Multiple sequence alignment - TraesCS2B01G474500

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 TraesCS2B01G474500 chr2B 100.000 2959 0 0 1 2959 671594724 671591766 0.000000e+00 5465.0
1 TraesCS2B01G474500 chr2B 100.000 189 0 0 3302 3490 671591423 671591235 1.990000e-92 350.0
2 TraesCS2B01G474500 chr2D 91.975 2704 108 39 1 2679 562083380 562080761 0.000000e+00 3690.0
3 TraesCS2B01G474500 chr2D 90.164 244 23 1 2699 2942 562080802 562080560 2.020000e-82 316.0
4 TraesCS2B01G474500 chr2D 94.624 186 9 1 3305 3489 562079983 562079798 1.590000e-73 287.0
5 TraesCS2B01G474500 chr2A 92.359 1937 80 27 699 2620 702784207 702782324 0.000000e+00 2695.0
6 TraesCS2B01G474500 chr2A 87.144 949 93 15 1746 2684 702780016 702779087 0.000000e+00 1050.0
7 TraesCS2B01G474500 chr2A 92.330 691 31 7 1 675 702784889 702784205 0.000000e+00 963.0
8 TraesCS2B01G474500 chr2A 87.732 269 29 2 2694 2959 702779138 702778871 9.410000e-81 311.0
9 TraesCS2B01G474500 chr2A 89.823 226 18 3 2734 2959 702782316 702782096 5.700000e-73 285.0
10 TraesCS2B01G474500 chr2A 92.222 180 12 2 3302 3480 702782053 702781875 1.610000e-63 254.0
11 TraesCS2B01G474500 chr2A 89.305 187 19 1 3302 3487 702778802 702778616 2.090000e-57 233.0
12 TraesCS2B01G474500 chr6B 78.693 704 99 36 1290 1987 521060821 521061479 4.160000e-114 422.0
13 TraesCS2B01G474500 chr6A 78.470 706 106 34 1290 1987 485752598 485753265 1.500000e-113 420.0
14 TraesCS2B01G474500 chr6D 78.267 704 102 37 1290 1987 345302655 345303313 4.190000e-109 405.0
15 TraesCS2B01G474500 chr7D 81.343 268 36 13 1364 1627 456396199 456396456 4.570000e-49 206.0
16 TraesCS2B01G474500 chr1D 100.000 30 0 0 1782 1811 27555758 27555729 4.870000e-04 56.5


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 TraesCS2B01G474500 chr2B 671591235 671594724 3489 True 2907.500000 5465 100.000000 1 3490 2 chr2B.!!$R1 3489
1 TraesCS2B01G474500 chr2D 562079798 562083380 3582 True 1431.000000 3690 92.254333 1 3489 3 chr2D.!!$R1 3488
2 TraesCS2B01G474500 chr2A 702778616 702784889 6273 True 827.285714 2695 90.130714 1 3487 7 chr2A.!!$R1 3486
3 TraesCS2B01G474500 chr6B 521060821 521061479 658 False 422.000000 422 78.693000 1290 1987 1 chr6B.!!$F1 697
4 TraesCS2B01G474500 chr6A 485752598 485753265 667 False 420.000000 420 78.470000 1290 1987 1 chr6A.!!$F1 697
5 TraesCS2B01G474500 chr6D 345302655 345303313 658 False 405.000000 405 78.267000 1290 1987 1 chr6D.!!$F1 697

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
309 330 0.036105 ATGATTGCCGTGACTGAGCA 60.036 50.000 0.0 0.0 33.97 4.26 F
747 779 0.191064 TCCTTCACTCCACTCCACCT 59.809 55.000 0.0 0.0 0.00 4.00 F
1027 1072 0.962855 GAGCCAAAGCCTCCTTCCAC 60.963 60.000 0.0 0.0 41.25 4.02 F
1030 1075 1.675641 CAAAGCCTCCTTCCACCCG 60.676 63.158 0.0 0.0 0.00 5.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2316 2379 0.317479 GGCACCTAGACTGACACGTT 59.683 55.0 0.00 0.00 0.00 3.99 R
2319 2382 0.037232 GGTGGCACCTAGACTGACAC 60.037 60.0 29.22 14.93 45.64 3.67 R
2327 2390 0.745845 GACTGCATGGTGGCACCTAG 60.746 60.0 34.69 26.73 39.58 3.02 R
2729 5967 0.749454 ATCAGTTCATGCCCTTCGCC 60.749 55.0 0.00 0.00 36.24 5.54 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
118 124 2.032981 CGCCCTCTTTGCTTTGTGT 58.967 52.632 0.00 0.00 0.00 3.72
119 125 0.385390 CGCCCTCTTTGCTTTGTGTT 59.615 50.000 0.00 0.00 0.00 3.32
120 126 1.856802 GCCCTCTTTGCTTTGTGTTG 58.143 50.000 0.00 0.00 0.00 3.33
121 127 1.136891 GCCCTCTTTGCTTTGTGTTGT 59.863 47.619 0.00 0.00 0.00 3.32
122 128 2.813061 CCCTCTTTGCTTTGTGTTGTG 58.187 47.619 0.00 0.00 0.00 3.33
252 268 1.527370 GGCTCAGCCCGTCCTTATT 59.473 57.895 3.37 0.00 44.06 1.40
274 295 1.338769 GGACACCTGTGAGGCGTAAAT 60.339 52.381 3.94 0.00 39.63 1.40
289 310 3.788797 GCGTAAATGGAAAATCTGAGCCG 60.789 47.826 0.00 0.00 0.00 5.52
302 323 1.521457 GAGCCGATGATTGCCGTGA 60.521 57.895 0.00 0.00 0.00 4.35
309 330 0.036105 ATGATTGCCGTGACTGAGCA 60.036 50.000 0.00 0.00 33.97 4.26
424 445 5.945191 TGCAGATCCACACATCATTTTTAGA 59.055 36.000 0.00 0.00 0.00 2.10
477 500 5.691896 ACATTTCCTGGGTAGTATTTAGGC 58.308 41.667 0.00 0.00 0.00 3.93
478 501 4.411256 TTTCCTGGGTAGTATTTAGGCG 57.589 45.455 0.00 0.00 0.00 5.52
479 502 3.317455 TCCTGGGTAGTATTTAGGCGA 57.683 47.619 0.00 0.00 0.00 5.54
480 503 3.228453 TCCTGGGTAGTATTTAGGCGAG 58.772 50.000 0.00 0.00 0.00 5.03
527 551 4.260620 GCTCGAGTTGTTTGCAGTTTTCTA 60.261 41.667 15.13 0.00 0.00 2.10
529 553 3.968724 CGAGTTGTTTGCAGTTTTCTAGC 59.031 43.478 0.00 0.00 0.00 3.42
530 554 4.495679 CGAGTTGTTTGCAGTTTTCTAGCA 60.496 41.667 0.00 0.00 34.21 3.49
532 556 3.332761 TGTTTGCAGTTTTCTAGCACG 57.667 42.857 0.00 0.00 35.16 5.34
534 558 1.961793 TTGCAGTTTTCTAGCACGGT 58.038 45.000 0.00 0.00 35.16 4.83
678 702 0.818296 CTACGCTACTCCACCTTGCT 59.182 55.000 0.00 0.00 0.00 3.91
681 705 0.818296 CGCTACTCCACCTTGCTAGT 59.182 55.000 0.00 0.00 0.00 2.57
689 713 5.691896 ACTCCACCTTGCTAGTTTAGTTTT 58.308 37.500 0.00 0.00 0.00 2.43
690 714 5.531287 ACTCCACCTTGCTAGTTTAGTTTTG 59.469 40.000 0.00 0.00 0.00 2.44
694 718 4.037565 ACCTTGCTAGTTTAGTTTTGGTGC 59.962 41.667 0.00 0.00 0.00 5.01
735 767 8.305317 AGTACAGTTTACAATCTACTCCTTCAC 58.695 37.037 0.00 0.00 0.00 3.18
736 768 7.304497 ACAGTTTACAATCTACTCCTTCACT 57.696 36.000 0.00 0.00 0.00 3.41
737 769 7.379750 ACAGTTTACAATCTACTCCTTCACTC 58.620 38.462 0.00 0.00 0.00 3.51
738 770 6.814146 CAGTTTACAATCTACTCCTTCACTCC 59.186 42.308 0.00 0.00 0.00 3.85
739 771 6.497259 AGTTTACAATCTACTCCTTCACTCCA 59.503 38.462 0.00 0.00 0.00 3.86
746 778 0.610687 CTCCTTCACTCCACTCCACC 59.389 60.000 0.00 0.00 0.00 4.61
747 779 0.191064 TCCTTCACTCCACTCCACCT 59.809 55.000 0.00 0.00 0.00 4.00
829 869 2.111878 CCGCCTGGGGATGTGATC 59.888 66.667 12.98 0.00 0.00 2.92
1022 1067 2.930562 ACCGAGCCAAAGCCTCCT 60.931 61.111 0.00 0.00 41.25 3.69
1023 1068 2.352805 CCGAGCCAAAGCCTCCTT 59.647 61.111 0.00 0.00 41.25 3.36
1026 1071 1.380302 GAGCCAAAGCCTCCTTCCA 59.620 57.895 0.00 0.00 41.25 3.53
1027 1072 0.962855 GAGCCAAAGCCTCCTTCCAC 60.963 60.000 0.00 0.00 41.25 4.02
1030 1075 1.675641 CAAAGCCTCCTTCCACCCG 60.676 63.158 0.00 0.00 0.00 5.28
1031 1076 2.154074 AAAGCCTCCTTCCACCCGT 61.154 57.895 0.00 0.00 0.00 5.28
1032 1077 2.125766 AAAGCCTCCTTCCACCCGTC 62.126 60.000 0.00 0.00 0.00 4.79
1033 1078 4.452733 GCCTCCTTCCACCCGTCG 62.453 72.222 0.00 0.00 0.00 5.12
1034 1079 2.995574 CCTCCTTCCACCCGTCGT 60.996 66.667 0.00 0.00 0.00 4.34
1035 1080 2.572284 CTCCTTCCACCCGTCGTC 59.428 66.667 0.00 0.00 0.00 4.20
1058 1103 2.567169 ACCGTGATGTCATCCTCTTTCA 59.433 45.455 10.36 0.00 0.00 2.69
1791 1851 2.116125 GAAACCAGCAGCCCAGGT 59.884 61.111 0.00 0.00 37.20 4.00
2327 2390 1.328439 CGACTAGCAACGTGTCAGTC 58.672 55.000 0.00 0.00 33.78 3.51
2335 2398 0.317479 AACGTGTCAGTCTAGGTGCC 59.683 55.000 0.00 0.00 0.00 5.01
2511 5748 4.641094 CCGTCAGGAGAACTAGACAGTAAT 59.359 45.833 0.00 0.00 41.02 1.89
2559 5796 0.178068 ATGCGCCCATAGTTCGACTT 59.822 50.000 4.18 0.00 0.00 3.01
2560 5797 0.818938 TGCGCCCATAGTTCGACTTA 59.181 50.000 4.18 0.00 0.00 2.24
2561 5798 1.202371 TGCGCCCATAGTTCGACTTAG 60.202 52.381 4.18 0.00 0.00 2.18
2563 5800 1.867166 GCCCATAGTTCGACTTAGGC 58.133 55.000 0.00 0.00 32.11 3.93
2592 5830 1.618876 TTTCTGGCGCCTTATCCGGA 61.619 55.000 29.70 6.61 36.04 5.14
2595 5833 2.099652 CTGGCGCCTTATCCGGATGA 62.100 60.000 29.70 18.31 0.00 2.92
2601 5839 2.171840 GCCTTATCCGGATGAGCTCTA 58.828 52.381 26.73 3.67 0.00 2.43
2631 5869 7.902920 AAAATATGTCATGGGTTCTAATGCT 57.097 32.000 0.00 0.00 0.00 3.79
2670 5908 1.081376 GATATCCGTCGGACTGGCG 60.081 63.158 18.08 0.00 32.98 5.69
2684 5922 1.074775 TGGCGAAGGGCATGAACTT 59.925 52.632 0.00 0.00 44.78 2.66
2685 5923 0.960364 TGGCGAAGGGCATGAACTTC 60.960 55.000 15.79 15.79 44.78 3.01
2686 5924 0.678048 GGCGAAGGGCATGAACTTCT 60.678 55.000 20.50 0.00 46.16 2.85
2687 5925 1.406887 GGCGAAGGGCATGAACTTCTA 60.407 52.381 20.50 0.00 46.16 2.10
2688 5926 2.356135 GCGAAGGGCATGAACTTCTAA 58.644 47.619 20.50 0.00 40.63 2.10
2689 5927 2.945668 GCGAAGGGCATGAACTTCTAAT 59.054 45.455 20.50 0.00 40.63 1.73
2690 5928 3.242870 GCGAAGGGCATGAACTTCTAATG 60.243 47.826 20.50 10.84 40.63 1.90
2691 5929 3.242870 CGAAGGGCATGAACTTCTAATGC 60.243 47.826 20.50 5.79 44.75 3.56
2692 5930 3.659183 AGGGCATGAACTTCTAATGCT 57.341 42.857 11.77 0.00 44.83 3.79
2693 5931 3.549794 AGGGCATGAACTTCTAATGCTC 58.450 45.455 11.77 9.05 46.16 4.26
2694 5932 3.282021 GGGCATGAACTTCTAATGCTCA 58.718 45.455 11.77 0.00 45.32 4.26
2695 5933 3.065925 GGGCATGAACTTCTAATGCTCAC 59.934 47.826 11.77 3.00 45.32 3.51
2696 5934 3.691118 GGCATGAACTTCTAATGCTCACA 59.309 43.478 11.77 0.00 44.83 3.58
2697 5935 4.337555 GGCATGAACTTCTAATGCTCACAT 59.662 41.667 11.77 0.00 44.83 3.21
2698 5936 5.528690 GGCATGAACTTCTAATGCTCACATA 59.471 40.000 11.77 0.00 44.83 2.29
2699 5937 6.206243 GGCATGAACTTCTAATGCTCACATAT 59.794 38.462 11.77 0.00 44.83 1.78
2700 5938 7.296660 GCATGAACTTCTAATGCTCACATATC 58.703 38.462 0.00 0.00 42.70 1.63
2701 5939 7.172875 GCATGAACTTCTAATGCTCACATATCT 59.827 37.037 0.00 0.00 42.70 1.98
2702 5940 9.702494 CATGAACTTCTAATGCTCACATATCTA 57.298 33.333 0.00 0.00 34.62 1.98
2703 5941 9.926158 ATGAACTTCTAATGCTCACATATCTAG 57.074 33.333 0.00 0.00 34.62 2.43
2704 5942 8.918116 TGAACTTCTAATGCTCACATATCTAGT 58.082 33.333 0.00 0.00 34.62 2.57
2705 5943 9.757227 GAACTTCTAATGCTCACATATCTAGTT 57.243 33.333 0.00 0.00 34.62 2.24
2729 5967 3.564235 TTATTGATATCCGTCGGACCG 57.436 47.619 18.08 7.84 32.98 4.79
2742 5980 4.467084 GACCGGCGAAGGGCATGA 62.467 66.667 9.30 0.00 46.16 3.07
2754 5992 4.517285 GAAGGGCATGAACTGATTACTGA 58.483 43.478 0.00 0.00 0.00 3.41
2788 6026 9.112725 CACTATATTCTTTGAATGTGGTGATGA 57.887 33.333 20.18 0.00 34.04 2.92
2832 6070 1.838112 ACAACATTGATGCCCGTCAT 58.162 45.000 0.00 0.00 38.32 3.06
2839 6077 0.541392 TGATGCCCGTCATGCTTAGT 59.459 50.000 0.00 0.00 35.05 2.24
2845 6083 2.351726 GCCCGTCATGCTTAGTAAACAG 59.648 50.000 0.00 0.00 0.00 3.16
2863 6101 2.170187 ACAGCATCTCAGGGTTCAGATC 59.830 50.000 0.00 0.00 0.00 2.75
2878 6116 1.067295 AGATCTTGGAACCCTGTGCA 58.933 50.000 0.00 0.00 0.00 4.57
2943 6184 9.862371 AGACTAGTTTTATCACAGATGTAGTTG 57.138 33.333 0.00 0.00 0.00 3.16
2948 6189 3.701205 ATCACAGATGTAGTTGTGCCA 57.299 42.857 0.00 0.00 43.31 4.92
2954 6195 4.222810 ACAGATGTAGTTGTGCCAGATGTA 59.777 41.667 0.00 0.00 0.00 2.29
3344 6799 4.980805 GTGAAGGGCGTGCACGGA 62.981 66.667 37.47 1.72 40.23 4.69
3370 6826 2.791655 GGGGACCGAAAACTGAAATCT 58.208 47.619 0.00 0.00 40.86 2.40
3423 6879 8.627208 ATGTGGTGATATCTTATTCACATTCC 57.373 34.615 16.42 0.00 43.20 3.01
3468 6924 2.419667 GCAAAAGGCATGCACTGATTT 58.580 42.857 21.36 9.49 43.29 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
118 124 4.893601 TCGTCCGTTGGCGCACAA 62.894 61.111 10.83 8.61 36.54 3.33
249 265 0.618458 GCCTCACAGGTGTCCCAATA 59.382 55.000 0.00 0.00 37.80 1.90
252 268 3.625897 CGCCTCACAGGTGTCCCA 61.626 66.667 0.00 0.00 40.92 4.37
274 295 3.565764 ATCATCGGCTCAGATTTTCCA 57.434 42.857 0.00 0.00 0.00 3.53
289 310 0.654683 GCTCAGTCACGGCAATCATC 59.345 55.000 0.00 0.00 0.00 2.92
302 323 1.676014 GGTAATTCTGCGGTGCTCAGT 60.676 52.381 0.00 0.00 33.48 3.41
309 330 0.539986 ATCACCGGTAATTCTGCGGT 59.460 50.000 6.87 0.00 35.18 5.68
367 388 3.430929 CGTTCCTCCAAATCACCTCCTAG 60.431 52.174 0.00 0.00 0.00 3.02
527 551 3.911698 TGACGTGCTCACCGTGCT 61.912 61.111 0.00 0.00 38.92 4.40
547 571 0.970937 TTCGCTAGGCTAGGCACACT 60.971 55.000 22.40 0.00 0.00 3.55
659 683 0.818296 AGCAAGGTGGAGTAGCGTAG 59.182 55.000 0.00 0.00 0.00 3.51
664 688 5.662674 ACTAAACTAGCAAGGTGGAGTAG 57.337 43.478 0.00 0.00 0.00 2.57
678 702 2.809696 GGAGCGCACCAAAACTAAACTA 59.190 45.455 19.70 0.00 0.00 2.24
681 705 1.606668 CAGGAGCGCACCAAAACTAAA 59.393 47.619 26.04 0.00 0.00 1.85
689 713 1.971505 CTTATCCCAGGAGCGCACCA 61.972 60.000 26.04 5.28 0.00 4.17
690 714 1.227674 CTTATCCCAGGAGCGCACC 60.228 63.158 16.88 16.88 0.00 5.01
694 718 2.294791 CTGTACTCTTATCCCAGGAGCG 59.705 54.545 0.00 0.00 0.00 5.03
735 767 1.001406 GTGAAGTGAGGTGGAGTGGAG 59.999 57.143 0.00 0.00 0.00 3.86
736 768 1.048601 GTGAAGTGAGGTGGAGTGGA 58.951 55.000 0.00 0.00 0.00 4.02
737 769 1.051812 AGTGAAGTGAGGTGGAGTGG 58.948 55.000 0.00 0.00 0.00 4.00
738 770 2.103094 TGAAGTGAAGTGAGGTGGAGTG 59.897 50.000 0.00 0.00 0.00 3.51
739 771 2.366916 CTGAAGTGAAGTGAGGTGGAGT 59.633 50.000 0.00 0.00 0.00 3.85
746 778 4.202202 ACTCCAAGACTGAAGTGAAGTGAG 60.202 45.833 0.00 0.00 0.00 3.51
747 779 3.706594 ACTCCAAGACTGAAGTGAAGTGA 59.293 43.478 0.00 0.00 0.00 3.41
824 861 1.565305 GTCAGATCAGGTGCGATCAC 58.435 55.000 0.00 0.00 43.61 3.06
829 869 2.202797 CCGGTCAGATCAGGTGCG 60.203 66.667 0.00 0.00 0.00 5.34
959 1004 2.295602 GGCTTAACCGGTGAGGGGA 61.296 63.158 8.52 0.00 46.96 4.81
1022 1067 3.618750 GGTGGACGACGGGTGGAA 61.619 66.667 0.00 0.00 0.00 3.53
1033 1078 0.537188 AGGATGACATCACGGTGGAC 59.463 55.000 17.08 0.00 0.00 4.02
1034 1079 0.824109 GAGGATGACATCACGGTGGA 59.176 55.000 17.08 0.00 0.00 4.02
1035 1080 0.826715 AGAGGATGACATCACGGTGG 59.173 55.000 17.08 0.00 0.00 4.61
1103 1148 0.250209 ATGATGAGGATGCACGAGCC 60.250 55.000 1.39 0.00 41.13 4.70
1104 1149 1.146637 GATGATGAGGATGCACGAGC 58.853 55.000 0.00 0.00 42.57 5.03
2316 2379 0.317479 GGCACCTAGACTGACACGTT 59.683 55.000 0.00 0.00 0.00 3.99
2319 2382 0.037232 GGTGGCACCTAGACTGACAC 60.037 60.000 29.22 14.93 45.64 3.67
2327 2390 0.745845 GACTGCATGGTGGCACCTAG 60.746 60.000 34.69 26.73 39.58 3.02
2357 2420 2.231380 ACCATTTCCCCGTCTGCCT 61.231 57.895 0.00 0.00 0.00 4.75
2364 2427 0.965439 TTTTCAGCACCATTTCCCCG 59.035 50.000 0.00 0.00 0.00 5.73
2399 2462 3.054802 AGAGTAGAGCCAACCAATCCAAG 60.055 47.826 0.00 0.00 0.00 3.61
2400 2463 2.912956 AGAGTAGAGCCAACCAATCCAA 59.087 45.455 0.00 0.00 0.00 3.53
2411 2474 7.736447 ATTATAACATTGCAAGAGTAGAGCC 57.264 36.000 4.94 0.00 0.00 4.70
2504 5741 4.158025 CGACCCTTGTCACTAGATTACTGT 59.842 45.833 0.00 0.00 41.85 3.55
2511 5748 0.888619 CTGCGACCCTTGTCACTAGA 59.111 55.000 0.00 0.00 41.85 2.43
2617 5855 6.445451 AGATATGTGAGCATTAGAACCCAT 57.555 37.500 0.00 0.00 36.58 4.00
2662 5900 2.819984 TTCATGCCCTTCGCCAGTCC 62.820 60.000 0.00 0.00 36.24 3.85
2670 5908 3.950395 AGCATTAGAAGTTCATGCCCTTC 59.050 43.478 19.33 13.35 43.75 3.46
2706 5944 4.746115 CGGTCCGACGGATATCAATAAAAA 59.254 41.667 21.53 0.00 32.73 1.94
2707 5945 4.300803 CGGTCCGACGGATATCAATAAAA 58.699 43.478 21.53 0.00 32.73 1.52
2708 5946 3.904571 CGGTCCGACGGATATCAATAAA 58.095 45.455 21.53 0.00 32.73 1.40
2709 5947 3.564235 CGGTCCGACGGATATCAATAA 57.436 47.619 21.53 0.00 32.73 1.40
2725 5963 3.969250 TTCATGCCCTTCGCCGGTC 62.969 63.158 1.90 0.00 36.24 4.79
2726 5964 4.028490 TTCATGCCCTTCGCCGGT 62.028 61.111 1.90 0.00 36.24 5.28
2727 5965 3.508840 GTTCATGCCCTTCGCCGG 61.509 66.667 0.00 0.00 36.24 6.13
2728 5966 2.436646 AGTTCATGCCCTTCGCCG 60.437 61.111 0.00 0.00 36.24 6.46
2729 5967 0.749454 ATCAGTTCATGCCCTTCGCC 60.749 55.000 0.00 0.00 36.24 5.54
2730 5968 1.098050 AATCAGTTCATGCCCTTCGC 58.902 50.000 0.00 0.00 38.31 4.70
2731 5969 3.310774 CAGTAATCAGTTCATGCCCTTCG 59.689 47.826 0.00 0.00 0.00 3.79
2732 5970 4.517285 TCAGTAATCAGTTCATGCCCTTC 58.483 43.478 0.00 0.00 0.00 3.46
2733 5971 4.574674 TCAGTAATCAGTTCATGCCCTT 57.425 40.909 0.00 0.00 0.00 3.95
2734 5972 4.574674 TTCAGTAATCAGTTCATGCCCT 57.425 40.909 0.00 0.00 0.00 5.19
2735 5973 5.841957 AATTCAGTAATCAGTTCATGCCC 57.158 39.130 0.00 0.00 0.00 5.36
2736 5974 9.455847 GAATAAATTCAGTAATCAGTTCATGCC 57.544 33.333 0.00 0.00 36.80 4.40
2788 6026 2.689983 GACCCAAGGCATTCGAATTGAT 59.310 45.455 8.21 0.00 0.00 2.57
2839 6077 3.582647 TCTGAACCCTGAGATGCTGTTTA 59.417 43.478 0.00 0.00 0.00 2.01
2845 6083 3.204526 CAAGATCTGAACCCTGAGATGC 58.795 50.000 0.00 0.00 0.00 3.91
2863 6101 1.691196 TCTTTGCACAGGGTTCCAAG 58.309 50.000 0.00 0.00 0.00 3.61
2878 6116 2.976440 ACCCTTGCCCTTCAATTCTTT 58.024 42.857 0.00 0.00 33.57 2.52
3301 6542 3.667360 CATGATGACACTTGGACTGACA 58.333 45.455 0.00 0.00 0.00 3.58
3302 6543 2.417933 GCATGATGACACTTGGACTGAC 59.582 50.000 0.00 0.00 0.00 3.51
3303 6544 2.616256 GGCATGATGACACTTGGACTGA 60.616 50.000 0.00 0.00 0.00 3.41
3344 6799 2.208932 TTTTCGGTCCCCCTCCCT 59.791 61.111 0.00 0.00 0.00 4.20
3353 6809 4.274950 TCCAACAGATTTCAGTTTTCGGTC 59.725 41.667 0.00 0.00 0.00 4.79
3380 6836 4.938226 CCACATTGAAAGAGTAGAGGGAAC 59.062 45.833 0.00 0.00 0.00 3.62
3384 6840 5.152623 TCACCACATTGAAAGAGTAGAGG 57.847 43.478 0.00 0.00 0.00 3.69
3423 6879 3.059884 CCCGACCGATATCAAATGTCAG 58.940 50.000 3.12 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.