Multiple sequence alignment - TraesCS3D01G310800

Loading Multiple Alignment...

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 TraesCS3D01G310800 chr3D 100.000 3177 0 0 1 3177 425142880 425146056 0.000000e+00 5867.0
1 TraesCS3D01G310800 chr3D 98.851 783 9 0 1 783 593232162 593231380 0.000000e+00 1397.0
2 TraesCS3D01G310800 chr3D 88.824 850 80 9 1041 1887 425119009 425119846 0.000000e+00 1029.0
3 TraesCS3D01G310800 chr3D 83.494 933 101 26 974 1897 424486913 424486025 0.000000e+00 821.0
4 TraesCS3D01G310800 chr3A 95.722 935 40 0 965 1899 563402593 563401659 0.000000e+00 1506.0
5 TraesCS3D01G310800 chr3A 88.380 852 83 8 1041 1887 563411200 563410360 0.000000e+00 1011.0
6 TraesCS3D01G310800 chr3A 93.424 517 15 9 1935 2438 563401667 563401157 0.000000e+00 749.0
7 TraesCS3D01G310800 chr3A 96.904 323 8 1 2731 3051 563400745 563400423 1.000000e-149 540.0
8 TraesCS3D01G310800 chr3A 97.544 285 4 1 2467 2748 563401045 563400761 4.760000e-133 484.0
9 TraesCS3D01G310800 chr3A 90.722 194 10 2 2245 2438 563409913 563409728 5.260000e-63 252.0
10 TraesCS3D01G310800 chr3B 94.486 943 48 2 959 1899 555109137 555110077 0.000000e+00 1450.0
11 TraesCS3D01G310800 chr3B 83.983 924 105 23 977 1885 554545254 554544359 0.000000e+00 846.0
12 TraesCS3D01G310800 chr3B 88.658 529 22 15 1936 2436 555110070 555110588 7.530000e-171 610.0
13 TraesCS3D01G310800 chr3B 88.247 502 32 12 2447 2923 555110793 555111292 2.750000e-160 575.0
14 TraesCS3D01G310800 chr3B 90.686 408 29 3 1480 1887 555063551 555063949 4.660000e-148 534.0
15 TraesCS3D01G310800 chr3B 83.594 512 71 10 980 1482 555063079 555063586 4.800000e-128 468.0
16 TraesCS3D01G310800 chr3B 89.510 143 9 1 819 955 555108923 555109065 3.260000e-40 176.0
17 TraesCS3D01G310800 chr2D 99.233 782 6 0 1 782 348981554 348982335 0.000000e+00 1411.0
18 TraesCS3D01G310800 chr2D 98.595 783 11 0 1 783 74940428 74939646 0.000000e+00 1386.0
19 TraesCS3D01G310800 chr2D 98.214 784 13 1 1 784 651127240 651126458 0.000000e+00 1369.0
20 TraesCS3D01G310800 chr2D 76.667 210 39 6 1026 1229 43828614 43828819 1.210000e-19 108.0
21 TraesCS3D01G310800 chr5A 97.826 782 17 0 1 782 30086947 30087728 0.000000e+00 1351.0
22 TraesCS3D01G310800 chr4A 97.564 780 19 0 1 780 36286864 36286085 0.000000e+00 1336.0
23 TraesCS3D01G310800 chr1D 96.173 784 29 1 1 784 486298257 486299039 0.000000e+00 1280.0
24 TraesCS3D01G310800 chr7D 96.310 786 16 8 1 786 58883495 58884267 0.000000e+00 1279.0
25 TraesCS3D01G310800 chr7D 76.806 263 46 11 980 1229 121800427 121800687 1.990000e-27 134.0
26 TraesCS3D01G310800 chr1B 95.006 781 39 0 1 781 57412815 57413595 0.000000e+00 1227.0
27 TraesCS3D01G310800 chr1B 95.536 336 10 3 2715 3048 513972991 513973323 1.680000e-147 532.0
28 TraesCS3D01G310800 chr1B 91.358 162 14 0 1948 2109 513972727 513972888 4.120000e-54 222.0
29 TraesCS3D01G310800 chr1B 94.382 89 5 0 2496 2584 513972901 513972989 1.540000e-28 137.0
30 TraesCS3D01G310800 chr1B 100.000 35 0 0 3015 3049 542807377 542807411 7.360000e-07 65.8
31 TraesCS3D01G310800 chr2B 93.404 379 21 2 1953 2327 12708767 12709145 2.770000e-155 558.0
32 TraesCS3D01G310800 chr6B 97.260 73 2 0 1951 2023 208497484 208497412 1.200000e-24 124.0
33 TraesCS3D01G310800 chr6B 97.143 35 1 0 3015 3049 208496960 208496926 3.420000e-05 60.2


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 TraesCS3D01G310800 chr3D 425142880 425146056 3176 False 5867.00 5867 100.000000 1 3177 1 chr3D.!!$F2 3176
1 TraesCS3D01G310800 chr3D 593231380 593232162 782 True 1397.00 1397 98.851000 1 783 1 chr3D.!!$R2 782
2 TraesCS3D01G310800 chr3D 425119009 425119846 837 False 1029.00 1029 88.824000 1041 1887 1 chr3D.!!$F1 846
3 TraesCS3D01G310800 chr3D 424486025 424486913 888 True 821.00 821 83.494000 974 1897 1 chr3D.!!$R1 923
4 TraesCS3D01G310800 chr3A 563400423 563402593 2170 True 819.75 1506 95.898500 965 3051 4 chr3A.!!$R1 2086
5 TraesCS3D01G310800 chr3A 563409728 563411200 1472 True 631.50 1011 89.551000 1041 2438 2 chr3A.!!$R2 1397
6 TraesCS3D01G310800 chr3B 554544359 554545254 895 True 846.00 846 83.983000 977 1885 1 chr3B.!!$R1 908
7 TraesCS3D01G310800 chr3B 555108923 555111292 2369 False 702.75 1450 90.225250 819 2923 4 chr3B.!!$F2 2104
8 TraesCS3D01G310800 chr3B 555063079 555063949 870 False 501.00 534 87.140000 980 1887 2 chr3B.!!$F1 907
9 TraesCS3D01G310800 chr2D 348981554 348982335 781 False 1411.00 1411 99.233000 1 782 1 chr2D.!!$F2 781
10 TraesCS3D01G310800 chr2D 74939646 74940428 782 True 1386.00 1386 98.595000 1 783 1 chr2D.!!$R1 782
11 TraesCS3D01G310800 chr2D 651126458 651127240 782 True 1369.00 1369 98.214000 1 784 1 chr2D.!!$R2 783
12 TraesCS3D01G310800 chr5A 30086947 30087728 781 False 1351.00 1351 97.826000 1 782 1 chr5A.!!$F1 781
13 TraesCS3D01G310800 chr4A 36286085 36286864 779 True 1336.00 1336 97.564000 1 780 1 chr4A.!!$R1 779
14 TraesCS3D01G310800 chr1D 486298257 486299039 782 False 1280.00 1280 96.173000 1 784 1 chr1D.!!$F1 783
15 TraesCS3D01G310800 chr7D 58883495 58884267 772 False 1279.00 1279 96.310000 1 786 1 chr7D.!!$F1 785
16 TraesCS3D01G310800 chr1B 57412815 57413595 780 False 1227.00 1227 95.006000 1 781 1 chr1B.!!$F1 780
17 TraesCS3D01G310800 chr1B 513972727 513973323 596 False 297.00 532 93.758667 1948 3048 3 chr1B.!!$F3 1100

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
969 976 0.174162 GGAAAGCGCGTAGTTCCCTA 59.826 55.0 20.29 0.0 35.72 3.53 F
1907 2008 0.105504 AGCCCTTCCCCCAATAATGC 60.106 55.0 0.00 0.0 0.00 3.56 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2051 2266 0.108472 TCTGCAGCCATTGACGAGAG 60.108 55.0 9.47 0.0 0.00 3.20 R
3113 3639 0.038526 GAGGTTCAAGCTCGGACGAA 60.039 55.0 0.00 0.0 32.69 3.85 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
80 81 0.590195 GGCATGTGCGGAATGAGATC 59.410 55.000 0.00 0.00 43.26 2.75
454 455 1.003051 GGGAGGGCCTGGAACTAGA 59.997 63.158 12.95 0.00 0.00 2.43
689 690 1.227823 CCCTCGCACCACTGTTTGA 60.228 57.895 0.00 0.00 0.00 2.69
812 813 6.668541 CGAAAGCATATTTCCTGAGAGAAA 57.331 37.500 0.00 0.00 39.92 2.52
813 814 7.076842 CGAAAGCATATTTCCTGAGAGAAAA 57.923 36.000 1.33 0.00 39.11 2.29
814 815 7.530010 CGAAAGCATATTTCCTGAGAGAAAAA 58.470 34.615 1.33 0.00 39.11 1.94
815 816 7.695618 CGAAAGCATATTTCCTGAGAGAAAAAG 59.304 37.037 1.33 0.00 39.11 2.27
816 817 8.641498 AAAGCATATTTCCTGAGAGAAAAAGA 57.359 30.769 1.33 0.00 39.11 2.52
817 818 7.862512 AGCATATTTCCTGAGAGAAAAAGAG 57.137 36.000 1.33 0.00 39.11 2.85
818 819 7.628234 AGCATATTTCCTGAGAGAAAAAGAGA 58.372 34.615 1.33 0.00 39.11 3.10
819 820 7.769970 AGCATATTTCCTGAGAGAAAAAGAGAG 59.230 37.037 1.33 0.00 39.11 3.20
820 821 7.012232 GCATATTTCCTGAGAGAAAAAGAGAGG 59.988 40.741 1.33 0.00 39.11 3.69
821 822 5.896073 TTTCCTGAGAGAAAAAGAGAGGT 57.104 39.130 0.00 0.00 32.90 3.85
822 823 4.881019 TCCTGAGAGAAAAAGAGAGGTG 57.119 45.455 0.00 0.00 0.00 4.00
823 824 3.580458 TCCTGAGAGAAAAAGAGAGGTGG 59.420 47.826 0.00 0.00 0.00 4.61
853 854 1.068125 TCGGTGTGTGGATTGTAGACG 60.068 52.381 0.00 0.00 0.00 4.18
901 908 1.369209 CGACCACGCAGCAGTTTTG 60.369 57.895 0.00 0.00 0.00 2.44
904 911 0.463654 ACCACGCAGCAGTTTTGAGA 60.464 50.000 0.00 0.00 0.00 3.27
905 912 0.236711 CCACGCAGCAGTTTTGAGAG 59.763 55.000 0.00 0.00 0.00 3.20
916 923 5.877564 AGCAGTTTTGAGAGTTTAGCTATCC 59.122 40.000 0.00 0.00 34.69 2.59
956 963 3.610637 TTGCATGGCAAAGGAAAGC 57.389 47.368 0.41 0.00 45.96 3.51
957 964 0.319727 TTGCATGGCAAAGGAAAGCG 60.320 50.000 0.41 0.00 45.96 4.68
958 965 2.096442 GCATGGCAAAGGAAAGCGC 61.096 57.895 0.00 0.00 0.00 5.92
959 966 1.802715 CATGGCAAAGGAAAGCGCG 60.803 57.895 0.00 0.00 0.00 6.86
960 967 2.268076 ATGGCAAAGGAAAGCGCGT 61.268 52.632 8.43 0.00 0.00 6.01
961 968 0.958382 ATGGCAAAGGAAAGCGCGTA 60.958 50.000 8.43 0.00 0.00 4.42
962 969 1.134694 GGCAAAGGAAAGCGCGTAG 59.865 57.895 8.43 0.00 0.00 3.51
963 970 1.574702 GGCAAAGGAAAGCGCGTAGT 61.575 55.000 8.43 0.00 0.00 2.73
969 976 0.174162 GGAAAGCGCGTAGTTCCCTA 59.826 55.000 20.29 0.00 35.72 3.53
998 1084 2.997315 CCTCCACCGGCTCACTGA 60.997 66.667 0.00 0.00 0.00 3.41
1065 1151 1.950828 CTCTCAGCACCTTAGCCATG 58.049 55.000 0.00 0.00 34.23 3.66
1674 1766 1.754380 CTGGGAAGACCACGGTGACA 61.754 60.000 10.28 0.00 46.80 3.58
1899 2000 1.057471 GTGAGTATAGCCCTTCCCCC 58.943 60.000 0.00 0.00 0.00 5.40
1900 2001 0.645496 TGAGTATAGCCCTTCCCCCA 59.355 55.000 0.00 0.00 0.00 4.96
1902 2003 2.349445 GAGTATAGCCCTTCCCCCAAT 58.651 52.381 0.00 0.00 0.00 3.16
1903 2004 3.116120 TGAGTATAGCCCTTCCCCCAATA 60.116 47.826 0.00 0.00 0.00 1.90
1905 2006 4.523304 AGTATAGCCCTTCCCCCAATAAT 58.477 43.478 0.00 0.00 0.00 1.28
1906 2007 3.833559 ATAGCCCTTCCCCCAATAATG 57.166 47.619 0.00 0.00 0.00 1.90
1907 2008 0.105504 AGCCCTTCCCCCAATAATGC 60.106 55.000 0.00 0.00 0.00 3.56
1908 2009 0.105504 GCCCTTCCCCCAATAATGCT 60.106 55.000 0.00 0.00 0.00 3.79
1909 2010 1.146982 GCCCTTCCCCCAATAATGCTA 59.853 52.381 0.00 0.00 0.00 3.49
1911 2012 2.447047 CCCTTCCCCCAATAATGCTAGT 59.553 50.000 0.00 0.00 0.00 2.57
1914 2015 5.316987 CCTTCCCCCAATAATGCTAGTTAG 58.683 45.833 0.00 0.00 0.00 2.34
1915 2016 5.163088 CCTTCCCCCAATAATGCTAGTTAGT 60.163 44.000 0.00 0.00 0.00 2.24
1916 2017 5.987019 TCCCCCAATAATGCTAGTTAGTT 57.013 39.130 0.00 0.00 0.00 2.24
1917 2018 5.937111 TCCCCCAATAATGCTAGTTAGTTC 58.063 41.667 0.00 0.00 0.00 3.01
1918 2019 5.670361 TCCCCCAATAATGCTAGTTAGTTCT 59.330 40.000 0.00 0.00 0.00 3.01
1919 2020 5.998363 CCCCCAATAATGCTAGTTAGTTCTC 59.002 44.000 0.00 0.00 0.00 2.87
1920 2021 5.998363 CCCCAATAATGCTAGTTAGTTCTCC 59.002 44.000 0.00 0.00 0.00 3.71
1921 2022 5.998363 CCCAATAATGCTAGTTAGTTCTCCC 59.002 44.000 0.00 0.00 0.00 4.30
1922 2023 5.998363 CCAATAATGCTAGTTAGTTCTCCCC 59.002 44.000 0.00 0.00 0.00 4.81
1926 2027 3.460825 TGCTAGTTAGTTCTCCCCCAAT 58.539 45.455 0.00 0.00 0.00 3.16
1929 2030 5.670361 TGCTAGTTAGTTCTCCCCCAATATT 59.330 40.000 0.00 0.00 0.00 1.28
1930 2031 5.998363 GCTAGTTAGTTCTCCCCCAATATTG 59.002 44.000 8.58 8.58 0.00 1.90
1931 2032 4.793201 AGTTAGTTCTCCCCCAATATTGC 58.207 43.478 10.11 0.00 0.00 3.56
1932 2033 4.478686 AGTTAGTTCTCCCCCAATATTGCT 59.521 41.667 10.11 2.01 0.00 3.91
1933 2034 3.584733 AGTTCTCCCCCAATATTGCTC 57.415 47.619 10.11 0.00 0.00 4.26
1934 2035 2.175715 AGTTCTCCCCCAATATTGCTCC 59.824 50.000 10.11 0.00 0.00 4.70
1935 2036 1.149101 TCTCCCCCAATATTGCTCCC 58.851 55.000 10.11 0.00 0.00 4.30
1936 2037 0.113190 CTCCCCCAATATTGCTCCCC 59.887 60.000 10.11 0.00 0.00 4.81
1937 2038 0.329434 TCCCCCAATATTGCTCCCCT 60.329 55.000 10.11 0.00 0.00 4.79
1938 2039 0.562674 CCCCCAATATTGCTCCCCTT 59.437 55.000 10.11 0.00 0.00 3.95
1939 2040 1.481242 CCCCCAATATTGCTCCCCTTC 60.481 57.143 10.11 0.00 0.00 3.46
1940 2041 1.481242 CCCCAATATTGCTCCCCTTCC 60.481 57.143 10.11 0.00 0.00 3.46
1941 2042 1.481242 CCCAATATTGCTCCCCTTCCC 60.481 57.143 10.11 0.00 0.00 3.97
1942 2043 1.481242 CCAATATTGCTCCCCTTCCCC 60.481 57.143 10.11 0.00 0.00 4.81
2051 2266 3.150848 GCAACCTGCTAATAAAGTGGC 57.849 47.619 0.00 0.00 40.96 5.01
2366 2629 2.290577 GCAAACTGAGGGAGATGGAGTT 60.291 50.000 0.00 0.00 0.00 3.01
2367 2630 3.341823 CAAACTGAGGGAGATGGAGTTG 58.658 50.000 0.00 0.00 0.00 3.16
2368 2631 1.577736 ACTGAGGGAGATGGAGTTGG 58.422 55.000 0.00 0.00 0.00 3.77
2369 2632 1.079490 ACTGAGGGAGATGGAGTTGGA 59.921 52.381 0.00 0.00 0.00 3.53
2370 2633 1.761784 CTGAGGGAGATGGAGTTGGAG 59.238 57.143 0.00 0.00 0.00 3.86
2371 2634 1.079490 TGAGGGAGATGGAGTTGGAGT 59.921 52.381 0.00 0.00 0.00 3.85
2421 2692 2.267324 GACCACCCTGCTGCTCTC 59.733 66.667 0.00 0.00 0.00 3.20
2764 3288 6.918892 TGAATTTATGTCCATTACTCGTGG 57.081 37.500 0.00 0.00 38.11 4.94
2882 3406 7.271511 AGAGAATCCTTCATGTGAATAGTGTC 58.728 38.462 0.00 0.00 33.66 3.67
2883 3407 6.950842 AGAATCCTTCATGTGAATAGTGTCA 58.049 36.000 0.00 0.00 33.01 3.58
3061 3587 9.748708 TGAAATTGACTTTCTAAACATTGGAAG 57.251 29.630 0.00 0.00 43.14 3.46
3062 3588 9.965824 GAAATTGACTTTCTAAACATTGGAAGA 57.034 29.630 0.00 0.00 40.17 2.87
3065 3591 9.918630 ATTGACTTTCTAAACATTGGAAGAATG 57.081 29.630 0.00 0.00 31.59 2.67
3066 3592 7.885297 TGACTTTCTAAACATTGGAAGAATGG 58.115 34.615 0.00 6.44 31.59 3.16
3067 3593 6.691508 ACTTTCTAAACATTGGAAGAATGGC 58.308 36.000 0.00 0.00 31.59 4.40
3068 3594 5.659440 TTCTAAACATTGGAAGAATGGCC 57.341 39.130 0.00 0.00 32.14 5.36
3069 3595 4.023291 TCTAAACATTGGAAGAATGGCCC 58.977 43.478 0.00 0.00 32.14 5.80
3070 3596 1.185315 AACATTGGAAGAATGGCCCG 58.815 50.000 0.00 0.00 32.14 6.13
3071 3597 0.331278 ACATTGGAAGAATGGCCCGA 59.669 50.000 0.00 0.00 32.14 5.14
3072 3598 0.740737 CATTGGAAGAATGGCCCGAC 59.259 55.000 0.00 0.00 0.00 4.79
3073 3599 0.331278 ATTGGAAGAATGGCCCGACA 59.669 50.000 0.00 0.00 0.00 4.35
3074 3600 0.608035 TTGGAAGAATGGCCCGACAC 60.608 55.000 0.00 0.00 0.00 3.67
3075 3601 1.299976 GGAAGAATGGCCCGACACT 59.700 57.895 0.00 0.00 0.00 3.55
3076 3602 0.539986 GGAAGAATGGCCCGACACTA 59.460 55.000 0.00 0.00 0.00 2.74
3077 3603 1.473434 GGAAGAATGGCCCGACACTAG 60.473 57.143 0.00 0.00 0.00 2.57
3078 3604 1.207329 GAAGAATGGCCCGACACTAGT 59.793 52.381 0.00 0.00 0.00 2.57
3079 3605 1.276622 AGAATGGCCCGACACTAGTT 58.723 50.000 0.00 0.00 0.00 2.24
3080 3606 1.066143 AGAATGGCCCGACACTAGTTG 60.066 52.381 0.00 0.00 0.00 3.16
3081 3607 0.981183 AATGGCCCGACACTAGTTGA 59.019 50.000 0.00 0.00 0.00 3.18
3082 3608 0.537188 ATGGCCCGACACTAGTTGAG 59.463 55.000 0.00 0.00 0.00 3.02
3083 3609 1.448013 GGCCCGACACTAGTTGAGC 60.448 63.158 0.00 0.00 0.00 4.26
3084 3610 1.805945 GCCCGACACTAGTTGAGCG 60.806 63.158 0.00 0.00 0.00 5.03
3085 3611 1.153823 CCCGACACTAGTTGAGCGG 60.154 63.158 12.90 12.90 42.50 5.52
3086 3612 1.153823 CCGACACTAGTTGAGCGGG 60.154 63.158 12.29 0.00 40.59 6.13
3087 3613 1.592400 CCGACACTAGTTGAGCGGGA 61.592 60.000 12.29 0.00 40.59 5.14
3088 3614 0.456221 CGACACTAGTTGAGCGGGAT 59.544 55.000 0.00 0.00 0.00 3.85
3089 3615 1.799181 CGACACTAGTTGAGCGGGATG 60.799 57.143 0.00 0.00 0.00 3.51
3090 3616 0.108138 ACACTAGTTGAGCGGGATGC 60.108 55.000 0.00 0.00 46.98 3.91
3099 3625 2.203070 GCGGGATGCGAGGACAAT 60.203 61.111 0.00 0.00 0.00 2.71
3100 3626 2.537560 GCGGGATGCGAGGACAATG 61.538 63.158 0.00 0.00 0.00 2.82
3101 3627 1.889105 CGGGATGCGAGGACAATGG 60.889 63.158 0.00 0.00 0.00 3.16
3102 3628 1.526917 GGGATGCGAGGACAATGGG 60.527 63.158 0.00 0.00 0.00 4.00
3103 3629 2.189499 GGATGCGAGGACAATGGGC 61.189 63.158 0.00 0.00 0.00 5.36
3104 3630 2.124151 ATGCGAGGACAATGGGCC 60.124 61.111 0.00 0.00 0.00 5.80
3105 3631 2.615227 GATGCGAGGACAATGGGCCT 62.615 60.000 0.00 0.00 37.18 5.19
3106 3632 2.825836 GCGAGGACAATGGGCCTG 60.826 66.667 0.00 0.00 33.84 4.85
3107 3633 2.124570 CGAGGACAATGGGCCTGG 60.125 66.667 0.00 0.00 33.84 4.45
3108 3634 2.440980 GAGGACAATGGGCCTGGC 60.441 66.667 11.05 11.05 33.84 4.85
3118 3644 3.140814 GGCCTGGCCCATTTCGTC 61.141 66.667 27.77 0.00 44.06 4.20
3119 3645 3.140814 GCCTGGCCCATTTCGTCC 61.141 66.667 7.66 0.00 0.00 4.79
3120 3646 2.824041 CCTGGCCCATTTCGTCCG 60.824 66.667 0.00 0.00 0.00 4.79
3121 3647 2.267642 CTGGCCCATTTCGTCCGA 59.732 61.111 0.00 0.00 0.00 4.55
3122 3648 1.815421 CTGGCCCATTTCGTCCGAG 60.815 63.158 0.00 0.00 0.00 4.63
3123 3649 3.202706 GGCCCATTTCGTCCGAGC 61.203 66.667 0.00 0.00 0.00 5.03
3124 3650 2.125106 GCCCATTTCGTCCGAGCT 60.125 61.111 0.00 0.00 0.00 4.09
3125 3651 1.745489 GCCCATTTCGTCCGAGCTT 60.745 57.895 0.00 0.00 0.00 3.74
3126 3652 1.982073 GCCCATTTCGTCCGAGCTTG 61.982 60.000 0.00 0.00 0.00 4.01
3127 3653 0.391130 CCCATTTCGTCCGAGCTTGA 60.391 55.000 1.22 0.00 0.00 3.02
3128 3654 1.438651 CCATTTCGTCCGAGCTTGAA 58.561 50.000 1.22 0.00 0.00 2.69
3129 3655 1.128692 CCATTTCGTCCGAGCTTGAAC 59.871 52.381 1.22 0.00 0.00 3.18
3130 3656 1.128692 CATTTCGTCCGAGCTTGAACC 59.871 52.381 1.22 0.00 0.00 3.62
3131 3657 0.391597 TTTCGTCCGAGCTTGAACCT 59.608 50.000 1.22 0.00 0.00 3.50
3132 3658 0.038526 TTCGTCCGAGCTTGAACCTC 60.039 55.000 1.22 0.00 0.00 3.85
3133 3659 1.446272 CGTCCGAGCTTGAACCTCC 60.446 63.158 1.22 0.00 0.00 4.30
3134 3660 1.671742 GTCCGAGCTTGAACCTCCA 59.328 57.895 1.22 0.00 0.00 3.86
3135 3661 0.670854 GTCCGAGCTTGAACCTCCAC 60.671 60.000 1.22 0.00 0.00 4.02
3136 3662 0.832135 TCCGAGCTTGAACCTCCACT 60.832 55.000 1.22 0.00 0.00 4.00
3137 3663 0.895530 CCGAGCTTGAACCTCCACTA 59.104 55.000 1.22 0.00 0.00 2.74
3138 3664 1.134965 CCGAGCTTGAACCTCCACTAG 60.135 57.143 1.22 0.00 0.00 2.57
3139 3665 1.737363 CGAGCTTGAACCTCCACTAGC 60.737 57.143 0.00 0.00 35.75 3.42
3140 3666 0.615850 AGCTTGAACCTCCACTAGCC 59.384 55.000 0.00 0.00 36.03 3.93
3141 3667 0.615850 GCTTGAACCTCCACTAGCCT 59.384 55.000 0.00 0.00 0.00 4.58
3142 3668 1.677217 GCTTGAACCTCCACTAGCCTG 60.677 57.143 0.00 0.00 0.00 4.85
3143 3669 0.984230 TTGAACCTCCACTAGCCTGG 59.016 55.000 0.00 0.00 0.00 4.45
3144 3670 0.178903 TGAACCTCCACTAGCCTGGT 60.179 55.000 0.00 0.00 32.50 4.00
3145 3671 0.984995 GAACCTCCACTAGCCTGGTT 59.015 55.000 8.99 8.99 42.85 3.67
3146 3672 0.984995 AACCTCCACTAGCCTGGTTC 59.015 55.000 0.00 0.00 36.40 3.62
3147 3673 0.117340 ACCTCCACTAGCCTGGTTCT 59.883 55.000 0.00 0.00 32.50 3.01
3148 3674 0.827368 CCTCCACTAGCCTGGTTCTC 59.173 60.000 0.00 0.00 32.50 2.87
3149 3675 0.827368 CTCCACTAGCCTGGTTCTCC 59.173 60.000 0.00 0.00 32.50 3.71
3150 3676 0.413832 TCCACTAGCCTGGTTCTCCT 59.586 55.000 0.00 0.00 32.50 3.69
3151 3677 1.203313 TCCACTAGCCTGGTTCTCCTT 60.203 52.381 0.00 0.00 32.50 3.36
3152 3678 1.065854 CCACTAGCCTGGTTCTCCTTG 60.066 57.143 0.00 0.00 34.23 3.61
3153 3679 0.615850 ACTAGCCTGGTTCTCCTTGC 59.384 55.000 0.00 0.00 34.23 4.01
3154 3680 0.908198 CTAGCCTGGTTCTCCTTGCT 59.092 55.000 0.00 0.00 41.49 3.91
3155 3681 2.111384 CTAGCCTGGTTCTCCTTGCTA 58.889 52.381 0.00 0.00 40.09 3.49
3156 3682 0.908198 AGCCTGGTTCTCCTTGCTAG 59.092 55.000 0.00 0.00 38.67 3.42
3157 3683 0.615850 GCCTGGTTCTCCTTGCTAGT 59.384 55.000 0.00 0.00 34.23 2.57
3158 3684 1.406205 GCCTGGTTCTCCTTGCTAGTC 60.406 57.143 0.00 0.00 34.23 2.59
3159 3685 1.208293 CCTGGTTCTCCTTGCTAGTCC 59.792 57.143 0.00 0.00 34.23 3.85
3160 3686 2.183679 CTGGTTCTCCTTGCTAGTCCT 58.816 52.381 0.00 0.00 34.23 3.85
3161 3687 3.366396 CTGGTTCTCCTTGCTAGTCCTA 58.634 50.000 0.00 0.00 34.23 2.94
3162 3688 3.964031 CTGGTTCTCCTTGCTAGTCCTAT 59.036 47.826 0.00 0.00 34.23 2.57
3163 3689 4.362677 TGGTTCTCCTTGCTAGTCCTATT 58.637 43.478 0.00 0.00 34.23 1.73
3164 3690 4.783227 TGGTTCTCCTTGCTAGTCCTATTT 59.217 41.667 0.00 0.00 34.23 1.40
3165 3691 5.250774 TGGTTCTCCTTGCTAGTCCTATTTT 59.749 40.000 0.00 0.00 34.23 1.82
3166 3692 6.181190 GGTTCTCCTTGCTAGTCCTATTTTT 58.819 40.000 0.00 0.00 0.00 1.94
3167 3693 7.037873 TGGTTCTCCTTGCTAGTCCTATTTTTA 60.038 37.037 0.00 0.00 34.23 1.52
3168 3694 7.993758 GGTTCTCCTTGCTAGTCCTATTTTTAT 59.006 37.037 0.00 0.00 0.00 1.40
3171 3697 8.368668 TCTCCTTGCTAGTCCTATTTTTATAGC 58.631 37.037 0.00 0.00 36.91 2.97
3172 3698 8.029782 TCCTTGCTAGTCCTATTTTTATAGCA 57.970 34.615 0.82 0.82 42.69 3.49
3173 3699 7.931948 TCCTTGCTAGTCCTATTTTTATAGCAC 59.068 37.037 4.32 0.00 43.70 4.40
3174 3700 7.173390 CCTTGCTAGTCCTATTTTTATAGCACC 59.827 40.741 4.32 0.00 43.70 5.01
3175 3701 6.220930 TGCTAGTCCTATTTTTATAGCACCG 58.779 40.000 0.82 0.00 40.33 4.94
3176 3702 6.183360 TGCTAGTCCTATTTTTATAGCACCGT 60.183 38.462 0.82 0.00 40.33 4.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
80 81 0.445436 GTGGCTTCTTCTCATGCGTG 59.555 55.000 0.00 0.00 0.00 5.34
472 473 4.015872 TCAAGCTCGACTTTAATGGGTT 57.984 40.909 0.00 0.00 36.04 4.11
681 682 1.238439 CCCGAGTGCAATCAAACAGT 58.762 50.000 15.31 0.00 0.00 3.55
689 690 1.276622 AGTCTAACCCCGAGTGCAAT 58.723 50.000 0.00 0.00 0.00 3.56
783 784 1.067060 GGAAATATGCTTTCGCCCCAC 59.933 52.381 0.00 0.00 34.43 4.61
784 785 1.064017 AGGAAATATGCTTTCGCCCCA 60.064 47.619 0.00 0.00 34.43 4.96
785 786 1.338020 CAGGAAATATGCTTTCGCCCC 59.662 52.381 0.00 0.00 34.43 5.80
786 787 2.291741 CTCAGGAAATATGCTTTCGCCC 59.708 50.000 0.00 0.00 34.43 6.13
787 788 3.206150 TCTCAGGAAATATGCTTTCGCC 58.794 45.455 0.00 0.00 34.43 5.54
788 789 4.122776 TCTCTCAGGAAATATGCTTTCGC 58.877 43.478 0.00 0.00 0.00 4.70
789 790 6.668541 TTTCTCTCAGGAAATATGCTTTCG 57.331 37.500 0.00 0.00 31.29 3.46
790 791 8.734386 TCTTTTTCTCTCAGGAAATATGCTTTC 58.266 33.333 0.00 0.00 35.51 2.62
791 792 8.641498 TCTTTTTCTCTCAGGAAATATGCTTT 57.359 30.769 0.00 0.00 35.51 3.51
792 793 8.105829 TCTCTTTTTCTCTCAGGAAATATGCTT 58.894 33.333 0.00 0.00 35.51 3.91
793 794 7.628234 TCTCTTTTTCTCTCAGGAAATATGCT 58.372 34.615 0.00 0.00 35.51 3.79
794 795 7.012232 CCTCTCTTTTTCTCTCAGGAAATATGC 59.988 40.741 0.00 0.00 35.51 3.14
795 796 8.046107 ACCTCTCTTTTTCTCTCAGGAAATATG 58.954 37.037 0.00 0.00 35.51 1.78
796 797 8.046107 CACCTCTCTTTTTCTCTCAGGAAATAT 58.954 37.037 0.00 0.00 35.51 1.28
797 798 7.390027 CACCTCTCTTTTTCTCTCAGGAAATA 58.610 38.462 0.00 0.00 35.51 1.40
798 799 6.237154 CACCTCTCTTTTTCTCTCAGGAAAT 58.763 40.000 0.00 0.00 35.51 2.17
799 800 5.455326 CCACCTCTCTTTTTCTCTCAGGAAA 60.455 44.000 0.00 0.00 33.98 3.13
800 801 4.040952 CCACCTCTCTTTTTCTCTCAGGAA 59.959 45.833 0.00 0.00 0.00 3.36
801 802 3.580458 CCACCTCTCTTTTTCTCTCAGGA 59.420 47.826 0.00 0.00 0.00 3.86
802 803 3.326297 ACCACCTCTCTTTTTCTCTCAGG 59.674 47.826 0.00 0.00 0.00 3.86
803 804 4.314121 CACCACCTCTCTTTTTCTCTCAG 58.686 47.826 0.00 0.00 0.00 3.35
804 805 3.071602 CCACCACCTCTCTTTTTCTCTCA 59.928 47.826 0.00 0.00 0.00 3.27
805 806 3.558109 CCCACCACCTCTCTTTTTCTCTC 60.558 52.174 0.00 0.00 0.00 3.20
806 807 2.373502 CCCACCACCTCTCTTTTTCTCT 59.626 50.000 0.00 0.00 0.00 3.10
807 808 2.372172 TCCCACCACCTCTCTTTTTCTC 59.628 50.000 0.00 0.00 0.00 2.87
808 809 2.418669 TCCCACCACCTCTCTTTTTCT 58.581 47.619 0.00 0.00 0.00 2.52
809 810 2.885266 GTTCCCACCACCTCTCTTTTTC 59.115 50.000 0.00 0.00 0.00 2.29
810 811 2.514160 AGTTCCCACCACCTCTCTTTTT 59.486 45.455 0.00 0.00 0.00 1.94
811 812 2.136026 AGTTCCCACCACCTCTCTTTT 58.864 47.619 0.00 0.00 0.00 2.27
812 813 1.821088 AGTTCCCACCACCTCTCTTT 58.179 50.000 0.00 0.00 0.00 2.52
813 814 1.821088 AAGTTCCCACCACCTCTCTT 58.179 50.000 0.00 0.00 0.00 2.85
814 815 1.700186 GAAAGTTCCCACCACCTCTCT 59.300 52.381 0.00 0.00 0.00 3.10
815 816 1.608283 CGAAAGTTCCCACCACCTCTC 60.608 57.143 0.00 0.00 0.00 3.20
816 817 0.396811 CGAAAGTTCCCACCACCTCT 59.603 55.000 0.00 0.00 0.00 3.69
817 818 0.605589 CCGAAAGTTCCCACCACCTC 60.606 60.000 0.00 0.00 0.00 3.85
818 819 1.350310 ACCGAAAGTTCCCACCACCT 61.350 55.000 0.00 0.00 0.00 4.00
819 820 1.149854 ACCGAAAGTTCCCACCACC 59.850 57.895 0.00 0.00 0.00 4.61
820 821 0.464916 ACACCGAAAGTTCCCACCAC 60.465 55.000 0.00 0.00 0.00 4.16
821 822 0.464735 CACACCGAAAGTTCCCACCA 60.465 55.000 0.00 0.00 0.00 4.17
822 823 0.464916 ACACACCGAAAGTTCCCACC 60.465 55.000 0.00 0.00 0.00 4.61
823 824 0.661020 CACACACCGAAAGTTCCCAC 59.339 55.000 0.00 0.00 0.00 4.61
853 854 7.050377 TGAAATAGAATGTGTTCTCCTCATCC 58.950 38.462 0.00 0.00 43.50 3.51
872 873 1.545136 TGCGTGGTCGGTACTGAAATA 59.455 47.619 5.82 0.00 37.56 1.40
901 908 5.755861 GTGTTCCATGGATAGCTAAACTCTC 59.244 44.000 17.06 1.02 0.00 3.20
904 911 5.435686 TGTGTTCCATGGATAGCTAAACT 57.564 39.130 17.06 0.00 0.00 2.66
905 912 5.239525 GGATGTGTTCCATGGATAGCTAAAC 59.760 44.000 17.06 9.45 44.74 2.01
955 962 1.299240 GAGCTAGGGAACTACGCGC 60.299 63.158 5.73 0.00 43.67 6.86
956 963 0.029567 CTGAGCTAGGGAACTACGCG 59.970 60.000 3.53 3.53 43.67 6.01
957 964 0.249114 GCTGAGCTAGGGAACTACGC 60.249 60.000 0.00 0.00 43.67 4.42
958 965 0.029567 CGCTGAGCTAGGGAACTACG 59.970 60.000 1.78 0.00 43.67 3.51
959 966 1.065851 GACGCTGAGCTAGGGAACTAC 59.934 57.143 1.78 0.00 43.67 2.73
960 967 1.064611 AGACGCTGAGCTAGGGAACTA 60.065 52.381 1.78 0.00 43.67 2.24
962 969 0.101579 GAGACGCTGAGCTAGGGAAC 59.898 60.000 1.78 7.28 41.61 3.62
963 970 1.038130 GGAGACGCTGAGCTAGGGAA 61.038 60.000 1.78 0.00 41.61 3.97
969 976 2.036414 TGGAGGAGACGCTGAGCT 59.964 61.111 1.78 0.00 0.00 4.09
1047 1133 0.107508 GCATGGCTAAGGTGCTGAGA 60.108 55.000 0.00 0.00 36.02 3.27
1899 2000 5.998363 GGGGGAGAACTAACTAGCATTATTG 59.002 44.000 0.00 0.00 0.00 1.90
1900 2001 5.670361 TGGGGGAGAACTAACTAGCATTATT 59.330 40.000 0.00 0.00 0.00 1.40
1902 2003 4.627015 TGGGGGAGAACTAACTAGCATTA 58.373 43.478 0.00 0.00 0.00 1.90
1903 2004 3.460825 TGGGGGAGAACTAACTAGCATT 58.539 45.455 0.00 0.00 0.00 3.56
1905 2006 2.634639 TGGGGGAGAACTAACTAGCA 57.365 50.000 0.00 0.00 0.00 3.49
1906 2007 5.827326 ATATTGGGGGAGAACTAACTAGC 57.173 43.478 0.00 0.00 0.00 3.42
1907 2008 5.998363 GCAATATTGGGGGAGAACTAACTAG 59.002 44.000 17.02 0.00 0.00 2.57
1908 2009 5.670361 AGCAATATTGGGGGAGAACTAACTA 59.330 40.000 17.02 0.00 0.00 2.24
1909 2010 4.478686 AGCAATATTGGGGGAGAACTAACT 59.521 41.667 17.02 0.00 0.00 2.24
1911 2012 4.141251 GGAGCAATATTGGGGGAGAACTAA 60.141 45.833 17.02 0.00 0.00 2.24
1914 2015 2.587522 GGAGCAATATTGGGGGAGAAC 58.412 52.381 17.02 0.00 0.00 3.01
1915 2016 1.499007 GGGAGCAATATTGGGGGAGAA 59.501 52.381 17.02 0.00 0.00 2.87
1916 2017 1.149101 GGGAGCAATATTGGGGGAGA 58.851 55.000 17.02 0.00 0.00 3.71
1917 2018 0.113190 GGGGAGCAATATTGGGGGAG 59.887 60.000 17.02 0.00 0.00 4.30
1918 2019 0.329434 AGGGGAGCAATATTGGGGGA 60.329 55.000 17.02 0.00 0.00 4.81
1919 2020 0.562674 AAGGGGAGCAATATTGGGGG 59.437 55.000 17.02 0.00 0.00 5.40
1920 2021 1.481242 GGAAGGGGAGCAATATTGGGG 60.481 57.143 17.02 0.00 0.00 4.96
1921 2022 1.481242 GGGAAGGGGAGCAATATTGGG 60.481 57.143 17.02 0.00 0.00 4.12
1922 2023 1.481242 GGGGAAGGGGAGCAATATTGG 60.481 57.143 17.02 0.00 0.00 3.16
1926 2027 1.222567 GAAGGGGAAGGGGAGCAATA 58.777 55.000 0.00 0.00 0.00 1.90
1929 2030 1.833055 TAGGAAGGGGAAGGGGAGCA 61.833 60.000 0.00 0.00 0.00 4.26
1930 2031 0.623617 TTAGGAAGGGGAAGGGGAGC 60.624 60.000 0.00 0.00 0.00 4.70
1931 2032 2.214364 ATTAGGAAGGGGAAGGGGAG 57.786 55.000 0.00 0.00 0.00 4.30
1932 2033 2.048723 AGAATTAGGAAGGGGAAGGGGA 59.951 50.000 0.00 0.00 0.00 4.81
1933 2034 2.503824 AGAATTAGGAAGGGGAAGGGG 58.496 52.381 0.00 0.00 0.00 4.79
1934 2035 3.373110 CCAAGAATTAGGAAGGGGAAGGG 60.373 52.174 0.00 0.00 0.00 3.95
1935 2036 3.527665 TCCAAGAATTAGGAAGGGGAAGG 59.472 47.826 0.00 0.00 0.00 3.46
1936 2037 4.862641 TCCAAGAATTAGGAAGGGGAAG 57.137 45.455 0.00 0.00 0.00 3.46
2034 2208 3.430929 CGAGAGCCACTTTATTAGCAGGT 60.431 47.826 0.00 0.00 0.00 4.00
2051 2266 0.108472 TCTGCAGCCATTGACGAGAG 60.108 55.000 9.47 0.00 0.00 3.20
2189 2408 3.499050 CACCTGATGCTCTGCTGC 58.501 61.111 0.00 0.00 0.00 5.25
2366 2629 2.123208 TGGTGACCGGTGACTCCA 60.123 61.111 23.72 17.28 35.57 3.86
2367 2630 2.342648 GTGGTGACCGGTGACTCC 59.657 66.667 23.72 14.89 0.00 3.85
2368 2631 2.342648 GGTGGTGACCGGTGACTC 59.657 66.667 23.72 16.05 30.61 3.36
2369 2632 2.445085 TGGTGGTGACCGGTGACT 60.445 61.111 23.72 0.00 46.62 3.41
2370 2633 2.280592 GTGGTGGTGACCGGTGAC 60.281 66.667 14.63 15.81 46.62 3.67
2371 2634 3.552384 GGTGGTGGTGACCGGTGA 61.552 66.667 14.63 0.00 46.62 4.02
2444 2719 6.020881 TGGGGTCTCCTTCTTTTCTAAAAA 57.979 37.500 0.00 0.00 36.20 1.94
2445 2720 5.656549 TGGGGTCTCCTTCTTTTCTAAAA 57.343 39.130 0.00 0.00 36.20 1.52
2455 2920 5.399113 AGATATAGAGTTGGGGTCTCCTTC 58.601 45.833 0.00 0.00 36.20 3.46
2458 2923 6.553857 TCTAAGATATAGAGTTGGGGTCTCC 58.446 44.000 0.00 0.00 32.93 3.71
2459 2924 8.658840 AATCTAAGATATAGAGTTGGGGTCTC 57.341 38.462 0.00 0.00 0.00 3.36
2461 2926 9.536510 ACTAATCTAAGATATAGAGTTGGGGTC 57.463 37.037 0.00 0.00 0.00 4.46
2462 2927 9.900112 AACTAATCTAAGATATAGAGTTGGGGT 57.100 33.333 0.00 0.00 0.00 4.95
2863 3387 8.408043 AAAAATGACACTATTCACATGAAGGA 57.592 30.769 0.00 0.00 37.48 3.36
3051 3577 1.185315 CGGGCCATTCTTCCAATGTT 58.815 50.000 4.39 0.00 0.00 2.71
3052 3578 0.331278 TCGGGCCATTCTTCCAATGT 59.669 50.000 4.39 0.00 0.00 2.71
3053 3579 0.740737 GTCGGGCCATTCTTCCAATG 59.259 55.000 4.39 0.00 0.00 2.82
3054 3580 0.331278 TGTCGGGCCATTCTTCCAAT 59.669 50.000 4.39 0.00 0.00 3.16
3055 3581 0.608035 GTGTCGGGCCATTCTTCCAA 60.608 55.000 4.39 0.00 0.00 3.53
3056 3582 1.002624 GTGTCGGGCCATTCTTCCA 60.003 57.895 4.39 0.00 0.00 3.53
3057 3583 0.539986 TAGTGTCGGGCCATTCTTCC 59.460 55.000 4.39 0.00 0.00 3.46
3058 3584 1.207329 ACTAGTGTCGGGCCATTCTTC 59.793 52.381 4.39 0.00 0.00 2.87
3059 3585 1.276622 ACTAGTGTCGGGCCATTCTT 58.723 50.000 4.39 0.00 0.00 2.52
3060 3586 1.066143 CAACTAGTGTCGGGCCATTCT 60.066 52.381 4.39 0.00 0.00 2.40
3061 3587 1.066430 TCAACTAGTGTCGGGCCATTC 60.066 52.381 4.39 0.00 0.00 2.67
3062 3588 0.981183 TCAACTAGTGTCGGGCCATT 59.019 50.000 4.39 0.00 0.00 3.16
3063 3589 0.537188 CTCAACTAGTGTCGGGCCAT 59.463 55.000 4.39 0.00 0.00 4.40
3064 3590 1.972198 CTCAACTAGTGTCGGGCCA 59.028 57.895 4.39 0.00 0.00 5.36
3065 3591 1.448013 GCTCAACTAGTGTCGGGCC 60.448 63.158 0.00 0.00 0.00 5.80
3066 3592 1.805945 CGCTCAACTAGTGTCGGGC 60.806 63.158 0.00 0.00 0.00 6.13
3067 3593 1.153823 CCGCTCAACTAGTGTCGGG 60.154 63.158 14.05 6.57 39.26 5.14
3068 3594 1.153823 CCCGCTCAACTAGTGTCGG 60.154 63.158 14.61 14.61 41.12 4.79
3069 3595 0.456221 ATCCCGCTCAACTAGTGTCG 59.544 55.000 0.00 0.00 33.58 4.35
3070 3596 1.927895 CATCCCGCTCAACTAGTGTC 58.072 55.000 0.00 0.00 33.58 3.67
3071 3597 0.108138 GCATCCCGCTCAACTAGTGT 60.108 55.000 0.00 0.00 37.77 3.55
3072 3598 1.148157 CGCATCCCGCTCAACTAGTG 61.148 60.000 0.00 0.00 39.08 2.74
3073 3599 1.141881 CGCATCCCGCTCAACTAGT 59.858 57.895 0.00 0.00 39.08 2.57
3074 3600 0.596083 CTCGCATCCCGCTCAACTAG 60.596 60.000 0.00 0.00 39.08 2.57
3075 3601 1.437573 CTCGCATCCCGCTCAACTA 59.562 57.895 0.00 0.00 39.08 2.24
3076 3602 2.185350 CTCGCATCCCGCTCAACT 59.815 61.111 0.00 0.00 39.08 3.16
3077 3603 2.892425 CCTCGCATCCCGCTCAAC 60.892 66.667 0.00 0.00 39.08 3.18
3078 3604 3.074369 TCCTCGCATCCCGCTCAA 61.074 61.111 0.00 0.00 39.08 3.02
3079 3605 3.838271 GTCCTCGCATCCCGCTCA 61.838 66.667 0.00 0.00 39.08 4.26
3080 3606 2.650813 ATTGTCCTCGCATCCCGCTC 62.651 60.000 0.00 0.00 39.08 5.03
3081 3607 2.735772 ATTGTCCTCGCATCCCGCT 61.736 57.895 0.00 0.00 39.08 5.52
3082 3608 2.203070 ATTGTCCTCGCATCCCGC 60.203 61.111 0.00 0.00 36.73 6.13
3083 3609 1.889105 CCATTGTCCTCGCATCCCG 60.889 63.158 0.00 0.00 38.61 5.14
3084 3610 1.526917 CCCATTGTCCTCGCATCCC 60.527 63.158 0.00 0.00 0.00 3.85
3085 3611 2.189499 GCCCATTGTCCTCGCATCC 61.189 63.158 0.00 0.00 0.00 3.51
3086 3612 2.189499 GGCCCATTGTCCTCGCATC 61.189 63.158 0.00 0.00 0.00 3.91
3087 3613 2.124151 GGCCCATTGTCCTCGCAT 60.124 61.111 0.00 0.00 0.00 4.73
3088 3614 3.329889 AGGCCCATTGTCCTCGCA 61.330 61.111 0.00 0.00 0.00 5.10
3089 3615 2.825836 CAGGCCCATTGTCCTCGC 60.826 66.667 0.00 0.00 0.00 5.03
3090 3616 2.124570 CCAGGCCCATTGTCCTCG 60.125 66.667 0.00 0.00 0.00 4.63
3091 3617 2.440980 GCCAGGCCCATTGTCCTC 60.441 66.667 0.00 0.00 0.00 3.71
3092 3618 4.066139 GGCCAGGCCCATTGTCCT 62.066 66.667 21.62 0.00 44.06 3.85
3102 3628 3.140814 GGACGAAATGGGCCAGGC 61.141 66.667 13.78 1.26 0.00 4.85
3103 3629 2.824041 CGGACGAAATGGGCCAGG 60.824 66.667 13.78 3.60 0.00 4.45
3104 3630 1.815421 CTCGGACGAAATGGGCCAG 60.815 63.158 13.78 0.00 0.00 4.85
3105 3631 2.267642 CTCGGACGAAATGGGCCA 59.732 61.111 9.61 9.61 0.00 5.36
3106 3632 3.202706 GCTCGGACGAAATGGGCC 61.203 66.667 0.00 0.00 0.00 5.80
3107 3633 1.745489 AAGCTCGGACGAAATGGGC 60.745 57.895 0.00 0.00 0.00 5.36
3108 3634 0.391130 TCAAGCTCGGACGAAATGGG 60.391 55.000 0.00 0.00 0.00 4.00
3109 3635 1.128692 GTTCAAGCTCGGACGAAATGG 59.871 52.381 0.00 0.00 0.00 3.16
3110 3636 1.128692 GGTTCAAGCTCGGACGAAATG 59.871 52.381 0.00 0.00 0.00 2.32
3111 3637 1.002087 AGGTTCAAGCTCGGACGAAAT 59.998 47.619 0.00 0.00 0.00 2.17
3112 3638 0.391597 AGGTTCAAGCTCGGACGAAA 59.608 50.000 0.00 0.00 0.00 3.46
3113 3639 0.038526 GAGGTTCAAGCTCGGACGAA 60.039 55.000 0.00 0.00 32.69 3.85
3114 3640 1.585006 GAGGTTCAAGCTCGGACGA 59.415 57.895 0.00 0.00 32.69 4.20
3115 3641 1.446272 GGAGGTTCAAGCTCGGACG 60.446 63.158 10.47 0.00 43.29 4.79
3116 3642 0.670854 GTGGAGGTTCAAGCTCGGAC 60.671 60.000 10.47 6.14 43.29 4.79
3117 3643 0.832135 AGTGGAGGTTCAAGCTCGGA 60.832 55.000 10.47 0.00 43.29 4.55
3118 3644 0.895530 TAGTGGAGGTTCAAGCTCGG 59.104 55.000 10.47 0.00 43.29 4.63
3119 3645 1.737363 GCTAGTGGAGGTTCAAGCTCG 60.737 57.143 10.47 0.00 43.29 5.03
3120 3646 1.406205 GGCTAGTGGAGGTTCAAGCTC 60.406 57.143 8.17 8.17 41.73 4.09
3121 3647 0.615850 GGCTAGTGGAGGTTCAAGCT 59.384 55.000 0.00 0.00 0.00 3.74
3122 3648 0.615850 AGGCTAGTGGAGGTTCAAGC 59.384 55.000 0.00 0.00 0.00 4.01
3123 3649 1.065854 CCAGGCTAGTGGAGGTTCAAG 60.066 57.143 0.00 0.00 40.44 3.02
3124 3650 0.984230 CCAGGCTAGTGGAGGTTCAA 59.016 55.000 0.00 0.00 40.44 2.69
3125 3651 0.178903 ACCAGGCTAGTGGAGGTTCA 60.179 55.000 6.39 0.00 40.44 3.18
3126 3652 0.984995 AACCAGGCTAGTGGAGGTTC 59.015 55.000 6.39 0.00 40.44 3.62
3127 3653 0.984995 GAACCAGGCTAGTGGAGGTT 59.015 55.000 6.39 4.51 44.69 3.50
3128 3654 0.117340 AGAACCAGGCTAGTGGAGGT 59.883 55.000 6.39 0.00 40.44 3.85
3129 3655 0.827368 GAGAACCAGGCTAGTGGAGG 59.173 60.000 6.39 0.00 40.44 4.30
3130 3656 0.827368 GGAGAACCAGGCTAGTGGAG 59.173 60.000 6.39 0.00 40.44 3.86
3131 3657 0.413832 AGGAGAACCAGGCTAGTGGA 59.586 55.000 6.39 0.00 40.44 4.02
3132 3658 1.065854 CAAGGAGAACCAGGCTAGTGG 60.066 57.143 0.00 0.00 44.01 4.00
3133 3659 1.677217 GCAAGGAGAACCAGGCTAGTG 60.677 57.143 0.00 0.00 38.94 2.74
3134 3660 0.615850 GCAAGGAGAACCAGGCTAGT 59.384 55.000 0.00 0.00 38.94 2.57
3135 3661 0.908198 AGCAAGGAGAACCAGGCTAG 59.092 55.000 0.00 0.00 42.82 3.42
3136 3662 2.111384 CTAGCAAGGAGAACCAGGCTA 58.889 52.381 0.00 0.00 43.73 3.93
3137 3663 0.908198 CTAGCAAGGAGAACCAGGCT 59.092 55.000 0.00 0.00 45.18 4.58
3138 3664 0.615850 ACTAGCAAGGAGAACCAGGC 59.384 55.000 0.00 0.00 38.94 4.85
3139 3665 1.208293 GGACTAGCAAGGAGAACCAGG 59.792 57.143 0.00 0.00 38.94 4.45
3140 3666 2.183679 AGGACTAGCAAGGAGAACCAG 58.816 52.381 0.00 0.00 38.94 4.00
3141 3667 2.327325 AGGACTAGCAAGGAGAACCA 57.673 50.000 0.00 0.00 38.94 3.67
3142 3668 5.360649 AAATAGGACTAGCAAGGAGAACC 57.639 43.478 0.00 0.00 0.00 3.62
3143 3669 8.966069 ATAAAAATAGGACTAGCAAGGAGAAC 57.034 34.615 0.00 0.00 0.00 3.01
3145 3671 8.368668 GCTATAAAAATAGGACTAGCAAGGAGA 58.631 37.037 0.00 0.00 33.49 3.71
3146 3672 8.150945 TGCTATAAAAATAGGACTAGCAAGGAG 58.849 37.037 0.00 0.00 38.77 3.69
3147 3673 7.931948 GTGCTATAAAAATAGGACTAGCAAGGA 59.068 37.037 9.11 0.00 42.08 3.36
3148 3674 7.173390 GGTGCTATAAAAATAGGACTAGCAAGG 59.827 40.741 14.19 0.00 42.08 3.61
3149 3675 7.095607 CGGTGCTATAAAAATAGGACTAGCAAG 60.096 40.741 14.19 0.00 42.08 4.01
3150 3676 6.704493 CGGTGCTATAAAAATAGGACTAGCAA 59.296 38.462 14.19 0.00 42.08 3.91
3151 3677 6.183360 ACGGTGCTATAAAAATAGGACTAGCA 60.183 38.462 14.19 0.00 42.68 3.49
3152 3678 6.221659 ACGGTGCTATAAAAATAGGACTAGC 58.778 40.000 14.19 0.00 42.68 3.42


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

AutoCloner maintained by Alex Coulton.