Multiple sequence alignment - TraesCS1D01G212700

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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 TraesCS1D01G212700 chr1D 100.000 2427 0 0 1 2427 298352076 298349650 0.000000e+00 4482.0
1 TraesCS1D01G212700 chr3A 98.941 1416 13 2 1013 2427 66005567 66004153 0.000000e+00 2531.0
2 TraesCS1D01G212700 chr7D 98.870 1416 14 2 1013 2427 231554860 231553446 0.000000e+00 2525.0
3 TraesCS1D01G212700 chr7B 98.871 1417 13 2 1013 2427 662725969 662727384 0.000000e+00 2525.0
4 TraesCS1D01G212700 chr7B 98.659 1417 16 2 1013 2427 663099860 663098445 0.000000e+00 2508.0
5 TraesCS1D01G212700 chr6D 98.871 1417 13 2 1013 2427 389246257 389244842 0.000000e+00 2525.0
6 TraesCS1D01G212700 chr2D 98.871 1417 13 2 1013 2427 591984174 591985589 0.000000e+00 2525.0
7 TraesCS1D01G212700 chr2D 87.671 146 17 1 827 972 558735538 558735682 4.150000e-38 169.0
8 TraesCS1D01G212700 chr3D 98.799 1415 16 1 1013 2427 589263959 589262546 0.000000e+00 2518.0
9 TraesCS1D01G212700 chr3B 98.660 1418 15 2 1013 2427 201539086 201540502 0.000000e+00 2510.0
10 TraesCS1D01G212700 chr5D 98.589 1417 17 2 1013 2427 503244837 503246252 0.000000e+00 2503.0
11 TraesCS1D01G212700 chr1B 89.898 980 80 8 1 967 401342926 401341953 0.000000e+00 1243.0
12 TraesCS1D01G212700 chr1B 83.333 156 20 5 827 981 353214250 353214400 3.250000e-29 139.0
13 TraesCS1D01G212700 chr1A 81.904 851 124 19 1 825 372027240 372026394 0.000000e+00 691.0
14 TraesCS1D01G212700 chr7A 85.616 146 19 2 836 981 577765575 577765432 4.180000e-33 152.0
15 TraesCS1D01G212700 chr5A 83.621 116 17 2 866 979 611812022 611811907 9.180000e-20 108.0
16 TraesCS1D01G212700 chr5A 82.609 69 12 0 1 69 11126138 11126206 7.250000e-06 62.1
17 TraesCS1D01G212700 chr4B 91.549 71 6 0 847 917 495141307 495141237 5.520000e-17 99.0
18 TraesCS1D01G212700 chr4D 83.654 104 16 1 874 976 321949781 321949884 1.990000e-16 97.1
19 TraesCS1D01G212700 chr2B 80.000 135 24 1 851 985 18869755 18869624 1.990000e-16 97.1
20 TraesCS1D01G212700 chr5B 96.491 57 2 0 218 274 21734654 21734598 7.140000e-16 95.3


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 TraesCS1D01G212700 chr1D 298349650 298352076 2426 True 4482 4482 100.000 1 2427 1 chr1D.!!$R1 2426
1 TraesCS1D01G212700 chr3A 66004153 66005567 1414 True 2531 2531 98.941 1013 2427 1 chr3A.!!$R1 1414
2 TraesCS1D01G212700 chr7D 231553446 231554860 1414 True 2525 2525 98.870 1013 2427 1 chr7D.!!$R1 1414
3 TraesCS1D01G212700 chr7B 662725969 662727384 1415 False 2525 2525 98.871 1013 2427 1 chr7B.!!$F1 1414
4 TraesCS1D01G212700 chr7B 663098445 663099860 1415 True 2508 2508 98.659 1013 2427 1 chr7B.!!$R1 1414
5 TraesCS1D01G212700 chr6D 389244842 389246257 1415 True 2525 2525 98.871 1013 2427 1 chr6D.!!$R1 1414
6 TraesCS1D01G212700 chr2D 591984174 591985589 1415 False 2525 2525 98.871 1013 2427 1 chr2D.!!$F2 1414
7 TraesCS1D01G212700 chr3D 589262546 589263959 1413 True 2518 2518 98.799 1013 2427 1 chr3D.!!$R1 1414
8 TraesCS1D01G212700 chr3B 201539086 201540502 1416 False 2510 2510 98.660 1013 2427 1 chr3B.!!$F1 1414
9 TraesCS1D01G212700 chr5D 503244837 503246252 1415 False 2503 2503 98.589 1013 2427 1 chr5D.!!$F1 1414
10 TraesCS1D01G212700 chr1B 401341953 401342926 973 True 1243 1243 89.898 1 967 1 chr1B.!!$R1 966
11 TraesCS1D01G212700 chr1A 372026394 372027240 846 True 691 691 81.904 1 825 1 chr1A.!!$R1 824

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
952 967 0.03467 AAGCTCTCCACCATCTTGGC 60.035 55.0 0.0 0.0 42.67 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2063 2269 0.105709 GAGGGAAGCCTAGGAGAGCT 60.106 60.0 14.75 0.0 42.4 4.09 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
86 87 1.606531 GTCCTCCATGCTGAAGCCT 59.393 57.895 0.00 0.00 41.18 4.58
176 191 1.268283 CCCTCCTCTTTCTCCGGCTT 61.268 60.000 0.00 0.00 0.00 4.35
189 204 4.821589 GGCTTCGGCGAGTCCTGG 62.822 72.222 10.46 0.00 42.91 4.45
286 301 1.843992 CATAGCGTACGTGGTAACCC 58.156 55.000 17.90 0.00 0.00 4.11
287 302 0.746659 ATAGCGTACGTGGTAACCCC 59.253 55.000 17.90 0.00 0.00 4.95
289 304 1.187567 AGCGTACGTGGTAACCCCTT 61.188 55.000 17.90 0.00 0.00 3.95
290 305 1.015607 GCGTACGTGGTAACCCCTTG 61.016 60.000 17.90 0.00 0.00 3.61
292 307 0.674581 GTACGTGGTAACCCCTTGCC 60.675 60.000 0.00 0.00 32.83 4.52
293 308 2.169937 TACGTGGTAACCCCTTGCCG 62.170 60.000 0.00 0.00 34.92 5.69
294 309 2.360726 GTGGTAACCCCTTGCCGG 60.361 66.667 0.00 0.00 34.92 6.13
295 310 4.354162 TGGTAACCCCTTGCCGGC 62.354 66.667 22.73 22.73 34.92 6.13
296 311 4.043100 GGTAACCCCTTGCCGGCT 62.043 66.667 29.70 7.80 0.00 5.52
297 312 2.750237 GTAACCCCTTGCCGGCTG 60.750 66.667 29.70 19.84 0.00 4.85
299 314 3.262448 TAACCCCTTGCCGGCTGTC 62.262 63.158 29.70 0.00 0.00 3.51
318 333 2.578178 CGGACAGCGAGCGAAGAG 60.578 66.667 0.00 0.00 0.00 2.85
336 351 1.523938 GGGAGGTAAGTGGATGCGC 60.524 63.158 0.00 0.00 0.00 6.09
411 426 2.224670 TGCCGTCCATCTTAAACAACCT 60.225 45.455 0.00 0.00 0.00 3.50
418 433 6.438763 GTCCATCTTAAACAACCTGACTTTG 58.561 40.000 0.00 0.00 0.00 2.77
420 435 5.534654 CCATCTTAAACAACCTGACTTTGGA 59.465 40.000 0.00 0.00 0.00 3.53
428 443 3.207044 ACCTGACTTTGGACCTAGGAT 57.793 47.619 17.98 0.00 0.00 3.24
433 448 0.830648 CTTTGGACCTAGGATGGCGA 59.169 55.000 17.98 0.00 0.00 5.54
440 455 2.912542 TAGGATGGCGAGCCGGAG 60.913 66.667 5.05 0.00 39.42 4.63
519 534 0.037605 GGTCGATTTCGTGTGGGACT 60.038 55.000 0.00 0.00 40.80 3.85
525 540 0.963225 TTTCGTGTGGGACTCGATCA 59.037 50.000 2.14 0.00 42.51 2.92
576 591 2.290287 CCCGGATCGCCCATATCCA 61.290 63.158 0.73 0.00 42.69 3.41
596 611 2.696707 CACCCTGGATTTGGAATGGATG 59.303 50.000 0.00 0.00 0.00 3.51
597 612 1.690352 CCCTGGATTTGGAATGGATGC 59.310 52.381 0.00 0.00 0.00 3.91
599 614 2.300433 CTGGATTTGGAATGGATGCGA 58.700 47.619 0.00 0.00 0.00 5.10
602 617 3.152341 GGATTTGGAATGGATGCGAGAT 58.848 45.455 0.00 0.00 0.00 2.75
608 623 2.158449 GGAATGGATGCGAGATTTAGCG 59.842 50.000 0.00 0.00 35.87 4.26
613 628 2.201732 GATGCGAGATTTAGCGGTCAA 58.798 47.619 0.00 0.00 35.87 3.18
617 632 2.343101 CGAGATTTAGCGGTCAACCAA 58.657 47.619 0.00 0.00 35.14 3.67
621 636 1.231958 TTTAGCGGTCAACCAAGGCG 61.232 55.000 0.00 0.00 35.14 5.52
636 651 1.164041 AGGCGTTTGAGACCGGTTTG 61.164 55.000 9.42 0.00 0.00 2.93
682 697 1.889105 CCGATCAATGACTGGGCCG 60.889 63.158 0.00 0.00 0.00 6.13
744 759 6.085555 TGTAGATGCTCTAAGGAATAACCG 57.914 41.667 0.00 0.00 44.74 4.44
746 761 5.203060 AGATGCTCTAAGGAATAACCGTC 57.797 43.478 0.00 0.00 44.74 4.79
752 767 6.984474 TGCTCTAAGGAATAACCGTCTAATTG 59.016 38.462 0.00 0.00 44.74 2.32
792 807 9.758651 AAGAAACAACTTAACAAGTCAAAAAGT 57.241 25.926 0.00 0.00 41.91 2.66
793 808 9.758651 AGAAACAACTTAACAAGTCAAAAAGTT 57.241 25.926 0.00 0.00 41.91 2.66
827 842 8.754230 AACTTAATAGGTTTTAGTCGACTGTC 57.246 34.615 28.12 14.04 0.00 3.51
828 843 7.318893 ACTTAATAGGTTTTAGTCGACTGTCC 58.681 38.462 28.12 21.19 0.00 4.02
829 844 5.997384 AATAGGTTTTAGTCGACTGTCCT 57.003 39.130 28.12 25.84 0.00 3.85
830 845 3.938289 AGGTTTTAGTCGACTGTCCTC 57.062 47.619 28.12 13.94 0.00 3.71
831 846 3.498334 AGGTTTTAGTCGACTGTCCTCT 58.502 45.455 28.12 15.85 0.00 3.69
832 847 3.506844 AGGTTTTAGTCGACTGTCCTCTC 59.493 47.826 28.12 10.93 0.00 3.20
833 848 3.490399 GTTTTAGTCGACTGTCCTCTCG 58.510 50.000 28.12 0.00 0.00 4.04
834 849 1.735386 TTAGTCGACTGTCCTCTCGG 58.265 55.000 28.12 0.00 0.00 4.63
835 850 0.612229 TAGTCGACTGTCCTCTCGGT 59.388 55.000 28.12 0.00 0.00 4.69
836 851 0.674269 AGTCGACTGTCCTCTCGGTC 60.674 60.000 19.30 0.00 39.51 4.79
838 853 2.486042 GACTGTCCTCTCGGTCGC 59.514 66.667 0.00 0.00 34.66 5.19
839 854 3.053849 GACTGTCCTCTCGGTCGCC 62.054 68.421 0.00 0.00 34.66 5.54
849 864 2.813474 CGGTCGCCGCAATCAAGA 60.813 61.111 5.38 0.00 41.17 3.02
850 865 2.173669 CGGTCGCCGCAATCAAGAT 61.174 57.895 5.38 0.00 41.17 2.40
851 866 1.353103 GGTCGCCGCAATCAAGATG 59.647 57.895 0.00 0.00 0.00 2.90
852 867 1.369091 GGTCGCCGCAATCAAGATGT 61.369 55.000 0.00 0.00 0.00 3.06
853 868 0.447801 GTCGCCGCAATCAAGATGTT 59.552 50.000 0.00 0.00 0.00 2.71
854 869 1.663643 GTCGCCGCAATCAAGATGTTA 59.336 47.619 0.00 0.00 0.00 2.41
855 870 2.095213 GTCGCCGCAATCAAGATGTTAA 59.905 45.455 0.00 0.00 0.00 2.01
856 871 2.744741 TCGCCGCAATCAAGATGTTAAA 59.255 40.909 0.00 0.00 0.00 1.52
857 872 3.100817 CGCCGCAATCAAGATGTTAAAG 58.899 45.455 0.00 0.00 0.00 1.85
858 873 2.854185 GCCGCAATCAAGATGTTAAAGC 59.146 45.455 0.00 0.00 0.00 3.51
859 874 3.428045 GCCGCAATCAAGATGTTAAAGCT 60.428 43.478 0.00 0.00 0.00 3.74
860 875 4.346129 CCGCAATCAAGATGTTAAAGCTC 58.654 43.478 0.00 0.00 0.00 4.09
861 876 4.095483 CCGCAATCAAGATGTTAAAGCTCT 59.905 41.667 0.00 0.00 0.00 4.09
862 877 5.261661 CGCAATCAAGATGTTAAAGCTCTC 58.738 41.667 0.00 0.00 0.00 3.20
863 878 5.261661 GCAATCAAGATGTTAAAGCTCTCG 58.738 41.667 0.00 0.00 0.00 4.04
864 879 5.728898 GCAATCAAGATGTTAAAGCTCTCGG 60.729 44.000 0.00 0.00 0.00 4.63
865 880 3.262420 TCAAGATGTTAAAGCTCTCGGC 58.738 45.455 0.00 0.00 42.19 5.54
866 881 2.317530 AGATGTTAAAGCTCTCGGCC 57.682 50.000 0.00 0.00 43.05 6.13
867 882 1.834263 AGATGTTAAAGCTCTCGGCCT 59.166 47.619 0.00 0.00 43.05 5.19
868 883 2.237392 AGATGTTAAAGCTCTCGGCCTT 59.763 45.455 0.00 0.00 43.05 4.35
869 884 2.094762 TGTTAAAGCTCTCGGCCTTC 57.905 50.000 0.00 0.00 43.05 3.46
870 885 1.623811 TGTTAAAGCTCTCGGCCTTCT 59.376 47.619 0.00 0.00 43.05 2.85
871 886 2.038557 TGTTAAAGCTCTCGGCCTTCTT 59.961 45.455 0.00 0.00 43.05 2.52
872 887 3.075148 GTTAAAGCTCTCGGCCTTCTTT 58.925 45.455 0.00 5.58 43.05 2.52
873 888 2.278332 AAAGCTCTCGGCCTTCTTTT 57.722 45.000 0.00 0.00 43.05 2.27
874 889 1.814793 AAGCTCTCGGCCTTCTTTTC 58.185 50.000 0.00 0.00 43.05 2.29
875 890 0.035915 AGCTCTCGGCCTTCTTTTCC 60.036 55.000 0.00 0.00 43.05 3.13
876 891 0.035915 GCTCTCGGCCTTCTTTTCCT 60.036 55.000 0.00 0.00 34.27 3.36
877 892 2.009542 GCTCTCGGCCTTCTTTTCCTC 61.010 57.143 0.00 0.00 34.27 3.71
878 893 0.613777 TCTCGGCCTTCTTTTCCTCC 59.386 55.000 0.00 0.00 0.00 4.30
879 894 0.615850 CTCGGCCTTCTTTTCCTCCT 59.384 55.000 0.00 0.00 0.00 3.69
880 895 1.003696 CTCGGCCTTCTTTTCCTCCTT 59.996 52.381 0.00 0.00 0.00 3.36
881 896 1.003233 TCGGCCTTCTTTTCCTCCTTC 59.997 52.381 0.00 0.00 0.00 3.46
882 897 1.271379 CGGCCTTCTTTTCCTCCTTCA 60.271 52.381 0.00 0.00 0.00 3.02
883 898 2.619074 CGGCCTTCTTTTCCTCCTTCAT 60.619 50.000 0.00 0.00 0.00 2.57
884 899 2.757314 GGCCTTCTTTTCCTCCTTCATG 59.243 50.000 0.00 0.00 0.00 3.07
885 900 3.425659 GCCTTCTTTTCCTCCTTCATGT 58.574 45.455 0.00 0.00 0.00 3.21
886 901 3.441922 GCCTTCTTTTCCTCCTTCATGTC 59.558 47.826 0.00 0.00 0.00 3.06
887 902 3.686726 CCTTCTTTTCCTCCTTCATGTCG 59.313 47.826 0.00 0.00 0.00 4.35
888 903 3.334583 TCTTTTCCTCCTTCATGTCGG 57.665 47.619 0.00 0.00 0.00 4.79
889 904 2.903784 TCTTTTCCTCCTTCATGTCGGA 59.096 45.455 5.78 5.78 0.00 4.55
890 905 3.055819 TCTTTTCCTCCTTCATGTCGGAG 60.056 47.826 19.61 19.61 45.10 4.63
891 906 0.537188 TTCCTCCTTCATGTCGGAGC 59.463 55.000 20.58 0.00 44.35 4.70
892 907 1.227089 CCTCCTTCATGTCGGAGCG 60.227 63.158 20.58 13.37 44.35 5.03
893 908 1.880340 CTCCTTCATGTCGGAGCGC 60.880 63.158 16.32 0.00 40.27 5.92
894 909 2.185350 CCTTCATGTCGGAGCGCT 59.815 61.111 11.27 11.27 0.00 5.92
895 910 1.448540 CCTTCATGTCGGAGCGCTT 60.449 57.895 13.26 0.00 0.00 4.68
896 911 1.699656 CCTTCATGTCGGAGCGCTTG 61.700 60.000 13.26 7.98 0.00 4.01
897 912 0.737367 CTTCATGTCGGAGCGCTTGA 60.737 55.000 13.26 10.69 0.00 3.02
898 913 1.014044 TTCATGTCGGAGCGCTTGAC 61.014 55.000 27.31 27.31 0.00 3.18
899 914 1.737735 CATGTCGGAGCGCTTGACA 60.738 57.895 33.98 33.98 45.71 3.58
900 915 1.738099 ATGTCGGAGCGCTTGACAC 60.738 57.895 34.35 20.48 44.59 3.67
901 916 2.355837 GTCGGAGCGCTTGACACA 60.356 61.111 28.39 4.07 32.91 3.72
902 917 1.738099 GTCGGAGCGCTTGACACAT 60.738 57.895 28.39 0.04 32.91 3.21
903 918 1.737735 TCGGAGCGCTTGACACATG 60.738 57.895 13.26 0.00 0.00 3.21
904 919 2.482374 GGAGCGCTTGACACATGC 59.518 61.111 13.26 0.00 0.00 4.06
905 920 2.482374 GAGCGCTTGACACATGCC 59.518 61.111 13.26 0.00 32.03 4.40
906 921 2.033141 AGCGCTTGACACATGCCT 59.967 55.556 2.64 0.00 32.03 4.75
907 922 1.975363 GAGCGCTTGACACATGCCTC 61.975 60.000 13.26 0.00 32.03 4.70
908 923 2.327343 GCGCTTGACACATGCCTCA 61.327 57.895 0.00 0.00 32.03 3.86
909 924 1.651240 GCGCTTGACACATGCCTCAT 61.651 55.000 0.00 0.00 32.03 2.90
910 925 0.376152 CGCTTGACACATGCCTCATC 59.624 55.000 0.00 0.00 32.03 2.92
911 926 0.737219 GCTTGACACATGCCTCATCC 59.263 55.000 0.00 0.00 0.00 3.51
912 927 1.681166 GCTTGACACATGCCTCATCCT 60.681 52.381 0.00 0.00 0.00 3.24
913 928 2.719739 CTTGACACATGCCTCATCCTT 58.280 47.619 0.00 0.00 0.00 3.36
914 929 2.408271 TGACACATGCCTCATCCTTC 57.592 50.000 0.00 0.00 0.00 3.46
915 930 1.911357 TGACACATGCCTCATCCTTCT 59.089 47.619 0.00 0.00 0.00 2.85
916 931 2.306805 TGACACATGCCTCATCCTTCTT 59.693 45.455 0.00 0.00 0.00 2.52
917 932 2.941720 GACACATGCCTCATCCTTCTTC 59.058 50.000 0.00 0.00 0.00 2.87
918 933 1.938577 CACATGCCTCATCCTTCTTCG 59.061 52.381 0.00 0.00 0.00 3.79
919 934 0.942962 CATGCCTCATCCTTCTTCGC 59.057 55.000 0.00 0.00 0.00 4.70
920 935 0.179034 ATGCCTCATCCTTCTTCGCC 60.179 55.000 0.00 0.00 0.00 5.54
921 936 1.221840 GCCTCATCCTTCTTCGCCA 59.778 57.895 0.00 0.00 0.00 5.69
922 937 0.392998 GCCTCATCCTTCTTCGCCAA 60.393 55.000 0.00 0.00 0.00 4.52
923 938 1.661341 CCTCATCCTTCTTCGCCAAG 58.339 55.000 0.00 0.00 0.00 3.61
924 939 1.208052 CCTCATCCTTCTTCGCCAAGA 59.792 52.381 0.00 0.00 36.82 3.02
925 940 2.158842 CCTCATCCTTCTTCGCCAAGAT 60.159 50.000 0.00 0.00 38.50 2.40
926 941 2.871022 CTCATCCTTCTTCGCCAAGATG 59.129 50.000 0.00 0.00 38.50 2.90
927 942 2.237143 TCATCCTTCTTCGCCAAGATGT 59.763 45.455 0.00 0.00 38.50 3.06
928 943 2.386661 TCCTTCTTCGCCAAGATGTC 57.613 50.000 0.00 0.00 38.50 3.06
929 944 1.066143 TCCTTCTTCGCCAAGATGTCC 60.066 52.381 0.00 0.00 38.50 4.02
930 945 1.065854 CCTTCTTCGCCAAGATGTCCT 60.066 52.381 0.00 0.00 38.50 3.85
931 946 2.275318 CTTCTTCGCCAAGATGTCCTC 58.725 52.381 0.00 0.00 38.50 3.71
932 947 0.173481 TCTTCGCCAAGATGTCCTCG 59.827 55.000 0.00 0.00 33.38 4.63
933 948 0.173481 CTTCGCCAAGATGTCCTCGA 59.827 55.000 0.00 0.00 0.00 4.04
934 949 0.606096 TTCGCCAAGATGTCCTCGAA 59.394 50.000 0.00 0.00 34.22 3.71
935 950 0.173481 TCGCCAAGATGTCCTCGAAG 59.827 55.000 0.00 0.00 0.00 3.79
936 951 1.424493 CGCCAAGATGTCCTCGAAGC 61.424 60.000 0.00 0.00 0.00 3.86
937 952 0.107945 GCCAAGATGTCCTCGAAGCT 60.108 55.000 0.00 0.00 0.00 3.74
938 953 1.933247 CCAAGATGTCCTCGAAGCTC 58.067 55.000 0.00 0.00 0.00 4.09
939 954 1.480137 CCAAGATGTCCTCGAAGCTCT 59.520 52.381 0.00 0.00 0.00 4.09
940 955 2.481104 CCAAGATGTCCTCGAAGCTCTC 60.481 54.545 0.00 0.00 0.00 3.20
941 956 1.398692 AGATGTCCTCGAAGCTCTCC 58.601 55.000 0.00 0.00 0.00 3.71
942 957 1.107114 GATGTCCTCGAAGCTCTCCA 58.893 55.000 0.00 0.00 0.00 3.86
943 958 0.820871 ATGTCCTCGAAGCTCTCCAC 59.179 55.000 0.00 0.00 0.00 4.02
944 959 1.251527 TGTCCTCGAAGCTCTCCACC 61.252 60.000 0.00 0.00 0.00 4.61
945 960 1.076727 TCCTCGAAGCTCTCCACCA 59.923 57.895 0.00 0.00 0.00 4.17
946 961 0.324738 TCCTCGAAGCTCTCCACCAT 60.325 55.000 0.00 0.00 0.00 3.55
947 962 0.103937 CCTCGAAGCTCTCCACCATC 59.896 60.000 0.00 0.00 0.00 3.51
948 963 1.110442 CTCGAAGCTCTCCACCATCT 58.890 55.000 0.00 0.00 0.00 2.90
949 964 1.480137 CTCGAAGCTCTCCACCATCTT 59.520 52.381 0.00 0.00 0.00 2.40
950 965 1.205655 TCGAAGCTCTCCACCATCTTG 59.794 52.381 0.00 0.00 0.00 3.02
951 966 1.741732 CGAAGCTCTCCACCATCTTGG 60.742 57.143 0.00 0.00 45.02 3.61
952 967 0.034670 AAGCTCTCCACCATCTTGGC 60.035 55.000 0.00 0.00 42.67 4.52
953 968 1.452833 GCTCTCCACCATCTTGGCC 60.453 63.158 0.00 0.00 42.67 5.36
954 969 1.153289 CTCTCCACCATCTTGGCCG 60.153 63.158 0.00 0.00 42.67 6.13
955 970 1.903877 CTCTCCACCATCTTGGCCGT 61.904 60.000 0.00 0.00 42.67 5.68
956 971 1.450312 CTCCACCATCTTGGCCGTC 60.450 63.158 0.00 0.00 42.67 4.79
957 972 2.819595 CCACCATCTTGGCCGTCG 60.820 66.667 0.00 0.00 42.67 5.12
958 973 2.047274 CACCATCTTGGCCGTCGT 60.047 61.111 0.00 0.00 42.67 4.34
959 974 2.100631 CACCATCTTGGCCGTCGTC 61.101 63.158 0.00 0.00 42.67 4.20
960 975 2.511600 CCATCTTGGCCGTCGTCC 60.512 66.667 0.00 0.00 0.00 4.79
961 976 2.511600 CATCTTGGCCGTCGTCCC 60.512 66.667 0.00 0.00 0.00 4.46
962 977 2.683933 ATCTTGGCCGTCGTCCCT 60.684 61.111 0.00 0.00 0.00 4.20
963 978 2.291043 ATCTTGGCCGTCGTCCCTT 61.291 57.895 0.00 0.00 0.00 3.95
964 979 2.240162 ATCTTGGCCGTCGTCCCTTC 62.240 60.000 0.00 0.00 0.00 3.46
965 980 2.920912 TTGGCCGTCGTCCCTTCT 60.921 61.111 0.00 0.00 0.00 2.85
966 981 2.837371 CTTGGCCGTCGTCCCTTCTC 62.837 65.000 0.00 0.00 0.00 2.87
967 982 4.493747 GGCCGTCGTCCCTTCTCG 62.494 72.222 0.00 0.00 0.00 4.04
969 984 3.441290 CCGTCGTCCCTTCTCGCT 61.441 66.667 0.00 0.00 0.00 4.93
970 985 2.567049 CGTCGTCCCTTCTCGCTT 59.433 61.111 0.00 0.00 0.00 4.68
971 986 1.514443 CGTCGTCCCTTCTCGCTTC 60.514 63.158 0.00 0.00 0.00 3.86
972 987 1.153804 GTCGTCCCTTCTCGCTTCC 60.154 63.158 0.00 0.00 0.00 3.46
973 988 2.184579 CGTCCCTTCTCGCTTCCC 59.815 66.667 0.00 0.00 0.00 3.97
974 989 2.585153 GTCCCTTCTCGCTTCCCC 59.415 66.667 0.00 0.00 0.00 4.81
975 990 1.990614 GTCCCTTCTCGCTTCCCCT 60.991 63.158 0.00 0.00 0.00 4.79
976 991 1.229529 TCCCTTCTCGCTTCCCCTT 60.230 57.895 0.00 0.00 0.00 3.95
977 992 1.222113 CCCTTCTCGCTTCCCCTTC 59.778 63.158 0.00 0.00 0.00 3.46
978 993 1.222113 CCTTCTCGCTTCCCCTTCC 59.778 63.158 0.00 0.00 0.00 3.46
979 994 1.222113 CTTCTCGCTTCCCCTTCCC 59.778 63.158 0.00 0.00 0.00 3.97
980 995 2.258748 CTTCTCGCTTCCCCTTCCCC 62.259 65.000 0.00 0.00 0.00 4.81
981 996 4.162690 CTCGCTTCCCCTTCCCCG 62.163 72.222 0.00 0.00 0.00 5.73
983 998 4.468689 CGCTTCCCCTTCCCCGTC 62.469 72.222 0.00 0.00 0.00 4.79
984 999 4.468689 GCTTCCCCTTCCCCGTCG 62.469 72.222 0.00 0.00 0.00 5.12
985 1000 4.468689 CTTCCCCTTCCCCGTCGC 62.469 72.222 0.00 0.00 0.00 5.19
1003 1018 4.115199 GCGGGCCTCCCAAGATGT 62.115 66.667 0.84 0.00 45.83 3.06
1004 1019 2.190578 CGGGCCTCCCAAGATGTC 59.809 66.667 0.84 0.00 45.83 3.06
1005 1020 2.190578 GGGCCTCCCAAGATGTCG 59.809 66.667 0.84 0.00 44.65 4.35
1006 1021 2.190578 GGCCTCCCAAGATGTCGG 59.809 66.667 0.00 0.00 0.00 4.79
1007 1022 2.514824 GCCTCCCAAGATGTCGGC 60.515 66.667 0.00 0.00 0.00 5.54
1008 1023 2.989639 CCTCCCAAGATGTCGGCA 59.010 61.111 0.00 0.00 0.00 5.69
1009 1024 1.153289 CCTCCCAAGATGTCGGCAG 60.153 63.158 0.00 0.00 0.00 4.85
1010 1025 1.599047 CTCCCAAGATGTCGGCAGT 59.401 57.895 0.00 0.00 0.00 4.40
1011 1026 0.460987 CTCCCAAGATGTCGGCAGTC 60.461 60.000 0.00 0.00 0.00 3.51
1257 1275 1.201921 GCACCTAACAACGCATCTTCG 60.202 52.381 0.00 0.00 0.00 3.79
1626 1665 1.742411 GCGTTCGGGAAGGATGAATCA 60.742 52.381 5.38 0.00 0.00 2.57
1656 1695 7.417342 CCGAAAAGGAGTCTATTGATTCTCTCT 60.417 40.741 0.23 0.00 45.00 3.10
2063 2269 1.412710 GGATGATAGTTGGAGTCGGCA 59.587 52.381 0.00 0.00 0.00 5.69
2212 2426 1.078426 CCGACCCCATTGTCTCCAC 60.078 63.158 0.00 0.00 32.97 4.02
2368 2582 4.215613 GGGCAATCACTCGTTCTTAAAACT 59.784 41.667 0.00 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
56 57 2.507944 GAGGACGCCATGGCAGAT 59.492 61.111 34.93 20.49 42.06 2.90
189 204 3.781605 GATGGTAGCCAGCCTGCCC 62.782 68.421 0.00 0.00 44.95 5.36
214 229 1.381872 AGATCCAGGCTAGGCGTGT 60.382 57.895 11.10 0.00 41.98 4.49
272 287 1.015607 GCAAGGGGTTACCACGTACG 61.016 60.000 15.01 15.01 43.89 3.67
300 315 4.778415 TCTTCGCTCGCTGTCCGC 62.778 66.667 0.00 0.00 36.73 5.54
301 316 2.578178 CTCTTCGCTCGCTGTCCG 60.578 66.667 0.00 0.00 38.61 4.79
313 328 2.158885 GCATCCACTTACCTCCCTCTTC 60.159 54.545 0.00 0.00 0.00 2.87
318 333 1.523938 GCGCATCCACTTACCTCCC 60.524 63.158 0.30 0.00 0.00 4.30
348 363 3.672295 CTTCCTCCCTGTCTGCGCC 62.672 68.421 4.18 0.00 0.00 6.53
352 367 1.134461 CATCTGCTTCCTCCCTGTCTG 60.134 57.143 0.00 0.00 0.00 3.51
389 404 2.161609 GGTTGTTTAAGATGGACGGCAG 59.838 50.000 0.00 0.00 0.00 4.85
390 405 2.156098 GGTTGTTTAAGATGGACGGCA 58.844 47.619 0.00 0.00 0.00 5.69
392 407 3.435671 GTCAGGTTGTTTAAGATGGACGG 59.564 47.826 0.00 0.00 0.00 4.79
400 415 4.887655 AGGTCCAAAGTCAGGTTGTTTAAG 59.112 41.667 0.00 0.00 0.00 1.85
411 426 1.559682 GCCATCCTAGGTCCAAAGTCA 59.440 52.381 9.08 0.00 0.00 3.41
418 433 2.737830 GCTCGCCATCCTAGGTCC 59.262 66.667 9.08 0.00 0.00 4.46
420 435 3.227276 CGGCTCGCCATCCTAGGT 61.227 66.667 9.08 0.00 35.37 3.08
466 481 1.753078 CGATGGGTGTCTCCTCCGA 60.753 63.158 0.00 0.00 36.25 4.55
503 518 0.109458 TCGAGTCCCACACGAAATCG 60.109 55.000 0.48 0.48 38.19 3.34
519 534 0.377203 CACGTCGGACTGATGATCGA 59.623 55.000 10.57 0.00 37.05 3.59
525 540 1.945354 ATTCGCCACGTCGGACTGAT 61.945 55.000 6.57 0.00 36.56 2.90
555 570 2.257409 GATATGGGCGATCCGGGCAT 62.257 60.000 0.00 0.00 38.76 4.40
576 591 2.956385 GCATCCATTCCAAATCCAGGGT 60.956 50.000 0.00 0.00 0.00 4.34
596 611 0.651031 GGTTGACCGCTAAATCTCGC 59.349 55.000 0.00 0.00 0.00 5.03
597 612 2.004583 TGGTTGACCGCTAAATCTCG 57.995 50.000 0.00 0.00 39.43 4.04
599 614 2.711542 CCTTGGTTGACCGCTAAATCT 58.288 47.619 0.00 0.00 39.43 2.40
602 617 1.231958 CGCCTTGGTTGACCGCTAAA 61.232 55.000 0.00 0.00 39.43 1.85
608 623 0.310854 CTCAAACGCCTTGGTTGACC 59.689 55.000 0.00 0.00 35.56 4.02
613 628 1.597027 CGGTCTCAAACGCCTTGGT 60.597 57.895 0.00 0.00 35.56 3.67
617 632 1.147600 AAACCGGTCTCAAACGCCT 59.852 52.632 8.04 0.00 0.00 5.52
621 636 0.591659 GCCTCAAACCGGTCTCAAAC 59.408 55.000 8.04 0.00 0.00 2.93
636 651 2.107953 GACTGATCTGGGCGCCTC 59.892 66.667 28.56 16.79 0.00 4.70
661 676 1.224315 CCCAGTCATTGATCGGGCA 59.776 57.895 9.67 0.00 0.00 5.36
801 816 9.846248 GACAGTCGACTAAAACCTATTAAGTTA 57.154 33.333 19.57 0.00 0.00 2.24
802 817 7.816513 GGACAGTCGACTAAAACCTATTAAGTT 59.183 37.037 19.57 0.00 0.00 2.66
803 818 7.178097 AGGACAGTCGACTAAAACCTATTAAGT 59.822 37.037 19.57 6.91 0.00 2.24
804 819 7.545489 AGGACAGTCGACTAAAACCTATTAAG 58.455 38.462 19.57 3.36 0.00 1.85
805 820 7.395489 AGAGGACAGTCGACTAAAACCTATTAA 59.605 37.037 19.57 0.00 0.00 1.40
806 821 6.888632 AGAGGACAGTCGACTAAAACCTATTA 59.111 38.462 19.57 0.00 0.00 0.98
807 822 5.715753 AGAGGACAGTCGACTAAAACCTATT 59.284 40.000 19.57 12.22 0.00 1.73
808 823 5.262804 AGAGGACAGTCGACTAAAACCTAT 58.737 41.667 19.57 17.05 0.00 2.57
809 824 4.660168 AGAGGACAGTCGACTAAAACCTA 58.340 43.478 19.57 0.00 0.00 3.08
810 825 3.498334 AGAGGACAGTCGACTAAAACCT 58.502 45.455 19.57 21.57 0.00 3.50
811 826 3.670091 CGAGAGGACAGTCGACTAAAACC 60.670 52.174 19.57 17.55 38.50 3.27
812 827 3.490399 CGAGAGGACAGTCGACTAAAAC 58.510 50.000 19.57 9.06 38.50 2.43
813 828 3.826236 CGAGAGGACAGTCGACTAAAA 57.174 47.619 19.57 0.00 38.50 1.52
833 848 1.353103 CATCTTGATTGCGGCGACC 59.647 57.895 12.98 0.00 0.00 4.79
834 849 0.447801 AACATCTTGATTGCGGCGAC 59.552 50.000 12.98 2.02 0.00 5.19
835 850 2.017138 TAACATCTTGATTGCGGCGA 57.983 45.000 12.98 0.00 0.00 5.54
836 851 2.823196 TTAACATCTTGATTGCGGCG 57.177 45.000 0.51 0.51 0.00 6.46
837 852 2.854185 GCTTTAACATCTTGATTGCGGC 59.146 45.455 0.00 0.00 0.00 6.53
838 853 4.095483 AGAGCTTTAACATCTTGATTGCGG 59.905 41.667 0.00 0.00 0.00 5.69
839 854 5.227238 AGAGCTTTAACATCTTGATTGCG 57.773 39.130 0.00 0.00 0.00 4.85
840 855 5.261661 CGAGAGCTTTAACATCTTGATTGC 58.738 41.667 0.00 0.00 0.00 3.56
841 856 5.728898 GCCGAGAGCTTTAACATCTTGATTG 60.729 44.000 0.00 0.00 38.99 2.67
842 857 4.333926 GCCGAGAGCTTTAACATCTTGATT 59.666 41.667 0.00 0.00 38.99 2.57
843 858 3.873952 GCCGAGAGCTTTAACATCTTGAT 59.126 43.478 0.00 0.00 38.99 2.57
844 859 3.262420 GCCGAGAGCTTTAACATCTTGA 58.738 45.455 0.00 0.00 38.99 3.02
845 860 2.352960 GGCCGAGAGCTTTAACATCTTG 59.647 50.000 0.00 0.00 43.05 3.02
846 861 2.237392 AGGCCGAGAGCTTTAACATCTT 59.763 45.455 0.00 0.00 43.05 2.40
847 862 1.834263 AGGCCGAGAGCTTTAACATCT 59.166 47.619 0.00 0.00 43.05 2.90
848 863 2.317530 AGGCCGAGAGCTTTAACATC 57.682 50.000 0.00 0.00 43.05 3.06
849 864 2.237392 AGAAGGCCGAGAGCTTTAACAT 59.763 45.455 0.00 0.00 41.60 2.71
850 865 1.623811 AGAAGGCCGAGAGCTTTAACA 59.376 47.619 0.00 0.00 41.60 2.41
851 866 2.388310 AGAAGGCCGAGAGCTTTAAC 57.612 50.000 0.00 0.00 41.60 2.01
852 867 3.418684 AAAGAAGGCCGAGAGCTTTAA 57.581 42.857 0.00 0.00 41.60 1.52
853 868 3.335579 GAAAAGAAGGCCGAGAGCTTTA 58.664 45.455 0.00 0.00 41.60 1.85
854 869 2.155279 GAAAAGAAGGCCGAGAGCTTT 58.845 47.619 0.00 1.26 44.76 3.51
855 870 1.611936 GGAAAAGAAGGCCGAGAGCTT 60.612 52.381 0.00 0.00 43.05 3.74
856 871 0.035915 GGAAAAGAAGGCCGAGAGCT 60.036 55.000 0.00 0.00 43.05 4.09
857 872 0.035915 AGGAAAAGAAGGCCGAGAGC 60.036 55.000 0.00 0.00 42.60 4.09
858 873 1.406205 GGAGGAAAAGAAGGCCGAGAG 60.406 57.143 0.00 0.00 0.00 3.20
859 874 0.613777 GGAGGAAAAGAAGGCCGAGA 59.386 55.000 0.00 0.00 0.00 4.04
860 875 0.615850 AGGAGGAAAAGAAGGCCGAG 59.384 55.000 0.00 0.00 0.00 4.63
861 876 1.003233 GAAGGAGGAAAAGAAGGCCGA 59.997 52.381 0.00 0.00 0.00 5.54
862 877 1.271379 TGAAGGAGGAAAAGAAGGCCG 60.271 52.381 0.00 0.00 0.00 6.13
863 878 2.586648 TGAAGGAGGAAAAGAAGGCC 57.413 50.000 0.00 0.00 0.00 5.19
864 879 3.425659 ACATGAAGGAGGAAAAGAAGGC 58.574 45.455 0.00 0.00 0.00 4.35
865 880 3.686726 CGACATGAAGGAGGAAAAGAAGG 59.313 47.826 0.00 0.00 0.00 3.46
866 881 3.686726 CCGACATGAAGGAGGAAAAGAAG 59.313 47.826 0.00 0.00 0.00 2.85
867 882 3.326588 TCCGACATGAAGGAGGAAAAGAA 59.673 43.478 0.00 0.00 31.95 2.52
868 883 2.903784 TCCGACATGAAGGAGGAAAAGA 59.096 45.455 0.00 0.00 31.95 2.52
869 884 3.334583 TCCGACATGAAGGAGGAAAAG 57.665 47.619 0.00 0.00 31.95 2.27
876 891 1.888436 AAGCGCTCCGACATGAAGGA 61.888 55.000 12.06 6.73 34.93 3.36
877 892 1.448540 AAGCGCTCCGACATGAAGG 60.449 57.895 12.06 1.82 0.00 3.46
878 893 0.737367 TCAAGCGCTCCGACATGAAG 60.737 55.000 12.06 0.00 0.00 3.02
879 894 1.014044 GTCAAGCGCTCCGACATGAA 61.014 55.000 26.49 4.41 0.00 2.57
880 895 1.446099 GTCAAGCGCTCCGACATGA 60.446 57.895 26.49 16.84 0.00 3.07
881 896 1.737735 TGTCAAGCGCTCCGACATG 60.738 57.895 28.92 16.41 34.83 3.21
882 897 1.738099 GTGTCAAGCGCTCCGACAT 60.738 57.895 32.63 8.44 41.39 3.06
883 898 2.355837 GTGTCAAGCGCTCCGACA 60.356 61.111 28.92 28.92 37.33 4.35
884 899 1.738099 ATGTGTCAAGCGCTCCGAC 60.738 57.895 25.34 25.34 0.00 4.79
885 900 1.737735 CATGTGTCAAGCGCTCCGA 60.738 57.895 12.06 8.09 0.00 4.55
886 901 2.780643 CATGTGTCAAGCGCTCCG 59.219 61.111 12.06 5.20 0.00 4.63
887 902 2.482374 GCATGTGTCAAGCGCTCC 59.518 61.111 12.06 1.97 0.00 4.70
888 903 1.975363 GAGGCATGTGTCAAGCGCTC 61.975 60.000 12.06 0.00 0.00 5.03
889 904 2.033141 AGGCATGTGTCAAGCGCT 59.967 55.556 2.64 2.64 0.00 5.92
890 905 1.651240 ATGAGGCATGTGTCAAGCGC 61.651 55.000 0.00 0.00 0.00 5.92
891 906 0.376152 GATGAGGCATGTGTCAAGCG 59.624 55.000 3.61 0.00 0.00 4.68
892 907 0.737219 GGATGAGGCATGTGTCAAGC 59.263 55.000 3.61 0.00 0.00 4.01
893 908 2.414994 AGGATGAGGCATGTGTCAAG 57.585 50.000 3.61 0.00 0.00 3.02
894 909 2.306805 AGAAGGATGAGGCATGTGTCAA 59.693 45.455 3.61 0.00 0.00 3.18
895 910 1.911357 AGAAGGATGAGGCATGTGTCA 59.089 47.619 0.00 0.00 0.00 3.58
896 911 2.706339 AGAAGGATGAGGCATGTGTC 57.294 50.000 0.00 0.00 0.00 3.67
897 912 2.679059 CGAAGAAGGATGAGGCATGTGT 60.679 50.000 0.00 0.00 0.00 3.72
898 913 1.938577 CGAAGAAGGATGAGGCATGTG 59.061 52.381 0.00 0.00 0.00 3.21
899 914 1.745141 GCGAAGAAGGATGAGGCATGT 60.745 52.381 0.00 0.00 0.00 3.21
900 915 0.942962 GCGAAGAAGGATGAGGCATG 59.057 55.000 0.00 0.00 0.00 4.06
901 916 0.179034 GGCGAAGAAGGATGAGGCAT 60.179 55.000 0.00 0.00 0.00 4.40
902 917 1.221840 GGCGAAGAAGGATGAGGCA 59.778 57.895 0.00 0.00 0.00 4.75
903 918 0.392998 TTGGCGAAGAAGGATGAGGC 60.393 55.000 0.00 0.00 0.00 4.70
904 919 1.208052 TCTTGGCGAAGAAGGATGAGG 59.792 52.381 8.90 0.00 35.14 3.86
905 920 2.680312 TCTTGGCGAAGAAGGATGAG 57.320 50.000 8.90 0.00 35.14 2.90
906 921 2.237143 ACATCTTGGCGAAGAAGGATGA 59.763 45.455 15.48 0.00 41.64 2.92
907 922 2.611292 GACATCTTGGCGAAGAAGGATG 59.389 50.000 15.48 11.17 41.64 3.51
908 923 2.420687 GGACATCTTGGCGAAGAAGGAT 60.421 50.000 15.48 1.39 41.64 3.24
909 924 1.066143 GGACATCTTGGCGAAGAAGGA 60.066 52.381 15.48 0.00 41.64 3.36
910 925 1.065854 AGGACATCTTGGCGAAGAAGG 60.066 52.381 15.48 12.62 41.64 3.46
911 926 2.275318 GAGGACATCTTGGCGAAGAAG 58.725 52.381 15.48 13.35 41.64 2.85
912 927 1.404181 CGAGGACATCTTGGCGAAGAA 60.404 52.381 15.48 0.00 41.64 2.52
913 928 0.173481 CGAGGACATCTTGGCGAAGA 59.827 55.000 13.88 13.88 42.53 2.87
914 929 0.173481 TCGAGGACATCTTGGCGAAG 59.827 55.000 1.39 1.39 0.00 3.79
915 930 0.606096 TTCGAGGACATCTTGGCGAA 59.394 50.000 0.00 0.00 35.69 4.70
916 931 0.173481 CTTCGAGGACATCTTGGCGA 59.827 55.000 0.00 0.00 0.00 5.54
917 932 1.424493 GCTTCGAGGACATCTTGGCG 61.424 60.000 0.00 0.00 0.00 5.69
918 933 0.107945 AGCTTCGAGGACATCTTGGC 60.108 55.000 0.00 0.00 0.00 4.52
919 934 1.480137 AGAGCTTCGAGGACATCTTGG 59.520 52.381 0.00 0.00 0.00 3.61
920 935 2.481104 GGAGAGCTTCGAGGACATCTTG 60.481 54.545 0.00 0.00 0.00 3.02
921 936 1.754226 GGAGAGCTTCGAGGACATCTT 59.246 52.381 0.00 0.00 0.00 2.40
922 937 1.341482 TGGAGAGCTTCGAGGACATCT 60.341 52.381 0.00 0.00 0.00 2.90
923 938 1.107114 TGGAGAGCTTCGAGGACATC 58.893 55.000 0.00 0.00 0.00 3.06
924 939 0.820871 GTGGAGAGCTTCGAGGACAT 59.179 55.000 0.00 0.00 0.00 3.06
925 940 1.251527 GGTGGAGAGCTTCGAGGACA 61.252 60.000 0.00 0.00 0.00 4.02
926 941 1.251527 TGGTGGAGAGCTTCGAGGAC 61.252 60.000 0.00 0.00 0.00 3.85
927 942 0.324738 ATGGTGGAGAGCTTCGAGGA 60.325 55.000 0.00 0.00 0.00 3.71
928 943 0.103937 GATGGTGGAGAGCTTCGAGG 59.896 60.000 0.00 0.00 0.00 4.63
929 944 1.110442 AGATGGTGGAGAGCTTCGAG 58.890 55.000 0.00 0.00 0.00 4.04
930 945 1.205655 CAAGATGGTGGAGAGCTTCGA 59.794 52.381 0.00 0.00 0.00 3.71
931 946 1.649664 CAAGATGGTGGAGAGCTTCG 58.350 55.000 0.00 0.00 0.00 3.79
932 947 2.016096 GCCAAGATGGTGGAGAGCTTC 61.016 57.143 0.00 0.00 41.65 3.86
933 948 0.034670 GCCAAGATGGTGGAGAGCTT 60.035 55.000 0.00 0.00 41.65 3.74
934 949 1.606531 GCCAAGATGGTGGAGAGCT 59.393 57.895 0.00 0.00 41.65 4.09
935 950 1.452833 GGCCAAGATGGTGGAGAGC 60.453 63.158 0.00 0.00 41.65 4.09
936 951 1.153289 CGGCCAAGATGGTGGAGAG 60.153 63.158 2.24 0.00 41.65 3.20
937 952 1.899437 GACGGCCAAGATGGTGGAGA 61.899 60.000 2.24 0.00 41.65 3.71
938 953 1.450312 GACGGCCAAGATGGTGGAG 60.450 63.158 2.24 0.00 41.65 3.86
939 954 2.668632 GACGGCCAAGATGGTGGA 59.331 61.111 2.24 0.00 41.65 4.02
940 955 2.819595 CGACGGCCAAGATGGTGG 60.820 66.667 2.24 0.00 40.46 4.61
941 956 2.047274 ACGACGGCCAAGATGGTG 60.047 61.111 2.24 0.00 40.46 4.17
942 957 2.264794 GACGACGGCCAAGATGGT 59.735 61.111 2.24 0.00 40.46 3.55
943 958 2.511600 GGACGACGGCCAAGATGG 60.512 66.667 16.92 0.00 41.55 3.51
944 959 2.511600 GGGACGACGGCCAAGATG 60.512 66.667 23.92 0.00 0.00 2.90
945 960 2.240162 GAAGGGACGACGGCCAAGAT 62.240 60.000 23.92 3.47 0.00 2.40
946 961 2.920912 AAGGGACGACGGCCAAGA 60.921 61.111 23.92 0.00 0.00 3.02
947 962 2.434359 GAAGGGACGACGGCCAAG 60.434 66.667 23.92 0.00 0.00 3.61
948 963 2.920912 AGAAGGGACGACGGCCAA 60.921 61.111 23.92 0.00 0.00 4.52
949 964 3.379445 GAGAAGGGACGACGGCCA 61.379 66.667 23.92 0.00 0.00 5.36
950 965 4.493747 CGAGAAGGGACGACGGCC 62.494 72.222 12.69 12.69 0.00 6.13
952 967 2.868999 GAAGCGAGAAGGGACGACGG 62.869 65.000 0.00 0.00 0.00 4.79
953 968 1.514443 GAAGCGAGAAGGGACGACG 60.514 63.158 0.00 0.00 0.00 5.12
954 969 1.153804 GGAAGCGAGAAGGGACGAC 60.154 63.158 0.00 0.00 0.00 4.34
955 970 2.348888 GGGAAGCGAGAAGGGACGA 61.349 63.158 0.00 0.00 0.00 4.20
956 971 2.184579 GGGAAGCGAGAAGGGACG 59.815 66.667 0.00 0.00 0.00 4.79
957 972 1.554583 AAGGGGAAGCGAGAAGGGAC 61.555 60.000 0.00 0.00 0.00 4.46
958 973 1.229529 AAGGGGAAGCGAGAAGGGA 60.230 57.895 0.00 0.00 0.00 4.20
959 974 1.222113 GAAGGGGAAGCGAGAAGGG 59.778 63.158 0.00 0.00 0.00 3.95
960 975 1.222113 GGAAGGGGAAGCGAGAAGG 59.778 63.158 0.00 0.00 0.00 3.46
961 976 1.222113 GGGAAGGGGAAGCGAGAAG 59.778 63.158 0.00 0.00 0.00 2.85
962 977 2.298661 GGGGAAGGGGAAGCGAGAA 61.299 63.158 0.00 0.00 0.00 2.87
963 978 2.687566 GGGGAAGGGGAAGCGAGA 60.688 66.667 0.00 0.00 0.00 4.04
964 979 4.162690 CGGGGAAGGGGAAGCGAG 62.163 72.222 0.00 0.00 0.00 5.03
966 981 4.468689 GACGGGGAAGGGGAAGCG 62.469 72.222 0.00 0.00 0.00 4.68
967 982 4.468689 CGACGGGGAAGGGGAAGC 62.469 72.222 0.00 0.00 0.00 3.86
968 983 4.468689 GCGACGGGGAAGGGGAAG 62.469 72.222 0.00 0.00 0.00 3.46
988 1003 2.190578 CGACATCTTGGGAGGCCC 59.809 66.667 0.00 0.00 45.71 5.80
989 1004 2.190578 CCGACATCTTGGGAGGCC 59.809 66.667 0.00 0.00 0.00 5.19
990 1005 2.514824 GCCGACATCTTGGGAGGC 60.515 66.667 0.00 0.00 37.61 4.70
991 1006 1.153289 CTGCCGACATCTTGGGAGG 60.153 63.158 0.00 0.00 39.78 4.30
992 1007 4.528674 CTGCCGACATCTTGGGAG 57.471 61.111 0.00 0.00 37.36 4.30
993 1008 0.904865 AGACTGCCGACATCTTGGGA 60.905 55.000 0.00 0.00 0.00 4.37
994 1009 0.036010 AAGACTGCCGACATCTTGGG 60.036 55.000 0.00 0.00 31.47 4.12
995 1010 1.081892 CAAGACTGCCGACATCTTGG 58.918 55.000 12.62 0.00 43.66 3.61
997 1012 2.839486 TTCAAGACTGCCGACATCTT 57.161 45.000 0.00 0.00 32.87 2.40
998 1013 2.736719 CGATTCAAGACTGCCGACATCT 60.737 50.000 0.00 0.00 0.00 2.90
999 1014 1.590238 CGATTCAAGACTGCCGACATC 59.410 52.381 0.00 0.00 0.00 3.06
1000 1015 1.645034 CGATTCAAGACTGCCGACAT 58.355 50.000 0.00 0.00 0.00 3.06
1001 1016 0.389817 CCGATTCAAGACTGCCGACA 60.390 55.000 0.00 0.00 0.00 4.35
1002 1017 0.108804 TCCGATTCAAGACTGCCGAC 60.109 55.000 0.00 0.00 0.00 4.79
1003 1018 0.173481 CTCCGATTCAAGACTGCCGA 59.827 55.000 0.00 0.00 0.00 5.54
1004 1019 0.108615 ACTCCGATTCAAGACTGCCG 60.109 55.000 0.00 0.00 0.00 5.69
1005 1020 2.100605 AACTCCGATTCAAGACTGCC 57.899 50.000 0.00 0.00 0.00 4.85
1006 1021 3.067106 TCAAACTCCGATTCAAGACTGC 58.933 45.455 0.00 0.00 0.00 4.40
1007 1022 5.444122 GTTTCAAACTCCGATTCAAGACTG 58.556 41.667 0.00 0.00 0.00 3.51
1008 1023 4.515567 GGTTTCAAACTCCGATTCAAGACT 59.484 41.667 0.00 0.00 0.00 3.24
1009 1024 4.274950 TGGTTTCAAACTCCGATTCAAGAC 59.725 41.667 0.00 0.00 0.00 3.01
1010 1025 4.456535 TGGTTTCAAACTCCGATTCAAGA 58.543 39.130 0.00 0.00 0.00 3.02
1011 1026 4.829064 TGGTTTCAAACTCCGATTCAAG 57.171 40.909 0.00 0.00 0.00 3.02
1257 1275 3.119459 TGATCTCGTAGTTCTTGGTCTGC 60.119 47.826 0.00 0.00 0.00 4.26
1341 1380 2.970639 CTTTCTCCAGACCGCCGA 59.029 61.111 0.00 0.00 0.00 5.54
1656 1695 2.092646 CCCCTACGATCCAACCAATTGA 60.093 50.000 7.12 0.00 38.15 2.57
1803 2009 2.969628 CGGAGCTCTACCAACTGATT 57.030 50.000 14.64 0.00 0.00 2.57
2063 2269 0.105709 GAGGGAAGCCTAGGAGAGCT 60.106 60.000 14.75 0.00 42.40 4.09
2368 2582 6.980978 CCGACTCTTTGATCTTAAGAATGCTA 59.019 38.462 9.71 0.00 31.67 3.49


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

AutoCloner maintained by Alex Coulton.