Multiple sequence alignment - TraesCS4D01G199500

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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 TraesCS4D01G199500 chr4D 100.000 2663 0 0 1 2663 346203916 346206578 0 4918
1 TraesCS4D01G199500 chr4B 92.687 1969 81 21 723 2663 427304435 427306368 0 2780
2 TraesCS4D01G199500 chr4A 93.271 1486 70 7 1190 2663 119636914 119635447 0 2163
3 TraesCS4D01G199500 chr4A 95.377 411 14 4 723 1133 119637487 119637082 0 649
4 TraesCS4D01G199500 chr6B 93.514 663 40 3 1 660 65134222 65134884 0 983
5 TraesCS4D01G199500 chr1D 93.383 665 39 3 1 660 296632181 296632845 0 979
6 TraesCS4D01G199500 chr3D 93.353 662 42 2 1 660 593640518 593639857 0 977
7 TraesCS4D01G199500 chr3B 93.213 663 42 3 1 660 799300881 799300219 0 972
8 TraesCS4D01G199500 chr3B 92.749 662 45 3 1 660 528711279 528711939 0 953
9 TraesCS4D01G199500 chr7D 93.213 663 39 5 1 660 7528006 7528665 0 970
10 TraesCS4D01G199500 chr7A 93.202 662 41 4 1 660 634327542 634328201 0 970
11 TraesCS4D01G199500 chr6A 93.202 662 42 3 1 660 158307134 158306474 0 970
12 TraesCS4D01G199500 chr7B 92.943 666 39 6 1 660 553328801 553329464 0 963


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 TraesCS4D01G199500 chr4D 346203916 346206578 2662 False 4918 4918 100.000 1 2663 1 chr4D.!!$F1 2662
1 TraesCS4D01G199500 chr4B 427304435 427306368 1933 False 2780 2780 92.687 723 2663 1 chr4B.!!$F1 1940
2 TraesCS4D01G199500 chr4A 119635447 119637487 2040 True 1406 2163 94.324 723 2663 2 chr4A.!!$R1 1940
3 TraesCS4D01G199500 chr6B 65134222 65134884 662 False 983 983 93.514 1 660 1 chr6B.!!$F1 659
4 TraesCS4D01G199500 chr1D 296632181 296632845 664 False 979 979 93.383 1 660 1 chr1D.!!$F1 659
5 TraesCS4D01G199500 chr3D 593639857 593640518 661 True 977 977 93.353 1 660 1 chr3D.!!$R1 659
6 TraesCS4D01G199500 chr3B 799300219 799300881 662 True 972 972 93.213 1 660 1 chr3B.!!$R1 659
7 TraesCS4D01G199500 chr3B 528711279 528711939 660 False 953 953 92.749 1 660 1 chr3B.!!$F1 659
8 TraesCS4D01G199500 chr7D 7528006 7528665 659 False 970 970 93.213 1 660 1 chr7D.!!$F1 659
9 TraesCS4D01G199500 chr7A 634327542 634328201 659 False 970 970 93.202 1 660 1 chr7A.!!$F1 659
10 TraesCS4D01G199500 chr6A 158306474 158307134 660 True 970 970 93.202 1 660 1 chr6A.!!$R1 659
11 TraesCS4D01G199500 chr7B 553328801 553329464 663 False 963 963 92.943 1 660 1 chr7B.!!$F1 659

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
680 690 0.252742 AAGCCCCTGTAGTGCTACCT 60.253 55.0 6.87 0.0 35.26 3.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2421 2572 0.245539 CGGACGGAGCCTTCTAACAA 59.754 55.0 0.0 0.0 0.0 2.83 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
200 202 1.675552 CTTCCACAAACCACGAACCT 58.324 50.000 0.00 0.00 0.00 3.50
209 211 2.233305 ACCACGAACCTAGATCCACT 57.767 50.000 0.00 0.00 0.00 4.00
227 229 2.363680 CACTATCTTCCAGATGCCGTCT 59.636 50.000 0.00 0.00 35.37 4.18
383 385 3.281727 TGCTTGAACAGTCTGGTTTCT 57.718 42.857 4.53 0.00 0.00 2.52
390 392 4.994852 TGAACAGTCTGGTTTCTAAATCCG 59.005 41.667 4.53 0.00 0.00 4.18
391 393 4.618920 ACAGTCTGGTTTCTAAATCCGT 57.381 40.909 4.53 0.00 0.00 4.69
523 526 1.268352 GCCTAAAACAATCCACACGCA 59.732 47.619 0.00 0.00 0.00 5.24
664 674 5.066593 TCTCCTGGAAGAAAGAAAGAAAGC 58.933 41.667 0.00 0.00 34.07 3.51
665 675 4.145052 TCCTGGAAGAAAGAAAGAAAGCC 58.855 43.478 0.00 0.00 34.07 4.35
666 676 3.256879 CCTGGAAGAAAGAAAGAAAGCCC 59.743 47.826 0.00 0.00 34.07 5.19
667 677 3.230976 TGGAAGAAAGAAAGAAAGCCCC 58.769 45.455 0.00 0.00 0.00 5.80
668 678 3.117131 TGGAAGAAAGAAAGAAAGCCCCT 60.117 43.478 0.00 0.00 0.00 4.79
669 679 3.256879 GGAAGAAAGAAAGAAAGCCCCTG 59.743 47.826 0.00 0.00 0.00 4.45
670 680 3.602205 AGAAAGAAAGAAAGCCCCTGT 57.398 42.857 0.00 0.00 0.00 4.00
671 681 4.724279 AGAAAGAAAGAAAGCCCCTGTA 57.276 40.909 0.00 0.00 0.00 2.74
672 682 4.657013 AGAAAGAAAGAAAGCCCCTGTAG 58.343 43.478 0.00 0.00 0.00 2.74
673 683 4.104897 AGAAAGAAAGAAAGCCCCTGTAGT 59.895 41.667 0.00 0.00 0.00 2.73
674 684 3.425162 AGAAAGAAAGCCCCTGTAGTG 57.575 47.619 0.00 0.00 0.00 2.74
675 685 1.813178 GAAAGAAAGCCCCTGTAGTGC 59.187 52.381 0.00 0.00 0.00 4.40
676 686 1.068121 AAGAAAGCCCCTGTAGTGCT 58.932 50.000 0.00 0.00 36.79 4.40
677 687 1.952621 AGAAAGCCCCTGTAGTGCTA 58.047 50.000 0.00 0.00 34.29 3.49
678 688 1.555533 AGAAAGCCCCTGTAGTGCTAC 59.444 52.381 2.60 2.60 34.29 3.58
679 689 0.618981 AAAGCCCCTGTAGTGCTACC 59.381 55.000 6.87 0.00 35.26 3.18
680 690 0.252742 AAGCCCCTGTAGTGCTACCT 60.253 55.000 6.87 0.00 35.26 3.08
681 691 0.978146 AGCCCCTGTAGTGCTACCTG 60.978 60.000 6.87 0.99 35.26 4.00
682 692 1.972660 GCCCCTGTAGTGCTACCTGG 61.973 65.000 6.87 8.59 35.26 4.45
683 693 1.338136 CCCCTGTAGTGCTACCTGGG 61.338 65.000 20.71 20.71 42.89 4.45
684 694 0.325296 CCCTGTAGTGCTACCTGGGA 60.325 60.000 22.05 0.00 44.44 4.37
685 695 1.115467 CCTGTAGTGCTACCTGGGAG 58.885 60.000 0.00 0.00 35.26 4.30
686 696 1.115467 CTGTAGTGCTACCTGGGAGG 58.885 60.000 8.30 0.00 42.49 4.30
697 707 2.463047 CCTGGGAGGTAGAAGCTACT 57.537 55.000 4.77 0.00 0.00 2.57
698 708 2.035632 CCTGGGAGGTAGAAGCTACTG 58.964 57.143 4.77 0.00 0.00 2.74
699 709 2.624557 CCTGGGAGGTAGAAGCTACTGT 60.625 54.545 4.77 0.00 0.00 3.55
700 710 3.100671 CTGGGAGGTAGAAGCTACTGTT 58.899 50.000 4.77 0.00 0.00 3.16
701 711 3.515901 CTGGGAGGTAGAAGCTACTGTTT 59.484 47.826 4.77 0.00 0.00 2.83
702 712 3.260884 TGGGAGGTAGAAGCTACTGTTTG 59.739 47.826 4.77 0.00 0.00 2.93
703 713 3.261137 GGGAGGTAGAAGCTACTGTTTGT 59.739 47.826 4.77 0.00 0.00 2.83
704 714 4.246458 GGAGGTAGAAGCTACTGTTTGTG 58.754 47.826 4.77 0.00 0.00 3.33
705 715 3.665190 AGGTAGAAGCTACTGTTTGTGC 58.335 45.455 4.77 0.00 0.00 4.57
706 716 3.071023 AGGTAGAAGCTACTGTTTGTGCA 59.929 43.478 4.77 0.00 0.00 4.57
707 717 4.003648 GGTAGAAGCTACTGTTTGTGCAT 58.996 43.478 0.00 0.00 0.00 3.96
708 718 4.455877 GGTAGAAGCTACTGTTTGTGCATT 59.544 41.667 0.00 0.00 0.00 3.56
709 719 5.048713 GGTAGAAGCTACTGTTTGTGCATTT 60.049 40.000 0.00 0.00 0.00 2.32
710 720 4.863491 AGAAGCTACTGTTTGTGCATTTG 58.137 39.130 0.00 0.00 0.00 2.32
711 721 4.339247 AGAAGCTACTGTTTGTGCATTTGT 59.661 37.500 0.00 0.00 0.00 2.83
712 722 5.530915 AGAAGCTACTGTTTGTGCATTTGTA 59.469 36.000 0.00 0.00 0.00 2.41
713 723 5.108385 AGCTACTGTTTGTGCATTTGTAC 57.892 39.130 0.00 0.00 0.00 2.90
714 724 4.821805 AGCTACTGTTTGTGCATTTGTACT 59.178 37.500 0.00 0.00 0.00 2.73
715 725 5.995282 AGCTACTGTTTGTGCATTTGTACTA 59.005 36.000 0.00 0.00 0.00 1.82
716 726 6.147821 AGCTACTGTTTGTGCATTTGTACTAG 59.852 38.462 0.00 0.00 0.00 2.57
717 727 6.073222 GCTACTGTTTGTGCATTTGTACTAGT 60.073 38.462 0.00 0.00 0.00 2.57
718 728 6.693315 ACTGTTTGTGCATTTGTACTAGTT 57.307 33.333 0.00 0.00 0.00 2.24
719 729 7.795482 ACTGTTTGTGCATTTGTACTAGTTA 57.205 32.000 0.00 0.00 0.00 2.24
720 730 8.391075 ACTGTTTGTGCATTTGTACTAGTTAT 57.609 30.769 0.00 0.00 0.00 1.89
721 731 9.496873 ACTGTTTGTGCATTTGTACTAGTTATA 57.503 29.630 0.00 0.00 0.00 0.98
867 881 3.992943 ACATAATCCAAAGGTCCACGA 57.007 42.857 0.00 0.00 0.00 4.35
873 887 1.227823 CAAAGGTCCACGAGCACCA 60.228 57.895 0.00 0.00 34.80 4.17
1056 1073 1.669760 CGCGTTCCAAACCCTAGCA 60.670 57.895 0.00 0.00 0.00 3.49
1466 1594 3.189287 GTGTTCGAGGGAAAGTACTACGA 59.811 47.826 0.00 0.00 33.05 3.43
1472 1600 0.101939 GGAAAGTACTACGAGCCCGG 59.898 60.000 0.00 0.00 40.78 5.73
1695 1823 0.846693 ATGGTTGTGCCTCCTATCCC 59.153 55.000 0.00 0.00 38.35 3.85
1708 1836 2.520120 TCCTATCCCCACATCTCACTCT 59.480 50.000 0.00 0.00 0.00 3.24
1712 1840 1.003580 TCCCCACATCTCACTCTTTGC 59.996 52.381 0.00 0.00 0.00 3.68
1748 1876 5.587388 TGTACCTTTATTACTGTCTCCCG 57.413 43.478 0.00 0.00 0.00 5.14
1883 2011 6.372659 AGAATCGGGCAATGTATATCATGTTC 59.627 38.462 0.00 0.00 36.81 3.18
1885 2013 4.754618 TCGGGCAATGTATATCATGTTCAC 59.245 41.667 0.00 0.00 36.81 3.18
1906 2034 9.021863 GTTCACGAATAATTTGGTTTGTGTAAA 57.978 29.630 13.51 0.00 39.58 2.01
1925 2053 9.523168 TGTGTAAAAGCAAGTTTAATAGGGTAT 57.477 29.630 0.00 0.00 0.00 2.73
2018 2146 3.915437 ATTTCATTTTTCAGGCGACGT 57.085 38.095 0.00 0.00 0.00 4.34
2037 2165 2.143122 GTTGAGGCTTCGTCACATTCA 58.857 47.619 0.00 0.00 0.00 2.57
2092 2237 5.467902 AAATGTTTGTGTTTGTGCATCAC 57.532 34.783 0.00 0.00 34.56 3.06
2112 2257 3.777925 CTTGACCGTGGCTTCGCG 61.778 66.667 0.00 0.00 43.29 5.87
2190 2335 7.941919 ACTAGGAGTTGGAAATTCTTTGAAAC 58.058 34.615 0.00 0.00 32.53 2.78
2198 2343 6.902341 TGGAAATTCTTTGAAACAGATCTCG 58.098 36.000 0.00 0.00 0.00 4.04
2223 2368 4.039124 AGTTTCCTGTTGATCGCCAAAAAT 59.961 37.500 0.00 0.00 36.36 1.82
2234 2384 5.519566 TGATCGCCAAAAATTCATACATTGC 59.480 36.000 0.00 0.00 0.00 3.56
2242 2392 9.368674 CCAAAAATTCATACATTGCATAAGACA 57.631 29.630 0.00 0.00 0.00 3.41
2256 2406 5.126067 GCATAAGACAACCACATATGAGGT 58.874 41.667 18.06 18.06 40.79 3.85
2296 2446 4.096231 CACCACATTTCAGACAACTCACAA 59.904 41.667 0.00 0.00 0.00 3.33
2336 2487 5.581605 CGCCTAATGAGTAACAAATTGCAT 58.418 37.500 0.00 0.00 0.00 3.96
2338 2489 6.020440 CGCCTAATGAGTAACAAATTGCATTG 60.020 38.462 0.00 0.00 36.37 2.82
2344 2495 6.979465 TGAGTAACAAATTGCATTGATGACA 58.021 32.000 7.04 0.00 34.38 3.58
2382 2533 2.014128 CAACGTTTCTGACAGGTTGGT 58.986 47.619 17.21 0.94 0.00 3.67
2421 2572 4.796231 GCGTCCGCGGACAGACAT 62.796 66.667 46.26 0.00 44.77 3.06
2422 2573 2.126071 CGTCCGCGGACAGACATT 60.126 61.111 46.26 0.00 44.77 2.71
2425 2576 0.949105 GTCCGCGGACAGACATTGTT 60.949 55.000 44.88 0.00 44.02 2.83
2444 2595 1.098050 TAGAAGGCTCCGTCCGTTAC 58.902 55.000 0.00 0.00 0.00 2.50
2517 2669 0.178831 ACCCATCCCCAAGACTCCTT 60.179 55.000 0.00 0.00 0.00 3.36
2522 2674 1.065410 TCCCCAAGACTCCTTTGCCA 61.065 55.000 0.00 0.00 0.00 4.92
2555 2713 1.897225 CTGCTGCCACTGCCTAGTCT 61.897 60.000 0.00 0.00 34.07 3.24
2636 2794 2.981805 CGTTCAACGACGACTCCATAAA 59.018 45.455 3.01 0.00 46.05 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
163 165 1.972588 AGGCAGGTATGGTTTCCTCT 58.027 50.000 0.00 0.00 30.91 3.69
383 385 5.416326 ACGATTCATTTTTGGGACGGATTTA 59.584 36.000 0.00 0.00 0.00 1.40
390 392 3.435671 ACGAGACGATTCATTTTTGGGAC 59.564 43.478 0.00 0.00 0.00 4.46
391 393 3.670625 ACGAGACGATTCATTTTTGGGA 58.329 40.909 0.00 0.00 0.00 4.37
469 471 3.488489 GATTTTGGGTTGTTCATCGTCG 58.512 45.455 0.00 0.00 0.00 5.12
523 526 3.873812 GGGGGTCGCCGGATTCAT 61.874 66.667 5.05 0.00 0.00 2.57
544 548 3.360340 GACCTCGGTCGTCGGTGT 61.360 66.667 0.00 0.24 39.77 4.16
660 670 0.618981 GGTAGCACTACAGGGGCTTT 59.381 55.000 9.87 0.00 39.01 3.51
661 671 0.252742 AGGTAGCACTACAGGGGCTT 60.253 55.000 9.87 0.00 39.01 4.35
662 672 0.978146 CAGGTAGCACTACAGGGGCT 60.978 60.000 9.87 0.00 41.51 5.19
663 673 1.522569 CAGGTAGCACTACAGGGGC 59.477 63.158 9.87 0.00 37.78 5.80
664 674 1.338136 CCCAGGTAGCACTACAGGGG 61.338 65.000 21.29 19.14 43.44 4.79
665 675 0.325296 TCCCAGGTAGCACTACAGGG 60.325 60.000 22.31 22.31 46.04 4.45
666 676 1.115467 CTCCCAGGTAGCACTACAGG 58.885 60.000 9.87 10.01 37.78 4.00
667 677 1.115467 CCTCCCAGGTAGCACTACAG 58.885 60.000 9.87 2.07 37.78 2.74
668 678 3.300032 CCTCCCAGGTAGCACTACA 57.700 57.895 9.87 0.00 37.78 2.74
678 688 2.035632 CAGTAGCTTCTACCTCCCAGG 58.964 57.143 0.00 0.00 42.49 4.45
679 689 2.741145 ACAGTAGCTTCTACCTCCCAG 58.259 52.381 0.00 0.00 0.00 4.45
680 690 2.921834 ACAGTAGCTTCTACCTCCCA 57.078 50.000 0.00 0.00 0.00 4.37
681 691 3.261137 ACAAACAGTAGCTTCTACCTCCC 59.739 47.826 0.00 0.00 0.00 4.30
682 692 4.246458 CACAAACAGTAGCTTCTACCTCC 58.754 47.826 0.00 0.00 0.00 4.30
683 693 3.680458 GCACAAACAGTAGCTTCTACCTC 59.320 47.826 0.00 0.00 0.00 3.85
684 694 3.071023 TGCACAAACAGTAGCTTCTACCT 59.929 43.478 0.00 0.00 0.00 3.08
685 695 3.399330 TGCACAAACAGTAGCTTCTACC 58.601 45.455 0.00 0.00 0.00 3.18
686 696 5.613358 AATGCACAAACAGTAGCTTCTAC 57.387 39.130 0.00 0.00 0.00 2.59
687 697 5.530915 ACAAATGCACAAACAGTAGCTTCTA 59.469 36.000 0.00 0.00 0.00 2.10
688 698 4.339247 ACAAATGCACAAACAGTAGCTTCT 59.661 37.500 0.00 0.00 0.00 2.85
689 699 4.610945 ACAAATGCACAAACAGTAGCTTC 58.389 39.130 0.00 0.00 0.00 3.86
690 700 4.654091 ACAAATGCACAAACAGTAGCTT 57.346 36.364 0.00 0.00 0.00 3.74
691 701 4.821805 AGTACAAATGCACAAACAGTAGCT 59.178 37.500 0.00 0.00 0.00 3.32
692 702 5.108385 AGTACAAATGCACAAACAGTAGC 57.892 39.130 0.00 0.00 0.00 3.58
693 703 7.421530 ACTAGTACAAATGCACAAACAGTAG 57.578 36.000 0.00 0.00 0.00 2.57
694 704 7.795482 AACTAGTACAAATGCACAAACAGTA 57.205 32.000 0.00 0.00 0.00 2.74
695 705 6.693315 AACTAGTACAAATGCACAAACAGT 57.307 33.333 0.00 0.00 0.00 3.55
753 767 5.342525 GTGTTCTGCGTATTCATATACTCCG 59.657 44.000 0.00 0.00 35.49 4.63
754 768 6.213677 TGTGTTCTGCGTATTCATATACTCC 58.786 40.000 0.00 0.00 35.49 3.85
755 769 7.556433 GTTGTGTTCTGCGTATTCATATACTC 58.444 38.462 0.00 0.00 35.49 2.59
756 770 6.198403 CGTTGTGTTCTGCGTATTCATATACT 59.802 38.462 0.00 0.00 35.49 2.12
757 771 6.344800 CGTTGTGTTCTGCGTATTCATATAC 58.655 40.000 0.00 0.00 34.51 1.47
758 772 5.460748 CCGTTGTGTTCTGCGTATTCATATA 59.539 40.000 0.00 0.00 0.00 0.86
759 773 4.270084 CCGTTGTGTTCTGCGTATTCATAT 59.730 41.667 0.00 0.00 0.00 1.78
760 774 3.615056 CCGTTGTGTTCTGCGTATTCATA 59.385 43.478 0.00 0.00 0.00 2.15
761 775 2.415168 CCGTTGTGTTCTGCGTATTCAT 59.585 45.455 0.00 0.00 0.00 2.57
867 881 1.003355 CTTCCGTGGACATGGTGCT 60.003 57.895 10.18 0.00 38.61 4.40
873 887 1.544759 GGTGGTTTCTTCCGTGGACAT 60.545 52.381 0.00 0.00 0.00 3.06
1188 1205 3.066814 ACCGTCAGGCCCTCGTAC 61.067 66.667 0.00 0.00 42.76 3.67
1455 1583 1.514553 GCCGGGCTCGTAGTACTTT 59.485 57.895 12.87 0.00 33.95 2.66
1466 1594 3.591254 GACTTGAACTCGCCGGGCT 62.591 63.158 18.34 0.00 0.00 5.19
1695 1823 3.144506 ACAAGCAAAGAGTGAGATGTGG 58.855 45.455 0.00 0.00 0.00 4.17
1736 1864 4.963373 TCAATTCAAACGGGAGACAGTAA 58.037 39.130 0.00 0.00 37.98 2.24
1737 1865 4.610605 TCAATTCAAACGGGAGACAGTA 57.389 40.909 0.00 0.00 37.98 2.74
1738 1866 3.485463 TCAATTCAAACGGGAGACAGT 57.515 42.857 0.00 0.00 41.96 3.55
1748 1876 7.254761 GGGGAAAACTTGTGATTCAATTCAAAC 60.255 37.037 0.00 0.00 35.35 2.93
1883 2011 8.001549 GCTTTTACACAAACCAAATTATTCGTG 58.998 33.333 0.00 0.00 0.00 4.35
1885 2013 8.066668 TGCTTTTACACAAACCAAATTATTCG 57.933 30.769 0.00 0.00 0.00 3.34
1906 2034 6.127101 GGTCCATACCCTATTAAACTTGCTT 58.873 40.000 0.00 0.00 40.21 3.91
1925 2053 2.636893 CCCATTGTTTTTCATGGGTCCA 59.363 45.455 8.83 0.00 46.58 4.02
1936 2064 4.220602 GCCATCAGTAGTTCCCATTGTTTT 59.779 41.667 0.00 0.00 0.00 2.43
2018 2146 2.542020 TGAATGTGACGAAGCCTCAA 57.458 45.000 0.00 0.00 0.00 3.02
2031 2159 4.335315 CCATAGCACACGGTTAATGAATGT 59.665 41.667 0.00 0.00 0.00 2.71
2037 2165 3.938963 CAGAACCATAGCACACGGTTAAT 59.061 43.478 0.00 0.00 43.04 1.40
2092 2237 1.569493 CGAAGCCACGGTCAAGTTG 59.431 57.895 0.00 0.00 0.00 3.16
2112 2257 1.620819 TCTGAGCAGAAAGTGGAGACC 59.379 52.381 0.00 0.00 33.91 3.85
2190 2335 4.560128 TCAACAGGAAACTTCGAGATCTG 58.440 43.478 0.00 0.00 40.21 2.90
2198 2343 2.151202 TGGCGATCAACAGGAAACTTC 58.849 47.619 0.00 0.00 40.21 3.01
2223 2368 6.432472 TGTGGTTGTCTTATGCAATGTATGAA 59.568 34.615 0.00 0.00 0.00 2.57
2256 2406 2.506231 TGGTGGCAATCGGTTATCCTAA 59.494 45.455 0.00 0.00 0.00 2.69
2296 2446 1.280206 GCGCGAAAGTGGTAGTTCGT 61.280 55.000 12.10 0.00 46.42 3.85
2336 2487 2.813172 TGCGAGCTCAATTTGTCATCAA 59.187 40.909 15.40 0.00 0.00 2.57
2338 2489 3.476295 TTGCGAGCTCAATTTGTCATC 57.524 42.857 15.40 0.00 0.00 2.92
2344 2495 3.632189 GTTGTCTTTGCGAGCTCAATTT 58.368 40.909 15.40 0.00 0.00 1.82
2420 2571 1.134788 CGGACGGAGCCTTCTAACAAT 60.135 52.381 0.00 0.00 0.00 2.71
2421 2572 0.245539 CGGACGGAGCCTTCTAACAA 59.754 55.000 0.00 0.00 0.00 2.83
2422 2573 0.896940 ACGGACGGAGCCTTCTAACA 60.897 55.000 0.00 0.00 0.00 2.41
2425 2576 1.098050 GTAACGGACGGAGCCTTCTA 58.902 55.000 0.00 0.00 0.00 2.10
2522 2674 2.120909 AGCAGCGGCAACAAAGTGT 61.121 52.632 12.44 0.00 44.61 3.55
2578 2736 2.405618 TCATCCTAGGAGACCATGGG 57.594 55.000 18.34 0.00 0.00 4.00
2618 2776 3.571571 CTGTTTATGGAGTCGTCGTTGA 58.428 45.455 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.