Multiple sequence alignment - TraesCS3B01G053600

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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 TraesCS3B01G053600 chr3B 100.000 2454 0 0 1 2454 27488854 27486401 0.000000e+00 4532.0
1 TraesCS3B01G053600 chr3B 90.266 1541 128 15 933 2454 813307336 813305799 0.000000e+00 1995.0
2 TraesCS3B01G053600 chr3B 90.897 1450 107 5 953 2378 788510556 788512004 0.000000e+00 1923.0
3 TraesCS3B01G053600 chr3B 90.305 918 84 5 927 1840 809059216 809058300 0.000000e+00 1197.0
4 TraesCS3B01G053600 chr3B 89.868 908 87 5 933 1837 788406244 788405339 0.000000e+00 1162.0
5 TraesCS3B01G053600 chr3B 91.908 828 62 5 927 1751 818052931 818052106 0.000000e+00 1153.0
6 TraesCS3B01G053600 chr3B 86.254 953 82 17 1540 2454 825545785 825544844 0.000000e+00 989.0
7 TraesCS3B01G053600 chr3B 85.041 849 93 25 1 819 216755738 216754894 0.000000e+00 833.0
8 TraesCS3B01G053600 chr3B 88.666 697 52 13 927 1605 824380102 824379415 0.000000e+00 824.0
9 TraesCS3B01G053600 chr3B 86.280 379 33 4 1821 2186 818052018 818051646 6.360000e-106 394.0
10 TraesCS3B01G053600 chr3B 87.310 197 23 2 1389 1583 813267011 813266815 8.830000e-55 224.0
11 TraesCS3B01G053600 chrUn 87.608 928 91 9 933 1837 364044859 364045785 0.000000e+00 1055.0
12 TraesCS3B01G053600 chrUn 91.297 563 34 9 933 1481 232147561 232147000 0.000000e+00 754.0
13 TraesCS3B01G053600 chrUn 91.697 554 31 9 933 1472 291111086 291111638 0.000000e+00 754.0
14 TraesCS3B01G053600 chrUn 89.648 454 47 0 1491 1944 380530275 380529822 1.640000e-161 579.0
15 TraesCS3B01G053600 chrUn 87.662 308 38 0 1491 1798 342673099 342672792 2.320000e-95 359.0
16 TraesCS3B01G053600 chrUn 87.662 308 38 0 1491 1798 473077757 473077450 2.320000e-95 359.0
17 TraesCS3B01G053600 chrUn 77.830 212 28 12 1906 2101 96321917 96321709 1.990000e-21 113.0
18 TraesCS3B01G053600 chr5B 87.605 831 77 18 9 819 654396350 654395526 0.000000e+00 941.0
19 TraesCS3B01G053600 chr5B 81.429 280 46 5 2160 2434 582387884 582387606 8.830000e-55 224.0
20 TraesCS3B01G053600 chr5B 76.415 212 33 12 1910 2108 497071307 497071100 5.580000e-17 99.0
21 TraesCS3B01G053600 chr4B 86.611 844 85 20 1 817 82559612 82560454 0.000000e+00 907.0
22 TraesCS3B01G053600 chr4B 86.293 839 91 18 1 819 54051903 54051069 0.000000e+00 891.0
23 TraesCS3B01G053600 chr4B 75.210 238 37 12 1880 2103 34060095 34060324 2.600000e-15 93.5
24 TraesCS3B01G053600 chr1B 86.353 850 90 16 1 829 34623096 34623940 0.000000e+00 904.0
25 TraesCS3B01G053600 chr1B 85.478 847 93 24 1 822 652237111 652237952 0.000000e+00 856.0
26 TraesCS3B01G053600 chr1B 96.330 109 4 0 819 927 533985414 533985522 1.940000e-41 180.0
27 TraesCS3B01G053600 chr2A 86.244 836 93 16 3 819 640397099 640396267 0.000000e+00 887.0
28 TraesCS3B01G053600 chr2A 82.812 256 38 5 2184 2434 510799954 510799700 8.830000e-55 224.0
29 TraesCS3B01G053600 chr2D 85.325 845 86 30 1 819 569789263 569788431 0.000000e+00 839.0
30 TraesCS3B01G053600 chr7B 84.953 844 91 28 1 819 215977948 215977116 0.000000e+00 822.0
31 TraesCS3B01G053600 chr7B 94.495 109 6 0 819 927 673727084 673727192 4.200000e-38 169.0
32 TraesCS3B01G053600 chr7B 94.495 109 5 1 819 927 496860768 496860661 1.510000e-37 167.0
33 TraesCS3B01G053600 chr3D 83.984 256 36 4 2184 2434 426405548 426405293 8.770000e-60 241.0
34 TraesCS3B01G053600 chr3D 82.239 259 41 2 2181 2434 59403806 59404064 4.110000e-53 219.0
35 TraesCS3B01G053600 chr6B 83.594 256 37 4 2184 2434 450203311 450203056 4.080000e-58 235.0
36 TraesCS3B01G053600 chr6B 93.458 107 7 0 821 927 664587396 664587502 2.530000e-35 159.0
37 TraesCS3B01G053600 chr3A 83.133 249 37 4 2184 2427 523304700 523304452 3.180000e-54 222.0
38 TraesCS3B01G053600 chr3A 81.887 265 41 5 2184 2441 136843053 136842789 1.480000e-52 217.0
39 TraesCS3B01G053600 chr3A 94.495 109 6 0 819 927 628667502 628667610 4.200000e-38 169.0
40 TraesCS3B01G053600 chr4D 94.495 109 6 0 819 927 24804761 24804869 4.200000e-38 169.0
41 TraesCS3B01G053600 chr4D 92.661 109 8 0 819 927 318932217 318932325 9.080000e-35 158.0
42 TraesCS3B01G053600 chr7D 92.661 109 8 0 819 927 582028480 582028372 9.080000e-35 158.0
43 TraesCS3B01G053600 chr6D 92.661 109 8 0 819 927 27386823 27386931 9.080000e-35 158.0
44 TraesCS3B01G053600 chr7A 75.478 314 55 14 1889 2187 85091125 85090819 1.530000e-27 134.0
45 TraesCS3B01G053600 chr5A 75.229 327 54 22 1876 2187 32163959 32164273 1.980000e-26 130.0
46 TraesCS3B01G053600 chr1A 75.000 296 49 19 1907 2187 479825636 479825921 1.990000e-21 113.0


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 TraesCS3B01G053600 chr3B 27486401 27488854 2453 True 4532.0 4532 100.000 1 2454 1 chr3B.!!$R1 2453
1 TraesCS3B01G053600 chr3B 813305799 813307336 1537 True 1995.0 1995 90.266 933 2454 1 chr3B.!!$R6 1521
2 TraesCS3B01G053600 chr3B 788510556 788512004 1448 False 1923.0 1923 90.897 953 2378 1 chr3B.!!$F1 1425
3 TraesCS3B01G053600 chr3B 809058300 809059216 916 True 1197.0 1197 90.305 927 1840 1 chr3B.!!$R4 913
4 TraesCS3B01G053600 chr3B 788405339 788406244 905 True 1162.0 1162 89.868 933 1837 1 chr3B.!!$R3 904
5 TraesCS3B01G053600 chr3B 825544844 825545785 941 True 989.0 989 86.254 1540 2454 1 chr3B.!!$R8 914
6 TraesCS3B01G053600 chr3B 216754894 216755738 844 True 833.0 833 85.041 1 819 1 chr3B.!!$R2 818
7 TraesCS3B01G053600 chr3B 824379415 824380102 687 True 824.0 824 88.666 927 1605 1 chr3B.!!$R7 678
8 TraesCS3B01G053600 chr3B 818051646 818052931 1285 True 773.5 1153 89.094 927 2186 2 chr3B.!!$R9 1259
9 TraesCS3B01G053600 chrUn 364044859 364045785 926 False 1055.0 1055 87.608 933 1837 1 chrUn.!!$F2 904
10 TraesCS3B01G053600 chrUn 232147000 232147561 561 True 754.0 754 91.297 933 1481 1 chrUn.!!$R2 548
11 TraesCS3B01G053600 chrUn 291111086 291111638 552 False 754.0 754 91.697 933 1472 1 chrUn.!!$F1 539
12 TraesCS3B01G053600 chr5B 654395526 654396350 824 True 941.0 941 87.605 9 819 1 chr5B.!!$R3 810
13 TraesCS3B01G053600 chr4B 82559612 82560454 842 False 907.0 907 86.611 1 817 1 chr4B.!!$F2 816
14 TraesCS3B01G053600 chr4B 54051069 54051903 834 True 891.0 891 86.293 1 819 1 chr4B.!!$R1 818
15 TraesCS3B01G053600 chr1B 34623096 34623940 844 False 904.0 904 86.353 1 829 1 chr1B.!!$F1 828
16 TraesCS3B01G053600 chr1B 652237111 652237952 841 False 856.0 856 85.478 1 822 1 chr1B.!!$F3 821
17 TraesCS3B01G053600 chr2A 640396267 640397099 832 True 887.0 887 86.244 3 819 1 chr2A.!!$R2 816
18 TraesCS3B01G053600 chr2D 569788431 569789263 832 True 839.0 839 85.325 1 819 1 chr2D.!!$R1 818
19 TraesCS3B01G053600 chr7B 215977116 215977948 832 True 822.0 822 84.953 1 819 1 chr7B.!!$R1 818

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
715 779 0.030235 AAACGCTTCCGCTTTTGGTC 59.97 50.0 0.0 0.0 36.41 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1776 1898 0.462759 GCTAGATTTGGGCAGACGCT 60.463 55.0 0.0 0.0 38.6 5.07 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
39 40 0.732880 CCGGATGATATCACGGACGC 60.733 60.000 23.63 4.52 42.14 5.19
64 65 5.123227 ACGAGAAGTCTTGAAATGGTTGAA 58.877 37.500 2.45 0.00 0.00 2.69
136 137 2.874086 CGGTGAAGTTCGGGTAAAAACT 59.126 45.455 0.00 0.00 37.32 2.66
217 218 2.277404 GAGAGAGAGGAGGGCGGT 59.723 66.667 0.00 0.00 0.00 5.68
305 350 2.114506 TCTCCCTTCTTTTCCCCTCTCT 59.885 50.000 0.00 0.00 0.00 3.10
419 473 1.785516 TATATACGGGGGTAGGGGGT 58.214 55.000 0.00 0.00 0.00 4.95
453 509 2.701951 ACAAGTTTCTCTCCCAACCGTA 59.298 45.455 0.00 0.00 0.00 4.02
457 513 1.271856 TTCTCTCCCAACCGTATGCA 58.728 50.000 0.00 0.00 0.00 3.96
468 525 2.735772 CGTATGCAGTGCCCCCTCT 61.736 63.158 13.72 0.00 0.00 3.69
590 654 2.027745 TCCTCAACTGGATCAAGAGCAC 60.028 50.000 3.42 0.00 0.00 4.40
592 656 1.618343 TCAACTGGATCAAGAGCACGA 59.382 47.619 3.42 0.00 0.00 4.35
615 679 0.039437 ACGTCATCGAGCTGAACGTT 60.039 50.000 0.00 0.00 40.62 3.99
620 684 0.792640 ATCGAGCTGAACGTTTGCTG 59.207 50.000 26.60 19.60 37.16 4.41
665 729 1.086696 ACTTGATTGGTTGGATCGCG 58.913 50.000 0.00 0.00 0.00 5.87
689 753 3.255149 AGAAGTTCGACTACATCAACCGT 59.745 43.478 0.00 0.00 0.00 4.83
694 758 3.825308 TCGACTACATCAACCGTGTTAC 58.175 45.455 0.00 0.00 0.00 2.50
695 759 3.503363 TCGACTACATCAACCGTGTTACT 59.497 43.478 0.00 0.00 0.00 2.24
696 760 4.694982 TCGACTACATCAACCGTGTTACTA 59.305 41.667 0.00 0.00 0.00 1.82
697 761 5.181056 TCGACTACATCAACCGTGTTACTAA 59.819 40.000 0.00 0.00 0.00 2.24
698 762 5.858049 CGACTACATCAACCGTGTTACTAAA 59.142 40.000 0.00 0.00 0.00 1.85
699 763 6.183359 CGACTACATCAACCGTGTTACTAAAC 60.183 42.308 0.00 0.00 36.07 2.01
700 764 4.977741 ACATCAACCGTGTTACTAAACG 57.022 40.909 0.00 0.00 38.53 3.60
701 765 3.184986 ACATCAACCGTGTTACTAAACGC 59.815 43.478 0.00 0.00 41.70 4.84
702 766 3.096489 TCAACCGTGTTACTAAACGCT 57.904 42.857 0.95 0.00 42.71 5.07
703 767 3.456280 TCAACCGTGTTACTAAACGCTT 58.544 40.909 0.95 0.00 42.71 4.68
704 768 3.490526 TCAACCGTGTTACTAAACGCTTC 59.509 43.478 0.95 0.00 42.71 3.86
705 769 2.407090 ACCGTGTTACTAAACGCTTCC 58.593 47.619 0.95 0.00 42.71 3.46
706 770 1.387756 CCGTGTTACTAAACGCTTCCG 59.612 52.381 0.95 0.00 42.71 4.30
707 771 1.201736 CGTGTTACTAAACGCTTCCGC 60.202 52.381 0.95 0.00 42.71 5.54
708 772 2.064014 GTGTTACTAAACGCTTCCGCT 58.936 47.619 0.00 0.00 41.84 5.52
709 773 2.477754 GTGTTACTAAACGCTTCCGCTT 59.522 45.455 0.00 0.00 41.84 4.68
710 774 3.059393 GTGTTACTAAACGCTTCCGCTTT 60.059 43.478 0.00 0.00 41.84 3.51
711 775 3.560896 TGTTACTAAACGCTTCCGCTTTT 59.439 39.130 0.00 0.00 40.25 2.27
712 776 2.681152 ACTAAACGCTTCCGCTTTTG 57.319 45.000 0.00 0.00 38.01 2.44
713 777 1.265905 ACTAAACGCTTCCGCTTTTGG 59.734 47.619 0.00 0.00 40.24 3.28
714 778 1.265905 CTAAACGCTTCCGCTTTTGGT 59.734 47.619 0.00 0.00 38.01 3.67
715 779 0.030235 AAACGCTTCCGCTTTTGGTC 59.970 50.000 0.00 0.00 36.41 4.02
716 780 0.818040 AACGCTTCCGCTTTTGGTCT 60.818 50.000 0.00 0.00 38.22 3.85
717 781 0.034337 ACGCTTCCGCTTTTGGTCTA 59.966 50.000 0.00 0.00 38.22 2.59
718 782 0.442699 CGCTTCCGCTTTTGGTCTAC 59.557 55.000 0.00 0.00 0.00 2.59
719 783 0.442699 GCTTCCGCTTTTGGTCTACG 59.557 55.000 0.00 0.00 0.00 3.51
720 784 1.076332 CTTCCGCTTTTGGTCTACGG 58.924 55.000 0.00 0.00 45.15 4.02
721 785 0.320946 TTCCGCTTTTGGTCTACGGG 60.321 55.000 0.00 0.00 43.96 5.28
722 786 1.743995 CCGCTTTTGGTCTACGGGG 60.744 63.158 0.00 0.00 40.18 5.73
723 787 1.743995 CGCTTTTGGTCTACGGGGG 60.744 63.158 0.00 0.00 0.00 5.40
724 788 1.377612 GCTTTTGGTCTACGGGGGT 59.622 57.895 0.00 0.00 0.00 4.95
725 789 0.614812 GCTTTTGGTCTACGGGGGTA 59.385 55.000 0.00 0.00 0.00 3.69
726 790 1.676916 GCTTTTGGTCTACGGGGGTAC 60.677 57.143 0.00 0.00 0.00 3.34
727 791 1.624813 CTTTTGGTCTACGGGGGTACA 59.375 52.381 0.00 0.00 0.00 2.90
728 792 1.955451 TTTGGTCTACGGGGGTACAT 58.045 50.000 0.00 0.00 0.00 2.29
729 793 1.196911 TTGGTCTACGGGGGTACATG 58.803 55.000 0.00 0.00 0.00 3.21
730 794 0.688418 TGGTCTACGGGGGTACATGG 60.688 60.000 0.00 0.00 0.00 3.66
731 795 0.397535 GGTCTACGGGGGTACATGGA 60.398 60.000 0.00 0.00 0.00 3.41
732 796 0.749049 GTCTACGGGGGTACATGGAC 59.251 60.000 0.00 0.00 0.00 4.02
733 797 0.335705 TCTACGGGGGTACATGGACA 59.664 55.000 10.99 0.00 0.00 4.02
734 798 0.462789 CTACGGGGGTACATGGACAC 59.537 60.000 10.99 5.95 0.00 3.67
735 799 0.252148 TACGGGGGTACATGGACACA 60.252 55.000 13.61 0.00 0.00 3.72
736 800 1.078708 CGGGGGTACATGGACACAC 60.079 63.158 13.61 7.82 0.00 3.82
737 801 1.550130 CGGGGGTACATGGACACACT 61.550 60.000 11.74 0.00 0.00 3.55
738 802 0.252197 GGGGGTACATGGACACACTC 59.748 60.000 13.61 0.00 0.00 3.51
739 803 1.276622 GGGGTACATGGACACACTCT 58.723 55.000 13.61 0.00 0.00 3.24
740 804 1.207329 GGGGTACATGGACACACTCTC 59.793 57.143 13.61 0.00 0.00 3.20
741 805 1.207329 GGGTACATGGACACACTCTCC 59.793 57.143 10.99 0.00 0.00 3.71
742 806 1.207329 GGTACATGGACACACTCTCCC 59.793 57.143 10.99 0.00 0.00 4.30
743 807 1.207329 GTACATGGACACACTCTCCCC 59.793 57.143 2.19 0.00 0.00 4.81
744 808 0.178891 ACATGGACACACTCTCCCCT 60.179 55.000 0.00 0.00 0.00 4.79
745 809 0.539051 CATGGACACACTCTCCCCTC 59.461 60.000 0.00 0.00 0.00 4.30
746 810 0.415429 ATGGACACACTCTCCCCTCT 59.585 55.000 0.00 0.00 0.00 3.69
747 811 0.542938 TGGACACACTCTCCCCTCTG 60.543 60.000 0.00 0.00 0.00 3.35
748 812 1.261238 GGACACACTCTCCCCTCTGG 61.261 65.000 0.00 0.00 0.00 3.86
749 813 0.543174 GACACACTCTCCCCTCTGGT 60.543 60.000 0.00 0.00 34.77 4.00
750 814 0.104934 ACACACTCTCCCCTCTGGTT 60.105 55.000 0.00 0.00 34.77 3.67
751 815 1.149288 ACACACTCTCCCCTCTGGTTA 59.851 52.381 0.00 0.00 34.77 2.85
752 816 1.550976 CACACTCTCCCCTCTGGTTAC 59.449 57.143 0.00 0.00 34.77 2.50
753 817 1.433592 ACACTCTCCCCTCTGGTTACT 59.566 52.381 0.00 0.00 34.77 2.24
754 818 2.653366 ACACTCTCCCCTCTGGTTACTA 59.347 50.000 0.00 0.00 34.77 1.82
755 819 3.272551 ACACTCTCCCCTCTGGTTACTAT 59.727 47.826 0.00 0.00 34.77 2.12
756 820 3.639094 CACTCTCCCCTCTGGTTACTATG 59.361 52.174 0.00 0.00 34.77 2.23
757 821 2.630580 CTCTCCCCTCTGGTTACTATGC 59.369 54.545 0.00 0.00 34.77 3.14
758 822 2.023404 TCTCCCCTCTGGTTACTATGCA 60.023 50.000 0.00 0.00 34.77 3.96
759 823 2.975489 CTCCCCTCTGGTTACTATGCAT 59.025 50.000 3.79 3.79 34.77 3.96
760 824 2.972713 TCCCCTCTGGTTACTATGCATC 59.027 50.000 0.19 0.00 34.77 3.91
761 825 2.705658 CCCCTCTGGTTACTATGCATCA 59.294 50.000 0.19 0.00 0.00 3.07
762 826 3.495100 CCCCTCTGGTTACTATGCATCAC 60.495 52.174 0.19 0.00 0.00 3.06
763 827 3.134623 CCCTCTGGTTACTATGCATCACA 59.865 47.826 0.19 0.00 0.00 3.58
764 828 4.202398 CCCTCTGGTTACTATGCATCACAT 60.202 45.833 0.19 0.00 43.18 3.21
765 829 5.012046 CCCTCTGGTTACTATGCATCACATA 59.988 44.000 0.19 0.00 40.38 2.29
779 843 7.059202 TGCATCACATAGATAGATCTTGTGT 57.941 36.000 19.14 14.38 41.38 3.72
780 844 6.927381 TGCATCACATAGATAGATCTTGTGTG 59.073 38.462 19.14 20.66 44.63 3.82
784 848 7.588512 TCACATAGATAGATCTTGTGTGATCG 58.411 38.462 23.05 9.42 45.59 3.69
785 849 7.229506 TCACATAGATAGATCTTGTGTGATCGT 59.770 37.037 23.05 1.04 45.59 3.73
786 850 8.507249 CACATAGATAGATCTTGTGTGATCGTA 58.493 37.037 21.43 1.73 45.28 3.43
787 851 9.237187 ACATAGATAGATCTTGTGTGATCGTAT 57.763 33.333 0.00 0.00 45.35 3.06
788 852 9.500864 CATAGATAGATCTTGTGTGATCGTATG 57.499 37.037 0.00 3.96 45.35 2.39
789 853 6.385843 AGATAGATCTTGTGTGATCGTATGC 58.614 40.000 0.00 0.00 45.35 3.14
790 854 4.391405 AGATCTTGTGTGATCGTATGCA 57.609 40.909 0.00 0.00 45.35 3.96
791 855 4.953667 AGATCTTGTGTGATCGTATGCAT 58.046 39.130 3.79 3.79 45.35 3.96
792 856 5.363101 AGATCTTGTGTGATCGTATGCATT 58.637 37.500 3.54 0.00 45.35 3.56
793 857 5.819379 AGATCTTGTGTGATCGTATGCATTT 59.181 36.000 3.54 0.00 45.35 2.32
794 858 5.878332 TCTTGTGTGATCGTATGCATTTT 57.122 34.783 3.54 0.00 0.00 1.82
795 859 6.252967 TCTTGTGTGATCGTATGCATTTTT 57.747 33.333 3.54 0.00 0.00 1.94
816 880 6.956202 TTTTTGAAATACTACGTTCCCCAA 57.044 33.333 0.00 0.00 0.00 4.12
817 881 5.945466 TTTGAAATACTACGTTCCCCAAC 57.055 39.130 0.00 0.00 0.00 3.77
818 882 4.620589 TGAAATACTACGTTCCCCAACA 57.379 40.909 0.00 0.00 32.14 3.33
819 883 4.317488 TGAAATACTACGTTCCCCAACAC 58.683 43.478 0.00 0.00 32.14 3.32
820 884 3.339253 AATACTACGTTCCCCAACACC 57.661 47.619 0.00 0.00 32.14 4.16
821 885 2.014010 TACTACGTTCCCCAACACCT 57.986 50.000 0.00 0.00 32.14 4.00
822 886 2.014010 ACTACGTTCCCCAACACCTA 57.986 50.000 0.00 0.00 32.14 3.08
823 887 2.328319 ACTACGTTCCCCAACACCTAA 58.672 47.619 0.00 0.00 32.14 2.69
824 888 2.908351 ACTACGTTCCCCAACACCTAAT 59.092 45.455 0.00 0.00 32.14 1.73
825 889 4.095946 ACTACGTTCCCCAACACCTAATA 58.904 43.478 0.00 0.00 32.14 0.98
826 890 4.718276 ACTACGTTCCCCAACACCTAATAT 59.282 41.667 0.00 0.00 32.14 1.28
827 891 3.881220 ACGTTCCCCAACACCTAATATG 58.119 45.455 0.00 0.00 32.14 1.78
828 892 3.264964 ACGTTCCCCAACACCTAATATGT 59.735 43.478 0.00 0.00 32.14 2.29
829 893 3.875134 CGTTCCCCAACACCTAATATGTC 59.125 47.826 0.00 0.00 32.14 3.06
830 894 3.830744 TCCCCAACACCTAATATGTCG 57.169 47.619 0.00 0.00 0.00 4.35
831 895 3.109151 TCCCCAACACCTAATATGTCGT 58.891 45.455 0.00 0.00 0.00 4.34
832 896 4.288398 TCCCCAACACCTAATATGTCGTA 58.712 43.478 0.00 0.00 0.00 3.43
833 897 4.715792 TCCCCAACACCTAATATGTCGTAA 59.284 41.667 0.00 0.00 0.00 3.18
834 898 5.367352 TCCCCAACACCTAATATGTCGTAAT 59.633 40.000 0.00 0.00 0.00 1.89
835 899 6.059484 CCCCAACACCTAATATGTCGTAATT 58.941 40.000 0.00 0.00 0.00 1.40
836 900 6.544564 CCCCAACACCTAATATGTCGTAATTT 59.455 38.462 0.00 0.00 0.00 1.82
837 901 7.716123 CCCCAACACCTAATATGTCGTAATTTA 59.284 37.037 0.00 0.00 0.00 1.40
838 902 9.111613 CCCAACACCTAATATGTCGTAATTTAA 57.888 33.333 0.00 0.00 0.00 1.52
850 914 8.619146 ATGTCGTAATTTAATGTTTGCATCTG 57.381 30.769 0.00 0.00 33.50 2.90
851 915 7.589395 TGTCGTAATTTAATGTTTGCATCTGT 58.411 30.769 0.00 0.00 33.50 3.41
852 916 7.748683 TGTCGTAATTTAATGTTTGCATCTGTC 59.251 33.333 0.00 0.00 33.50 3.51
853 917 7.218204 GTCGTAATTTAATGTTTGCATCTGTCC 59.782 37.037 0.00 0.00 33.50 4.02
854 918 6.194508 CGTAATTTAATGTTTGCATCTGTCCG 59.805 38.462 0.00 0.00 33.50 4.79
855 919 5.895636 ATTTAATGTTTGCATCTGTCCGA 57.104 34.783 0.00 0.00 33.50 4.55
856 920 5.697473 TTTAATGTTTGCATCTGTCCGAA 57.303 34.783 0.00 0.00 33.50 4.30
857 921 5.895636 TTAATGTTTGCATCTGTCCGAAT 57.104 34.783 0.00 0.00 33.50 3.34
858 922 6.993786 TTAATGTTTGCATCTGTCCGAATA 57.006 33.333 0.00 0.00 33.50 1.75
859 923 7.566760 TTAATGTTTGCATCTGTCCGAATAT 57.433 32.000 0.00 0.00 33.50 1.28
860 924 4.880886 TGTTTGCATCTGTCCGAATATG 57.119 40.909 0.00 0.00 0.00 1.78
861 925 4.260985 TGTTTGCATCTGTCCGAATATGT 58.739 39.130 0.00 0.00 0.00 2.29
862 926 4.699735 TGTTTGCATCTGTCCGAATATGTT 59.300 37.500 0.00 0.00 0.00 2.71
863 927 5.163764 TGTTTGCATCTGTCCGAATATGTTC 60.164 40.000 0.00 0.00 0.00 3.18
864 928 3.466836 TGCATCTGTCCGAATATGTTCC 58.533 45.455 0.00 0.00 0.00 3.62
865 929 3.118445 TGCATCTGTCCGAATATGTTCCA 60.118 43.478 0.00 0.00 0.00 3.53
866 930 4.067896 GCATCTGTCCGAATATGTTCCAT 58.932 43.478 0.00 0.00 0.00 3.41
867 931 4.083643 GCATCTGTCCGAATATGTTCCATG 60.084 45.833 0.00 0.00 0.00 3.66
868 932 4.071961 TCTGTCCGAATATGTTCCATGG 57.928 45.455 4.97 4.97 0.00 3.66
869 933 2.549754 CTGTCCGAATATGTTCCATGGC 59.450 50.000 6.96 0.00 0.00 4.40
870 934 2.092699 TGTCCGAATATGTTCCATGGCA 60.093 45.455 6.96 0.00 0.00 4.92
871 935 3.149196 GTCCGAATATGTTCCATGGCAT 58.851 45.455 6.96 8.51 0.00 4.40
872 936 3.569701 GTCCGAATATGTTCCATGGCATT 59.430 43.478 6.96 1.08 0.00 3.56
873 937 4.759693 GTCCGAATATGTTCCATGGCATTA 59.240 41.667 6.96 0.00 0.00 1.90
874 938 5.240623 GTCCGAATATGTTCCATGGCATTAA 59.759 40.000 6.96 0.00 0.00 1.40
875 939 6.009589 TCCGAATATGTTCCATGGCATTAAT 58.990 36.000 6.96 0.00 0.00 1.40
876 940 6.493115 TCCGAATATGTTCCATGGCATTAATT 59.507 34.615 6.96 3.68 0.00 1.40
877 941 7.667635 TCCGAATATGTTCCATGGCATTAATTA 59.332 33.333 6.96 0.00 0.00 1.40
878 942 8.469200 CCGAATATGTTCCATGGCATTAATTAT 58.531 33.333 6.96 0.00 0.00 1.28
884 948 8.954834 TGTTCCATGGCATTAATTATATCCTT 57.045 30.769 6.96 0.00 0.00 3.36
885 949 9.023962 TGTTCCATGGCATTAATTATATCCTTC 57.976 33.333 6.96 0.00 0.00 3.46
886 950 9.247861 GTTCCATGGCATTAATTATATCCTTCT 57.752 33.333 6.96 0.00 0.00 2.85
887 951 8.812513 TCCATGGCATTAATTATATCCTTCTG 57.187 34.615 6.96 0.00 0.00 3.02
888 952 8.393259 TCCATGGCATTAATTATATCCTTCTGT 58.607 33.333 6.96 0.00 0.00 3.41
889 953 8.464404 CCATGGCATTAATTATATCCTTCTGTG 58.536 37.037 0.00 0.00 0.00 3.66
890 954 9.017509 CATGGCATTAATTATATCCTTCTGTGT 57.982 33.333 0.00 0.00 0.00 3.72
892 956 9.725019 TGGCATTAATTATATCCTTCTGTGTAG 57.275 33.333 0.00 0.00 0.00 2.74
893 957 9.167311 GGCATTAATTATATCCTTCTGTGTAGG 57.833 37.037 0.00 0.00 0.00 3.18
894 958 9.944376 GCATTAATTATATCCTTCTGTGTAGGA 57.056 33.333 0.00 0.00 45.45 2.94
900 964 3.646736 TCCTTCTGTGTAGGATCTCGA 57.353 47.619 0.00 0.00 36.88 4.04
901 965 3.964411 TCCTTCTGTGTAGGATCTCGAA 58.036 45.455 0.00 0.00 36.88 3.71
902 966 3.948473 TCCTTCTGTGTAGGATCTCGAAG 59.052 47.826 0.00 0.00 36.88 3.79
903 967 3.490078 CCTTCTGTGTAGGATCTCGAAGC 60.490 52.174 0.00 0.00 34.56 3.86
904 968 2.723273 TCTGTGTAGGATCTCGAAGCA 58.277 47.619 0.00 0.00 0.00 3.91
905 969 2.685388 TCTGTGTAGGATCTCGAAGCAG 59.315 50.000 0.00 0.00 0.00 4.24
906 970 2.685388 CTGTGTAGGATCTCGAAGCAGA 59.315 50.000 0.00 0.00 0.00 4.26
907 971 3.089284 TGTGTAGGATCTCGAAGCAGAA 58.911 45.455 0.00 0.00 0.00 3.02
908 972 3.119459 TGTGTAGGATCTCGAAGCAGAAC 60.119 47.826 0.00 0.00 0.00 3.01
909 973 3.129638 GTGTAGGATCTCGAAGCAGAACT 59.870 47.826 0.00 0.00 0.00 3.01
910 974 4.335874 GTGTAGGATCTCGAAGCAGAACTA 59.664 45.833 0.00 0.00 0.00 2.24
911 975 5.009210 GTGTAGGATCTCGAAGCAGAACTAT 59.991 44.000 0.00 0.00 0.00 2.12
912 976 4.582701 AGGATCTCGAAGCAGAACTATG 57.417 45.455 0.00 0.00 0.00 2.23
913 977 4.211125 AGGATCTCGAAGCAGAACTATGA 58.789 43.478 0.00 0.00 0.00 2.15
914 978 4.832266 AGGATCTCGAAGCAGAACTATGAT 59.168 41.667 0.00 0.00 0.00 2.45
915 979 6.007076 AGGATCTCGAAGCAGAACTATGATA 58.993 40.000 0.00 0.00 0.00 2.15
916 980 6.150976 AGGATCTCGAAGCAGAACTATGATAG 59.849 42.308 0.00 0.00 0.00 2.08
917 981 5.114785 TCTCGAAGCAGAACTATGATAGC 57.885 43.478 0.00 0.00 0.00 2.97
918 982 4.824537 TCTCGAAGCAGAACTATGATAGCT 59.175 41.667 0.00 0.00 0.00 3.32
919 983 5.998363 TCTCGAAGCAGAACTATGATAGCTA 59.002 40.000 0.00 0.00 0.00 3.32
920 984 6.003234 TCGAAGCAGAACTATGATAGCTAC 57.997 41.667 0.00 0.00 0.00 3.58
921 985 5.531287 TCGAAGCAGAACTATGATAGCTACA 59.469 40.000 0.00 0.00 0.00 2.74
922 986 6.039382 TCGAAGCAGAACTATGATAGCTACAA 59.961 38.462 0.00 0.00 0.00 2.41
923 987 6.143118 CGAAGCAGAACTATGATAGCTACAAC 59.857 42.308 0.00 0.00 0.00 3.32
924 988 6.471233 AGCAGAACTATGATAGCTACAACA 57.529 37.500 0.00 0.00 0.00 3.33
925 989 7.060383 AGCAGAACTATGATAGCTACAACAT 57.940 36.000 0.00 5.43 0.00 2.71
951 1015 2.336809 CCTACATCTCCCGAGCGC 59.663 66.667 0.00 0.00 0.00 5.92
991 1056 9.827411 AGTTTGCTTCGAGAGATTAAATTTAAC 57.173 29.630 12.74 7.43 41.60 2.01
1153 1218 1.313812 CGAGGAGGTCGGCTACAACT 61.314 60.000 0.00 0.00 45.58 3.16
1162 1227 1.292223 GGCTACAACTGCTCCACGA 59.708 57.895 0.00 0.00 0.00 4.35
1255 1320 3.382832 CCGAGGTGACGGCCTTCT 61.383 66.667 11.01 0.00 46.20 2.85
1511 1607 3.347216 GGCATACAGAGTTTGACACCAT 58.653 45.455 0.00 0.00 0.00 3.55
1613 1735 6.941857 ACTTTGGTATTTTGCCGGATTTTAT 58.058 32.000 5.05 0.00 0.00 1.40
1623 1745 2.422597 CCGGATTTTATATCGCAGCCA 58.577 47.619 0.00 0.00 0.00 4.75
1631 1753 7.599998 GGATTTTATATCGCAGCCAATGAAAAT 59.400 33.333 0.00 0.00 0.00 1.82
1648 1770 0.242017 AATTGTCTGCTCGCTTTGCC 59.758 50.000 0.00 0.00 0.00 4.52
1659 1781 0.521735 CGCTTTGCCTGGTTCCTTAC 59.478 55.000 0.00 0.00 0.00 2.34
1665 1787 3.737559 TGCCTGGTTCCTTACATCATT 57.262 42.857 0.00 0.00 0.00 2.57
1669 1791 4.576463 GCCTGGTTCCTTACATCATTGTAG 59.424 45.833 0.00 0.00 39.43 2.74
1671 1793 4.523083 TGGTTCCTTACATCATTGTAGGC 58.477 43.478 0.00 0.00 39.43 3.93
1696 1818 3.262405 AGTCATTCATGCAAAAGGCCAAT 59.738 39.130 5.01 0.00 43.89 3.16
1699 1821 2.367030 TCATGCAAAAGGCCAATTCG 57.633 45.000 5.01 0.00 43.89 3.34
1708 1830 4.096558 GCCAATTCGAACGCGCCA 62.097 61.111 5.73 0.00 37.46 5.69
1736 1858 1.594331 GGACATAGATTTGGTCCGCC 58.406 55.000 0.00 0.00 41.43 6.13
1808 1930 1.987807 ATCTAGCCAGTGCGCCCAAT 61.988 55.000 4.18 0.00 44.33 3.16
2003 2170 9.331282 ACATTGATAGAAAAAGAGCTGGTATAC 57.669 33.333 0.00 0.00 0.00 1.47
2072 2252 4.096732 AGTTGCTTAATCACGCATTTCC 57.903 40.909 0.00 0.00 35.85 3.13
2110 2310 2.364002 ACTTTGCAAACGTTAATGGGCT 59.636 40.909 8.05 0.00 0.00 5.19
2114 2314 1.336795 GCAAACGTTAATGGGCTTGCT 60.337 47.619 17.43 0.00 36.95 3.91
2115 2315 2.595386 CAAACGTTAATGGGCTTGCTC 58.405 47.619 0.00 0.00 0.00 4.26
2116 2316 1.904287 AACGTTAATGGGCTTGCTCA 58.096 45.000 0.00 0.00 0.00 4.26
2117 2317 1.904287 ACGTTAATGGGCTTGCTCAA 58.096 45.000 0.00 0.00 0.00 3.02
2118 2318 1.539827 ACGTTAATGGGCTTGCTCAAC 59.460 47.619 0.00 0.00 0.00 3.18
2128 2333 2.555757 GGCTTGCTCAACTCAACTCAAT 59.444 45.455 0.00 0.00 0.00 2.57
2140 2345 9.513906 TCAACTCAACTCAATATTTTCACCATA 57.486 29.630 0.00 0.00 0.00 2.74
2157 2362 8.641499 TTCACCATAAAAATCAAACTGTTGAC 57.359 30.769 0.00 0.00 46.40 3.18
2207 2412 5.178797 TCTGCAAGTACTGAAAATAGAGGC 58.821 41.667 0.00 0.00 33.76 4.70
2215 2420 7.398024 AGTACTGAAAATAGAGGCAACAGATT 58.602 34.615 0.00 0.00 41.41 2.40
2224 2429 9.515226 AAATAGAGGCAACAGATTGTTTAGTAA 57.485 29.630 0.00 0.00 38.77 2.24
2227 2432 6.428159 AGAGGCAACAGATTGTTTAGTAACAG 59.572 38.462 0.00 0.00 38.77 3.16
2230 2435 6.371389 GCAACAGATTGTTTAGTAACAGGAC 58.629 40.000 0.00 0.00 44.56 3.85
2322 2533 8.857694 AATAAAGGACAAATCGGAAAGTTCTA 57.142 30.769 0.00 0.00 0.00 2.10
2360 2576 5.512942 TCTTGAAGACATGGGAATTACCA 57.487 39.130 13.08 13.08 46.24 3.25
2380 2596 5.121811 ACCATCTAGTCACTTTCATGATGC 58.878 41.667 0.00 0.00 31.44 3.91
2397 2613 8.298030 TCATGATGCTTAGTATATTCGTGTTG 57.702 34.615 0.00 0.00 0.00 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
64 65 8.730680 GCCGTCCAATATATCAATCTTTATGTT 58.269 33.333 0.00 0.00 0.00 2.71
97 98 1.279271 CCGGAACCTTTCTGATGTCCT 59.721 52.381 0.00 0.00 38.34 3.85
136 137 3.549433 TAACCCCTCCGGCACTCCA 62.549 63.158 0.00 0.00 33.26 3.86
245 260 2.492567 CCCCTTCCCTTGTCCAATTCAA 60.493 50.000 0.00 0.00 0.00 2.69
270 286 4.851214 GAGAGGGAGAGGGGCGCT 62.851 72.222 7.64 2.69 0.00 5.92
419 473 6.655930 AGAGAAACTTGTGTGTTTTAGGGTA 58.344 36.000 0.00 0.00 39.86 3.69
426 482 3.963129 TGGGAGAGAAACTTGTGTGTTT 58.037 40.909 0.00 0.00 42.11 2.83
453 509 1.616327 TGTAGAGGGGGCACTGCAT 60.616 57.895 2.82 0.00 0.00 3.96
457 513 1.203262 TGTAACTGTAGAGGGGGCACT 60.203 52.381 0.00 0.00 0.00 4.40
468 525 5.066893 GGTATGATCGAGGTGTGTAACTGTA 59.933 44.000 0.00 0.00 38.04 2.74
590 654 2.024871 GCTCGATGACGTCCCTCG 59.975 66.667 23.88 23.88 46.00 4.63
592 656 0.965866 TTCAGCTCGATGACGTCCCT 60.966 55.000 14.12 0.00 40.69 4.20
635 699 3.578688 ACCAATCAAGTACCGAACGTAC 58.421 45.455 0.00 0.00 46.69 3.67
653 717 0.320374 ACTTCTTCGCGATCCAACCA 59.680 50.000 10.88 0.00 0.00 3.67
665 729 4.323868 CGGTTGATGTAGTCGAACTTCTTC 59.676 45.833 0.00 0.00 0.00 2.87
701 765 1.076332 CCGTAGACCAAAAGCGGAAG 58.924 55.000 0.00 0.00 44.57 3.46
702 766 0.320946 CCCGTAGACCAAAAGCGGAA 60.321 55.000 2.66 0.00 44.57 4.30
703 767 1.294138 CCCGTAGACCAAAAGCGGA 59.706 57.895 2.66 0.00 44.57 5.54
704 768 1.743995 CCCCGTAGACCAAAAGCGG 60.744 63.158 0.00 0.00 41.82 5.52
705 769 1.743995 CCCCCGTAGACCAAAAGCG 60.744 63.158 0.00 0.00 0.00 4.68
706 770 0.614812 TACCCCCGTAGACCAAAAGC 59.385 55.000 0.00 0.00 0.00 3.51
707 771 1.624813 TGTACCCCCGTAGACCAAAAG 59.375 52.381 0.00 0.00 0.00 2.27
708 772 1.727062 TGTACCCCCGTAGACCAAAA 58.273 50.000 0.00 0.00 0.00 2.44
709 773 1.555992 CATGTACCCCCGTAGACCAAA 59.444 52.381 0.00 0.00 0.00 3.28
710 774 1.196911 CATGTACCCCCGTAGACCAA 58.803 55.000 0.00 0.00 0.00 3.67
711 775 0.688418 CCATGTACCCCCGTAGACCA 60.688 60.000 0.00 0.00 0.00 4.02
712 776 0.397535 TCCATGTACCCCCGTAGACC 60.398 60.000 0.00 0.00 0.00 3.85
713 777 0.749049 GTCCATGTACCCCCGTAGAC 59.251 60.000 0.00 0.00 0.00 2.59
714 778 0.335705 TGTCCATGTACCCCCGTAGA 59.664 55.000 0.00 0.00 0.00 2.59
715 779 0.462789 GTGTCCATGTACCCCCGTAG 59.537 60.000 0.00 0.00 0.00 3.51
716 780 0.252148 TGTGTCCATGTACCCCCGTA 60.252 55.000 0.00 0.00 0.00 4.02
717 781 1.536907 TGTGTCCATGTACCCCCGT 60.537 57.895 0.00 0.00 0.00 5.28
718 782 1.078708 GTGTGTCCATGTACCCCCG 60.079 63.158 0.00 0.00 0.00 5.73
719 783 0.252197 GAGTGTGTCCATGTACCCCC 59.748 60.000 0.00 0.00 0.00 5.40
720 784 1.207329 GAGAGTGTGTCCATGTACCCC 59.793 57.143 0.00 0.00 0.00 4.95
721 785 1.207329 GGAGAGTGTGTCCATGTACCC 59.793 57.143 0.00 0.00 33.84 3.69
722 786 1.207329 GGGAGAGTGTGTCCATGTACC 59.793 57.143 0.00 0.00 35.57 3.34
723 787 1.207329 GGGGAGAGTGTGTCCATGTAC 59.793 57.143 0.00 0.00 35.57 2.90
724 788 1.078823 AGGGGAGAGTGTGTCCATGTA 59.921 52.381 0.00 0.00 35.57 2.29
725 789 0.178891 AGGGGAGAGTGTGTCCATGT 60.179 55.000 0.00 0.00 35.57 3.21
726 790 0.539051 GAGGGGAGAGTGTGTCCATG 59.461 60.000 0.00 0.00 35.57 3.66
727 791 0.415429 AGAGGGGAGAGTGTGTCCAT 59.585 55.000 0.00 0.00 35.57 3.41
728 792 0.542938 CAGAGGGGAGAGTGTGTCCA 60.543 60.000 0.00 0.00 35.57 4.02
729 793 1.261238 CCAGAGGGGAGAGTGTGTCC 61.261 65.000 0.00 0.00 40.01 4.02
730 794 0.543174 ACCAGAGGGGAGAGTGTGTC 60.543 60.000 0.00 0.00 41.15 3.67
731 795 0.104934 AACCAGAGGGGAGAGTGTGT 60.105 55.000 0.00 0.00 41.15 3.72
732 796 1.550976 GTAACCAGAGGGGAGAGTGTG 59.449 57.143 0.00 0.00 41.15 3.82
733 797 1.433592 AGTAACCAGAGGGGAGAGTGT 59.566 52.381 0.00 0.00 41.15 3.55
734 798 2.239681 AGTAACCAGAGGGGAGAGTG 57.760 55.000 0.00 0.00 41.15 3.51
735 799 3.917300 CATAGTAACCAGAGGGGAGAGT 58.083 50.000 0.00 0.00 41.15 3.24
736 800 2.630580 GCATAGTAACCAGAGGGGAGAG 59.369 54.545 0.00 0.00 41.15 3.20
737 801 2.023404 TGCATAGTAACCAGAGGGGAGA 60.023 50.000 0.00 0.00 41.15 3.71
738 802 2.398588 TGCATAGTAACCAGAGGGGAG 58.601 52.381 0.00 0.00 41.15 4.30
739 803 2.561209 TGCATAGTAACCAGAGGGGA 57.439 50.000 0.00 0.00 41.15 4.81
740 804 2.705658 TGATGCATAGTAACCAGAGGGG 59.294 50.000 0.00 0.00 44.81 4.79
741 805 3.134623 TGTGATGCATAGTAACCAGAGGG 59.865 47.826 0.00 0.00 41.29 4.30
742 806 4.406648 TGTGATGCATAGTAACCAGAGG 57.593 45.455 0.00 0.00 0.00 3.69
753 817 8.810041 ACACAAGATCTATCTATGTGATGCATA 58.190 33.333 24.48 0.00 42.17 3.14
754 818 7.603024 CACACAAGATCTATCTATGTGATGCAT 59.397 37.037 24.48 0.00 46.56 3.96
755 819 6.927381 CACACAAGATCTATCTATGTGATGCA 59.073 38.462 24.48 0.00 46.56 3.96
756 820 7.150640 TCACACAAGATCTATCTATGTGATGC 58.849 38.462 24.48 0.00 46.80 3.91
760 824 7.366513 ACGATCACACAAGATCTATCTATGTG 58.633 38.462 18.62 18.62 45.83 3.21
761 825 7.517614 ACGATCACACAAGATCTATCTATGT 57.482 36.000 0.00 0.00 41.74 2.29
762 826 9.500864 CATACGATCACACAAGATCTATCTATG 57.499 37.037 0.00 0.00 41.74 2.23
763 827 8.187480 GCATACGATCACACAAGATCTATCTAT 58.813 37.037 0.00 0.00 41.74 1.98
764 828 7.174946 TGCATACGATCACACAAGATCTATCTA 59.825 37.037 0.00 0.00 41.74 1.98
765 829 6.015940 TGCATACGATCACACAAGATCTATCT 60.016 38.462 0.00 0.00 41.74 1.98
766 830 6.152379 TGCATACGATCACACAAGATCTATC 58.848 40.000 0.00 0.00 41.74 2.08
767 831 6.089249 TGCATACGATCACACAAGATCTAT 57.911 37.500 0.00 0.00 41.74 1.98
768 832 5.514274 TGCATACGATCACACAAGATCTA 57.486 39.130 0.00 0.00 41.74 1.98
769 833 4.391405 TGCATACGATCACACAAGATCT 57.609 40.909 0.00 0.00 41.74 2.75
770 834 5.663795 AATGCATACGATCACACAAGATC 57.336 39.130 0.00 0.00 40.76 2.75
771 835 6.441093 AAAATGCATACGATCACACAAGAT 57.559 33.333 0.00 0.00 0.00 2.40
772 836 5.878332 AAAATGCATACGATCACACAAGA 57.122 34.783 0.00 0.00 0.00 3.02
793 857 6.320672 TGTTGGGGAACGTAGTATTTCAAAAA 59.679 34.615 0.00 0.00 45.00 1.94
794 858 5.826737 TGTTGGGGAACGTAGTATTTCAAAA 59.173 36.000 0.00 0.00 45.00 2.44
795 859 5.239087 GTGTTGGGGAACGTAGTATTTCAAA 59.761 40.000 0.00 0.00 45.00 2.69
796 860 4.756135 GTGTTGGGGAACGTAGTATTTCAA 59.244 41.667 0.00 0.00 45.00 2.69
797 861 4.317488 GTGTTGGGGAACGTAGTATTTCA 58.683 43.478 0.00 0.00 45.00 2.69
798 862 3.686241 GGTGTTGGGGAACGTAGTATTTC 59.314 47.826 0.00 0.00 45.00 2.17
799 863 3.328637 AGGTGTTGGGGAACGTAGTATTT 59.671 43.478 0.00 0.00 45.00 1.40
800 864 2.908351 AGGTGTTGGGGAACGTAGTATT 59.092 45.455 0.00 0.00 45.00 1.89
801 865 2.543635 AGGTGTTGGGGAACGTAGTAT 58.456 47.619 0.00 0.00 45.00 2.12
802 866 2.014010 AGGTGTTGGGGAACGTAGTA 57.986 50.000 0.00 0.00 45.00 1.82
804 868 3.622166 ATTAGGTGTTGGGGAACGTAG 57.378 47.619 0.00 0.00 0.00 3.51
805 869 4.470664 ACATATTAGGTGTTGGGGAACGTA 59.529 41.667 0.00 0.00 0.00 3.57
806 870 3.264964 ACATATTAGGTGTTGGGGAACGT 59.735 43.478 0.00 0.00 0.00 3.99
807 871 3.875134 GACATATTAGGTGTTGGGGAACG 59.125 47.826 0.00 0.00 0.00 3.95
808 872 3.875134 CGACATATTAGGTGTTGGGGAAC 59.125 47.826 0.00 0.00 0.00 3.62
809 873 3.520317 ACGACATATTAGGTGTTGGGGAA 59.480 43.478 0.00 0.00 35.68 3.97
810 874 3.109151 ACGACATATTAGGTGTTGGGGA 58.891 45.455 0.00 0.00 35.68 4.81
811 875 3.553828 ACGACATATTAGGTGTTGGGG 57.446 47.619 0.00 0.00 35.68 4.96
812 876 7.562454 AAATTACGACATATTAGGTGTTGGG 57.438 36.000 0.00 0.00 35.68 4.12
824 888 9.715123 CAGATGCAAACATTAAATTACGACATA 57.285 29.630 0.00 0.00 36.35 2.29
825 889 8.243426 ACAGATGCAAACATTAAATTACGACAT 58.757 29.630 0.00 0.00 36.35 3.06
826 890 7.589395 ACAGATGCAAACATTAAATTACGACA 58.411 30.769 0.00 0.00 36.35 4.35
827 891 7.218204 GGACAGATGCAAACATTAAATTACGAC 59.782 37.037 0.00 0.00 36.35 4.34
828 892 7.247728 GGACAGATGCAAACATTAAATTACGA 58.752 34.615 0.00 0.00 36.35 3.43
829 893 6.194508 CGGACAGATGCAAACATTAAATTACG 59.805 38.462 0.00 0.00 36.35 3.18
830 894 7.247728 TCGGACAGATGCAAACATTAAATTAC 58.752 34.615 0.00 0.00 36.35 1.89
831 895 7.384439 TCGGACAGATGCAAACATTAAATTA 57.616 32.000 0.00 0.00 36.35 1.40
832 896 6.266168 TCGGACAGATGCAAACATTAAATT 57.734 33.333 0.00 0.00 36.35 1.82
833 897 5.895636 TCGGACAGATGCAAACATTAAAT 57.104 34.783 0.00 0.00 36.35 1.40
834 898 5.697473 TTCGGACAGATGCAAACATTAAA 57.303 34.783 0.00 0.00 36.35 1.52
835 899 5.895636 ATTCGGACAGATGCAAACATTAA 57.104 34.783 0.00 0.00 36.35 1.40
836 900 6.542005 ACATATTCGGACAGATGCAAACATTA 59.458 34.615 0.00 0.00 36.35 1.90
837 901 5.357878 ACATATTCGGACAGATGCAAACATT 59.642 36.000 0.00 0.00 36.35 2.71
838 902 4.883585 ACATATTCGGACAGATGCAAACAT 59.116 37.500 0.00 0.00 39.98 2.71
839 903 4.260985 ACATATTCGGACAGATGCAAACA 58.739 39.130 0.00 0.00 0.00 2.83
840 904 4.882671 ACATATTCGGACAGATGCAAAC 57.117 40.909 0.00 0.00 0.00 2.93
841 905 4.335315 GGAACATATTCGGACAGATGCAAA 59.665 41.667 0.00 0.00 35.48 3.68
842 906 3.876914 GGAACATATTCGGACAGATGCAA 59.123 43.478 0.00 0.00 35.48 4.08
843 907 3.118445 TGGAACATATTCGGACAGATGCA 60.118 43.478 0.00 0.00 35.48 3.96
844 908 3.466836 TGGAACATATTCGGACAGATGC 58.533 45.455 0.00 0.00 35.48 3.91
860 924 9.247861 AGAAGGATATAATTAATGCCATGGAAC 57.752 33.333 18.40 0.00 0.00 3.62
861 925 9.246670 CAGAAGGATATAATTAATGCCATGGAA 57.753 33.333 18.40 4.87 0.00 3.53
862 926 8.393259 ACAGAAGGATATAATTAATGCCATGGA 58.607 33.333 18.40 0.31 0.00 3.41
863 927 8.464404 CACAGAAGGATATAATTAATGCCATGG 58.536 37.037 7.63 7.63 0.00 3.66
864 928 9.017509 ACACAGAAGGATATAATTAATGCCATG 57.982 33.333 0.00 0.00 0.00 3.66
866 930 9.725019 CTACACAGAAGGATATAATTAATGCCA 57.275 33.333 0.00 0.00 0.00 4.92
867 931 9.167311 CCTACACAGAAGGATATAATTAATGCC 57.833 37.037 0.00 0.00 36.08 4.40
868 932 9.944376 TCCTACACAGAAGGATATAATTAATGC 57.056 33.333 0.00 0.00 38.24 3.56
880 944 3.646736 TCGAGATCCTACACAGAAGGA 57.353 47.619 0.00 0.00 46.96 3.36
881 945 3.490078 GCTTCGAGATCCTACACAGAAGG 60.490 52.174 4.77 0.00 35.50 3.46
882 946 3.129462 TGCTTCGAGATCCTACACAGAAG 59.871 47.826 0.00 0.00 37.32 2.85
883 947 3.089284 TGCTTCGAGATCCTACACAGAA 58.911 45.455 0.00 0.00 0.00 3.02
884 948 2.685388 CTGCTTCGAGATCCTACACAGA 59.315 50.000 0.00 0.00 0.00 3.41
885 949 2.685388 TCTGCTTCGAGATCCTACACAG 59.315 50.000 0.00 0.00 0.00 3.66
886 950 2.723273 TCTGCTTCGAGATCCTACACA 58.277 47.619 0.00 0.00 0.00 3.72
887 951 3.129638 AGTTCTGCTTCGAGATCCTACAC 59.870 47.826 0.00 0.00 0.00 2.90
888 952 3.357203 AGTTCTGCTTCGAGATCCTACA 58.643 45.455 0.00 0.00 0.00 2.74
889 953 5.239744 TCATAGTTCTGCTTCGAGATCCTAC 59.760 44.000 0.00 0.00 0.00 3.18
890 954 5.377478 TCATAGTTCTGCTTCGAGATCCTA 58.623 41.667 0.00 0.00 0.00 2.94
891 955 4.211125 TCATAGTTCTGCTTCGAGATCCT 58.789 43.478 0.00 0.00 0.00 3.24
892 956 4.576216 TCATAGTTCTGCTTCGAGATCC 57.424 45.455 0.00 0.00 0.00 3.36
893 957 5.799936 GCTATCATAGTTCTGCTTCGAGATC 59.200 44.000 0.00 0.00 0.00 2.75
894 958 5.476599 AGCTATCATAGTTCTGCTTCGAGAT 59.523 40.000 0.00 0.00 0.00 2.75
895 959 4.824537 AGCTATCATAGTTCTGCTTCGAGA 59.175 41.667 0.00 0.00 0.00 4.04
896 960 5.119931 AGCTATCATAGTTCTGCTTCGAG 57.880 43.478 0.00 0.00 0.00 4.04
897 961 5.531287 TGTAGCTATCATAGTTCTGCTTCGA 59.469 40.000 0.00 0.00 32.72 3.71
898 962 5.763088 TGTAGCTATCATAGTTCTGCTTCG 58.237 41.667 0.00 0.00 32.72 3.79
899 963 6.980978 TGTTGTAGCTATCATAGTTCTGCTTC 59.019 38.462 0.00 0.00 32.72 3.86
900 964 6.878317 TGTTGTAGCTATCATAGTTCTGCTT 58.122 36.000 0.00 0.00 32.72 3.91
901 965 6.471233 TGTTGTAGCTATCATAGTTCTGCT 57.529 37.500 0.00 0.00 34.92 4.24
902 966 7.721286 AATGTTGTAGCTATCATAGTTCTGC 57.279 36.000 0.00 0.00 0.00 4.26
904 968 9.482627 GCTTAATGTTGTAGCTATCATAGTTCT 57.517 33.333 0.00 0.00 32.26 3.01
905 969 8.713271 GGCTTAATGTTGTAGCTATCATAGTTC 58.287 37.037 0.00 0.00 35.30 3.01
906 970 7.661847 GGGCTTAATGTTGTAGCTATCATAGTT 59.338 37.037 0.00 0.00 35.30 2.24
907 971 7.162082 GGGCTTAATGTTGTAGCTATCATAGT 58.838 38.462 0.00 0.00 35.30 2.12
908 972 6.595716 GGGGCTTAATGTTGTAGCTATCATAG 59.404 42.308 0.00 0.42 35.30 2.23
909 973 6.472887 GGGGCTTAATGTTGTAGCTATCATA 58.527 40.000 0.00 0.00 35.30 2.15
910 974 5.316987 GGGGCTTAATGTTGTAGCTATCAT 58.683 41.667 0.00 0.05 35.30 2.45
911 975 4.445735 GGGGGCTTAATGTTGTAGCTATCA 60.446 45.833 0.00 0.00 35.30 2.15
912 976 4.072839 GGGGGCTTAATGTTGTAGCTATC 58.927 47.826 0.00 0.00 35.30 2.08
913 977 4.100279 GGGGGCTTAATGTTGTAGCTAT 57.900 45.455 0.00 0.00 35.30 2.97
914 978 3.570912 GGGGGCTTAATGTTGTAGCTA 57.429 47.619 0.00 0.00 35.30 3.32
915 979 2.437085 GGGGGCTTAATGTTGTAGCT 57.563 50.000 0.00 0.00 35.30 3.32
937 1001 2.755876 TCAGCGCTCGGGAGATGT 60.756 61.111 7.13 0.00 38.80 3.06
951 1015 1.534595 GCAAACTCTGGCTCAACTCAG 59.465 52.381 0.00 0.00 0.00 3.35
1004 1069 1.977009 ACCTCGATCACCTGCGACA 60.977 57.895 0.00 0.00 32.51 4.35
1173 1238 3.130160 GCCTTCTTCTGGCGCAGG 61.130 66.667 10.83 6.52 41.03 4.85
1255 1320 0.606096 TTCATCTTGCGGTCCTCGAA 59.394 50.000 0.00 0.00 42.43 3.71
1489 1572 1.732259 GGTGTCAAACTCTGTATGCCG 59.268 52.381 0.00 0.00 0.00 5.69
1613 1735 4.671377 GACAATTTTCATTGGCTGCGATA 58.329 39.130 0.00 0.00 44.30 2.92
1623 1745 4.510038 AAGCGAGCAGACAATTTTCATT 57.490 36.364 0.00 0.00 0.00 2.57
1631 1753 1.227943 AGGCAAAGCGAGCAGACAA 60.228 52.632 0.00 0.00 0.00 3.18
1648 1770 4.576463 GCCTACAATGATGTAAGGAACCAG 59.424 45.833 0.00 0.00 41.36 4.00
1659 1781 2.602257 TGACTCGGCCTACAATGATG 57.398 50.000 0.00 0.00 0.00 3.07
1665 1787 1.473257 GCATGAATGACTCGGCCTACA 60.473 52.381 0.00 0.00 0.00 2.74
1669 1791 0.810648 TTTGCATGAATGACTCGGCC 59.189 50.000 0.00 0.00 0.00 6.13
1671 1793 2.733227 GCCTTTTGCATGAATGACTCGG 60.733 50.000 0.00 0.00 40.77 4.63
1696 1818 1.430479 TTTAGATTGGCGCGTTCGAA 58.570 45.000 8.43 0.00 38.10 3.71
1699 1821 1.668751 TCCATTTAGATTGGCGCGTTC 59.331 47.619 8.43 0.58 34.06 3.95
1708 1830 8.697507 GGACCAAATCTATGTCCATTTAGATT 57.302 34.615 3.14 0.00 46.29 2.40
1776 1898 0.462759 GCTAGATTTGGGCAGACGCT 60.463 55.000 0.00 0.00 38.60 5.07
1779 1901 3.882131 TGGCTAGATTTGGGCAGAC 57.118 52.632 0.00 0.00 35.41 3.51
1808 1930 3.306472 AAGTCTAAACAGGTTGGCCAA 57.694 42.857 16.05 16.05 37.19 4.52
1976 2143 6.506500 ACCAGCTCTTTTTCTATCAATGTG 57.493 37.500 0.00 0.00 0.00 3.21
2003 2170 9.559732 TTGATACTCATATTGTCAACCAATAGG 57.440 33.333 0.00 0.00 46.43 2.57
2045 2225 3.186409 TGCGTGATTAAGCAACTCACTTC 59.814 43.478 0.00 0.00 38.35 3.01
2072 2252 4.621034 GCAAAGTTCACCCAATTTCATACG 59.379 41.667 0.00 0.00 0.00 3.06
2110 2310 7.862372 GTGAAAATATTGAGTTGAGTTGAGCAA 59.138 33.333 0.00 0.00 0.00 3.91
2114 2314 7.815840 TGGTGAAAATATTGAGTTGAGTTGA 57.184 32.000 0.00 0.00 0.00 3.18
2140 2345 6.202516 TCTTCGGTCAACAGTTTGATTTTT 57.797 33.333 0.00 0.00 43.72 1.94
2157 2362 3.347216 AGGGTGATGAAAACATCTTCGG 58.653 45.455 10.73 0.00 35.50 4.30
2176 2381 2.762887 TCAGTACTTGCAGAGGATGAGG 59.237 50.000 0.00 0.00 0.00 3.86
2207 2412 7.490962 TGTCCTGTTACTAAACAATCTGTTG 57.509 36.000 0.00 0.00 44.79 3.33
2215 2420 9.616156 TGTTAAGAATTGTCCTGTTACTAAACA 57.384 29.630 0.00 0.00 43.32 2.83
2224 2429 8.514330 TTGTTACTTGTTAAGAATTGTCCTGT 57.486 30.769 0.00 0.00 0.00 4.00
2230 2435 7.268447 GCGCTACTTGTTACTTGTTAAGAATTG 59.732 37.037 0.00 0.00 0.00 2.32
2322 2533 8.564574 TGTCTTCAAGAACGTTTTGCTTATTAT 58.435 29.630 0.46 0.00 0.00 1.28
2341 2555 5.715439 AGATGGTAATTCCCATGTCTTCA 57.285 39.130 7.37 0.00 45.31 3.02
2360 2576 7.790027 ACTAAGCATCATGAAAGTGACTAGAT 58.210 34.615 0.00 0.00 0.00 1.98
2380 2596 8.540492 CAAAGTAGCCAACACGAATATACTAAG 58.460 37.037 0.00 0.00 0.00 2.18
2397 2613 8.299570 CCCACATATCAAATTATCAAAGTAGCC 58.700 37.037 0.00 0.00 0.00 3.93


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

AutoCloner maintained by Alex Coulton.