Multiple sequence alignment - TraesCS2B01G207100

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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 TraesCS2B01G207100 chr2B 100.000 3109 0 0 2356 5464 185814592 185811484 0.000000e+00 5742.0
1 TraesCS2B01G207100 chr2B 100.000 1959 0 0 1 1959 185816947 185814989 0.000000e+00 3618.0
2 TraesCS2B01G207100 chr2B 96.203 869 33 0 1 869 18144027 18143159 0.000000e+00 1423.0
3 TraesCS2B01G207100 chr2B 93.077 130 8 1 3984 4112 572791188 572791059 7.230000e-44 189.0
4 TraesCS2B01G207100 chr2D 93.610 2582 110 19 2356 4912 131473360 131470809 0.000000e+00 3803.0
5 TraesCS2B01G207100 chr2D 95.349 559 20 3 1386 1938 131474198 131473640 0.000000e+00 883.0
6 TraesCS2B01G207100 chr2D 92.247 503 25 6 886 1379 131474737 131474240 0.000000e+00 701.0
7 TraesCS2B01G207100 chr2D 89.439 303 16 3 5087 5384 131470633 131470342 8.650000e-98 368.0
8 TraesCS2B01G207100 chr2D 91.139 158 11 3 4928 5082 131470825 131470668 1.540000e-50 211.0
9 TraesCS2B01G207100 chr2D 93.077 130 8 1 3984 4112 489409553 489409424 7.230000e-44 189.0
10 TraesCS2B01G207100 chr2A 94.667 2269 98 5 2663 4912 138190788 138188524 0.000000e+00 3498.0
11 TraesCS2B01G207100 chr2A 95.722 561 18 2 1386 1940 138191891 138191331 0.000000e+00 898.0
12 TraesCS2B01G207100 chr2A 92.534 442 17 7 953 1379 138192373 138191933 2.160000e-173 619.0
13 TraesCS2B01G207100 chr2A 87.368 285 12 9 2358 2626 138191067 138190791 6.880000e-79 305.0
14 TraesCS2B01G207100 chr2A 88.426 216 16 3 5166 5381 138188324 138188118 9.090000e-63 252.0
15 TraesCS2B01G207100 chr2A 91.975 162 11 2 4931 5090 138188537 138188376 5.510000e-55 226.0
16 TraesCS2B01G207100 chr2A 92.308 130 9 1 3984 4112 632952435 632952306 3.360000e-42 183.0
17 TraesCS2B01G207100 chr5B 96.069 865 34 0 1 865 629689077 629689941 0.000000e+00 1410.0
18 TraesCS2B01G207100 chr5B 95.940 862 34 1 1 862 387398628 387399488 0.000000e+00 1397.0
19 TraesCS2B01G207100 chr5D 96.065 864 32 2 1 862 413675827 413676690 0.000000e+00 1406.0
20 TraesCS2B01G207100 chr4A 95.853 868 34 2 1 867 652092453 652091587 0.000000e+00 1402.0
21 TraesCS2B01G207100 chr4A 95.747 870 34 3 1 867 724796445 724797314 0.000000e+00 1399.0
22 TraesCS2B01G207100 chr7B 95.944 863 35 0 1 863 9678463 9677601 0.000000e+00 1400.0
23 TraesCS2B01G207100 chr4B 95.737 868 37 0 1 868 649630053 649630920 0.000000e+00 1399.0
24 TraesCS2B01G207100 chr1B 95.737 868 35 1 1 868 47511170 47512035 0.000000e+00 1397.0
25 TraesCS2B01G207100 chr1B 94.545 55 3 0 5087 5141 286168383 286168437 9.750000e-13 86.1
26 TraesCS2B01G207100 chr3A 94.030 134 8 0 3990 4123 210248518 210248651 2.580000e-48 204.0
27 TraesCS2B01G207100 chr3D 92.537 134 10 0 3990 4123 172356579 172356712 5.590000e-45 193.0
28 TraesCS2B01G207100 chr6B 93.130 131 8 1 3983 4112 46424661 46424791 2.010000e-44 191.0
29 TraesCS2B01G207100 chr6D 88.732 142 16 0 3983 4124 354422690 354422831 2.020000e-39 174.0
30 TraesCS2B01G207100 chr4D 96.364 55 2 0 5087 5141 24182046 24182100 2.100000e-14 91.6
31 TraesCS2B01G207100 chr4D 94.545 55 3 0 5087 5141 123519040 123518986 9.750000e-13 86.1
32 TraesCS2B01G207100 chr4D 94.545 55 3 0 5087 5141 241141451 241141397 9.750000e-13 86.1
33 TraesCS2B01G207100 chr4D 94.545 55 3 0 5087 5141 483698154 483698208 9.750000e-13 86.1
34 TraesCS2B01G207100 chr4D 94.595 37 1 1 5054 5089 403360593 403360557 7.650000e-04 56.5
35 TraesCS2B01G207100 chrUn 94.545 55 3 0 5087 5141 237256037 237255983 9.750000e-13 86.1
36 TraesCS2B01G207100 chrUn 95.652 46 2 0 5096 5141 182413221 182413176 2.110000e-09 75.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2B01G207100 chr2B 185811484 185816947 5463 True 4680.000000 5742 100.0000 1 5464 2 chr2B.!!$R3 5463
1 TraesCS2B01G207100 chr2B 18143159 18144027 868 True 1423.000000 1423 96.2030 1 869 1 chr2B.!!$R1 868
2 TraesCS2B01G207100 chr2D 131470342 131474737 4395 True 1193.200000 3803 92.3568 886 5384 5 chr2D.!!$R2 4498
3 TraesCS2B01G207100 chr2A 138188118 138192373 4255 True 966.333333 3498 91.7820 953 5381 6 chr2A.!!$R2 4428
4 TraesCS2B01G207100 chr5B 629689077 629689941 864 False 1410.000000 1410 96.0690 1 865 1 chr5B.!!$F2 864
5 TraesCS2B01G207100 chr5B 387398628 387399488 860 False 1397.000000 1397 95.9400 1 862 1 chr5B.!!$F1 861
6 TraesCS2B01G207100 chr5D 413675827 413676690 863 False 1406.000000 1406 96.0650 1 862 1 chr5D.!!$F1 861
7 TraesCS2B01G207100 chr4A 652091587 652092453 866 True 1402.000000 1402 95.8530 1 867 1 chr4A.!!$R1 866
8 TraesCS2B01G207100 chr4A 724796445 724797314 869 False 1399.000000 1399 95.7470 1 867 1 chr4A.!!$F1 866
9 TraesCS2B01G207100 chr7B 9677601 9678463 862 True 1400.000000 1400 95.9440 1 863 1 chr7B.!!$R1 862
10 TraesCS2B01G207100 chr4B 649630053 649630920 867 False 1399.000000 1399 95.7370 1 868 1 chr4B.!!$F1 867
11 TraesCS2B01G207100 chr1B 47511170 47512035 865 False 1397.000000 1397 95.7370 1 868 1 chr1B.!!$F1 867

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
888 893 0.036164 TGCGCCGGCTTGGATTATAT 59.964 50.000 26.68 0.0 42.00 0.86 F
1372 1394 0.803768 CGAGGAATCACTGGCACGAG 60.804 60.000 0.00 0.0 0.00 4.18 F
1504 1563 0.984230 TGAGCTAGTTGGAACCCCAG 59.016 55.000 0.00 0.0 44.60 4.45 F
1505 1564 0.984995 GAGCTAGTTGGAACCCCAGT 59.015 55.000 0.00 0.0 44.60 4.00 F
1708 1767 1.535860 GGATGCGTTTGTTGCACTGTT 60.536 47.619 0.00 0.0 46.57 3.16 F
3420 3519 2.672996 GTGCGGTGCCAGGTTGAT 60.673 61.111 0.00 0.0 0.00 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2396 2461 1.753073 CCTTTGCAGGAATAAGCAGGG 59.247 52.381 0.00 0.00 44.19 4.45 R
2680 2762 3.632643 TCCATTCTGCAGCAGATGTAA 57.367 42.857 25.94 11.49 40.39 2.41 R
3501 3600 4.273148 ACAAAGTAAGTCGGAGAAGCAT 57.727 40.909 0.00 0.00 39.69 3.79 R
3554 3653 5.717178 TGATTTACTGTACTCCAGAAGCTCT 59.283 40.000 0.00 0.00 44.49 4.09 R
3666 3765 4.630505 CACTGACACATCTCATTCAAGGAG 59.369 45.833 0.00 0.00 0.00 3.69 R
4919 5020 0.034337 GGTGCTCCCGTGTGTTAAGA 59.966 55.000 0.00 0.00 0.00 2.10 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
409 412 2.048597 CGTAGACAACCGCCTGCA 60.049 61.111 0.00 0.00 0.00 4.41
485 488 0.606401 CAACAACGGGGACAGAGCAT 60.606 55.000 0.00 0.00 0.00 3.79
488 491 1.349688 ACAACGGGGACAGAGCATAAA 59.650 47.619 0.00 0.00 0.00 1.40
489 492 2.224670 ACAACGGGGACAGAGCATAAAA 60.225 45.455 0.00 0.00 0.00 1.52
516 519 2.270205 CCTGATGGAGTTGCCGCT 59.730 61.111 0.00 0.00 40.66 5.52
595 598 0.615331 ACACGATGCCATCAACTCCT 59.385 50.000 5.40 0.00 0.00 3.69
619 622 2.047274 CGCCATGAAGGACACCGT 60.047 61.111 0.00 0.00 41.22 4.83
687 690 3.948719 ACCACCCCAACGACGCAT 61.949 61.111 0.00 0.00 0.00 4.73
718 721 8.000127 ACCTACAAATCCAAAACCTAACTACAA 59.000 33.333 0.00 0.00 0.00 2.41
869 874 3.307269 GGCTAGGGTAGGAAAACGTCTTT 60.307 47.826 0.00 0.00 0.00 2.52
870 875 3.683340 GCTAGGGTAGGAAAACGTCTTTG 59.317 47.826 0.00 0.00 0.00 2.77
871 876 2.501261 AGGGTAGGAAAACGTCTTTGC 58.499 47.619 0.00 0.00 0.00 3.68
872 877 1.196127 GGGTAGGAAAACGTCTTTGCG 59.804 52.381 0.00 0.00 37.94 4.85
873 878 1.399343 GGTAGGAAAACGTCTTTGCGC 60.399 52.381 0.00 0.00 34.88 6.09
874 879 0.869730 TAGGAAAACGTCTTTGCGCC 59.130 50.000 4.18 0.00 34.88 6.53
875 880 1.724581 GGAAAACGTCTTTGCGCCG 60.725 57.895 4.18 2.53 34.88 6.46
876 881 1.724581 GAAAACGTCTTTGCGCCGG 60.725 57.895 4.18 0.00 34.88 6.13
877 882 3.817274 AAAACGTCTTTGCGCCGGC 62.817 57.895 19.07 19.07 40.52 6.13
880 885 4.741781 CGTCTTTGCGCCGGCTTG 62.742 66.667 26.68 11.41 40.82 4.01
881 886 4.404654 GTCTTTGCGCCGGCTTGG 62.405 66.667 26.68 10.55 40.82 3.61
882 887 4.634703 TCTTTGCGCCGGCTTGGA 62.635 61.111 26.68 8.40 42.00 3.53
883 888 3.443045 CTTTGCGCCGGCTTGGAT 61.443 61.111 26.68 0.00 42.00 3.41
884 889 2.988684 TTTGCGCCGGCTTGGATT 60.989 55.556 26.68 0.00 42.00 3.01
885 890 1.653094 CTTTGCGCCGGCTTGGATTA 61.653 55.000 26.68 2.01 42.00 1.75
886 891 1.034838 TTTGCGCCGGCTTGGATTAT 61.035 50.000 26.68 0.00 42.00 1.28
887 892 0.179043 TTGCGCCGGCTTGGATTATA 60.179 50.000 26.68 0.00 42.00 0.98
888 893 0.036164 TGCGCCGGCTTGGATTATAT 59.964 50.000 26.68 0.00 42.00 0.86
889 894 1.276705 TGCGCCGGCTTGGATTATATA 59.723 47.619 26.68 0.00 42.00 0.86
890 895 1.933853 GCGCCGGCTTGGATTATATAG 59.066 52.381 26.68 4.66 42.00 1.31
891 896 2.550978 CGCCGGCTTGGATTATATAGG 58.449 52.381 26.68 0.00 42.00 2.57
892 897 2.093658 CGCCGGCTTGGATTATATAGGT 60.094 50.000 26.68 0.00 42.00 3.08
893 898 3.532542 GCCGGCTTGGATTATATAGGTC 58.467 50.000 22.15 0.00 42.00 3.85
894 899 3.197983 GCCGGCTTGGATTATATAGGTCT 59.802 47.826 22.15 0.00 42.00 3.85
951 956 2.372350 GAACGAGTCAAAACCGCAAAG 58.628 47.619 0.00 0.00 0.00 2.77
970 975 1.073923 AGACCCAAACCTAGCAACCTG 59.926 52.381 0.00 0.00 0.00 4.00
1008 1016 2.912542 TCGGCGGCTATGGAGGAG 60.913 66.667 7.21 0.00 0.00 3.69
1089 1097 2.762043 GCTTCCTCCTCCGCCTCT 60.762 66.667 0.00 0.00 0.00 3.69
1296 1312 3.505293 ACTACGGACTCCTTACTGACAAC 59.495 47.826 0.00 0.00 0.00 3.32
1341 1357 5.856126 TTGAATCGTAGTTTAAGCCTGTG 57.144 39.130 0.00 0.00 0.00 3.66
1353 1369 2.256117 AGCCTGTGTTTGTGTCCTAC 57.744 50.000 0.00 0.00 0.00 3.18
1372 1394 0.803768 CGAGGAATCACTGGCACGAG 60.804 60.000 0.00 0.00 0.00 4.18
1384 1406 3.975992 GCACGAGCCTGTATTTGTG 57.024 52.632 0.00 0.00 33.58 3.33
1388 1444 1.623811 ACGAGCCTGTATTTGTGTCCT 59.376 47.619 0.00 0.00 0.00 3.85
1463 1522 6.638468 CCTTTCTTCACAATTGTGCTCTAAAC 59.362 38.462 29.84 0.00 45.25 2.01
1497 1556 7.817962 GTCAGTTTATTAGTTGAGCTAGTTGGA 59.182 37.037 0.00 0.00 0.00 3.53
1504 1563 0.984230 TGAGCTAGTTGGAACCCCAG 59.016 55.000 0.00 0.00 44.60 4.45
1505 1564 0.984995 GAGCTAGTTGGAACCCCAGT 59.015 55.000 0.00 0.00 44.60 4.00
1603 1662 8.204836 AGAATAGCGGTAATACTGAATGAGTTT 58.795 33.333 2.95 0.00 35.96 2.66
1708 1767 1.535860 GGATGCGTTTGTTGCACTGTT 60.536 47.619 0.00 0.00 46.57 3.16
1940 2005 7.531716 ACTTCGTGTTGACATTCTGTTTTTAA 58.468 30.769 0.00 0.00 0.00 1.52
1941 2006 7.696453 ACTTCGTGTTGACATTCTGTTTTTAAG 59.304 33.333 0.00 0.00 0.00 1.85
1943 2008 7.531716 TCGTGTTGACATTCTGTTTTTAAGTT 58.468 30.769 0.00 0.00 0.00 2.66
1945 2010 8.730427 CGTGTTGACATTCTGTTTTTAAGTTAC 58.270 33.333 0.00 0.00 0.00 2.50
1946 2011 8.730427 GTGTTGACATTCTGTTTTTAAGTTACG 58.270 33.333 0.00 0.00 0.00 3.18
1947 2012 8.452534 TGTTGACATTCTGTTTTTAAGTTACGT 58.547 29.630 0.00 0.00 0.00 3.57
1948 2013 8.730427 GTTGACATTCTGTTTTTAAGTTACGTG 58.270 33.333 0.00 0.00 0.00 4.49
1949 2014 7.976826 TGACATTCTGTTTTTAAGTTACGTGT 58.023 30.769 0.00 0.00 0.00 4.49
1950 2015 9.096160 TGACATTCTGTTTTTAAGTTACGTGTA 57.904 29.630 0.00 0.00 0.00 2.90
1951 2016 9.361712 GACATTCTGTTTTTAAGTTACGTGTAC 57.638 33.333 0.00 0.00 0.00 2.90
1952 2017 8.337532 ACATTCTGTTTTTAAGTTACGTGTACC 58.662 33.333 0.00 0.00 0.00 3.34
1953 2018 6.843069 TCTGTTTTTAAGTTACGTGTACCC 57.157 37.500 0.00 0.00 0.00 3.69
1954 2019 6.581712 TCTGTTTTTAAGTTACGTGTACCCT 58.418 36.000 0.00 0.00 0.00 4.34
1955 2020 6.479660 TCTGTTTTTAAGTTACGTGTACCCTG 59.520 38.462 0.00 0.00 0.00 4.45
1956 2021 5.007528 TGTTTTTAAGTTACGTGTACCCTGC 59.992 40.000 0.00 0.00 0.00 4.85
1957 2022 4.605640 TTTAAGTTACGTGTACCCTGCT 57.394 40.909 0.00 0.00 0.00 4.24
1958 2023 4.605640 TTAAGTTACGTGTACCCTGCTT 57.394 40.909 0.00 0.00 0.00 3.91
2552 2634 4.188462 TGGTCTGTTCCGCTGTATATTTG 58.812 43.478 0.00 0.00 0.00 2.32
2588 2670 4.282957 TCTCATAGGTCATGCTCTTCCATC 59.717 45.833 0.00 0.00 34.35 3.51
2661 2743 9.294030 GATGACGCAAATCTGAATTTAATTTCT 57.706 29.630 10.54 0.00 33.27 2.52
2680 2762 4.323569 TCTCCTAACCTGTCAGACTCAT 57.676 45.455 0.00 0.00 0.00 2.90
2890 2989 4.893608 TCATTAGTTTGTAGCTGCAGTGA 58.106 39.130 16.64 3.30 0.00 3.41
2960 3059 7.722728 TCAGATAAATGCTTATTTCTCTGGCAT 59.277 33.333 19.26 0.00 41.31 4.40
3025 3124 4.999950 ACTCTTTCCTGCTGAACATGTTAG 59.000 41.667 11.95 10.35 31.05 2.34
3034 3133 6.986231 CCTGCTGAACATGTTAGTGTATATGA 59.014 38.462 11.95 0.00 0.00 2.15
3167 3266 4.063689 GGCATCGATCTCTCATTTCACAT 58.936 43.478 0.00 0.00 0.00 3.21
3211 3310 7.623925 GCTTCTTGAATCTGAGATTCTTGTGTC 60.624 40.741 29.15 14.65 0.00 3.67
3269 3368 8.788806 TCTTGTTGGTGATAATTATCAAAACGT 58.211 29.630 28.72 2.07 43.65 3.99
3420 3519 2.672996 GTGCGGTGCCAGGTTGAT 60.673 61.111 0.00 0.00 0.00 2.57
3501 3600 5.763204 GTCTGATTTGGTCACTACCTTTTGA 59.237 40.000 0.00 0.00 46.91 2.69
3554 3653 6.214615 TCCCCTAGAATTCATCACAACTACAA 59.785 38.462 8.44 0.00 0.00 2.41
3617 3716 4.024048 CGCCATGATAACAGTATTTCCACC 60.024 45.833 0.00 0.00 0.00 4.61
3646 3745 6.889177 TGCATTTATGAACAGGATCCAGTTTA 59.111 34.615 22.05 18.68 0.00 2.01
3666 3765 9.583765 CAGTTTACTTGACTAAGGTACCTTATC 57.416 37.037 30.15 26.20 37.81 1.75
3703 3802 5.473039 TGTGTCAGTGATGTCTATGTTCTG 58.527 41.667 0.00 0.00 0.00 3.02
3711 3810 4.895889 TGATGTCTATGTTCTGAGGGTAGG 59.104 45.833 0.00 0.00 0.00 3.18
3806 3905 0.902531 TGGAGTCCGGAAAGACATCC 59.097 55.000 5.23 7.90 39.34 3.51
3807 3906 0.902531 GGAGTCCGGAAAGACATCCA 59.097 55.000 5.23 0.00 39.61 3.41
3947 4046 6.540914 TCCATAATTCGAACCAACTTCATACC 59.459 38.462 0.00 0.00 0.00 2.73
3985 4084 7.936496 TGACATATTACAAGGCATCTGAAAA 57.064 32.000 0.00 0.00 0.00 2.29
4018 4117 2.604855 CCGTCCCGAATTAGATGACTCG 60.605 54.545 0.00 0.00 0.00 4.18
4130 4229 6.451393 GGAGGTTGTACATGATAAGCTAGAG 58.549 44.000 0.00 0.00 37.15 2.43
4185 4284 6.651643 TGCAATACGAAGTTACCAAAGTATGT 59.348 34.615 0.00 0.00 37.78 2.29
4199 4298 7.480810 ACCAAAGTATGTCTTCTTTGTTGAAC 58.519 34.615 13.84 0.00 44.91 3.18
4211 4310 7.916977 TCTTCTTTGTTGAACAGATTGTCATTG 59.083 33.333 0.00 0.00 0.00 2.82
4214 4313 6.631971 TTGTTGAACAGATTGTCATTGCTA 57.368 33.333 0.00 0.00 0.00 3.49
4268 4367 2.027192 GGAAGTCTATGAGGTTGTGCCA 60.027 50.000 0.00 0.00 40.61 4.92
4483 4583 5.294306 ACTGATTATCGAATGATTTGCACGT 59.706 36.000 0.00 0.00 35.99 4.49
4505 4605 5.639506 CGTCACCTTGTAAGTCATTCATCTT 59.360 40.000 0.00 0.00 0.00 2.40
4646 4746 3.684693 AAACAGGCATGGTGTTTGC 57.315 47.368 2.31 0.00 44.55 3.68
4651 4751 1.122227 AGGCATGGTGTTTGCACTTT 58.878 45.000 0.00 0.00 44.65 2.66
4668 4769 7.618502 TGCACTTTGTTTACATAATCCGTAT 57.381 32.000 0.00 0.00 0.00 3.06
4684 4785 4.717877 TCCGTATTTCTGTCCTATCGGTA 58.282 43.478 0.00 0.00 38.21 4.02
4688 4789 6.927381 CCGTATTTCTGTCCTATCGGTATTTT 59.073 38.462 0.00 0.00 33.39 1.82
4695 4796 6.601613 TCTGTCCTATCGGTATTTTGCATTTT 59.398 34.615 0.00 0.00 0.00 1.82
4696 4797 7.771361 TCTGTCCTATCGGTATTTTGCATTTTA 59.229 33.333 0.00 0.00 0.00 1.52
4697 4798 8.282455 TGTCCTATCGGTATTTTGCATTTTAA 57.718 30.769 0.00 0.00 0.00 1.52
4759 4860 1.059098 ACTTCATGGAGGCTCACACA 58.941 50.000 17.69 5.57 0.00 3.72
4903 5004 2.897350 GCTATGTGCCACGGGAGC 60.897 66.667 0.00 0.50 35.15 4.70
4904 5005 2.584064 CTATGTGCCACGGGAGCA 59.416 61.111 0.00 0.00 38.08 4.26
4959 5060 4.264895 ACCTCCCTGATACACTAGAAAGGT 60.265 45.833 0.00 0.00 0.00 3.50
5009 5110 0.793861 TAGCGAATGCAACCGTGTTC 59.206 50.000 11.76 0.00 46.23 3.18
5039 5141 4.889409 GCAGAGGGAAAATGTATCCAATCA 59.111 41.667 0.00 0.00 38.80 2.57
5052 5154 7.379059 TGTATCCAATCATAAGAGGATGTGT 57.621 36.000 0.00 0.00 40.86 3.72
5084 5189 4.093556 GGTGCAGAAAGACCTAAATCGAAG 59.906 45.833 0.00 0.00 0.00 3.79
5105 5240 7.327518 TCGAAGTGAACTTTTTGGTTCTTTTTC 59.672 33.333 8.47 8.14 44.02 2.29
5129 5264 1.278849 GCGATACGGAAGCAGCTAGC 61.279 60.000 6.62 6.62 46.19 3.42
5140 5275 1.631071 GCAGCTAGCTCCCTTTCCCT 61.631 60.000 16.15 0.00 41.15 4.20
5195 5330 0.675208 ATGGTTGCGTGCATCGGTTA 60.675 50.000 10.02 0.00 40.26 2.85
5196 5331 0.675208 TGGTTGCGTGCATCGGTTAT 60.675 50.000 10.02 0.00 40.26 1.89
5197 5332 0.027586 GGTTGCGTGCATCGGTTATC 59.972 55.000 10.02 0.00 40.26 1.75
5198 5333 0.315059 GTTGCGTGCATCGGTTATCG 60.315 55.000 10.02 0.00 40.26 2.92
5199 5334 1.425267 TTGCGTGCATCGGTTATCGG 61.425 55.000 10.02 0.00 40.26 4.18
5200 5335 1.881252 GCGTGCATCGGTTATCGGT 60.881 57.895 10.02 0.00 40.26 4.69
5201 5336 1.426041 GCGTGCATCGGTTATCGGTT 61.426 55.000 10.02 0.00 40.26 4.44
5211 5346 1.593006 GGTTATCGGTTGATGCAGACG 59.407 52.381 0.00 0.00 35.99 4.18
5270 5410 1.202417 TCCATGATTCGTCGCCTCTTC 60.202 52.381 0.00 0.00 0.00 2.87
5337 5477 9.035890 TCTGAGACTAATTACCTCAATTCAGAA 57.964 33.333 11.70 0.00 37.93 3.02
5357 5497 6.365247 TCAGAACAATTTCGAGCTTACACTAC 59.635 38.462 0.00 0.00 36.78 2.73
5363 5503 1.136305 TCGAGCTTACACTACCATGCC 59.864 52.381 0.00 0.00 0.00 4.40
5366 5506 1.762222 GCTTACACTACCATGCCGCG 61.762 60.000 0.00 0.00 0.00 6.46
5369 5509 3.864686 CACTACCATGCCGCGTGC 61.865 66.667 4.92 9.16 41.77 5.34
5384 5524 2.752640 TGCCGCGTAGGTGAGCTA 60.753 61.111 4.92 0.00 43.70 3.32
5385 5525 2.125326 TGCCGCGTAGGTGAGCTAT 61.125 57.895 4.92 0.00 43.70 2.97
5386 5526 0.820482 TGCCGCGTAGGTGAGCTATA 60.820 55.000 4.92 0.00 43.70 1.31
5387 5527 0.313043 GCCGCGTAGGTGAGCTATAA 59.687 55.000 4.92 0.00 43.70 0.98
5388 5528 1.666311 GCCGCGTAGGTGAGCTATAAG 60.666 57.143 4.92 0.00 43.70 1.73
5389 5529 1.607628 CCGCGTAGGTGAGCTATAAGT 59.392 52.381 4.92 0.00 34.51 2.24
5390 5530 2.810274 CCGCGTAGGTGAGCTATAAGTA 59.190 50.000 4.92 0.00 34.51 2.24
5391 5531 3.439476 CCGCGTAGGTGAGCTATAAGTAT 59.561 47.826 4.92 0.00 34.51 2.12
5392 5532 4.633126 CCGCGTAGGTGAGCTATAAGTATA 59.367 45.833 4.92 0.00 34.51 1.47
5393 5533 5.122869 CCGCGTAGGTGAGCTATAAGTATAA 59.877 44.000 4.92 0.00 34.51 0.98
5394 5534 6.249359 CGCGTAGGTGAGCTATAAGTATAAG 58.751 44.000 0.00 0.00 0.00 1.73
5395 5535 6.553524 GCGTAGGTGAGCTATAAGTATAAGG 58.446 44.000 0.00 0.00 0.00 2.69
5396 5536 6.553524 CGTAGGTGAGCTATAAGTATAAGGC 58.446 44.000 0.00 0.00 0.00 4.35
5397 5537 5.646577 AGGTGAGCTATAAGTATAAGGCG 57.353 43.478 0.00 0.00 0.00 5.52
5398 5538 5.078256 AGGTGAGCTATAAGTATAAGGCGT 58.922 41.667 0.00 0.00 0.00 5.68
5399 5539 5.047943 AGGTGAGCTATAAGTATAAGGCGTG 60.048 44.000 0.00 0.00 0.00 5.34
5400 5540 5.278858 GGTGAGCTATAAGTATAAGGCGTGT 60.279 44.000 0.00 0.00 0.00 4.49
5401 5541 6.214399 GTGAGCTATAAGTATAAGGCGTGTT 58.786 40.000 0.00 0.00 0.00 3.32
5402 5542 6.362820 GTGAGCTATAAGTATAAGGCGTGTTC 59.637 42.308 0.00 0.00 0.00 3.18
5403 5543 5.780984 AGCTATAAGTATAAGGCGTGTTCC 58.219 41.667 0.00 0.00 0.00 3.62
5404 5544 4.928020 GCTATAAGTATAAGGCGTGTTCCC 59.072 45.833 0.00 0.00 0.00 3.97
5405 5545 5.510179 GCTATAAGTATAAGGCGTGTTCCCA 60.510 44.000 0.00 0.00 0.00 4.37
5406 5546 3.706600 AAGTATAAGGCGTGTTCCCAA 57.293 42.857 0.00 0.00 0.00 4.12
5407 5547 3.706600 AGTATAAGGCGTGTTCCCAAA 57.293 42.857 0.00 0.00 0.00 3.28
5408 5548 4.023726 AGTATAAGGCGTGTTCCCAAAA 57.976 40.909 0.00 0.00 0.00 2.44
5409 5549 3.754850 AGTATAAGGCGTGTTCCCAAAAC 59.245 43.478 0.00 0.00 0.00 2.43
5410 5550 2.351706 TAAGGCGTGTTCCCAAAACT 57.648 45.000 0.00 0.00 0.00 2.66
5411 5551 0.744281 AAGGCGTGTTCCCAAAACTG 59.256 50.000 0.00 0.00 0.00 3.16
5412 5552 0.106918 AGGCGTGTTCCCAAAACTGA 60.107 50.000 0.00 0.00 0.00 3.41
5413 5553 0.310854 GGCGTGTTCCCAAAACTGAG 59.689 55.000 0.00 0.00 0.00 3.35
5414 5554 1.305201 GCGTGTTCCCAAAACTGAGA 58.695 50.000 0.00 0.00 0.00 3.27
5415 5555 1.880027 GCGTGTTCCCAAAACTGAGAT 59.120 47.619 0.00 0.00 0.00 2.75
5416 5556 3.071479 GCGTGTTCCCAAAACTGAGATA 58.929 45.455 0.00 0.00 0.00 1.98
5417 5557 3.125316 GCGTGTTCCCAAAACTGAGATAG 59.875 47.826 0.00 0.00 0.00 2.08
5418 5558 3.684788 CGTGTTCCCAAAACTGAGATAGG 59.315 47.826 0.00 0.00 0.00 2.57
5419 5559 4.562757 CGTGTTCCCAAAACTGAGATAGGA 60.563 45.833 0.00 0.00 0.00 2.94
5420 5560 5.501156 GTGTTCCCAAAACTGAGATAGGAT 58.499 41.667 0.00 0.00 0.00 3.24
5421 5561 6.629515 CGTGTTCCCAAAACTGAGATAGGATA 60.630 42.308 0.00 0.00 0.00 2.59
5422 5562 7.110155 GTGTTCCCAAAACTGAGATAGGATAA 58.890 38.462 0.00 0.00 0.00 1.75
5423 5563 7.065923 GTGTTCCCAAAACTGAGATAGGATAAC 59.934 40.741 0.00 0.00 0.00 1.89
5424 5564 6.248569 TCCCAAAACTGAGATAGGATAACC 57.751 41.667 0.00 0.00 0.00 2.85
5425 5565 5.132144 TCCCAAAACTGAGATAGGATAACCC 59.868 44.000 0.00 0.00 36.73 4.11
5426 5566 5.377478 CCAAAACTGAGATAGGATAACCCC 58.623 45.833 0.00 0.00 36.73 4.95
5427 5567 4.957684 AAACTGAGATAGGATAACCCCG 57.042 45.455 0.00 0.00 36.73 5.73
5428 5568 2.890814 ACTGAGATAGGATAACCCCGG 58.109 52.381 0.00 0.00 36.73 5.73
5429 5569 2.180276 CTGAGATAGGATAACCCCGGG 58.820 57.143 15.80 15.80 36.73 5.73
5430 5570 1.203262 TGAGATAGGATAACCCCGGGG 60.203 57.143 39.18 39.18 42.03 5.73
5458 5598 5.950758 TTTTTGCATGGTAATACGTGTCT 57.049 34.783 0.00 0.00 0.00 3.41
5459 5599 5.539582 TTTTGCATGGTAATACGTGTCTC 57.460 39.130 0.00 0.00 0.00 3.36
5460 5600 3.878160 TGCATGGTAATACGTGTCTCA 57.122 42.857 0.00 0.00 0.00 3.27
5461 5601 4.400529 TGCATGGTAATACGTGTCTCAT 57.599 40.909 0.00 0.00 0.00 2.90
5462 5602 4.765273 TGCATGGTAATACGTGTCTCATT 58.235 39.130 0.00 0.00 0.00 2.57
5463 5603 5.182487 TGCATGGTAATACGTGTCTCATTT 58.818 37.500 0.00 0.00 0.00 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
123 125 5.768164 GGTGATCTGTCTTTTTACCCTTTGA 59.232 40.000 0.00 0.00 0.00 2.69
169 171 4.357699 GCTGATCAGCGATGGAGG 57.642 61.111 30.64 0.00 45.29 4.30
232 234 2.413837 CCGGTCTGATTCTTTCAACGT 58.586 47.619 0.00 0.00 32.78 3.99
317 320 2.224646 GGCAGTTCTGGTTTCCTTCTCT 60.225 50.000 1.97 0.00 0.00 3.10
409 412 4.062991 GGTTTTGTCATTCAGGAGTACGT 58.937 43.478 0.00 0.00 0.00 3.57
462 465 1.153046 CTGTCCCCGTTGTTGTGGT 60.153 57.895 0.00 0.00 0.00 4.16
485 488 5.071788 ACTCCATCAGGTGTGTCTCTTTTTA 59.928 40.000 0.00 0.00 40.01 1.52
488 491 2.975489 ACTCCATCAGGTGTGTCTCTTT 59.025 45.455 0.00 0.00 40.01 2.52
489 492 2.614259 ACTCCATCAGGTGTGTCTCTT 58.386 47.619 0.00 0.00 40.01 2.85
516 519 4.980805 GGTGTTGACGAGGCGGCA 62.981 66.667 13.08 0.00 45.89 5.69
595 598 2.055633 TCCTTCATGGCGGCGTCTA 61.056 57.895 14.51 0.81 35.26 2.59
619 622 2.157452 AACCCCATTCCCACACCGA 61.157 57.895 0.00 0.00 0.00 4.69
630 633 3.979501 ATAAATCTGCCTCAACCCCAT 57.020 42.857 0.00 0.00 0.00 4.00
687 690 3.816523 GGTTTTGGATTTGTAGGTCGTGA 59.183 43.478 0.00 0.00 0.00 4.35
718 721 3.703127 GACCCCGTTCCTCCGCTT 61.703 66.667 0.00 0.00 0.00 4.68
844 849 0.808847 GTTTTCCTACCCTAGCCGCG 60.809 60.000 0.00 0.00 0.00 6.46
869 874 0.036164 ATATAATCCAAGCCGGCGCA 59.964 50.000 23.20 6.44 37.52 6.09
870 875 1.933853 CTATATAATCCAAGCCGGCGC 59.066 52.381 23.20 0.00 33.14 6.53
871 876 2.093658 ACCTATATAATCCAAGCCGGCG 60.094 50.000 23.20 7.72 33.14 6.46
872 877 3.197983 AGACCTATATAATCCAAGCCGGC 59.802 47.826 21.89 21.89 33.14 6.13
873 878 6.380274 TCTTAGACCTATATAATCCAAGCCGG 59.620 42.308 0.00 0.00 0.00 6.13
874 879 7.406031 TCTTAGACCTATATAATCCAAGCCG 57.594 40.000 0.00 0.00 0.00 5.52
875 880 8.982723 TCATCTTAGACCTATATAATCCAAGCC 58.017 37.037 0.00 0.00 0.00 4.35
887 892 8.962679 GGAGACGAATAATCATCTTAGACCTAT 58.037 37.037 0.00 0.00 25.86 2.57
888 893 8.164733 AGGAGACGAATAATCATCTTAGACCTA 58.835 37.037 0.00 0.00 25.86 3.08
889 894 7.007723 AGGAGACGAATAATCATCTTAGACCT 58.992 38.462 0.00 0.00 25.86 3.85
890 895 7.222000 AGGAGACGAATAATCATCTTAGACC 57.778 40.000 0.00 0.00 25.86 3.85
910 915 4.978186 TCGTGTACGTGAGAAATAAGGAG 58.022 43.478 0.00 0.00 40.80 3.69
951 956 1.073284 TCAGGTTGCTAGGTTTGGGTC 59.927 52.381 0.00 0.00 0.00 4.46
1008 1016 4.131088 GGAGGGCAGTCGTCGTCC 62.131 72.222 0.00 0.00 43.98 4.79
1108 1122 1.464376 CCGAGGTAGCCGGTGATGAT 61.464 60.000 1.90 0.00 41.91 2.45
1296 1312 7.973388 TCAATTTTGGTAAAATTAGAGGCATCG 59.027 33.333 10.79 0.00 46.34 3.84
1341 1357 3.678548 GTGATTCCTCGTAGGACACAAAC 59.321 47.826 14.32 4.23 45.78 2.93
1353 1369 0.803768 CTCGTGCCAGTGATTCCTCG 60.804 60.000 0.00 0.00 0.00 4.63
1372 1394 7.568199 ACATTAATAGGACACAAATACAGGC 57.432 36.000 0.00 0.00 0.00 4.85
1463 1522 8.874816 GCTCAACTAATAAACTGACTAGGAAAG 58.125 37.037 0.00 0.00 0.00 2.62
1504 1563 1.723003 CGGCGAGTAACTGTTAACCAC 59.277 52.381 0.00 0.00 0.00 4.16
1505 1564 1.340889 ACGGCGAGTAACTGTTAACCA 59.659 47.619 16.62 0.00 0.00 3.67
1516 1575 2.443887 AGTTTTAAGCACGGCGAGTA 57.556 45.000 16.62 0.00 0.00 2.59
1603 1662 5.785423 TCTTTCTACTCCAATTTCCTCTCCA 59.215 40.000 0.00 0.00 0.00 3.86
1708 1767 1.953686 GCTTGAACCAGGCTGTGTTTA 59.046 47.619 14.43 10.88 33.60 2.01
2396 2461 1.753073 CCTTTGCAGGAATAAGCAGGG 59.247 52.381 0.00 0.00 44.19 4.45
2432 2497 8.951243 AGAATAGGAAAGCAGACAAATTTAGAC 58.049 33.333 0.00 0.00 0.00 2.59
2494 2576 6.399986 GCATTGAATTAAAGAAGCGTTGAACC 60.400 38.462 0.00 0.00 0.00 3.62
2566 2648 4.567971 GATGGAAGAGCATGACCTATGAG 58.432 47.826 0.00 0.00 39.21 2.90
2661 2743 5.330233 TGTAATGAGTCTGACAGGTTAGGA 58.670 41.667 10.88 0.00 0.00 2.94
2680 2762 3.632643 TCCATTCTGCAGCAGATGTAA 57.367 42.857 25.94 11.49 40.39 2.41
2890 2989 8.854117 AGAATGACAAGCTTAAATGAGAAACTT 58.146 29.630 0.00 0.00 0.00 2.66
3005 3104 4.516698 ACACTAACATGTTCAGCAGGAAAG 59.483 41.667 15.85 6.02 37.23 2.62
3025 3124 8.552083 TGCATCAATAACCTGATCATATACAC 57.448 34.615 0.00 0.00 33.66 2.90
3167 3266 5.393866 AGAAGCAAGACCCCAAAAAGAATA 58.606 37.500 0.00 0.00 0.00 1.75
3282 3381 7.080099 CAACATCCTGTTACACAAGAATTGAG 58.920 38.462 0.00 0.00 43.74 3.02
3327 3426 8.934507 AATCCTCAAGATCGTCTTTTACTAAG 57.065 34.615 0.00 0.00 33.78 2.18
3345 3444 4.592351 TGAATTTGCCTTTCCAAATCCTCA 59.408 37.500 1.17 0.75 42.78 3.86
3420 3519 9.944663 GCCTGTCGATCAAATATTGTATTTAAA 57.055 29.630 0.00 0.00 0.00 1.52
3501 3600 4.273148 ACAAAGTAAGTCGGAGAAGCAT 57.727 40.909 0.00 0.00 39.69 3.79
3554 3653 5.717178 TGATTTACTGTACTCCAGAAGCTCT 59.283 40.000 0.00 0.00 44.49 4.09
3617 3716 5.125900 TGGATCCTGTTCATAAATGCACAAG 59.874 40.000 14.23 0.00 33.77 3.16
3646 3745 6.743788 AGGAGATAAGGTACCTTAGTCAAGT 58.256 40.000 32.29 18.87 41.18 3.16
3666 3765 4.630505 CACTGACACATCTCATTCAAGGAG 59.369 45.833 0.00 0.00 0.00 3.69
3703 3802 8.565416 GCAATAATGTGTTATAAACCTACCCTC 58.435 37.037 0.00 0.00 30.42 4.30
3711 3810 8.687824 ACTGCTTGCAATAATGTGTTATAAAC 57.312 30.769 0.00 0.00 30.42 2.01
3761 3860 5.912892 TCTAAGTGCACGGATGAATGAATA 58.087 37.500 12.01 0.00 0.00 1.75
3917 4016 9.184523 TGAAGTTGGTTCGAATTATGGATATTT 57.815 29.630 0.00 0.00 38.09 1.40
3927 4026 6.938030 TGTAAGGTATGAAGTTGGTTCGAATT 59.062 34.615 0.00 0.00 38.09 2.17
3985 4084 2.987985 GGGACGGAGGGAGTAGTTT 58.012 57.895 0.00 0.00 0.00 2.66
4081 4180 7.120726 CCGTCCCAAATTAGTTGACTTAGATTT 59.879 37.037 0.00 0.00 39.87 2.17
4130 4229 4.933400 TGGGTAGAAACTTTCGTCAATAGC 59.067 41.667 0.00 0.00 34.02 2.97
4133 4232 4.969484 ACTGGGTAGAAACTTTCGTCAAT 58.031 39.130 0.00 0.00 34.02 2.57
4156 4255 4.794278 TGGTAACTTCGTATTGCAGAGA 57.206 40.909 0.00 0.00 37.61 3.10
4185 4284 7.572523 ATGACAATCTGTTCAACAAAGAAGA 57.427 32.000 0.00 0.00 0.00 2.87
4199 4298 6.492007 ACAGACTTTAGCAATGACAATCTG 57.508 37.500 0.00 0.00 37.62 2.90
4211 4310 4.322080 AAGGGCAAAAACAGACTTTAGC 57.678 40.909 0.00 0.00 0.00 3.09
4214 4313 4.100808 TGCATAAGGGCAAAAACAGACTTT 59.899 37.500 0.00 0.00 41.65 2.66
4268 4367 0.394488 TCTCCGACCATTCTCGAGCT 60.394 55.000 7.81 0.00 35.58 4.09
4483 4583 6.998074 ACAAAGATGAATGACTTACAAGGTGA 59.002 34.615 0.00 0.00 0.00 4.02
4600 4700 7.799049 AAGCAGCAACTCATGATGATAAGCAA 61.799 38.462 13.12 0.00 44.52 3.91
4651 4751 8.262227 AGGACAGAAATACGGATTATGTAAACA 58.738 33.333 10.31 0.00 29.60 2.83
4684 4785 9.830975 GGGGATACAGTTATTAAAATGCAAAAT 57.169 29.630 0.00 0.00 34.03 1.82
4688 4789 7.068103 CACAGGGGATACAGTTATTAAAATGCA 59.932 37.037 0.00 0.00 34.03 3.96
4695 4796 4.038763 CGAGCACAGGGGATACAGTTATTA 59.961 45.833 0.00 0.00 39.74 0.98
4696 4797 3.181465 CGAGCACAGGGGATACAGTTATT 60.181 47.826 0.00 0.00 39.74 1.40
4697 4798 2.365617 CGAGCACAGGGGATACAGTTAT 59.634 50.000 0.00 0.00 39.74 1.89
4759 4860 1.008938 ACCCTAATCTCAGTCCAGGCT 59.991 52.381 0.00 0.00 0.00 4.58
4915 5016 3.065648 GTGCTCCCGTGTGTTAAGAAAAA 59.934 43.478 0.00 0.00 0.00 1.94
4916 5017 2.614983 GTGCTCCCGTGTGTTAAGAAAA 59.385 45.455 0.00 0.00 0.00 2.29
4917 5018 2.215196 GTGCTCCCGTGTGTTAAGAAA 58.785 47.619 0.00 0.00 0.00 2.52
4918 5019 1.541670 GGTGCTCCCGTGTGTTAAGAA 60.542 52.381 0.00 0.00 0.00 2.52
4919 5020 0.034337 GGTGCTCCCGTGTGTTAAGA 59.966 55.000 0.00 0.00 0.00 2.10
4920 5021 0.034896 AGGTGCTCCCGTGTGTTAAG 59.965 55.000 0.00 0.00 38.74 1.85
4921 5022 0.034337 GAGGTGCTCCCGTGTGTTAA 59.966 55.000 0.00 0.00 38.74 2.01
4922 5023 1.669440 GAGGTGCTCCCGTGTGTTA 59.331 57.895 0.00 0.00 38.74 2.41
4923 5024 2.426023 GAGGTGCTCCCGTGTGTT 59.574 61.111 0.00 0.00 38.74 3.32
4924 5025 3.626924 GGAGGTGCTCCCGTGTGT 61.627 66.667 0.00 0.00 44.36 3.72
4965 5066 5.428253 ACCGAACATATACAAATGCTCAGT 58.572 37.500 0.00 0.00 0.00 3.41
4986 5087 1.260561 CACGGTTGCATTCGCTATACC 59.739 52.381 8.78 0.00 39.64 2.73
5009 5110 2.035832 ACATTTTCCCTCTGCAAAACCG 59.964 45.455 0.00 0.00 0.00 4.44
5039 5141 7.880195 GCACCATATTAGAACACATCCTCTTAT 59.120 37.037 0.00 0.00 0.00 1.73
5052 5154 6.313519 AGGTCTTTCTGCACCATATTAGAA 57.686 37.500 0.00 0.00 34.80 2.10
5105 5240 4.963428 GCTTCCGTATCGCCCCCG 62.963 72.222 0.00 0.00 0.00 5.73
5140 5275 7.265599 TCACTAGAACCAAAATCCTTCCATA 57.734 36.000 0.00 0.00 0.00 2.74
5195 5330 1.153369 CCCGTCTGCATCAACCGAT 60.153 57.895 0.00 0.00 0.00 4.18
5196 5331 2.264480 CCCGTCTGCATCAACCGA 59.736 61.111 0.00 0.00 0.00 4.69
5197 5332 2.819595 CCCCGTCTGCATCAACCG 60.820 66.667 0.00 0.00 0.00 4.44
5198 5333 2.438434 CCCCCGTCTGCATCAACC 60.438 66.667 0.00 0.00 0.00 3.77
5216 5351 4.202172 GGCTCAAGTAAGGTCTCCAGTATC 60.202 50.000 0.00 0.00 0.00 2.24
5334 5474 5.638234 GGTAGTGTAAGCTCGAAATTGTTCT 59.362 40.000 0.00 0.00 0.00 3.01
5337 5477 4.890088 TGGTAGTGTAAGCTCGAAATTGT 58.110 39.130 0.00 0.00 0.00 2.71
5366 5506 2.351336 ATAGCTCACCTACGCGGCAC 62.351 60.000 12.47 0.00 35.61 5.01
5369 5509 1.607628 ACTTATAGCTCACCTACGCGG 59.392 52.381 12.47 0.00 39.35 6.46
5381 5521 4.928020 GGGAACACGCCTTATACTTATAGC 59.072 45.833 0.00 0.00 0.00 2.97
5384 5524 5.362105 TTGGGAACACGCCTTATACTTAT 57.638 39.130 0.00 0.00 42.67 1.73
5385 5525 4.822685 TTGGGAACACGCCTTATACTTA 57.177 40.909 0.00 0.00 42.67 2.24
5386 5526 3.706600 TTGGGAACACGCCTTATACTT 57.293 42.857 0.00 0.00 42.67 2.24
5387 5527 3.706600 TTTGGGAACACGCCTTATACT 57.293 42.857 0.00 0.00 42.67 2.12
5388 5528 3.754850 AGTTTTGGGAACACGCCTTATAC 59.245 43.478 0.00 0.00 42.67 1.47
5389 5529 3.754323 CAGTTTTGGGAACACGCCTTATA 59.246 43.478 0.00 0.00 42.67 0.98
5390 5530 2.556622 CAGTTTTGGGAACACGCCTTAT 59.443 45.455 0.00 0.00 42.67 1.73
5391 5531 1.950909 CAGTTTTGGGAACACGCCTTA 59.049 47.619 0.00 0.00 42.67 2.69
5392 5532 0.744281 CAGTTTTGGGAACACGCCTT 59.256 50.000 0.00 0.00 42.67 4.35
5393 5533 0.106918 TCAGTTTTGGGAACACGCCT 60.107 50.000 0.00 0.00 42.67 5.52
5394 5534 0.310854 CTCAGTTTTGGGAACACGCC 59.689 55.000 0.00 0.00 42.67 5.68
5395 5535 1.305201 TCTCAGTTTTGGGAACACGC 58.695 50.000 0.00 0.00 42.67 5.34
5396 5536 3.684788 CCTATCTCAGTTTTGGGAACACG 59.315 47.826 0.00 0.00 42.67 4.49
5397 5537 4.906618 TCCTATCTCAGTTTTGGGAACAC 58.093 43.478 0.00 0.00 42.67 3.32
5398 5538 5.779241 ATCCTATCTCAGTTTTGGGAACA 57.221 39.130 0.00 0.00 37.36 3.18
5399 5539 6.542735 GGTTATCCTATCTCAGTTTTGGGAAC 59.457 42.308 0.00 0.00 37.36 3.62
5400 5540 6.353602 GGGTTATCCTATCTCAGTTTTGGGAA 60.354 42.308 0.00 0.00 37.36 3.97
5401 5541 5.132144 GGGTTATCCTATCTCAGTTTTGGGA 59.868 44.000 0.00 0.00 38.42 4.37
5402 5542 5.377478 GGGTTATCCTATCTCAGTTTTGGG 58.623 45.833 0.00 0.00 0.00 4.12
5403 5543 5.377478 GGGGTTATCCTATCTCAGTTTTGG 58.623 45.833 0.00 0.00 35.33 3.28
5404 5544 5.057149 CGGGGTTATCCTATCTCAGTTTTG 58.943 45.833 0.00 0.00 35.33 2.44
5405 5545 4.102681 CCGGGGTTATCCTATCTCAGTTTT 59.897 45.833 0.00 0.00 35.33 2.43
5406 5546 3.646637 CCGGGGTTATCCTATCTCAGTTT 59.353 47.826 0.00 0.00 35.33 2.66
5407 5547 3.240302 CCGGGGTTATCCTATCTCAGTT 58.760 50.000 0.00 0.00 35.33 3.16
5408 5548 2.492940 CCCGGGGTTATCCTATCTCAGT 60.493 54.545 14.71 0.00 35.33 3.41
5409 5549 2.180276 CCCGGGGTTATCCTATCTCAG 58.820 57.143 14.71 0.00 35.33 3.35
5410 5550 1.203262 CCCCGGGGTTATCCTATCTCA 60.203 57.143 33.25 0.00 35.33 3.27
5411 5551 1.569653 CCCCGGGGTTATCCTATCTC 58.430 60.000 33.25 0.00 35.33 2.75
5412 5552 3.809407 CCCCGGGGTTATCCTATCT 57.191 57.895 33.25 0.00 35.33 1.98
5436 5576 5.470437 TGAGACACGTATTACCATGCAAAAA 59.530 36.000 0.00 0.00 0.00 1.94
5437 5577 4.998033 TGAGACACGTATTACCATGCAAAA 59.002 37.500 0.00 0.00 0.00 2.44
5438 5578 4.570930 TGAGACACGTATTACCATGCAAA 58.429 39.130 0.00 0.00 0.00 3.68
5439 5579 4.195225 TGAGACACGTATTACCATGCAA 57.805 40.909 0.00 0.00 0.00 4.08
5440 5580 3.878160 TGAGACACGTATTACCATGCA 57.122 42.857 0.00 0.00 0.00 3.96
5441 5581 5.734855 AAATGAGACACGTATTACCATGC 57.265 39.130 0.00 0.00 0.00 4.06


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

AutoCloner maintained by Alex Coulton.