Multiple sequence alignment - TraesCS2A01G167300

Loading Multiple Alignment...

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 TraesCS2A01G167300 chr2A 100.000 3060 0 0 1 3060 120097616 120100675 0.000000e+00 5651
1 TraesCS2A01G167300 chr2D 90.240 2705 115 51 433 3060 118244681 118247313 0.000000e+00 3395
2 TraesCS2A01G167300 chr2D 82.500 440 20 16 40 445 118244245 118244661 1.760000e-87 333
3 TraesCS2A01G167300 chr2B 88.402 2647 131 67 509 3060 169863742 169866307 0.000000e+00 3025
4 TraesCS2A01G167300 chr2B 85.033 608 51 17 1638 2227 577442847 577442262 1.580000e-162 582
5 TraesCS2A01G167300 chr2B 83.296 443 19 14 1 409 169862996 169863417 1.040000e-94 357
6 TraesCS2A01G167300 chr2B 93.243 222 15 0 1295 1516 5490114 5490335 8.180000e-86 327
7 TraesCS2A01G167300 chr2B 87.500 176 8 5 1509 1684 5490795 5490956 1.120000e-44 191
8 TraesCS2A01G167300 chr5B 76.460 565 86 27 1112 1666 577659757 577660284 2.340000e-66 263
9 TraesCS2A01G167300 chr5A 80.791 354 50 13 1344 1693 591082071 591082410 8.420000e-66 261
10 TraesCS2A01G167300 chr5D 75.904 581 90 31 1112 1682 470377073 470377613 5.060000e-63 252


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 TraesCS2A01G167300 chr2A 120097616 120100675 3059 False 5651 5651 100.0000 1 3060 1 chr2A.!!$F1 3059
1 TraesCS2A01G167300 chr2D 118244245 118247313 3068 False 1864 3395 86.3700 40 3060 2 chr2D.!!$F1 3020
2 TraesCS2A01G167300 chr2B 169862996 169866307 3311 False 1691 3025 85.8490 1 3060 2 chr2B.!!$F2 3059
3 TraesCS2A01G167300 chr2B 577442262 577442847 585 True 582 582 85.0330 1638 2227 1 chr2B.!!$R1 589
4 TraesCS2A01G167300 chr2B 5490114 5490956 842 False 259 327 90.3715 1295 1684 2 chr2B.!!$F1 389
5 TraesCS2A01G167300 chr5B 577659757 577660284 527 False 263 263 76.4600 1112 1666 1 chr5B.!!$F1 554
6 TraesCS2A01G167300 chr5D 470377073 470377613 540 False 252 252 75.9040 1112 1682 1 chr5D.!!$F1 570

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
500 796 0.038801 GTGGCTGCCTCTGCTTTTTC 60.039 55.0 21.03 0.0 38.71 2.29 F
878 1200 0.178888 CTCCCCCTCCCTCTTATCCC 60.179 65.0 0.00 0.0 0.00 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2013 2876 0.256464 AGAGTAGGAGTGACCGGGAG 59.744 60.0 6.32 0.0 44.74 4.30 R
2330 3218 0.468226 ACAAGAGCCGGACAACAAGA 59.532 50.0 5.05 0.0 0.00 3.02 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
114 129 1.486439 TACCGAACGAACCAACGAAC 58.514 50.000 0.00 0.00 37.03 3.95
115 130 1.153597 ACCGAACGAACCAACGAACC 61.154 55.000 0.00 0.00 37.03 3.62
141 156 4.920112 TGTGGTCCACCCGTTGCG 62.920 66.667 19.57 0.00 35.15 4.85
142 157 4.612412 GTGGTCCACCCGTTGCGA 62.612 66.667 11.30 0.00 35.15 5.10
143 158 3.632080 TGGTCCACCCGTTGCGAT 61.632 61.111 0.00 0.00 35.15 4.58
144 159 3.124921 GGTCCACCCGTTGCGATG 61.125 66.667 0.00 0.00 0.00 3.84
235 271 5.089411 CGTATCCACGTCAAGCTATCTATG 58.911 45.833 0.00 0.00 43.31 2.23
353 389 4.752879 CCGATCCGGCGGTGTGTT 62.753 66.667 27.32 6.81 46.07 3.32
381 417 0.471211 AACCAGACCAGGGTTCGAGA 60.471 55.000 0.00 0.00 45.26 4.04
382 418 0.900647 ACCAGACCAGGGTTCGAGAG 60.901 60.000 0.00 0.00 34.10 3.20
409 445 2.587060 ATCAGGATCCAACCAGGGTA 57.413 50.000 15.82 0.00 38.24 3.69
410 446 1.580059 TCAGGATCCAACCAGGGTAC 58.420 55.000 15.82 0.00 38.24 3.34
412 448 1.633432 CAGGATCCAACCAGGGTACAA 59.367 52.381 15.82 0.00 31.42 2.41
415 451 2.224917 GGATCCAACCAGGGTACAAACA 60.225 50.000 6.95 0.00 38.24 2.83
416 452 2.351706 TCCAACCAGGGTACAAACAC 57.648 50.000 0.00 0.00 38.24 3.32
417 453 1.847737 TCCAACCAGGGTACAAACACT 59.152 47.619 0.00 0.00 41.23 3.55
419 455 3.653836 TCCAACCAGGGTACAAACACTAT 59.346 43.478 0.00 0.00 37.20 2.12
420 456 4.845225 TCCAACCAGGGTACAAACACTATA 59.155 41.667 0.00 0.00 37.20 1.31
421 457 5.310068 TCCAACCAGGGTACAAACACTATAA 59.690 40.000 0.00 0.00 37.20 0.98
422 458 6.005198 CCAACCAGGGTACAAACACTATAAA 58.995 40.000 0.00 0.00 37.20 1.40
500 796 0.038801 GTGGCTGCCTCTGCTTTTTC 60.039 55.000 21.03 0.00 38.71 2.29
501 797 0.178981 TGGCTGCCTCTGCTTTTTCT 60.179 50.000 21.03 0.00 38.71 2.52
502 798 0.964700 GGCTGCCTCTGCTTTTTCTT 59.035 50.000 12.43 0.00 38.71 2.52
503 799 1.342496 GGCTGCCTCTGCTTTTTCTTT 59.658 47.619 12.43 0.00 38.71 2.52
504 800 2.224137 GGCTGCCTCTGCTTTTTCTTTT 60.224 45.455 12.43 0.00 38.71 2.27
505 801 3.461061 GCTGCCTCTGCTTTTTCTTTTT 58.539 40.909 0.00 0.00 38.71 1.94
574 870 0.249398 CGGTCGATCTCAGGGGTTTT 59.751 55.000 0.00 0.00 0.00 2.43
650 961 2.974698 CCATCGCGGGAGATTGGC 60.975 66.667 6.13 0.00 0.00 4.52
662 973 3.400599 GATTGGCCGACGGGGATGT 62.401 63.158 17.22 0.00 38.47 3.06
705 1016 1.456705 GAACAAACCCACCCAGCCA 60.457 57.895 0.00 0.00 0.00 4.75
730 1047 3.332385 TCATGGCTGCCCTGCTCA 61.332 61.111 17.53 0.00 0.00 4.26
731 1048 2.829003 CATGGCTGCCCTGCTCAG 60.829 66.667 17.53 0.00 34.79 3.35
736 1053 2.125065 CTGCCCTGCTCAGCTCTG 60.125 66.667 0.00 0.00 0.00 3.35
737 1054 4.405671 TGCCCTGCTCAGCTCTGC 62.406 66.667 0.00 0.00 0.00 4.26
738 1055 4.098722 GCCCTGCTCAGCTCTGCT 62.099 66.667 0.00 0.00 40.77 4.24
739 1056 2.187424 CCCTGCTCAGCTCTGCTC 59.813 66.667 0.00 0.00 36.40 4.26
789 1109 0.390472 CTCGCTTTCCCTCCACAGTC 60.390 60.000 0.00 0.00 0.00 3.51
878 1200 0.178888 CTCCCCCTCCCTCTTATCCC 60.179 65.000 0.00 0.00 0.00 3.85
979 1309 2.420129 CCCGCTGGCCTGAATATATACC 60.420 54.545 14.77 0.00 0.00 2.73
990 1320 5.591067 CCTGAATATATACCGACTCTCTCCC 59.409 48.000 0.00 0.00 0.00 4.30
1104 1442 3.322466 CTTGCTCGAGGGGTGGGT 61.322 66.667 15.58 0.00 0.00 4.51
1105 1443 3.612247 CTTGCTCGAGGGGTGGGTG 62.612 68.421 15.58 0.00 0.00 4.61
1350 1713 2.757099 TTCTACGACGGGGGCCTC 60.757 66.667 0.84 0.00 0.00 4.70
1701 2552 4.980805 GCTCCCGCCACAACGACA 62.981 66.667 0.00 0.00 34.06 4.35
1815 2666 2.665000 CCAGCGCCTCAGGAAGAA 59.335 61.111 2.29 0.00 0.00 2.52
1821 2672 1.594310 GCCTCAGGAAGAAGACGCT 59.406 57.895 0.00 0.00 0.00 5.07
1827 2678 1.188219 AGGAAGAAGACGCTGCCAGA 61.188 55.000 0.00 0.00 35.90 3.86
1919 2779 4.783621 GGCGGGCTCATGCTGACA 62.784 66.667 0.00 0.00 39.59 3.58
1927 2787 2.753043 CATGCTGACACCTGGGCC 60.753 66.667 0.00 0.00 0.00 5.80
1946 2806 2.265904 GGCACGGTGGACTTTTCCC 61.266 63.158 10.60 0.00 42.01 3.97
1959 2822 2.792967 ACTTTTCCCCCTCCAACCTTTA 59.207 45.455 0.00 0.00 0.00 1.85
1961 2824 0.702316 TTCCCCCTCCAACCTTTAGC 59.298 55.000 0.00 0.00 0.00 3.09
1964 2827 0.392595 CCCCTCCAACCTTTAGCGAC 60.393 60.000 0.00 0.00 0.00 5.19
1989 2852 3.777925 CTTCCTTGCGTGGCGTCG 61.778 66.667 0.00 0.00 0.00 5.12
2011 2874 0.238553 GCAAGTTTTCCCAGCGTCTC 59.761 55.000 0.00 0.00 0.00 3.36
2012 2875 0.875059 CAAGTTTTCCCAGCGTCTCC 59.125 55.000 0.00 0.00 0.00 3.71
2013 2876 0.250770 AAGTTTTCCCAGCGTCTCCC 60.251 55.000 0.00 0.00 0.00 4.30
2014 2877 1.128188 AGTTTTCCCAGCGTCTCCCT 61.128 55.000 0.00 0.00 0.00 4.20
2026 2889 2.760385 CTCCCTCCCGGTCACTCC 60.760 72.222 0.00 0.00 0.00 3.85
2032 2895 0.256464 CTCCCGGTCACTCCTACTCT 59.744 60.000 0.00 0.00 0.00 3.24
2033 2896 0.702902 TCCCGGTCACTCCTACTCTT 59.297 55.000 0.00 0.00 0.00 2.85
2034 2897 1.918262 TCCCGGTCACTCCTACTCTTA 59.082 52.381 0.00 0.00 0.00 2.10
2157 3027 2.030457 GCCTCCATACATTTCGTCGTTG 59.970 50.000 0.00 0.00 0.00 4.10
2217 3087 0.238289 ACTTGCAAGCGGTCAATTCG 59.762 50.000 26.27 0.00 0.00 3.34
2220 3090 2.485122 CAAGCGGTCAATTCGGCC 59.515 61.111 0.00 0.00 34.87 6.13
2266 3137 9.552114 CTATACCGTTATTCAGTTATACTTCCG 57.448 37.037 0.00 0.00 0.00 4.30
2288 3159 0.032678 CTCTGTCGACCTGCAACTGT 59.967 55.000 14.12 0.00 0.00 3.55
2293 3164 0.391228 TCGACCTGCAACTGTAAGCA 59.609 50.000 7.48 7.48 37.60 3.91
2330 3218 6.787957 ACTAGTAGTATATTCACCCTGCCAAT 59.212 38.462 0.00 0.00 0.00 3.16
2356 3244 3.478857 TGTCCGGCTCTTGTTTTTCTA 57.521 42.857 0.00 0.00 0.00 2.10
2417 3305 1.209019 CATGTCACTCCCCCTCAGAAG 59.791 57.143 0.00 0.00 0.00 2.85
2434 3322 0.962356 AAGGCGGCATCTGTCAAAGG 60.962 55.000 13.08 0.00 0.00 3.11
2454 3342 4.200283 CAGGGACCTCGCTCGCTC 62.200 72.222 0.00 0.00 37.00 5.03
2554 3458 1.355210 GCCGCATTATCAACCACCG 59.645 57.895 0.00 0.00 0.00 4.94
2610 3514 4.957296 TCAACCACTACTCCTGAAAGAAC 58.043 43.478 0.00 0.00 34.07 3.01
2617 3521 5.698545 CACTACTCCTGAAAGAACCAAGAAG 59.301 44.000 0.00 0.00 34.07 2.85
2621 3525 6.187682 ACTCCTGAAAGAACCAAGAAGAAAA 58.812 36.000 0.00 0.00 34.07 2.29
2622 3526 6.836007 ACTCCTGAAAGAACCAAGAAGAAAAT 59.164 34.615 0.00 0.00 34.07 1.82
2623 3527 7.998964 ACTCCTGAAAGAACCAAGAAGAAAATA 59.001 33.333 0.00 0.00 34.07 1.40
2624 3528 8.166422 TCCTGAAAGAACCAAGAAGAAAATAC 57.834 34.615 0.00 0.00 34.07 1.89
2625 3529 7.998964 TCCTGAAAGAACCAAGAAGAAAATACT 59.001 33.333 0.00 0.00 34.07 2.12
2626 3530 8.078596 CCTGAAAGAACCAAGAAGAAAATACTG 58.921 37.037 0.00 0.00 34.07 2.74
2627 3531 8.519799 TGAAAGAACCAAGAAGAAAATACTGT 57.480 30.769 0.00 0.00 0.00 3.55
2628 3532 8.621286 TGAAAGAACCAAGAAGAAAATACTGTC 58.379 33.333 0.00 0.00 0.00 3.51
2629 3533 8.753497 AAAGAACCAAGAAGAAAATACTGTCT 57.247 30.769 0.00 0.00 0.00 3.41
2630 3534 9.847224 AAAGAACCAAGAAGAAAATACTGTCTA 57.153 29.630 0.00 0.00 0.00 2.59
2631 3535 9.495572 AAGAACCAAGAAGAAAATACTGTCTAG 57.504 33.333 0.00 0.00 0.00 2.43
2632 3536 8.871125 AGAACCAAGAAGAAAATACTGTCTAGA 58.129 33.333 0.00 0.00 0.00 2.43
2751 3661 4.718940 AAAAGAAGTGGGTTGACTTGTG 57.281 40.909 0.00 0.00 36.27 3.33
2765 3675 4.780815 TGACTTGTGAGATGGTTGAGTTT 58.219 39.130 0.00 0.00 0.00 2.66
2773 3683 4.827284 TGAGATGGTTGAGTTTTCCCTTTC 59.173 41.667 0.00 0.00 0.00 2.62
2779 3689 5.249622 TGGTTGAGTTTTCCCTTTCCTTTTT 59.750 36.000 0.00 0.00 0.00 1.94
2783 3693 6.403049 TGAGTTTTCCCTTTCCTTTTTGTTC 58.597 36.000 0.00 0.00 0.00 3.18
2786 3696 8.141298 AGTTTTCCCTTTCCTTTTTGTTCTTA 57.859 30.769 0.00 0.00 0.00 2.10
2788 3698 9.391006 GTTTTCCCTTTCCTTTTTGTTCTTAAT 57.609 29.630 0.00 0.00 0.00 1.40
2792 3702 6.042666 CCCTTTCCTTTTTGTTCTTAATGGGA 59.957 38.462 0.00 0.00 33.73 4.37
2933 3844 6.678878 TCTCTCGCTCGCAAATTAGTTATAT 58.321 36.000 0.00 0.00 0.00 0.86
2934 3845 6.582672 TCTCTCGCTCGCAAATTAGTTATATG 59.417 38.462 0.00 0.00 0.00 1.78
2970 3881 2.224499 CCACCACCCAATTTTCCCTTTG 60.224 50.000 0.00 0.00 0.00 2.77
3002 3915 8.019656 AGAAAAACGAGTACTATATGTGGGAT 57.980 34.615 0.00 0.00 0.00 3.85
3003 3916 8.483758 AGAAAAACGAGTACTATATGTGGGATT 58.516 33.333 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 50 0.911045 TCCCTTTCCCCTTCCGGTAC 60.911 60.000 0.00 0.00 0.00 3.34
114 129 2.290287 TGGACCACATCACGGGAGG 61.290 63.158 0.00 0.00 0.00 4.30
115 130 1.079127 GTGGACCACATCACGGGAG 60.079 63.158 20.14 0.00 34.08 4.30
353 389 0.535780 CTGGTCTGGTTTGCTGCAGA 60.536 55.000 20.43 0.00 0.00 4.26
502 798 9.356433 GGCGCCAGTTAAAATAATAAGTAAAAA 57.644 29.630 24.80 0.00 0.00 1.94
503 799 8.521176 TGGCGCCAGTTAAAATAATAAGTAAAA 58.479 29.630 29.03 0.00 0.00 1.52
504 800 7.969508 GTGGCGCCAGTTAAAATAATAAGTAAA 59.030 33.333 33.73 0.00 0.00 2.01
505 801 7.474190 GTGGCGCCAGTTAAAATAATAAGTAA 58.526 34.615 33.73 0.00 0.00 2.24
506 802 6.238157 CGTGGCGCCAGTTAAAATAATAAGTA 60.238 38.462 33.73 0.00 0.00 2.24
507 803 5.448089 CGTGGCGCCAGTTAAAATAATAAGT 60.448 40.000 33.73 0.00 0.00 2.24
511 807 2.750712 ACGTGGCGCCAGTTAAAATAAT 59.249 40.909 33.73 2.52 0.00 1.28
563 859 0.319405 ACGTCGGTAAAACCCCTGAG 59.681 55.000 0.00 0.00 33.75 3.35
723 1040 2.202770 CGAGCAGAGCTGAGCAGG 60.203 66.667 7.39 0.00 39.88 4.85
730 1047 2.431601 GTTGACGCGAGCAGAGCT 60.432 61.111 15.93 0.00 43.88 4.09
731 1048 1.630244 AATGTTGACGCGAGCAGAGC 61.630 55.000 15.93 5.71 0.00 4.09
732 1049 0.792640 AAATGTTGACGCGAGCAGAG 59.207 50.000 15.93 0.00 0.00 3.35
733 1050 1.225855 AAAATGTTGACGCGAGCAGA 58.774 45.000 15.93 1.56 0.00 4.26
734 1051 1.710249 CAAAAATGTTGACGCGAGCAG 59.290 47.619 15.93 0.00 0.00 4.24
735 1052 1.332065 TCAAAAATGTTGACGCGAGCA 59.668 42.857 15.93 7.89 0.00 4.26
736 1053 2.031037 TCAAAAATGTTGACGCGAGC 57.969 45.000 15.93 4.68 0.00 5.03
737 1054 4.317069 GGTTTTCAAAAATGTTGACGCGAG 60.317 41.667 15.93 0.00 0.00 5.03
738 1055 3.548268 GGTTTTCAAAAATGTTGACGCGA 59.452 39.130 15.93 0.00 0.00 5.87
739 1056 3.598225 CGGTTTTCAAAAATGTTGACGCG 60.598 43.478 3.53 3.53 0.00 6.01
789 1109 3.569049 AAGGTGAGCGAACGGACGG 62.569 63.158 5.76 0.00 0.00 4.79
844 1165 1.199615 GGGAGGAGGAGGAGAACAAG 58.800 60.000 0.00 0.00 0.00 3.16
878 1200 0.540365 TACTTATACGGGGGCGGAGG 60.540 60.000 0.00 0.00 0.00 4.30
907 1237 5.063880 AGAATGGGATTAACGTAATGGAGC 58.936 41.667 0.00 0.00 0.00 4.70
959 1289 2.738643 CGGTATATATTCAGGCCAGCGG 60.739 54.545 5.01 0.00 0.00 5.52
979 1309 4.180946 CGTGCGGGGAGAGAGTCG 62.181 72.222 0.00 0.00 0.00 4.18
1032 1362 1.133419 ACCTCCCTCTTCTCGGTATCC 60.133 57.143 0.00 0.00 0.00 2.59
1104 1442 1.374885 CGTCACCGCCATGTAACCA 60.375 57.895 0.00 0.00 0.00 3.67
1105 1443 2.104253 CCGTCACCGCCATGTAACC 61.104 63.158 0.00 0.00 0.00 2.85
1701 2552 0.461961 GAGTAGGCGCTGATTGAGGT 59.538 55.000 7.64 0.00 0.00 3.85
1812 2663 1.181741 TGTCTCTGGCAGCGTCTTCT 61.182 55.000 10.34 0.00 0.00 2.85
1815 2666 0.743688 CTATGTCTCTGGCAGCGTCT 59.256 55.000 10.34 0.00 0.00 4.18
1821 2672 2.323599 CCCATCTCTATGTCTCTGGCA 58.676 52.381 0.00 0.00 0.00 4.92
1827 2678 1.626686 CGAGCCCCATCTCTATGTCT 58.373 55.000 0.00 0.00 0.00 3.41
1927 2787 2.613506 GGAAAAGTCCACCGTGCCG 61.614 63.158 0.00 0.00 44.26 5.69
1946 2806 0.739813 CGTCGCTAAAGGTTGGAGGG 60.740 60.000 0.00 0.00 0.00 4.30
1989 2852 4.944249 GCTGGGAAAACTTGCGAC 57.056 55.556 0.00 0.00 0.00 5.19
2013 2876 0.256464 AGAGTAGGAGTGACCGGGAG 59.744 60.000 6.32 0.00 44.74 4.30
2014 2877 0.702902 AAGAGTAGGAGTGACCGGGA 59.297 55.000 6.32 0.00 44.74 5.14
2026 2889 7.592051 ACAGTTTTTACTCCGAGTAAGAGTAG 58.408 38.462 18.19 12.99 45.15 2.57
2032 2895 7.275888 TCTGTACAGTTTTTACTCCGAGTAA 57.724 36.000 21.99 15.67 38.79 2.24
2033 2896 6.882610 TCTGTACAGTTTTTACTCCGAGTA 57.117 37.500 21.99 4.01 0.00 2.59
2034 2897 5.779529 TCTGTACAGTTTTTACTCCGAGT 57.220 39.130 21.99 6.25 0.00 4.18
2157 3027 2.251893 CGTGTAGGAAGAACGAGAAGC 58.748 52.381 0.00 0.00 39.64 3.86
2220 3090 3.730761 GGTTGCTGTCGCTGCTGG 61.731 66.667 0.00 0.00 36.97 4.85
2266 3137 1.140816 GTTGCAGGTCGACAGAGAAC 58.859 55.000 18.91 10.49 0.00 3.01
2288 3159 4.079970 ACTAGTACTGTCAGCACTGCTTA 58.920 43.478 14.95 0.00 36.40 3.09
2293 3164 9.275398 GAATATACTACTAGTACTGTCAGCACT 57.725 37.037 10.59 10.59 32.84 4.40
2294 3165 9.053840 TGAATATACTACTAGTACTGTCAGCAC 57.946 37.037 5.39 0.00 32.84 4.40
2295 3166 9.053840 GTGAATATACTACTAGTACTGTCAGCA 57.946 37.037 5.39 0.00 32.84 4.41
2296 3167 8.505625 GGTGAATATACTACTAGTACTGTCAGC 58.494 40.741 5.39 13.20 32.84 4.26
2297 3168 9.001542 GGGTGAATATACTACTAGTACTGTCAG 57.998 40.741 5.39 0.00 32.84 3.51
2301 3189 7.094291 GGCAGGGTGAATATACTACTAGTACTG 60.094 44.444 5.39 1.87 32.84 2.74
2330 3218 0.468226 ACAAGAGCCGGACAACAAGA 59.532 50.000 5.05 0.00 0.00 3.02
2356 3244 3.936772 ATTCGCAACGGGTGGCCAT 62.937 57.895 9.72 0.00 0.00 4.40
2417 3305 2.409870 CCCTTTGACAGATGCCGCC 61.410 63.158 0.00 0.00 0.00 6.13
2554 3458 1.675641 GCTGTGGTGATGGTGGACC 60.676 63.158 0.00 0.00 0.00 4.46
2625 3529 4.528206 TGCAGAAGAAATCCTGTCTAGACA 59.472 41.667 23.80 23.80 39.32 3.41
2626 3530 5.078411 TGCAGAAGAAATCCTGTCTAGAC 57.922 43.478 16.32 16.32 33.19 2.59
2627 3531 5.946942 ATGCAGAAGAAATCCTGTCTAGA 57.053 39.130 0.00 0.00 33.19 2.43
2628 3532 8.557864 CAATTATGCAGAAGAAATCCTGTCTAG 58.442 37.037 0.00 0.00 33.19 2.43
2629 3533 8.049117 ACAATTATGCAGAAGAAATCCTGTCTA 58.951 33.333 0.00 0.00 33.19 2.59
2630 3534 6.888632 ACAATTATGCAGAAGAAATCCTGTCT 59.111 34.615 0.00 0.00 33.19 3.41
2631 3535 7.093322 ACAATTATGCAGAAGAAATCCTGTC 57.907 36.000 0.00 0.00 33.19 3.51
2632 3536 7.472334 AACAATTATGCAGAAGAAATCCTGT 57.528 32.000 0.00 0.00 33.19 4.00
2644 3548 5.276270 AGCGCTAATGAAACAATTATGCAG 58.724 37.500 8.99 0.00 31.06 4.41
2751 3661 4.218635 GGAAAGGGAAAACTCAACCATCTC 59.781 45.833 0.00 0.00 0.00 2.75
2765 3675 7.419634 CCCATTAAGAACAAAAAGGAAAGGGAA 60.420 37.037 0.00 0.00 0.00 3.97
2801 3711 1.875514 TGCTTGCTGCTAACTCAACTG 59.124 47.619 0.00 0.00 43.37 3.16
2933 3844 2.106857 TGGTGGCATCATAGCATCATCA 59.893 45.455 0.00 0.00 35.83 3.07
2934 3845 2.486982 GTGGTGGCATCATAGCATCATC 59.513 50.000 2.60 0.00 35.83 2.92
2948 3859 0.835971 AGGGAAAATTGGGTGGTGGC 60.836 55.000 0.00 0.00 0.00 5.01
2970 3881 9.968743 CATATAGTACTCGTTTTTCTTTGTTCC 57.031 33.333 0.00 0.00 0.00 3.62
2983 3894 4.021368 GCCAATCCCACATATAGTACTCGT 60.021 45.833 0.00 0.00 0.00 4.18
2984 3895 4.495422 GCCAATCCCACATATAGTACTCG 58.505 47.826 0.00 0.00 0.00 4.18
3002 3915 4.358841 CCACGGTCATGGGGCCAA 62.359 66.667 4.39 0.00 35.95 4.52
3023 3936 2.299013 AGCAAACCGGAATTTTCTTCCC 59.701 45.455 9.46 0.00 35.17 3.97


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

AutoCloner maintained by Alex Coulton.