Multiple sequence alignment - TraesCS4B01G064700

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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 TraesCS4B01G064700 chr4B 100.000 2495 0 0 1 2495 57750839 57748345 0.000000 4608.0
1 TraesCS4B01G064700 chr4D 94.818 1679 66 6 827 2495 39361496 39363163 0.000000 2599.0
2 TraesCS4B01G064700 chr4D 95.497 755 30 2 1 755 39360742 39361492 0.000000 1203.0
3 TraesCS4B01G064700 chr4A 94.892 1018 51 1 818 1835 560994458 560995474 0.000000 1591.0
4 TraesCS4B01G064700 chr4A 85.769 787 73 23 1 757 560993684 560994461 0.000000 797.0
5 TraesCS4B01G064700 chr4A 88.226 654 53 6 1833 2473 560995577 560996219 0.000000 760.0
6 TraesCS4B01G064700 chr4A 94.737 38 1 1 754 790 559487111 559487148 0.000096 58.4
7 TraesCS4B01G064700 chr7D 91.489 47 2 2 757 802 423706991 423706946 0.000002 63.9
8 TraesCS4B01G064700 chr5D 92.857 42 2 1 761 802 264635038 264634998 0.000027 60.2
9 TraesCS4B01G064700 chr5A 92.857 42 2 1 761 802 622203859 622203899 0.000027 60.2
10 TraesCS4B01G064700 chr1A 91.304 46 1 3 758 802 473042202 473042159 0.000027 60.2
11 TraesCS4B01G064700 chr1A 89.362 47 3 2 757 802 560251676 560251631 0.000096 58.4
12 TraesCS4B01G064700 chr6A 94.737 38 1 1 751 787 460621956 460621919 0.000096 58.4
13 TraesCS4B01G064700 chr2D 90.476 42 4 0 747 788 2450905 2450864 0.000347 56.5
14 TraesCS4B01G064700 chr7B 92.105 38 3 0 752 789 682354660 682354697 0.001000 54.7


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 TraesCS4B01G064700 chr4B 57748345 57750839 2494 True 4608.000000 4608 100.0000 1 2495 1 chr4B.!!$R1 2494
1 TraesCS4B01G064700 chr4D 39360742 39363163 2421 False 1901.000000 2599 95.1575 1 2495 2 chr4D.!!$F1 2494
2 TraesCS4B01G064700 chr4A 560993684 560996219 2535 False 1049.333333 1591 89.6290 1 2473 3 chr4A.!!$F2 2472

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
872 909 0.105039 CCTTCACATACGCCCTCTCC 59.895 60.0 0.0 0.0 0.0 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1704 1742 1.345741 TCTCCCTTGCTCACACTCAAG 59.654 52.381 0.0 0.0 39.38 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
66 67 1.855978 CAACGTCGAACAAGTGTAGCA 59.144 47.619 0.00 0.00 0.00 3.49
91 92 9.918630 CAGAAAAGAAACATGATTGACCTAAAT 57.081 29.630 0.00 0.00 0.00 1.40
131 132 5.479724 TGTCTTTTGATGATGGTTTATGCCA 59.520 36.000 0.00 0.00 43.48 4.92
288 289 3.694072 CGCTATCAAGGGGAAACATTTCA 59.306 43.478 6.68 0.00 38.92 2.69
362 363 5.478332 GCCCTTGAAGAATCCCATAATTAGG 59.522 44.000 0.00 0.00 0.00 2.69
559 566 8.149647 CCTCTCTAAAGCAATACTGAAGATCAT 58.850 37.037 0.00 0.00 0.00 2.45
560 567 9.195411 CTCTCTAAAGCAATACTGAAGATCATC 57.805 37.037 0.00 0.00 0.00 2.92
561 568 8.699130 TCTCTAAAGCAATACTGAAGATCATCA 58.301 33.333 0.01 0.01 0.00 3.07
572 579 7.621428 ACTGAAGATCATCAACATTACCAAG 57.379 36.000 1.81 0.00 0.00 3.61
634 667 5.092781 TCACGTTTGAAAAGAAGTTCAAGC 58.907 37.500 5.50 4.90 45.62 4.01
672 705 4.037858 ACCTAGCTTTATTGACGTACGG 57.962 45.455 21.06 1.43 0.00 4.02
730 763 7.335422 AGTTGTCTTCTTCAGATAAATCGCAAT 59.665 33.333 0.00 0.00 34.62 3.56
758 795 9.050601 CCAATTGTCTTTCTTCAGATATAGTCC 57.949 37.037 4.43 0.00 0.00 3.85
759 796 9.829507 CAATTGTCTTTCTTCAGATATAGTCCT 57.170 33.333 0.00 0.00 0.00 3.85
762 799 8.830915 TGTCTTTCTTCAGATATAGTCCTTCT 57.169 34.615 0.00 0.00 0.00 2.85
763 800 8.690884 TGTCTTTCTTCAGATATAGTCCTTCTG 58.309 37.037 0.00 0.00 38.56 3.02
764 801 8.691797 GTCTTTCTTCAGATATAGTCCTTCTGT 58.308 37.037 0.00 0.00 38.39 3.41
765 802 9.922477 TCTTTCTTCAGATATAGTCCTTCTGTA 57.078 33.333 0.00 0.00 38.39 2.74
766 803 9.959749 CTTTCTTCAGATATAGTCCTTCTGTAC 57.040 37.037 0.00 0.00 38.39 2.90
767 804 8.466617 TTCTTCAGATATAGTCCTTCTGTACC 57.533 38.462 0.00 0.00 38.39 3.34
768 805 6.711194 TCTTCAGATATAGTCCTTCTGTACCG 59.289 42.308 0.00 0.00 38.39 4.02
769 806 6.183810 TCAGATATAGTCCTTCTGTACCGA 57.816 41.667 0.00 0.00 38.39 4.69
770 807 6.598503 TCAGATATAGTCCTTCTGTACCGAA 58.401 40.000 0.00 0.00 38.39 4.30
771 808 7.058525 TCAGATATAGTCCTTCTGTACCGAAA 58.941 38.462 1.23 0.00 38.39 3.46
772 809 7.724506 TCAGATATAGTCCTTCTGTACCGAAAT 59.275 37.037 1.23 0.00 38.39 2.17
773 810 9.011095 CAGATATAGTCCTTCTGTACCGAAATA 57.989 37.037 1.23 0.00 33.72 1.40
774 811 9.012161 AGATATAGTCCTTCTGTACCGAAATAC 57.988 37.037 1.23 3.02 0.00 1.89
775 812 8.937207 ATATAGTCCTTCTGTACCGAAATACT 57.063 34.615 14.31 14.31 0.00 2.12
776 813 5.997384 AGTCCTTCTGTACCGAAATACTT 57.003 39.130 1.23 0.00 0.00 2.24
777 814 5.721232 AGTCCTTCTGTACCGAAATACTTG 58.279 41.667 1.23 0.00 0.00 3.16
778 815 5.245526 AGTCCTTCTGTACCGAAATACTTGT 59.754 40.000 1.23 0.00 0.00 3.16
779 816 6.435277 AGTCCTTCTGTACCGAAATACTTGTA 59.565 38.462 1.23 0.00 0.00 2.41
780 817 6.750963 GTCCTTCTGTACCGAAATACTTGTAG 59.249 42.308 1.23 0.00 0.00 2.74
781 818 6.435277 TCCTTCTGTACCGAAATACTTGTAGT 59.565 38.462 1.23 0.00 0.00 2.73
782 819 7.039504 TCCTTCTGTACCGAAATACTTGTAGTT 60.040 37.037 1.23 0.00 0.00 2.24
783 820 7.063074 CCTTCTGTACCGAAATACTTGTAGTTG 59.937 40.741 1.23 0.00 0.00 3.16
784 821 6.392354 TCTGTACCGAAATACTTGTAGTTGG 58.608 40.000 0.00 3.87 0.00 3.77
785 822 5.481105 TGTACCGAAATACTTGTAGTTGGG 58.519 41.667 16.40 16.40 0.00 4.12
786 823 3.946606 ACCGAAATACTTGTAGTTGGGG 58.053 45.455 20.08 13.17 29.20 4.96
787 824 3.583966 ACCGAAATACTTGTAGTTGGGGA 59.416 43.478 20.08 0.00 29.20 4.81
788 825 4.041938 ACCGAAATACTTGTAGTTGGGGAA 59.958 41.667 20.08 0.00 29.20 3.97
789 826 5.005094 CCGAAATACTTGTAGTTGGGGAAA 58.995 41.667 12.11 0.00 0.00 3.13
790 827 5.106436 CCGAAATACTTGTAGTTGGGGAAAC 60.106 44.000 12.11 0.00 39.24 2.78
805 842 8.803397 GTTGGGGAAACTATCTACAAGTATTT 57.197 34.615 0.00 0.00 35.75 1.40
806 843 8.890718 GTTGGGGAAACTATCTACAAGTATTTC 58.109 37.037 0.00 0.00 35.75 2.17
807 844 7.270047 TGGGGAAACTATCTACAAGTATTTCG 58.730 38.462 0.00 0.00 0.00 3.46
808 845 6.704937 GGGGAAACTATCTACAAGTATTTCGG 59.295 42.308 0.00 0.00 0.00 4.30
809 846 7.270779 GGGAAACTATCTACAAGTATTTCGGT 58.729 38.462 0.00 0.00 0.00 4.69
810 847 8.416329 GGGAAACTATCTACAAGTATTTCGGTA 58.584 37.037 0.00 0.00 0.00 4.02
811 848 9.242477 GGAAACTATCTACAAGTATTTCGGTAC 57.758 37.037 0.00 0.00 0.00 3.34
812 849 9.793252 GAAACTATCTACAAGTATTTCGGTACA 57.207 33.333 0.00 0.00 0.00 2.90
813 850 9.578439 AAACTATCTACAAGTATTTCGGTACAC 57.422 33.333 0.00 0.00 0.00 2.90
814 851 8.284945 ACTATCTACAAGTATTTCGGTACACA 57.715 34.615 0.00 0.00 0.00 3.72
815 852 8.404000 ACTATCTACAAGTATTTCGGTACACAG 58.596 37.037 0.00 0.00 0.00 3.66
816 853 5.957798 TCTACAAGTATTTCGGTACACAGG 58.042 41.667 0.00 0.00 0.00 4.00
817 854 3.934068 ACAAGTATTTCGGTACACAGGG 58.066 45.455 0.00 0.00 0.00 4.45
818 855 3.579586 ACAAGTATTTCGGTACACAGGGA 59.420 43.478 0.00 0.00 0.00 4.20
819 856 4.181578 CAAGTATTTCGGTACACAGGGAG 58.818 47.826 0.00 0.00 0.00 4.30
820 857 3.438183 AGTATTTCGGTACACAGGGAGT 58.562 45.455 0.00 0.00 0.00 3.85
821 858 4.603131 AGTATTTCGGTACACAGGGAGTA 58.397 43.478 0.00 0.00 0.00 2.59
822 859 5.018809 AGTATTTCGGTACACAGGGAGTAA 58.981 41.667 0.00 0.00 0.00 2.24
823 860 4.895668 ATTTCGGTACACAGGGAGTAAA 57.104 40.909 0.00 0.00 0.00 2.01
824 861 4.895668 TTTCGGTACACAGGGAGTAAAT 57.104 40.909 0.00 0.00 0.00 1.40
825 862 5.999205 TTTCGGTACACAGGGAGTAAATA 57.001 39.130 0.00 0.00 0.00 1.40
835 872 6.206829 ACACAGGGAGTAAATAGCAAAAGAAC 59.793 38.462 0.00 0.00 0.00 3.01
854 891 6.347859 AGAACTGTCCTCCGATAATTATCC 57.652 41.667 17.83 5.31 0.00 2.59
859 896 6.097915 TGTCCTCCGATAATTATCCTTCAC 57.902 41.667 17.83 9.90 0.00 3.18
867 904 5.291128 CGATAATTATCCTTCACATACGCCC 59.709 44.000 17.83 0.00 0.00 6.13
872 909 0.105039 CCTTCACATACGCCCTCTCC 59.895 60.000 0.00 0.00 0.00 3.71
873 910 0.105039 CTTCACATACGCCCTCTCCC 59.895 60.000 0.00 0.00 0.00 4.30
940 977 1.131504 CTGTCTCGTCTTCCTTCTCCG 59.868 57.143 0.00 0.00 0.00 4.63
1155 1192 4.292178 GAGGCATCCTCCCTCGCG 62.292 72.222 0.00 0.00 44.36 5.87
1221 1258 4.552365 ATCCTCATGGGTGGCGCG 62.552 66.667 0.00 0.00 36.25 6.86
1404 1441 4.821589 CTCGTGGAGAAGGCGCCC 62.822 72.222 26.15 9.10 32.27 6.13
1445 1482 2.726351 CCAAGGAGGAGGCGGAGAC 61.726 68.421 0.00 0.00 41.22 3.36
1468 1505 4.514577 CCGAGAAGATGCGGGCGT 62.515 66.667 0.00 0.00 43.67 5.68
1574 1611 7.755373 CGAAGGAATTAGAGAAATTTTGGAACC 59.245 37.037 0.00 0.00 37.93 3.62
1590 1627 8.713708 TTTTGGAACCAAGGAGTCAATAATTA 57.286 30.769 6.39 0.00 37.24 1.40
1649 1686 3.655276 AATGCCAGTTGAGCTTTTGAG 57.345 42.857 0.00 0.00 0.00 3.02
1651 1688 2.867624 TGCCAGTTGAGCTTTTGAGAT 58.132 42.857 0.00 0.00 0.00 2.75
1664 1701 7.930325 TGAGCTTTTGAGATCATGGTTATAGAG 59.070 37.037 0.00 0.00 0.00 2.43
1667 1704 8.341173 GCTTTTGAGATCATGGTTATAGAGTTG 58.659 37.037 0.00 0.00 0.00 3.16
1704 1742 5.113502 AGCTTTGTCTTATGACTGTTTGC 57.886 39.130 9.87 7.25 43.29 3.68
1780 1818 9.993454 TGAGACTGGATTTCTATCTTATCATTG 57.007 33.333 0.00 0.00 0.00 2.82
1944 2087 5.118050 CGTCAGTGCTTGTTACTAATTCGAA 59.882 40.000 0.00 0.00 0.00 3.71
1945 2088 6.526222 GTCAGTGCTTGTTACTAATTCGAAG 58.474 40.000 3.35 0.00 0.00 3.79
1946 2089 6.145696 GTCAGTGCTTGTTACTAATTCGAAGT 59.854 38.462 3.35 3.02 0.00 3.01
1947 2090 6.704493 TCAGTGCTTGTTACTAATTCGAAGTT 59.296 34.615 2.37 0.82 0.00 2.66
1948 2091 7.225931 TCAGTGCTTGTTACTAATTCGAAGTTT 59.774 33.333 2.37 0.00 0.00 2.66
1949 2092 7.530861 CAGTGCTTGTTACTAATTCGAAGTTTC 59.469 37.037 2.37 0.00 0.00 2.78
2168 2319 3.502211 GGTGTTGTTGGAGATAACCACAG 59.498 47.826 0.00 0.00 37.03 3.66
2230 2381 8.981647 GTTGATTATGTTTGTGAAAATTCTGCT 58.018 29.630 0.00 0.00 0.00 4.24
2240 2391 5.810587 TGTGAAAATTCTGCTCGGTATACTC 59.189 40.000 2.25 0.00 0.00 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 3.510360 AGTTTCACTATAGTCCTGCGTGT 59.490 43.478 1.26 0.00 0.00 4.49
8 9 4.499357 GGGTAGTTTCACTATAGTCCTGCG 60.499 50.000 1.26 0.00 32.65 5.18
91 92 6.831353 TCAAAAGACAAAGGAACCATTCACTA 59.169 34.615 0.00 0.00 0.00 2.74
172 173 2.043526 AGTGAAGCCCCAATCTCCAATT 59.956 45.455 0.00 0.00 0.00 2.32
288 289 1.619669 GAGACCCCTCACCCCCAAT 60.620 63.158 0.00 0.00 39.24 3.16
559 566 5.616270 TGTTAGCAGTCTTGGTAATGTTGA 58.384 37.500 2.97 0.00 45.77 3.18
560 567 5.940192 TGTTAGCAGTCTTGGTAATGTTG 57.060 39.130 2.97 0.00 45.77 3.33
561 568 6.062095 ACTTGTTAGCAGTCTTGGTAATGTT 58.938 36.000 2.97 0.00 45.77 2.71
572 579 5.636837 TGTGACAAAAACTTGTTAGCAGTC 58.363 37.500 0.00 0.00 34.90 3.51
619 652 6.507023 TCAAAGATGGCTTGAACTTCTTTTC 58.493 36.000 0.00 0.00 39.09 2.29
634 667 4.754114 GCTAGGTAGCTGATTCAAAGATGG 59.246 45.833 4.27 0.00 45.62 3.51
672 705 0.942252 ACGGTCCTTGAAGAAAACGC 59.058 50.000 5.17 0.00 0.00 4.84
682 715 3.004862 GGTTTGTATACCACGGTCCTTG 58.995 50.000 0.00 0.00 38.12 3.61
705 738 6.408858 TGCGATTTATCTGAAGAAGACAAC 57.591 37.500 0.00 0.00 37.88 3.32
755 792 5.476614 ACAAGTATTTCGGTACAGAAGGAC 58.523 41.667 8.46 10.29 0.00 3.85
756 793 5.733620 ACAAGTATTTCGGTACAGAAGGA 57.266 39.130 8.46 0.00 0.00 3.36
758 795 7.063074 CCAACTACAAGTATTTCGGTACAGAAG 59.937 40.741 8.46 0.00 0.00 2.85
759 796 6.869913 CCAACTACAAGTATTTCGGTACAGAA 59.130 38.462 4.18 4.18 0.00 3.02
760 797 6.392354 CCAACTACAAGTATTTCGGTACAGA 58.608 40.000 0.00 0.00 0.00 3.41
761 798 5.579511 CCCAACTACAAGTATTTCGGTACAG 59.420 44.000 0.00 0.00 0.00 2.74
762 799 5.481105 CCCAACTACAAGTATTTCGGTACA 58.519 41.667 0.00 0.00 0.00 2.90
763 800 4.872124 CCCCAACTACAAGTATTTCGGTAC 59.128 45.833 0.00 0.00 0.00 3.34
764 801 4.776837 TCCCCAACTACAAGTATTTCGGTA 59.223 41.667 0.00 0.00 0.00 4.02
765 802 3.583966 TCCCCAACTACAAGTATTTCGGT 59.416 43.478 0.00 0.00 0.00 4.69
766 803 4.210724 TCCCCAACTACAAGTATTTCGG 57.789 45.455 0.00 0.00 0.00 4.30
767 804 5.704053 AGTTTCCCCAACTACAAGTATTTCG 59.296 40.000 0.00 0.00 44.56 3.46
780 817 8.803397 AAATACTTGTAGATAGTTTCCCCAAC 57.197 34.615 0.00 0.00 35.32 3.77
781 818 7.767198 CGAAATACTTGTAGATAGTTTCCCCAA 59.233 37.037 0.00 0.00 0.00 4.12
782 819 7.270047 CGAAATACTTGTAGATAGTTTCCCCA 58.730 38.462 0.00 0.00 0.00 4.96
783 820 6.704937 CCGAAATACTTGTAGATAGTTTCCCC 59.295 42.308 0.00 0.00 0.00 4.81
784 821 7.270779 ACCGAAATACTTGTAGATAGTTTCCC 58.729 38.462 0.00 0.00 0.00 3.97
785 822 9.242477 GTACCGAAATACTTGTAGATAGTTTCC 57.758 37.037 0.00 0.00 0.00 3.13
786 823 9.793252 TGTACCGAAATACTTGTAGATAGTTTC 57.207 33.333 0.00 0.00 0.00 2.78
787 824 9.578439 GTGTACCGAAATACTTGTAGATAGTTT 57.422 33.333 0.00 0.00 0.00 2.66
788 825 8.742777 TGTGTACCGAAATACTTGTAGATAGTT 58.257 33.333 0.00 0.00 0.00 2.24
789 826 8.284945 TGTGTACCGAAATACTTGTAGATAGT 57.715 34.615 0.00 0.00 0.00 2.12
790 827 7.861372 CCTGTGTACCGAAATACTTGTAGATAG 59.139 40.741 0.00 0.00 0.00 2.08
791 828 7.201848 CCCTGTGTACCGAAATACTTGTAGATA 60.202 40.741 0.00 0.00 0.00 1.98
792 829 6.406624 CCCTGTGTACCGAAATACTTGTAGAT 60.407 42.308 0.00 0.00 0.00 1.98
793 830 5.105635 CCCTGTGTACCGAAATACTTGTAGA 60.106 44.000 0.00 0.00 0.00 2.59
794 831 5.105635 TCCCTGTGTACCGAAATACTTGTAG 60.106 44.000 0.00 0.00 0.00 2.74
795 832 4.771577 TCCCTGTGTACCGAAATACTTGTA 59.228 41.667 0.00 0.00 0.00 2.41
796 833 3.579586 TCCCTGTGTACCGAAATACTTGT 59.420 43.478 0.00 0.00 0.00 3.16
797 834 4.181578 CTCCCTGTGTACCGAAATACTTG 58.818 47.826 0.00 0.00 0.00 3.16
798 835 3.836562 ACTCCCTGTGTACCGAAATACTT 59.163 43.478 0.00 0.00 0.00 2.24
799 836 3.438183 ACTCCCTGTGTACCGAAATACT 58.562 45.455 0.00 0.00 0.00 2.12
800 837 3.881937 ACTCCCTGTGTACCGAAATAC 57.118 47.619 0.00 0.00 0.00 1.89
801 838 5.999205 TTTACTCCCTGTGTACCGAAATA 57.001 39.130 0.00 0.00 0.00 1.40
802 839 4.895668 TTTACTCCCTGTGTACCGAAAT 57.104 40.909 0.00 0.00 0.00 2.17
803 840 4.895668 ATTTACTCCCTGTGTACCGAAA 57.104 40.909 0.00 0.00 0.00 3.46
804 841 4.142093 GCTATTTACTCCCTGTGTACCGAA 60.142 45.833 0.00 0.00 0.00 4.30
805 842 3.382546 GCTATTTACTCCCTGTGTACCGA 59.617 47.826 0.00 0.00 0.00 4.69
806 843 3.131577 TGCTATTTACTCCCTGTGTACCG 59.868 47.826 0.00 0.00 0.00 4.02
807 844 4.748277 TGCTATTTACTCCCTGTGTACC 57.252 45.455 0.00 0.00 0.00 3.34
808 845 6.877322 TCTTTTGCTATTTACTCCCTGTGTAC 59.123 38.462 0.00 0.00 0.00 2.90
809 846 7.011499 TCTTTTGCTATTTACTCCCTGTGTA 57.989 36.000 0.00 0.00 0.00 2.90
810 847 5.876357 TCTTTTGCTATTTACTCCCTGTGT 58.124 37.500 0.00 0.00 0.00 3.72
811 848 6.431234 AGTTCTTTTGCTATTTACTCCCTGTG 59.569 38.462 0.00 0.00 0.00 3.66
812 849 6.431234 CAGTTCTTTTGCTATTTACTCCCTGT 59.569 38.462 0.00 0.00 0.00 4.00
813 850 6.431234 ACAGTTCTTTTGCTATTTACTCCCTG 59.569 38.462 0.00 0.00 0.00 4.45
814 851 6.543735 ACAGTTCTTTTGCTATTTACTCCCT 58.456 36.000 0.00 0.00 0.00 4.20
815 852 6.127980 GGACAGTTCTTTTGCTATTTACTCCC 60.128 42.308 0.00 0.00 0.00 4.30
816 853 6.655425 AGGACAGTTCTTTTGCTATTTACTCC 59.345 38.462 0.00 0.00 0.00 3.85
817 854 7.148390 GGAGGACAGTTCTTTTGCTATTTACTC 60.148 40.741 0.00 0.00 0.00 2.59
818 855 6.655425 GGAGGACAGTTCTTTTGCTATTTACT 59.345 38.462 0.00 0.00 0.00 2.24
819 856 6.402226 CGGAGGACAGTTCTTTTGCTATTTAC 60.402 42.308 0.00 0.00 0.00 2.01
820 857 5.642063 CGGAGGACAGTTCTTTTGCTATTTA 59.358 40.000 0.00 0.00 0.00 1.40
821 858 4.455877 CGGAGGACAGTTCTTTTGCTATTT 59.544 41.667 0.00 0.00 0.00 1.40
822 859 4.003648 CGGAGGACAGTTCTTTTGCTATT 58.996 43.478 0.00 0.00 0.00 1.73
823 860 3.260884 TCGGAGGACAGTTCTTTTGCTAT 59.739 43.478 0.00 0.00 0.00 2.97
824 861 2.631062 TCGGAGGACAGTTCTTTTGCTA 59.369 45.455 0.00 0.00 0.00 3.49
825 862 1.416401 TCGGAGGACAGTTCTTTTGCT 59.584 47.619 0.00 0.00 0.00 3.91
835 872 6.159988 GTGAAGGATAATTATCGGAGGACAG 58.840 44.000 17.25 0.00 33.52 3.51
854 891 0.105039 GGGAGAGGGCGTATGTGAAG 59.895 60.000 0.00 0.00 0.00 3.02
859 896 3.771577 AATAAAGGGAGAGGGCGTATG 57.228 47.619 0.00 0.00 0.00 2.39
867 904 6.183360 ACAGCTCTACGTAAATAAAGGGAGAG 60.183 42.308 8.02 4.75 42.68 3.20
872 909 7.772332 ATTCACAGCTCTACGTAAATAAAGG 57.228 36.000 0.00 0.00 0.00 3.11
873 910 8.469902 CGTATTCACAGCTCTACGTAAATAAAG 58.530 37.037 0.00 0.00 33.96 1.85
913 950 0.718343 GAAGACGAGACAGCACATGC 59.282 55.000 0.00 0.00 42.49 4.06
940 977 2.887568 CTGACGATGCGGAGTGGC 60.888 66.667 0.00 0.00 0.00 5.01
1445 1482 3.635204 GCATCTTCTCGGCGATGG 58.365 61.111 11.27 0.00 37.94 3.51
1467 1504 0.388520 GAACAATCTTGGCGCCCAAC 60.389 55.000 26.77 0.00 38.75 3.77
1468 1505 0.539438 AGAACAATCTTGGCGCCCAA 60.539 50.000 26.77 17.05 41.69 4.12
1574 1611 7.759886 TCAGTCTCGTTAATTATTGACTCCTTG 59.240 37.037 0.00 0.00 33.21 3.61
1590 1627 6.042781 AGAGGATATCTAGAGTCAGTCTCGTT 59.957 42.308 2.05 0.00 46.86 3.85
1651 1688 8.526978 GCTCTATCATCAACTCTATAACCATGA 58.473 37.037 0.00 0.00 0.00 3.07
1704 1742 1.345741 TCTCCCTTGCTCACACTCAAG 59.654 52.381 0.00 0.00 39.38 3.02
1755 1793 8.934825 GCAATGATAAGATAGAAATCCAGTCTC 58.065 37.037 0.00 0.00 31.98 3.36
1944 2087 4.704965 AGCTTTTGGTCTAGTTCGAAACT 58.295 39.130 0.00 2.34 45.40 2.66
1945 2088 5.419760 AAGCTTTTGGTCTAGTTCGAAAC 57.580 39.130 0.00 0.00 0.00 2.78
1946 2089 5.587043 TCAAAGCTTTTGGTCTAGTTCGAAA 59.413 36.000 9.53 0.00 0.00 3.46
1947 2090 5.120399 TCAAAGCTTTTGGTCTAGTTCGAA 58.880 37.500 9.53 0.00 0.00 3.71
1948 2091 4.699637 TCAAAGCTTTTGGTCTAGTTCGA 58.300 39.130 9.53 0.00 0.00 3.71
1949 2092 5.409826 AGATCAAAGCTTTTGGTCTAGTTCG 59.590 40.000 17.47 1.72 38.05 3.95
1950 2093 6.809630 AGATCAAAGCTTTTGGTCTAGTTC 57.190 37.500 17.47 7.60 38.05 3.01
2006 2157 3.971032 AGCGCAAAACATATAGAAGGC 57.029 42.857 11.47 0.00 0.00 4.35
2007 2158 5.505286 CAGAAGCGCAAAACATATAGAAGG 58.495 41.667 11.47 0.00 0.00 3.46
2168 2319 5.182001 GCCATTTCCACATAGTCATACCATC 59.818 44.000 0.00 0.00 0.00 3.51
2397 2560 3.054361 AGTGGTTCTCTGTTTCCAGTGTT 60.054 43.478 0.00 0.00 39.82 3.32
2423 2586 6.092259 GTGTTACAGTAACCCAAAGCATAGAG 59.908 42.308 18.94 0.00 37.88 2.43
2425 2588 5.123344 GGTGTTACAGTAACCCAAAGCATAG 59.877 44.000 18.94 0.00 37.88 2.23


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

AutoCloner maintained by Alex Coulton.