Multiple sequence alignment - TraesCS2A01G052200

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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 TraesCS2A01G052200 chr2A 100.000 3486 0 0 1 3486 20632677 20629192 0.000000e+00 6438.0
1 TraesCS2A01G052200 chr2A 91.667 72 6 0 753 824 20724923 20724852 2.210000e-17 100.0
2 TraesCS2A01G052200 chr2D 98.276 1276 20 2 2212 3486 19217298 19218572 0.000000e+00 2233.0
3 TraesCS2A01G052200 chr2D 94.264 802 23 6 1398 2196 19216533 19217314 0.000000e+00 1205.0
4 TraesCS2A01G052200 chr2D 85.163 674 60 21 72 713 19213848 19214513 0.000000e+00 654.0
5 TraesCS2A01G052200 chr2D 91.247 457 31 4 2211 2663 19505406 19505857 6.390000e-172 614.0
6 TraesCS2A01G052200 chr2D 83.051 708 68 19 84 748 19485348 19486046 2.320000e-166 595.0
7 TraesCS2A01G052200 chr2D 95.699 93 4 0 747 839 19216288 19216380 2.170000e-32 150.0
8 TraesCS2A01G052200 chr2D 88.421 95 6 3 743 837 19486363 19486452 3.680000e-20 110.0
9 TraesCS2A01G052200 chr2D 86.585 82 10 1 72 152 19213590 19213671 4.790000e-14 89.8
10 TraesCS2A01G052200 chr2B 84.316 899 83 26 1338 2196 32058005 32058885 0.000000e+00 826.0
11 TraesCS2A01G052200 chr2B 91.868 455 28 7 2211 2660 32058868 32059318 8.210000e-176 627.0
12 TraesCS2A01G052200 chr2B 87.423 485 46 14 237 713 32055334 32055811 8.510000e-151 544.0
13 TraesCS2A01G052200 chr2B 85.579 527 27 20 837 1341 32057426 32057925 1.120000e-139 507.0
14 TraesCS2A01G052200 chr2B 89.552 268 17 3 837 1104 32039693 32039949 2.590000e-86 329.0
15 TraesCS2A01G052200 chr2B 87.313 268 23 4 837 1104 31850183 31850439 2.630000e-76 296.0
16 TraesCS2A01G052200 chr2B 88.757 169 18 1 1 168 32038559 32038727 4.560000e-49 206.0
17 TraesCS2A01G052200 chr2B 85.714 168 24 0 1 168 32055168 32055335 9.940000e-41 178.0
18 TraesCS2A01G052200 chr2B 83.117 154 8 9 839 985 31818589 31818731 1.310000e-24 124.0
19 TraesCS2A01G052200 chr2B 86.139 101 6 1 747 839 32039562 32039662 6.160000e-18 102.0
20 TraesCS2A01G052200 chr2B 89.744 78 8 0 747 824 31850048 31850125 2.210000e-17 100.0


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 TraesCS2A01G052200 chr2A 20629192 20632677 3485 True 6438.000000 6438 100.000000 1 3486 1 chr2A.!!$R1 3485
1 TraesCS2A01G052200 chr2D 19213590 19218572 4982 False 866.360000 2233 91.997400 72 3486 5 chr2D.!!$F2 3414
2 TraesCS2A01G052200 chr2D 19485348 19486452 1104 False 352.500000 595 85.736000 84 837 2 chr2D.!!$F3 753
3 TraesCS2A01G052200 chr2B 32055168 32059318 4150 False 536.400000 826 86.980000 1 2660 5 chr2B.!!$F4 2659
4 TraesCS2A01G052200 chr2B 32038559 32039949 1390 False 212.333333 329 88.149333 1 1104 3 chr2B.!!$F3 1103

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
902 4112 0.815734 TAAGCCTCGTGTACTGCCTC 59.184 55.0 0.0 0.0 0.0 4.70 F
1186 4417 0.316689 CAAACCAACCTGCGTCGTTC 60.317 55.0 0.0 0.0 0.0 3.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2155 5507 0.322277 AGCTCACCACAAGGCATCTG 60.322 55.0 0.00 0.0 39.06 2.90 R
2995 6351 1.029408 ACGCGCAGAGAGATCAGTCT 61.029 55.0 5.73 0.0 37.42 3.24 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
26 28 1.406069 CCAGAGGTCAGGGTCAAATCG 60.406 57.143 0.00 0.00 0.00 3.34
31 33 4.225267 AGAGGTCAGGGTCAAATCGTAAAT 59.775 41.667 0.00 0.00 0.00 1.40
38 40 1.400494 GTCAAATCGTAAATGCGGCCT 59.600 47.619 0.00 0.00 0.00 5.19
39 41 2.610374 GTCAAATCGTAAATGCGGCCTA 59.390 45.455 0.00 0.00 0.00 3.93
69 71 5.031578 CCGTTTCTTCGATTTTCACAAACA 58.968 37.500 0.00 0.00 0.00 2.83
102 104 4.612412 GACACGTTGGGTCGGCCA 62.612 66.667 9.07 0.00 36.17 5.36
103 105 3.894547 GACACGTTGGGTCGGCCAT 62.895 63.158 9.07 0.00 36.17 4.40
154 415 3.609703 AAAAAGGGTGTGCACGCA 58.390 50.000 29.97 2.32 45.43 5.24
155 416 2.123409 AAAAAGGGTGTGCACGCAT 58.877 47.368 29.97 16.27 45.43 4.73
161 422 1.029408 GGGTGTGCACGCATGGATTA 61.029 55.000 29.97 0.00 42.92 1.75
213 474 2.671351 CGCACTACAAGTAGGACACCAG 60.671 54.545 11.57 0.00 37.49 4.00
232 493 4.043310 ACCAGCCCACTTGTGCATATATAT 59.957 41.667 0.00 0.00 0.00 0.86
233 494 5.250543 ACCAGCCCACTTGTGCATATATATA 59.749 40.000 0.00 0.00 0.00 0.86
385 647 9.753674 ACCTTTTCCAGATTCATGAACTATTTA 57.246 29.630 11.07 0.00 0.00 1.40
435 697 7.518731 TTGTGAACTTTTCTTTCAAAATCGG 57.481 32.000 0.00 0.00 34.78 4.18
436 698 6.857956 TGTGAACTTTTCTTTCAAAATCGGA 58.142 32.000 0.00 0.00 34.78 4.55
560 849 4.927425 TGCACTTATCTAAAAGTCGGTGAC 59.073 41.667 0.00 0.00 37.61 3.67
619 913 7.915397 CCGATGAACTATTTTCAAAATAGGTGG 59.085 37.037 26.63 17.10 35.18 4.61
763 3930 3.425659 TCTACAGCATCACAGTGTCTCT 58.574 45.455 0.00 0.00 0.00 3.10
902 4112 0.815734 TAAGCCTCGTGTACTGCCTC 59.184 55.000 0.00 0.00 0.00 4.70
903 4113 2.202623 GCCTCGTGTACTGCCTCG 60.203 66.667 0.00 0.00 0.00 4.63
904 4114 2.202623 CCTCGTGTACTGCCTCGC 60.203 66.667 0.00 0.00 0.00 5.03
905 4115 2.202623 CTCGTGTACTGCCTCGCC 60.203 66.667 0.00 0.00 0.00 5.54
906 4116 2.675423 TCGTGTACTGCCTCGCCT 60.675 61.111 0.00 0.00 0.00 5.52
907 4117 2.202623 CGTGTACTGCCTCGCCTC 60.203 66.667 0.00 0.00 0.00 4.70
1036 4255 0.326595 TGTTAGAAAGATGCCGGCCA 59.673 50.000 26.77 12.96 0.00 5.36
1047 4266 3.402681 CCGGCCATGGGTCTCAGT 61.403 66.667 15.13 0.00 0.00 3.41
1125 4344 1.688884 TCGGCTCATGTCCCATGGA 60.689 57.895 15.22 0.00 0.00 3.41
1126 4345 1.056125 TCGGCTCATGTCCCATGGAT 61.056 55.000 15.22 0.00 32.73 3.41
1140 4359 1.138859 CATGGATCTCCGGTAAGCACA 59.861 52.381 0.00 0.00 39.43 4.57
1143 4362 1.603172 GGATCTCCGGTAAGCACATCG 60.603 57.143 0.00 0.00 0.00 3.84
1180 4411 4.011046 GTTGCAAACCAACCTGCG 57.989 55.556 0.00 0.00 46.44 5.18
1186 4417 0.316689 CAAACCAACCTGCGTCGTTC 60.317 55.000 0.00 0.00 0.00 3.95
1192 4423 0.892755 AACCTGCGTCGTTCCATCTA 59.107 50.000 0.00 0.00 0.00 1.98
1199 4430 5.064198 CCTGCGTCGTTCCATCTAATTTAAA 59.936 40.000 0.00 0.00 0.00 1.52
1200 4431 6.238374 CCTGCGTCGTTCCATCTAATTTAAAT 60.238 38.462 0.00 0.00 0.00 1.40
1230 4461 6.429692 TCTGTCAAATCAATCACCGTTGTATT 59.570 34.615 0.00 0.00 0.00 1.89
1232 4463 6.860539 TGTCAAATCAATCACCGTTGTATTTG 59.139 34.615 0.00 0.00 37.59 2.32
1234 4465 8.018520 GTCAAATCAATCACCGTTGTATTTGTA 58.981 33.333 15.55 7.55 37.55 2.41
1236 4467 9.009327 CAAATCAATCACCGTTGTATTTGTATC 57.991 33.333 0.00 0.00 35.22 2.24
1238 4469 7.915293 TCAATCACCGTTGTATTTGTATCTT 57.085 32.000 0.00 0.00 0.00 2.40
1239 4470 8.330466 TCAATCACCGTTGTATTTGTATCTTT 57.670 30.769 0.00 0.00 0.00 2.52
1240 4471 9.438228 TCAATCACCGTTGTATTTGTATCTTTA 57.562 29.630 0.00 0.00 0.00 1.85
1241 4472 9.702726 CAATCACCGTTGTATTTGTATCTTTAG 57.297 33.333 0.00 0.00 0.00 1.85
1300 4532 5.368256 TCGACTGTTGGAGAAGTTACTAC 57.632 43.478 0.00 0.00 0.00 2.73
1369 4684 8.434589 TTTTTGGGAACTATTGGATCTTCATT 57.565 30.769 0.00 0.00 0.00 2.57
1380 4695 5.901413 TGGATCTTCATTCTGAGCCTAAT 57.099 39.130 0.00 0.00 39.29 1.73
1381 4696 6.257994 TGGATCTTCATTCTGAGCCTAATT 57.742 37.500 0.00 0.00 39.29 1.40
1382 4697 6.666678 TGGATCTTCATTCTGAGCCTAATTT 58.333 36.000 0.00 0.00 39.29 1.82
1385 4700 7.716998 GGATCTTCATTCTGAGCCTAATTTGTA 59.283 37.037 0.00 0.00 36.01 2.41
1394 4725 5.488341 TGAGCCTAATTTGTACACTCCTTC 58.512 41.667 0.00 0.00 0.00 3.46
1397 4728 4.250464 CCTAATTTGTACACTCCTTCGCA 58.750 43.478 0.00 0.00 0.00 5.10
1411 4742 4.442706 TCCTTCGCAGTTTATGAGATTCC 58.557 43.478 0.00 0.00 37.58 3.01
1414 4745 5.049818 CCTTCGCAGTTTATGAGATTCCATC 60.050 44.000 0.00 0.00 37.58 3.51
1451 4782 2.052766 CAATCGATCGCTTGCGCC 60.053 61.111 17.64 3.90 0.00 6.53
1482 4813 4.792513 ATTCTGAAGAGAAGATGGCCAT 57.207 40.909 20.96 20.96 41.62 4.40
1583 4914 3.806521 GTGGAAGATGATTGAGATGACCG 59.193 47.826 0.00 0.00 0.00 4.79
1584 4915 3.181462 TGGAAGATGATTGAGATGACCGG 60.181 47.826 0.00 0.00 0.00 5.28
1645 4976 1.469126 CGAGGTAAATGCGACGACGG 61.469 60.000 9.67 0.00 40.15 4.79
1748 5095 2.100087 TCGCTGCAACGTGGATTCTATA 59.900 45.455 9.64 0.00 0.00 1.31
1752 5099 5.004821 CGCTGCAACGTGGATTCTATATATC 59.995 44.000 0.25 0.00 0.00 1.63
1815 5162 2.693074 AGGGCGCTCTTTTTCTGAAAAA 59.307 40.909 22.74 22.74 37.99 1.94
1896 5243 5.399301 CGGAAAACAATGCTAAAACTGTCAG 59.601 40.000 0.00 0.00 0.00 3.51
1915 5262 7.014615 ACTGTCAGAATCCATGCTTTTAACTTT 59.985 33.333 6.91 0.00 0.00 2.66
2118 5467 7.070447 TCACTTGCCTCTTGAGTATATCTGATT 59.930 37.037 0.00 0.00 0.00 2.57
2119 5468 7.171167 CACTTGCCTCTTGAGTATATCTGATTG 59.829 40.741 0.00 0.00 0.00 2.67
2120 5469 6.983906 TGCCTCTTGAGTATATCTGATTGA 57.016 37.500 0.00 0.00 0.00 2.57
2124 5475 9.282569 GCCTCTTGAGTATATCTGATTGAAAAT 57.717 33.333 0.00 0.00 0.00 1.82
2164 5516 2.610438 ATTGACAACCCAGATGCCTT 57.390 45.000 0.00 0.00 0.00 4.35
2179 5531 1.002430 TGCCTTGTGGTGAGCTCTTAG 59.998 52.381 16.19 3.22 35.27 2.18
2180 5532 1.731720 CCTTGTGGTGAGCTCTTAGC 58.268 55.000 16.19 5.76 42.84 3.09
2181 5533 4.573318 GCCTTGTGGTGAGCTCTTAGCT 62.573 54.545 16.19 0.00 45.01 3.32
2182 5534 5.992025 GCCTTGTGGTGAGCTCTTAGCTT 62.992 52.174 16.19 0.00 43.42 3.74
2183 5535 6.661647 GCCTTGTGGTGAGCTCTTAGCTTA 62.662 50.000 16.19 0.00 43.42 3.09
2184 5536 7.879957 GCCTTGTGGTGAGCTCTTAGCTTAT 62.880 48.000 16.19 0.00 43.42 1.73
2195 5547 6.851222 GCTCTTAGCTTATTTGAGCATACA 57.149 37.500 15.92 0.00 46.41 2.29
2196 5548 6.654122 GCTCTTAGCTTATTTGAGCATACAC 58.346 40.000 15.92 0.00 46.41 2.90
2197 5549 6.293135 GCTCTTAGCTTATTTGAGCATACACC 60.293 42.308 15.92 0.00 46.41 4.16
2198 5550 6.649155 TCTTAGCTTATTTGAGCATACACCA 58.351 36.000 0.00 0.00 45.12 4.17
2199 5551 6.763135 TCTTAGCTTATTTGAGCATACACCAG 59.237 38.462 0.00 0.00 45.12 4.00
2200 5552 3.629398 AGCTTATTTGAGCATACACCAGC 59.371 43.478 0.00 0.00 45.12 4.85
2201 5553 3.378112 GCTTATTTGAGCATACACCAGCA 59.622 43.478 0.00 0.00 42.25 4.41
2202 5554 4.142403 GCTTATTTGAGCATACACCAGCAA 60.142 41.667 0.00 0.00 42.25 3.91
2203 5555 5.622007 GCTTATTTGAGCATACACCAGCAAA 60.622 40.000 0.00 0.00 42.25 3.68
2204 5556 4.870123 ATTTGAGCATACACCAGCAAAA 57.130 36.364 0.00 0.00 0.00 2.44
2205 5557 4.662468 TTTGAGCATACACCAGCAAAAA 57.338 36.364 0.00 0.00 0.00 1.94
2240 5592 6.656314 TTGAGCGTACAATGTGGTTATAAG 57.344 37.500 0.00 0.00 0.00 1.73
2576 5930 4.423625 AGAGACCTGTTTGTTTAGCACT 57.576 40.909 0.00 0.00 0.00 4.40
2909 6265 2.131776 TTTTGGTCGTGTCTTGGGTT 57.868 45.000 0.00 0.00 0.00 4.11
2923 6279 3.957497 TCTTGGGTTGCTTCTTGCTTTTA 59.043 39.130 0.00 0.00 43.37 1.52
2995 6351 4.321718 CTCAGTCAAATCAGAGCCTTTCA 58.678 43.478 0.00 0.00 0.00 2.69
3050 6406 0.106268 TTTTCACTTGGAGGCCTGCA 60.106 50.000 24.87 24.87 0.00 4.41
3152 6508 6.070481 TGTCAGGAGCTTACATACCAACATAA 60.070 38.462 0.00 0.00 0.00 1.90
3328 6684 6.675987 AGTTTTGCAGAGAGATTGTTTCATC 58.324 36.000 0.00 0.00 0.00 2.92
3468 6824 0.395862 TTTGGGGTCTGCGAAAACCA 60.396 50.000 0.00 0.00 37.28 3.67
3473 6829 1.444119 GGTCTGCGAAAACCACAGCA 61.444 55.000 0.00 0.00 35.53 4.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 1.745232 AGGCCGCATTTACGATTTGA 58.255 45.000 0.00 0.00 34.06 2.69
26 28 0.660300 GCGCAATAGGCCGCATTTAC 60.660 55.000 0.30 0.00 40.26 2.01
38 40 0.390078 TCGAAGAAACGGGCGCAATA 60.390 50.000 10.83 0.00 0.00 1.90
39 41 1.024579 ATCGAAGAAACGGGCGCAAT 61.025 50.000 10.83 0.00 43.58 3.56
152 413 2.910688 TCCCGAGTTCTAATCCATGC 57.089 50.000 0.00 0.00 0.00 4.06
154 415 2.907042 GGGATCCCGAGTTCTAATCCAT 59.093 50.000 17.02 0.00 38.10 3.41
155 416 2.090719 AGGGATCCCGAGTTCTAATCCA 60.091 50.000 25.48 0.00 41.95 3.41
161 422 1.455959 CCGAGGGATCCCGAGTTCT 60.456 63.158 25.48 6.38 41.95 3.01
213 474 8.279970 TGAAATATATATATGCACAAGTGGGC 57.720 34.615 6.00 0.00 46.69 5.36
334 596 6.375377 TCGTGGATTTTGGAAAATAAGTTCG 58.625 36.000 0.00 1.12 38.64 3.95
393 655 8.519526 AGTTCACAAACTTGAAAATAGTTCACA 58.480 29.630 0.00 0.00 43.28 3.58
413 675 7.647715 TCATCCGATTTTGAAAGAAAAGTTCAC 59.352 33.333 0.00 0.00 34.78 3.18
539 828 5.721232 AGGTCACCGACTTTTAGATAAGTG 58.279 41.667 0.00 0.00 38.43 3.16
737 1071 2.928757 CACTGTGATGCTGTAGAGCTTC 59.071 50.000 17.85 17.85 46.39 3.86
902 4112 0.737715 CTCGTTTCCTTCCAGAGGCG 60.738 60.000 0.00 0.00 45.87 5.52
903 4113 0.391793 CCTCGTTTCCTTCCAGAGGC 60.392 60.000 0.00 0.00 45.87 4.70
905 4115 0.321671 TGCCTCGTTTCCTTCCAGAG 59.678 55.000 0.00 0.00 0.00 3.35
906 4116 0.762418 TTGCCTCGTTTCCTTCCAGA 59.238 50.000 0.00 0.00 0.00 3.86
907 4117 1.160137 CTTGCCTCGTTTCCTTCCAG 58.840 55.000 0.00 0.00 0.00 3.86
1011 4230 3.619038 CCGGCATCTTTCTAACAAGAGAC 59.381 47.826 0.00 0.00 36.22 3.36
1036 4255 3.461773 CGGCGGACTGAGACCCAT 61.462 66.667 0.00 0.00 0.00 4.00
1125 4344 0.249489 GCGATGTGCTTACCGGAGAT 60.249 55.000 9.46 0.00 41.73 2.75
1126 4345 1.141019 GCGATGTGCTTACCGGAGA 59.859 57.895 9.46 0.00 41.73 3.71
1176 4407 5.712217 TTAAATTAGATGGAACGACGCAG 57.288 39.130 0.00 0.00 0.00 5.18
1199 4430 7.050377 ACGGTGATTGATTTGACAGATAAGAT 58.950 34.615 0.00 0.00 0.00 2.40
1200 4431 6.406370 ACGGTGATTGATTTGACAGATAAGA 58.594 36.000 0.00 0.00 0.00 2.10
1230 4461 4.461431 TCGAGACAGCCACTAAAGATACAA 59.539 41.667 0.00 0.00 0.00 2.41
1232 4463 4.634184 TCGAGACAGCCACTAAAGATAC 57.366 45.455 0.00 0.00 0.00 2.24
1234 4465 3.181471 CCATCGAGACAGCCACTAAAGAT 60.181 47.826 0.00 0.00 0.00 2.40
1236 4467 2.093973 ACCATCGAGACAGCCACTAAAG 60.094 50.000 0.00 0.00 0.00 1.85
1238 4469 1.204704 CACCATCGAGACAGCCACTAA 59.795 52.381 0.00 0.00 0.00 2.24
1239 4470 0.817654 CACCATCGAGACAGCCACTA 59.182 55.000 0.00 0.00 0.00 2.74
1240 4471 1.593787 CACCATCGAGACAGCCACT 59.406 57.895 0.00 0.00 0.00 4.00
1241 4472 1.448540 CCACCATCGAGACAGCCAC 60.449 63.158 0.00 0.00 0.00 5.01
1311 4543 8.716674 ATGCCAAATCTGAATAAACCTCATAT 57.283 30.769 0.00 0.00 0.00 1.78
1314 4546 7.118723 ACTATGCCAAATCTGAATAAACCTCA 58.881 34.615 0.00 0.00 0.00 3.86
1316 4548 8.052748 TGTACTATGCCAAATCTGAATAAACCT 58.947 33.333 0.00 0.00 0.00 3.50
1332 4564 6.280855 AGTTCCCAAAAATTGTACTATGCC 57.719 37.500 0.00 0.00 0.00 4.40
1333 4565 9.301153 CAATAGTTCCCAAAAATTGTACTATGC 57.699 33.333 0.00 0.00 32.78 3.14
1369 4684 4.777896 AGGAGTGTACAAATTAGGCTCAGA 59.222 41.667 0.00 0.00 0.00 3.27
1394 4725 5.936686 ATGATGGAATCTCATAAACTGCG 57.063 39.130 0.00 0.00 45.81 5.18
1397 4728 9.484806 AAGGAAAATGATGGAATCTCATAAACT 57.515 29.630 0.00 0.00 45.81 2.66
1411 4742 9.603921 ATTGCCTACAAATTAAGGAAAATGATG 57.396 29.630 5.77 0.00 39.77 3.07
1414 4745 7.973388 TCGATTGCCTACAAATTAAGGAAAATG 59.027 33.333 5.77 0.38 39.77 2.32
1426 4757 2.309528 AGCGATCGATTGCCTACAAA 57.690 45.000 29.89 0.00 39.77 2.83
1451 4782 4.737855 TCTCTTCAGAATAAACCTCCGG 57.262 45.455 0.00 0.00 0.00 5.14
1482 4813 2.616001 CGGTTTATTTCCTCCCGAACCA 60.616 50.000 0.00 0.00 41.08 3.67
1583 4914 1.930908 GCTGCAGCCATGACTTGTCC 61.931 60.000 28.76 0.00 34.31 4.02
1584 4915 1.505353 GCTGCAGCCATGACTTGTC 59.495 57.895 28.76 0.00 34.31 3.18
1752 5099 8.876275 AACGGGAAATAATTTTGATCATCATG 57.124 30.769 0.00 0.00 0.00 3.07
1766 5113 3.499157 CGGTCTCAACAAACGGGAAATAA 59.501 43.478 0.00 0.00 0.00 1.40
1896 5243 9.274065 CGTAGTTAAAGTTAAAAGCATGGATTC 57.726 33.333 0.00 0.00 0.00 2.52
1915 5262 7.681939 AAAAGAAAAGATCATGGCGTAGTTA 57.318 32.000 0.00 0.00 0.00 2.24
2138 5490 3.342377 TCTGGGTTGTCAATATGCGAA 57.658 42.857 0.00 0.00 0.00 4.70
2155 5507 0.322277 AGCTCACCACAAGGCATCTG 60.322 55.000 0.00 0.00 39.06 2.90
2179 5531 3.378112 TGCTGGTGTATGCTCAAATAAGC 59.622 43.478 0.00 0.00 42.82 3.09
2180 5532 5.565592 TTGCTGGTGTATGCTCAAATAAG 57.434 39.130 0.00 0.00 0.00 1.73
2181 5533 5.973899 TTTGCTGGTGTATGCTCAAATAA 57.026 34.783 0.00 0.00 0.00 1.40
2182 5534 5.973899 TTTTGCTGGTGTATGCTCAAATA 57.026 34.783 0.00 0.00 0.00 1.40
2183 5535 4.870123 TTTTGCTGGTGTATGCTCAAAT 57.130 36.364 0.00 0.00 0.00 2.32
2184 5536 4.662468 TTTTTGCTGGTGTATGCTCAAA 57.338 36.364 0.00 0.00 0.00 2.69
2202 5554 7.422399 TGTACGCTCAAATAAGCTTTCTTTTT 58.578 30.769 3.20 0.00 40.23 1.94
2203 5555 6.966021 TGTACGCTCAAATAAGCTTTCTTTT 58.034 32.000 3.20 0.00 40.23 2.27
2204 5556 6.554334 TGTACGCTCAAATAAGCTTTCTTT 57.446 33.333 3.20 2.37 40.23 2.52
2205 5557 6.554334 TTGTACGCTCAAATAAGCTTTCTT 57.446 33.333 3.20 0.00 40.23 2.52
2206 5558 6.149474 ACATTGTACGCTCAAATAAGCTTTCT 59.851 34.615 3.20 0.00 40.23 2.52
2207 5559 6.249260 CACATTGTACGCTCAAATAAGCTTTC 59.751 38.462 3.20 0.00 40.23 2.62
2208 5560 6.086222 CACATTGTACGCTCAAATAAGCTTT 58.914 36.000 3.20 0.00 40.23 3.51
2209 5561 5.391950 CCACATTGTACGCTCAAATAAGCTT 60.392 40.000 3.48 3.48 40.23 3.74
2210 5562 4.094887 CCACATTGTACGCTCAAATAAGCT 59.905 41.667 0.00 0.00 40.23 3.74
2576 5930 8.749354 AGATACACATATGAACTGTACAGACAA 58.251 33.333 29.30 13.41 34.35 3.18
2733 6089 1.271054 GCTGGTGAGGTCTGTTGATGT 60.271 52.381 0.00 0.00 0.00 3.06
2742 6098 4.416738 GGCCTGGCTGGTGAGGTC 62.417 72.222 19.68 0.00 38.35 3.85
2995 6351 1.029408 ACGCGCAGAGAGATCAGTCT 61.029 55.000 5.73 0.00 37.42 3.24
3024 6380 2.294074 CCTCCAAGTGAAAACGGTTGA 58.706 47.619 0.00 0.00 0.00 3.18
3050 6406 4.345257 TCAAGCCTTCAGAGTTTAGACACT 59.655 41.667 0.00 0.00 0.00 3.55
3182 6538 6.610075 ATTTCCCATGTATTTTGCTCTTGT 57.390 33.333 0.00 0.00 0.00 3.16
3328 6684 1.135972 GGTGTAATTCAGCGCAGTGTG 60.136 52.381 11.47 0.00 34.84 3.82


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

AutoCloner maintained by Alex Coulton.