Multiple sequence alignment - TraesCS4B01G218200

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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 TraesCS4B01G218200 chr4B 100.000 2398 0 0 1 2398 460151762 460154159 0.000000e+00 4429.0
1 TraesCS4B01G218200 chr4B 96.875 32 0 1 311 341 467457926 467457957 4.000000e-03 52.8
2 TraesCS4B01G218200 chr4D 93.831 2399 96 16 1 2396 374036739 374039088 0.000000e+00 3563.0
3 TraesCS4B01G218200 chr4D 94.311 1459 79 2 568 2025 337469081 337467626 0.000000e+00 2231.0
4 TraesCS4B01G218200 chr4D 94.142 1468 81 3 568 2034 28465861 28464398 0.000000e+00 2230.0
5 TraesCS4B01G218200 chr4D 87.273 275 31 2 2090 2360 44548305 44548579 6.440000e-81 311.0
6 TraesCS4B01G218200 chr4D 85.714 287 37 3 2090 2372 304426040 304425754 1.390000e-77 300.0
7 TraesCS4B01G218200 chr2D 94.282 1469 79 3 568 2034 126957029 126958494 0.000000e+00 2242.0
8 TraesCS4B01G218200 chr2D 84.416 308 36 5 2088 2391 633072206 633072505 2.330000e-75 292.0
9 TraesCS4B01G218200 chr2D 84.641 306 32 9 2091 2391 608849321 608849026 8.390000e-75 291.0
10 TraesCS4B01G218200 chr2D 100.000 28 0 0 2027 2054 7828456 7828483 4.000000e-03 52.8
11 TraesCS4B01G218200 chr6D 94.210 1468 79 3 568 2034 60313388 60314850 0.000000e+00 2235.0
12 TraesCS4B01G218200 chr6D 94.142 1468 80 4 568 2034 132391806 132393268 0.000000e+00 2230.0
13 TraesCS4B01G218200 chr3D 94.005 1468 82 3 568 2034 264599384 264600846 0.000000e+00 2218.0
14 TraesCS4B01G218200 chr3D 94.045 1461 80 5 568 2025 569380381 569381837 0.000000e+00 2209.0
15 TraesCS4B01G218200 chr3D 86.232 276 32 3 2088 2359 430129209 430129482 6.480000e-76 294.0
16 TraesCS4B01G218200 chr1D 93.746 1471 82 6 568 2035 360147558 360146095 0.000000e+00 2198.0
17 TraesCS4B01G218200 chr5B 93.763 1459 87 2 568 2025 521394893 521396348 0.000000e+00 2187.0
18 TraesCS4B01G218200 chr2A 84.615 312 37 4 2087 2394 423028392 423028696 1.390000e-77 300.0
19 TraesCS4B01G218200 chr4A 84.295 312 35 10 2088 2394 555431613 555431311 2.330000e-75 292.0
20 TraesCS4B01G218200 chr5D 85.305 279 32 6 2088 2360 520950808 520951083 1.820000e-71 279.0


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 TraesCS4B01G218200 chr4B 460151762 460154159 2397 False 4429 4429 100.000 1 2398 1 chr4B.!!$F1 2397
1 TraesCS4B01G218200 chr4D 374036739 374039088 2349 False 3563 3563 93.831 1 2396 1 chr4D.!!$F2 2395
2 TraesCS4B01G218200 chr4D 337467626 337469081 1455 True 2231 2231 94.311 568 2025 1 chr4D.!!$R3 1457
3 TraesCS4B01G218200 chr4D 28464398 28465861 1463 True 2230 2230 94.142 568 2034 1 chr4D.!!$R1 1466
4 TraesCS4B01G218200 chr2D 126957029 126958494 1465 False 2242 2242 94.282 568 2034 1 chr2D.!!$F2 1466
5 TraesCS4B01G218200 chr6D 60313388 60314850 1462 False 2235 2235 94.210 568 2034 1 chr6D.!!$F1 1466
6 TraesCS4B01G218200 chr6D 132391806 132393268 1462 False 2230 2230 94.142 568 2034 1 chr6D.!!$F2 1466
7 TraesCS4B01G218200 chr3D 264599384 264600846 1462 False 2218 2218 94.005 568 2034 1 chr3D.!!$F1 1466
8 TraesCS4B01G218200 chr3D 569380381 569381837 1456 False 2209 2209 94.045 568 2025 1 chr3D.!!$F3 1457
9 TraesCS4B01G218200 chr1D 360146095 360147558 1463 True 2198 2198 93.746 568 2035 1 chr1D.!!$R1 1467
10 TraesCS4B01G218200 chr5B 521394893 521396348 1455 False 2187 2187 93.763 568 2025 1 chr5B.!!$F1 1457

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
504 505 0.659957 GAATCAAGCCCACGCAGATC 59.34 55.0 0.0 0.0 37.52 2.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2084 2090 0.702316 TCCCCTAGGCCCAAAGAAAC 59.298 55.0 2.05 0.0 0.0 2.78 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
32 33 5.105063 ACATTCGAGATGCCGATACATATG 58.895 41.667 0.00 0.00 38.45 1.78
153 154 3.755905 ACAACTTGTGTGATGTGTGTGAA 59.244 39.130 0.00 0.00 39.72 3.18
154 155 4.097714 CAACTTGTGTGATGTGTGTGAAC 58.902 43.478 0.00 0.00 0.00 3.18
155 156 3.342719 ACTTGTGTGATGTGTGTGAACA 58.657 40.909 0.00 0.00 0.00 3.18
156 157 3.755905 ACTTGTGTGATGTGTGTGAACAA 59.244 39.130 0.00 0.00 32.81 2.83
157 158 4.398988 ACTTGTGTGATGTGTGTGAACAAT 59.601 37.500 0.00 0.00 32.81 2.71
158 159 4.979943 TGTGTGATGTGTGTGAACAATT 57.020 36.364 0.00 0.00 32.81 2.32
159 160 5.321959 TGTGTGATGTGTGTGAACAATTT 57.678 34.783 0.00 0.00 32.81 1.82
160 161 5.100943 TGTGTGATGTGTGTGAACAATTTG 58.899 37.500 0.00 0.00 32.81 2.32
161 162 5.101628 GTGTGATGTGTGTGAACAATTTGT 58.898 37.500 0.00 0.00 32.81 2.83
162 163 5.004630 GTGTGATGTGTGTGAACAATTTGTG 59.995 40.000 2.13 0.00 32.81 3.33
163 164 5.101628 GTGATGTGTGTGAACAATTTGTGT 58.898 37.500 2.13 0.00 44.64 3.72
164 165 6.127897 TGTGATGTGTGTGAACAATTTGTGTA 60.128 34.615 2.13 0.00 40.60 2.90
165 166 6.749578 GTGATGTGTGTGAACAATTTGTGTAA 59.250 34.615 2.13 0.00 40.60 2.41
166 167 7.434897 GTGATGTGTGTGAACAATTTGTGTAAT 59.565 33.333 2.13 0.00 40.60 1.89
167 168 8.624776 TGATGTGTGTGAACAATTTGTGTAATA 58.375 29.630 2.13 0.00 40.60 0.98
168 169 9.457110 GATGTGTGTGAACAATTTGTGTAATAA 57.543 29.630 2.13 0.00 40.60 1.40
169 170 9.809096 ATGTGTGTGAACAATTTGTGTAATAAA 57.191 25.926 2.13 0.00 40.60 1.40
170 171 9.809096 TGTGTGTGAACAATTTGTGTAATAAAT 57.191 25.926 2.13 0.00 40.60 1.40
296 297 5.304614 AGTTGTCGTGCTCAATATAGGGTAT 59.695 40.000 0.00 0.00 0.00 2.73
302 303 5.750547 CGTGCTCAATATAGGGTATATGCTG 59.249 44.000 0.00 0.00 31.96 4.41
392 393 2.346803 TCTGATGGCGCAAAACTACTC 58.653 47.619 10.83 0.00 0.00 2.59
397 398 2.294074 TGGCGCAAAACTACTCTTTGT 58.706 42.857 10.83 0.00 36.38 2.83
403 404 3.066760 GCAAAACTACTCTTTGTGTGCCT 59.933 43.478 0.00 0.00 36.38 4.75
406 407 6.199393 CAAAACTACTCTTTGTGTGCCTTAC 58.801 40.000 0.00 0.00 0.00 2.34
439 440 2.299993 TGGAGATGCTCTAACTTGCG 57.700 50.000 0.00 0.00 0.00 4.85
440 441 1.824852 TGGAGATGCTCTAACTTGCGA 59.175 47.619 0.00 0.00 0.00 5.10
441 442 2.432146 TGGAGATGCTCTAACTTGCGAT 59.568 45.455 0.00 0.00 0.00 4.58
453 454 2.622436 ACTTGCGATGCTAAGAACTCC 58.378 47.619 0.00 0.00 0.00 3.85
454 455 2.234908 ACTTGCGATGCTAAGAACTCCT 59.765 45.455 0.00 0.00 0.00 3.69
455 456 3.447586 ACTTGCGATGCTAAGAACTCCTA 59.552 43.478 0.00 0.00 0.00 2.94
457 458 2.362397 TGCGATGCTAAGAACTCCTAGG 59.638 50.000 0.82 0.82 0.00 3.02
458 459 2.362717 GCGATGCTAAGAACTCCTAGGT 59.637 50.000 9.08 0.00 0.00 3.08
459 460 3.797184 GCGATGCTAAGAACTCCTAGGTG 60.797 52.174 9.08 9.22 0.00 4.00
460 461 3.632604 CGATGCTAAGAACTCCTAGGTGA 59.367 47.826 17.66 0.00 0.00 4.02
461 462 4.279671 CGATGCTAAGAACTCCTAGGTGAT 59.720 45.833 17.66 5.52 0.00 3.06
462 463 5.473846 CGATGCTAAGAACTCCTAGGTGATA 59.526 44.000 17.66 4.55 0.00 2.15
463 464 6.151985 CGATGCTAAGAACTCCTAGGTGATAT 59.848 42.308 17.66 0.00 0.00 1.63
464 465 6.656632 TGCTAAGAACTCCTAGGTGATATG 57.343 41.667 17.66 4.01 0.00 1.78
465 466 5.540337 TGCTAAGAACTCCTAGGTGATATGG 59.460 44.000 17.66 2.34 0.00 2.74
466 467 4.965200 AAGAACTCCTAGGTGATATGGC 57.035 45.455 17.66 0.00 0.00 4.40
467 468 3.243724 AGAACTCCTAGGTGATATGGCC 58.756 50.000 17.66 0.00 0.00 5.36
468 469 2.031495 ACTCCTAGGTGATATGGCCC 57.969 55.000 17.66 0.00 0.00 5.80
469 470 1.223077 ACTCCTAGGTGATATGGCCCA 59.777 52.381 17.66 0.00 0.00 5.36
479 480 2.715880 TGATATGGCCCATAAAGGAGCA 59.284 45.455 7.69 0.00 41.22 4.26
491 492 6.547141 CCCATAAAGGAGCATACAAGAATCAA 59.453 38.462 0.00 0.00 41.22 2.57
498 499 2.223340 GCATACAAGAATCAAGCCCACG 60.223 50.000 0.00 0.00 0.00 4.94
504 505 0.659957 GAATCAAGCCCACGCAGATC 59.340 55.000 0.00 0.00 37.52 2.75
509 510 1.033746 AAGCCCACGCAGATCCATTG 61.034 55.000 0.00 0.00 37.52 2.82
521 522 2.444388 AGATCCATTGAATGCTAGCCCA 59.556 45.455 13.29 4.82 0.00 5.36
589 590 3.262420 GGCGATTTGCTGAAGTCTAAGA 58.738 45.455 0.00 0.00 45.43 2.10
643 644 7.016661 AGAGCATTATGGCAGGTATAACTACTT 59.983 37.037 0.00 0.00 35.83 2.24
650 651 6.953101 TGGCAGGTATAACTACTTTGAATCA 58.047 36.000 0.00 0.00 0.00 2.57
676 677 3.637911 ATATTTGGCGAGTGGGTAACA 57.362 42.857 0.00 0.00 39.74 2.41
683 684 2.093869 GGCGAGTGGGTAACAGACATAA 60.094 50.000 0.00 0.00 39.74 1.90
684 685 3.431766 GGCGAGTGGGTAACAGACATAAT 60.432 47.826 0.00 0.00 39.74 1.28
685 686 4.202182 GGCGAGTGGGTAACAGACATAATA 60.202 45.833 0.00 0.00 39.74 0.98
717 718 2.746359 GGAGATGCCTGGATCCCG 59.254 66.667 9.90 1.92 0.00 5.14
783 784 5.738619 TGCTATCAAAAGTGAGTGACCTA 57.261 39.130 0.00 0.00 37.14 3.08
790 791 6.353323 TCAAAAGTGAGTGACCTAATTGACA 58.647 36.000 0.00 0.00 0.00 3.58
847 848 4.865905 ACAAACTATGTGGCCCATTGATA 58.134 39.130 17.69 0.98 41.93 2.15
890 891 6.475504 TCCCACTTTCGCAATATGATATGAT 58.524 36.000 0.00 0.00 0.00 2.45
1040 1041 8.469309 CCAAATCCTATTTGGTGTCAGATATT 57.531 34.615 19.00 0.00 42.92 1.28
1153 1156 3.394836 GGTCTCGCCCTCTTGCCT 61.395 66.667 0.00 0.00 0.00 4.75
1180 1183 2.628657 GCTCTCGGGGCTTAGAAGATAA 59.371 50.000 0.00 0.00 0.00 1.75
1363 1366 7.681939 ACCAAAATGTACGTGAAATGATAGT 57.318 32.000 0.00 0.00 0.00 2.12
1395 1398 3.743132 TGGTACCTATGGTGGGAAAGAT 58.257 45.455 14.36 0.00 36.19 2.40
1539 1543 3.572661 ACTGTCCTCCTAGGGGTTTTA 57.427 47.619 8.16 0.00 35.59 1.52
1631 1635 4.600012 CTACAAAGGTAGGTTCATTGCG 57.400 45.455 0.00 0.00 42.71 4.85
1732 1736 3.479127 AAAGGGCGGCGTGTAACCA 62.479 57.895 9.37 0.00 0.00 3.67
1738 1742 1.629345 GCGGCGTGTAACCACCTAAC 61.629 60.000 9.37 0.00 38.41 2.34
1749 1753 3.418684 ACCACCTAACCATCAACTCAC 57.581 47.619 0.00 0.00 0.00 3.51
1788 1792 0.842635 GACCATGCAGGAAGGAGGAT 59.157 55.000 0.00 0.00 41.22 3.24
1794 1798 4.325119 CATGCAGGAAGGAGGATAATCAG 58.675 47.826 0.00 0.00 0.00 2.90
1795 1799 3.387962 TGCAGGAAGGAGGATAATCAGT 58.612 45.455 0.00 0.00 0.00 3.41
1802 1806 1.140312 GAGGATAATCAGTGGGGGCA 58.860 55.000 0.00 0.00 0.00 5.36
1826 1830 1.291877 CGGCAGTTTTCGAGGACTGG 61.292 60.000 23.34 10.43 42.67 4.00
1834 1838 4.082136 AGTTTTCGAGGACTGGTATCACTC 60.082 45.833 2.39 0.00 0.00 3.51
1895 1899 8.482943 TGTAATAGAGAGGCAAATAAAGTAGCA 58.517 33.333 0.00 0.00 0.00 3.49
1934 1938 8.691797 AGATTAGCTAGATTTTCTTCGACTTCT 58.308 33.333 0.00 0.00 0.00 2.85
1935 1939 9.953697 GATTAGCTAGATTTTCTTCGACTTCTA 57.046 33.333 0.00 0.00 0.00 2.10
1989 1993 7.272244 TGTAATGATCCTCACAAACGATGTAT 58.728 34.615 0.00 0.00 41.46 2.29
2054 2058 8.768501 AAAAATACTCCCTCCATTCCTTTATC 57.231 34.615 0.00 0.00 0.00 1.75
2068 2072 7.557719 CCATTCCTTTATCTGATGTAAGGTGTT 59.442 37.037 22.23 12.22 38.59 3.32
2136 2142 6.828785 GTGGAATTAGTTTGTAGATGATGGGT 59.171 38.462 0.00 0.00 0.00 4.51
2138 2144 7.339212 TGGAATTAGTTTGTAGATGATGGGTTG 59.661 37.037 0.00 0.00 0.00 3.77
2142 2148 0.180171 TGTAGATGATGGGTTGCGGG 59.820 55.000 0.00 0.00 0.00 6.13
2150 2156 0.907704 ATGGGTTGCGGGAGTGACTA 60.908 55.000 0.00 0.00 0.00 2.59
2185 2191 7.643123 AGTTTATGAATTATTCTGTGAGGGGT 58.357 34.615 6.50 0.00 0.00 4.95
2270 2276 2.286294 CGGATGCTTGCATGAAGAGTAC 59.714 50.000 13.18 0.00 32.82 2.73
2272 2278 3.691118 GGATGCTTGCATGAAGAGTACAA 59.309 43.478 13.18 0.00 32.82 2.41
2289 2295 9.823647 AAGAGTACAATCATAGATAGGTGTTTG 57.176 33.333 0.00 0.00 33.45 2.93
2317 2323 3.620821 GCAAGAACATCACCTTAGCTCTC 59.379 47.826 0.00 0.00 0.00 3.20
2338 2344 5.882000 TCTCATCCATCCACATAACAACTTG 59.118 40.000 0.00 0.00 0.00 3.16
2361 2367 5.181811 TGTCAAGGCAATGAACATAAGTCAG 59.818 40.000 0.00 0.00 0.00 3.51
2396 2402 7.708752 GGATTCATGGTGAAAGTAACTAGAGAG 59.291 40.741 0.00 0.00 40.12 3.20
2397 2403 7.540474 TTCATGGTGAAAGTAACTAGAGAGT 57.460 36.000 0.00 0.00 32.71 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 6.319658 TCCATGGCATCTTTTTGAAGATCTAC 59.680 38.462 6.96 0.00 37.41 2.59
93 94 5.940192 TTCATTGCACGAGAACATAAAGT 57.060 34.783 0.00 0.00 0.00 2.66
100 101 6.582295 ACACAAATTATTCATTGCACGAGAAC 59.418 34.615 0.00 0.00 0.00 3.01
170 171 6.476053 CACACATCACACAAATTGTTCATCAA 59.524 34.615 0.00 0.00 35.67 2.57
171 172 5.978322 CACACATCACACAAATTGTTCATCA 59.022 36.000 0.00 0.00 35.67 3.07
172 173 6.207928 TCACACATCACACAAATTGTTCATC 58.792 36.000 0.00 0.00 35.67 2.92
173 174 6.146601 TCACACATCACACAAATTGTTCAT 57.853 33.333 0.00 0.00 35.67 2.57
174 175 5.573337 TCACACATCACACAAATTGTTCA 57.427 34.783 0.00 0.00 35.67 3.18
175 176 6.207928 TCATCACACATCACACAAATTGTTC 58.792 36.000 0.00 0.00 35.67 3.18
176 177 6.146601 TCATCACACATCACACAAATTGTT 57.853 33.333 0.00 0.00 35.67 2.83
273 274 3.793559 ACCCTATATTGAGCACGACAAC 58.206 45.455 0.00 0.00 0.00 3.32
392 393 2.627699 ACCCAATGTAAGGCACACAAAG 59.372 45.455 0.00 0.00 40.86 2.77
397 398 2.363680 CAACAACCCAATGTAAGGCACA 59.636 45.455 0.00 0.00 42.69 4.57
403 404 4.537751 TCTCCAACAACAACCCAATGTAA 58.462 39.130 0.00 0.00 32.02 2.41
406 407 3.861886 GCATCTCCAACAACAACCCAATG 60.862 47.826 0.00 0.00 0.00 2.82
439 440 5.799827 ATCACCTAGGAGTTCTTAGCATC 57.200 43.478 17.98 0.00 0.00 3.91
440 441 6.212388 CCATATCACCTAGGAGTTCTTAGCAT 59.788 42.308 17.98 0.00 0.00 3.79
441 442 5.540337 CCATATCACCTAGGAGTTCTTAGCA 59.460 44.000 17.98 0.00 0.00 3.49
453 454 4.536090 TCCTTTATGGGCCATATCACCTAG 59.464 45.833 26.14 15.22 36.20 3.02
454 455 4.508331 TCCTTTATGGGCCATATCACCTA 58.492 43.478 26.14 8.14 36.20 3.08
455 456 3.331889 CTCCTTTATGGGCCATATCACCT 59.668 47.826 26.14 2.59 36.20 4.00
457 458 3.084786 GCTCCTTTATGGGCCATATCAC 58.915 50.000 26.14 9.80 36.20 3.06
458 459 2.715880 TGCTCCTTTATGGGCCATATCA 59.284 45.455 26.14 15.08 36.20 2.15
459 460 3.439857 TGCTCCTTTATGGGCCATATC 57.560 47.619 26.14 11.82 36.20 1.63
460 461 4.292041 TGTATGCTCCTTTATGGGCCATAT 59.708 41.667 26.14 12.63 34.36 1.78
461 462 3.655291 TGTATGCTCCTTTATGGGCCATA 59.345 43.478 22.26 22.26 36.20 2.74
462 463 2.446666 TGTATGCTCCTTTATGGGCCAT 59.553 45.455 24.69 24.69 36.20 4.40
463 464 1.849692 TGTATGCTCCTTTATGGGCCA 59.150 47.619 9.61 9.61 36.20 5.36
464 465 2.656947 TGTATGCTCCTTTATGGGCC 57.343 50.000 0.00 0.00 36.20 5.80
465 466 3.820557 TCTTGTATGCTCCTTTATGGGC 58.179 45.455 0.00 0.00 36.20 5.36
466 467 6.064060 TGATTCTTGTATGCTCCTTTATGGG 58.936 40.000 0.00 0.00 36.20 4.00
467 468 7.572523 TTGATTCTTGTATGCTCCTTTATGG 57.427 36.000 0.00 0.00 37.10 2.74
468 469 7.137426 GCTTGATTCTTGTATGCTCCTTTATG 58.863 38.462 0.00 0.00 0.00 1.90
469 470 6.264067 GGCTTGATTCTTGTATGCTCCTTTAT 59.736 38.462 0.00 0.00 0.00 1.40
479 480 2.017049 GCGTGGGCTTGATTCTTGTAT 58.983 47.619 0.00 0.00 35.83 2.29
491 492 1.452651 CAATGGATCTGCGTGGGCT 60.453 57.895 0.00 0.00 40.82 5.19
498 499 2.228343 GGCTAGCATTCAATGGATCTGC 59.772 50.000 18.24 0.00 34.17 4.26
504 505 4.124238 CAAAATGGGCTAGCATTCAATGG 58.876 43.478 18.24 0.05 0.00 3.16
509 510 3.696051 TCAGTCAAAATGGGCTAGCATTC 59.304 43.478 18.24 6.04 0.00 2.67
643 644 5.069318 TCGCCAAATATAGCCATGATTCAA 58.931 37.500 0.00 0.00 0.00 2.69
650 651 2.553028 CCCACTCGCCAAATATAGCCAT 60.553 50.000 0.00 0.00 0.00 4.40
676 677 9.116080 TCCCCAGATATTGATGTTATTATGTCT 57.884 33.333 0.00 0.00 0.00 3.41
683 684 6.421485 GCATCTCCCCAGATATTGATGTTAT 58.579 40.000 0.00 0.00 37.25 1.89
684 685 5.280676 GGCATCTCCCCAGATATTGATGTTA 60.281 44.000 0.00 0.00 37.25 2.41
685 686 4.508047 GGCATCTCCCCAGATATTGATGTT 60.508 45.833 0.00 0.00 37.25 2.71
717 718 5.406780 CACAATCTTCCTAGTGACACAGTTC 59.593 44.000 8.59 0.00 33.99 3.01
783 784 4.942761 ATTGTTGGAAGCAGTGTCAATT 57.057 36.364 0.00 0.00 0.00 2.32
814 815 6.151144 GGCCACATAGTTTGTCTAATCAGTTT 59.849 38.462 0.00 0.00 36.00 2.66
847 848 6.268387 AGTGGGATTGAAAGAATTCATTGTGT 59.732 34.615 8.44 0.00 44.70 3.72
939 940 2.158900 CCATTCCACCGAGTAAGCAGAT 60.159 50.000 0.00 0.00 0.00 2.90
1040 1041 0.991146 TGCTGGGCAGGATAACTTCA 59.009 50.000 0.00 0.00 33.32 3.02
1153 1156 0.902984 TAAGCCCCGAGAGCAAGTCA 60.903 55.000 0.00 0.00 0.00 3.41
1180 1183 4.210331 ACAGAGGAAAAGCATGTGTTTCT 58.790 39.130 17.36 4.93 29.87 2.52
1363 1366 5.070446 CACCATAGGTACCAAGCTGAGATAA 59.930 44.000 15.94 0.00 32.11 1.75
1367 1370 2.158900 CCACCATAGGTACCAAGCTGAG 60.159 54.545 15.94 0.00 32.11 3.35
1435 1438 4.226427 GCTATGATCCCCATTGCTATCA 57.774 45.455 0.00 0.00 45.99 2.15
1514 1517 1.411787 CCCCTAGGAGGACAGTACCAG 60.412 61.905 11.48 0.00 37.67 4.00
1539 1543 5.003804 AGAGGCGTCAACATTAAGTTTCAT 58.996 37.500 9.41 0.00 38.74 2.57
1631 1635 4.604156 AGTCAATCTTTCCATTTCCTCCC 58.396 43.478 0.00 0.00 0.00 4.30
1732 1736 4.134563 GTTGTGTGAGTTGATGGTTAGGT 58.865 43.478 0.00 0.00 0.00 3.08
1738 1742 3.148412 TCCATGTTGTGTGAGTTGATGG 58.852 45.455 0.00 0.00 0.00 3.51
1749 1753 1.881973 CTCAACCACCTCCATGTTGTG 59.118 52.381 0.00 0.00 40.13 3.33
1788 1792 1.609239 CTGCTGCCCCCACTGATTA 59.391 57.895 0.00 0.00 0.00 1.75
1802 1806 2.280797 TCGAAAACTGCCGCTGCT 60.281 55.556 0.70 0.00 38.71 4.24
2044 2048 9.533831 AAAACACCTTACATCAGATAAAGGAAT 57.466 29.630 22.45 11.76 40.85 3.01
2084 2090 0.702316 TCCCCTAGGCCCAAAGAAAC 59.298 55.000 2.05 0.00 0.00 2.78
2136 2142 2.028748 GGTTTAGTAGTCACTCCCGCAA 60.029 50.000 0.00 0.00 36.14 4.85
2138 2144 1.134877 GGGTTTAGTAGTCACTCCCGC 60.135 57.143 0.00 0.00 36.14 6.13
2142 2148 4.780275 AACTCGGGTTTAGTAGTCACTC 57.220 45.455 0.00 0.00 36.14 3.51
2150 2156 9.901172 AGAATAATTCATAAACTCGGGTTTAGT 57.099 29.630 23.89 10.94 46.70 2.24
2177 2183 1.893137 GGATCCAAAACAACCCCTCAC 59.107 52.381 6.95 0.00 0.00 3.51
2185 2191 7.504403 ACATTAAACATGTGGATCCAAAACAA 58.496 30.769 18.20 4.99 0.00 2.83
2226 2232 9.997482 TCCGCAATTACAAGAGAATTAATTAAC 57.003 29.630 0.00 0.00 0.00 2.01
2234 2240 4.202441 AGCATCCGCAATTACAAGAGAAT 58.798 39.130 0.00 0.00 42.27 2.40
2270 2276 7.912250 GCTTGAACAAACACCTATCTATGATTG 59.088 37.037 0.00 0.00 35.41 2.67
2272 2278 7.112122 TGCTTGAACAAACACCTATCTATGAT 58.888 34.615 0.00 0.00 0.00 2.45
2289 2295 4.574599 AAGGTGATGTTCTTGCTTGAAC 57.425 40.909 13.05 13.05 44.60 3.18
2317 2323 5.415389 TGACAAGTTGTTATGTGGATGGATG 59.585 40.000 10.45 0.00 0.00 3.51
2338 2344 5.182001 ACTGACTTATGTTCATTGCCTTGAC 59.818 40.000 0.00 0.00 0.00 3.18
2361 2367 5.811399 TTCACCATGAATCCACGATTTAC 57.189 39.130 0.00 0.00 31.89 2.01


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

AutoCloner maintained by Alex Coulton.