Multiple sequence alignment - TraesCS6B01G385500

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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 TraesCS6B01G385500 chr6B 100.000 4022 0 0 1 4022 660257402 660261423 0.000000e+00 7428.0
1 TraesCS6B01G385500 chr6B 100.000 28 0 0 2429 2456 475662987 475662960 7.000000e-03 52.8
2 TraesCS6B01G385500 chr6A 93.375 3713 158 30 334 4020 584993394 584997044 0.000000e+00 5413.0
3 TraesCS6B01G385500 chr6A 86.974 2211 246 22 848 3042 584959165 584956981 0.000000e+00 2449.0
4 TraesCS6B01G385500 chr6A 87.963 216 13 5 15 217 584991824 584992039 4.020000e-60 243.0
5 TraesCS6B01G385500 chr6A 96.970 132 2 1 208 337 584993237 584993368 1.880000e-53 220.0
6 TraesCS6B01G385500 chr6A 97.059 34 1 0 2423 2456 445254081 445254048 1.560000e-04 58.4
7 TraesCS6B01G385500 chr6D 89.054 2494 234 25 560 3042 436767274 436764809 0.000000e+00 3057.0
8 TraesCS6B01G385500 chr6D 81.992 261 23 5 3754 4000 436768926 436769176 2.450000e-47 200.0
9 TraesCS6B01G385500 chr6D 78.022 182 19 11 3333 3499 436764791 436764616 1.190000e-15 95.3
10 TraesCS6B01G385500 chr6D 97.436 39 1 0 3928 3966 436768405 436768367 2.590000e-07 67.6
11 TraesCS6B01G385500 chr1B 76.048 668 133 22 1961 2619 266258960 266259609 5.010000e-84 322.0
12 TraesCS6B01G385500 chr1B 80.800 125 19 2 3102 3222 684216284 684216407 4.280000e-15 93.5
13 TraesCS6B01G385500 chr1D 75.225 666 139 19 1961 2619 192570284 192570930 3.930000e-75 292.0
14 TraesCS6B01G385500 chr1D 77.083 192 35 4 3038 3224 491727298 491727111 7.110000e-18 102.0
15 TraesCS6B01G385500 chr4A 75.803 529 114 11 2122 2646 662148612 662148094 5.160000e-64 255.0
16 TraesCS6B01G385500 chr7D 73.837 688 152 23 1970 2646 47458586 47459256 8.630000e-62 248.0
17 TraesCS6B01G385500 chr7A 73.401 688 155 21 1970 2646 49986124 49985454 8.690000e-57 231.0
18 TraesCS6B01G385500 chr7A 74.860 537 113 18 2122 2650 49964598 49964076 1.450000e-54 224.0
19 TraesCS6B01G385500 chr7A 85.075 67 10 0 2834 2900 1903486 1903552 7.210000e-08 69.4
20 TraesCS6B01G385500 chr5D 72.422 863 168 52 1067 1897 515271164 515270340 1.130000e-50 211.0
21 TraesCS6B01G385500 chr1A 73.877 601 112 30 1961 2553 238678937 238679500 8.820000e-47 198.0


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 TraesCS6B01G385500 chr6B 660257402 660261423 4021 False 7428.000000 7428 100.000000 1 4022 1 chr6B.!!$F1 4021
1 TraesCS6B01G385500 chr6A 584956981 584959165 2184 True 2449.000000 2449 86.974000 848 3042 1 chr6A.!!$R2 2194
2 TraesCS6B01G385500 chr6A 584991824 584997044 5220 False 1958.666667 5413 92.769333 15 4020 3 chr6A.!!$F1 4005
3 TraesCS6B01G385500 chr6D 436764616 436768405 3789 True 1073.300000 3057 88.170667 560 3966 3 chr6D.!!$R1 3406
4 TraesCS6B01G385500 chr1B 266258960 266259609 649 False 322.000000 322 76.048000 1961 2619 1 chr1B.!!$F1 658
5 TraesCS6B01G385500 chr1D 192570284 192570930 646 False 292.000000 292 75.225000 1961 2619 1 chr1D.!!$F1 658
6 TraesCS6B01G385500 chr4A 662148094 662148612 518 True 255.000000 255 75.803000 2122 2646 1 chr4A.!!$R1 524
7 TraesCS6B01G385500 chr7D 47458586 47459256 670 False 248.000000 248 73.837000 1970 2646 1 chr7D.!!$F1 676
8 TraesCS6B01G385500 chr7A 49985454 49986124 670 True 231.000000 231 73.401000 1970 2646 1 chr7A.!!$R2 676
9 TraesCS6B01G385500 chr7A 49964076 49964598 522 True 224.000000 224 74.860000 2122 2650 1 chr7A.!!$R1 528
10 TraesCS6B01G385500 chr5D 515270340 515271164 824 True 211.000000 211 72.422000 1067 1897 1 chr5D.!!$R1 830

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
683 1946 0.384230 CGCAAGCAAACTACCACACG 60.384 55.000 0.00 0.00 0.00 4.49 F
1294 2574 0.447406 CGCCATCGTTTTCTGCATCA 59.553 50.000 0.00 0.00 0.00 3.07 F
1368 2648 1.298713 CAGGAATCTCTCGGACGCG 60.299 63.158 3.53 3.53 0.00 6.01 F
2732 4036 0.882927 TGGCACAACCGACTGCTTAC 60.883 55.000 0.00 0.00 43.94 2.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1728 3023 0.036010 CAGCCGTGGATGAGAAACCT 60.036 55.000 0.0 0.0 32.62 3.50 R
2732 4036 0.884704 CCTTGTGTCCACCGTTCTGG 60.885 60.000 0.0 0.0 46.41 3.86 R
2916 4220 0.974010 CCTGCATCAACCCCTGCATT 60.974 55.000 0.0 0.0 46.48 3.56 R
3855 5189 3.262151 TGTCATCCCAAGGTAATCGTCAA 59.738 43.478 0.0 0.0 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
17 18 3.365265 CAAACCCCTGCCGACTGC 61.365 66.667 0.00 0.00 41.77 4.40
54 59 5.634859 GGCATAACAATTCAACACAAGAAGG 59.365 40.000 0.00 0.00 0.00 3.46
81 86 0.982852 ATTGGTGGCGATCCTCTGGA 60.983 55.000 0.00 0.00 35.55 3.86
90 95 1.827969 CGATCCTCTGGACTTGGAACT 59.172 52.381 0.00 0.00 32.98 3.01
93 98 4.500545 CGATCCTCTGGACTTGGAACTATG 60.501 50.000 0.00 0.00 32.98 2.23
102 107 4.932200 GGACTTGGAACTATGAAGTGTGAG 59.068 45.833 0.00 0.00 35.62 3.51
138 143 3.246226 GTCATCACATGGTAATCGTCAGC 59.754 47.826 0.00 0.00 0.00 4.26
146 151 1.993370 GGTAATCGTCAGCAGTCACAC 59.007 52.381 0.00 0.00 0.00 3.82
232 1455 7.829378 AAATTCAAGTATACTCTCGGTTCAC 57.171 36.000 5.70 0.00 0.00 3.18
360 1612 0.472471 AACAACCCGAGAAGCAGGAA 59.528 50.000 0.00 0.00 0.00 3.36
362 1614 1.089920 CAACCCGAGAAGCAGGAATG 58.910 55.000 0.00 0.00 0.00 2.67
367 1619 1.609061 CCGAGAAGCAGGAATGTGTGT 60.609 52.381 0.00 0.00 0.00 3.72
382 1634 3.615155 TGTGTGTTGTTGGATCACTCAA 58.385 40.909 0.00 0.00 34.33 3.02
383 1635 4.013050 TGTGTGTTGTTGGATCACTCAAA 58.987 39.130 0.00 0.00 34.33 2.69
385 1637 5.036737 GTGTGTTGTTGGATCACTCAAAAG 58.963 41.667 0.00 0.00 33.82 2.27
386 1638 4.097741 TGTGTTGTTGGATCACTCAAAAGG 59.902 41.667 0.00 0.00 33.82 3.11
387 1639 4.097892 GTGTTGTTGGATCACTCAAAAGGT 59.902 41.667 0.00 0.00 0.00 3.50
388 1640 5.298276 GTGTTGTTGGATCACTCAAAAGGTA 59.702 40.000 0.00 0.00 0.00 3.08
389 1641 6.016276 GTGTTGTTGGATCACTCAAAAGGTAT 60.016 38.462 0.00 0.00 0.00 2.73
390 1642 6.206634 TGTTGTTGGATCACTCAAAAGGTATC 59.793 38.462 0.00 0.00 0.00 2.24
391 1643 5.253330 TGTTGGATCACTCAAAAGGTATCC 58.747 41.667 0.00 0.00 37.95 2.59
392 1644 4.503714 TGGATCACTCAAAAGGTATCCC 57.496 45.455 0.00 0.00 37.23 3.85
393 1645 3.118408 TGGATCACTCAAAAGGTATCCCG 60.118 47.826 0.00 0.00 37.23 5.14
394 1646 3.134081 GGATCACTCAAAAGGTATCCCGA 59.866 47.826 0.00 0.00 34.31 5.14
395 1647 4.383770 GGATCACTCAAAAGGTATCCCGAA 60.384 45.833 0.00 0.00 34.31 4.30
396 1648 4.837093 TCACTCAAAAGGTATCCCGAAT 57.163 40.909 0.00 0.00 35.12 3.34
401 1653 3.267291 TCAAAAGGTATCCCGAATTCCCA 59.733 43.478 0.00 0.00 35.12 4.37
418 1670 7.362920 CGAATTCCCAATATGTCCAGAAAAACT 60.363 37.037 0.00 0.00 0.00 2.66
475 1727 4.293494 TCTCCATCTTGCAGAACTAGGAT 58.707 43.478 0.00 0.00 0.00 3.24
531 1783 3.470888 CCGCTTCCCACCGAGGAT 61.471 66.667 0.00 0.00 41.22 3.24
532 1784 2.107141 CGCTTCCCACCGAGGATC 59.893 66.667 0.00 0.00 41.22 3.36
533 1785 2.506472 GCTTCCCACCGAGGATCC 59.494 66.667 2.48 2.48 41.22 3.36
534 1786 2.066999 GCTTCCCACCGAGGATCCT 61.067 63.158 16.13 16.13 41.22 3.24
535 1787 0.759436 GCTTCCCACCGAGGATCCTA 60.759 60.000 16.16 0.00 41.22 2.94
536 1788 1.041437 CTTCCCACCGAGGATCCTAC 58.959 60.000 16.16 7.68 41.22 3.18
537 1789 0.398098 TTCCCACCGAGGATCCTACC 60.398 60.000 16.16 1.69 41.22 3.18
538 1790 2.201022 CCCACCGAGGATCCTACCG 61.201 68.421 16.16 15.12 41.22 4.02
539 1791 2.728817 CACCGAGGATCCTACCGC 59.271 66.667 16.16 0.42 34.73 5.68
540 1792 2.521224 ACCGAGGATCCTACCGCC 60.521 66.667 16.16 0.00 34.73 6.13
541 1793 2.520982 CCGAGGATCCTACCGCCA 60.521 66.667 16.16 0.00 34.73 5.69
542 1794 1.908793 CCGAGGATCCTACCGCCAT 60.909 63.158 16.16 0.00 34.73 4.40
543 1795 1.587054 CGAGGATCCTACCGCCATC 59.413 63.158 16.16 0.00 34.73 3.51
544 1796 1.587054 GAGGATCCTACCGCCATCG 59.413 63.158 16.16 0.00 34.73 3.84
545 1797 1.152525 AGGATCCTACCGCCATCGT 60.153 57.895 14.27 0.00 34.73 3.73
546 1798 0.759436 AGGATCCTACCGCCATCGTT 60.759 55.000 14.27 0.00 34.73 3.85
553 1805 1.407979 CTACCGCCATCGTTACTTCCT 59.592 52.381 0.00 0.00 0.00 3.36
605 1857 1.676006 CCTTGTCTTGCGGTTGTCTTT 59.324 47.619 0.00 0.00 0.00 2.52
606 1858 2.287009 CCTTGTCTTGCGGTTGTCTTTC 60.287 50.000 0.00 0.00 0.00 2.62
607 1859 2.325583 TGTCTTGCGGTTGTCTTTCT 57.674 45.000 0.00 0.00 0.00 2.52
608 1860 1.939934 TGTCTTGCGGTTGTCTTTCTG 59.060 47.619 0.00 0.00 0.00 3.02
609 1861 1.940613 GTCTTGCGGTTGTCTTTCTGT 59.059 47.619 0.00 0.00 0.00 3.41
610 1862 2.354821 GTCTTGCGGTTGTCTTTCTGTT 59.645 45.455 0.00 0.00 0.00 3.16
611 1863 3.013921 TCTTGCGGTTGTCTTTCTGTTT 58.986 40.909 0.00 0.00 0.00 2.83
612 1864 4.034742 GTCTTGCGGTTGTCTTTCTGTTTA 59.965 41.667 0.00 0.00 0.00 2.01
613 1865 4.636648 TCTTGCGGTTGTCTTTCTGTTTAA 59.363 37.500 0.00 0.00 0.00 1.52
614 1866 4.281525 TGCGGTTGTCTTTCTGTTTAAC 57.718 40.909 0.00 0.00 0.00 2.01
683 1946 0.384230 CGCAAGCAAACTACCACACG 60.384 55.000 0.00 0.00 0.00 4.49
691 1954 0.599558 AACTACCACACGCGCTCTTA 59.400 50.000 5.73 0.00 0.00 2.10
708 1971 6.480981 GCGCTCTTACCTTACATTGGTAAATA 59.519 38.462 0.00 0.00 45.81 1.40
822 2090 3.492102 AATAGTGCATAGAATGGGCGT 57.508 42.857 0.00 0.00 0.00 5.68
835 2103 2.107950 TGGGCGTAGGATGTTGAAAG 57.892 50.000 0.00 0.00 0.00 2.62
852 2120 3.753272 TGAAAGTTAGCAGCATGGACTTC 59.247 43.478 0.00 0.00 35.86 3.01
904 2179 4.390603 CGCTGCTGTGTATAACCTTAAACA 59.609 41.667 0.00 0.00 0.00 2.83
970 2247 5.028549 AGCATACCTCATTGAGTAGTTGG 57.971 43.478 12.54 0.00 0.00 3.77
997 2274 1.152963 AGCCACAAACAGCTTCCGT 60.153 52.632 0.00 0.00 35.22 4.69
1014 2291 3.777478 TCCGTCGATGACAAATAGGAAC 58.223 45.455 6.11 0.00 32.09 3.62
1020 2297 2.552599 TGACAAATAGGAACCGTGCA 57.447 45.000 0.00 0.00 0.00 4.57
1049 2326 2.695970 CGTCCCTCCTCCTCCTCCT 61.696 68.421 0.00 0.00 0.00 3.69
1050 2327 1.231928 GTCCCTCCTCCTCCTCCTC 59.768 68.421 0.00 0.00 0.00 3.71
1066 2343 3.430929 CCTCCTCTTATTTGGTCTCACCG 60.431 52.174 0.00 0.00 42.58 4.94
1248 2528 1.098050 GCTTCCGCAATTCATCCACT 58.902 50.000 0.00 0.00 35.78 4.00
1273 2553 4.154195 GTGGTAAAGTGCAATCATTCTCGT 59.846 41.667 0.00 0.00 0.00 4.18
1294 2574 0.447406 CGCCATCGTTTTCTGCATCA 59.553 50.000 0.00 0.00 0.00 3.07
1368 2648 1.298713 CAGGAATCTCTCGGACGCG 60.299 63.158 3.53 3.53 0.00 6.01
1369 2649 1.749638 AGGAATCTCTCGGACGCGT 60.750 57.895 13.85 13.85 0.00 6.01
1539 2831 1.301244 CGCGGCTGGCTTCTATGAT 60.301 57.895 0.00 0.00 40.44 2.45
1956 3251 2.414481 CACTCTGATGGTGCGAAGAAAG 59.586 50.000 0.00 0.00 0.00 2.62
2310 3608 5.163205 TGGCAGCCTTGACAAGTATATACAT 60.163 40.000 14.15 0.00 40.10 2.29
2716 4020 1.965754 CTGGGTCCTAGAGCACTGGC 61.966 65.000 0.00 0.00 41.61 4.85
2732 4036 0.882927 TGGCACAACCGACTGCTTAC 60.883 55.000 0.00 0.00 43.94 2.34
2763 4067 1.377725 CACAAGGCTCCAAGGCGAT 60.378 57.895 0.00 0.00 46.58 4.58
2776 4080 3.465753 GCGATTACGGCGTTGACA 58.534 55.556 21.24 0.00 40.15 3.58
3023 4327 0.595588 CTCTCGGGAGGACGATGATG 59.404 60.000 3.69 0.00 42.62 3.07
3081 4385 1.001974 GCACCCCATGTTTCCTTTTCC 59.998 52.381 0.00 0.00 0.00 3.13
3115 4419 7.773224 TGGACTTTCAAGTTCTCAGAAATTGTA 59.227 33.333 23.28 13.93 39.88 2.41
3241 4545 6.572167 TCATGTGCATGTCATTAAACAGAA 57.428 33.333 11.38 0.00 39.72 3.02
3246 4550 6.710295 TGTGCATGTCATTAAACAGAAGTACT 59.290 34.615 0.00 0.00 31.50 2.73
3272 4576 8.229811 TGAACACTATTCATTTGAATCTTGTCG 58.770 33.333 8.99 5.87 43.17 4.35
3274 4578 6.372659 ACACTATTCATTTGAATCTTGTCGCT 59.627 34.615 8.99 0.00 43.17 4.93
3452 4776 8.336235 TGGATGGGTTATTGAGAAAAACTATCT 58.664 33.333 0.00 0.00 0.00 1.98
3464 4788 7.815068 TGAGAAAAACTATCTCTTTTCGAGGAG 59.185 37.037 5.28 5.99 43.30 3.69
3588 4922 8.474006 TGTACATGTACATTGATCAGTGTTAC 57.526 34.615 30.31 20.89 40.77 2.50
3637 4971 5.992217 ACAAAGGAAGATAGACACTCAACAC 59.008 40.000 0.00 0.00 0.00 3.32
3638 4972 6.183361 ACAAAGGAAGATAGACACTCAACACT 60.183 38.462 0.00 0.00 0.00 3.55
3639 4973 7.015292 ACAAAGGAAGATAGACACTCAACACTA 59.985 37.037 0.00 0.00 0.00 2.74
3640 4974 7.726033 AAGGAAGATAGACACTCAACACTAT 57.274 36.000 0.00 0.00 0.00 2.12
3641 4975 7.726033 AGGAAGATAGACACTCAACACTATT 57.274 36.000 0.00 0.00 0.00 1.73
3742 5076 8.961294 AGATGAATCTTAAAGATGGACAAGAG 57.039 34.615 0.00 0.00 34.65 2.85
3789 5123 6.158598 CCGTTGAATTTCAAAGATGGACAAT 58.841 36.000 21.70 0.00 38.22 2.71
3794 5128 9.695526 TTGAATTTCAAAGATGGACAATAACTG 57.304 29.630 9.36 0.00 32.71 3.16
3809 5143 8.398665 GGACAATAACTGGAATATCAACTTGAC 58.601 37.037 0.00 0.00 0.00 3.18
3838 5172 1.069090 ACGCGTGGATGAACAGTGT 59.931 52.632 12.93 0.00 0.00 3.55
3855 5189 5.126067 ACAGTGTGCTCTAAATGTGACTTT 58.874 37.500 0.00 0.00 0.00 2.66
3864 5198 7.386573 TGCTCTAAATGTGACTTTTGACGATTA 59.613 33.333 6.70 0.00 0.00 1.75
3895 5229 1.200716 ACATGAAATTGGCAGCTCACG 59.799 47.619 0.00 0.00 0.00 4.35
3997 5337 9.793252 GACCTTTTTCGAGTATTATGTGTAGTA 57.207 33.333 0.00 0.00 0.00 1.82
4014 5354 7.429633 TGTGTAGTAAATTTGGATGTTTGTGG 58.570 34.615 0.00 0.00 0.00 4.17
4015 5355 7.285629 TGTGTAGTAAATTTGGATGTTTGTGGA 59.714 33.333 0.00 0.00 0.00 4.02
4018 5358 9.535878 GTAGTAAATTTGGATGTTTGTGGAAAA 57.464 29.630 0.00 0.00 0.00 2.29
4020 5360 9.625747 AGTAAATTTGGATGTTTGTGGAAAATT 57.374 25.926 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.365265 GCAGTCGGCAGGGGTTTG 61.365 66.667 0.00 0.00 43.97 2.93
10 11 1.666553 TTACAGCAACGGCAGTCGG 60.667 57.895 0.00 0.00 44.61 4.79
11 12 1.491563 GTTACAGCAACGGCAGTCG 59.508 57.895 0.00 0.00 44.61 4.18
54 59 2.484889 GATCGCCACCAATCTTCCTAC 58.515 52.381 0.00 0.00 0.00 3.18
81 86 4.040952 AGCTCACACTTCATAGTTCCAAGT 59.959 41.667 0.00 0.00 30.26 3.16
90 95 2.857186 TTGGCAGCTCACACTTCATA 57.143 45.000 0.00 0.00 0.00 2.15
93 98 2.352127 GGAAATTGGCAGCTCACACTTC 60.352 50.000 0.00 0.00 0.00 3.01
102 107 1.820519 TGATGACAGGAAATTGGCAGC 59.179 47.619 0.00 0.00 42.75 5.25
165 170 8.316497 TGAAAGGGGAATTTGATGCATAATAA 57.684 30.769 0.00 0.00 0.00 1.40
166 171 7.564660 ACTGAAAGGGGAATTTGATGCATAATA 59.435 33.333 0.00 0.00 39.30 0.98
169 174 5.271598 ACTGAAAGGGGAATTTGATGCATA 58.728 37.500 0.00 0.00 39.30 3.14
170 175 4.098894 ACTGAAAGGGGAATTTGATGCAT 58.901 39.130 0.00 0.00 39.30 3.96
171 176 3.509442 ACTGAAAGGGGAATTTGATGCA 58.491 40.909 0.00 0.00 39.30 3.96
173 178 5.990120 AGAACTGAAAGGGGAATTTGATG 57.010 39.130 0.00 0.00 39.30 3.07
174 179 5.840693 ACAAGAACTGAAAGGGGAATTTGAT 59.159 36.000 0.00 0.00 39.30 2.57
175 180 5.208121 ACAAGAACTGAAAGGGGAATTTGA 58.792 37.500 0.00 0.00 39.30 2.69
176 181 5.302823 AGACAAGAACTGAAAGGGGAATTTG 59.697 40.000 0.00 0.00 39.30 2.32
232 1455 5.766150 TTTGTCATGTAAACTGGGACAAG 57.234 39.130 0.00 0.00 45.73 3.16
350 1602 2.936202 ACAACACACATTCCTGCTTCT 58.064 42.857 0.00 0.00 0.00 2.85
353 1605 1.682854 CCAACAACACACATTCCTGCT 59.317 47.619 0.00 0.00 0.00 4.24
360 1612 3.819368 TGAGTGATCCAACAACACACAT 58.181 40.909 0.00 0.00 37.05 3.21
362 1614 4.630894 TTTGAGTGATCCAACAACACAC 57.369 40.909 0.00 0.00 37.05 3.82
367 1619 5.710099 GGATACCTTTTGAGTGATCCAACAA 59.290 40.000 0.00 0.00 34.26 2.83
386 1638 4.941873 GGACATATTGGGAATTCGGGATAC 59.058 45.833 0.00 0.00 0.00 2.24
387 1639 4.599676 TGGACATATTGGGAATTCGGGATA 59.400 41.667 0.00 0.00 0.00 2.59
388 1640 3.397618 TGGACATATTGGGAATTCGGGAT 59.602 43.478 0.00 0.00 0.00 3.85
389 1641 2.780592 TGGACATATTGGGAATTCGGGA 59.219 45.455 0.00 0.00 0.00 5.14
390 1642 3.149196 CTGGACATATTGGGAATTCGGG 58.851 50.000 0.00 0.00 0.00 5.14
391 1643 4.085357 TCTGGACATATTGGGAATTCGG 57.915 45.455 0.00 0.00 0.00 4.30
392 1644 6.449635 TTTTCTGGACATATTGGGAATTCG 57.550 37.500 0.00 0.00 0.00 3.34
393 1645 7.840931 AGTTTTTCTGGACATATTGGGAATTC 58.159 34.615 0.00 0.00 0.00 2.17
394 1646 7.797121 AGTTTTTCTGGACATATTGGGAATT 57.203 32.000 0.00 0.00 0.00 2.17
395 1647 8.893563 TTAGTTTTTCTGGACATATTGGGAAT 57.106 30.769 0.00 0.00 0.00 3.01
396 1648 8.167392 TCTTAGTTTTTCTGGACATATTGGGAA 58.833 33.333 0.00 0.00 0.00 3.97
418 1670 3.695830 AGCGGGTGACAATTTCTCTTA 57.304 42.857 0.00 0.00 0.00 2.10
516 1768 0.759436 TAGGATCCTCGGTGGGAAGC 60.759 60.000 20.22 0.00 39.02 3.86
517 1769 1.041437 GTAGGATCCTCGGTGGGAAG 58.959 60.000 20.22 0.00 39.02 3.46
518 1770 0.398098 GGTAGGATCCTCGGTGGGAA 60.398 60.000 20.22 0.00 39.02 3.97
519 1771 1.232216 GGTAGGATCCTCGGTGGGA 59.768 63.158 20.22 0.00 39.95 4.37
520 1772 2.201022 CGGTAGGATCCTCGGTGGG 61.201 68.421 20.22 0.00 36.20 4.61
521 1773 2.857744 GCGGTAGGATCCTCGGTGG 61.858 68.421 20.22 5.71 37.10 4.61
522 1774 2.728817 GCGGTAGGATCCTCGGTG 59.271 66.667 20.22 8.18 0.00 4.94
523 1775 2.521224 GGCGGTAGGATCCTCGGT 60.521 66.667 20.22 0.00 0.00 4.69
524 1776 1.878656 GATGGCGGTAGGATCCTCGG 61.879 65.000 20.22 14.72 0.00 4.63
525 1777 1.587054 GATGGCGGTAGGATCCTCG 59.413 63.158 20.22 18.00 0.00 4.63
526 1778 1.179814 ACGATGGCGGTAGGATCCTC 61.180 60.000 20.22 10.07 43.17 3.71
527 1779 0.759436 AACGATGGCGGTAGGATCCT 60.759 55.000 20.48 20.48 43.17 3.24
528 1780 0.963962 TAACGATGGCGGTAGGATCC 59.036 55.000 2.48 2.48 43.17 3.36
529 1781 1.612463 AGTAACGATGGCGGTAGGATC 59.388 52.381 0.00 0.00 40.95 3.36
530 1782 1.700955 AGTAACGATGGCGGTAGGAT 58.299 50.000 0.00 0.00 40.95 3.24
531 1783 1.406539 GAAGTAACGATGGCGGTAGGA 59.593 52.381 0.00 0.00 40.95 2.94
532 1784 1.537562 GGAAGTAACGATGGCGGTAGG 60.538 57.143 0.00 0.00 40.95 3.18
533 1785 1.407979 AGGAAGTAACGATGGCGGTAG 59.592 52.381 0.00 0.00 40.95 3.18
534 1786 1.135527 CAGGAAGTAACGATGGCGGTA 59.864 52.381 0.00 0.00 43.17 4.02
535 1787 0.108329 CAGGAAGTAACGATGGCGGT 60.108 55.000 0.00 0.00 43.17 5.68
536 1788 1.429148 GCAGGAAGTAACGATGGCGG 61.429 60.000 0.00 0.00 43.17 6.13
537 1789 1.429148 GGCAGGAAGTAACGATGGCG 61.429 60.000 0.00 0.00 44.79 5.69
538 1790 1.429148 CGGCAGGAAGTAACGATGGC 61.429 60.000 0.00 0.00 0.00 4.40
539 1791 0.174845 TCGGCAGGAAGTAACGATGG 59.825 55.000 0.00 0.00 0.00 3.51
540 1792 1.135083 ACTCGGCAGGAAGTAACGATG 60.135 52.381 0.00 0.00 32.75 3.84
541 1793 1.134560 GACTCGGCAGGAAGTAACGAT 59.865 52.381 0.00 0.00 32.75 3.73
542 1794 0.524862 GACTCGGCAGGAAGTAACGA 59.475 55.000 0.00 0.00 0.00 3.85
543 1795 0.797249 CGACTCGGCAGGAAGTAACG 60.797 60.000 0.00 0.00 0.00 3.18
544 1796 1.077089 GCGACTCGGCAGGAAGTAAC 61.077 60.000 0.00 0.00 0.00 2.50
545 1797 1.214589 GCGACTCGGCAGGAAGTAA 59.785 57.895 0.00 0.00 0.00 2.24
546 1798 1.654954 GAGCGACTCGGCAGGAAGTA 61.655 60.000 0.00 0.00 34.64 2.24
605 1857 2.902705 AGCGTGTGGAGTTAAACAGA 57.097 45.000 0.00 0.00 0.00 3.41
606 1858 5.607119 AATTAGCGTGTGGAGTTAAACAG 57.393 39.130 0.00 0.00 0.00 3.16
607 1859 5.049267 GGAAATTAGCGTGTGGAGTTAAACA 60.049 40.000 0.00 0.00 0.00 2.83
608 1860 5.049267 TGGAAATTAGCGTGTGGAGTTAAAC 60.049 40.000 0.00 0.00 0.00 2.01
609 1861 5.064558 TGGAAATTAGCGTGTGGAGTTAAA 58.935 37.500 0.00 0.00 0.00 1.52
610 1862 4.643463 TGGAAATTAGCGTGTGGAGTTAA 58.357 39.130 0.00 0.00 0.00 2.01
611 1863 4.274602 TGGAAATTAGCGTGTGGAGTTA 57.725 40.909 0.00 0.00 0.00 2.24
612 1864 3.134574 TGGAAATTAGCGTGTGGAGTT 57.865 42.857 0.00 0.00 0.00 3.01
613 1865 2.851263 TGGAAATTAGCGTGTGGAGT 57.149 45.000 0.00 0.00 0.00 3.85
614 1866 3.074412 ACTTGGAAATTAGCGTGTGGAG 58.926 45.455 0.00 0.00 0.00 3.86
683 1946 2.629051 ACCAATGTAAGGTAAGAGCGC 58.371 47.619 0.00 0.00 37.67 5.92
691 1954 6.975949 TGGTCCATATTTACCAATGTAAGGT 58.024 36.000 3.84 0.00 42.74 3.50
708 1971 4.313020 AAAGAGCAGAGATTTGGTCCAT 57.687 40.909 0.00 0.00 44.53 3.41
755 2023 9.981114 TCATTATCTATCGATGCTTTTGTAGAA 57.019 29.630 8.54 0.00 0.00 2.10
822 2090 4.905429 TGCTGCTAACTTTCAACATCCTA 58.095 39.130 0.00 0.00 0.00 2.94
835 2103 2.010145 TCGAAGTCCATGCTGCTAAC 57.990 50.000 0.00 0.00 0.00 2.34
852 2120 7.962964 TTATAATTACATCAAGCTCCCTTCG 57.037 36.000 0.00 0.00 0.00 3.79
970 2247 1.264288 CTGTTTGTGGCTCCGAAGTTC 59.736 52.381 0.00 0.00 0.00 3.01
997 2274 3.517602 CACGGTTCCTATTTGTCATCGA 58.482 45.455 0.00 0.00 0.00 3.59
1020 2297 2.203743 AGGGACGGAAGGAACGGT 60.204 61.111 0.00 0.00 35.23 4.83
1049 2326 2.673043 GCGACGGTGAGACCAAATAAGA 60.673 50.000 0.00 0.00 38.47 2.10
1050 2327 1.659098 GCGACGGTGAGACCAAATAAG 59.341 52.381 0.00 0.00 38.47 1.73
1248 2528 4.406456 AGAATGATTGCACTTTACCACCA 58.594 39.130 0.00 0.00 0.00 4.17
1273 2553 0.676466 ATGCAGAAAACGATGGCGGA 60.676 50.000 0.00 0.00 43.17 5.54
1539 2831 0.898326 TGAAGGCGCCACTAGAGTCA 60.898 55.000 31.54 16.02 0.00 3.41
1572 2864 3.005554 CTGCAGTTCTATCTGGGTGTTG 58.994 50.000 5.25 0.00 36.12 3.33
1728 3023 0.036010 CAGCCGTGGATGAGAAACCT 60.036 55.000 0.00 0.00 32.62 3.50
1956 3251 1.946475 GCACCTCCGTGTACCTCCTC 61.946 65.000 0.00 0.00 42.39 3.71
1977 3275 0.324738 ACTCGCTCTCCCAATCCTCA 60.325 55.000 0.00 0.00 0.00 3.86
2655 3956 1.676529 CCCTCTGCATCTTGCTTCATG 59.323 52.381 0.75 0.00 45.31 3.07
2716 4020 1.148310 CTGGTAAGCAGTCGGTTGTG 58.852 55.000 0.00 0.00 34.01 3.33
2732 4036 0.884704 CCTTGTGTCCACCGTTCTGG 60.885 60.000 0.00 0.00 46.41 3.86
2763 4067 1.069568 CATGCTTTGTCAACGCCGTAA 60.070 47.619 11.17 0.00 0.00 3.18
2916 4220 0.974010 CCTGCATCAACCCCTGCATT 60.974 55.000 0.00 0.00 46.48 3.56
3023 4327 3.930848 CCAGAATTACTAACACCGTGGAC 59.069 47.826 3.03 0.00 0.00 4.02
3028 4332 4.000988 AGTTGCCAGAATTACTAACACCG 58.999 43.478 0.00 0.00 0.00 4.94
3081 4385 7.940850 TGAGAACTTGAAAGTCCAAAAATAGG 58.059 34.615 0.00 0.00 38.57 2.57
3140 4444 8.348507 AGTTTTAGCAGAAGCAAATCATATAGC 58.651 33.333 0.00 0.00 45.49 2.97
3141 4445 9.875675 GAGTTTTAGCAGAAGCAAATCATATAG 57.124 33.333 0.00 0.00 45.49 1.31
3147 4451 8.023128 TGTTATGAGTTTTAGCAGAAGCAAATC 58.977 33.333 0.00 0.00 45.49 2.17
3151 4455 6.875948 TTGTTATGAGTTTTAGCAGAAGCA 57.124 33.333 0.00 0.00 45.49 3.91
3181 4485 7.996644 TCTTTTTCTGTAAAGGTTACAGGATGT 59.003 33.333 21.88 0.00 43.67 3.06
3224 4528 7.364522 TCAGTACTTCTGTTTAATGACATGC 57.635 36.000 0.00 0.00 43.97 4.06
3241 4545 9.950496 AGATTCAAATGAATAGTGTTCAGTACT 57.050 29.630 8.55 0.00 44.14 2.73
3246 4550 8.229811 CGACAAGATTCAAATGAATAGTGTTCA 58.770 33.333 18.08 4.66 44.14 3.18
3352 4659 7.668525 GATGTGAGCATCTAATTGATCATCA 57.331 36.000 0.00 0.00 43.24 3.07
3452 4776 3.895656 TCCTCTCAAACTCCTCGAAAAGA 59.104 43.478 0.99 0.00 0.00 2.52
3458 4782 2.497675 TGGATTCCTCTCAAACTCCTCG 59.502 50.000 3.95 0.00 0.00 4.63
3569 4894 9.733556 AATTTAGGTAACACTGATCAATGTACA 57.266 29.630 10.68 0.00 41.41 2.90
3637 4971 7.659652 GGCACCTTGCTAATTACTAGAATAG 57.340 40.000 0.00 0.00 44.28 1.73
3678 5012 9.647797 ACACATTTGACGTACTAATAAATGAGA 57.352 29.630 19.43 0.00 39.73 3.27
3730 5064 4.464008 TGTTTTTCAGCTCTTGTCCATCT 58.536 39.130 0.00 0.00 0.00 2.90
3737 5071 6.095377 ACTTTCAGTTGTTTTTCAGCTCTTG 58.905 36.000 0.00 0.00 35.47 3.02
3742 5076 6.577427 CGGTATACTTTCAGTTGTTTTTCAGC 59.423 38.462 2.25 0.00 0.00 4.26
3766 5100 8.638565 GTTATTGTCCATCTTTGAAATTCAACG 58.361 33.333 8.06 6.90 35.89 4.10
3776 5110 9.123902 TGATATTCCAGTTATTGTCCATCTTTG 57.876 33.333 0.00 0.00 0.00 2.77
3789 5123 5.483811 TGCGTCAAGTTGATATTCCAGTTA 58.516 37.500 9.18 0.00 0.00 2.24
3794 5128 7.078228 GGAATTATGCGTCAAGTTGATATTCC 58.922 38.462 9.18 14.77 0.00 3.01
3838 5172 5.053811 TCGTCAAAAGTCACATTTAGAGCA 58.946 37.500 0.00 0.00 0.00 4.26
3855 5189 3.262151 TGTCATCCCAAGGTAATCGTCAA 59.738 43.478 0.00 0.00 0.00 3.18
3864 5198 3.770933 CCAATTTCATGTCATCCCAAGGT 59.229 43.478 0.00 0.00 0.00 3.50
3895 5229 9.282569 AGAATATTATTGATGGAACTCTGAAGC 57.717 33.333 0.00 0.00 0.00 3.86
3971 5311 8.699283 ACTACACATAATACTCGAAAAAGGTC 57.301 34.615 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.