Multiple sequence alignment - TraesCS2A01G310600

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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 TraesCS2A01G310600 chr2A 100.000 2855 0 0 1 2855 533954863 533957717 0.000000e+00 5273
1 TraesCS2A01G310600 chr2A 94.551 1248 66 2 635 1881 578630024 578628778 0.000000e+00 1927
2 TraesCS2A01G310600 chr2A 93.284 804 47 4 2059 2855 284326114 284325311 0.000000e+00 1179
3 TraesCS2A01G310600 chr2A 93.193 808 44 5 2059 2855 85003660 85004467 0.000000e+00 1177
4 TraesCS2A01G310600 chr2A 92.786 804 51 5 2059 2855 665800640 665801443 0.000000e+00 1157
5 TraesCS2A01G310600 chr2A 92.460 809 48 6 2059 2855 276228983 276228176 0.000000e+00 1144
6 TraesCS2A01G310600 chr2A 94.322 634 35 1 1 633 108161181 108160548 0.000000e+00 970
7 TraesCS2A01G310600 chr2A 94.322 634 34 2 1 633 777648794 777649426 0.000000e+00 970
8 TraesCS2A01G310600 chr6A 88.889 1791 191 7 78 1862 523838333 523836545 0.000000e+00 2198
9 TraesCS2A01G310600 chr6A 94.707 1247 66 0 635 1881 401015795 401014549 0.000000e+00 1938
10 TraesCS2A01G310600 chr6A 93.978 631 37 1 1 630 54518649 54519279 0.000000e+00 953
11 TraesCS2A01G310600 chr6A 98.485 132 2 0 1918 2049 203460655 203460524 1.710000e-57 233
12 TraesCS2A01G310600 chr6A 98.485 132 2 0 1918 2049 450328757 450328888 1.710000e-57 233
13 TraesCS2A01G310600 chr6A 98.485 132 2 0 1918 2049 489167455 489167324 1.710000e-57 233
14 TraesCS2A01G310600 chr3A 95.211 1253 59 1 629 1881 666063013 666064264 0.000000e+00 1980
15 TraesCS2A01G310600 chr3A 92.346 810 49 4 2059 2855 68392870 68392061 0.000000e+00 1140
16 TraesCS2A01G310600 chr3A 94.479 634 33 2 1 633 27633870 27633238 0.000000e+00 976
17 TraesCS2A01G310600 chr3A 94.322 634 34 2 1 633 569435599 569436231 0.000000e+00 970
18 TraesCS2A01G310600 chr3A 98.485 132 2 0 1918 2049 171937750 171937881 1.710000e-57 233
19 TraesCS2A01G310600 chr3A 98.485 132 2 0 1918 2049 379715252 379715383 1.710000e-57 233
20 TraesCS2A01G310600 chr3A 98.485 132 2 0 1918 2049 424216610 424216479 1.710000e-57 233
21 TraesCS2A01G310600 chr5A 94.940 1245 63 0 637 1881 413712184 413710940 0.000000e+00 1951
22 TraesCS2A01G310600 chr5A 94.547 1247 64 3 638 1881 597600166 597598921 0.000000e+00 1923
23 TraesCS2A01G310600 chr5A 83.766 1811 262 23 7 1801 589627541 589625747 0.000000e+00 1687
24 TraesCS2A01G310600 chr5A 92.193 807 52 6 2059 2855 185591621 185592426 0.000000e+00 1131
25 TraesCS2A01G310600 chr5A 94.479 634 34 1 1 633 427647019 427646386 0.000000e+00 976
26 TraesCS2A01G310600 chr1A 94.413 1253 70 0 629 1881 120049825 120051077 0.000000e+00 1927
27 TraesCS2A01G310600 chr1A 94.334 1253 71 0 629 1881 218345369 218346621 0.000000e+00 1921
28 TraesCS2A01G310600 chr1A 94.479 634 34 1 1 633 326589491 326588858 0.000000e+00 976
29 TraesCS2A01G310600 chr1A 94.479 634 34 1 1 633 546390743 546390110 0.000000e+00 976
30 TraesCS2A01G310600 chr1A 94.164 634 36 1 1 633 323331995 323331362 0.000000e+00 965
31 TraesCS2A01G310600 chr1A 94.016 635 34 4 1 633 129287616 129286984 0.000000e+00 959
32 TraesCS2A01G310600 chr1A 93.849 634 38 1 1 633 129489510 129488877 0.000000e+00 953
33 TraesCS2A01G310600 chr1A 93.849 634 38 1 1 633 503188761 503188128 0.000000e+00 953
34 TraesCS2A01G310600 chr1A 93.691 634 38 2 1 633 326645397 326644765 0.000000e+00 948
35 TraesCS2A01G310600 chr1A 93.533 634 39 2 1 633 304058381 304059013 0.000000e+00 942
36 TraesCS2A01G310600 chr1A 99.242 132 1 0 1918 2049 50041770 50041901 3.680000e-59 239
37 TraesCS2A01G310600 chr7A 94.467 1247 69 0 635 1881 124964430 124963184 0.000000e+00 1921
38 TraesCS2A01G310600 chr7A 92.902 803 50 4 2059 2854 705874349 705873547 0.000000e+00 1160
39 TraesCS2A01G310600 chr7A 92.574 808 49 4 2059 2855 124963206 124962399 0.000000e+00 1149
40 TraesCS2A01G310600 chr7A 94.479 634 34 1 1 633 164600487 164599854 0.000000e+00 976
41 TraesCS2A01G310600 chr7A 94.304 632 35 1 1 631 340736916 340737547 0.000000e+00 966
42 TraesCS2A01G310600 chr7A 94.164 634 36 1 1 633 450610524 450611157 0.000000e+00 965
43 TraesCS2A01G310600 chr7A 94.164 634 36 1 1 633 584839276 584839909 0.000000e+00 965
44 TraesCS2A01G310600 chr4A 92.460 809 48 7 2060 2855 281535253 281536061 0.000000e+00 1144
45 TraesCS2A01G310600 chr4A 94.953 634 31 1 1 633 114029403 114028770 0.000000e+00 992
46 TraesCS2A01G310600 chr4A 98.485 132 2 0 1918 2049 543968569 543968700 1.710000e-57 233
47 TraesCS2A01G310600 chr4A 98.485 132 2 0 1918 2049 637942542 637942673 1.710000e-57 233
48 TraesCS2A01G310600 chrUn 92.902 634 44 1 1 633 300122709 300122076 0.000000e+00 920
49 TraesCS2A01G310600 chrUn 91.956 634 48 3 1 633 82127620 82128251 0.000000e+00 885
50 TraesCS2A01G310600 chrUn 91.181 635 54 2 1 633 327537719 327538353 0.000000e+00 861
51 TraesCS2A01G310600 chrUn 90.379 634 60 1 1 633 164814856 164814223 0.000000e+00 832
52 TraesCS2A01G310600 chrUn 89.873 632 63 1 1 631 33469033 33468402 0.000000e+00 811
53 TraesCS2A01G310600 chrUn 89.873 632 63 1 1 631 301593834 301593203 0.000000e+00 811
54 TraesCS2A01G310600 chrUn 89.873 632 63 1 1 631 400730603 400729972 0.000000e+00 811
55 TraesCS2A01G310600 chrUn 89.399 632 66 1 1 631 33859978 33860609 0.000000e+00 795


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 TraesCS2A01G310600 chr2A 533954863 533957717 2854 False 5273 5273 100.0000 1 2855 1 chr2A.!!$F2 2854
1 TraesCS2A01G310600 chr2A 578628778 578630024 1246 True 1927 1927 94.5510 635 1881 1 chr2A.!!$R4 1246
2 TraesCS2A01G310600 chr2A 284325311 284326114 803 True 1179 1179 93.2840 2059 2855 1 chr2A.!!$R3 796
3 TraesCS2A01G310600 chr2A 85003660 85004467 807 False 1177 1177 93.1930 2059 2855 1 chr2A.!!$F1 796
4 TraesCS2A01G310600 chr2A 665800640 665801443 803 False 1157 1157 92.7860 2059 2855 1 chr2A.!!$F3 796
5 TraesCS2A01G310600 chr2A 276228176 276228983 807 True 1144 1144 92.4600 2059 2855 1 chr2A.!!$R2 796
6 TraesCS2A01G310600 chr2A 108160548 108161181 633 True 970 970 94.3220 1 633 1 chr2A.!!$R1 632
7 TraesCS2A01G310600 chr2A 777648794 777649426 632 False 970 970 94.3220 1 633 1 chr2A.!!$F4 632
8 TraesCS2A01G310600 chr6A 523836545 523838333 1788 True 2198 2198 88.8890 78 1862 1 chr6A.!!$R4 1784
9 TraesCS2A01G310600 chr6A 401014549 401015795 1246 True 1938 1938 94.7070 635 1881 1 chr6A.!!$R2 1246
10 TraesCS2A01G310600 chr6A 54518649 54519279 630 False 953 953 93.9780 1 630 1 chr6A.!!$F1 629
11 TraesCS2A01G310600 chr3A 666063013 666064264 1251 False 1980 1980 95.2110 629 1881 1 chr3A.!!$F4 1252
12 TraesCS2A01G310600 chr3A 68392061 68392870 809 True 1140 1140 92.3460 2059 2855 1 chr3A.!!$R2 796
13 TraesCS2A01G310600 chr3A 27633238 27633870 632 True 976 976 94.4790 1 633 1 chr3A.!!$R1 632
14 TraesCS2A01G310600 chr3A 569435599 569436231 632 False 970 970 94.3220 1 633 1 chr3A.!!$F3 632
15 TraesCS2A01G310600 chr5A 413710940 413712184 1244 True 1951 1951 94.9400 637 1881 1 chr5A.!!$R1 1244
16 TraesCS2A01G310600 chr5A 597598921 597600166 1245 True 1923 1923 94.5470 638 1881 1 chr5A.!!$R4 1243
17 TraesCS2A01G310600 chr5A 589625747 589627541 1794 True 1687 1687 83.7660 7 1801 1 chr5A.!!$R3 1794
18 TraesCS2A01G310600 chr5A 185591621 185592426 805 False 1131 1131 92.1930 2059 2855 1 chr5A.!!$F1 796
19 TraesCS2A01G310600 chr5A 427646386 427647019 633 True 976 976 94.4790 1 633 1 chr5A.!!$R2 632
20 TraesCS2A01G310600 chr1A 120049825 120051077 1252 False 1927 1927 94.4130 629 1881 1 chr1A.!!$F2 1252
21 TraesCS2A01G310600 chr1A 218345369 218346621 1252 False 1921 1921 94.3340 629 1881 1 chr1A.!!$F3 1252
22 TraesCS2A01G310600 chr1A 326588858 326589491 633 True 976 976 94.4790 1 633 1 chr1A.!!$R4 632
23 TraesCS2A01G310600 chr1A 546390110 546390743 633 True 976 976 94.4790 1 633 1 chr1A.!!$R7 632
24 TraesCS2A01G310600 chr1A 323331362 323331995 633 True 965 965 94.1640 1 633 1 chr1A.!!$R3 632
25 TraesCS2A01G310600 chr1A 129286984 129287616 632 True 959 959 94.0160 1 633 1 chr1A.!!$R1 632
26 TraesCS2A01G310600 chr1A 129488877 129489510 633 True 953 953 93.8490 1 633 1 chr1A.!!$R2 632
27 TraesCS2A01G310600 chr1A 503188128 503188761 633 True 953 953 93.8490 1 633 1 chr1A.!!$R6 632
28 TraesCS2A01G310600 chr1A 326644765 326645397 632 True 948 948 93.6910 1 633 1 chr1A.!!$R5 632
29 TraesCS2A01G310600 chr1A 304058381 304059013 632 False 942 942 93.5330 1 633 1 chr1A.!!$F4 632
30 TraesCS2A01G310600 chr7A 124962399 124964430 2031 True 1535 1921 93.5205 635 2855 2 chr7A.!!$R3 2220
31 TraesCS2A01G310600 chr7A 705873547 705874349 802 True 1160 1160 92.9020 2059 2854 1 chr7A.!!$R2 795
32 TraesCS2A01G310600 chr7A 164599854 164600487 633 True 976 976 94.4790 1 633 1 chr7A.!!$R1 632
33 TraesCS2A01G310600 chr7A 340736916 340737547 631 False 966 966 94.3040 1 631 1 chr7A.!!$F1 630
34 TraesCS2A01G310600 chr7A 450610524 450611157 633 False 965 965 94.1640 1 633 1 chr7A.!!$F2 632
35 TraesCS2A01G310600 chr7A 584839276 584839909 633 False 965 965 94.1640 1 633 1 chr7A.!!$F3 632
36 TraesCS2A01G310600 chr4A 281535253 281536061 808 False 1144 1144 92.4600 2060 2855 1 chr4A.!!$F1 795
37 TraesCS2A01G310600 chr4A 114028770 114029403 633 True 992 992 94.9530 1 633 1 chr4A.!!$R1 632
38 TraesCS2A01G310600 chrUn 300122076 300122709 633 True 920 920 92.9020 1 633 1 chrUn.!!$R3 632
39 TraesCS2A01G310600 chrUn 82127620 82128251 631 False 885 885 91.9560 1 633 1 chrUn.!!$F2 632
40 TraesCS2A01G310600 chrUn 327537719 327538353 634 False 861 861 91.1810 1 633 1 chrUn.!!$F3 632
41 TraesCS2A01G310600 chrUn 164814223 164814856 633 True 832 832 90.3790 1 633 1 chrUn.!!$R2 632
42 TraesCS2A01G310600 chrUn 33468402 33469033 631 True 811 811 89.8730 1 631 1 chrUn.!!$R1 630
43 TraesCS2A01G310600 chrUn 301593203 301593834 631 True 811 811 89.8730 1 631 1 chrUn.!!$R4 630
44 TraesCS2A01G310600 chrUn 400729972 400730603 631 True 811 811 89.8730 1 631 1 chrUn.!!$R5 630
45 TraesCS2A01G310600 chrUn 33859978 33860609 631 False 795 795 89.3990 1 631 1 chrUn.!!$F1 630

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
320 326 0.259065 TAGCGATCCAGTCCTGACCT 59.741 55.0 0.0 0.0 0.0 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1987 2009 0.034089 GGTTTGCCCAGCTCCTATGT 60.034 55.0 0.0 0.0 0.0 2.29 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
320 326 0.259065 TAGCGATCCAGTCCTGACCT 59.741 55.000 0.00 0.00 0.00 3.85
426 432 2.341101 GCGACCTTCCAGACTCCGA 61.341 63.158 0.00 0.00 0.00 4.55
633 642 4.498520 CGACGAGGAGCACCGCAT 62.499 66.667 4.63 0.00 41.83 4.73
655 669 1.137086 GAGCGGATTGACTGAAGCCTA 59.863 52.381 0.00 0.00 38.05 3.93
903 919 0.905337 CGAGGGGTCCAGGAAAGAGT 60.905 60.000 0.00 0.00 0.00 3.24
950 966 4.436079 AGGAGAACAGGGGTAAGTAATGT 58.564 43.478 0.00 0.00 0.00 2.71
1001 1021 4.771590 AGACGTGATTGCAAAATGACAT 57.228 36.364 1.71 0.00 0.00 3.06
1021 1041 5.653507 ACATGATCATTGTATGTTTGCCAC 58.346 37.500 5.16 0.00 31.38 5.01
1087 1107 1.651987 CGAAGATAAAGCGGCCAAGA 58.348 50.000 2.24 0.00 0.00 3.02
1114 1134 1.797441 GAGCGAGAGAAGCACGAGA 59.203 57.895 0.00 0.00 37.01 4.04
1225 1245 2.046700 CCGCGGCCCTTGAAAGTA 60.047 61.111 14.67 0.00 0.00 2.24
1402 1422 2.216782 TTTGCCCCACAGTGTGTCCA 62.217 55.000 21.48 12.14 0.00 4.02
1419 1439 3.056250 TGTCCAATGCCGCACAATTTTAT 60.056 39.130 0.00 0.00 0.00 1.40
1460 1480 0.759346 ACGGAGAAGCTGTTCTGGTT 59.241 50.000 10.37 0.00 43.50 3.67
1532 1552 0.833287 ATGGTCGAGCTGCATAAGGT 59.167 50.000 16.64 0.00 40.07 3.50
1553 1573 3.786656 CCGATCAGGCCATGAAGAA 57.213 52.632 5.01 0.00 42.53 2.52
1717 1738 2.362077 GTGAAATTGCAGTGGGTCAAGT 59.638 45.455 0.00 0.00 0.00 3.16
1908 1930 3.255725 TGACTAATAAGGCAACCGAACG 58.744 45.455 0.00 0.00 38.01 3.95
1909 1931 2.606272 GACTAATAAGGCAACCGAACGG 59.394 50.000 11.83 11.83 42.03 4.44
1910 1932 1.937899 CTAATAAGGCAACCGAACGGG 59.062 52.381 17.44 1.91 43.62 5.28
1920 1942 1.871077 CCGAACGGGTGCTAAAACC 59.129 57.895 5.25 0.00 39.71 3.27
1924 1946 2.748647 CGGGTGCTAAAACCGGGG 60.749 66.667 6.32 0.00 43.69 5.73
1925 1947 3.066190 GGGTGCTAAAACCGGGGC 61.066 66.667 6.32 2.38 41.52 5.80
1926 1948 2.282603 GGTGCTAAAACCGGGGCA 60.283 61.111 6.32 5.28 0.00 5.36
1927 1949 2.959372 GTGCTAAAACCGGGGCAC 59.041 61.111 6.32 13.97 45.93 5.01
1928 1950 2.516405 TGCTAAAACCGGGGCACA 59.484 55.556 6.32 0.00 0.00 4.57
1929 1951 1.152735 TGCTAAAACCGGGGCACAA 60.153 52.632 6.32 0.00 0.00 3.33
1930 1952 0.540830 TGCTAAAACCGGGGCACAAT 60.541 50.000 6.32 0.00 0.00 2.71
1931 1953 0.172578 GCTAAAACCGGGGCACAATC 59.827 55.000 6.32 0.00 0.00 2.67
1932 1954 0.450184 CTAAAACCGGGGCACAATCG 59.550 55.000 6.32 0.00 0.00 3.34
1933 1955 1.587933 TAAAACCGGGGCACAATCGC 61.588 55.000 6.32 0.00 0.00 4.58
1934 1956 4.652131 AACCGGGGCACAATCGCA 62.652 61.111 6.32 0.00 0.00 5.10
1937 1959 2.125310 CGGGGCACAATCGCAGTA 60.125 61.111 0.00 0.00 0.00 2.74
1938 1960 2.173669 CGGGGCACAATCGCAGTAG 61.174 63.158 0.00 0.00 0.00 2.57
1939 1961 1.078426 GGGGCACAATCGCAGTAGT 60.078 57.895 0.00 0.00 0.00 2.73
1940 1962 0.676782 GGGGCACAATCGCAGTAGTT 60.677 55.000 0.00 0.00 0.00 2.24
1941 1963 0.727398 GGGCACAATCGCAGTAGTTC 59.273 55.000 0.00 0.00 0.00 3.01
1942 1964 1.676014 GGGCACAATCGCAGTAGTTCT 60.676 52.381 0.00 0.00 0.00 3.01
1943 1965 1.661112 GGCACAATCGCAGTAGTTCTC 59.339 52.381 0.00 0.00 0.00 2.87
1944 1966 1.661112 GCACAATCGCAGTAGTTCTCC 59.339 52.381 0.00 0.00 0.00 3.71
1945 1967 2.675317 GCACAATCGCAGTAGTTCTCCT 60.675 50.000 0.00 0.00 0.00 3.69
1946 1968 3.428999 GCACAATCGCAGTAGTTCTCCTA 60.429 47.826 0.00 0.00 0.00 2.94
1947 1969 4.355437 CACAATCGCAGTAGTTCTCCTAG 58.645 47.826 0.00 0.00 0.00 3.02
1948 1970 3.181485 ACAATCGCAGTAGTTCTCCTAGC 60.181 47.826 0.00 0.00 0.00 3.42
1949 1971 2.124277 TCGCAGTAGTTCTCCTAGCA 57.876 50.000 0.00 0.00 0.00 3.49
1950 1972 1.743958 TCGCAGTAGTTCTCCTAGCAC 59.256 52.381 0.00 0.00 0.00 4.40
1951 1973 1.746220 CGCAGTAGTTCTCCTAGCACT 59.254 52.381 0.00 0.00 0.00 4.40
1952 1974 2.943690 CGCAGTAGTTCTCCTAGCACTA 59.056 50.000 0.00 0.00 0.00 2.74
1953 1975 3.242804 CGCAGTAGTTCTCCTAGCACTAC 60.243 52.174 8.30 8.30 42.19 2.73
1954 1976 3.067040 GCAGTAGTTCTCCTAGCACTACC 59.933 52.174 11.57 0.00 42.65 3.18
1955 1977 4.528920 CAGTAGTTCTCCTAGCACTACCT 58.471 47.826 11.57 0.48 42.65 3.08
1956 1978 4.951094 CAGTAGTTCTCCTAGCACTACCTT 59.049 45.833 11.57 0.00 42.65 3.50
1957 1979 6.120905 CAGTAGTTCTCCTAGCACTACCTTA 58.879 44.000 11.57 0.00 42.65 2.69
1958 1980 6.261381 CAGTAGTTCTCCTAGCACTACCTTAG 59.739 46.154 11.57 0.16 42.65 2.18
1959 1981 3.955551 AGTTCTCCTAGCACTACCTTAGC 59.044 47.826 0.00 0.00 0.00 3.09
1960 1982 2.946785 TCTCCTAGCACTACCTTAGCC 58.053 52.381 0.00 0.00 0.00 3.93
1961 1983 1.609555 CTCCTAGCACTACCTTAGCCG 59.390 57.143 0.00 0.00 0.00 5.52
1962 1984 1.213678 TCCTAGCACTACCTTAGCCGA 59.786 52.381 0.00 0.00 0.00 5.54
1963 1985 2.158505 TCCTAGCACTACCTTAGCCGAT 60.159 50.000 0.00 0.00 0.00 4.18
1964 1986 3.073503 TCCTAGCACTACCTTAGCCGATA 59.926 47.826 0.00 0.00 0.00 2.92
1965 1987 3.440872 CCTAGCACTACCTTAGCCGATAG 59.559 52.174 0.00 0.00 0.00 2.08
1966 1988 3.225177 AGCACTACCTTAGCCGATAGA 57.775 47.619 0.00 0.00 39.76 1.98
1967 1989 3.150767 AGCACTACCTTAGCCGATAGAG 58.849 50.000 0.00 0.00 39.76 2.43
1968 1990 2.351932 GCACTACCTTAGCCGATAGAGC 60.352 54.545 0.00 0.00 39.76 4.09
1969 1991 2.095668 CACTACCTTAGCCGATAGAGCG 60.096 54.545 0.00 0.00 37.36 5.03
1992 2014 6.413018 GGAACGTAAGGTACCAAAACATAG 57.587 41.667 15.94 0.00 37.50 2.23
1993 2015 5.352293 GGAACGTAAGGTACCAAAACATAGG 59.648 44.000 15.94 5.54 37.50 2.57
1994 2016 5.743636 ACGTAAGGTACCAAAACATAGGA 57.256 39.130 15.94 0.00 46.39 2.94
1995 2017 5.727434 ACGTAAGGTACCAAAACATAGGAG 58.273 41.667 15.94 0.00 46.39 3.69
1996 2018 4.569564 CGTAAGGTACCAAAACATAGGAGC 59.430 45.833 15.94 0.00 0.00 4.70
1997 2019 4.929146 AAGGTACCAAAACATAGGAGCT 57.071 40.909 15.94 0.00 0.00 4.09
1998 2020 4.222124 AGGTACCAAAACATAGGAGCTG 57.778 45.455 15.94 0.00 0.00 4.24
1999 2021 3.054361 AGGTACCAAAACATAGGAGCTGG 60.054 47.826 15.94 0.00 0.00 4.85
2000 2022 2.514458 ACCAAAACATAGGAGCTGGG 57.486 50.000 0.00 0.00 0.00 4.45
2001 2023 1.106285 CCAAAACATAGGAGCTGGGC 58.894 55.000 0.00 0.00 0.00 5.36
2002 2024 1.616725 CCAAAACATAGGAGCTGGGCA 60.617 52.381 0.00 0.00 0.00 5.36
2003 2025 2.170166 CAAAACATAGGAGCTGGGCAA 58.830 47.619 0.00 0.00 0.00 4.52
2004 2026 2.562298 CAAAACATAGGAGCTGGGCAAA 59.438 45.455 0.00 0.00 0.00 3.68
2005 2027 1.839424 AACATAGGAGCTGGGCAAAC 58.161 50.000 0.00 0.00 0.00 2.93
2006 2028 0.034089 ACATAGGAGCTGGGCAAACC 60.034 55.000 0.00 0.00 40.81 3.27
2018 2040 1.877637 GGCAAACCCAACATTTGACC 58.122 50.000 1.76 0.00 38.87 4.02
2019 2041 1.139853 GGCAAACCCAACATTTGACCA 59.860 47.619 1.76 0.00 38.87 4.02
2020 2042 2.420687 GGCAAACCCAACATTTGACCAA 60.421 45.455 1.76 0.00 38.87 3.67
2021 2043 3.274288 GCAAACCCAACATTTGACCAAA 58.726 40.909 1.76 0.00 39.01 3.28
2022 2044 3.312146 GCAAACCCAACATTTGACCAAAG 59.688 43.478 1.76 0.00 39.01 2.77
2023 2045 4.764172 CAAACCCAACATTTGACCAAAGA 58.236 39.130 1.57 0.00 39.01 2.52
2024 2046 4.400529 AACCCAACATTTGACCAAAGAC 57.599 40.909 1.57 0.00 33.32 3.01
2025 2047 3.370104 ACCCAACATTTGACCAAAGACA 58.630 40.909 1.57 0.00 33.32 3.41
2026 2048 3.966665 ACCCAACATTTGACCAAAGACAT 59.033 39.130 1.57 0.00 33.32 3.06
2027 2049 4.202243 ACCCAACATTTGACCAAAGACATG 60.202 41.667 1.57 0.00 33.32 3.21
2028 2050 4.039004 CCCAACATTTGACCAAAGACATGA 59.961 41.667 0.00 0.00 33.32 3.07
2029 2051 5.279607 CCCAACATTTGACCAAAGACATGAT 60.280 40.000 0.00 0.00 33.32 2.45
2030 2052 6.225318 CCAACATTTGACCAAAGACATGATT 58.775 36.000 0.00 0.00 33.32 2.57
2031 2053 6.366877 CCAACATTTGACCAAAGACATGATTC 59.633 38.462 0.00 0.00 33.32 2.52
2032 2054 5.702865 ACATTTGACCAAAGACATGATTCG 58.297 37.500 0.00 0.00 33.32 3.34
2033 2055 4.764679 TTTGACCAAAGACATGATTCGG 57.235 40.909 0.00 0.00 0.00 4.30
2034 2056 3.694043 TGACCAAAGACATGATTCGGA 57.306 42.857 0.00 0.00 0.00 4.55
2035 2057 3.599343 TGACCAAAGACATGATTCGGAG 58.401 45.455 0.00 0.00 0.00 4.63
2036 2058 2.352960 GACCAAAGACATGATTCGGAGC 59.647 50.000 0.00 0.00 0.00 4.70
2037 2059 1.328680 CCAAAGACATGATTCGGAGCG 59.671 52.381 0.00 0.00 0.00 5.03
2038 2060 1.328680 CAAAGACATGATTCGGAGCGG 59.671 52.381 0.00 0.00 0.00 5.52
2039 2061 0.824109 AAGACATGATTCGGAGCGGA 59.176 50.000 0.00 0.00 0.00 5.54
2040 2062 1.043816 AGACATGATTCGGAGCGGAT 58.956 50.000 0.00 0.00 0.00 4.18
2041 2063 1.143305 GACATGATTCGGAGCGGATG 58.857 55.000 0.00 0.00 0.00 3.51
2042 2064 0.882042 ACATGATTCGGAGCGGATGC 60.882 55.000 0.00 0.00 43.24 3.91
2043 2065 0.881600 CATGATTCGGAGCGGATGCA 60.882 55.000 0.00 0.00 46.23 3.96
2044 2066 0.035881 ATGATTCGGAGCGGATGCAT 59.964 50.000 0.00 0.00 46.23 3.96
2045 2067 0.678950 TGATTCGGAGCGGATGCATA 59.321 50.000 0.00 0.00 46.23 3.14
2046 2068 1.276138 TGATTCGGAGCGGATGCATAT 59.724 47.619 0.00 0.00 46.23 1.78
2047 2069 2.495669 TGATTCGGAGCGGATGCATATA 59.504 45.455 0.00 0.00 46.23 0.86
2048 2070 3.056179 TGATTCGGAGCGGATGCATATAA 60.056 43.478 0.00 0.00 46.23 0.98
2049 2071 3.394674 TTCGGAGCGGATGCATATAAA 57.605 42.857 0.00 0.00 46.23 1.40
2050 2072 3.394674 TCGGAGCGGATGCATATAAAA 57.605 42.857 0.00 0.00 46.23 1.52
2051 2073 3.734463 TCGGAGCGGATGCATATAAAAA 58.266 40.909 0.00 0.00 46.23 1.94
2052 2074 3.496884 TCGGAGCGGATGCATATAAAAAC 59.503 43.478 0.00 0.00 46.23 2.43
2053 2075 3.249799 CGGAGCGGATGCATATAAAAACA 59.750 43.478 0.00 0.00 46.23 2.83
2054 2076 4.260990 CGGAGCGGATGCATATAAAAACAA 60.261 41.667 0.00 0.00 46.23 2.83
2055 2077 5.215160 GGAGCGGATGCATATAAAAACAAG 58.785 41.667 0.00 0.00 46.23 3.16
2056 2078 5.008613 GGAGCGGATGCATATAAAAACAAGA 59.991 40.000 0.00 0.00 46.23 3.02
2057 2079 6.064846 AGCGGATGCATATAAAAACAAGAG 57.935 37.500 0.00 0.00 46.23 2.85
2150 2176 4.729868 ACCTTCTGTTTGGCTGTTTATCT 58.270 39.130 0.00 0.00 0.00 1.98
2171 2197 4.968719 TCTAATTTGGGAGATGGCTAGTCA 59.031 41.667 0.00 0.00 0.00 3.41
2305 2331 6.590357 CAACCGGACTAATAATGCTTTATCG 58.410 40.000 9.46 4.83 0.00 2.92
2306 2332 5.850614 ACCGGACTAATAATGCTTTATCGT 58.149 37.500 9.46 6.23 0.00 3.73
2327 2353 6.640518 TCGTTCTCACTTAGCCATAGAATTT 58.359 36.000 0.00 0.00 0.00 1.82
2442 2469 3.808174 CCCTAAGCGGCATAAGTCTTTAC 59.192 47.826 1.45 0.00 0.00 2.01
2478 2505 0.109226 GCCGAACAGCGACTAGTCTT 60.109 55.000 20.34 7.99 44.57 3.01
2526 2553 3.699038 AGCTTTCTCTACTGAGGTGCTAG 59.301 47.826 0.00 0.00 40.58 3.42
2540 2567 3.083997 CTAGGCCCGGCAGAACCT 61.084 66.667 12.58 0.69 35.61 3.50
2572 2599 2.554893 GCAGTAGTTCTCCTAGCGCTAT 59.445 50.000 19.19 3.40 0.00 2.97
2614 2641 6.303903 ACGTAAGGTACCAAAACATAGGAT 57.696 37.500 15.94 0.00 46.39 3.24
2618 2645 4.035112 AGGTACCAAAACATAGGATCCGA 58.965 43.478 15.94 0.14 0.00 4.55
2670 2697 4.541973 TCGGAGCTGATGCATATAATGT 57.458 40.909 0.00 0.00 42.74 2.71
2683 2710 9.378551 GATGCATATAATGTTATAAGTTCGGGA 57.621 33.333 0.00 0.00 0.00 5.14
2688 2715 3.916359 TGTTATAAGTTCGGGATGCCA 57.084 42.857 3.39 0.00 0.00 4.92
2788 2815 2.613691 ACGGTTACAAGGCGTCATTAG 58.386 47.619 0.00 0.00 0.00 1.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
69 71 3.283712 AGGAGAGTCCTTCCCTTCTTT 57.716 47.619 0.00 0.00 46.91 2.52
117 119 1.300620 CAACCACTCGTCTTCGCCA 60.301 57.895 0.00 0.00 36.96 5.69
320 326 0.689080 GCAGGATGAGGAGAGGTGGA 60.689 60.000 0.00 0.00 39.69 4.02
443 449 0.617249 AACTCAGAGCTCTCAGGGGG 60.617 60.000 19.64 8.34 0.00 5.40
581 587 0.607489 AGCGCTTCCAGCAGATTGTT 60.607 50.000 2.64 0.00 42.58 2.83
633 642 1.137086 GGCTTCAGTCAATCCGCTCTA 59.863 52.381 0.00 0.00 0.00 2.43
655 669 3.890527 CCTGTTAGAAGGCTGGCAT 57.109 52.632 3.38 0.00 0.00 4.40
838 854 4.662961 CAGTCAGTGCGGCGGACA 62.663 66.667 32.28 11.12 43.32 4.02
872 888 1.381327 CCCCTCGAGGTCCTGCTTA 60.381 63.158 29.25 0.00 0.00 3.09
1001 1021 3.128415 CCGTGGCAAACATACAATGATCA 59.872 43.478 0.00 0.00 0.00 2.92
1039 1059 2.357517 CGCTTGCTTCAGGGTCGT 60.358 61.111 0.00 0.00 0.00 4.34
1225 1245 0.618458 TCGGCCTTGGCACTCTTTAT 59.382 50.000 14.04 0.00 0.00 1.40
1402 1422 3.784338 CCTGATAAAATTGTGCGGCATT 58.216 40.909 5.72 0.00 0.00 3.56
1553 1573 1.134491 GCCACAGCCGGACTATAAAGT 60.134 52.381 5.05 0.00 39.21 2.66
1717 1738 0.530744 ATCAGCTTCACGGCGTCTAA 59.469 50.000 10.85 6.89 37.29 2.10
1881 1903 8.403236 GTTCGGTTGCCTTATTAGTCAAATATT 58.597 33.333 0.00 0.00 30.11 1.28
1882 1904 7.254658 CGTTCGGTTGCCTTATTAGTCAAATAT 60.255 37.037 0.00 0.00 30.11 1.28
1883 1905 6.036300 CGTTCGGTTGCCTTATTAGTCAAATA 59.964 38.462 0.00 0.00 0.00 1.40
1884 1906 5.163794 CGTTCGGTTGCCTTATTAGTCAAAT 60.164 40.000 0.00 0.00 0.00 2.32
1885 1907 4.152759 CGTTCGGTTGCCTTATTAGTCAAA 59.847 41.667 0.00 0.00 0.00 2.69
1886 1908 3.680937 CGTTCGGTTGCCTTATTAGTCAA 59.319 43.478 0.00 0.00 0.00 3.18
1887 1909 3.255725 CGTTCGGTTGCCTTATTAGTCA 58.744 45.455 0.00 0.00 0.00 3.41
1888 1910 2.606272 CCGTTCGGTTGCCTTATTAGTC 59.394 50.000 2.82 0.00 0.00 2.59
1889 1911 2.624636 CCGTTCGGTTGCCTTATTAGT 58.375 47.619 2.82 0.00 0.00 2.24
1890 1912 1.937899 CCCGTTCGGTTGCCTTATTAG 59.062 52.381 10.36 0.00 0.00 1.73
1891 1913 1.278699 ACCCGTTCGGTTGCCTTATTA 59.721 47.619 10.36 0.00 45.36 0.98
1892 1914 0.037160 ACCCGTTCGGTTGCCTTATT 59.963 50.000 10.36 0.00 45.36 1.40
1893 1915 0.675522 CACCCGTTCGGTTGCCTTAT 60.676 55.000 10.36 0.00 45.36 1.73
1894 1916 1.301874 CACCCGTTCGGTTGCCTTA 60.302 57.895 10.36 0.00 45.36 2.69
1895 1917 2.593436 CACCCGTTCGGTTGCCTT 60.593 61.111 10.36 0.00 45.36 4.35
1897 1919 3.887335 TAGCACCCGTTCGGTTGCC 62.887 63.158 25.19 11.27 45.36 4.52
1898 1920 1.508808 TTTAGCACCCGTTCGGTTGC 61.509 55.000 22.43 22.43 45.36 4.17
1899 1921 0.945813 TTTTAGCACCCGTTCGGTTG 59.054 50.000 10.36 7.43 45.36 3.77
1900 1922 0.946528 GTTTTAGCACCCGTTCGGTT 59.053 50.000 10.36 0.00 45.36 4.44
1902 1924 1.871077 GGTTTTAGCACCCGTTCGG 59.129 57.895 4.08 4.08 37.81 4.30
1903 1925 1.494189 CGGTTTTAGCACCCGTTCG 59.506 57.895 0.00 0.00 37.00 3.95
1904 1926 1.579964 CCCGGTTTTAGCACCCGTTC 61.580 60.000 0.00 0.00 40.10 3.95
1905 1927 1.601477 CCCGGTTTTAGCACCCGTT 60.601 57.895 0.00 0.00 40.10 4.44
1906 1928 2.032987 CCCGGTTTTAGCACCCGT 59.967 61.111 0.00 0.00 40.10 5.28
1907 1929 2.748647 CCCCGGTTTTAGCACCCG 60.749 66.667 0.00 0.00 41.37 5.28
1908 1930 3.066190 GCCCCGGTTTTAGCACCC 61.066 66.667 0.00 0.00 32.48 4.61
1909 1931 2.282603 TGCCCCGGTTTTAGCACC 60.283 61.111 0.00 0.00 0.00 5.01
1911 1933 0.540830 ATTGTGCCCCGGTTTTAGCA 60.541 50.000 0.00 0.00 0.00 3.49
1912 1934 0.172578 GATTGTGCCCCGGTTTTAGC 59.827 55.000 0.00 0.00 0.00 3.09
1913 1935 0.450184 CGATTGTGCCCCGGTTTTAG 59.550 55.000 0.00 0.00 0.00 1.85
1914 1936 1.587933 GCGATTGTGCCCCGGTTTTA 61.588 55.000 0.00 0.00 0.00 1.52
1915 1937 2.926420 GCGATTGTGCCCCGGTTTT 61.926 57.895 0.00 0.00 0.00 2.43
1916 1938 3.370231 GCGATTGTGCCCCGGTTT 61.370 61.111 0.00 0.00 0.00 3.27
1917 1939 4.652131 TGCGATTGTGCCCCGGTT 62.652 61.111 0.00 0.00 0.00 4.44
1919 1941 3.673956 TACTGCGATTGTGCCCCGG 62.674 63.158 0.00 0.00 0.00 5.73
1920 1942 2.125310 TACTGCGATTGTGCCCCG 60.125 61.111 0.00 0.00 0.00 5.73
1921 1943 0.676782 AACTACTGCGATTGTGCCCC 60.677 55.000 0.00 0.00 0.00 5.80
1922 1944 0.727398 GAACTACTGCGATTGTGCCC 59.273 55.000 0.00 0.00 0.00 5.36
1923 1945 1.661112 GAGAACTACTGCGATTGTGCC 59.339 52.381 0.00 0.00 0.00 5.01
1924 1946 1.661112 GGAGAACTACTGCGATTGTGC 59.339 52.381 0.00 0.00 0.00 4.57
1925 1947 3.238108 AGGAGAACTACTGCGATTGTG 57.762 47.619 0.00 0.00 41.86 3.33
1926 1948 3.181485 GCTAGGAGAACTACTGCGATTGT 60.181 47.826 0.00 0.00 41.86 2.71
1927 1949 3.181486 TGCTAGGAGAACTACTGCGATTG 60.181 47.826 0.00 0.00 41.86 2.67
1928 1950 3.024547 TGCTAGGAGAACTACTGCGATT 58.975 45.455 0.00 0.00 41.86 3.34
1929 1951 2.359531 GTGCTAGGAGAACTACTGCGAT 59.640 50.000 0.00 0.00 41.86 4.58
1930 1952 1.743958 GTGCTAGGAGAACTACTGCGA 59.256 52.381 0.00 0.00 41.86 5.10
1931 1953 1.746220 AGTGCTAGGAGAACTACTGCG 59.254 52.381 0.00 0.00 41.86 5.18
1936 1958 5.131784 GCTAAGGTAGTGCTAGGAGAACTA 58.868 45.833 0.00 0.00 35.26 2.24
1937 1959 3.955551 GCTAAGGTAGTGCTAGGAGAACT 59.044 47.826 0.00 0.00 37.91 3.01
1938 1960 3.068448 GGCTAAGGTAGTGCTAGGAGAAC 59.932 52.174 0.00 0.00 0.00 3.01
1939 1961 3.297736 GGCTAAGGTAGTGCTAGGAGAA 58.702 50.000 0.00 0.00 0.00 2.87
1940 1962 2.748798 CGGCTAAGGTAGTGCTAGGAGA 60.749 54.545 0.00 0.00 0.00 3.71
1941 1963 1.609555 CGGCTAAGGTAGTGCTAGGAG 59.390 57.143 0.00 0.00 0.00 3.69
1942 1964 1.213678 TCGGCTAAGGTAGTGCTAGGA 59.786 52.381 0.00 0.00 0.00 2.94
1943 1965 1.688772 TCGGCTAAGGTAGTGCTAGG 58.311 55.000 0.00 0.00 0.00 3.02
1944 1966 4.325119 TCTATCGGCTAAGGTAGTGCTAG 58.675 47.826 0.00 0.00 0.00 3.42
1945 1967 4.325119 CTCTATCGGCTAAGGTAGTGCTA 58.675 47.826 0.00 0.00 0.00 3.49
1946 1968 3.150767 CTCTATCGGCTAAGGTAGTGCT 58.849 50.000 0.00 0.00 0.00 4.40
1947 1969 2.351932 GCTCTATCGGCTAAGGTAGTGC 60.352 54.545 6.17 6.17 0.00 4.40
1948 1970 2.095668 CGCTCTATCGGCTAAGGTAGTG 60.096 54.545 0.00 0.00 0.00 2.74
1949 1971 2.152830 CGCTCTATCGGCTAAGGTAGT 58.847 52.381 0.00 0.00 0.00 2.73
1950 1972 1.469308 CCGCTCTATCGGCTAAGGTAG 59.531 57.143 0.00 0.00 43.18 3.18
1951 1973 1.531423 CCGCTCTATCGGCTAAGGTA 58.469 55.000 0.00 0.00 43.18 3.08
1952 1974 2.342478 CCGCTCTATCGGCTAAGGT 58.658 57.895 0.00 0.00 43.18 3.50
1960 1982 1.332997 ACCTTACGTTCCGCTCTATCG 59.667 52.381 0.00 0.00 0.00 2.92
1961 1983 3.304324 GGTACCTTACGTTCCGCTCTATC 60.304 52.174 4.06 0.00 0.00 2.08
1962 1984 2.620585 GGTACCTTACGTTCCGCTCTAT 59.379 50.000 4.06 0.00 0.00 1.98
1963 1985 2.017049 GGTACCTTACGTTCCGCTCTA 58.983 52.381 4.06 0.00 0.00 2.43
1964 1986 0.813821 GGTACCTTACGTTCCGCTCT 59.186 55.000 4.06 0.00 0.00 4.09
1965 1987 0.527565 TGGTACCTTACGTTCCGCTC 59.472 55.000 14.36 0.00 34.69 5.03
1966 1988 0.968405 TTGGTACCTTACGTTCCGCT 59.032 50.000 14.36 0.00 34.69 5.52
1967 1989 1.794512 TTTGGTACCTTACGTTCCGC 58.205 50.000 14.36 0.00 34.69 5.54
1968 1990 3.129871 TGTTTTGGTACCTTACGTTCCG 58.870 45.455 14.36 0.00 34.69 4.30
1969 1991 5.352293 CCTATGTTTTGGTACCTTACGTTCC 59.648 44.000 14.36 0.00 32.61 3.62
1970 1992 6.165577 TCCTATGTTTTGGTACCTTACGTTC 58.834 40.000 14.36 0.00 0.00 3.95
1971 1993 6.112927 TCCTATGTTTTGGTACCTTACGTT 57.887 37.500 14.36 3.43 0.00 3.99
1972 1994 5.727434 CTCCTATGTTTTGGTACCTTACGT 58.273 41.667 14.36 11.64 0.00 3.57
1973 1995 4.569564 GCTCCTATGTTTTGGTACCTTACG 59.430 45.833 14.36 0.00 0.00 3.18
1974 1996 5.585047 CAGCTCCTATGTTTTGGTACCTTAC 59.415 44.000 14.36 8.86 0.00 2.34
1975 1997 5.338871 CCAGCTCCTATGTTTTGGTACCTTA 60.339 44.000 14.36 0.00 0.00 2.69
1976 1998 4.567747 CCAGCTCCTATGTTTTGGTACCTT 60.568 45.833 14.36 0.00 0.00 3.50
1977 1999 3.054361 CCAGCTCCTATGTTTTGGTACCT 60.054 47.826 14.36 0.00 0.00 3.08
1978 2000 3.279434 CCAGCTCCTATGTTTTGGTACC 58.721 50.000 4.43 4.43 0.00 3.34
1979 2001 3.279434 CCCAGCTCCTATGTTTTGGTAC 58.721 50.000 0.00 0.00 0.00 3.34
1980 2002 2.356741 GCCCAGCTCCTATGTTTTGGTA 60.357 50.000 0.00 0.00 0.00 3.25
1981 2003 1.616994 GCCCAGCTCCTATGTTTTGGT 60.617 52.381 0.00 0.00 0.00 3.67
1982 2004 1.106285 GCCCAGCTCCTATGTTTTGG 58.894 55.000 0.00 0.00 0.00 3.28
1983 2005 1.838112 TGCCCAGCTCCTATGTTTTG 58.162 50.000 0.00 0.00 0.00 2.44
1984 2006 2.562738 GTTTGCCCAGCTCCTATGTTTT 59.437 45.455 0.00 0.00 0.00 2.43
1985 2007 2.171003 GTTTGCCCAGCTCCTATGTTT 58.829 47.619 0.00 0.00 0.00 2.83
1986 2008 1.616994 GGTTTGCCCAGCTCCTATGTT 60.617 52.381 0.00 0.00 0.00 2.71
1987 2009 0.034089 GGTTTGCCCAGCTCCTATGT 60.034 55.000 0.00 0.00 0.00 2.29
1988 2010 2.799176 GGTTTGCCCAGCTCCTATG 58.201 57.895 0.00 0.00 0.00 2.23
1999 2021 1.139853 TGGTCAAATGTTGGGTTTGCC 59.860 47.619 0.00 0.00 36.69 4.52
2000 2022 2.611225 TGGTCAAATGTTGGGTTTGC 57.389 45.000 0.00 0.00 36.69 3.68
2001 2023 4.570369 GTCTTTGGTCAAATGTTGGGTTTG 59.430 41.667 0.00 0.00 37.79 2.93
2002 2024 4.223923 TGTCTTTGGTCAAATGTTGGGTTT 59.776 37.500 0.00 0.00 0.00 3.27
2003 2025 3.772025 TGTCTTTGGTCAAATGTTGGGTT 59.228 39.130 0.00 0.00 0.00 4.11
2004 2026 3.370104 TGTCTTTGGTCAAATGTTGGGT 58.630 40.909 0.00 0.00 0.00 4.51
2005 2027 4.039004 TCATGTCTTTGGTCAAATGTTGGG 59.961 41.667 0.00 0.00 0.00 4.12
2006 2028 5.199024 TCATGTCTTTGGTCAAATGTTGG 57.801 39.130 0.00 0.00 0.00 3.77
2007 2029 6.088483 CGAATCATGTCTTTGGTCAAATGTTG 59.912 38.462 0.00 0.00 0.00 3.33
2008 2030 6.151691 CGAATCATGTCTTTGGTCAAATGTT 58.848 36.000 0.00 0.00 0.00 2.71
2009 2031 5.335897 CCGAATCATGTCTTTGGTCAAATGT 60.336 40.000 8.21 0.00 0.00 2.71
2010 2032 5.097529 CCGAATCATGTCTTTGGTCAAATG 58.902 41.667 8.21 0.00 0.00 2.32
2011 2033 5.009631 TCCGAATCATGTCTTTGGTCAAAT 58.990 37.500 13.41 0.00 0.00 2.32
2012 2034 4.393834 TCCGAATCATGTCTTTGGTCAAA 58.606 39.130 13.41 0.00 0.00 2.69
2013 2035 4.002982 CTCCGAATCATGTCTTTGGTCAA 58.997 43.478 13.41 0.00 0.00 3.18
2014 2036 3.599343 CTCCGAATCATGTCTTTGGTCA 58.401 45.455 13.41 0.43 0.00 4.02
2015 2037 2.352960 GCTCCGAATCATGTCTTTGGTC 59.647 50.000 13.41 6.62 0.00 4.02
2016 2038 2.359900 GCTCCGAATCATGTCTTTGGT 58.640 47.619 13.41 0.00 0.00 3.67
2017 2039 1.328680 CGCTCCGAATCATGTCTTTGG 59.671 52.381 9.52 9.52 0.00 3.28
2018 2040 1.328680 CCGCTCCGAATCATGTCTTTG 59.671 52.381 0.00 0.00 0.00 2.77
2019 2041 1.207089 TCCGCTCCGAATCATGTCTTT 59.793 47.619 0.00 0.00 0.00 2.52
2020 2042 0.824109 TCCGCTCCGAATCATGTCTT 59.176 50.000 0.00 0.00 0.00 3.01
2021 2043 1.043816 ATCCGCTCCGAATCATGTCT 58.956 50.000 0.00 0.00 0.00 3.41
2022 2044 1.143305 CATCCGCTCCGAATCATGTC 58.857 55.000 0.00 0.00 0.00 3.06
2023 2045 0.882042 GCATCCGCTCCGAATCATGT 60.882 55.000 0.00 0.00 34.30 3.21
2024 2046 0.881600 TGCATCCGCTCCGAATCATG 60.882 55.000 0.00 0.00 39.64 3.07
2025 2047 0.035881 ATGCATCCGCTCCGAATCAT 59.964 50.000 0.00 0.00 39.64 2.45
2026 2048 0.678950 TATGCATCCGCTCCGAATCA 59.321 50.000 0.19 0.00 39.64 2.57
2027 2049 2.015736 ATATGCATCCGCTCCGAATC 57.984 50.000 0.19 0.00 39.64 2.52
2028 2050 3.610040 TTATATGCATCCGCTCCGAAT 57.390 42.857 0.19 0.00 39.64 3.34
2029 2051 3.394674 TTTATATGCATCCGCTCCGAA 57.605 42.857 0.19 0.00 39.64 4.30
2030 2052 3.394674 TTTTATATGCATCCGCTCCGA 57.605 42.857 0.19 0.00 39.64 4.55
2031 2053 3.249799 TGTTTTTATATGCATCCGCTCCG 59.750 43.478 0.19 0.00 39.64 4.63
2032 2054 4.829064 TGTTTTTATATGCATCCGCTCC 57.171 40.909 0.19 0.00 39.64 4.70
2033 2055 6.060028 TCTTGTTTTTATATGCATCCGCTC 57.940 37.500 0.19 0.00 39.64 5.03
2034 2056 5.590259 ACTCTTGTTTTTATATGCATCCGCT 59.410 36.000 0.19 0.00 39.64 5.52
2035 2057 5.682862 CACTCTTGTTTTTATATGCATCCGC 59.317 40.000 0.19 0.00 39.24 5.54
2036 2058 5.682862 GCACTCTTGTTTTTATATGCATCCG 59.317 40.000 0.19 0.00 0.00 4.18
2037 2059 6.799512 AGCACTCTTGTTTTTATATGCATCC 58.200 36.000 0.19 0.00 34.27 3.51
2038 2060 7.475015 TGAGCACTCTTGTTTTTATATGCATC 58.525 34.615 0.19 0.00 34.27 3.91
2039 2061 7.395190 TGAGCACTCTTGTTTTTATATGCAT 57.605 32.000 3.79 3.79 34.27 3.96
2040 2062 6.816134 TGAGCACTCTTGTTTTTATATGCA 57.184 33.333 0.00 0.00 34.27 3.96
2041 2063 8.693542 AAATGAGCACTCTTGTTTTTATATGC 57.306 30.769 0.00 0.00 0.00 3.14
2045 2067 9.860898 GGATAAAATGAGCACTCTTGTTTTTAT 57.139 29.630 14.11 14.11 0.00 1.40
2046 2068 9.077885 AGGATAAAATGAGCACTCTTGTTTTTA 57.922 29.630 11.38 10.13 0.00 1.52
2047 2069 7.869429 CAGGATAAAATGAGCACTCTTGTTTTT 59.131 33.333 11.38 8.88 0.00 1.94
2048 2070 7.014615 ACAGGATAAAATGAGCACTCTTGTTTT 59.985 33.333 0.00 6.69 0.00 2.43
2049 2071 6.491403 ACAGGATAAAATGAGCACTCTTGTTT 59.509 34.615 0.00 0.31 0.00 2.83
2050 2072 6.006449 ACAGGATAAAATGAGCACTCTTGTT 58.994 36.000 0.00 0.00 0.00 2.83
2051 2073 5.564550 ACAGGATAAAATGAGCACTCTTGT 58.435 37.500 0.00 0.00 0.00 3.16
2052 2074 7.798596 ATACAGGATAAAATGAGCACTCTTG 57.201 36.000 0.00 0.00 0.00 3.02
2053 2075 8.814038 AAATACAGGATAAAATGAGCACTCTT 57.186 30.769 0.00 0.00 0.00 2.85
2094 2120 8.810652 AAATTCAAACAAGCATTACATAACGT 57.189 26.923 0.00 0.00 0.00 3.99
2150 2176 5.511373 CGATGACTAGCCATCTCCCAAATTA 60.511 44.000 15.89 0.00 40.46 1.40
2276 2302 4.131596 GCATTATTAGTCCGGTTGCCTTA 58.868 43.478 0.00 0.00 0.00 2.69
2327 2353 8.342725 GGCTTCGCCGAAATTTAAAATTATAA 57.657 30.769 0.00 0.00 39.62 0.98
2392 2419 2.671619 GCCCTGTGCGGCTTACAA 60.672 61.111 0.00 0.00 46.10 2.41
2442 2469 1.623973 GGCGAGGTTTTTCGAGTCCG 61.624 60.000 0.00 0.00 43.03 4.79
2478 2505 3.195610 ACTGACTGTCATGATAAGGCGAA 59.804 43.478 11.45 0.00 0.00 4.70
2540 2567 0.036164 AACTACTGCGATTGTGCCCA 59.964 50.000 0.00 0.00 0.00 5.36
2614 2641 1.339610 CAAATGTTGGGTTTGCTCGGA 59.660 47.619 0.00 0.00 30.75 4.55
2618 2645 2.114616 TGGTCAAATGTTGGGTTTGCT 58.885 42.857 0.00 0.00 36.69 3.91
2670 2697 3.199071 AGTGTGGCATCCCGAACTTATAA 59.801 43.478 0.00 0.00 0.00 0.98
2734 2761 2.375509 GGCCAATACACTAGGGGCTTAT 59.624 50.000 0.00 0.00 44.04 1.73
2774 2801 3.120321 TGTTCACTAATGACGCCTTGT 57.880 42.857 0.00 0.00 33.38 3.16


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

AutoCloner maintained by Alex Coulton.