCTGCAATTCTGAA 59.261 47.619 0.00 0.00 0.00 3.02
5418 6186 5.741388 TTGAAGAGAACTTTCAGCTGAAC 57.259 39.130 28.46 16.75 36.39 3.18
5516 6284 1.450531 AACGACACTCCGACGAACCT 61.451 55.000 0.00 0.00 36.58 3.50
5568 6336 2.244486 TGCTGTCTCCAAGATCCTCT 57.756 50.000 0.00 0.00 0.00 3.69
5574 6342 1.047002 CTCCAAGATCCTCTGGCGAT 58.953 55.000 1.93 0.00 0.00 4.58
5823 6591 5.105797 GGAATCATTGTTGCTGAATACCACA 60.106 40.000 0.00 0.00 0.00 4.17
5832 6600 0.616395 TGAATACCACAGGCCTCCGA 60.616 55.000 0.00 0.00 0.00 4.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 7.954666 ATACTATATTGCACACACCCTTTTT 57.045 32.000 0.00 0.00 0.00 1.94
6 7 9.640952 AATATACTATATTGCACACACCCTTTT 57.359 29.630 1.12 0.00 0.00 2.27
7 8 9.066892 CAATATACTATATTGCACACACCCTTT 57.933 33.333 13.52 0.00 0.00 3.11
8 9 7.665559 CCAATATACTATATTGCACACACCCTT 59.334 37.037 18.13 0.00 34.51 3.95
9 10 7.017155 TCCAATATACTATATTGCACACACCCT 59.983 37.037 18.13 0.00 34.51 4.34
10 11 7.165485 TCCAATATACTATATTGCACACACCC 58.835 38.462 18.13 0.00 34.51 4.61
11 12 8.094548 TCTCCAATATACTATATTGCACACACC 58.905 37.037 18.13 0.00 34.51 4.16
12 13 9.489084 TTCTCCAATATACTATATTGCACACAC 57.511 33.333 18.13 0.00 34.51 3.82
136 176 2.093658 TGGATACCGACTTTCCTCAAGC 60.094 50.000 0.00 0.00 35.65 4.01
139 179 4.224147 TGAATTGGATACCGACTTTCCTCA 59.776 41.667 0.00 0.00 0.00 3.86
148 188 6.918067 AGAGTATCATGAATTGGATACCGA 57.082 37.500 0.00 0.00 44.36 4.69
149 189 6.591834 GGAAGAGTATCATGAATTGGATACCG 59.408 42.308 0.00 0.00 44.36 4.02
178 218 7.854557 CATGTACATGTATCCATAATCCCAG 57.145 40.000 24.91 0.00 34.23 4.45
256 611 5.006941 CGAAAACAAAAGGTCCTACTCGAAA 59.993 40.000 0.00 0.00 0.00 3.46
266 621 1.268335 TGCGCTCGAAAACAAAAGGTC 60.268 47.619 9.73 0.00 0.00 3.85
274 629 1.663494 CTCAAACTGCGCTCGAAAAC 58.337 50.000 9.73 0.00 0.00 2.43
283 639 1.206072 GAGTGCTGCTCAAACTGCG 59.794 57.895 0.00 0.00 43.58 5.18
336 712 4.600692 TCACTCAAATTCCGTTCTGAGA 57.399 40.909 9.08 0.00 38.91 3.27
337 713 4.511454 TGTTCACTCAAATTCCGTTCTGAG 59.489 41.667 1.81 1.81 40.92 3.35
338 714 4.447290 TGTTCACTCAAATTCCGTTCTGA 58.553 39.130 0.00 0.00 0.00 3.27
339 715 4.811555 TGTTCACTCAAATTCCGTTCTG 57.188 40.909 0.00 0.00 0.00 3.02
341 717 5.169836 AGTTGTTCACTCAAATTCCGTTC 57.830 39.130 0.00 0.00 0.00 3.95
344 720 4.213270 TGCTAGTTGTTCACTCAAATTCCG 59.787 41.667 0.00 0.00 36.88 4.30
347 723 6.449635 TTGTGCTAGTTGTTCACTCAAATT 57.550 33.333 0.00 0.00 36.88 1.82
371 747 1.362406 GAGAGCCGTAACAGCAAGCC 61.362 60.000 0.00 0.00 0.00 4.35
375 751 1.795768 CTTTGAGAGCCGTAACAGCA 58.204 50.000 0.00 0.00 0.00 4.41
376 752 0.444260 GCTTTGAGAGCCGTAACAGC 59.556 55.000 0.00 0.00 46.01 4.40
401 777 2.744494 GCCTCAGCAAAGGATAGACAGG 60.744 54.545 8.49 0.00 38.87 4.00
440 816 1.479323 GTACGTTGGATCAGTGGGCTA 59.521 52.381 0.00 0.00 0.00 3.93
461 837 2.505118 GTGAGGAGCGCTGTCGTC 60.505 66.667 18.48 13.77 38.14 4.20
569 946 4.035102 GGGTGCACCTGGTCCTCC 62.035 72.222 33.91 12.20 35.85 4.30
651 1028 1.909700 CCACTAAGTGCAATGTGGGT 58.090 50.000 14.14 0.00 44.33 4.51
723 1100 1.450531 CGAACGCGTACCCCCTCTAT 61.451 60.000 14.46 0.00 0.00 1.98
782 1159 2.246719 ACGACTCTTTGCTCTGCTTT 57.753 45.000 0.00 0.00 0.00 3.51
783 1160 1.869767 CAACGACTCTTTGCTCTGCTT 59.130 47.619 0.00 0.00 0.00 3.91
784 1161 1.202580 ACAACGACTCTTTGCTCTGCT 60.203 47.619 0.00 0.00 0.00 4.24
787 1164 3.179443 TGAACAACGACTCTTTGCTCT 57.821 42.857 0.00 0.00 0.00 4.09
788 1165 3.944422 TTGAACAACGACTCTTTGCTC 57.056 42.857 0.00 0.00 0.00 4.26
789 1166 4.900635 AATTGAACAACGACTCTTTGCT 57.099 36.364 0.00 0.00 0.00 3.91
790 1167 5.514914 TGAAAATTGAACAACGACTCTTTGC 59.485 36.000 0.00 0.00 0.00 3.68
804 1203 6.659242 GGACAGGGACTAGAATGAAAATTGAA 59.341 38.462 0.00 0.00 36.02 2.69
818 1217 1.195115 GCATCACTGGACAGGGACTA 58.805 55.000 6.39 0.00 44.74 2.59
842 1246 6.552725 TGCAATATGGCCCATGTTAGAAATTA 59.447 34.615 6.46 0.00 0.00 1.40
848 1252 6.534475 AATATGCAATATGGCCCATGTTAG 57.466 37.500 6.46 2.70 38.94 2.34
857 1261 5.565592 TCCGATGAAATATGCAATATGGC 57.434 39.130 0.00 0.00 38.94 4.40
944 1354 6.976349 TGAGCCTAACGCATATTATATTACGG 59.024 38.462 8.59 0.00 41.38 4.02
976 1393 2.100916 CCGTGCTTCTAGGCTTAGCTTA 59.899 50.000 3.59 0.00 35.93 3.09
1763 2194 1.746220 ACCACTTTAAACGCAACTGCA 59.254 42.857 2.12 0.00 42.21 4.41
1780 2211 2.087501 ACGACGCATTTGTATGACCA 57.912 45.000 0.00 0.00 33.37 4.02
1807 2238 5.354234 CCGGTATGCAAATCTAACATATCCC 59.646 44.000 0.00 0.00 0.00 3.85
1882 2313 8.674263 ATTGATAAACCAAACAGAATTGCAAA 57.326 26.923 1.71 0.00 0.00 3.68
1933 2364 1.630148 GCTCGACATACTTTCGTGCT 58.370 50.000 10.56 0.00 46.94 4.40
2026 2459 2.094659 AGAAGTTGCGCCGATGTCG 61.095 57.895 4.18 0.00 39.44 4.35
2115 2548 5.634118 AGAATGAGGAAGAAACCATGTGAA 58.366 37.500 0.00 0.00 0.00 3.18
2558 2991 7.113658 TCAGGACTACAAAATTAGGAGCTAG 57.886 40.000 0.00 0.00 0.00 3.42
2636 3069 9.802039 AAAGGGTGTTTGATAGAAATACTTGTA 57.198 29.630 0.00 0.00 0.00 2.41
2751 3184 5.431765 AGAGAACACAAACAGACACTTCAT 58.568 37.500 0.00 0.00 0.00 2.57
2752 3185 4.832248 AGAGAACACAAACAGACACTTCA 58.168 39.130 0.00 0.00 0.00 3.02
2780 3213 2.350522 GTAGTTCAGTGGCATGACTGG 58.649 52.381 13.06 0.00 43.16 4.00
3055 3488 1.138859 CGCCATCCTCCTACAACATCA 59.861 52.381 0.00 0.00 0.00 3.07
3397 3830 5.515008 GGGACTGAAGAGGATAAAAACCTGT 60.515 44.000 0.00 0.00 37.93 4.00
3458 3891 0.762842 AAAAGGGTGGTGGAAAGGGC 60.763 55.000 0.00 0.00 0.00 5.19
3471 3904 7.038048 GGCAGAGAATTTCAAATCTAAAAGGG 58.962 38.462 0.00 0.00 0.00 3.95
3892 4658 9.655769 CAATATGAAAAGATGTATTGACTTCCG 57.344 33.333 0.00 0.00 36.92 4.30
4210 4976 7.017645 GTCACACTTTCTGTAGCAAACATATG 58.982 38.462 0.00 0.00 37.50 1.78
4224 4990 2.982488 AGGAATGAGGGTCACACTTTCT 59.018 45.455 0.00 0.00 0.00 2.52
4822 5590 5.529060 GCTGGAACTTCAAGGGATACATAAG 59.471 44.000 0.00 0.00 39.74 1.73
4906 5674 0.318762 TTAAATTGGTTGGCGCCACC 59.681 50.000 32.95 31.05 38.42 4.61
4926 5694 4.606457 AGACATGAAGAAAGCAATACGC 57.394 40.909 0.00 0.00 42.91 4.42
5103 5871 2.106166 GAGGCCAGAGGATGAATGTCAT 59.894 50.000 5.01 0.00 40.34 3.06
5107 5875 2.486907 GGAAGAGGCCAGAGGATGAATG 60.487 54.545 5.01 0.00 0.00 2.67
5119 5887 4.475135 GCGGACAGGGAAGAGGCC 62.475 72.222 0.00 0.00 0.00 5.19
5197 5965 1.444895 CACAGGCAAAATCGGCAGC 60.445 57.895 0.00 0.00 0.00 5.25
5347 6115 8.092068 CGGTTTCCCATAGATATACACACATAA 58.908 37.037 0.00 0.00 0.00 1.90
5357 6125 4.389374 CAACTGCGGTTTCCCATAGATAT 58.611 43.478 8.58 0.00 32.73 1.63
5418 6186 2.097038 CGAGAAACGGCAGCTCCTG 61.097 63.158 0.00 0.00 38.46 3.86
5523 6291 3.989787 TTCGAGCACAGCGAGGCA 61.990 61.111 0.00 0.00 39.14 4.75
5634 6402 3.372730 CACCCGGACCCGTTACGA 61.373 66.667 6.24 0.00 37.81 3.43
5859 6627 3.179939 GACGTCTTCGCCTTCGGC 61.180 66.667 8.70 0.00 46.75 5.54
6057 6825 2.205749 TGGGAGCAGGTGGTGGTA 59.794 61.111 0.00 0.00 36.87 3.25


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

AutoCloner maintained by Alex Coulton.