Multiple sequence alignment - TraesCS1D01G110400

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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 TraesCS1D01G110400 chr1D 100.000 2456 0 0 1 2456 104217284 104214829 0.000000e+00 4536.0
1 TraesCS1D01G110400 chr6A 96.284 1803 61 4 658 2456 393551903 393550103 0.000000e+00 2953.0
2 TraesCS1D01G110400 chr6A 96.263 1793 64 3 658 2449 393553787 393551997 0.000000e+00 2937.0
3 TraesCS1D01G110400 chr7D 94.719 606 31 1 3 608 369537948 369537344 0.000000e+00 941.0
4 TraesCS1D01G110400 chr7D 94.243 608 35 0 1 608 404181752 404181145 0.000000e+00 929.0
5 TraesCS1D01G110400 chr5D 94.545 605 32 1 5 608 88424737 88425341 0.000000e+00 933.0
6 TraesCS1D01G110400 chr5D 94.389 606 34 0 3 608 218339226 218339831 0.000000e+00 931.0
7 TraesCS1D01G110400 chr2A 94.545 605 29 4 5 608 195889031 195889632 0.000000e+00 931.0
8 TraesCS1D01G110400 chr2A 85.714 119 17 0 2338 2456 768255562 768255444 2.560000e-25 126.0
9 TraesCS1D01G110400 chr3D 94.518 602 31 2 1 601 120277263 120277863 0.000000e+00 928.0
10 TraesCS1D01G110400 chr3D 94.108 611 33 3 1 608 261116567 261117177 0.000000e+00 926.0
11 TraesCS1D01G110400 chr3D 94.234 607 34 1 3 608 514236771 514236165 0.000000e+00 926.0
12 TraesCS1D01G110400 chr4D 94.098 610 33 3 1 608 111286442 111287050 0.000000e+00 924.0
13 TraesCS1D01G110400 chr4D 84.967 153 17 6 2301 2451 387449625 387449477 1.520000e-32 150.0
14 TraesCS1D01G110400 chr4D 81.119 143 25 2 2306 2447 484124172 484124313 2.000000e-21 113.0
15 TraesCS1D01G110400 chr6B 85.606 132 17 2 2326 2456 62118152 62118022 1.180000e-28 137.0
16 TraesCS1D01G110400 chr6B 81.301 123 16 6 2337 2456 637434748 637434630 2.600000e-15 93.5
17 TraesCS1D01G110400 chr4A 86.726 113 15 0 2335 2447 523353170 523353282 2.560000e-25 126.0
18 TraesCS1D01G110400 chr4A 83.333 120 18 2 2338 2456 695909680 695909562 2.580000e-20 110.0


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 TraesCS1D01G110400 chr1D 104214829 104217284 2455 True 4536 4536 100.0000 1 2456 1 chr1D.!!$R1 2455
1 TraesCS1D01G110400 chr6A 393550103 393553787 3684 True 2945 2953 96.2735 658 2456 2 chr6A.!!$R1 1798
2 TraesCS1D01G110400 chr7D 369537344 369537948 604 True 941 941 94.7190 3 608 1 chr7D.!!$R1 605
3 TraesCS1D01G110400 chr7D 404181145 404181752 607 True 929 929 94.2430 1 608 1 chr7D.!!$R2 607
4 TraesCS1D01G110400 chr5D 88424737 88425341 604 False 933 933 94.5450 5 608 1 chr5D.!!$F1 603
5 TraesCS1D01G110400 chr5D 218339226 218339831 605 False 931 931 94.3890 3 608 1 chr5D.!!$F2 605
6 TraesCS1D01G110400 chr2A 195889031 195889632 601 False 931 931 94.5450 5 608 1 chr2A.!!$F1 603
7 TraesCS1D01G110400 chr3D 120277263 120277863 600 False 928 928 94.5180 1 601 1 chr3D.!!$F1 600
8 TraesCS1D01G110400 chr3D 261116567 261117177 610 False 926 926 94.1080 1 608 1 chr3D.!!$F2 607
9 TraesCS1D01G110400 chr3D 514236165 514236771 606 True 926 926 94.2340 3 608 1 chr3D.!!$R1 605
10 TraesCS1D01G110400 chr4D 111286442 111287050 608 False 924 924 94.0980 1 608 1 chr4D.!!$F1 607

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
774 2664 0.249073 CCTCTACGCCTGAATCCACG 60.249 60.0 0.0 0.0 0.0 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1833 3724 0.034059 CCACGGTCACTTGAGCTTCT 59.966 55.0 6.84 0.0 40.17 2.85 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
220 225 9.558396 TTTTATTGCACCAGAAATTCAGAAAAT 57.442 25.926 0.00 0.00 0.00 1.82
239 244 8.437742 CAGAAAATAGACAAAACATGGCATTTC 58.562 33.333 0.00 0.00 40.75 2.17
248 253 9.332301 GACAAAACATGGCATTTCATTTTATTG 57.668 29.630 0.00 0.00 36.87 1.90
448 454 6.183361 GGGATATGCATTTCCCCAACAATAAA 60.183 38.462 33.77 0.71 45.08 1.40
492 498 8.822805 TGACAGTAGGTAGAGGTATTTGAAAAT 58.177 33.333 0.00 0.00 0.00 1.82
608 614 8.843262 CCATTGATATGAAAAGTGATCTTGCTA 58.157 33.333 0.00 0.00 33.37 3.49
614 620 9.846248 ATATGAAAAGTGATCTTGCTAAAACAC 57.154 29.630 0.00 0.00 33.79 3.32
615 621 7.333528 TGAAAAGTGATCTTGCTAAAACACT 57.666 32.000 0.00 0.00 39.70 3.55
616 622 8.445275 TGAAAAGTGATCTTGCTAAAACACTA 57.555 30.769 0.00 0.00 37.57 2.74
617 623 8.898761 TGAAAAGTGATCTTGCTAAAACACTAA 58.101 29.630 0.00 0.00 37.57 2.24
618 624 9.899226 GAAAAGTGATCTTGCTAAAACACTAAT 57.101 29.630 0.00 0.00 37.57 1.73
619 625 9.899226 AAAAGTGATCTTGCTAAAACACTAATC 57.101 29.630 0.00 0.00 37.57 1.75
620 626 8.854614 AAGTGATCTTGCTAAAACACTAATCT 57.145 30.769 0.00 0.00 37.57 2.40
621 627 8.261492 AGTGATCTTGCTAAAACACTAATCTG 57.739 34.615 0.00 0.00 36.94 2.90
622 628 6.963805 GTGATCTTGCTAAAACACTAATCTGC 59.036 38.462 0.00 0.00 0.00 4.26
623 629 6.881065 TGATCTTGCTAAAACACTAATCTGCT 59.119 34.615 0.00 0.00 0.00 4.24
624 630 7.391554 TGATCTTGCTAAAACACTAATCTGCTT 59.608 33.333 0.00 0.00 0.00 3.91
625 631 8.792830 ATCTTGCTAAAACACTAATCTGCTTA 57.207 30.769 0.00 0.00 0.00 3.09
626 632 8.615878 TCTTGCTAAAACACTAATCTGCTTAA 57.384 30.769 0.00 0.00 0.00 1.85
627 633 8.721478 TCTTGCTAAAACACTAATCTGCTTAAG 58.279 33.333 0.00 0.00 0.00 1.85
628 634 8.615878 TTGCTAAAACACTAATCTGCTTAAGA 57.384 30.769 6.67 0.00 39.94 2.10
629 635 8.256611 TGCTAAAACACTAATCTGCTTAAGAG 57.743 34.615 6.67 1.20 38.67 2.85
630 636 8.094548 TGCTAAAACACTAATCTGCTTAAGAGA 58.905 33.333 6.67 6.86 38.67 3.10
631 637 8.599774 GCTAAAACACTAATCTGCTTAAGAGAG 58.400 37.037 6.67 0.97 38.67 3.20
632 638 9.862371 CTAAAACACTAATCTGCTTAAGAGAGA 57.138 33.333 6.67 6.87 38.67 3.10
633 639 8.770438 AAAACACTAATCTGCTTAAGAGAGAG 57.230 34.615 6.67 9.83 38.67 3.20
634 640 7.710676 AACACTAATCTGCTTAAGAGAGAGA 57.289 36.000 6.67 1.74 38.67 3.10
635 641 7.333528 ACACTAATCTGCTTAAGAGAGAGAG 57.666 40.000 6.67 9.94 38.67 3.20
636 642 6.321181 ACACTAATCTGCTTAAGAGAGAGAGG 59.679 42.308 6.67 8.25 38.67 3.69
637 643 6.321181 CACTAATCTGCTTAAGAGAGAGAGGT 59.679 42.308 6.67 4.26 38.67 3.85
638 644 6.895204 ACTAATCTGCTTAAGAGAGAGAGGTT 59.105 38.462 6.67 1.10 38.67 3.50
639 645 6.619329 AATCTGCTTAAGAGAGAGAGGTTT 57.381 37.500 6.67 0.00 38.67 3.27
640 646 5.652994 TCTGCTTAAGAGAGAGAGGTTTC 57.347 43.478 6.67 0.00 0.00 2.78
641 647 4.464597 TCTGCTTAAGAGAGAGAGGTTTCC 59.535 45.833 6.67 0.00 0.00 3.13
642 648 3.193691 TGCTTAAGAGAGAGAGGTTTCCG 59.806 47.826 6.67 0.00 0.00 4.30
643 649 3.193903 GCTTAAGAGAGAGAGGTTTCCGT 59.806 47.826 6.67 0.00 0.00 4.69
644 650 4.675933 GCTTAAGAGAGAGAGGTTTCCGTC 60.676 50.000 6.67 0.00 0.00 4.79
645 651 1.842052 AGAGAGAGAGGTTTCCGTCC 58.158 55.000 0.00 0.00 0.00 4.79
646 652 0.452585 GAGAGAGAGGTTTCCGTCCG 59.547 60.000 0.00 0.00 0.00 4.79
647 653 1.153804 GAGAGAGGTTTCCGTCCGC 60.154 63.158 0.00 0.00 0.00 5.54
648 654 1.596895 GAGAGAGGTTTCCGTCCGCT 61.597 60.000 0.00 0.00 37.78 5.52
649 655 1.153804 GAGAGGTTTCCGTCCGCTC 60.154 63.158 0.00 0.00 42.54 5.03
650 656 2.506438 GAGGTTTCCGTCCGCTCG 60.506 66.667 0.00 0.00 0.00 5.03
651 657 3.278592 GAGGTTTCCGTCCGCTCGT 62.279 63.158 0.00 0.00 0.00 4.18
652 658 3.110178 GGTTTCCGTCCGCTCGTG 61.110 66.667 0.00 0.00 0.00 4.35
653 659 2.049802 GTTTCCGTCCGCTCGTGA 60.050 61.111 0.00 0.00 0.00 4.35
654 660 2.049802 TTTCCGTCCGCTCGTGAC 60.050 61.111 0.00 0.00 0.00 3.67
696 702 1.403679 CTTCTTGGCGTTTCCACACAA 59.596 47.619 0.00 0.00 46.55 3.33
732 2622 0.674895 ACTTGCCGCTGAATCTGGAC 60.675 55.000 0.00 0.00 0.00 4.02
760 2650 4.947883 TCCCAGAAATTCTCTCACCTCTA 58.052 43.478 0.00 0.00 29.07 2.43
774 2664 0.249073 CCTCTACGCCTGAATCCACG 60.249 60.000 0.00 0.00 0.00 4.94
785 2675 1.004161 TGAATCCACGCTCAATCCCAA 59.996 47.619 0.00 0.00 0.00 4.12
791 2681 4.082845 TCCACGCTCAATCCCAAAAATTA 58.917 39.130 0.00 0.00 0.00 1.40
887 2777 2.389715 CTGGTTCTAAGATCTCCGGGT 58.610 52.381 0.00 0.00 0.00 5.28
890 2780 1.413077 GTTCTAAGATCTCCGGGTGGG 59.587 57.143 0.00 0.00 35.24 4.61
895 2785 0.618981 AGATCTCCGGGTGGGTTTTC 59.381 55.000 0.00 0.00 37.00 2.29
921 2811 3.075148 TGTGACTCTACTCTGAAGTCGG 58.925 50.000 3.54 0.00 36.92 4.79
982 2872 2.140792 GGCGGGATCCAGGAGCTTA 61.141 63.158 15.23 0.00 0.00 3.09
992 2882 0.683973 CAGGAGCTTATGCGGGAGAT 59.316 55.000 0.00 0.00 45.42 2.75
995 2885 1.202698 GGAGCTTATGCGGGAGATTGT 60.203 52.381 0.00 0.00 45.42 2.71
1071 2961 0.685785 ATCTGAAGCTCTCGGAGGCA 60.686 55.000 17.01 4.15 42.89 4.75
1092 2982 3.631227 CAGAGAAGAGGGGCATCAAAATC 59.369 47.826 0.00 0.00 0.00 2.17
1093 2983 3.267812 AGAGAAGAGGGGCATCAAAATCA 59.732 43.478 0.00 0.00 0.00 2.57
1095 2985 1.772836 AGAGGGGCATCAAAATCAGC 58.227 50.000 0.00 0.00 0.00 4.26
1209 3099 4.846940 AGAACATTAGGAGGAGTTTGGAGT 59.153 41.667 0.00 0.00 0.00 3.85
1235 3125 4.846779 TTTCTGGTGTGGATTGTAAAGC 57.153 40.909 0.00 0.00 0.00 3.51
1523 3414 4.218417 GGGTATGCTATTGGGCAGTTTATG 59.782 45.833 0.00 0.00 45.75 1.90
1551 3442 7.227512 GGATAAAGGTGAGAATGGACATAACAG 59.772 40.741 0.00 0.00 0.00 3.16
1590 3481 6.560003 TCAGCACCTTAGAAATGGAAGATA 57.440 37.500 0.00 0.00 0.00 1.98
1593 3484 8.713971 TCAGCACCTTAGAAATGGAAGATAATA 58.286 33.333 0.00 0.00 0.00 0.98
1670 3561 4.009002 AGGAAGAGAAGCAAAAGCTCATC 58.991 43.478 0.00 0.00 0.00 2.92
1768 3659 3.140144 ACAAGAAAAGGGGGACAAGATGA 59.860 43.478 0.00 0.00 0.00 2.92
1769 3660 4.151883 CAAGAAAAGGGGGACAAGATGAA 58.848 43.478 0.00 0.00 0.00 2.57
1802 3693 1.910722 ATGGCTCCGAGCAATGAGT 59.089 52.632 21.76 0.00 44.75 3.41
1833 3724 1.980765 ACTCAAGTGATGGGAAGAGCA 59.019 47.619 0.00 0.00 32.10 4.26
1849 3740 2.157421 GCAGAAGCTCAAGTGACCG 58.843 57.895 0.00 0.00 37.91 4.79
1882 3773 4.196193 TGGACAAACAACACAGGAAGTAG 58.804 43.478 0.00 0.00 0.00 2.57
1900 3791 4.578128 AGTAGGGGTAATAAGCAAGGGAT 58.422 43.478 0.00 0.00 0.00 3.85
1919 3810 1.639722 TTGATGGACCGTCTTGGAGA 58.360 50.000 14.84 0.00 42.00 3.71
1978 3869 4.814967 TCAAATGGGGAGGAAAAAGAAGT 58.185 39.130 0.00 0.00 0.00 3.01
1985 3876 4.507512 GGGGAGGAAAAAGAAGTCATGAGT 60.508 45.833 0.00 0.00 0.00 3.41
2012 3903 8.265055 CCTATGAAAGTAAATACAGAGGACCAA 58.735 37.037 0.00 0.00 42.18 3.67
2015 3906 8.197592 TGAAAGTAAATACAGAGGACCAACTA 57.802 34.615 0.00 0.00 0.00 2.24
2020 3911 2.417719 ACAGAGGACCAACTAGGGTT 57.582 50.000 0.00 0.00 42.53 4.11
2036 3927 4.271807 AGGGTTGATGAGAGATACTCCA 57.728 45.455 0.00 0.00 44.34 3.86
2101 3992 3.037549 AGGTGCAGATTAGGGAAGAGAG 58.962 50.000 0.00 0.00 0.00 3.20
2105 3996 5.071115 GGTGCAGATTAGGGAAGAGAGTAAT 59.929 44.000 0.00 0.00 0.00 1.89
2120 4011 3.267031 AGAGTAATTCCCAAAGGTCAGGG 59.733 47.826 0.00 0.00 46.90 4.45
2166 4057 5.555017 TCAAGAGAATAGCAAGAGCAAAGT 58.445 37.500 0.00 0.00 45.49 2.66
2200 4094 2.665165 ACAAGCACAACCATCCAAGAA 58.335 42.857 0.00 0.00 0.00 2.52
2233 4127 2.030027 AGGAACACTGACCTCATGGA 57.970 50.000 0.00 0.00 37.04 3.41
2245 4139 1.279496 CTCATGGAAGTGGACCTGGA 58.721 55.000 0.00 0.00 0.00 3.86
2295 4189 3.463944 GAAGTTGACGAGGAAGGAAACA 58.536 45.455 0.00 0.00 0.00 2.83
2296 4190 3.553828 AGTTGACGAGGAAGGAAACAA 57.446 42.857 0.00 0.00 0.00 2.83
2338 4232 6.423776 AAGCAAGAAATCTGAAATTGGGAA 57.576 33.333 0.00 0.00 0.00 3.97
2343 4237 1.094785 ATCTGAAATTGGGAACGCCG 58.905 50.000 0.00 0.00 33.83 6.46
2383 4277 5.000591 TGGCGAGACAAAATGAAGATAACA 58.999 37.500 0.00 0.00 0.00 2.41
2424 4318 1.002624 GGAATGGCCCGACAGTTCA 60.003 57.895 0.00 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
220 225 9.941325 ATAAAATGAAATGCCATGTTTTGTCTA 57.059 25.926 0.00 0.00 0.00 2.59
492 498 5.414789 TCTCCGACAATCACTATTGGAAA 57.585 39.130 3.41 0.00 45.72 3.13
608 614 8.589338 TCTCTCTCTTAAGCAGATTAGTGTTTT 58.411 33.333 0.00 0.00 0.00 2.43
609 615 8.128322 TCTCTCTCTTAAGCAGATTAGTGTTT 57.872 34.615 0.00 0.00 0.00 2.83
610 616 7.147915 CCTCTCTCTCTTAAGCAGATTAGTGTT 60.148 40.741 0.00 0.00 0.00 3.32
611 617 6.321181 CCTCTCTCTCTTAAGCAGATTAGTGT 59.679 42.308 0.00 0.00 0.00 3.55
612 618 6.321181 ACCTCTCTCTCTTAAGCAGATTAGTG 59.679 42.308 0.00 4.43 0.00 2.74
613 619 6.431722 ACCTCTCTCTCTTAAGCAGATTAGT 58.568 40.000 0.00 0.00 0.00 2.24
614 620 6.959639 ACCTCTCTCTCTTAAGCAGATTAG 57.040 41.667 0.00 3.10 0.00 1.73
615 621 7.147811 GGAAACCTCTCTCTCTTAAGCAGATTA 60.148 40.741 0.00 0.00 0.00 1.75
616 622 6.351796 GGAAACCTCTCTCTCTTAAGCAGATT 60.352 42.308 0.00 0.00 0.00 2.40
617 623 5.128663 GGAAACCTCTCTCTCTTAAGCAGAT 59.871 44.000 0.00 0.00 0.00 2.90
618 624 4.464597 GGAAACCTCTCTCTCTTAAGCAGA 59.535 45.833 0.00 0.88 0.00 4.26
619 625 4.676723 CGGAAACCTCTCTCTCTTAAGCAG 60.677 50.000 0.00 0.00 0.00 4.24
620 626 3.193691 CGGAAACCTCTCTCTCTTAAGCA 59.806 47.826 0.00 0.00 0.00 3.91
621 627 3.193903 ACGGAAACCTCTCTCTCTTAAGC 59.806 47.826 0.00 0.00 0.00 3.09
622 628 4.142337 GGACGGAAACCTCTCTCTCTTAAG 60.142 50.000 0.00 0.00 0.00 1.85
623 629 3.762823 GGACGGAAACCTCTCTCTCTTAA 59.237 47.826 0.00 0.00 0.00 1.85
624 630 3.354467 GGACGGAAACCTCTCTCTCTTA 58.646 50.000 0.00 0.00 0.00 2.10
625 631 2.172679 GGACGGAAACCTCTCTCTCTT 58.827 52.381 0.00 0.00 0.00 2.85
626 632 1.842052 GGACGGAAACCTCTCTCTCT 58.158 55.000 0.00 0.00 0.00 3.10
627 633 0.452585 CGGACGGAAACCTCTCTCTC 59.547 60.000 0.00 0.00 0.00 3.20
628 634 1.596895 GCGGACGGAAACCTCTCTCT 61.597 60.000 0.00 0.00 0.00 3.10
629 635 1.153804 GCGGACGGAAACCTCTCTC 60.154 63.158 0.00 0.00 0.00 3.20
630 636 1.596895 GAGCGGACGGAAACCTCTCT 61.597 60.000 0.00 0.00 36.63 3.10
631 637 1.153804 GAGCGGACGGAAACCTCTC 60.154 63.158 0.00 0.00 33.22 3.20
632 638 2.971452 GAGCGGACGGAAACCTCT 59.029 61.111 0.00 0.00 0.00 3.69
633 639 2.506438 CGAGCGGACGGAAACCTC 60.506 66.667 0.00 0.00 0.00 3.85
634 640 3.300765 ACGAGCGGACGGAAACCT 61.301 61.111 0.00 0.00 37.61 3.50
635 641 3.110178 CACGAGCGGACGGAAACC 61.110 66.667 0.00 0.00 37.61 3.27
636 642 2.049802 TCACGAGCGGACGGAAAC 60.050 61.111 0.00 0.00 37.61 2.78
637 643 2.049802 GTCACGAGCGGACGGAAA 60.050 61.111 0.00 0.00 37.61 3.13
696 702 1.664965 GTGTTGCCGAAGAGAGCGT 60.665 57.895 0.00 0.00 0.00 5.07
732 2622 4.880696 GTGAGAGAATTTCTGGGATTGAGG 59.119 45.833 3.03 0.00 35.87 3.86
774 2664 7.105588 AGGTGAAATAATTTTTGGGATTGAGC 58.894 34.615 0.00 0.00 0.00 4.26
785 2675 7.775053 TCAGGCACTAAGGTGAAATAATTTT 57.225 32.000 0.00 0.00 45.61 1.82
791 2681 5.183904 GTGAATTCAGGCACTAAGGTGAAAT 59.816 40.000 8.80 0.00 45.61 2.17
887 2777 0.550914 AGTCACAGCCAGAAAACCCA 59.449 50.000 0.00 0.00 0.00 4.51
890 2780 3.991121 GAGTAGAGTCACAGCCAGAAAAC 59.009 47.826 0.00 0.00 0.00 2.43
895 2785 2.441410 TCAGAGTAGAGTCACAGCCAG 58.559 52.381 0.00 0.00 0.00 4.85
936 2826 2.742372 CCTCCAAGAACCACCGCG 60.742 66.667 0.00 0.00 0.00 6.46
980 2870 2.121291 TGCAACAATCTCCCGCATAA 57.879 45.000 0.00 0.00 0.00 1.90
982 2872 1.135527 CATTGCAACAATCTCCCGCAT 59.864 47.619 0.00 0.00 31.67 4.73
992 2882 1.039068 CTCACCACCCATTGCAACAA 58.961 50.000 0.00 0.00 0.00 2.83
995 2885 1.075212 TCATCTCACCACCCATTGCAA 59.925 47.619 0.00 0.00 0.00 4.08
1071 2961 3.267812 TGATTTTGATGCCCCTCTTCTCT 59.732 43.478 0.00 0.00 0.00 3.10
1092 2982 3.275088 CAGGCCTGCTTCTTGCTG 58.725 61.111 22.33 0.00 43.37 4.41
1105 2995 2.125350 CACCTTCGAGGAGCAGGC 60.125 66.667 7.76 0.00 37.67 4.85
1209 3099 2.176798 ACAATCCACACCAGAAAAGGGA 59.823 45.455 0.00 0.00 0.00 4.20
1235 3125 1.202348 GGAAACGATTTCTGCCAAGGG 59.798 52.381 0.00 0.00 39.59 3.95
1377 3267 6.723515 TCACCCAGATTGGTATCATTTTGAAA 59.276 34.615 0.00 0.00 36.67 2.69
1425 3315 3.769844 TCCCTGTTTCTCTACTCATCACC 59.230 47.826 0.00 0.00 0.00 4.02
1523 3414 5.359194 TGTCCATTCTCACCTTTATCCTC 57.641 43.478 0.00 0.00 0.00 3.71
1551 3442 3.375299 GTGCTGAACCTCATGATTGGTAC 59.625 47.826 7.05 0.00 35.17 3.34
1590 3481 5.614324 TCCTCATGTGTCGGATCTTTATT 57.386 39.130 0.00 0.00 0.00 1.40
1593 3484 3.866651 CTTCCTCATGTGTCGGATCTTT 58.133 45.455 0.00 0.00 0.00 2.52
1670 3561 9.117183 TCTGGAAGATGTTCATATTCAAATGAG 57.883 33.333 17.76 8.29 38.67 2.90
1721 3612 4.144297 GGCATATCTTTTCTGTATGGCCA 58.856 43.478 8.56 8.56 42.33 5.36
1724 3615 5.593909 TGTTGGGCATATCTTTTCTGTATGG 59.406 40.000 0.00 0.00 0.00 2.74
1768 3659 1.003464 GCCATGGACCAAATTGCCTTT 59.997 47.619 18.40 0.00 0.00 3.11
1769 3660 0.614812 GCCATGGACCAAATTGCCTT 59.385 50.000 18.40 0.00 0.00 4.35
1833 3724 0.034059 CCACGGTCACTTGAGCTTCT 59.966 55.000 6.84 0.00 40.17 2.85
1849 3740 3.878160 TGTTTGTCCAAAAACCTCCAC 57.122 42.857 0.00 0.00 38.93 4.02
1882 3773 4.178956 TCAATCCCTTGCTTATTACCCC 57.821 45.455 0.00 0.00 32.11 4.95
1900 3791 1.639722 TCTCCAAGACGGTCCATCAA 58.360 50.000 4.14 0.00 35.57 2.57
1985 3876 7.622081 TGGTCCTCTGTATTTACTTTCATAGGA 59.378 37.037 0.00 0.00 33.12 2.94
2012 3903 5.103473 TGGAGTATCTCTCATCAACCCTAGT 60.103 44.000 0.00 0.00 44.40 2.57
2015 3906 4.222336 CTGGAGTATCTCTCATCAACCCT 58.778 47.826 0.00 0.00 44.40 4.34
2020 3911 5.514169 AGTTGACTGGAGTATCTCTCATCA 58.486 41.667 0.00 0.00 44.40 3.07
2036 3927 5.992217 GTCTTTGTCATCCAGTAAGTTGACT 59.008 40.000 0.00 0.00 39.33 3.41
2113 4004 4.037565 CCTGTTTTACACTTTTCCCTGACC 59.962 45.833 0.00 0.00 0.00 4.02
2120 4011 4.649088 AGTGCCCTGTTTTACACTTTTC 57.351 40.909 0.00 0.00 40.35 2.29
2166 4057 4.871513 TGTGCTTGTTGTTGTTGTTTGTA 58.128 34.783 0.00 0.00 0.00 2.41
2200 4094 5.070981 TCAGTGTTCCTCTTCTTCTGTTCAT 59.929 40.000 0.00 0.00 0.00 2.57
2265 4159 1.734465 CTCGTCAACTTCCATCTTGGC 59.266 52.381 0.00 0.00 37.47 4.52
2268 4162 3.307059 CCTTCCTCGTCAACTTCCATCTT 60.307 47.826 0.00 0.00 0.00 2.40
2296 4190 6.173427 TGCTTTCTTCCTTTATGCCTTTTT 57.827 33.333 0.00 0.00 0.00 1.94
2383 4277 4.351054 CCCCGGCAGTTCCAAGCT 62.351 66.667 0.00 0.00 34.01 3.74
2424 4318 1.868810 TGGAGGTCCAGAAGTCCCT 59.131 57.895 0.00 0.00 42.01 4.20


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

AutoCloner maintained by Alex Coulton.