Multiple sequence alignment - TraesCS1B01G218500

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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 TraesCS1B01G218500 chr1B 100.000 3697 0 0 1 3697 395964132 395960436 0.000000e+00 6828.0
1 TraesCS1B01G218500 chr1B 93.088 2257 106 21 504 2729 399195601 399197838 0.000000e+00 3258.0
2 TraesCS1B01G218500 chr1B 82.857 105 16 2 3246 3348 384808083 384808187 3.930000e-15 93.5
3 TraesCS1B01G218500 chr1A 93.864 3406 150 24 337 3697 367009879 367006488 0.000000e+00 5077.0
4 TraesCS1B01G218500 chr1D 94.053 2438 97 21 597 2995 294210217 294207789 0.000000e+00 3655.0
5 TraesCS1B01G218500 chr1D 91.045 469 27 4 2998 3466 294204612 294204159 1.460000e-173 619.0
6 TraesCS1B01G218500 chr1D 85.041 615 50 19 1 601 294214774 294214188 4.110000e-164 588.0
7 TraesCS1B01G218500 chr2D 81.699 306 50 5 31 333 425735609 425735911 2.200000e-62 250.0
8 TraesCS1B01G218500 chr3D 81.905 105 16 3 239 341 50784809 50784706 6.580000e-13 86.1


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 TraesCS1B01G218500 chr1B 395960436 395964132 3696 True 6828.000000 6828 100.000000 1 3697 1 chr1B.!!$R1 3696
1 TraesCS1B01G218500 chr1B 399195601 399197838 2237 False 3258.000000 3258 93.088000 504 2729 1 chr1B.!!$F2 2225
2 TraesCS1B01G218500 chr1A 367006488 367009879 3391 True 5077.000000 5077 93.864000 337 3697 1 chr1A.!!$R1 3360
3 TraesCS1B01G218500 chr1D 294204159 294214774 10615 True 1620.666667 3655 90.046333 1 3466 3 chr1D.!!$R1 3465

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
244 252 0.250124 CCAGCAAGACGGGTGTTACA 60.250 55.0 0.0 0.0 34.56 2.41 F
1363 5366 0.037326 TTTAGCTCTCACACAGCCGG 60.037 55.0 0.0 0.0 37.63 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1660 5670 1.391485 CGAGATGCCAAGAAGTTGACG 59.609 52.381 0.00 0.0 35.46 4.35 R
3029 10246 0.608640 CGACTAGGCCAAGACCACTT 59.391 55.000 5.01 0.0 36.73 3.16 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
22 23 5.804692 ACTATGAGTGTGTCTAGAACTCG 57.195 43.478 15.16 6.70 42.65 4.18
29 30 2.880268 TGTGTCTAGAACTCGGTCGAAA 59.120 45.455 0.00 0.00 0.00 3.46
31 32 4.022589 TGTGTCTAGAACTCGGTCGAAAAT 60.023 41.667 0.00 0.00 0.00 1.82
34 35 4.558080 GTCTAGAACTCGGTCGAAAATGTC 59.442 45.833 0.00 0.00 0.00 3.06
36 37 3.724374 AGAACTCGGTCGAAAATGTCAA 58.276 40.909 0.00 0.00 0.00 3.18
47 48 6.915843 GGTCGAAAATGTCAACATAGTTTTGT 59.084 34.615 0.00 0.00 35.10 2.83
49 50 8.803799 GTCGAAAATGTCAACATAGTTTTGTTT 58.196 29.630 0.00 0.00 37.73 2.83
65 66 5.895636 TTTGTTTCTATGATTGGCACGAT 57.104 34.783 0.00 0.00 0.00 3.73
82 84 0.725784 GATTGGTGCTGCAAACGACG 60.726 55.000 2.77 0.00 0.00 5.12
97 99 5.693677 CAAACGACGATGAAAAATATTGCG 58.306 37.500 0.00 0.00 0.00 4.85
100 102 3.960002 CGACGATGAAAAATATTGCGACC 59.040 43.478 0.00 0.00 0.00 4.79
115 117 0.931702 CGACCGTACTGCAAACAACA 59.068 50.000 0.00 0.00 0.00 3.33
123 125 4.027783 CGTACTGCAAACAACAACAACATG 60.028 41.667 0.00 0.00 0.00 3.21
132 134 7.554732 CAAACAACAACAACATGTGCTATAAC 58.445 34.615 0.00 0.00 32.81 1.89
133 135 6.384258 ACAACAACAACATGTGCTATAACA 57.616 33.333 0.00 0.00 32.81 2.41
166 174 9.630098 ATTAAAATGCTACAACTGTCAATGAAG 57.370 29.630 0.00 0.00 0.00 3.02
170 178 8.565896 AATGCTACAACTGTCAATGAAGAATA 57.434 30.769 0.00 0.00 0.00 1.75
175 183 7.218228 ACAACTGTCAATGAAGAATATTGCA 57.782 32.000 0.00 0.00 35.90 4.08
190 198 0.605319 TTGCAACCGGTGAGATGACC 60.605 55.000 8.52 0.00 0.00 4.02
203 211 1.202580 AGATGACCTGCTACAATCGGC 60.203 52.381 0.00 0.00 0.00 5.54
229 237 1.860078 GACACGTGCTACAACCAGC 59.140 57.895 17.22 0.00 42.15 4.85
236 244 2.162716 GCTACAACCAGCAAGACGG 58.837 57.895 0.00 0.00 41.40 4.79
237 245 1.298859 GCTACAACCAGCAAGACGGG 61.299 60.000 0.00 0.00 41.40 5.28
241 249 2.915869 ACCAGCAAGACGGGTGTT 59.084 55.556 0.00 0.00 46.10 3.32
242 250 2.138595 ACCAGCAAGACGGGTGTTA 58.861 52.632 0.00 0.00 46.10 2.41
243 251 0.250166 ACCAGCAAGACGGGTGTTAC 60.250 55.000 0.00 0.00 46.10 2.50
244 252 0.250124 CCAGCAAGACGGGTGTTACA 60.250 55.000 0.00 0.00 34.56 2.41
245 253 1.588674 CAGCAAGACGGGTGTTACAA 58.411 50.000 0.00 0.00 0.00 2.41
246 254 1.263217 CAGCAAGACGGGTGTTACAAC 59.737 52.381 0.00 0.00 0.00 3.32
247 255 1.140252 AGCAAGACGGGTGTTACAACT 59.860 47.619 0.00 0.00 0.00 3.16
248 256 1.263217 GCAAGACGGGTGTTACAACTG 59.737 52.381 7.79 7.79 32.98 3.16
249 257 2.828877 CAAGACGGGTGTTACAACTGA 58.171 47.619 16.90 0.00 30.95 3.41
250 258 3.399330 CAAGACGGGTGTTACAACTGAT 58.601 45.455 16.90 0.99 30.95 2.90
251 259 4.562082 CAAGACGGGTGTTACAACTGATA 58.438 43.478 16.90 0.00 30.95 2.15
252 260 4.451629 AGACGGGTGTTACAACTGATAG 57.548 45.455 16.90 0.00 30.95 2.08
253 261 3.194968 AGACGGGTGTTACAACTGATAGG 59.805 47.826 16.90 0.00 30.95 2.57
285 293 5.508200 TGTAAACGATGGGATAAAATGCC 57.492 39.130 0.00 0.00 41.80 4.40
303 312 1.421485 CGCAGGTTGATTCAGACGC 59.579 57.895 0.00 0.00 0.00 5.19
311 320 3.126343 GGTTGATTCAGACGCGGTTAAAT 59.874 43.478 12.47 4.82 0.00 1.40
312 321 4.330620 GGTTGATTCAGACGCGGTTAAATA 59.669 41.667 12.47 0.00 0.00 1.40
317 326 4.380841 TCAGACGCGGTTAAATATGAGT 57.619 40.909 12.47 0.00 0.00 3.41
335 344 9.988815 AATATGAGTAGATTGAGTTTTAGCGAT 57.011 29.630 0.00 0.00 0.00 4.58
377 389 7.276218 CCGTTATAGGAACAGAAAAACATCGTA 59.724 37.037 0.00 0.00 0.00 3.43
378 390 8.649841 CGTTATAGGAACAGAAAAACATCGTAA 58.350 33.333 0.00 0.00 0.00 3.18
450 462 2.110899 TGTCTCTCCAACTCCTCTTCCT 59.889 50.000 0.00 0.00 0.00 3.36
756 4749 1.069765 CTGCTGGACACCGTTCACT 59.930 57.895 0.00 0.00 0.00 3.41
895 4888 2.159043 CCAACTGTCTCTGGCACGATAT 60.159 50.000 0.00 0.00 0.00 1.63
964 4957 0.259647 AGCTGCAAGGCCATATTCCA 59.740 50.000 5.01 0.00 0.00 3.53
1103 5106 2.473816 CGTGCTTGTTGACAGAGAAGA 58.526 47.619 0.00 0.00 0.00 2.87
1108 5111 4.512944 TGCTTGTTGACAGAGAAGATGTTC 59.487 41.667 0.00 0.00 0.00 3.18
1173 5176 0.678395 CAGCGCATCTCCCTAGTGAT 59.322 55.000 11.47 0.00 0.00 3.06
1239 5242 5.477984 TCCTACAGATGCTTTTCTTGCAAAT 59.522 36.000 0.00 0.00 44.01 2.32
1363 5366 0.037326 TTTAGCTCTCACACAGCCGG 60.037 55.000 0.00 0.00 37.63 6.13
1487 5490 1.334149 GGCACTCAAGAAACTTGCGTC 60.334 52.381 6.62 2.55 33.84 5.19
1530 5540 5.127031 ACCGTTTGCTTAATGGCTGATTTAT 59.873 36.000 9.47 0.00 45.35 1.40
1531 5541 6.320164 ACCGTTTGCTTAATGGCTGATTTATA 59.680 34.615 9.47 0.00 45.35 0.98
1532 5542 6.636850 CCGTTTGCTTAATGGCTGATTTATAC 59.363 38.462 0.00 0.00 36.15 1.47
1566 5576 3.708121 TCCTTCAATCTGCTGCATCTCTA 59.292 43.478 1.31 0.00 0.00 2.43
1568 5578 4.880120 CCTTCAATCTGCTGCATCTCTAAA 59.120 41.667 1.31 0.00 0.00 1.85
1573 5583 4.226427 TCTGCTGCATCTCTAAAATGGT 57.774 40.909 1.31 0.00 0.00 3.55
1624 5634 4.388165 CAGATTCATCTACTATGCGGCAAG 59.612 45.833 6.82 8.61 34.85 4.01
1660 5670 7.934120 ACTTTGGTTCCTGATAGCTATTATCAC 59.066 37.037 7.87 2.07 42.48 3.06
1805 5817 5.869649 AAGAACTGGTATGCCAAGTTTTT 57.130 34.783 15.12 13.40 45.51 1.94
1842 5858 8.593492 TTAGTTCATATGACCGAATTCTCATG 57.407 34.615 16.55 6.31 0.00 3.07
1856 5872 6.366061 CGAATTCTCATGTTACACTTGACTGA 59.634 38.462 3.52 0.00 30.47 3.41
1909 5950 2.349886 GTCTAGTTTTGCGCAGATCCTG 59.650 50.000 11.31 1.48 34.12 3.86
1992 6033 6.128956 CGGAAACATGAATTAAACGTGCAAAT 60.129 34.615 0.00 0.00 0.00 2.32
2076 6117 6.665992 TGAGTTCGGTTTATATGATAGCCT 57.334 37.500 0.00 0.00 0.00 4.58
2175 6216 9.195411 TCATTTAGCATGAATTGTGTTTTTCTC 57.805 29.630 0.00 0.00 0.00 2.87
2204 6245 4.597404 TCATTTAATTGTGTGGCAAGCA 57.403 36.364 0.00 0.00 40.86 3.91
2273 6314 7.178983 TCAGCTTTATTCCAATTGGATTTGAGT 59.821 33.333 27.53 11.89 44.98 3.41
2284 6325 7.310609 CCAATTGGATTTGAGTTACCAAGGATT 60.311 37.037 20.50 0.00 43.93 3.01
2366 6407 1.799403 TCAATGCATTTTTGCCTTGCG 59.201 42.857 9.83 0.00 39.27 4.85
2397 6439 7.830739 AGCTAATTACTGTTTCCTTTTGATGG 58.169 34.615 0.00 0.00 0.00 3.51
2420 6462 4.526970 CTGCTTGGTAATTAGGTGGATGT 58.473 43.478 0.00 0.00 0.00 3.06
2520 6562 4.546829 GGTAGAGACCCACACATTGTTA 57.453 45.455 0.00 0.00 40.23 2.41
2769 6811 7.489160 CCCTAACTTAGGCATTTTAATTGGTC 58.511 38.462 9.17 0.00 44.86 4.02
2956 6998 9.607285 CTACAAACTAGTTCGCAATTAAACAAT 57.393 29.630 8.95 0.00 0.00 2.71
2958 7000 9.953697 ACAAACTAGTTCGCAATTAAACAATAA 57.046 25.926 8.95 0.00 0.00 1.40
3029 10246 8.325787 AGTATAGATGATGGTTGTGGTTTTGTA 58.674 33.333 0.00 0.00 0.00 2.41
3042 10259 2.035449 GGTTTTGTAAGTGGTCTTGGCC 59.965 50.000 0.00 0.00 35.36 5.36
3161 10378 1.602668 GCGAAGTGCAAATTCAGCCAA 60.603 47.619 12.09 0.00 41.81 4.52
3185 10402 7.421087 ACCCAACTCTAGGTAGATTTACTTC 57.579 40.000 0.00 0.00 33.52 3.01
3192 10409 7.544915 ACTCTAGGTAGATTTACTTCGCAAAAC 59.455 37.037 0.00 0.00 0.00 2.43
3329 10546 2.575532 TGGTGGCTTCAAAGTCTTGAG 58.424 47.619 0.00 0.00 42.48 3.02
3361 10578 3.630769 TGAAGCTCCATCTCATTCATTGC 59.369 43.478 0.00 0.00 0.00 3.56
3369 10586 1.128507 TCTCATTCATTGCGCGTTCAC 59.871 47.619 8.43 0.00 0.00 3.18
3372 10589 0.168788 ATTCATTGCGCGTTCACCTG 59.831 50.000 8.43 0.00 0.00 4.00
3375 10592 1.301716 ATTGCGCGTTCACCTGAGT 60.302 52.632 8.43 0.00 0.00 3.41
3376 10593 1.291877 ATTGCGCGTTCACCTGAGTC 61.292 55.000 8.43 0.00 0.00 3.36
3415 10632 3.057806 TGCTTGATCATGCTTCAACACTG 60.058 43.478 27.81 0.92 33.23 3.66
3428 10645 2.503765 TCAACACTGGTCCTTCTTGTCA 59.496 45.455 0.00 0.00 0.00 3.58
3478 10695 9.467258 AAGTATGAACACATGAAATTTTCACAG 57.533 29.630 13.80 11.78 43.48 3.66
3491 10708 3.607422 TTTCACAGCAACATGTTCTCG 57.393 42.857 8.48 2.09 0.00 4.04
3507 10724 4.120589 GTTCTCGTGAATATTCCCCAGAC 58.879 47.826 12.90 3.21 34.40 3.51
3558 10775 2.102252 GTGGAAGCTCTAGTGAGGGATG 59.898 54.545 0.00 0.00 40.53 3.51
3562 10779 1.063341 AGCTCTAGTGAGGGATGCAGA 60.063 52.381 0.00 0.00 40.53 4.26
3564 10781 2.368221 GCTCTAGTGAGGGATGCAGATT 59.632 50.000 0.00 0.00 40.53 2.40
3567 10784 5.275052 CTCTAGTGAGGGATGCAGATTTGC 61.275 50.000 0.24 0.24 42.28 3.68
3583 10800 5.865552 CAGATTTGCGTGGATCTTGAAAATT 59.134 36.000 0.00 0.00 30.43 1.82
3599 10816 7.669722 TCTTGAAAATTAATAGTTGTGGAGGCT 59.330 33.333 0.00 0.00 0.00 4.58
3616 10833 2.041620 AGGCTGTGGGTGTAACAATCAT 59.958 45.455 0.00 0.00 39.98 2.45
3630 10847 7.281774 GTGTAACAATCATTGAGATGTCCTGAT 59.718 37.037 3.79 0.68 36.96 2.90
3638 10855 4.535526 TGAGATGTCCTGATCGAAAACA 57.464 40.909 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 2.174363 TCGACCGAGTTCTAGACACA 57.826 50.000 0.00 0.00 0.00 3.72
13 14 4.482386 TGACATTTTCGACCGAGTTCTAG 58.518 43.478 0.00 0.00 0.00 2.43
22 23 6.915843 ACAAAACTATGTTGACATTTTCGACC 59.084 34.615 1.46 0.00 37.80 4.79
34 35 8.863049 GCCAATCATAGAAACAAAACTATGTTG 58.137 33.333 0.00 4.00 42.49 3.33
36 37 8.028938 GTGCCAATCATAGAAACAAAACTATGT 58.971 33.333 0.00 0.00 43.42 2.29
47 48 4.096231 CACCAATCGTGCCAATCATAGAAA 59.904 41.667 0.00 0.00 35.18 2.52
49 50 3.205338 CACCAATCGTGCCAATCATAGA 58.795 45.455 0.00 0.00 35.18 1.98
65 66 1.163420 ATCGTCGTTTGCAGCACCAA 61.163 50.000 0.00 0.00 0.00 3.67
74 76 5.506485 TCGCAATATTTTTCATCGTCGTTTG 59.494 36.000 0.00 0.00 0.00 2.93
82 84 5.901884 CAGTACGGTCGCAATATTTTTCATC 59.098 40.000 0.00 0.00 0.00 2.92
97 99 2.096174 TGTTGTTGTTTGCAGTACGGTC 59.904 45.455 0.00 0.00 0.00 4.79
100 102 3.493272 TGTTGTTGTTGTTTGCAGTACG 58.507 40.909 0.00 0.00 0.00 3.67
115 117 9.709495 ATCAAAATTGTTATAGCACATGTTGTT 57.291 25.926 0.00 0.00 0.00 2.83
156 164 5.392919 CCGGTTGCAATATTCTTCATTGACA 60.393 40.000 0.59 0.00 35.77 3.58
166 174 3.876914 TCATCTCACCGGTTGCAATATTC 59.123 43.478 2.97 0.00 0.00 1.75
170 178 1.453155 GTCATCTCACCGGTTGCAAT 58.547 50.000 2.97 0.00 0.00 3.56
175 183 1.194781 AGCAGGTCATCTCACCGGTT 61.195 55.000 2.97 0.00 41.90 4.44
190 198 0.249447 TCCATCGCCGATTGTAGCAG 60.249 55.000 0.00 0.00 0.00 4.24
203 211 1.132199 GTAGCACGTGTCGTCCATCG 61.132 60.000 18.38 0.00 38.32 3.84
219 227 0.034896 ACCCGTCTTGCTGGTTGTAG 59.965 55.000 0.00 0.00 29.94 2.74
229 237 2.828877 TCAGTTGTAACACCCGTCTTG 58.171 47.619 0.00 0.00 0.00 3.02
231 239 3.194968 CCTATCAGTTGTAACACCCGTCT 59.805 47.826 0.00 0.00 0.00 4.18
234 242 3.880047 TCCTATCAGTTGTAACACCCG 57.120 47.619 0.00 0.00 0.00 5.28
235 243 6.887626 TTTTTCCTATCAGTTGTAACACCC 57.112 37.500 0.00 0.00 0.00 4.61
265 273 3.003897 GCGGCATTTTATCCCATCGTTTA 59.996 43.478 0.00 0.00 0.00 2.01
285 293 1.421485 GCGTCTGAATCAACCTGCG 59.579 57.895 0.00 0.00 0.00 5.18
302 311 7.948278 ACTCAATCTACTCATATTTAACCGC 57.052 36.000 0.00 0.00 0.00 5.68
311 320 8.082852 GGATCGCTAAAACTCAATCTACTCATA 58.917 37.037 0.00 0.00 0.00 2.15
312 321 6.926272 GGATCGCTAAAACTCAATCTACTCAT 59.074 38.462 0.00 0.00 0.00 2.90
317 326 4.098960 ACGGGATCGCTAAAACTCAATCTA 59.901 41.667 8.28 0.00 40.63 1.98
333 342 2.361438 ACGGAGATAGTTCAACGGGATC 59.639 50.000 0.00 0.00 0.00 3.36
335 344 1.843368 ACGGAGATAGTTCAACGGGA 58.157 50.000 0.00 0.00 0.00 5.14
377 389 2.539547 GCGCGATGTATTGCACAGATTT 60.540 45.455 12.10 0.00 41.51 2.17
378 390 1.003545 GCGCGATGTATTGCACAGATT 60.004 47.619 12.10 0.00 41.51 2.40
433 445 3.587498 TCAAAGGAAGAGGAGTTGGAGA 58.413 45.455 0.00 0.00 0.00 3.71
438 450 8.616799 AGAATACTATCAAAGGAAGAGGAGTT 57.383 34.615 0.00 0.00 0.00 3.01
895 4888 1.601419 CGAGGAAGCGGGGAACACTA 61.601 60.000 0.00 0.00 0.00 2.74
996 4989 1.591594 CGCGTACGCCCTCATGAAT 60.592 57.895 32.64 0.00 37.98 2.57
1021 5016 1.220206 CGGCCTCTTCAGCAGACAT 59.780 57.895 0.00 0.00 0.00 3.06
1103 5106 1.852067 GCGGTTTGCGTGGAGAACAT 61.852 55.000 0.00 0.00 0.00 2.71
1502 5505 4.461081 TCAGCCATTAAGCAAACGGTAATT 59.539 37.500 0.00 0.00 34.23 1.40
1506 5516 1.904287 TCAGCCATTAAGCAAACGGT 58.096 45.000 0.00 0.00 34.23 4.83
1530 5540 8.303876 GCAGATTGAAGGAAAACCAAAATAGTA 58.696 33.333 0.00 0.00 0.00 1.82
1531 5541 7.015584 AGCAGATTGAAGGAAAACCAAAATAGT 59.984 33.333 0.00 0.00 0.00 2.12
1532 5542 7.330208 CAGCAGATTGAAGGAAAACCAAAATAG 59.670 37.037 0.00 0.00 0.00 1.73
1595 5605 7.493971 GCCGCATAGTAGATGAATCTGATAAAT 59.506 37.037 2.99 0.00 37.76 1.40
1624 5634 4.885325 TCAGGAACCAAAGTAACCAAACTC 59.115 41.667 0.00 0.00 0.00 3.01
1660 5670 1.391485 CGAGATGCCAAGAAGTTGACG 59.609 52.381 0.00 0.00 35.46 4.35
1831 5847 6.366061 TCAGTCAAGTGTAACATGAGAATTCG 59.634 38.462 0.00 0.00 46.11 3.34
1856 5872 9.271828 CTTGCCAATGGTAAATTTCTAAAAACT 57.728 29.630 4.05 0.00 0.00 2.66
1868 5908 4.822896 AGACGTTTACTTGCCAATGGTAAA 59.177 37.500 4.05 0.00 34.42 2.01
1872 5912 4.000988 ACTAGACGTTTACTTGCCAATGG 58.999 43.478 0.00 0.00 0.00 3.16
1943 5984 6.293735 CGCCCTACTCTCTTTTAGTATCAGAG 60.294 46.154 0.00 0.00 37.27 3.35
1992 6033 5.747342 AGTGTGTAACCCAAAGTTAAGTGA 58.253 37.500 0.00 0.00 42.56 3.41
2076 6117 4.049186 GTGAAAGTTCAGTTGCTACTCGA 58.951 43.478 0.00 0.00 37.98 4.04
2175 6216 7.036829 TGCCACACAATTAAATGATTGATCTG 58.963 34.615 5.08 0.00 38.93 2.90
2204 6245 8.362639 ACAGAATTAGATGTTTCAGCAAAATGT 58.637 29.630 0.00 0.00 0.00 2.71
2356 6397 0.895100 AGCTTGGATCGCAAGGCAAA 60.895 50.000 19.31 0.00 38.47 3.68
2366 6407 7.631717 AAGGAAACAGTAATTAGCTTGGATC 57.368 36.000 0.00 0.00 0.00 3.36
2397 6439 2.999331 TCCACCTAATTACCAAGCAGC 58.001 47.619 0.00 0.00 0.00 5.25
2420 6462 5.692115 TTCCCATATACTCACAAGCAGAA 57.308 39.130 0.00 0.00 0.00 3.02
2520 6562 5.103643 AGGTAGGGTCTTTCCTGAAAAGTTT 60.104 40.000 0.00 0.00 44.07 2.66
2891 6933 1.475280 CTTCACCCCAATCGACGAGTA 59.525 52.381 3.01 0.00 0.00 2.59
3021 10238 2.035449 GGCCAAGACCACTTACAAAACC 59.965 50.000 0.00 0.00 34.70 3.27
3029 10246 0.608640 CGACTAGGCCAAGACCACTT 59.391 55.000 5.01 0.00 36.73 3.16
3042 10259 5.055642 TCATGTACTTGTCCAACGACTAG 57.944 43.478 8.46 1.05 44.48 2.57
3088 10305 7.215789 TCGTTTAGACATGGGTTTGTTTAGTA 58.784 34.615 0.00 0.00 0.00 1.82
3161 10378 6.096564 CGAAGTAAATCTACCTAGAGTTGGGT 59.903 42.308 5.48 0.00 40.39 4.51
3243 10460 8.080417 CACTTCATTATTTCATCCATAGCCTTG 58.920 37.037 0.00 0.00 0.00 3.61
3361 10578 1.444553 GGAGACTCAGGTGAACGCG 60.445 63.158 3.53 3.53 0.00 6.01
3375 10592 1.066858 GCATGGAAACTGAGACGGAGA 60.067 52.381 0.00 0.00 0.00 3.71
3376 10593 1.066573 AGCATGGAAACTGAGACGGAG 60.067 52.381 0.00 0.00 0.00 4.63
3388 10605 3.358118 TGAAGCATGATCAAGCATGGAA 58.642 40.909 23.62 3.14 44.47 3.53
3415 10632 3.274288 CCTAGCATTGACAAGAAGGACC 58.726 50.000 0.00 0.00 0.00 4.46
3428 10645 1.972872 CGAATGAAGGGCCTAGCATT 58.027 50.000 25.73 25.73 33.97 3.56
3463 10680 6.533819 ACATGTTGCTGTGAAAATTTCATG 57.466 33.333 11.87 9.07 42.47 3.07
3478 10695 5.266242 GGAATATTCACGAGAACATGTTGC 58.734 41.667 17.58 6.89 36.39 4.17
3491 10708 4.437682 TCCATGTCTGGGGAATATTCAC 57.562 45.455 17.07 13.49 43.34 3.18
3558 10775 1.739466 TCAAGATCCACGCAAATCTGC 59.261 47.619 0.00 0.00 45.75 4.26
3562 10779 9.520204 CTATTAATTTTCAAGATCCACGCAAAT 57.480 29.630 0.00 0.00 0.00 2.32
3564 10781 8.050778 ACTATTAATTTTCAAGATCCACGCAA 57.949 30.769 0.00 0.00 0.00 4.85
3567 10784 9.277565 CACAACTATTAATTTTCAAGATCCACG 57.722 33.333 0.00 0.00 0.00 4.94
3583 10800 2.238646 CCCACAGCCTCCACAACTATTA 59.761 50.000 0.00 0.00 0.00 0.98
3599 10816 4.979335 TCTCAATGATTGTTACACCCACA 58.021 39.130 4.93 0.00 0.00 4.17
3616 10833 4.690748 GTGTTTTCGATCAGGACATCTCAA 59.309 41.667 0.00 0.00 0.00 3.02
3630 10847 3.830755 ACTTAGCTAGGAGGTGTTTTCGA 59.169 43.478 10.24 0.00 0.00 3.71
3638 10855 6.200114 TGTATTGGTTACTTAGCTAGGAGGT 58.800 40.000 10.24 3.30 0.00 3.85


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

AutoCloner maintained by Alex Coulton.