Multiple sequence alignment - TraesCS7B01G324300

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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 TraesCS7B01G324300 chr7B 100.000 5073 0 0 1 5073 577184357 577189429 0.000000e+00 9369.0
1 TraesCS7B01G324300 chr7B 97.920 4231 69 10 376 4604 575423974 575428187 0.000000e+00 7308.0
2 TraesCS7B01G324300 chr7B 83.616 531 51 19 4546 5073 575428162 575428659 2.770000e-127 466.0
3 TraesCS7B01G324300 chr7B 93.243 148 9 1 1 147 575423823 575423970 3.080000e-52 217.0
4 TraesCS7B01G324300 chr7B 88.235 102 12 0 4152 4253 413564949 413564848 6.900000e-24 122.0
5 TraesCS7B01G324300 chr7B 87.342 79 7 2 3971 4049 577225440 577225515 2.520000e-13 87.9
6 TraesCS7B01G324300 chr7D 95.933 3565 110 15 338 3896 535410379 535413914 0.000000e+00 5747.0
7 TraesCS7B01G324300 chr7D 89.972 359 17 8 4300 4640 535414258 535414615 3.600000e-121 446.0
8 TraesCS7B01G324300 chr7D 95.984 249 8 1 3906 4154 535413984 535414230 2.200000e-108 403.0
9 TraesCS7B01G324300 chr7D 87.649 251 12 6 2 249 535409991 535410225 1.800000e-69 274.0
10 TraesCS7B01G324300 chr7D 80.240 334 40 13 4700 5032 535414627 535414935 1.420000e-55 228.0
11 TraesCS7B01G324300 chr7D 87.500 112 12 2 4150 4260 626459303 626459193 1.480000e-25 128.0
12 TraesCS7B01G324300 chr7A 96.193 3467 114 10 371 3834 615380711 615384162 0.000000e+00 5655.0
13 TraesCS7B01G324300 chr7A 83.345 1399 186 26 2460 3840 618190683 618189314 0.000000e+00 1249.0
14 TraesCS7B01G324300 chr7A 82.655 1401 183 24 836 2225 618192095 618190744 0.000000e+00 1186.0
15 TraesCS7B01G324300 chr7A 85.154 586 56 15 4468 5039 615385066 615385634 5.700000e-159 571.0
16 TraesCS7B01G324300 chr7A 95.200 250 10 1 3905 4154 615384591 615384838 1.320000e-105 394.0
17 TraesCS7B01G324300 chr7A 90.659 182 17 0 4300 4481 615384866 615385047 5.070000e-60 243.0
18 TraesCS7B01G324300 chr7A 93.151 146 9 1 3 147 615380572 615380717 3.980000e-51 213.0
19 TraesCS7B01G324300 chr5B 90.826 109 8 2 4148 4256 619785903 619785797 1.470000e-30 145.0
20 TraesCS7B01G324300 chr5A 90.826 109 8 2 4148 4256 623444458 623444352 1.470000e-30 145.0
21 TraesCS7B01G324300 chr5A 89.899 99 8 2 4152 4249 702581700 702581603 5.330000e-25 126.0
22 TraesCS7B01G324300 chr6D 90.909 99 9 0 4152 4250 68866146 68866244 3.190000e-27 134.0
23 TraesCS7B01G324300 chr1B 87.963 108 11 2 4143 4249 518802077 518802183 5.330000e-25 126.0
24 TraesCS7B01G324300 chr3B 89.474 95 10 0 4155 4249 154454558 154454652 2.480000e-23 121.0


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 TraesCS7B01G324300 chr7B 577184357 577189429 5072 False 9369.000000 9369 100.0000 1 5073 1 chr7B.!!$F1 5072
1 TraesCS7B01G324300 chr7B 575423823 575428659 4836 False 2663.666667 7308 91.5930 1 5073 3 chr7B.!!$F3 5072
2 TraesCS7B01G324300 chr7D 535409991 535414935 4944 False 1419.600000 5747 89.9556 2 5032 5 chr7D.!!$F1 5030
3 TraesCS7B01G324300 chr7A 615380572 615385634 5062 False 1415.200000 5655 92.0714 3 5039 5 chr7A.!!$F1 5036
4 TraesCS7B01G324300 chr7A 618189314 618192095 2781 True 1217.500000 1249 83.0000 836 3840 2 chr7A.!!$R1 3004

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
283 318 0.036388 CGGCATGTACCAGTGGTCTT 60.036 55.0 20.72 6.23 37.09 3.01 F
1155 1246 2.034685 CGAGGGCGAGTTCATGATTCTA 59.965 50.0 0.00 0.00 40.82 2.10 F
2318 2411 0.469917 TGCTTCCTATACTGCAGCCC 59.530 55.0 15.27 0.00 0.00 5.19 F
2910 3012 0.907704 TGGACCTGCGGTTCACCTAT 60.908 55.0 4.79 0.00 36.07 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1384 1475 1.811266 TGAGCCGCTGAATTCGAGC 60.811 57.895 15.67 15.67 0.00 5.03 R
2910 3012 2.360726 CATGGCAGCTGCTCCACA 60.361 61.111 35.82 25.66 41.70 4.17 R
4051 4519 2.115910 CAAAGCTCCCACCAGCCA 59.884 61.111 0.00 0.00 40.65 4.75 R
4664 5227 0.486879 AAGGGGGCATTTCAGGTTCA 59.513 50.000 0.00 0.00 0.00 3.18 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
67 70 2.167075 CCTGGATCATCTTGTTTTGGGC 59.833 50.000 0.00 0.00 0.00 5.36
157 161 7.612677 ACTATTTCAGTGTACCTGGTCTAAAG 58.387 38.462 0.63 0.00 41.83 1.85
174 178 8.553696 TGGTCTAAAGTTTTGACTTTTCGTATC 58.446 33.333 23.32 9.18 40.13 2.24
175 179 7.739043 GGTCTAAAGTTTTGACTTTTCGTATCG 59.261 37.037 23.32 0.00 40.13 2.92
176 180 8.271487 GTCTAAAGTTTTGACTTTTCGTATCGT 58.729 33.333 19.01 0.00 40.13 3.73
178 182 5.338614 AGTTTTGACTTTTCGTATCGTGG 57.661 39.130 0.00 0.00 0.00 4.94
179 183 5.051816 AGTTTTGACTTTTCGTATCGTGGA 58.948 37.500 0.00 0.00 0.00 4.02
180 184 5.176958 AGTTTTGACTTTTCGTATCGTGGAG 59.823 40.000 0.00 0.00 0.00 3.86
181 185 4.508461 TTGACTTTTCGTATCGTGGAGA 57.492 40.909 0.00 0.00 0.00 3.71
182 186 3.829948 TGACTTTTCGTATCGTGGAGAC 58.170 45.455 0.00 0.00 0.00 3.36
183 187 3.504906 TGACTTTTCGTATCGTGGAGACT 59.495 43.478 0.00 0.00 0.00 3.24
184 188 4.022589 TGACTTTTCGTATCGTGGAGACTT 60.023 41.667 0.00 0.00 0.00 3.01
185 189 4.483311 ACTTTTCGTATCGTGGAGACTTC 58.517 43.478 0.00 0.00 0.00 3.01
186 190 3.498927 TTTCGTATCGTGGAGACTTCC 57.501 47.619 0.00 0.00 44.31 3.46
244 279 3.402628 TCCGCTACTTGCTTTCTTCTT 57.597 42.857 0.00 0.00 40.11 2.52
246 281 2.092838 CCGCTACTTGCTTTCTTCTTCG 59.907 50.000 0.00 0.00 40.11 3.79
261 296 3.417069 TCTTCGATCACCACCACAATT 57.583 42.857 0.00 0.00 0.00 2.32
271 306 2.972267 CCACAATTGGCGGCATGT 59.028 55.556 14.32 12.98 35.56 3.21
272 307 2.187992 CCACAATTGGCGGCATGTA 58.812 52.632 14.32 0.00 35.56 2.29
274 309 0.179140 CACAATTGGCGGCATGTACC 60.179 55.000 14.32 0.00 0.00 3.34
275 310 0.610509 ACAATTGGCGGCATGTACCA 60.611 50.000 14.32 0.00 0.00 3.25
276 311 0.101040 CAATTGGCGGCATGTACCAG 59.899 55.000 14.32 0.00 34.28 4.00
277 312 0.323360 AATTGGCGGCATGTACCAGT 60.323 50.000 14.32 0.00 34.28 4.00
278 313 1.031571 ATTGGCGGCATGTACCAGTG 61.032 55.000 14.32 0.00 34.28 3.66
279 314 2.824041 GGCGGCATGTACCAGTGG 60.824 66.667 7.91 7.91 0.00 4.00
280 315 2.046314 GCGGCATGTACCAGTGGT 60.046 61.111 20.91 20.91 40.16 4.16
281 316 2.106683 GCGGCATGTACCAGTGGTC 61.107 63.158 20.72 11.30 37.09 4.02
282 317 1.596934 CGGCATGTACCAGTGGTCT 59.403 57.895 20.72 1.63 37.09 3.85
283 318 0.036388 CGGCATGTACCAGTGGTCTT 60.036 55.000 20.72 6.23 37.09 3.01
363 439 2.260844 TCTGCCCAACATAGCTATGC 57.739 50.000 29.60 17.76 37.19 3.14
485 566 4.733988 ACAATAGAAATTGGAGGGATCCCT 59.266 41.667 34.47 34.47 45.72 4.20
486 567 5.075493 CAATAGAAATTGGAGGGATCCCTG 58.925 45.833 38.74 15.49 40.83 4.45
487 568 5.399497 CAATAGAAATTGGAGGGATCCCTGT 60.399 44.000 38.74 16.26 40.83 4.00
529 610 2.494870 AGAAAAACTGAGATGCATGGGC 59.505 45.455 2.46 0.00 41.68 5.36
554 635 7.425606 CAAACTTCATAAGTAAAAGCCACACT 58.574 34.615 0.00 0.00 41.91 3.55
576 657 6.256539 CACTATAATGAAACACTCGAGCATGT 59.743 38.462 13.61 7.68 0.00 3.21
626 707 2.740981 CCTCTTCTGACATGCTTCACAC 59.259 50.000 0.00 0.00 0.00 3.82
655 737 7.065085 CACGTAGTAGTACAGTACACCTATGTT 59.935 40.741 21.04 11.27 41.61 2.71
656 738 7.065085 ACGTAGTAGTACAGTACACCTATGTTG 59.935 40.741 19.35 10.81 41.94 3.33
657 739 7.065085 CGTAGTAGTACAGTACACCTATGTTGT 59.935 40.741 13.37 0.00 40.48 3.32
658 740 7.154435 AGTAGTACAGTACACCTATGTTGTG 57.846 40.000 13.37 0.00 40.48 3.33
659 741 6.944290 AGTAGTACAGTACACCTATGTTGTGA 59.056 38.462 13.37 0.00 40.48 3.58
660 742 6.852420 AGTACAGTACACCTATGTTGTGAT 57.148 37.500 13.37 0.00 40.48 3.06
661 743 7.949690 AGTACAGTACACCTATGTTGTGATA 57.050 36.000 13.37 0.00 40.48 2.15
662 744 8.357290 AGTACAGTACACCTATGTTGTGATAA 57.643 34.615 13.37 0.00 40.48 1.75
663 745 8.248945 AGTACAGTACACCTATGTTGTGATAAC 58.751 37.037 13.37 0.00 40.48 1.89
664 746 6.999950 ACAGTACACCTATGTTGTGATAACA 58.000 36.000 0.00 0.00 40.48 2.41
665 747 7.097192 ACAGTACACCTATGTTGTGATAACAG 58.903 38.462 0.57 0.00 40.48 3.16
693 775 5.786264 TCTTACTAGCTTAGCCGCTATTT 57.214 39.130 0.00 0.00 41.31 1.40
694 776 5.770417 TCTTACTAGCTTAGCCGCTATTTC 58.230 41.667 0.00 0.00 41.31 2.17
706 788 3.428999 GCCGCTATTTCTAGTGTCAGACA 60.429 47.826 0.00 0.00 34.29 3.41
990 1080 4.023707 GTCTGCTGTGCTAACATTTTGAGT 60.024 41.667 0.00 0.00 35.22 3.41
1155 1246 2.034685 CGAGGGCGAGTTCATGATTCTA 59.965 50.000 0.00 0.00 40.82 2.10
1156 1247 3.490933 CGAGGGCGAGTTCATGATTCTAA 60.491 47.826 0.00 0.00 40.82 2.10
1384 1475 6.036953 GTCAAGCCAGATTGATCAAGTAGAAG 59.963 42.308 14.54 1.91 41.05 2.85
1435 1526 8.879759 TGAAAGATCGTTATGGAATTTCTGTAC 58.120 33.333 0.00 0.00 31.85 2.90
1849 1940 6.240549 ACCTACAGGACAAGAAATATCTGG 57.759 41.667 1.29 0.00 35.69 3.86
2248 2341 2.775911 TCCAGAGCTCAGTTGGATTG 57.224 50.000 17.01 4.01 36.13 2.67
2318 2411 0.469917 TGCTTCCTATACTGCAGCCC 59.530 55.000 15.27 0.00 0.00 5.19
2521 2614 4.565564 GCTCATTTCAAATGCATGACCTTC 59.434 41.667 5.12 0.00 0.00 3.46
2650 2743 0.933796 GCATGCTCGGTCTCTAAAGC 59.066 55.000 11.37 0.00 35.31 3.51
2910 3012 0.907704 TGGACCTGCGGTTCACCTAT 60.908 55.000 4.79 0.00 36.07 2.57
2983 3085 7.910584 TCTGTATGTATACATGCTCCATGATT 58.089 34.615 27.35 4.37 43.81 2.57
3081 3183 4.022849 AGCTTACAATCTGTTTCAGCCAAC 60.023 41.667 0.00 0.00 31.13 3.77
3266 3368 5.754782 TCTGATAAAGATAAAGCCCTTGCA 58.245 37.500 0.00 0.00 41.13 4.08
3273 3375 7.480760 AAAGATAAAGCCCTTGCAAAATCTA 57.519 32.000 0.00 0.00 41.13 1.98
4081 4549 7.072454 TGGTGGGAGCTTTGTTAAGATATCTAT 59.928 37.037 5.46 0.00 32.92 1.98
4082 4550 8.594550 GGTGGGAGCTTTGTTAAGATATCTATA 58.405 37.037 5.46 0.00 32.92 1.31
4164 4632 4.931661 TTTGTATGATAGTCCCTCCGTC 57.068 45.455 0.00 0.00 0.00 4.79
4277 4745 1.000717 ACAACCTTAACCGTGCATTGC 60.001 47.619 0.46 0.46 0.00 3.56
4294 4762 2.554806 TGCAAGTATACGTGGACTCG 57.445 50.000 18.58 0.00 0.00 4.18
4380 4849 1.754803 TGGATTATTGCTCCGAGACGT 59.245 47.619 0.00 0.00 35.41 4.34
4651 5203 1.204146 GGCTCTACATTCCACCCTGA 58.796 55.000 0.00 0.00 0.00 3.86
4659 5222 3.189606 ACATTCCACCCTGAATAGACCA 58.810 45.455 0.00 0.00 33.27 4.02
4660 5223 3.200825 ACATTCCACCCTGAATAGACCAG 59.799 47.826 0.00 0.00 33.27 4.00
4661 5224 2.940514 TCCACCCTGAATAGACCAGA 57.059 50.000 0.00 0.00 33.65 3.86
4662 5225 3.199442 TCCACCCTGAATAGACCAGAA 57.801 47.619 0.00 0.00 33.65 3.02
4663 5226 3.526899 TCCACCCTGAATAGACCAGAAA 58.473 45.455 0.00 0.00 33.65 2.52
4664 5227 4.111577 TCCACCCTGAATAGACCAGAAAT 58.888 43.478 0.00 0.00 33.65 2.17
4665 5228 4.080356 TCCACCCTGAATAGACCAGAAATG 60.080 45.833 0.00 0.00 33.65 2.32
4666 5229 4.080356 CCACCCTGAATAGACCAGAAATGA 60.080 45.833 0.00 0.00 33.65 2.57
4667 5230 5.500234 CACCCTGAATAGACCAGAAATGAA 58.500 41.667 0.00 0.00 33.65 2.57
4668 5231 5.355350 CACCCTGAATAGACCAGAAATGAAC 59.645 44.000 0.00 0.00 33.65 3.18
4669 5232 4.884164 CCCTGAATAGACCAGAAATGAACC 59.116 45.833 0.00 0.00 33.65 3.62
4677 5240 4.219288 AGACCAGAAATGAACCTGAAATGC 59.781 41.667 0.00 0.00 32.37 3.56
4776 5339 6.038714 AGCCATCCGAGAATTTAGAAATTGTC 59.961 38.462 12.55 12.55 42.18 3.18
4795 5359 5.627499 TGTCATTTCTATGTTGACCAAGC 57.373 39.130 0.00 0.00 39.17 4.01
4820 5394 6.875948 ACACATTGCTGTTACATTGAGTTA 57.124 33.333 0.00 0.00 31.62 2.24
4822 5396 6.710295 ACACATTGCTGTTACATTGAGTTAGA 59.290 34.615 0.00 0.00 31.62 2.10
4931 5505 9.248291 ACATTTCTAAAACTAAAGTTGCACATG 57.752 29.630 0.00 0.00 38.44 3.21
4942 5516 5.989551 AAGTTGCACATGATTTTGGAAAC 57.010 34.783 0.00 0.00 0.00 2.78
4944 5518 4.810491 AGTTGCACATGATTTTGGAAACAC 59.190 37.500 0.00 0.00 42.67 3.32
4962 5536 8.538701 TGGAAACACCTAACTATTCGGTTTATA 58.461 33.333 0.00 0.00 39.86 0.98
4963 5537 8.820933 GGAAACACCTAACTATTCGGTTTATAC 58.179 37.037 0.00 0.00 35.41 1.47
4998 5573 8.732746 AAATCAGCGGTCTTATAACTGTTAAT 57.267 30.769 4.11 0.00 0.00 1.40
5001 5576 5.175126 CAGCGGTCTTATAACTGTTAATCCG 59.825 44.000 18.30 18.30 37.71 4.18
5039 5614 1.737838 GCTACACAGGCTGCAATACA 58.262 50.000 15.89 0.00 0.00 2.29
5044 5619 0.883833 ACAGGCTGCAATACACAAGC 59.116 50.000 15.89 0.00 0.00 4.01
5055 5630 7.587757 GCTGCAATACACAAGCTACATTATTAC 59.412 37.037 0.00 0.00 0.00 1.89
5057 5632 7.012894 TGCAATACACAAGCTACATTATTACCC 59.987 37.037 0.00 0.00 0.00 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
67 70 2.658593 CCCGGCGCGTTAGATCTG 60.659 66.667 8.43 0.00 0.00 2.90
157 161 5.176223 TCTCCACGATACGAAAAGTCAAAAC 59.824 40.000 0.00 0.00 0.00 2.43
184 188 1.535833 GACGAACTCTCCAGTCTGGA 58.464 55.000 20.67 20.67 45.98 3.86
185 189 0.528470 GGACGAACTCTCCAGTCTGG 59.472 60.000 13.21 13.21 39.43 3.86
186 190 1.068194 GTGGACGAACTCTCCAGTCTG 60.068 57.143 0.00 0.00 38.54 3.51
187 191 1.202952 AGTGGACGAACTCTCCAGTCT 60.203 52.381 0.00 0.00 36.88 3.24
188 192 1.249407 AGTGGACGAACTCTCCAGTC 58.751 55.000 0.00 0.00 36.88 3.51
189 193 1.614413 GAAGTGGACGAACTCTCCAGT 59.386 52.381 0.00 0.00 42.39 4.00
190 194 1.613925 TGAAGTGGACGAACTCTCCAG 59.386 52.381 0.00 0.00 38.54 3.86
191 195 1.340248 GTGAAGTGGACGAACTCTCCA 59.660 52.381 0.00 0.00 35.29 3.86
192 196 1.666311 CGTGAAGTGGACGAACTCTCC 60.666 57.143 0.00 0.00 39.21 3.71
193 197 1.666311 CCGTGAAGTGGACGAACTCTC 60.666 57.143 0.00 0.00 39.21 3.20
194 198 0.314302 CCGTGAAGTGGACGAACTCT 59.686 55.000 0.00 0.00 39.21 3.24
195 199 0.666577 CCCGTGAAGTGGACGAACTC 60.667 60.000 0.00 0.00 39.21 3.01
226 230 3.614616 ATCGAAGAAGAAAGCAAGTAGCG 59.385 43.478 0.00 0.00 46.47 4.26
244 279 1.819928 CCAATTGTGGTGGTGATCGA 58.180 50.000 4.43 0.00 40.42 3.59
261 296 2.046411 CACTGGTACATGCCGCCA 60.046 61.111 0.00 0.00 38.20 5.69
263 298 2.046314 ACCACTGGTACATGCCGC 60.046 61.111 0.00 0.00 38.20 6.53
264 299 0.036388 AAGACCACTGGTACATGCCG 60.036 55.000 0.00 0.00 38.20 5.69
331 396 3.955650 TGGGCAGAAGTCTGTAGTAAC 57.044 47.619 9.94 0.00 45.45 2.50
332 397 3.644265 TGTTGGGCAGAAGTCTGTAGTAA 59.356 43.478 9.94 0.00 45.45 2.24
333 398 3.236047 TGTTGGGCAGAAGTCTGTAGTA 58.764 45.455 9.94 0.00 45.45 1.82
334 399 2.047061 TGTTGGGCAGAAGTCTGTAGT 58.953 47.619 9.94 0.00 45.45 2.73
335 400 2.839486 TGTTGGGCAGAAGTCTGTAG 57.161 50.000 9.94 0.00 45.45 2.74
336 401 3.369471 GCTATGTTGGGCAGAAGTCTGTA 60.369 47.826 9.94 0.00 45.45 2.74
342 418 2.551459 GCATAGCTATGTTGGGCAGAAG 59.449 50.000 29.62 5.42 36.11 2.85
497 578 8.750416 GCATCTCAGTTTTTCTTTCTTTCTTTC 58.250 33.333 0.00 0.00 0.00 2.62
529 610 7.425606 AGTGTGGCTTTTACTTATGAAGTTTG 58.574 34.615 0.00 0.00 42.81 2.93
539 620 9.073475 TGTTTCATTATAGTGTGGCTTTTACTT 57.927 29.630 0.00 0.00 0.00 2.24
554 635 5.523552 CCACATGCTCGAGTGTTTCATTATA 59.476 40.000 15.13 0.00 33.99 0.98
576 657 3.251487 CACGATCATGCATGAATTAGCCA 59.749 43.478 31.79 8.21 40.69 4.75
626 707 4.201628 GGTGTACTGTACTACTACGTGTCG 60.202 50.000 17.98 0.00 0.00 4.35
636 717 7.949690 ATCACAACATAGGTGTACTGTACTA 57.050 36.000 17.98 4.02 37.67 1.82
655 737 9.355916 AGCTAGTAAGATATCACTGTTATCACA 57.644 33.333 5.32 0.00 0.00 3.58
660 742 8.794553 GGCTAAGCTAGTAAGATATCACTGTTA 58.205 37.037 5.32 0.00 0.00 2.41
661 743 7.522399 CGGCTAAGCTAGTAAGATATCACTGTT 60.522 40.741 5.32 0.00 0.00 3.16
662 744 6.072397 CGGCTAAGCTAGTAAGATATCACTGT 60.072 42.308 5.32 0.00 0.00 3.55
663 745 6.318628 CGGCTAAGCTAGTAAGATATCACTG 58.681 44.000 5.32 0.00 0.00 3.66
664 746 5.106078 GCGGCTAAGCTAGTAAGATATCACT 60.106 44.000 5.32 3.26 0.00 3.41
665 747 5.096849 GCGGCTAAGCTAGTAAGATATCAC 58.903 45.833 5.32 0.00 0.00 3.06
706 788 6.354938 ACAGATGAGCACAGAATATGATTGT 58.645 36.000 0.00 0.00 0.00 2.71
714 796 5.555017 AGTAACAACAGATGAGCACAGAAT 58.445 37.500 0.00 0.00 0.00 2.40
717 799 4.564041 AGAGTAACAACAGATGAGCACAG 58.436 43.478 0.00 0.00 0.00 3.66
936 1021 6.192234 ACATCATTGAAGAAGCTTCATGTC 57.808 37.500 27.57 20.20 0.00 3.06
990 1080 1.302752 GTCTGCCATGTGTGCTCCA 60.303 57.895 0.00 0.00 0.00 3.86
1384 1475 1.811266 TGAGCCGCTGAATTCGAGC 60.811 57.895 15.67 15.67 0.00 5.03
1435 1526 2.005960 CTACTCCTGCCCGGTTCTCG 62.006 65.000 0.00 0.00 38.88 4.04
1849 1940 4.780815 TCCCATACATCATCCAAGACAAC 58.219 43.478 0.00 0.00 0.00 3.32
2318 2411 4.625607 ACCTTGTAGTCTTCAGGGAAAG 57.374 45.455 13.64 0.00 35.92 2.62
2650 2743 4.081030 CCGTGACGCTGCAGCAAG 62.081 66.667 36.03 23.84 42.21 4.01
2910 3012 2.360726 CATGGCAGCTGCTCCACA 60.361 61.111 35.82 25.66 41.70 4.17
2983 3085 7.765695 AGCAGTCAAATATCCTTTCTTGAAA 57.234 32.000 0.00 0.00 30.03 2.69
3273 3375 4.867086 TCCCTCTCAACCAGAAAAACTTT 58.133 39.130 0.00 0.00 0.00 2.66
3858 3968 7.278646 ACAAGCTGGTTTGAGATTTTTCTTTTC 59.721 33.333 4.31 0.00 0.00 2.29
3859 3969 7.105588 ACAAGCTGGTTTGAGATTTTTCTTTT 58.894 30.769 4.31 0.00 0.00 2.27
3863 3973 7.425606 TCTTACAAGCTGGTTTGAGATTTTTC 58.574 34.615 0.00 0.00 0.00 2.29
4051 4519 2.115910 CAAAGCTCCCACCAGCCA 59.884 61.111 0.00 0.00 40.65 4.75
4081 4549 8.849543 AGAACCCTAACCAACATAAGTATCTA 57.150 34.615 0.00 0.00 0.00 1.98
4082 4550 7.750947 AGAACCCTAACCAACATAAGTATCT 57.249 36.000 0.00 0.00 0.00 1.98
4164 4632 5.712152 AAAGCTGAGACACTTATTTTGGG 57.288 39.130 0.00 0.00 0.00 4.12
4214 4682 7.693952 TGTCTCAAAATAAGTGTCACAACTTC 58.306 34.615 5.62 0.00 40.77 3.01
4294 4762 3.366719 GAAGCGTATCTACCAACCGTAC 58.633 50.000 0.00 0.00 0.00 3.67
4397 4866 2.357034 CCACGTCTGGGTGAACGG 60.357 66.667 0.00 0.00 40.38 4.44
4459 4928 4.498241 CACAAGAACTATGAGCTGCTACA 58.502 43.478 0.15 3.03 0.00 2.74
4651 5203 7.363268 GCATTTCAGGTTCATTTCTGGTCTATT 60.363 37.037 0.00 0.00 0.00 1.73
4659 5222 2.833943 GGGGCATTTCAGGTTCATTTCT 59.166 45.455 0.00 0.00 0.00 2.52
4660 5223 2.093500 GGGGGCATTTCAGGTTCATTTC 60.093 50.000 0.00 0.00 0.00 2.17
4661 5224 1.908619 GGGGGCATTTCAGGTTCATTT 59.091 47.619 0.00 0.00 0.00 2.32
4662 5225 1.079323 AGGGGGCATTTCAGGTTCATT 59.921 47.619 0.00 0.00 0.00 2.57
4663 5226 0.712380 AGGGGGCATTTCAGGTTCAT 59.288 50.000 0.00 0.00 0.00 2.57
4664 5227 0.486879 AAGGGGGCATTTCAGGTTCA 59.513 50.000 0.00 0.00 0.00 3.18
4665 5228 1.186200 GAAGGGGGCATTTCAGGTTC 58.814 55.000 0.00 0.00 0.00 3.62
4666 5229 0.486879 TGAAGGGGGCATTTCAGGTT 59.513 50.000 0.00 0.00 0.00 3.50
4667 5230 0.712380 ATGAAGGGGGCATTTCAGGT 59.288 50.000 4.37 0.00 36.81 4.00
4668 5231 1.870064 AATGAAGGGGGCATTTCAGG 58.130 50.000 4.37 0.00 36.81 3.86
4669 5232 3.986996 AAAATGAAGGGGGCATTTCAG 57.013 42.857 0.00 0.00 43.13 3.02
4677 5240 4.047627 ACAGTAGGAAAAATGAAGGGGG 57.952 45.455 0.00 0.00 0.00 5.40
4776 5339 6.149308 TGTGTAGCTTGGTCAACATAGAAATG 59.851 38.462 0.00 0.00 39.17 2.32
4785 5349 2.554032 AGCAATGTGTAGCTTGGTCAAC 59.446 45.455 0.00 0.00 38.01 3.18
4795 5359 6.486253 ACTCAATGTAACAGCAATGTGTAG 57.514 37.500 0.00 0.00 28.20 2.74
4855 5429 7.255555 CCCAAAGCCTAAATTTTGATGCTTTTT 60.256 33.333 18.61 4.92 44.13 1.94
4856 5430 6.207221 CCCAAAGCCTAAATTTTGATGCTTTT 59.793 34.615 18.61 8.22 44.13 2.27
4857 5431 5.706833 CCCAAAGCCTAAATTTTGATGCTTT 59.293 36.000 16.77 16.77 46.57 3.51
4858 5432 5.221904 ACCCAAAGCCTAAATTTTGATGCTT 60.222 36.000 9.21 9.21 40.50 3.91
4859 5433 4.286808 ACCCAAAGCCTAAATTTTGATGCT 59.713 37.500 0.00 0.00 36.61 3.79
4860 5434 4.578871 ACCCAAAGCCTAAATTTTGATGC 58.421 39.130 0.00 0.00 36.61 3.91
4861 5435 8.791327 ATTAACCCAAAGCCTAAATTTTGATG 57.209 30.769 0.00 0.00 36.61 3.07
4862 5436 9.806448 AAATTAACCCAAAGCCTAAATTTTGAT 57.194 25.926 0.00 0.00 36.61 2.57
4866 5440 9.719355 CTGTAAATTAACCCAAAGCCTAAATTT 57.281 29.630 0.00 0.00 0.00 1.82
4867 5441 8.876181 ACTGTAAATTAACCCAAAGCCTAAATT 58.124 29.630 0.00 0.00 0.00 1.82
4868 5442 8.430573 ACTGTAAATTAACCCAAAGCCTAAAT 57.569 30.769 0.00 0.00 0.00 1.40
4931 5505 7.094506 ACCGAATAGTTAGGTGTTTCCAAAATC 60.095 37.037 0.00 0.00 37.27 2.17
4942 5516 7.493320 TGCAAGTATAAACCGAATAGTTAGGTG 59.507 37.037 0.00 0.00 38.74 4.00
4944 5518 8.603242 ATGCAAGTATAAACCGAATAGTTAGG 57.397 34.615 0.00 0.00 0.00 2.69
4973 5547 8.732746 ATTAACAGTTATAAGACCGCTGATTT 57.267 30.769 6.95 0.00 0.00 2.17
4998 5573 1.918293 AGTGATGGGCTCCAACGGA 60.918 57.895 0.00 0.00 36.95 4.69
5001 5576 1.021390 CGACAGTGATGGGCTCCAAC 61.021 60.000 0.00 0.00 36.95 3.77
5028 5603 2.083774 TGTAGCTTGTGTATTGCAGCC 58.916 47.619 0.00 0.00 0.00 4.85
5039 5614 5.880332 CACACTGGGTAATAATGTAGCTTGT 59.120 40.000 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.