Multiple sequence alignment - TraesCS3D01G208800

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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 TraesCS3D01G208800 chr3D 100.000 1838 0 0 526 2363 275891329 275889492 0.000000e+00 3395.0
1 TraesCS3D01G208800 chr3D 100.000 346 0 0 1 346 275891854 275891509 7.120000e-180 640.0
2 TraesCS3D01G208800 chr3A 91.779 1557 85 25 559 2091 364527830 364529367 0.000000e+00 2126.0
3 TraesCS3D01G208800 chr3A 86.761 355 38 2 1 346 364527161 364527515 1.020000e-103 387.0
4 TraesCS3D01G208800 chr3A 90.541 296 18 6 2062 2357 364530172 364530457 1.330000e-102 383.0
5 TraesCS3D01G208800 chr3B 95.716 1097 33 4 673 1768 363325180 363324097 0.000000e+00 1753.0
6 TraesCS3D01G208800 chr3B 83.794 253 9 7 1767 2009 363323973 363323743 6.620000e-51 211.0
7 TraesCS3D01G208800 chr3B 92.424 66 3 2 1650 1715 394456903 394456840 2.500000e-15 93.5
8 TraesCS3D01G208800 chrUn 94.915 59 2 1 1650 1708 414538893 414538836 8.990000e-15 91.6
9 TraesCS3D01G208800 chr5D 94.915 59 2 1 1650 1708 6164763 6164706 8.990000e-15 91.6
10 TraesCS3D01G208800 chr5D 94.915 59 2 1 1650 1708 6262755 6262698 8.990000e-15 91.6
11 TraesCS3D01G208800 chr5D 94.915 59 2 1 1650 1708 6263270 6263213 8.990000e-15 91.6
12 TraesCS3D01G208800 chr1D 94.915 59 2 1 1650 1708 254447187 254447244 8.990000e-15 91.6
13 TraesCS3D01G208800 chr1D 90.909 66 4 2 1650 1715 246464306 246464369 1.160000e-13 87.9


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 TraesCS3D01G208800 chr3D 275889492 275891854 2362 True 2017.500000 3395 100.000000 1 2363 2 chr3D.!!$R1 2362
1 TraesCS3D01G208800 chr3A 364527161 364530457 3296 False 965.333333 2126 89.693667 1 2357 3 chr3A.!!$F1 2356
2 TraesCS3D01G208800 chr3B 363323743 363325180 1437 True 982.000000 1753 89.755000 673 2009 2 chr3B.!!$R2 1336

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
335 344 0.523966 GCGATCGGTAGAGATGGAGG 59.476 60.0 18.3 0.0 0.0 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2318 3414 0.537188 CACACCTTCTACATCGGGCT 59.463 55.0 0.0 0.0 0.0 5.19 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
44 45 8.697960 CATACACATCGAATTTAGACATGAGAG 58.302 37.037 0.00 0.00 0.00 3.20
45 46 6.045318 ACACATCGAATTTAGACATGAGAGG 58.955 40.000 0.00 0.00 0.00 3.69
96 97 7.336679 AGGCCATTTTATTTAATCAAAACAGGC 59.663 33.333 5.01 19.47 42.09 4.85
98 99 8.510505 GCCATTTTATTTAATCAAAACAGGCAA 58.489 29.630 21.00 0.00 42.23 4.52
117 118 7.877097 ACAGGCAATTGCAAGTCAATAAATAAA 59.123 29.630 30.32 0.00 44.23 1.40
168 169 7.268586 TCAAATACAGTCCAGAAGATAAGAGC 58.731 38.462 0.00 0.00 0.00 4.09
171 172 5.275067 ACAGTCCAGAAGATAAGAGCATC 57.725 43.478 0.00 0.00 0.00 3.91
211 212 7.169982 AGCTAATATTAGTCACTAAAGCTTGCG 59.830 37.037 20.89 0.00 34.67 4.85
220 221 1.565156 TAAAGCTTGCGGACGTGCTG 61.565 55.000 5.27 0.00 35.79 4.41
231 232 2.531206 GGACGTGCTGAGTTAGTGATC 58.469 52.381 0.00 0.00 0.00 2.92
288 297 5.530915 TGCATGTAACTATGGCCTTTACATC 59.469 40.000 20.49 16.92 42.07 3.06
289 298 5.765182 GCATGTAACTATGGCCTTTACATCT 59.235 40.000 20.49 7.85 42.07 2.90
292 301 8.686334 CATGTAACTATGGCCTTTACATCTTTT 58.314 33.333 20.49 6.86 42.07 2.27
317 326 8.732413 TCTAAATTATTCGATCAAATGCATGC 57.268 30.769 11.82 11.82 0.00 4.06
321 330 2.955607 TCGATCAAATGCATGCGATC 57.044 45.000 20.94 20.94 0.00 3.69
332 341 1.988063 CATGCGATCGGTAGAGATGG 58.012 55.000 18.30 0.00 0.00 3.51
335 344 0.523966 GCGATCGGTAGAGATGGAGG 59.476 60.000 18.30 0.00 0.00 4.30
337 346 1.271434 CGATCGGTAGAGATGGAGGGA 60.271 57.143 7.38 0.00 0.00 4.20
577 689 8.985315 TGATGTAAATATCAGAATTTCCAGCT 57.015 30.769 0.00 0.00 32.39 4.24
584 696 1.734465 CAGAATTTCCAGCTCGGTCAC 59.266 52.381 2.68 0.00 35.57 3.67
586 698 2.026822 AGAATTTCCAGCTCGGTCACAT 60.027 45.455 2.68 0.00 35.57 3.21
587 699 3.197766 AGAATTTCCAGCTCGGTCACATA 59.802 43.478 2.68 0.00 35.57 2.29
588 700 2.672961 TTTCCAGCTCGGTCACATAG 57.327 50.000 2.68 0.00 35.57 2.23
606 718 4.351111 ACATAGGGACAAAGTGAGAGGTTT 59.649 41.667 0.00 0.00 0.00 3.27
610 722 4.141158 AGGGACAAAGTGAGAGGTTTGATT 60.141 41.667 1.98 0.00 37.16 2.57
617 729 5.041191 AGTGAGAGGTTTGATTGAGTGTT 57.959 39.130 0.00 0.00 0.00 3.32
644 762 7.979115 TTTTTACTTTTCCGTTCAGACAATG 57.021 32.000 0.00 0.00 0.00 2.82
645 763 6.687081 TTTACTTTTCCGTTCAGACAATGT 57.313 33.333 0.00 0.00 0.00 2.71
653 772 1.537202 GTTCAGACAATGTGGGCAGTC 59.463 52.381 0.00 0.00 0.00 3.51
659 778 3.264193 AGACAATGTGGGCAGTCTGATTA 59.736 43.478 3.32 0.00 39.67 1.75
662 781 3.834489 ATGTGGGCAGTCTGATTAGAG 57.166 47.619 3.32 0.00 32.48 2.43
671 790 4.081420 GCAGTCTGATTAGAGGTTTGAGGA 60.081 45.833 3.32 0.00 32.48 3.71
775 895 3.181483 GGCAATTCCTGATGTCATGGAAC 60.181 47.826 6.75 0.00 41.87 3.62
866 986 4.376146 CACAATTTCCCAACAACCGAAAT 58.624 39.130 0.00 0.00 37.72 2.17
907 1027 4.228210 TCCCTCTGCTGTTTAATTGATCCT 59.772 41.667 0.00 0.00 0.00 3.24
908 1028 4.578105 CCCTCTGCTGTTTAATTGATCCTC 59.422 45.833 0.00 0.00 0.00 3.71
909 1029 4.578105 CCTCTGCTGTTTAATTGATCCTCC 59.422 45.833 0.00 0.00 0.00 4.30
910 1030 5.178096 TCTGCTGTTTAATTGATCCTCCA 57.822 39.130 0.00 0.00 0.00 3.86
911 1031 5.188434 TCTGCTGTTTAATTGATCCTCCAG 58.812 41.667 0.00 0.00 0.00 3.86
977 1097 3.044894 GAGGAACAGAATCCCATCTCCT 58.955 50.000 0.00 0.00 40.59 3.69
1143 1263 2.758089 CCAGTACGAGTACGGCGCT 61.758 63.158 6.90 0.00 44.46 5.92
1181 1304 2.450243 GGTGGTGGAGGAGGAGGA 59.550 66.667 0.00 0.00 0.00 3.71
1182 1305 1.687493 GGTGGTGGAGGAGGAGGAG 60.687 68.421 0.00 0.00 0.00 3.69
1183 1306 1.687493 GTGGTGGAGGAGGAGGAGG 60.687 68.421 0.00 0.00 0.00 4.30
1356 1479 2.753966 GCACCTCGTCTACGGCGTA 61.754 63.158 19.80 19.80 40.29 4.42
1414 1537 1.001487 CAGAGCAGATCGATCGAGCTT 60.001 52.381 33.55 19.63 39.00 3.74
1472 1595 4.669206 TTTGTTTGTGATGCTTGACCAT 57.331 36.364 0.00 0.00 0.00 3.55
1659 1782 6.222389 TGTTGATGCTTGGTTTTTCCTTATG 58.778 36.000 0.00 0.00 37.07 1.90
1708 1831 5.600696 ACATCAACAACTTCAAATTGGACC 58.399 37.500 0.00 0.00 0.00 4.46
1715 1838 7.176589 ACAACTTCAAATTGGACCAAGTTTA 57.823 32.000 16.98 7.18 35.57 2.01
1879 2127 4.580580 GGAAACCTGTATTCTTATGCCAGG 59.419 45.833 0.00 0.00 34.74 4.45
1882 2130 3.181465 ACCTGTATTCTTATGCCAGGTCG 60.181 47.826 3.88 0.00 36.98 4.79
2027 2286 8.344831 TCATCAAAAGGATATAAACGCAATGAG 58.655 33.333 0.00 0.00 33.95 2.90
2029 2288 6.094742 TCAAAAGGATATAAACGCAATGAGCA 59.905 34.615 0.00 0.00 46.13 4.26
2092 3188 5.218885 CCAACGCACAAAGACAAAATATCA 58.781 37.500 0.00 0.00 0.00 2.15
2096 3192 4.616802 CGCACAAAGACAAAATATCACACC 59.383 41.667 0.00 0.00 0.00 4.16
2104 3200 3.572255 ACAAAATATCACACCGGCAACTT 59.428 39.130 0.00 0.00 0.00 2.66
2129 3225 2.907703 TTTTTGTTGGCTGGGCAGA 58.092 47.368 0.00 0.00 0.00 4.26
2133 3229 1.708993 TTGTTGGCTGGGCAGAGTCT 61.709 55.000 0.00 0.00 0.00 3.24
2142 3238 3.325753 GCAGAGTCTGGCTGGGGT 61.326 66.667 21.54 0.00 34.00 4.95
2143 3239 2.985456 CAGAGTCTGGCTGGGGTC 59.015 66.667 12.67 0.00 0.00 4.46
2144 3240 1.915266 CAGAGTCTGGCTGGGGTCA 60.915 63.158 12.67 0.00 0.00 4.02
2145 3241 1.081833 AGAGTCTGGCTGGGGTCAT 59.918 57.895 0.00 0.00 0.00 3.06
2146 3242 0.339859 AGAGTCTGGCTGGGGTCATA 59.660 55.000 0.00 0.00 0.00 2.15
2210 3306 6.784473 TGATTTCATCCTCCTAATCTAGCTGA 59.216 38.462 0.00 0.00 0.00 4.26
2211 3307 6.662865 TTTCATCCTCCTAATCTAGCTGAG 57.337 41.667 0.00 0.00 0.00 3.35
2220 3316 6.139671 TCCTAATCTAGCTGAGAGGAAACAT 58.860 40.000 0.00 0.00 37.64 2.71
2226 3322 6.810911 TCTAGCTGAGAGGAAACATAATCAC 58.189 40.000 0.00 0.00 0.00 3.06
2236 3332 9.606631 AGAGGAAACATAATCACTTTCTATCAC 57.393 33.333 0.00 0.00 0.00 3.06
2282 3378 0.677288 TGTGGTGAACCTACCTCACG 59.323 55.000 0.37 0.00 43.45 4.35
2299 3395 1.338337 CACGTGAGAGAGGAGTGTTGT 59.662 52.381 10.90 0.00 0.00 3.32
2318 3414 7.993183 AGTGTTGTAGGAAAAAGAGAAAGATCA 59.007 33.333 0.00 0.00 0.00 2.92
2325 3421 3.922171 AAAGAGAAAGATCAGCCCGAT 57.078 42.857 0.00 0.00 36.91 4.18
2348 3444 2.788191 GAAGGTGTGACAGCCCTCCG 62.788 65.000 11.60 0.00 31.60 4.63
2357 3453 1.301558 CAGCCCTCCGATGCTCATC 60.302 63.158 0.00 0.00 35.12 2.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 8.572185 TCTAAGATCCTCTCATGTCTAAATTCG 58.428 37.037 0.00 0.00 0.00 3.34
33 34 6.126332 ACCTGTCTAAGATCCTCTCATGTCTA 60.126 42.308 0.00 0.00 0.00 2.59
44 45 5.692654 GCTAAATTCGACCTGTCTAAGATCC 59.307 44.000 0.00 0.00 0.00 3.36
45 46 6.273825 TGCTAAATTCGACCTGTCTAAGATC 58.726 40.000 0.00 0.00 0.00 2.75
133 134 8.311395 TCTGGACTGTATTTGATCACTAGAAT 57.689 34.615 0.00 0.00 0.00 2.40
136 137 7.776107 TCTTCTGGACTGTATTTGATCACTAG 58.224 38.462 0.00 0.00 0.00 2.57
138 139 6.611613 TCTTCTGGACTGTATTTGATCACT 57.388 37.500 0.00 0.00 0.00 3.41
144 145 7.044181 TGCTCTTATCTTCTGGACTGTATTTG 58.956 38.462 0.00 0.00 0.00 2.32
195 196 1.797025 GTCCGCAAGCTTTAGTGACT 58.203 50.000 0.00 0.00 0.00 3.41
202 203 2.591715 AGCACGTCCGCAAGCTTT 60.592 55.556 0.00 0.00 32.52 3.51
205 206 3.782244 CTCAGCACGTCCGCAAGC 61.782 66.667 0.36 0.00 0.00 4.01
207 208 0.666274 CTAACTCAGCACGTCCGCAA 60.666 55.000 0.36 0.00 0.00 4.85
208 209 1.080772 CTAACTCAGCACGTCCGCA 60.081 57.895 0.36 0.00 0.00 5.69
211 212 2.531206 GATCACTAACTCAGCACGTCC 58.469 52.381 0.00 0.00 0.00 4.79
220 221 2.442424 GACGTGCTCGATCACTAACTC 58.558 52.381 16.04 3.38 40.62 3.01
231 232 1.200839 GTCAAAACGGACGTGCTCG 59.799 57.895 5.27 6.63 43.34 5.03
292 301 7.534918 CGCATGCATTTGATCGAATAATTTAGA 59.465 33.333 19.57 0.00 0.00 2.10
302 311 2.955607 GATCGCATGCATTTGATCGA 57.044 45.000 19.57 12.39 0.00 3.59
305 314 1.311859 ACCGATCGCATGCATTTGAT 58.688 45.000 19.57 11.97 0.00 2.57
307 316 1.866601 TCTACCGATCGCATGCATTTG 59.133 47.619 19.57 7.78 0.00 2.32
312 321 1.344458 CATCTCTACCGATCGCATGC 58.656 55.000 10.32 7.91 0.00 4.06
314 323 1.815613 CTCCATCTCTACCGATCGCAT 59.184 52.381 10.32 2.10 0.00 4.73
317 326 1.169577 CCCTCCATCTCTACCGATCG 58.830 60.000 8.51 8.51 0.00 3.69
321 330 3.906720 TTTTTCCCTCCATCTCTACCG 57.093 47.619 0.00 0.00 0.00 4.02
535 544 8.395241 ATTTACATCAAATATGGGGAAGTCCCG 61.395 40.741 10.34 0.00 45.79 5.14
536 545 6.782494 ATTTACATCAAATATGGGGAAGTCCC 59.218 38.462 7.97 7.97 44.41 4.46
537 546 7.839680 ATTTACATCAAATATGGGGAAGTCC 57.160 36.000 0.00 0.00 34.99 3.85
551 560 9.412460 AGCTGGAAATTCTGATATTTACATCAA 57.588 29.630 9.25 0.00 37.62 2.57
552 561 8.985315 AGCTGGAAATTCTGATATTTACATCA 57.015 30.769 9.25 0.00 37.62 3.07
553 562 8.226448 CGAGCTGGAAATTCTGATATTTACATC 58.774 37.037 0.00 6.83 37.62 3.06
554 563 7.173907 CCGAGCTGGAAATTCTGATATTTACAT 59.826 37.037 0.00 0.23 37.62 2.29
555 564 6.483307 CCGAGCTGGAAATTCTGATATTTACA 59.517 38.462 0.00 8.76 42.00 2.41
556 565 6.483640 ACCGAGCTGGAAATTCTGATATTTAC 59.516 38.462 8.91 0.00 42.00 2.01
557 566 6.591935 ACCGAGCTGGAAATTCTGATATTTA 58.408 36.000 8.91 0.00 42.00 1.40
564 676 1.734465 GTGACCGAGCTGGAAATTCTG 59.266 52.381 8.91 0.00 42.00 3.02
577 689 2.028476 CACTTTGTCCCTATGTGACCGA 60.028 50.000 0.00 0.00 31.60 4.69
584 696 4.559862 AACCTCTCACTTTGTCCCTATG 57.440 45.455 0.00 0.00 0.00 2.23
586 698 3.971305 TCAAACCTCTCACTTTGTCCCTA 59.029 43.478 0.00 0.00 0.00 3.53
587 699 2.777692 TCAAACCTCTCACTTTGTCCCT 59.222 45.455 0.00 0.00 0.00 4.20
588 700 3.208747 TCAAACCTCTCACTTTGTCCC 57.791 47.619 0.00 0.00 0.00 4.46
624 736 4.513692 CCACATTGTCTGAACGGAAAAGTA 59.486 41.667 0.00 0.00 0.00 2.24
625 737 3.315191 CCACATTGTCTGAACGGAAAAGT 59.685 43.478 0.00 0.00 0.00 2.66
626 738 3.304659 CCCACATTGTCTGAACGGAAAAG 60.305 47.826 0.00 0.00 0.00 2.27
632 750 0.518636 CTGCCCACATTGTCTGAACG 59.481 55.000 0.00 0.00 0.00 3.95
636 754 1.162698 CAGACTGCCCACATTGTCTG 58.837 55.000 7.44 7.44 46.45 3.51
642 760 2.437281 CCTCTAATCAGACTGCCCACAT 59.563 50.000 0.00 0.00 0.00 3.21
643 761 1.833630 CCTCTAATCAGACTGCCCACA 59.166 52.381 0.00 0.00 0.00 4.17
644 762 1.834263 ACCTCTAATCAGACTGCCCAC 59.166 52.381 0.00 0.00 0.00 4.61
645 763 2.254152 ACCTCTAATCAGACTGCCCA 57.746 50.000 0.00 0.00 0.00 5.36
653 772 4.440802 CGGACTCCTCAAACCTCTAATCAG 60.441 50.000 0.00 0.00 0.00 2.90
659 778 1.718280 AACGGACTCCTCAAACCTCT 58.282 50.000 0.00 0.00 0.00 3.69
662 781 1.963172 ACAAACGGACTCCTCAAACC 58.037 50.000 0.00 0.00 0.00 3.27
775 895 5.639082 GTCTTGGAATAAAACCCAATTGCAG 59.361 40.000 0.00 0.00 41.16 4.41
866 986 1.546476 GGAGAGGAGAAAGTGAAGCGA 59.454 52.381 0.00 0.00 0.00 4.93
907 1027 1.651770 AGGTAGGAGGAATGGACTGGA 59.348 52.381 0.00 0.00 0.00 3.86
908 1028 1.765314 CAGGTAGGAGGAATGGACTGG 59.235 57.143 0.00 0.00 0.00 4.00
909 1029 1.139853 GCAGGTAGGAGGAATGGACTG 59.860 57.143 0.00 0.00 0.00 3.51
910 1030 1.501582 GCAGGTAGGAGGAATGGACT 58.498 55.000 0.00 0.00 0.00 3.85
911 1031 0.470341 GGCAGGTAGGAGGAATGGAC 59.530 60.000 0.00 0.00 0.00 4.02
977 1097 1.391157 AACAAAAAGCAGCGGCAGGA 61.391 50.000 12.44 0.00 44.61 3.86
1143 1263 3.640407 GTCACCTGCCCTGCTCCA 61.640 66.667 0.00 0.00 0.00 3.86
1181 1304 2.022718 AGACTTGCTCCTCTTCACCT 57.977 50.000 0.00 0.00 0.00 4.00
1182 1305 3.855858 CTTAGACTTGCTCCTCTTCACC 58.144 50.000 0.00 0.00 0.00 4.02
1183 1306 3.258228 GCTTAGACTTGCTCCTCTTCAC 58.742 50.000 0.00 0.00 0.00 3.18
1224 1347 4.873129 CGCTCCATGTCCGGGTCG 62.873 72.222 0.00 0.00 0.00 4.79
1513 1636 8.727910 CATTGACATCATGAAGAAGAAGAAGAA 58.272 33.333 4.68 0.00 0.00 2.52
1514 1637 8.098912 TCATTGACATCATGAAGAAGAAGAAGA 58.901 33.333 4.68 0.00 0.00 2.87
1515 1638 8.176365 GTCATTGACATCATGAAGAAGAAGAAG 58.824 37.037 11.93 0.00 32.09 2.85
1580 1703 7.415381 CGATTGATTCGTTGAAGAATTGAAG 57.585 36.000 0.00 0.00 43.01 3.02
1715 1838 8.090788 TCCTAGAACCAGCTAATGTAAATCTT 57.909 34.615 0.00 0.00 0.00 2.40
1879 2127 1.212616 GCTATGTCACAGCCATCGAC 58.787 55.000 0.00 0.00 32.68 4.20
2009 2268 6.147821 GTGTATGCTCATTGCGTTTATATCCT 59.852 38.462 0.00 0.00 46.63 3.24
2012 2271 5.762711 TGGTGTATGCTCATTGCGTTTATAT 59.237 36.000 0.00 0.00 46.63 0.86
2015 2274 3.339141 TGGTGTATGCTCATTGCGTTTA 58.661 40.909 0.00 0.00 46.63 2.01
2020 2279 4.644103 AAGATTGGTGTATGCTCATTGC 57.356 40.909 0.00 0.00 43.25 3.56
2027 2286 7.874940 TCTAATATGCAAAGATTGGTGTATGC 58.125 34.615 0.00 0.00 0.00 3.14
2056 2316 4.788690 TGTGCGTTGGTGTTATTTATGTG 58.211 39.130 0.00 0.00 0.00 3.21
2064 3160 2.357075 TGTCTTTGTGCGTTGGTGTTA 58.643 42.857 0.00 0.00 0.00 2.41
2092 3188 1.391157 AATGTGCAAGTTGCCGGTGT 61.391 50.000 24.59 4.00 44.23 4.16
2118 3214 3.324930 CCAGACTCTGCCCAGCCA 61.325 66.667 0.00 0.00 0.00 4.75
2126 3222 1.270414 ATGACCCCAGCCAGACTCTG 61.270 60.000 0.00 0.00 0.00 3.35
2129 3225 2.795291 TATATGACCCCAGCCAGACT 57.205 50.000 0.00 0.00 0.00 3.24
2133 3229 1.073763 GTGCATATATGACCCCAGCCA 59.926 52.381 17.10 0.00 0.00 4.75
2137 3233 3.941704 TTGTGTGCATATATGACCCCA 57.058 42.857 17.10 1.88 0.00 4.96
2138 3234 6.892658 TTTATTGTGTGCATATATGACCCC 57.107 37.500 17.10 0.00 0.00 4.95
2139 3235 7.711846 TGTTTTATTGTGTGCATATATGACCC 58.288 34.615 17.10 4.28 0.00 4.46
2140 3236 9.184062 CATGTTTTATTGTGTGCATATATGACC 57.816 33.333 17.10 6.06 0.00 4.02
2141 3237 9.734620 ACATGTTTTATTGTGTGCATATATGAC 57.265 29.630 17.10 11.57 0.00 3.06
2146 3242 9.033481 GCAATACATGTTTTATTGTGTGCATAT 57.967 29.630 17.13 0.00 38.62 1.78
2210 3306 9.606631 GTGATAGAAAGTGATTATGTTTCCTCT 57.393 33.333 0.00 0.00 31.68 3.69
2211 3307 8.543774 CGTGATAGAAAGTGATTATGTTTCCTC 58.456 37.037 0.00 0.00 31.68 3.71
2226 3322 8.587950 GTGACACTAATTCTTCGTGATAGAAAG 58.412 37.037 0.00 0.00 35.43 2.62
2236 3332 7.759886 TGAATAAGAGGTGACACTAATTCTTCG 59.240 37.037 5.39 0.00 0.00 3.79
2273 3369 2.285083 CTCCTCTCTCACGTGAGGTAG 58.715 57.143 37.82 31.97 46.30 3.18
2282 3378 3.422796 TCCTACAACACTCCTCTCTCAC 58.577 50.000 0.00 0.00 0.00 3.51
2299 3395 5.501156 GGGCTGATCTTTCTCTTTTTCCTA 58.499 41.667 0.00 0.00 0.00 2.94
2318 3414 0.537188 CACACCTTCTACATCGGGCT 59.463 55.000 0.00 0.00 0.00 5.19
2325 3421 0.685097 GGGCTGTCACACCTTCTACA 59.315 55.000 0.00 0.00 0.00 2.74


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

AutoCloner maintained by Alex Coulton.