Multiple sequence alignment - TraesCS2A01G382000

Loading Multiple Alignment...

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 TraesCS2A01G382000 chr2A 100.000 4360 0 0 1 4360 625293807 625289448 0.000000e+00 8052.0
1 TraesCS2A01G382000 chr2A 100.000 1487 0 0 4704 6190 625289104 625287618 0.000000e+00 2747.0
2 TraesCS2A01G382000 chr2A 82.576 264 38 4 5541 5797 748464699 748464961 6.240000e-55 226.0
3 TraesCS2A01G382000 chr2D 97.079 4382 94 7 8 4360 482805966 482801590 0.000000e+00 7352.0
4 TraesCS2A01G382000 chr2D 92.332 639 11 4 4743 5343 482801364 482800726 0.000000e+00 874.0
5 TraesCS2A01G382000 chr2D 85.223 291 40 3 181 469 577816372 577816083 4.690000e-76 296.0
6 TraesCS2A01G382000 chr2D 93.793 145 7 2 1 144 558945003 558944860 3.760000e-52 217.0
7 TraesCS2A01G382000 chr2D 89.809 157 4 3 5340 5495 482800588 482800443 2.280000e-44 191.0
8 TraesCS2A01G382000 chr2D 77.823 248 33 9 5541 5788 37270815 37270590 3.890000e-27 134.0
9 TraesCS2A01G382000 chr2B 96.485 4381 123 13 1 4360 567073486 567069116 0.000000e+00 7208.0
10 TraesCS2A01G382000 chr2B 92.439 1521 51 13 4724 6190 567069041 567067531 0.000000e+00 2113.0
11 TraesCS2A01G382000 chr2B 96.528 144 5 0 1 144 617122764 617122621 8.020000e-59 239.0
12 TraesCS2A01G382000 chr2B 94.483 145 7 1 1 144 765979472 765979616 8.080000e-54 222.0
13 TraesCS2A01G382000 chr2B 93.750 144 8 1 2 144 651137174 651137031 1.350000e-51 215.0
14 TraesCS2A01G382000 chr7A 93.339 3603 180 25 494 4079 307379547 307383106 0.000000e+00 5269.0
15 TraesCS2A01G382000 chr7A 88.501 774 46 13 4723 5463 307563143 307563906 0.000000e+00 896.0
16 TraesCS2A01G382000 chr7A 93.080 289 19 1 4072 4360 307562679 307562966 7.420000e-114 422.0
17 TraesCS2A01G382000 chr7A 81.250 240 34 9 1051 1284 206215450 206215684 3.810000e-42 183.0
18 TraesCS2A01G382000 chr7A 86.207 87 11 1 1601 1687 510968519 510968604 6.610000e-15 93.5
19 TraesCS2A01G382000 chr7A 92.593 54 1 1 5473 5523 307565817 307565870 2.390000e-09 75.0
20 TraesCS2A01G382000 chr7B 93.725 2247 124 7 1607 3844 263813327 263811089 0.000000e+00 3352.0
21 TraesCS2A01G382000 chr7B 92.199 846 59 3 764 1603 263946932 263946088 0.000000e+00 1190.0
22 TraesCS2A01G382000 chr7B 90.617 810 47 10 4723 5506 263671667 263670861 0.000000e+00 1048.0
23 TraesCS2A01G382000 chr7B 87.365 554 36 11 3840 4360 263685797 263685245 6.860000e-169 604.0
24 TraesCS2A01G382000 chr7B 88.446 251 24 3 522 768 264003982 264003733 1.300000e-76 298.0
25 TraesCS2A01G382000 chr7D 93.901 1951 96 12 2363 4307 274067569 274069502 0.000000e+00 2922.0
26 TraesCS2A01G382000 chr7D 92.292 1427 90 9 495 1906 273855591 273857012 0.000000e+00 2008.0
27 TraesCS2A01G382000 chr7D 94.894 470 24 0 1905 2374 274065373 274065842 0.000000e+00 736.0
28 TraesCS2A01G382000 chr7D 96.089 358 13 1 4893 5250 274255859 274256215 3.220000e-162 582.0
29 TraesCS2A01G382000 chr7D 92.823 209 12 2 5303 5510 274258791 274258997 3.630000e-77 300.0
30 TraesCS2A01G382000 chr7D 82.253 293 47 4 5733 6022 192444485 192444195 1.330000e-61 248.0
31 TraesCS2A01G382000 chr7D 82.374 278 41 3 181 450 70994175 70994452 1.040000e-57 235.0
32 TraesCS2A01G382000 chr7D 88.360 189 11 4 4723 4908 274255663 274255843 3.760000e-52 217.0
33 TraesCS2A01G382000 chr7D 88.421 95 8 3 5246 5337 274256237 274256331 1.820000e-20 111.0
34 TraesCS2A01G382000 chr4B 83.562 511 60 15 5644 6134 193798129 193798635 2.030000e-124 457.0
35 TraesCS2A01G382000 chr4B 85.274 292 41 2 181 471 454671015 454670725 3.630000e-77 300.0
36 TraesCS2A01G382000 chr4B 79.091 110 22 1 5856 5964 647867809 647867918 2.390000e-09 75.0
37 TraesCS2A01G382000 chr6D 92.701 274 17 2 218 490 18006820 18006549 5.820000e-105 392.0
38 TraesCS2A01G382000 chr5A 85.127 316 47 0 181 496 674333085 674333400 2.150000e-84 324.0
39 TraesCS2A01G382000 chr6B 85.342 307 45 0 181 487 368763106 368763412 1.000000e-82 318.0
40 TraesCS2A01G382000 chr6B 85.911 291 41 0 181 471 696095446 696095736 1.680000e-80 311.0
41 TraesCS2A01G382000 chr6B 92.414 145 10 1 1 144 648564890 648564746 8.130000e-49 206.0
42 TraesCS2A01G382000 chr6B 91.228 57 5 0 5542 5598 46698674 46698730 1.850000e-10 78.7
43 TraesCS2A01G382000 chr4A 78.182 440 59 25 995 1409 196773486 196773059 4.790000e-61 246.0
44 TraesCS2A01G382000 chr1D 97.222 144 4 0 1 144 421492715 421492858 1.720000e-60 244.0
45 TraesCS2A01G382000 chr1D 89.412 85 9 0 5541 5625 456276149 456276065 2.360000e-19 108.0
46 TraesCS2A01G382000 chr1D 85.577 104 10 2 5700 5799 456276065 456275963 3.050000e-18 104.0
47 TraesCS2A01G382000 chr3D 96.552 145 4 1 1 144 577440412 577440556 8.020000e-59 239.0
48 TraesCS2A01G382000 chr3D 83.251 203 29 5 5541 5739 535369156 535368955 1.370000e-41 182.0
49 TraesCS2A01G382000 chr3D 87.273 110 14 0 5664 5773 601860917 601861026 6.510000e-25 126.0
50 TraesCS2A01G382000 chr3B 85.106 188 22 6 5543 5726 706741616 706741431 2.950000e-43 187.0
51 TraesCS2A01G382000 chr3B 83.092 207 29 6 5537 5739 706691293 706691089 3.810000e-42 183.0
52 TraesCS2A01G382000 chr5D 81.250 240 34 9 1051 1284 84790617 84790383 3.810000e-42 183.0
53 TraesCS2A01G382000 chr6A 77.926 299 53 11 995 1284 36009528 36009822 2.290000e-39 174.0
54 TraesCS2A01G382000 chr5B 77.778 252 28 13 5546 5797 560493551 560493774 5.040000e-26 130.0
55 TraesCS2A01G382000 chr1B 87.273 110 14 0 5664 5773 632035501 632035610 6.510000e-25 126.0
56 TraesCS2A01G382000 chr4D 90.323 93 9 0 5541 5633 465895348 465895256 8.430000e-24 122.0
57 TraesCS2A01G382000 chrUn 88.158 76 9 0 5546 5621 89773037 89772962 2.380000e-14 91.6


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 TraesCS2A01G382000 chr2A 625287618 625293807 6189 True 5399.500000 8052 100.000000 1 6190 2 chr2A.!!$R1 6189
1 TraesCS2A01G382000 chr2D 482800443 482805966 5523 True 2805.666667 7352 93.073333 8 5495 3 chr2D.!!$R4 5487
2 TraesCS2A01G382000 chr2B 567067531 567073486 5955 True 4660.500000 7208 94.462000 1 6190 2 chr2B.!!$R3 6189
3 TraesCS2A01G382000 chr7A 307379547 307383106 3559 False 5269.000000 5269 93.339000 494 4079 1 chr7A.!!$F2 3585
4 TraesCS2A01G382000 chr7A 307562679 307565870 3191 False 464.333333 896 91.391333 4072 5523 3 chr7A.!!$F4 1451
5 TraesCS2A01G382000 chr7B 263811089 263813327 2238 True 3352.000000 3352 93.725000 1607 3844 1 chr7B.!!$R3 2237
6 TraesCS2A01G382000 chr7B 263946088 263946932 844 True 1190.000000 1190 92.199000 764 1603 1 chr7B.!!$R4 839
7 TraesCS2A01G382000 chr7B 263670861 263671667 806 True 1048.000000 1048 90.617000 4723 5506 1 chr7B.!!$R1 783
8 TraesCS2A01G382000 chr7B 263685245 263685797 552 True 604.000000 604 87.365000 3840 4360 1 chr7B.!!$R2 520
9 TraesCS2A01G382000 chr7D 273855591 273857012 1421 False 2008.000000 2008 92.292000 495 1906 1 chr7D.!!$F2 1411
10 TraesCS2A01G382000 chr7D 274065373 274069502 4129 False 1829.000000 2922 94.397500 1905 4307 2 chr7D.!!$F3 2402
11 TraesCS2A01G382000 chr7D 274255663 274258997 3334 False 302.500000 582 91.423250 4723 5510 4 chr7D.!!$F4 787
12 TraesCS2A01G382000 chr4B 193798129 193798635 506 False 457.000000 457 83.562000 5644 6134 1 chr4B.!!$F1 490

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
844 873 1.066143 CAGTGCGGTTCTTATCCACCT 60.066 52.381 0.00 0.0 0.00 4.00 F
1789 1836 1.340889 TCTTTTGGATGGCTGTGCAAC 59.659 47.619 0.00 0.0 37.35 4.17 F
2224 2271 2.232208 CCTCCTGATTTTTCTGTTGGCC 59.768 50.000 0.00 0.0 0.00 5.36 F
3944 5763 1.942657 CGCATGCATACTAGCCAAAGT 59.057 47.619 19.57 0.0 0.00 2.66 F
4211 6030 1.013596 TGTGTGCTGTCAAAGGAACG 58.986 50.000 0.00 0.0 0.00 3.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2838 4618 1.064166 CATGGATCTGGTGAGGGCTTT 60.064 52.381 0.0 0.00 0.00 3.51 R
3249 5037 0.041684 CCCAGCCCTTCCCTTCATTT 59.958 55.000 0.0 0.00 0.00 2.32 R
3967 5786 1.078143 GTACTGAAGCAGGCCCCAG 60.078 63.158 0.0 1.94 35.51 4.45 R
5007 6895 1.674611 CGCGACAGTACTTGCTTCCG 61.675 60.000 0.0 0.00 0.00 4.30 R
5973 12460 0.615850 GGCCTTCAAGTACCTCTGCT 59.384 55.000 0.0 0.00 0.00 4.24 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
41 42 7.173218 AGTCTCGTGTACATTCATGTTTTCATT 59.827 33.333 0.00 0.00 41.97 2.57
273 274 6.415702 TCGTAGTGTTTTGAAGTCGAATTTG 58.584 36.000 0.00 0.00 0.00 2.32
286 287 6.377327 AGTCGAATTTGTGTTCATTTGAGT 57.623 33.333 0.00 0.00 0.00 3.41
349 350 3.795688 ACCATATAGTCCAAGGGCATG 57.204 47.619 0.00 0.00 0.00 4.06
487 506 3.190118 ACAGCATAGCTCAAAAGAACTGC 59.810 43.478 0.00 0.00 36.40 4.40
503 522 1.229496 TGCCCCTTAGTCAGCAGGA 60.229 57.895 0.00 0.00 30.81 3.86
574 600 3.075641 GGACCCCTCCACCTCGAC 61.076 72.222 0.00 0.00 36.42 4.20
606 632 3.481903 CGCACTCGCATTCGCACT 61.482 61.111 0.00 0.00 38.40 4.40
640 669 3.009115 CCCGCTCCCTTCCCTTGA 61.009 66.667 0.00 0.00 0.00 3.02
844 873 1.066143 CAGTGCGGTTCTTATCCACCT 60.066 52.381 0.00 0.00 0.00 4.00
867 896 3.062774 GCTACTTTCGTGCATTCCTCTTC 59.937 47.826 0.00 0.00 0.00 2.87
871 900 4.220821 ACTTTCGTGCATTCCTCTTCTCTA 59.779 41.667 0.00 0.00 0.00 2.43
887 916 8.929487 CCTCTTCTCTACTAGGGTTTCATAAAT 58.071 37.037 0.00 0.00 0.00 1.40
957 999 9.836864 ACTGATAATGCAAATACACATCTTCTA 57.163 29.630 0.00 0.00 0.00 2.10
1048 1090 3.120086 GCGTATGAGGCCATGGGGT 62.120 63.158 15.13 0.00 36.17 4.95
1119 1164 4.023291 ACAAGCTCTTTGAAAACTGGGAA 58.977 39.130 0.00 0.00 39.21 3.97
1184 1229 4.706476 CCTGGATAGCCAAAAGAATCAACA 59.294 41.667 0.00 0.00 45.41 3.33
1386 1431 2.170397 TGCTCGGTATGACATGGATGTT 59.830 45.455 0.00 0.00 41.95 2.71
1455 1500 4.328118 AAATCCCCAAGATGCTCTCTTT 57.672 40.909 0.06 0.00 41.60 2.52
1599 1644 1.483827 CCAGGCTAGAGCTGTTCATGA 59.516 52.381 0.00 0.00 41.70 3.07
1604 1649 3.944015 GGCTAGAGCTGTTCATGATTTGT 59.056 43.478 0.00 0.00 41.70 2.83
1770 1816 3.181476 TGCTTGGTTGCTTTCTTTCCTTC 60.181 43.478 0.00 0.00 0.00 3.46
1789 1836 1.340889 TCTTTTGGATGGCTGTGCAAC 59.659 47.619 0.00 0.00 37.35 4.17
2178 2225 9.981460 AAGGTCTTCAAAATAGTTGAGGATAAT 57.019 29.630 4.49 0.00 36.99 1.28
2224 2271 2.232208 CCTCCTGATTTTTCTGTTGGCC 59.768 50.000 0.00 0.00 0.00 5.36
2383 4163 5.122707 TGCTGTTGATGGGAATGGTAATA 57.877 39.130 0.00 0.00 0.00 0.98
2508 4288 4.833390 ACATAACGAAGGGAGAAGAAAGG 58.167 43.478 0.00 0.00 0.00 3.11
2523 4303 8.369424 GGAGAAGAAAGGGTTAGAATACCTATC 58.631 40.741 0.00 0.00 38.30 2.08
2838 4618 9.547753 GCTTGTCCTCTTGAAATATATAAGACA 57.452 33.333 0.00 0.00 0.00 3.41
3076 4863 7.004086 AGTTTCTTTATGGACCATTCTGTTCA 58.996 34.615 13.40 0.00 0.00 3.18
3113 4900 7.095144 GCCATTGACATCATTCATTTGTTTTGA 60.095 33.333 0.00 0.00 0.00 2.69
3182 4969 6.394809 TCAAAACTTCACTTTGTTCCCTTTC 58.605 36.000 0.00 0.00 35.65 2.62
3207 4994 2.504367 GGTGTCAACCTTGTAGCATGT 58.496 47.619 0.00 0.00 43.84 3.21
3581 5371 7.234187 TGCTATATTTGTACTTTTCGCTGAG 57.766 36.000 0.00 0.00 0.00 3.35
3718 5508 6.044046 GCAATTGATATTGATTTCTGCACCA 58.956 36.000 10.34 0.00 43.12 4.17
3944 5763 1.942657 CGCATGCATACTAGCCAAAGT 59.057 47.619 19.57 0.00 0.00 2.66
3992 5811 1.293498 CTGCTTCAGTACACCCGCT 59.707 57.895 0.00 0.00 0.00 5.52
4211 6030 1.013596 TGTGTGCTGTCAAAGGAACG 58.986 50.000 0.00 0.00 0.00 3.95
4242 6061 3.888930 TGTGGTGTCTCTATCATGCGATA 59.111 43.478 0.00 0.00 32.73 2.92
4338 6186 6.183361 GGAGAGGGAGTAGAAGATAGTAGGTT 60.183 46.154 0.00 0.00 0.00 3.50
4339 6187 7.228652 AGAGGGAGTAGAAGATAGTAGGTTT 57.771 40.000 0.00 0.00 0.00 3.27
4826 6674 1.343069 TGTTTGGGCGGCCTTATTTT 58.657 45.000 29.87 0.00 0.00 1.82
4959 6847 6.040166 AGTTGTGATTTCAGGATTATGGCATC 59.960 38.462 1.65 0.00 0.00 3.91
5007 6895 2.074547 AAGCATTTGACTGCATGTGC 57.925 45.000 0.00 0.00 44.77 4.57
5193 7085 3.235200 AGTGCAAGTCAGAACTAGAGGT 58.765 45.455 0.00 0.00 33.48 3.85
5197 7089 5.578727 GTGCAAGTCAGAACTAGAGGTATTG 59.421 44.000 0.00 0.00 33.48 1.90
5337 9752 1.030488 CCTGATGCAGAGCAAGTGGG 61.030 60.000 0.00 0.00 43.62 4.61
5351 9909 7.225538 CAGAGCAAGTGGGACTTAATTAGTATG 59.774 40.741 0.00 0.00 36.03 2.39
5575 12050 2.952310 AGAGTGGACCAAGCTTTCAAAC 59.048 45.455 0.00 0.00 0.00 2.93
5601 12076 7.148018 CCATGCAAGTTGGAATATTTAGACACT 60.148 37.037 0.00 0.00 36.26 3.55
5604 12079 7.446931 TGCAAGTTGGAATATTTAGACACTGAA 59.553 33.333 4.75 0.00 0.00 3.02
5665 12140 8.999220 AGATATGATGTTCATACATAGCACTG 57.001 34.615 15.34 0.00 44.90 3.66
5743 12221 2.544267 GGTAAGCAAAGCTACATAGGCG 59.456 50.000 0.00 0.00 38.25 5.52
5784 12262 2.939103 GCTTTGGTCATCGAGCTTATGT 59.061 45.455 9.16 0.00 32.54 2.29
5819 12300 2.174854 AGGAAGGCCAAGTAACAACACT 59.825 45.455 5.01 0.00 36.29 3.55
5852 12333 6.205853 TGTGGATTATAAACGCTGAAAACAGT 59.794 34.615 0.00 0.00 0.00 3.55
5853 12334 6.523201 GTGGATTATAAACGCTGAAAACAGTG 59.477 38.462 8.85 8.85 38.55 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 42 9.736414 ATACTTAGTGAGAACTTACTACTGTGA 57.264 33.333 6.07 0.00 32.41 3.58
74 75 0.250209 AATGCTAGCATCCAGAGGCG 60.250 55.000 29.67 0.00 43.74 5.52
250 251 6.138546 CACAAATTCGACTTCAAAACACTACG 59.861 38.462 0.00 0.00 0.00 3.51
253 254 5.949735 ACACAAATTCGACTTCAAAACACT 58.050 33.333 0.00 0.00 0.00 3.55
273 274 9.624697 TTATCATTTTGCTACTCAAATGAACAC 57.375 29.630 10.48 0.00 43.53 3.32
349 350 5.297547 TGTATGGTCAGTGAAAAGTCTGTC 58.702 41.667 0.00 0.00 33.89 3.51
423 426 3.686691 GCTCCTGTGGAAATAAGCTCCAT 60.687 47.826 0.00 0.00 44.69 3.41
487 506 0.107459 GCTTCCTGCTGACTAAGGGG 60.107 60.000 0.00 0.00 38.95 4.79
533 552 4.011517 GGACGACGCCAAGGGGAA 62.012 66.667 10.39 0.00 35.59 3.97
606 632 2.224159 GGTCAGGGGTTCTGGAGCA 61.224 63.158 0.00 0.00 43.53 4.26
640 669 3.911698 TCACAGACCTGCACGCGT 61.912 61.111 5.58 5.58 0.00 6.01
819 848 3.078837 GGATAAGAACCGCACTGGAAAA 58.921 45.455 0.00 0.00 42.00 2.29
957 999 1.475280 CCACTGCTATTTGTGCTGCAT 59.525 47.619 5.27 0.00 34.79 3.96
1048 1090 1.125093 TTCTTGGGGAAGCCGAGACA 61.125 55.000 0.00 0.00 0.00 3.41
1119 1164 2.122167 GCTCTCGTCCTCGATGGGT 61.122 63.158 0.00 0.00 45.21 4.51
1184 1229 1.750399 CGGCTAGTGGCAGGCATTT 60.750 57.895 0.00 0.00 44.01 2.32
1386 1431 6.615316 TGATGAGGGAGGTTTCATTATCACTA 59.385 38.462 0.00 0.00 34.33 2.74
1455 1500 1.423541 TCAGGCTTGGGCTCTTGTAAA 59.576 47.619 0.00 0.00 35.88 2.01
1770 1816 1.342174 AGTTGCACAGCCATCCAAAAG 59.658 47.619 0.00 0.00 0.00 2.27
1896 1943 6.985117 ACAATGTTCAATTAGCATGTTGTCT 58.015 32.000 0.00 0.00 0.00 3.41
2178 2225 2.094182 GGTCTTGTATGAGCGGAGACAA 60.094 50.000 0.00 0.00 38.72 3.18
2224 2271 4.324267 TGGCATATCTCATTCATCAGCTG 58.676 43.478 7.63 7.63 0.00 4.24
2523 4303 7.515957 ACTATCACTACCAAATTCGTTTACG 57.484 36.000 0.00 0.00 41.45 3.18
2838 4618 1.064166 CATGGATCTGGTGAGGGCTTT 60.064 52.381 0.00 0.00 0.00 3.51
2987 4767 9.601217 AAAAGTATAACAGCTGTGATAACCTAG 57.399 33.333 23.16 0.00 0.00 3.02
3076 4863 4.651962 TGATGTCAATGGCCATTCATCAAT 59.348 37.500 36.92 24.24 38.23 2.57
3113 4900 8.677148 ATGGAGCAAGAAACACGTTAATATAT 57.323 30.769 0.00 0.00 0.00 0.86
3207 4994 6.266786 TCACGGAATAATGGTAAGCTCATCTA 59.733 38.462 0.00 0.00 0.00 1.98
3249 5037 0.041684 CCCAGCCCTTCCCTTCATTT 59.958 55.000 0.00 0.00 0.00 2.32
3448 5236 5.828299 TTCCCATAAAATGTCGGATCAAC 57.172 39.130 0.00 0.00 0.00 3.18
3581 5371 6.473455 GGCAAAGCATTATTATCAGACACAAC 59.527 38.462 0.00 0.00 0.00 3.32
3718 5508 1.690352 AGCTGCAAATCAAGCACCTTT 59.310 42.857 1.02 0.00 37.02 3.11
3944 5763 9.130661 CCAGTTAATATTGTATGGGAATCAACA 57.869 33.333 0.00 0.00 0.00 3.33
3967 5786 1.078143 GTACTGAAGCAGGCCCCAG 60.078 63.158 0.00 1.94 35.51 4.45
4242 6061 2.977808 CCCTACAGGTCATGATAGGGT 58.022 52.381 23.26 12.20 42.29 4.34
4310 6158 5.701224 ACTATCTTCTACTCCCTCTCCAAG 58.299 45.833 0.00 0.00 0.00 3.61
4717 6565 9.803315 CAGCGAGCACCTTAATATTATAGATTA 57.197 33.333 0.00 0.00 0.00 1.75
4718 6566 8.531982 TCAGCGAGCACCTTAATATTATAGATT 58.468 33.333 0.00 0.00 0.00 2.40
4719 6567 8.067751 TCAGCGAGCACCTTAATATTATAGAT 57.932 34.615 0.00 0.00 0.00 1.98
4720 6568 7.462571 TCAGCGAGCACCTTAATATTATAGA 57.537 36.000 0.00 0.00 0.00 1.98
4721 6569 8.709386 ATTCAGCGAGCACCTTAATATTATAG 57.291 34.615 0.00 0.00 0.00 1.31
4726 6574 5.368145 TGAATTCAGCGAGCACCTTAATAT 58.632 37.500 3.38 0.00 0.00 1.28
4826 6674 6.611613 TTTCAAATGTTGCCAACCCATATA 57.388 33.333 4.90 0.00 0.00 0.86
4843 6691 8.672815 TCTACATGCACAATTCGATATTTCAAA 58.327 29.630 0.00 0.00 0.00 2.69
4959 6847 5.118990 AGGTCATCAGTACCATCAAAATCG 58.881 41.667 0.00 0.00 39.64 3.34
5007 6895 1.674611 CGCGACAGTACTTGCTTCCG 61.675 60.000 0.00 0.00 0.00 4.30
5037 6928 4.895668 AAGGGTGGACGTACTTGAATTA 57.104 40.909 0.00 0.00 0.00 1.40
5193 7085 2.288666 GCTCTTGACCGAATGCCAATA 58.711 47.619 0.00 0.00 0.00 1.90
5197 7089 2.464459 CCGCTCTTGACCGAATGCC 61.464 63.158 0.00 0.00 0.00 4.40
5337 9752 9.204570 ACTGACAACACACATACTAATTAAGTC 57.795 33.333 0.00 0.00 39.80 3.01
5351 9909 2.893637 AGTGACAGACTGACAACACAC 58.106 47.619 10.08 8.93 31.75 3.82
5448 10007 8.378565 ACTAAAATTGACATGGAAAGAGAGAGA 58.621 33.333 0.00 0.00 0.00 3.10
5451 10010 9.617975 GAAACTAAAATTGACATGGAAAGAGAG 57.382 33.333 0.00 0.00 0.00 3.20
5558 12033 2.151502 TGGTTTGAAAGCTTGGTCCA 57.848 45.000 8.67 2.39 0.00 4.02
5575 12050 6.974622 GTGTCTAAATATTCCAACTTGCATGG 59.025 38.462 4.44 1.17 39.41 3.66
5601 12076 8.034215 CCTTATGCTTCAATGGTTTTATGTTCA 58.966 33.333 0.00 0.00 0.00 3.18
5604 12079 6.667414 TCCCTTATGCTTCAATGGTTTTATGT 59.333 34.615 0.00 0.00 0.00 2.29
5743 12221 7.441760 CCAAAGCTATCTATATGATGCATCTCC 59.558 40.741 26.32 2.39 36.65 3.71
5784 12262 4.468510 TGGCCTTCCTTTATCTCGAGTTAA 59.531 41.667 13.13 11.99 0.00 2.01
5819 12300 5.356751 AGCGTTTATAATCCACATTGCTTCA 59.643 36.000 0.00 0.00 0.00 3.02
5852 12333 3.797184 GCTTACATTTTGAACCAACGGCA 60.797 43.478 0.00 0.00 0.00 5.69
5853 12334 2.729360 GCTTACATTTTGAACCAACGGC 59.271 45.455 0.00 0.00 0.00 5.68
5939 12425 4.446385 CCGATGAATAATTGGCTTGCAATG 59.554 41.667 0.00 0.00 32.77 2.82
5973 12460 0.615850 GGCCTTCAAGTACCTCTGCT 59.384 55.000 0.00 0.00 0.00 4.24


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

AutoCloner maintained by Alex Coulton.