Multiple sequence alignment - TraesCS6B01G466100

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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 TraesCS6B01G466100 chr6B 100.000 4329 0 0 1 4329 716502698 716498370 0.000000e+00 7995.0
1 TraesCS6B01G466100 chr6B 81.065 845 123 20 2564 3393 716322312 716321490 1.310000e-179 640.0
2 TraesCS6B01G466100 chr6B 82.312 718 102 15 2585 3290 716391678 716390974 2.230000e-167 599.0
3 TraesCS6B01G466100 chr6B 80.745 805 122 14 2597 3390 716485237 716484455 8.010000e-167 597.0
4 TraesCS6B01G466100 chr6B 79.673 856 150 15 1532 2379 716392672 716391833 2.880000e-166 595.0
5 TraesCS6B01G466100 chr6B 78.082 876 143 25 1537 2379 716486296 716485437 3.860000e-140 508.0
6 TraesCS6B01G466100 chr6B 74.582 897 149 39 1505 2379 716323240 716322401 1.940000e-83 320.0
7 TraesCS6B01G466100 chr6B 84.733 131 12 1 3427 3549 716478666 716478536 1.630000e-24 124.0
8 TraesCS6B01G466100 chr6A 92.130 3418 133 42 959 4329 614987119 614983791 0.000000e+00 4697.0
9 TraesCS6B01G466100 chr6A 99.434 883 3 2 1 881 90747016 90747898 0.000000e+00 1602.0
10 TraesCS6B01G466100 chr6A 86.052 803 87 15 2590 3389 614853802 614853022 0.000000e+00 839.0
11 TraesCS6B01G466100 chr6A 84.129 775 102 9 2591 3363 614846794 614846039 0.000000e+00 730.0
12 TraesCS6B01G466100 chr6A 79.059 893 147 27 1505 2379 614854814 614853944 1.040000e-160 577.0
13 TraesCS6B01G466100 chr6A 76.906 918 141 36 1539 2400 614847839 614846937 5.100000e-124 455.0
14 TraesCS6B01G466100 chrUn 99.772 879 1 1 1 878 15453325 15454203 0.000000e+00 1611.0
15 TraesCS6B01G466100 chrUn 95.904 879 33 3 1 878 242485776 242486652 0.000000e+00 1421.0
16 TraesCS6B01G466100 chrUn 95.222 879 39 3 1 878 429538511 429537635 0.000000e+00 1387.0
17 TraesCS6B01G466100 chr4A 99.205 880 5 1 1 878 725915223 725914344 0.000000e+00 1585.0
18 TraesCS6B01G466100 chr1B 98.472 851 12 1 1 851 208990599 208989750 0.000000e+00 1498.0
19 TraesCS6B01G466100 chr4B 96.246 879 31 2 1 878 420428362 420427485 0.000000e+00 1439.0
20 TraesCS6B01G466100 chr1A 95.791 879 35 2 1 878 579080081 579080958 0.000000e+00 1417.0
21 TraesCS6B01G466100 chr1A 80.198 101 14 3 2863 2957 554071339 554071239 2.160000e-08 71.3
22 TraesCS6B01G466100 chr5A 95.336 879 38 3 1 878 227687291 227688167 0.000000e+00 1393.0
23 TraesCS6B01G466100 chr7A 80.136 881 145 16 1508 2376 686127175 686126313 7.900000e-177 630.0
24 TraesCS6B01G466100 chr3D 83.262 699 102 5 2534 3229 596781202 596781888 2.840000e-176 628.0
25 TraesCS6B01G466100 chr6D 82.912 673 68 20 3622 4276 470317215 470316572 2.920000e-156 562.0
26 TraesCS6B01G466100 chr6D 79.876 646 116 8 2532 3176 470290104 470290736 1.100000e-125 460.0
27 TraesCS6B01G466100 chr6D 91.391 302 21 2 3589 3890 470319823 470319527 4.030000e-110 409.0
28 TraesCS6B01G466100 chr6D 75.104 241 43 9 1223 1458 470288847 470289075 3.560000e-16 97.1
29 TraesCS6B01G466100 chr6D 87.805 82 10 0 3554 3635 470317468 470317387 3.560000e-16 97.1


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 TraesCS6B01G466100 chr6B 716498370 716502698 4328 True 7995.000000 7995 100.000000 1 4329 1 chr6B.!!$R2 4328
1 TraesCS6B01G466100 chr6B 716390974 716392672 1698 True 597.000000 599 80.992500 1532 3290 2 chr6B.!!$R4 1758
2 TraesCS6B01G466100 chr6B 716484455 716486296 1841 True 552.500000 597 79.413500 1537 3390 2 chr6B.!!$R5 1853
3 TraesCS6B01G466100 chr6B 716321490 716323240 1750 True 480.000000 640 77.823500 1505 3393 2 chr6B.!!$R3 1888
4 TraesCS6B01G466100 chr6A 614983791 614987119 3328 True 4697.000000 4697 92.130000 959 4329 1 chr6A.!!$R1 3370
5 TraesCS6B01G466100 chr6A 90747016 90747898 882 False 1602.000000 1602 99.434000 1 881 1 chr6A.!!$F1 880
6 TraesCS6B01G466100 chr6A 614853022 614854814 1792 True 708.000000 839 82.555500 1505 3389 2 chr6A.!!$R3 1884
7 TraesCS6B01G466100 chr6A 614846039 614847839 1800 True 592.500000 730 80.517500 1539 3363 2 chr6A.!!$R2 1824
8 TraesCS6B01G466100 chrUn 15453325 15454203 878 False 1611.000000 1611 99.772000 1 878 1 chrUn.!!$F1 877
9 TraesCS6B01G466100 chrUn 242485776 242486652 876 False 1421.000000 1421 95.904000 1 878 1 chrUn.!!$F2 877
10 TraesCS6B01G466100 chrUn 429537635 429538511 876 True 1387.000000 1387 95.222000 1 878 1 chrUn.!!$R1 877
11 TraesCS6B01G466100 chr4A 725914344 725915223 879 True 1585.000000 1585 99.205000 1 878 1 chr4A.!!$R1 877
12 TraesCS6B01G466100 chr1B 208989750 208990599 849 True 1498.000000 1498 98.472000 1 851 1 chr1B.!!$R1 850
13 TraesCS6B01G466100 chr4B 420427485 420428362 877 True 1439.000000 1439 96.246000 1 878 1 chr4B.!!$R1 877
14 TraesCS6B01G466100 chr1A 579080081 579080958 877 False 1417.000000 1417 95.791000 1 878 1 chr1A.!!$F1 877
15 TraesCS6B01G466100 chr5A 227687291 227688167 876 False 1393.000000 1393 95.336000 1 878 1 chr5A.!!$F1 877
16 TraesCS6B01G466100 chr7A 686126313 686127175 862 True 630.000000 630 80.136000 1508 2376 1 chr7A.!!$R1 868
17 TraesCS6B01G466100 chr3D 596781202 596781888 686 False 628.000000 628 83.262000 2534 3229 1 chr3D.!!$F1 695
18 TraesCS6B01G466100 chr6D 470316572 470319823 3251 True 356.033333 562 87.369333 3554 4276 3 chr6D.!!$R1 722
19 TraesCS6B01G466100 chr6D 470288847 470290736 1889 False 278.550000 460 77.490000 1223 3176 2 chr6D.!!$F1 1953

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
879 883 0.034896 ATCGCCAAGGAGTCGTTTGT 59.965 50.0 0.00 0.00 0.00 2.83 F
936 940 0.039035 TTTGTAGCGATGGGCCCTTT 59.961 50.0 25.70 10.94 45.17 3.11 F
1107 1117 0.110104 GCATCCCTTCTCCATCCCTG 59.890 60.0 0.00 0.00 0.00 4.45 F
1698 1778 0.308993 GACTTTGCAGAAACAGCGCT 59.691 50.0 2.64 2.64 33.85 5.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2104 2227 0.323178 ATTCTGGGCAGTCAAGCAGG 60.323 55.000 0.0 0.0 35.83 4.85 R
2379 2532 1.132881 TGATTTTGGTGGCCCTTTCCT 60.133 47.619 0.0 0.0 0.00 3.36 R
2503 2677 1.544691 TCGAGGTTGTTAGACTCTGCC 59.455 52.381 0.0 0.0 0.00 4.85 R
3447 3759 1.136329 ACCACACCTCATTCCCAGCT 61.136 55.000 0.0 0.0 0.00 4.24 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
765 767 1.528542 GGGAAAGGGAATAGGCGGC 60.529 63.158 0.00 0.00 0.00 6.53
878 882 0.721718 GATCGCCAAGGAGTCGTTTG 59.278 55.000 0.00 0.00 0.00 2.93
879 883 0.034896 ATCGCCAAGGAGTCGTTTGT 59.965 50.000 0.00 0.00 0.00 2.83
880 884 0.675083 TCGCCAAGGAGTCGTTTGTA 59.325 50.000 0.00 0.00 0.00 2.41
881 885 1.068474 CGCCAAGGAGTCGTTTGTAG 58.932 55.000 0.00 0.00 0.00 2.74
882 886 1.604693 CGCCAAGGAGTCGTTTGTAGT 60.605 52.381 0.00 0.00 0.00 2.73
883 887 1.798813 GCCAAGGAGTCGTTTGTAGTG 59.201 52.381 0.00 0.00 0.00 2.74
884 888 2.805657 GCCAAGGAGTCGTTTGTAGTGT 60.806 50.000 0.00 0.00 0.00 3.55
885 889 2.800544 CCAAGGAGTCGTTTGTAGTGTG 59.199 50.000 0.00 0.00 0.00 3.82
886 890 2.150397 AGGAGTCGTTTGTAGTGTGC 57.850 50.000 0.00 0.00 0.00 4.57
887 891 1.687123 AGGAGTCGTTTGTAGTGTGCT 59.313 47.619 0.00 0.00 0.00 4.40
888 892 2.889045 AGGAGTCGTTTGTAGTGTGCTA 59.111 45.455 0.00 0.00 0.00 3.49
889 893 3.319972 AGGAGTCGTTTGTAGTGTGCTAA 59.680 43.478 0.00 0.00 0.00 3.09
890 894 4.053295 GGAGTCGTTTGTAGTGTGCTAAA 58.947 43.478 0.00 0.00 0.00 1.85
891 895 4.508861 GGAGTCGTTTGTAGTGTGCTAAAA 59.491 41.667 0.00 0.00 0.00 1.52
892 896 5.006941 GGAGTCGTTTGTAGTGTGCTAAAAA 59.993 40.000 0.00 0.00 33.32 1.94
893 897 6.044512 AGTCGTTTGTAGTGTGCTAAAAAG 57.955 37.500 0.00 0.00 35.66 2.27
894 898 5.813672 AGTCGTTTGTAGTGTGCTAAAAAGA 59.186 36.000 0.00 0.00 35.66 2.52
895 899 6.314400 AGTCGTTTGTAGTGTGCTAAAAAGAA 59.686 34.615 0.00 0.00 35.66 2.52
896 900 6.962678 GTCGTTTGTAGTGTGCTAAAAAGAAA 59.037 34.615 0.00 0.00 35.66 2.52
897 901 7.163682 GTCGTTTGTAGTGTGCTAAAAAGAAAG 59.836 37.037 0.00 0.00 35.66 2.62
898 902 7.064847 TCGTTTGTAGTGTGCTAAAAAGAAAGA 59.935 33.333 0.00 0.00 35.66 2.52
899 903 7.373441 CGTTTGTAGTGTGCTAAAAAGAAAGAG 59.627 37.037 0.00 0.00 35.66 2.85
900 904 7.859325 TTGTAGTGTGCTAAAAAGAAAGAGT 57.141 32.000 0.00 0.00 0.00 3.24
901 905 7.859325 TGTAGTGTGCTAAAAAGAAAGAGTT 57.141 32.000 0.00 0.00 0.00 3.01
902 906 8.276252 TGTAGTGTGCTAAAAAGAAAGAGTTT 57.724 30.769 0.00 0.00 0.00 2.66
903 907 8.736244 TGTAGTGTGCTAAAAAGAAAGAGTTTT 58.264 29.630 0.00 0.00 0.00 2.43
904 908 9.569167 GTAGTGTGCTAAAAAGAAAGAGTTTTT 57.431 29.630 0.00 0.00 39.72 1.94
926 930 6.636562 TTTTCAGGGTTTTATTTGTAGCGA 57.363 33.333 0.00 0.00 0.00 4.93
927 931 6.827586 TTTCAGGGTTTTATTTGTAGCGAT 57.172 33.333 0.00 0.00 0.00 4.58
928 932 5.811399 TCAGGGTTTTATTTGTAGCGATG 57.189 39.130 0.00 0.00 0.00 3.84
929 933 4.638421 TCAGGGTTTTATTTGTAGCGATGG 59.362 41.667 0.00 0.00 0.00 3.51
930 934 3.951680 AGGGTTTTATTTGTAGCGATGGG 59.048 43.478 0.00 0.00 0.00 4.00
931 935 3.490249 GGGTTTTATTTGTAGCGATGGGC 60.490 47.826 0.00 0.00 44.05 5.36
932 936 3.490249 GGTTTTATTTGTAGCGATGGGCC 60.490 47.826 0.00 0.00 45.17 5.80
933 937 1.975660 TTATTTGTAGCGATGGGCCC 58.024 50.000 17.59 17.59 45.17 5.80
934 938 1.136828 TATTTGTAGCGATGGGCCCT 58.863 50.000 25.70 8.64 45.17 5.19
935 939 0.258774 ATTTGTAGCGATGGGCCCTT 59.741 50.000 25.70 18.41 45.17 3.95
936 940 0.039035 TTTGTAGCGATGGGCCCTTT 59.961 50.000 25.70 10.94 45.17 3.11
937 941 0.393808 TTGTAGCGATGGGCCCTTTC 60.394 55.000 25.70 18.67 45.17 2.62
938 942 1.887707 GTAGCGATGGGCCCTTTCG 60.888 63.158 31.43 31.43 45.17 3.46
939 943 3.101796 TAGCGATGGGCCCTTTCGG 62.102 63.158 34.05 22.22 45.17 4.30
948 952 4.637771 CCCTTTCGGCCCACTAAG 57.362 61.111 0.00 0.00 0.00 2.18
949 953 1.988015 CCCTTTCGGCCCACTAAGA 59.012 57.895 0.00 0.00 0.00 2.10
950 954 0.326927 CCCTTTCGGCCCACTAAGAA 59.673 55.000 0.00 0.00 0.00 2.52
951 955 1.271707 CCCTTTCGGCCCACTAAGAAA 60.272 52.381 0.00 0.00 0.00 2.52
952 956 2.510613 CCTTTCGGCCCACTAAGAAAA 58.489 47.619 0.00 0.00 33.01 2.29
953 957 3.089284 CCTTTCGGCCCACTAAGAAAAT 58.911 45.455 0.00 0.00 33.01 1.82
954 958 4.266714 CCTTTCGGCCCACTAAGAAAATA 58.733 43.478 0.00 0.00 33.01 1.40
955 959 4.095932 CCTTTCGGCCCACTAAGAAAATAC 59.904 45.833 0.00 0.00 33.01 1.89
956 960 4.563140 TTCGGCCCACTAAGAAAATACT 57.437 40.909 0.00 0.00 0.00 2.12
957 961 4.133013 TCGGCCCACTAAGAAAATACTC 57.867 45.455 0.00 0.00 0.00 2.59
958 962 3.118519 TCGGCCCACTAAGAAAATACTCC 60.119 47.826 0.00 0.00 0.00 3.85
959 963 3.118371 CGGCCCACTAAGAAAATACTCCT 60.118 47.826 0.00 0.00 0.00 3.69
960 964 4.100498 CGGCCCACTAAGAAAATACTCCTA 59.900 45.833 0.00 0.00 0.00 2.94
961 965 5.366460 GGCCCACTAAGAAAATACTCCTAC 58.634 45.833 0.00 0.00 0.00 3.18
962 966 5.130643 GGCCCACTAAGAAAATACTCCTACT 59.869 44.000 0.00 0.00 0.00 2.57
963 967 6.282167 GCCCACTAAGAAAATACTCCTACTC 58.718 44.000 0.00 0.00 0.00 2.59
964 968 6.127140 GCCCACTAAGAAAATACTCCTACTCA 60.127 42.308 0.00 0.00 0.00 3.41
965 969 7.266400 CCCACTAAGAAAATACTCCTACTCAC 58.734 42.308 0.00 0.00 0.00 3.51
966 970 7.124448 CCCACTAAGAAAATACTCCTACTCACT 59.876 40.741 0.00 0.00 0.00 3.41
967 971 8.192110 CCACTAAGAAAATACTCCTACTCACTC 58.808 40.741 0.00 0.00 0.00 3.51
968 972 8.962679 CACTAAGAAAATACTCCTACTCACTCT 58.037 37.037 0.00 0.00 0.00 3.24
969 973 9.181061 ACTAAGAAAATACTCCTACTCACTCTC 57.819 37.037 0.00 0.00 0.00 3.20
970 974 9.179909 CTAAGAAAATACTCCTACTCACTCTCA 57.820 37.037 0.00 0.00 0.00 3.27
1002 1006 1.471684 CCAGTACCCGTCACTACTGTC 59.528 57.143 2.88 0.00 38.73 3.51
1003 1007 2.434428 CAGTACCCGTCACTACTGTCT 58.566 52.381 0.00 0.00 36.58 3.41
1004 1008 2.419324 CAGTACCCGTCACTACTGTCTC 59.581 54.545 0.00 0.00 36.58 3.36
1005 1009 1.742268 GTACCCGTCACTACTGTCTCC 59.258 57.143 0.00 0.00 0.00 3.71
1006 1010 0.111832 ACCCGTCACTACTGTCTCCA 59.888 55.000 0.00 0.00 0.00 3.86
1007 1011 0.811915 CCCGTCACTACTGTCTCCAG 59.188 60.000 0.00 0.00 44.68 3.86
1008 1012 1.613520 CCCGTCACTACTGTCTCCAGA 60.614 57.143 0.00 0.00 41.50 3.86
1009 1013 2.370349 CCGTCACTACTGTCTCCAGAT 58.630 52.381 0.00 0.00 41.50 2.90
1010 1014 2.356382 CCGTCACTACTGTCTCCAGATC 59.644 54.545 0.00 0.00 41.50 2.75
1011 1015 2.031068 CGTCACTACTGTCTCCAGATCG 59.969 54.545 0.00 0.00 41.50 3.69
1012 1016 2.017782 TCACTACTGTCTCCAGATCGC 58.982 52.381 0.00 0.00 41.50 4.58
1013 1017 2.020720 CACTACTGTCTCCAGATCGCT 58.979 52.381 0.00 0.00 41.50 4.93
1014 1018 2.032799 CACTACTGTCTCCAGATCGCTC 59.967 54.545 0.00 0.00 41.50 5.03
1015 1019 2.293170 CTACTGTCTCCAGATCGCTCA 58.707 52.381 0.00 0.00 41.50 4.26
1029 1033 0.528684 CGCTCACGGGAATCCTCTTC 60.529 60.000 0.00 0.00 34.97 2.87
1075 1079 4.806339 CCTCCCTCCGCCCCTCTT 62.806 72.222 0.00 0.00 0.00 2.85
1106 1116 1.064824 GGCATCCCTTCTCCATCCCT 61.065 60.000 0.00 0.00 0.00 4.20
1107 1117 0.110104 GCATCCCTTCTCCATCCCTG 59.890 60.000 0.00 0.00 0.00 4.45
1108 1118 0.769873 CATCCCTTCTCCATCCCTGG 59.230 60.000 0.00 0.00 44.64 4.45
1109 1119 1.064824 ATCCCTTCTCCATCCCTGGC 61.065 60.000 0.00 0.00 42.80 4.85
1110 1120 2.507944 CCTTCTCCATCCCTGGCG 59.492 66.667 0.00 0.00 42.80 5.69
1111 1121 2.370445 CCTTCTCCATCCCTGGCGT 61.370 63.158 0.00 0.00 42.80 5.68
1112 1122 1.144936 CTTCTCCATCCCTGGCGTC 59.855 63.158 0.00 0.00 42.80 5.19
1113 1123 2.317149 CTTCTCCATCCCTGGCGTCC 62.317 65.000 0.00 0.00 42.80 4.79
1114 1124 3.866582 CTCCATCCCTGGCGTCCC 61.867 72.222 0.00 0.00 42.80 4.46
1197 1207 4.164988 AGGATCCCAATGTGAGTTTCTAGG 59.835 45.833 8.55 0.00 0.00 3.02
1198 1208 4.080299 GGATCCCAATGTGAGTTTCTAGGT 60.080 45.833 0.00 0.00 0.00 3.08
1213 1223 2.096248 CTAGGTATCGGCATCTCCTCC 58.904 57.143 0.00 0.00 0.00 4.30
1217 1227 0.959553 TATCGGCATCTCCTCCGTTC 59.040 55.000 0.47 0.00 45.44 3.95
1255 1265 7.538334 TGTTTTCTTTTCATCAGTATCGCAATG 59.462 33.333 0.00 0.00 0.00 2.82
1298 1314 4.399395 CAGCAGGGAAGCAGCGGA 62.399 66.667 0.00 0.00 36.85 5.54
1299 1315 4.093291 AGCAGGGAAGCAGCGGAG 62.093 66.667 0.00 0.00 36.85 4.63
1315 1331 1.143401 GAGCGGTTGGTAGGTAGCC 59.857 63.158 0.00 0.00 0.00 3.93
1319 1335 1.297364 GGTTGGTAGGTAGCCGCAA 59.703 57.895 0.00 0.00 0.00 4.85
1323 1339 1.300697 GGTAGGTAGCCGCAATCCG 60.301 63.158 0.00 0.00 0.00 4.18
1357 1376 2.161855 AGCTAGATGGCAGATCTCTCG 58.838 52.381 0.00 0.00 34.17 4.04
1481 1500 4.054671 GGCTGATTTCTCCGTTGAGATAG 58.945 47.826 0.00 0.00 46.75 2.08
1605 1651 1.155042 GCAGCTCAGGAGTTCAAGTG 58.845 55.000 0.00 0.00 0.00 3.16
1632 1678 2.629137 CCTCCTCTGAGATCACAGATGG 59.371 54.545 21.07 21.36 44.32 3.51
1691 1747 0.968405 GGGCATGGACTTTGCAGAAA 59.032 50.000 0.00 0.00 41.95 2.52
1697 1777 0.661483 GGACTTTGCAGAAACAGCGC 60.661 55.000 0.00 0.00 33.85 5.92
1698 1778 0.308993 GACTTTGCAGAAACAGCGCT 59.691 50.000 2.64 2.64 33.85 5.92
1723 1806 1.810412 GCTTCGGCTCCGGTTGATAAT 60.810 52.381 8.59 0.00 40.25 1.28
1726 1809 1.202486 TCGGCTCCGGTTGATAATGAC 60.202 52.381 8.59 0.00 40.25 3.06
1884 1987 3.889525 ATGGCTCACCCCACCTCCA 62.890 63.158 0.00 0.00 37.79 3.86
1904 2007 1.012841 GCAGATGGAGAAAGCGAAGG 58.987 55.000 0.00 0.00 0.00 3.46
1905 2008 1.661341 CAGATGGAGAAAGCGAAGGG 58.339 55.000 0.00 0.00 0.00 3.95
2011 2117 2.106938 CGCTGCCTCTATGCCGAA 59.893 61.111 0.00 0.00 0.00 4.30
2154 2280 7.841915 ATGTTTTTCACTCCAACGAAAAATT 57.158 28.000 11.79 2.99 46.79 1.82
2301 2451 5.584649 ACCGTGTGTATCATATCAAACAAGG 59.415 40.000 4.39 4.39 41.21 3.61
2379 2532 8.670135 TCTTCTTCGATTCTACAAAACAAACAA 58.330 29.630 0.00 0.00 0.00 2.83
2381 2534 7.414436 TCTTCGATTCTACAAAACAAACAAGG 58.586 34.615 0.00 0.00 0.00 3.61
2451 2625 3.568853 AGCAAGATAGCATTTCCAGCATC 59.431 43.478 0.00 0.00 36.85 3.91
2503 2677 3.338249 AGAGTTGAACACCCGAATGATG 58.662 45.455 0.00 0.00 0.00 3.07
2545 2719 6.014242 TCGAGGATGTTCATATAGAAAGCCAT 60.014 38.462 0.00 0.00 38.13 4.40
2878 3169 0.976073 TCATGGACCGGGAAGAGGAC 60.976 60.000 6.32 0.00 0.00 3.85
3262 3570 3.940852 GAGTGATGCATGGTGTGATGTTA 59.059 43.478 2.46 0.00 0.00 2.41
3271 3579 5.817296 GCATGGTGTGATGTTATCTGTTCTA 59.183 40.000 0.00 0.00 0.00 2.10
3312 3620 7.334858 TGGCACAATGTACTGTATCTGAAATA 58.665 34.615 0.00 0.00 31.92 1.40
3313 3621 7.992608 TGGCACAATGTACTGTATCTGAAATAT 59.007 33.333 0.00 0.00 31.92 1.28
3314 3622 9.489084 GGCACAATGTACTGTATCTGAAATATA 57.511 33.333 0.00 0.00 0.00 0.86
3447 3759 5.408880 TCAAACGGACACCTGATGTATTA 57.591 39.130 0.00 0.00 43.56 0.98
3548 3872 5.069781 TCCTTTCCGGAAACAAATCACAAAT 59.930 36.000 25.67 0.00 39.40 2.32
3557 3881 7.537306 CGGAAACAAATCACAAATTACTGGTAG 59.463 37.037 0.00 0.00 0.00 3.18
3587 3911 1.140852 GATATGGTGGTAGTGCTGCCA 59.859 52.381 4.90 4.90 43.13 4.92
3606 3930 3.671433 GCCATGTGCAAGTTGTGTATCAG 60.671 47.826 4.48 0.00 40.77 2.90
3700 4028 9.447040 CGATGTAAAAGTCGAGAGTATGAAATA 57.553 33.333 0.00 0.00 40.11 1.40
3747 4075 0.250467 GGTATCAGGCCATGCGATGT 60.250 55.000 5.01 0.00 0.00 3.06
3865 4199 3.307762 GGCTCCAGATTGTACAAGACCTT 60.308 47.826 14.65 0.00 0.00 3.50
3866 4200 4.327680 GCTCCAGATTGTACAAGACCTTT 58.672 43.478 14.65 0.00 0.00 3.11
3867 4201 4.393371 GCTCCAGATTGTACAAGACCTTTC 59.607 45.833 14.65 5.53 0.00 2.62
3868 4202 5.799213 CTCCAGATTGTACAAGACCTTTCT 58.201 41.667 14.65 7.80 0.00 2.52
3869 4203 5.551233 TCCAGATTGTACAAGACCTTTCTG 58.449 41.667 20.42 20.42 31.75 3.02
3870 4204 5.071788 TCCAGATTGTACAAGACCTTTCTGT 59.928 40.000 23.29 3.10 30.78 3.41
3871 4205 5.180117 CCAGATTGTACAAGACCTTTCTGTG 59.820 44.000 23.29 15.42 30.78 3.66
3872 4206 5.991606 CAGATTGTACAAGACCTTTCTGTGA 59.008 40.000 19.61 0.00 29.98 3.58
3873 4207 5.992217 AGATTGTACAAGACCTTTCTGTGAC 59.008 40.000 14.65 0.00 29.98 3.67
3874 4208 4.067972 TGTACAAGACCTTTCTGTGACC 57.932 45.455 0.00 0.00 29.98 4.02
3875 4209 3.709653 TGTACAAGACCTTTCTGTGACCT 59.290 43.478 0.00 0.00 29.98 3.85
3876 4210 3.199880 ACAAGACCTTTCTGTGACCTG 57.800 47.619 0.00 0.00 29.98 4.00
3877 4211 2.505819 ACAAGACCTTTCTGTGACCTGT 59.494 45.455 0.00 0.00 29.98 4.00
3878 4212 3.134458 CAAGACCTTTCTGTGACCTGTC 58.866 50.000 0.00 0.00 29.98 3.51
3879 4213 1.341531 AGACCTTTCTGTGACCTGTCG 59.658 52.381 0.00 0.00 0.00 4.35
3880 4214 1.068741 GACCTTTCTGTGACCTGTCGT 59.931 52.381 0.00 0.00 0.00 4.34
3881 4215 1.068741 ACCTTTCTGTGACCTGTCGTC 59.931 52.381 0.00 0.00 42.33 4.20
3882 4216 1.341531 CCTTTCTGTGACCTGTCGTCT 59.658 52.381 0.00 0.00 42.49 4.18
3883 4217 2.608261 CCTTTCTGTGACCTGTCGTCTC 60.608 54.545 0.00 0.00 42.49 3.36
3884 4218 1.982660 TTCTGTGACCTGTCGTCTCT 58.017 50.000 0.00 0.00 42.49 3.10
3885 4219 2.853235 TCTGTGACCTGTCGTCTCTA 57.147 50.000 0.00 0.00 42.49 2.43
3886 4220 2.424557 TCTGTGACCTGTCGTCTCTAC 58.575 52.381 0.00 0.00 42.49 2.59
3887 4221 2.152016 CTGTGACCTGTCGTCTCTACA 58.848 52.381 0.00 0.00 42.49 2.74
3888 4222 2.152016 TGTGACCTGTCGTCTCTACAG 58.848 52.381 0.00 0.00 42.49 2.74
3909 6857 0.902531 GCTGTGGCCAGTAGTAGGAA 59.097 55.000 5.11 0.00 41.02 3.36
3940 6888 9.897744 CACTAACTATGTTTGGGCAATTATATG 57.102 33.333 0.00 0.00 0.00 1.78
4013 6961 3.382083 AGGCCTATTTCGGTTTGGAAT 57.618 42.857 1.29 0.00 0.00 3.01
4020 6968 6.039382 GCCTATTTCGGTTTGGAATGTAAGAT 59.961 38.462 0.00 0.00 0.00 2.40
4053 7001 3.845178 CATTGTGCTTGATGTGCTTCAT 58.155 40.909 0.00 0.00 39.77 2.57
4064 7012 2.436417 TGTGCTTCATCAAAGGGTAGC 58.564 47.619 0.00 0.00 35.37 3.58
4065 7013 2.224744 TGTGCTTCATCAAAGGGTAGCA 60.225 45.455 0.00 0.00 36.38 3.49
4066 7014 2.421424 GTGCTTCATCAAAGGGTAGCAG 59.579 50.000 0.00 0.00 39.08 4.24
4067 7015 2.040278 TGCTTCATCAAAGGGTAGCAGT 59.960 45.455 0.00 0.00 34.05 4.40
4069 7017 4.261801 GCTTCATCAAAGGGTAGCAGTTA 58.738 43.478 0.00 0.00 35.37 2.24
4070 7018 4.884164 GCTTCATCAAAGGGTAGCAGTTAT 59.116 41.667 0.00 0.00 35.37 1.89
4071 7019 5.358160 GCTTCATCAAAGGGTAGCAGTTATT 59.642 40.000 0.00 0.00 35.37 1.40
4072 7020 6.678900 GCTTCATCAAAGGGTAGCAGTTATTG 60.679 42.308 0.00 0.00 35.37 1.90
4073 7021 5.192927 TCATCAAAGGGTAGCAGTTATTGG 58.807 41.667 0.00 0.00 0.00 3.16
4074 7022 4.650972 TCAAAGGGTAGCAGTTATTGGT 57.349 40.909 0.00 0.00 41.25 3.67
4075 7023 4.993028 TCAAAGGGTAGCAGTTATTGGTT 58.007 39.130 0.00 0.00 38.70 3.67
4076 7024 5.390387 TCAAAGGGTAGCAGTTATTGGTTT 58.610 37.500 0.00 0.00 38.70 3.27
4145 7115 8.947055 ATTGAATGGGTTATCTAAATTGTTGC 57.053 30.769 0.00 0.00 0.00 4.17
4148 7118 8.196771 TGAATGGGTTATCTAAATTGTTGCATC 58.803 33.333 0.00 0.00 0.00 3.91
4167 7137 4.261572 GCATCTATTTCCGCTGCCAAATAA 60.262 41.667 10.81 5.29 0.00 1.40
4175 7145 6.761099 TTCCGCTGCCAAATAAAACTAATA 57.239 33.333 0.00 0.00 0.00 0.98
4180 7150 7.544217 CCGCTGCCAAATAAAACTAATAACTTT 59.456 33.333 0.00 0.00 0.00 2.66
4206 7176 5.344128 TCGTCTAGTTAGTTTTGAATGTCGC 59.656 40.000 0.00 0.00 0.00 5.19
4220 7190 0.966179 TGTCGCAGCTAAAGACAGGA 59.034 50.000 12.29 0.00 39.63 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
878 882 9.569167 AAAAACTCTTTCTTTTTAGCACACTAC 57.431 29.630 0.00 0.00 30.66 2.73
902 906 7.040473 TCGCTACAAATAAAACCCTGAAAAA 57.960 32.000 0.00 0.00 0.00 1.94
903 907 6.636562 TCGCTACAAATAAAACCCTGAAAA 57.363 33.333 0.00 0.00 0.00 2.29
904 908 6.349777 CCATCGCTACAAATAAAACCCTGAAA 60.350 38.462 0.00 0.00 0.00 2.69
905 909 5.124776 CCATCGCTACAAATAAAACCCTGAA 59.875 40.000 0.00 0.00 0.00 3.02
906 910 4.638421 CCATCGCTACAAATAAAACCCTGA 59.362 41.667 0.00 0.00 0.00 3.86
907 911 4.202010 CCCATCGCTACAAATAAAACCCTG 60.202 45.833 0.00 0.00 0.00 4.45
908 912 3.951680 CCCATCGCTACAAATAAAACCCT 59.048 43.478 0.00 0.00 0.00 4.34
909 913 3.490249 GCCCATCGCTACAAATAAAACCC 60.490 47.826 0.00 0.00 0.00 4.11
910 914 3.490249 GGCCCATCGCTACAAATAAAACC 60.490 47.826 0.00 0.00 37.74 3.27
911 915 3.490249 GGGCCCATCGCTACAAATAAAAC 60.490 47.826 19.95 0.00 37.74 2.43
912 916 2.691011 GGGCCCATCGCTACAAATAAAA 59.309 45.455 19.95 0.00 37.74 1.52
913 917 2.092103 AGGGCCCATCGCTACAAATAAA 60.092 45.455 27.56 0.00 36.06 1.40
914 918 1.493022 AGGGCCCATCGCTACAAATAA 59.507 47.619 27.56 0.00 36.06 1.40
915 919 1.136828 AGGGCCCATCGCTACAAATA 58.863 50.000 27.56 0.00 36.06 1.40
916 920 0.258774 AAGGGCCCATCGCTACAAAT 59.741 50.000 27.56 0.00 36.92 2.32
917 921 0.039035 AAAGGGCCCATCGCTACAAA 59.961 50.000 27.56 0.00 36.92 2.83
918 922 0.393808 GAAAGGGCCCATCGCTACAA 60.394 55.000 27.56 0.00 36.92 2.41
919 923 1.223487 GAAAGGGCCCATCGCTACA 59.777 57.895 27.56 0.00 36.92 2.74
920 924 1.887707 CGAAAGGGCCCATCGCTAC 60.888 63.158 29.67 11.75 36.92 3.58
921 925 2.504032 CGAAAGGGCCCATCGCTA 59.496 61.111 29.67 0.00 36.92 4.26
933 937 4.941873 AGTATTTTCTTAGTGGGCCGAAAG 59.058 41.667 0.00 2.31 0.00 2.62
934 938 4.913784 AGTATTTTCTTAGTGGGCCGAAA 58.086 39.130 0.00 0.00 0.00 3.46
935 939 4.510571 GAGTATTTTCTTAGTGGGCCGAA 58.489 43.478 0.00 0.00 0.00 4.30
936 940 3.118519 GGAGTATTTTCTTAGTGGGCCGA 60.119 47.826 0.00 0.00 0.00 5.54
937 941 3.118371 AGGAGTATTTTCTTAGTGGGCCG 60.118 47.826 0.00 0.00 0.00 6.13
938 942 4.505324 AGGAGTATTTTCTTAGTGGGCC 57.495 45.455 0.00 0.00 0.00 5.80
939 943 6.127140 TGAGTAGGAGTATTTTCTTAGTGGGC 60.127 42.308 0.00 0.00 0.00 5.36
940 944 7.124448 AGTGAGTAGGAGTATTTTCTTAGTGGG 59.876 40.741 0.00 0.00 0.00 4.61
941 945 8.068892 AGTGAGTAGGAGTATTTTCTTAGTGG 57.931 38.462 0.00 0.00 0.00 4.00
942 946 8.962679 AGAGTGAGTAGGAGTATTTTCTTAGTG 58.037 37.037 0.00 0.00 0.00 2.74
943 947 9.181061 GAGAGTGAGTAGGAGTATTTTCTTAGT 57.819 37.037 0.00 0.00 0.00 2.24
944 948 9.179909 TGAGAGTGAGTAGGAGTATTTTCTTAG 57.820 37.037 0.00 0.00 0.00 2.18
945 949 9.179909 CTGAGAGTGAGTAGGAGTATTTTCTTA 57.820 37.037 0.00 0.00 0.00 2.10
946 950 7.672239 ACTGAGAGTGAGTAGGAGTATTTTCTT 59.328 37.037 0.00 0.00 0.00 2.52
947 951 7.179269 ACTGAGAGTGAGTAGGAGTATTTTCT 58.821 38.462 0.00 0.00 0.00 2.52
948 952 7.338449 AGACTGAGAGTGAGTAGGAGTATTTTC 59.662 40.741 0.00 0.00 0.00 2.29
949 953 7.179269 AGACTGAGAGTGAGTAGGAGTATTTT 58.821 38.462 0.00 0.00 0.00 1.82
950 954 6.727394 AGACTGAGAGTGAGTAGGAGTATTT 58.273 40.000 0.00 0.00 0.00 1.40
951 955 6.321821 AGACTGAGAGTGAGTAGGAGTATT 57.678 41.667 0.00 0.00 0.00 1.89
952 956 5.163237 GGAGACTGAGAGTGAGTAGGAGTAT 60.163 48.000 0.00 0.00 0.00 2.12
953 957 4.162698 GGAGACTGAGAGTGAGTAGGAGTA 59.837 50.000 0.00 0.00 0.00 2.59
954 958 3.054655 GGAGACTGAGAGTGAGTAGGAGT 60.055 52.174 0.00 0.00 0.00 3.85
955 959 3.054728 TGGAGACTGAGAGTGAGTAGGAG 60.055 52.174 0.00 0.00 0.00 3.69
956 960 2.913617 TGGAGACTGAGAGTGAGTAGGA 59.086 50.000 0.00 0.00 0.00 2.94
957 961 3.013921 GTGGAGACTGAGAGTGAGTAGG 58.986 54.545 0.00 0.00 0.00 3.18
958 962 3.938963 GAGTGGAGACTGAGAGTGAGTAG 59.061 52.174 0.00 0.00 30.16 2.57
959 963 3.585289 AGAGTGGAGACTGAGAGTGAGTA 59.415 47.826 0.00 0.00 30.16 2.59
960 964 2.375174 AGAGTGGAGACTGAGAGTGAGT 59.625 50.000 0.00 0.00 30.16 3.41
961 965 3.009723 GAGAGTGGAGACTGAGAGTGAG 58.990 54.545 0.00 0.00 30.16 3.51
962 966 2.290641 GGAGAGTGGAGACTGAGAGTGA 60.291 54.545 0.00 0.00 30.16 3.41
963 967 2.091541 GGAGAGTGGAGACTGAGAGTG 58.908 57.143 0.00 0.00 30.16 3.51
964 968 1.707989 TGGAGAGTGGAGACTGAGAGT 59.292 52.381 0.00 0.00 30.16 3.24
965 969 2.290896 ACTGGAGAGTGGAGACTGAGAG 60.291 54.545 0.00 0.00 30.16 3.20
966 970 1.707989 ACTGGAGAGTGGAGACTGAGA 59.292 52.381 0.00 0.00 30.16 3.27
967 971 2.214376 ACTGGAGAGTGGAGACTGAG 57.786 55.000 0.00 0.00 30.16 3.35
968 972 2.291024 GGTACTGGAGAGTGGAGACTGA 60.291 54.545 0.00 0.00 33.21 3.41
969 973 2.096248 GGTACTGGAGAGTGGAGACTG 58.904 57.143 0.00 0.00 33.21 3.51
970 974 1.006162 GGGTACTGGAGAGTGGAGACT 59.994 57.143 0.00 0.00 33.21 3.24
1002 1006 1.667154 TTCCCGTGAGCGATCTGGAG 61.667 60.000 13.08 4.86 41.33 3.86
1003 1007 1.043116 ATTCCCGTGAGCGATCTGGA 61.043 55.000 13.08 8.31 41.33 3.86
1004 1008 0.598680 GATTCCCGTGAGCGATCTGG 60.599 60.000 0.90 3.73 41.33 3.86
1005 1009 0.598680 GGATTCCCGTGAGCGATCTG 60.599 60.000 0.90 0.00 41.33 2.90
1006 1010 0.757188 AGGATTCCCGTGAGCGATCT 60.757 55.000 0.90 0.00 41.33 2.75
1007 1011 0.319125 GAGGATTCCCGTGAGCGATC 60.319 60.000 0.00 0.00 41.33 3.69
1008 1012 0.757188 AGAGGATTCCCGTGAGCGAT 60.757 55.000 0.00 0.00 41.33 4.58
1009 1013 0.970937 AAGAGGATTCCCGTGAGCGA 60.971 55.000 0.00 0.00 41.33 4.93
1010 1014 0.528684 GAAGAGGATTCCCGTGAGCG 60.529 60.000 0.00 0.00 37.58 5.03
1011 1015 0.179070 GGAAGAGGATTCCCGTGAGC 60.179 60.000 0.00 0.00 37.58 4.26
1012 1016 0.103208 CGGAAGAGGATTCCCGTGAG 59.897 60.000 0.00 0.00 37.40 3.51
1013 1017 1.956629 GCGGAAGAGGATTCCCGTGA 61.957 60.000 0.00 0.00 43.51 4.35
1014 1018 1.521681 GCGGAAGAGGATTCCCGTG 60.522 63.158 0.00 0.00 43.51 4.94
1015 1019 2.732619 GGCGGAAGAGGATTCCCGT 61.733 63.158 0.00 0.00 43.51 5.28
1096 1106 2.764128 GGACGCCAGGGATGGAGA 60.764 66.667 4.98 0.00 32.87 3.71
1110 1120 1.227176 GTATCCTCAACGGCGGGAC 60.227 63.158 13.24 0.00 31.48 4.46
1111 1121 1.380785 AGTATCCTCAACGGCGGGA 60.381 57.895 13.24 8.66 0.00 5.14
1112 1122 1.227263 CAGTATCCTCAACGGCGGG 60.227 63.158 13.24 2.02 0.00 6.13
1113 1123 0.108329 AACAGTATCCTCAACGGCGG 60.108 55.000 13.24 0.00 0.00 6.13
1114 1124 1.659098 GAAACAGTATCCTCAACGGCG 59.341 52.381 4.80 4.80 0.00 6.46
1120 1130 2.026262 GGGCCAAGAAACAGTATCCTCA 60.026 50.000 4.39 0.00 0.00 3.86
1213 1223 3.878086 AAACATGTACAGCACAGAACG 57.122 42.857 0.00 0.00 41.51 3.95
1217 1227 6.264832 TGAAAAGAAAACATGTACAGCACAG 58.735 36.000 0.00 0.00 41.51 3.66
1255 1265 8.648968 GTTTGCTACTGATAGTTAGAAAGTCAC 58.351 37.037 0.00 0.00 0.00 3.67
1298 1314 2.718073 CGGCTACCTACCAACCGCT 61.718 63.158 0.00 0.00 37.05 5.52
1299 1315 2.202837 CGGCTACCTACCAACCGC 60.203 66.667 0.00 0.00 37.05 5.68
1300 1316 2.202837 GCGGCTACCTACCAACCG 60.203 66.667 0.00 0.00 46.50 4.44
1302 1318 1.296727 GATTGCGGCTACCTACCAAC 58.703 55.000 0.00 0.00 0.00 3.77
1303 1319 0.179468 GGATTGCGGCTACCTACCAA 59.821 55.000 0.00 0.00 0.00 3.67
1304 1320 1.827394 GGATTGCGGCTACCTACCA 59.173 57.895 0.00 0.00 0.00 3.25
1305 1321 1.300697 CGGATTGCGGCTACCTACC 60.301 63.158 0.00 0.00 0.00 3.18
1306 1322 1.300697 CCGGATTGCGGCTACCTAC 60.301 63.158 2.90 0.00 0.00 3.18
1315 1331 2.125552 TCAGACAGCCGGATTGCG 60.126 61.111 5.05 0.00 36.02 4.85
1357 1376 2.479219 GCAACAGCTACGAGTAGTACCC 60.479 54.545 11.39 0.00 35.65 3.69
1430 1449 0.839946 AACTTGGAGTGGTGCTCAGT 59.160 50.000 0.00 0.00 45.88 3.41
1481 1500 1.668419 GGGGTATCACACACATCTGC 58.332 55.000 0.00 0.00 29.07 4.26
1605 1651 2.106566 TGATCTCAGAGGAGGAAGCAC 58.893 52.381 0.00 0.00 41.69 4.40
1697 1777 2.105128 CGGAGCCGAAGCCAGTAG 59.895 66.667 2.00 0.00 42.83 2.57
1698 1778 3.458163 CCGGAGCCGAAGCCAGTA 61.458 66.667 11.05 0.00 42.83 2.74
1884 1987 1.406614 CCTTCGCTTTCTCCATCTGCT 60.407 52.381 0.00 0.00 0.00 4.24
1939 2044 2.048222 TCTTCAAGCGAGTGGCCG 60.048 61.111 0.00 0.00 45.17 6.13
1954 2059 1.133325 ACGACAGCCCCATAGATCTCT 60.133 52.381 0.00 0.00 0.00 3.10
2011 2117 3.075005 ATACCTGCCACCGCGTCT 61.075 61.111 4.92 0.00 38.08 4.18
2104 2227 0.323178 ATTCTGGGCAGTCAAGCAGG 60.323 55.000 0.00 0.00 35.83 4.85
2379 2532 1.132881 TGATTTTGGTGGCCCTTTCCT 60.133 47.619 0.00 0.00 0.00 3.36
2381 2534 2.632512 TCTTGATTTTGGTGGCCCTTTC 59.367 45.455 0.00 0.00 0.00 2.62
2503 2677 1.544691 TCGAGGTTGTTAGACTCTGCC 59.455 52.381 0.00 0.00 0.00 4.85
2878 3169 2.152699 CCTTCGTAGCTCGTGCACG 61.153 63.158 32.76 32.76 42.74 5.34
3262 3570 9.467258 CAACAATTTGACAAATGTAGAACAGAT 57.533 29.630 14.05 0.00 34.24 2.90
3271 3579 4.511527 TGTGCCAACAATTTGACAAATGT 58.488 34.783 14.05 11.08 34.24 2.71
3312 3620 8.375506 TGAGGTGAAGTTGTAACTCAGAATTAT 58.624 33.333 0.00 0.00 38.57 1.28
3313 3621 7.732025 TGAGGTGAAGTTGTAACTCAGAATTA 58.268 34.615 0.00 0.00 38.57 1.40
3314 3622 6.591935 TGAGGTGAAGTTGTAACTCAGAATT 58.408 36.000 0.00 0.00 38.57 2.17
3315 3623 6.174720 TGAGGTGAAGTTGTAACTCAGAAT 57.825 37.500 0.00 0.00 38.57 2.40
3316 3624 5.607939 TGAGGTGAAGTTGTAACTCAGAA 57.392 39.130 0.00 0.00 38.57 3.02
3447 3759 1.136329 ACCACACCTCATTCCCAGCT 61.136 55.000 0.00 0.00 0.00 4.24
3548 3872 3.726557 TCTTCCTCGTCCTACCAGTAA 57.273 47.619 0.00 0.00 0.00 2.24
3557 3881 2.040178 ACCACCATATCTTCCTCGTCC 58.960 52.381 0.00 0.00 0.00 4.79
3587 3911 3.503363 CCACTGATACACAACTTGCACAT 59.497 43.478 0.00 0.00 0.00 3.21
3606 3930 6.909909 ACAAGGAAACGAAATTAAGATCCAC 58.090 36.000 0.00 0.00 0.00 4.02
3727 4055 0.250424 CATCGCATGGCCTGATACCA 60.250 55.000 3.32 0.00 42.61 3.25
3729 4057 0.870393 CACATCGCATGGCCTGATAC 59.130 55.000 3.32 0.00 33.60 2.24
3747 4075 1.135199 GTCGATTAACTCCAGCCGTCA 60.135 52.381 0.00 0.00 0.00 4.35
3875 4209 1.266989 CACAGCACTGTAGAGACGACA 59.733 52.381 2.38 0.00 42.83 4.35
3876 4210 1.401670 CCACAGCACTGTAGAGACGAC 60.402 57.143 2.38 0.00 42.83 4.34
3877 4211 0.881796 CCACAGCACTGTAGAGACGA 59.118 55.000 2.38 0.00 42.83 4.20
3878 4212 0.734253 GCCACAGCACTGTAGAGACG 60.734 60.000 2.38 0.00 42.83 4.18
3879 4213 0.390472 GGCCACAGCACTGTAGAGAC 60.390 60.000 2.38 0.00 42.83 3.36
3880 4214 0.831711 TGGCCACAGCACTGTAGAGA 60.832 55.000 0.00 0.00 42.83 3.10
3881 4215 0.390866 CTGGCCACAGCACTGTAGAG 60.391 60.000 0.00 0.00 42.83 2.43
3882 4216 1.673477 CTGGCCACAGCACTGTAGA 59.327 57.895 0.00 0.00 42.83 2.59
3883 4217 4.291047 CTGGCCACAGCACTGTAG 57.709 61.111 0.00 0.00 42.83 2.74
3909 6857 8.766994 ATTGCCCAAACATAGTTAGTGAATAT 57.233 30.769 0.00 0.00 0.00 1.28
3940 6888 0.108186 TCATGGGTCGTCATGCTGAC 60.108 55.000 8.22 8.22 42.96 3.51
4003 6951 6.908825 TCTTTTCATCTTACATTCCAAACCG 58.091 36.000 0.00 0.00 0.00 4.44
4013 6961 5.716228 ACAATGCCCATCTTTTCATCTTACA 59.284 36.000 0.00 0.00 0.00 2.41
4020 6968 2.250031 AGCACAATGCCCATCTTTTCA 58.750 42.857 0.00 0.00 46.52 2.69
4053 7001 4.650972 ACCAATAACTGCTACCCTTTGA 57.349 40.909 0.00 0.00 0.00 2.69
4059 7007 7.996385 ACATATCAAAACCAATAACTGCTACC 58.004 34.615 0.00 0.00 0.00 3.18
4062 7010 8.850156 GGATACATATCAAAACCAATAACTGCT 58.150 33.333 1.49 0.00 34.40 4.24
4063 7011 8.850156 AGGATACATATCAAAACCAATAACTGC 58.150 33.333 1.49 0.00 41.41 4.40
4071 7019 9.555727 GCTAGTAAAGGATACATATCAAAACCA 57.444 33.333 1.49 0.00 41.41 3.67
4072 7020 9.000486 GGCTAGTAAAGGATACATATCAAAACC 58.000 37.037 1.49 0.00 41.41 3.27
4073 7021 9.000486 GGGCTAGTAAAGGATACATATCAAAAC 58.000 37.037 1.49 0.00 41.41 2.43
4074 7022 8.719596 TGGGCTAGTAAAGGATACATATCAAAA 58.280 33.333 1.49 0.00 41.41 2.44
4075 7023 8.270137 TGGGCTAGTAAAGGATACATATCAAA 57.730 34.615 1.49 0.00 41.41 2.69
4076 7024 7.038302 CCTGGGCTAGTAAAGGATACATATCAA 60.038 40.741 0.00 0.00 41.41 2.57
4145 7115 3.996150 ATTTGGCAGCGGAAATAGATG 57.004 42.857 0.18 0.00 0.00 2.90
4148 7118 5.650543 AGTTTTATTTGGCAGCGGAAATAG 58.349 37.500 7.80 0.00 0.00 1.73
4180 7150 7.219535 GCGACATTCAAAACTAACTAGACGATA 59.780 37.037 0.00 0.00 0.00 2.92
4206 7176 9.994432 CATTTAAAACTATCCTGTCTTTAGCTG 57.006 33.333 0.00 0.00 0.00 4.24


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

AutoCloner maintained by Alex Coulton.