Multiple sequence alignment - TraesCS3B01G463400

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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 TraesCS3B01G463400 chr3B 100.000 4849 0 0 1 4849 706193262 706188414 0.000000e+00 8955.0
1 TraesCS3B01G463400 chr3B 96.812 1945 58 3 2136 4080 706759161 706757221 0.000000e+00 3245.0
2 TraesCS3B01G463400 chr3B 92.695 794 27 8 1008 1773 706760456 706759666 0.000000e+00 1116.0
3 TraesCS3B01G463400 chr3B 86.600 500 61 5 4354 4849 52344373 52344870 9.180000e-152 547.0
4 TraesCS3B01G463400 chr3B 92.549 255 16 3 1853 2105 706759528 706759275 3.570000e-96 363.0
5 TraesCS3B01G463400 chr3B 81.924 343 40 14 3734 4066 706727361 706727031 2.220000e-68 270.0
6 TraesCS3B01G463400 chr3B 94.737 95 5 0 4263 4357 380511448 380511354 1.090000e-31 148.0
7 TraesCS3B01G463400 chr3B 92.632 95 7 0 4263 4357 765906042 765905948 2.350000e-28 137.0
8 TraesCS3B01G463400 chr3A 94.335 2136 96 9 2136 4265 670550343 670548227 0.000000e+00 3251.0
9 TraesCS3B01G463400 chr3A 86.860 860 46 27 1010 1830 670551596 670550765 0.000000e+00 900.0
10 TraesCS3B01G463400 chr3A 93.146 321 22 0 1817 2137 670550741 670550421 5.680000e-129 472.0
11 TraesCS3B01G463400 chr3D 95.287 1952 63 15 2136 4080 535404843 535402914 0.000000e+00 3068.0
12 TraesCS3B01G463400 chr3D 91.603 655 26 9 1143 1773 535405869 535405220 0.000000e+00 878.0
13 TraesCS3B01G463400 chr3D 85.000 600 73 11 4263 4847 26033376 26032779 1.160000e-165 593.0
14 TraesCS3B01G463400 chr3D 87.154 506 56 5 4343 4847 22298718 22298221 2.530000e-157 566.0
15 TraesCS3B01G463400 chr3D 89.674 184 13 4 1817 1995 535405108 535404926 3.770000e-56 230.0
16 TraesCS3B01G463400 chr3D 89.326 178 15 4 3890 4066 534108828 534108654 2.270000e-53 220.0
17 TraesCS3B01G463400 chr3D 88.889 99 7 1 1008 1102 535405968 535405870 8.530000e-23 119.0
18 TraesCS3B01G463400 chr3D 79.058 191 26 12 1033 1214 535483028 535482843 8.530000e-23 119.0
19 TraesCS3B01G463400 chr3D 97.778 45 1 0 4221 4265 535402891 535402847 1.450000e-10 78.7
20 TraesCS3B01G463400 chr7D 95.631 1007 42 2 1 1005 445254355 445255361 0.000000e+00 1615.0
21 TraesCS3B01G463400 chr7D 87.087 333 35 8 677 1005 578986729 578986401 2.130000e-98 370.0
22 TraesCS3B01G463400 chr7D 85.047 321 38 7 696 1013 461648579 461648266 7.830000e-83 318.0
23 TraesCS3B01G463400 chr7D 94.737 95 5 0 4263 4357 540240631 540240725 1.090000e-31 148.0
24 TraesCS3B01G463400 chr4D 87.879 495 55 4 4354 4847 502046703 502047193 1.170000e-160 577.0
25 TraesCS3B01G463400 chr5D 86.588 507 64 4 4343 4847 341080370 341080874 1.520000e-154 556.0
26 TraesCS3B01G463400 chr5D 87.071 495 59 3 4354 4847 298988290 298988780 5.480000e-154 555.0
27 TraesCS3B01G463400 chr5D 86.056 502 65 5 4349 4847 243094432 243093933 7.140000e-148 534.0
28 TraesCS3B01G463400 chr5D 94.737 95 5 0 4263 4357 243094548 243094454 1.090000e-31 148.0
29 TraesCS3B01G463400 chr2D 87.018 493 59 5 4357 4847 15493804 15493315 7.090000e-153 551.0
30 TraesCS3B01G463400 chr1D 86.465 495 65 2 4354 4847 59485212 59485705 4.270000e-150 542.0
31 TraesCS3B01G463400 chr6B 85.714 371 39 8 645 1009 258861200 258861562 3.540000e-101 379.0
32 TraesCS3B01G463400 chr6B 92.632 95 7 0 4263 4357 708039699 708039793 2.350000e-28 137.0
33 TraesCS3B01G463400 chr1B 81.238 501 60 17 510 1009 26098821 26099288 1.650000e-99 374.0
34 TraesCS3B01G463400 chr1B 79.747 316 31 13 1 314 642708421 642708705 1.060000e-46 198.0
35 TraesCS3B01G463400 chr1B 92.632 95 7 0 4263 4357 466943021 466943115 2.350000e-28 137.0
36 TraesCS3B01G463400 chr7B 81.038 501 61 17 510 1009 64414992 64415459 7.670000e-98 368.0
37 TraesCS3B01G463400 chr4B 95.789 95 4 0 4263 4357 657549127 657549221 2.340000e-33 154.0
38 TraesCS3B01G463400 chr4A 93.684 95 6 0 4263 4357 625262905 625262999 5.060000e-30 143.0
39 TraesCS3B01G463400 chr1A 91.579 95 8 0 4263 4357 76724675 76724769 1.100000e-26 132.0


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 TraesCS3B01G463400 chr3B 706188414 706193262 4848 True 8955.000000 8955 100.000000 1 4849 1 chr3B.!!$R2 4848
1 TraesCS3B01G463400 chr3B 706757221 706760456 3235 True 1574.666667 3245 94.018667 1008 4080 3 chr3B.!!$R5 3072
2 TraesCS3B01G463400 chr3A 670548227 670551596 3369 True 1541.000000 3251 91.447000 1010 4265 3 chr3A.!!$R1 3255
3 TraesCS3B01G463400 chr3D 535402847 535405968 3121 True 874.740000 3068 92.646200 1008 4265 5 chr3D.!!$R5 3257
4 TraesCS3B01G463400 chr3D 26032779 26033376 597 True 593.000000 593 85.000000 4263 4847 1 chr3D.!!$R2 584
5 TraesCS3B01G463400 chr7D 445254355 445255361 1006 False 1615.000000 1615 95.631000 1 1005 1 chr7D.!!$F1 1004
6 TraesCS3B01G463400 chr5D 341080370 341080874 504 False 556.000000 556 86.588000 4343 4847 1 chr5D.!!$F2 504
7 TraesCS3B01G463400 chr5D 243093933 243094548 615 True 341.000000 534 90.396500 4263 4847 2 chr5D.!!$R1 584

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
943 944 0.098200 GTAAAAAGATCGCACGGCCC 59.902 55.0 0.00 0.0 0.0 5.80 F
944 945 0.321741 TAAAAAGATCGCACGGCCCA 60.322 50.0 0.00 0.0 0.0 5.36 F
945 946 1.175983 AAAAAGATCGCACGGCCCAA 61.176 50.0 0.00 0.0 0.0 4.12 F
2739 2960 0.685458 AAGGCAGCCCAATCATGTCC 60.685 55.0 8.22 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2535 2756 1.604278 GAAGGACAAACTCTGCACCAC 59.396 52.381 0.00 0.0 0.00 4.16 R
2739 2960 1.632422 GTGCTGCCAAATCATTTCGG 58.368 50.000 0.00 0.0 0.00 4.30 R
2859 3080 3.641434 AAGCAGAGCAGTATGATTGGT 57.359 42.857 0.00 0.0 39.69 3.67 R
4188 4416 0.316204 CCCAAACTGAAGGCTTGCTG 59.684 55.000 3.46 3.4 0.00 4.41 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
35 36 9.086336 CACCAATAAACATAAACTAAAGCATGG 57.914 33.333 0.00 0.00 0.00 3.66
42 43 6.799512 ACATAAACTAAAGCATGGATTGAGC 58.200 36.000 0.00 0.00 0.00 4.26
148 149 4.398319 AGATCCATAATAAAAGCCCACCG 58.602 43.478 0.00 0.00 0.00 4.94
152 153 4.399934 TCCATAATAAAAGCCCACCGTTTC 59.600 41.667 0.00 0.00 0.00 2.78
198 199 0.833287 GGCATCTTCCCTGAGCAGTA 59.167 55.000 0.00 0.00 0.00 2.74
223 224 2.486592 CCCCTCGGACATTTACACAAAC 59.513 50.000 0.00 0.00 0.00 2.93
251 252 4.284829 TGTGCACATTCATAACCTCTCA 57.715 40.909 17.42 0.00 0.00 3.27
260 261 7.012138 CACATTCATAACCTCTCAATCTGGAAG 59.988 40.741 0.00 0.00 0.00 3.46
323 324 1.070615 CACATGGACGGTGGTGACA 59.929 57.895 0.00 0.00 33.16 3.58
332 333 1.078143 GGTGGTGACAGGATCTGGC 60.078 63.158 0.00 0.00 44.46 4.85
382 383 1.294659 GCTGAAGTGAAGCTGGGTCG 61.295 60.000 0.00 0.00 37.69 4.79
489 490 2.437180 TGGCTGGATCGCTTGCAG 60.437 61.111 2.98 2.98 45.96 4.41
570 571 2.028337 GCCGGTAGAGCAGCTAGC 59.972 66.667 6.62 6.62 42.73 3.42
651 652 3.164269 AGCCGGCATCGAGGGAAT 61.164 61.111 31.54 0.00 39.00 3.01
652 653 2.974698 GCCGGCATCGAGGGAATG 60.975 66.667 24.80 0.00 39.00 2.67
714 715 1.734388 GAGGAGAGGAGGAAGCGAGC 61.734 65.000 0.00 0.00 0.00 5.03
761 762 4.442401 TTTTTCCTTTTACCCCTCGTCT 57.558 40.909 0.00 0.00 0.00 4.18
794 795 5.643379 TGATGCTTTTGTTACCCAGAATC 57.357 39.130 0.00 0.00 0.00 2.52
816 817 2.289002 GGATGAAAGCCACGCTATTCTG 59.711 50.000 8.78 0.00 46.15 3.02
853 854 2.187946 GGCCCACTCGTCATCCAG 59.812 66.667 0.00 0.00 0.00 3.86
862 863 2.266554 CTCGTCATCCAGTCTCAAAGC 58.733 52.381 0.00 0.00 0.00 3.51
863 864 1.618343 TCGTCATCCAGTCTCAAAGCA 59.382 47.619 0.00 0.00 0.00 3.91
864 865 1.998315 CGTCATCCAGTCTCAAAGCAG 59.002 52.381 0.00 0.00 0.00 4.24
865 866 1.736681 GTCATCCAGTCTCAAAGCAGC 59.263 52.381 0.00 0.00 0.00 5.25
866 867 1.093159 CATCCAGTCTCAAAGCAGCC 58.907 55.000 0.00 0.00 0.00 4.85
867 868 0.694771 ATCCAGTCTCAAAGCAGCCA 59.305 50.000 0.00 0.00 0.00 4.75
868 869 0.694771 TCCAGTCTCAAAGCAGCCAT 59.305 50.000 0.00 0.00 0.00 4.40
869 870 0.809385 CCAGTCTCAAAGCAGCCATG 59.191 55.000 0.00 0.00 0.00 3.66
870 871 1.612462 CCAGTCTCAAAGCAGCCATGA 60.612 52.381 0.00 0.00 0.00 3.07
871 872 2.156917 CAGTCTCAAAGCAGCCATGAA 58.843 47.619 0.00 0.00 0.00 2.57
872 873 2.095364 CAGTCTCAAAGCAGCCATGAAC 60.095 50.000 0.00 0.00 0.00 3.18
873 874 1.135859 GTCTCAAAGCAGCCATGAACG 60.136 52.381 0.00 0.00 0.00 3.95
874 875 0.877071 CTCAAAGCAGCCATGAACGT 59.123 50.000 0.00 0.00 0.00 3.99
875 876 0.592637 TCAAAGCAGCCATGAACGTG 59.407 50.000 0.00 0.00 0.00 4.49
876 877 0.592637 CAAAGCAGCCATGAACGTGA 59.407 50.000 0.00 0.00 0.00 4.35
877 878 1.001487 CAAAGCAGCCATGAACGTGAA 60.001 47.619 0.00 0.00 0.00 3.18
878 879 1.317613 AAGCAGCCATGAACGTGAAA 58.682 45.000 0.00 0.00 0.00 2.69
879 880 1.317613 AGCAGCCATGAACGTGAAAA 58.682 45.000 0.00 0.00 0.00 2.29
880 881 1.680735 AGCAGCCATGAACGTGAAAAA 59.319 42.857 0.00 0.00 0.00 1.94
897 898 3.487576 AAAAACTGACGGCTGACCA 57.512 47.368 0.54 0.00 34.57 4.02
898 899 1.757682 AAAAACTGACGGCTGACCAA 58.242 45.000 0.54 0.00 34.57 3.67
899 900 1.021968 AAAACTGACGGCTGACCAAC 58.978 50.000 0.54 0.00 34.57 3.77
900 901 0.180406 AAACTGACGGCTGACCAACT 59.820 50.000 0.54 0.00 34.57 3.16
901 902 0.532862 AACTGACGGCTGACCAACTG 60.533 55.000 0.54 0.00 34.57 3.16
902 903 1.069765 CTGACGGCTGACCAACTGT 59.930 57.895 0.00 0.00 34.57 3.55
903 904 0.946221 CTGACGGCTGACCAACTGTC 60.946 60.000 0.00 5.64 44.72 3.51
936 937 4.670227 AAGAGCACAGTAAAAAGATCGC 57.330 40.909 0.00 0.00 0.00 4.58
937 938 3.664107 AGAGCACAGTAAAAAGATCGCA 58.336 40.909 0.00 0.00 0.00 5.10
938 939 3.433615 AGAGCACAGTAAAAAGATCGCAC 59.566 43.478 0.00 0.00 0.00 5.34
939 940 2.157668 AGCACAGTAAAAAGATCGCACG 59.842 45.455 0.00 0.00 0.00 5.34
940 941 2.724839 GCACAGTAAAAAGATCGCACGG 60.725 50.000 0.00 0.00 0.00 4.94
941 942 1.463444 ACAGTAAAAAGATCGCACGGC 59.537 47.619 0.00 0.00 0.00 5.68
942 943 1.084289 AGTAAAAAGATCGCACGGCC 58.916 50.000 0.00 0.00 0.00 6.13
943 944 0.098200 GTAAAAAGATCGCACGGCCC 59.902 55.000 0.00 0.00 0.00 5.80
944 945 0.321741 TAAAAAGATCGCACGGCCCA 60.322 50.000 0.00 0.00 0.00 5.36
945 946 1.175983 AAAAAGATCGCACGGCCCAA 61.176 50.000 0.00 0.00 0.00 4.12
946 947 1.862602 AAAAGATCGCACGGCCCAAC 61.863 55.000 0.00 0.00 0.00 3.77
976 977 4.821589 CGCGGAGGCCTCAGGTTC 62.822 72.222 33.29 15.94 35.02 3.62
977 978 4.821589 GCGGAGGCCTCAGGTTCG 62.822 72.222 33.29 26.10 0.00 3.95
978 979 4.821589 CGGAGGCCTCAGGTTCGC 62.822 72.222 33.29 13.59 0.00 4.70
979 980 4.821589 GGAGGCCTCAGGTTCGCG 62.822 72.222 33.29 0.00 0.00 5.87
980 981 4.821589 GAGGCCTCAGGTTCGCGG 62.822 72.222 28.43 0.00 0.00 6.46
983 984 3.766691 GCCTCAGGTTCGCGGGTA 61.767 66.667 6.13 0.00 0.00 3.69
984 985 2.494918 CCTCAGGTTCGCGGGTAG 59.505 66.667 6.13 0.00 0.00 3.18
985 986 2.202756 CTCAGGTTCGCGGGTAGC 60.203 66.667 6.13 1.74 43.95 3.58
986 987 3.718210 CTCAGGTTCGCGGGTAGCC 62.718 68.421 6.13 0.00 44.76 3.93
987 988 3.771160 CAGGTTCGCGGGTAGCCT 61.771 66.667 6.13 0.00 44.76 4.58
988 989 2.043652 AGGTTCGCGGGTAGCCTA 60.044 61.111 6.13 0.00 44.76 3.93
989 990 2.125961 AGGTTCGCGGGTAGCCTAG 61.126 63.158 6.13 2.75 44.76 3.02
990 991 2.416260 GTTCGCGGGTAGCCTAGG 59.584 66.667 6.13 3.67 44.76 3.02
991 992 2.123428 GTTCGCGGGTAGCCTAGGA 61.123 63.158 14.75 0.34 44.76 2.94
992 993 1.826921 TTCGCGGGTAGCCTAGGAG 60.827 63.158 14.75 0.00 44.76 3.69
993 994 3.979739 CGCGGGTAGCCTAGGAGC 61.980 72.222 14.75 1.38 44.76 4.70
994 995 3.979739 GCGGGTAGCCTAGGAGCG 61.980 72.222 14.75 0.42 40.81 5.03
995 996 2.518825 CGGGTAGCCTAGGAGCGT 60.519 66.667 14.75 0.00 38.01 5.07
996 997 2.125961 CGGGTAGCCTAGGAGCGTT 61.126 63.158 14.75 0.00 38.01 4.84
997 998 1.673808 CGGGTAGCCTAGGAGCGTTT 61.674 60.000 14.75 0.00 38.01 3.60
998 999 1.406903 GGGTAGCCTAGGAGCGTTTA 58.593 55.000 14.75 0.00 38.01 2.01
999 1000 1.969208 GGGTAGCCTAGGAGCGTTTAT 59.031 52.381 14.75 0.00 38.01 1.40
1000 1001 3.160269 GGGTAGCCTAGGAGCGTTTATA 58.840 50.000 14.75 0.00 38.01 0.98
1001 1002 3.768215 GGGTAGCCTAGGAGCGTTTATAT 59.232 47.826 14.75 0.00 38.01 0.86
1002 1003 4.381718 GGGTAGCCTAGGAGCGTTTATATG 60.382 50.000 14.75 0.00 38.01 1.78
1003 1004 4.220163 GGTAGCCTAGGAGCGTTTATATGT 59.780 45.833 14.75 0.00 38.01 2.29
1004 1005 4.957684 AGCCTAGGAGCGTTTATATGTT 57.042 40.909 14.75 0.00 38.01 2.71
1005 1006 6.071728 GGTAGCCTAGGAGCGTTTATATGTTA 60.072 42.308 14.75 0.00 38.01 2.41
1006 1007 6.026947 AGCCTAGGAGCGTTTATATGTTAG 57.973 41.667 14.75 0.00 38.01 2.34
1015 1016 7.797123 GGAGCGTTTATATGTTAGATTTTTCCG 59.203 37.037 0.00 0.00 0.00 4.30
1099 1119 2.526046 CCGGTGACCACTTCCCCTT 61.526 63.158 1.11 0.00 0.00 3.95
1102 1122 1.423794 GGTGACCACTTCCCCTTCCA 61.424 60.000 0.00 0.00 0.00 3.53
1112 1132 2.456840 CCCTTCCACTCCTCCCCT 59.543 66.667 0.00 0.00 0.00 4.79
1203 1223 2.959707 CTCCACTCGCTCTTATAACCCT 59.040 50.000 0.00 0.00 0.00 4.34
1543 1584 1.421646 CCAGGTCAGTTCTTGGTCCTT 59.578 52.381 0.00 0.00 32.23 3.36
1616 1662 2.478292 TCCCACCTAATCTCCAAGTCC 58.522 52.381 0.00 0.00 0.00 3.85
1680 1726 1.656095 GATTCAGTCTACGCACTGTGC 59.344 52.381 22.38 22.38 43.80 4.57
1739 1792 1.209019 CTGGGATGCTTCACTACAGCT 59.791 52.381 3.24 0.00 38.19 4.24
1779 1867 3.181530 CCTCTGTCTTTTATGCACGTTCG 60.182 47.826 0.00 0.00 0.00 3.95
1907 2036 1.338484 TGCTCAGTGAAGCTGCCTAAG 60.338 52.381 13.40 0.00 44.66 2.18
1916 2045 1.897560 AGCTGCCTAAGGTTGTGTTC 58.102 50.000 0.00 0.00 30.45 3.18
1952 2081 6.397217 AACTGGGGTAGTGGTTGTATTTAT 57.603 37.500 0.00 0.00 40.26 1.40
2048 2177 5.154222 GGAAAGTTCAATTAAGTGCCTTCG 58.846 41.667 0.00 0.00 0.00 3.79
2085 2214 2.543777 TACCTGGTTTGTGTGAGCTC 57.456 50.000 3.84 6.82 0.00 4.09
2119 2248 5.680229 GCTTATGAGTCGCTGAATTTCATTG 59.320 40.000 0.00 0.00 31.49 2.82
2124 2259 5.469760 TGAGTCGCTGAATTTCATTGAAGAA 59.530 36.000 0.00 0.00 0.00 2.52
2127 2262 6.373774 AGTCGCTGAATTTCATTGAAGAATCT 59.626 34.615 0.00 0.00 0.00 2.40
2150 2364 5.559770 TCTGAATTTCATGTGCCTTAGTCA 58.440 37.500 0.00 0.00 0.00 3.41
2157 2371 4.650734 TCATGTGCCTTAGTCACAAATCA 58.349 39.130 0.00 0.00 46.07 2.57
2388 2606 6.808321 AGATTTGCTAGGTGTTCACCTATA 57.192 37.500 25.66 17.39 41.15 1.31
2389 2607 7.380423 AGATTTGCTAGGTGTTCACCTATAT 57.620 36.000 25.66 17.85 41.15 0.86
2493 2713 3.008266 TCTTCCAGCATCATGAAGTGTCA 59.992 43.478 0.00 0.00 37.39 3.58
2499 2719 2.816087 GCATCATGAAGTGTCACCAGTT 59.184 45.455 0.00 0.00 36.31 3.16
2506 2726 2.568623 AGTGTCACCAGTTCATTCCC 57.431 50.000 0.00 0.00 0.00 3.97
2507 2727 1.774254 AGTGTCACCAGTTCATTCCCA 59.226 47.619 0.00 0.00 0.00 4.37
2686 2907 5.824421 AGGGATTCATGAGTCAAGACAATT 58.176 37.500 18.70 0.00 0.00 2.32
2739 2960 0.685458 AAGGCAGCCCAATCATGTCC 60.685 55.000 8.22 0.00 0.00 4.02
2859 3080 1.339291 CTGAGCTGGATGATGCGTCTA 59.661 52.381 7.58 0.00 0.00 2.59
3081 3303 4.517453 AGCGGTTTTCTATGCTTTACAACA 59.483 37.500 0.00 0.00 32.89 3.33
3101 3323 5.246981 ACAGGAAATGGATGAAGAACTCA 57.753 39.130 0.00 0.00 38.81 3.41
3373 3595 3.823330 GGCCGTGGTCGAGACGAT 61.823 66.667 16.48 0.00 39.21 3.73
3440 3662 0.039798 TGTGGAAGTGCGACTACGTC 60.040 55.000 0.00 0.00 41.98 4.34
3761 3983 1.440060 GACTCACGTGTGGGTGACA 59.560 57.895 20.62 0.00 45.82 3.58
3995 4217 3.005261 GGTTGTGTATTGTTGGATGTGCA 59.995 43.478 0.00 0.00 0.00 4.57
4022 4244 9.793259 ATTCGTTGTTGATGGTCCTATAATAAT 57.207 29.630 0.00 0.00 0.00 1.28
4053 4275 2.158460 GGCCTATTTATGCCTGGGAGTT 60.158 50.000 0.00 0.00 44.46 3.01
4067 4289 1.936547 GGGAGTTCATTGATCGCTCAC 59.063 52.381 12.37 7.43 0.00 3.51
4101 4326 3.871485 CTCCTTGAAGATCAACTGGGAG 58.129 50.000 10.59 10.59 38.86 4.30
4107 4332 1.577736 AGATCAACTGGGAGTCTGGG 58.422 55.000 0.00 0.00 0.00 4.45
4124 4349 4.012374 TCTGGGACTTGATGAATCAAAGC 58.988 43.478 7.13 2.65 45.26 3.51
4130 4355 5.450137 GGACTTGATGAATCAAAGCCATGAG 60.450 44.000 14.38 2.46 45.26 2.90
4160 4388 1.348696 TCAAAGCTGTCTCCTGCATCA 59.651 47.619 0.00 0.00 37.95 3.07
4181 4409 4.044952 TCATATGGATGGATGGAGCCAATT 59.955 41.667 2.13 0.00 42.16 2.32
4186 4414 0.040058 TGGATGGAGCCAATTGCAGT 59.960 50.000 0.00 0.00 44.83 4.40
4188 4416 0.179119 GATGGAGCCAATTGCAGTGC 60.179 55.000 8.58 8.58 44.83 4.40
4260 4488 4.500127 AGTTAACCTGCCAAACACAAAAC 58.500 39.130 0.88 0.00 0.00 2.43
4298 4526 0.617935 TGGATGTTGCGGATGGAGAA 59.382 50.000 0.00 0.00 0.00 2.87
4302 4530 2.270352 TGTTGCGGATGGAGAACTTT 57.730 45.000 0.00 0.00 0.00 2.66
4339 4567 1.687493 GCACTAGGTGGGCTCTCCT 60.687 63.158 12.75 12.75 43.01 3.69
4364 4623 2.186160 CGCCTGTGTTGTGCCTGAA 61.186 57.895 0.00 0.00 0.00 3.02
4403 4662 1.823041 GGGAGCTGAGCTTCATGGC 60.823 63.158 15.77 0.00 39.88 4.40
4425 4684 1.549170 GTTTCTCCCCTCGTGCTAGAA 59.451 52.381 0.00 0.00 0.00 2.10
4429 4688 0.543410 TCCCCTCGTGCTAGAACCAA 60.543 55.000 0.00 0.00 0.00 3.67
4434 4693 0.956633 TCGTGCTAGAACCAACTCGT 59.043 50.000 0.00 0.00 0.00 4.18
4447 4707 4.838486 CTCGTCGCGTCAGCCTCC 62.838 72.222 5.77 0.00 41.18 4.30
4454 4714 3.068691 CGTCAGCCTCCGAGGGAA 61.069 66.667 16.51 0.00 35.37 3.97
4468 4728 3.181455 CCGAGGGAATGGACAATGATGTA 60.181 47.826 0.00 0.00 40.74 2.29
4474 4734 6.069673 AGGGAATGGACAATGATGTAGTTGTA 60.070 38.462 0.00 0.00 40.74 2.41
4492 4752 0.108186 TAACTCCGGTGCTGCAGATG 60.108 55.000 20.43 2.73 0.00 2.90
4510 4770 1.522580 GATGCCTGAGCTTCGGGAC 60.523 63.158 13.39 6.79 45.95 4.46
4513 4773 2.058595 GCCTGAGCTTCGGGACCTA 61.059 63.158 13.39 0.00 45.95 3.08
4521 4781 0.689745 CTTCGGGACCTATGTGGGGA 60.690 60.000 0.00 0.00 41.11 4.81
4522 4782 0.030501 TTCGGGACCTATGTGGGGAT 60.031 55.000 0.00 0.00 41.11 3.85
4530 4790 0.396811 CTATGTGGGGATCCGGTTCC 59.603 60.000 21.54 21.54 35.24 3.62
4535 4795 4.237207 GGGATCCGGTTCCGCCTC 62.237 72.222 22.51 7.50 36.58 4.70
4548 4808 2.893398 GCCTCCTGTCCGTCGAAT 59.107 61.111 0.00 0.00 0.00 3.34
4604 4864 2.869503 CTTTACCGCCGGCATCACCT 62.870 60.000 28.98 3.40 35.61 4.00
4612 4872 1.079127 CGGCATCACCTCGGAAGTT 60.079 57.895 0.00 0.00 35.61 2.66
4630 4890 6.116126 GGAAGTTTAGCCAGATACTTGATGT 58.884 40.000 0.00 0.00 31.41 3.06
4638 4898 3.986572 CCAGATACTTGATGTCGATGAGC 59.013 47.826 0.00 0.00 0.00 4.26
4666 4926 5.011586 TGATTTGGATGTTGCAATCTCTCA 58.988 37.500 0.59 0.00 0.00 3.27
4671 4931 2.820059 TGTTGCAATCTCTCACTCGT 57.180 45.000 0.59 0.00 0.00 4.18
4727 4987 2.887568 CTCGGTGTCATGGAGCGC 60.888 66.667 0.00 0.00 34.37 5.92
4756 5016 0.613012 GATGTTGCTGCCCTTCCCTT 60.613 55.000 0.00 0.00 0.00 3.95
4798 5058 4.445453 GTGATGCCTATGAGTGACATGAA 58.555 43.478 0.00 0.00 39.77 2.57
4801 5061 3.599343 TGCCTATGAGTGACATGAACAC 58.401 45.455 15.79 15.79 39.77 3.32
4847 5107 4.018597 ACTCCAAATCCAGATGCTCTCTTT 60.019 41.667 0.00 0.00 29.16 2.52
4848 5108 4.267536 TCCAAATCCAGATGCTCTCTTTG 58.732 43.478 0.00 0.00 29.16 2.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 36 7.935338 TGTTCTTTGATTTTTCTGCTCAATC 57.065 32.000 0.00 0.00 0.00 2.67
42 43 4.445385 CCCGCTTGTTCTTTGATTTTTCTG 59.555 41.667 0.00 0.00 0.00 3.02
141 142 1.930503 CTTTTGTTTGAAACGGTGGGC 59.069 47.619 3.37 0.00 0.00 5.36
148 149 6.955407 GTGTGCATCTTTCTTTTGTTTGAAAC 59.045 34.615 0.14 0.14 0.00 2.78
152 153 5.348179 TGTGTGTGCATCTTTCTTTTGTTTG 59.652 36.000 0.00 0.00 0.00 2.93
198 199 3.009695 TGTGTAAATGTCCGAGGGGAAAT 59.990 43.478 0.00 0.00 46.08 2.17
223 224 7.228108 AGAGGTTATGAATGTGCACAATATCTG 59.772 37.037 25.72 0.00 0.00 2.90
237 238 7.443302 TCTTCCAGATTGAGAGGTTATGAAT 57.557 36.000 0.00 0.00 0.00 2.57
251 252 6.266103 TCTGCAACATTCTTTTCTTCCAGATT 59.734 34.615 0.00 0.00 0.00 2.40
260 261 4.381292 CCCCTGATCTGCAACATTCTTTTC 60.381 45.833 0.00 0.00 0.00 2.29
265 266 0.743097 GCCCCTGATCTGCAACATTC 59.257 55.000 0.00 0.00 0.00 2.67
323 324 2.581354 GACGTGCTGCCAGATCCT 59.419 61.111 0.00 0.00 0.00 3.24
332 333 0.109735 TCTTACTGCTCGACGTGCTG 60.110 55.000 22.00 22.00 35.85 4.41
358 359 0.949397 CAGCTTCACTTCAGCAGCAA 59.051 50.000 0.00 0.00 39.99 3.91
382 383 0.470341 GAGGTAAGTGCCCATCTCCC 59.530 60.000 0.00 0.00 0.00 4.30
448 449 0.179034 GCCCCTGCCTACAAGATCAG 60.179 60.000 0.00 0.00 0.00 2.90
511 512 0.247736 ACGAAGAGAGTCATGGTGGC 59.752 55.000 0.00 0.00 0.00 5.01
651 652 1.610327 CTCGTCTCCTCCTCTCCCA 59.390 63.158 0.00 0.00 0.00 4.37
652 653 1.826487 GCTCGTCTCCTCCTCTCCC 60.826 68.421 0.00 0.00 0.00 4.30
692 693 1.002274 GCTTCCTCCTCTCCTCCCA 59.998 63.158 0.00 0.00 0.00 4.37
714 715 3.222855 AGCCGCCTCATCTCCTCG 61.223 66.667 0.00 0.00 0.00 4.63
761 762 7.338449 GGTAACAAAAGCATCAAACCCTAGATA 59.662 37.037 0.00 0.00 0.00 1.98
794 795 1.261619 GAATAGCGTGGCTTTCATCCG 59.738 52.381 0.00 0.00 40.44 4.18
816 817 2.073816 CTCGTTATGTGTGGGGTCAAC 58.926 52.381 0.00 0.00 0.00 3.18
853 854 1.135859 CGTTCATGGCTGCTTTGAGAC 60.136 52.381 0.00 4.28 0.00 3.36
879 880 1.404035 GTTGGTCAGCCGTCAGTTTTT 59.596 47.619 0.00 0.00 37.67 1.94
880 881 1.021968 GTTGGTCAGCCGTCAGTTTT 58.978 50.000 0.00 0.00 37.67 2.43
881 882 0.180406 AGTTGGTCAGCCGTCAGTTT 59.820 50.000 0.00 0.00 37.67 2.66
882 883 0.532862 CAGTTGGTCAGCCGTCAGTT 60.533 55.000 0.00 0.00 37.67 3.16
883 884 1.069765 CAGTTGGTCAGCCGTCAGT 59.930 57.895 0.00 0.00 37.67 3.41
884 885 0.946221 GACAGTTGGTCAGCCGTCAG 60.946 60.000 0.00 0.00 46.19 3.51
885 886 1.069090 GACAGTTGGTCAGCCGTCA 59.931 57.895 0.00 0.00 46.19 4.35
886 887 3.952811 GACAGTTGGTCAGCCGTC 58.047 61.111 0.00 0.00 46.19 4.79
912 913 5.915196 GCGATCTTTTTACTGTGCTCTTTTT 59.085 36.000 0.00 0.00 0.00 1.94
913 914 5.008613 TGCGATCTTTTTACTGTGCTCTTTT 59.991 36.000 0.00 0.00 0.00 2.27
914 915 4.515191 TGCGATCTTTTTACTGTGCTCTTT 59.485 37.500 0.00 0.00 0.00 2.52
915 916 4.065088 TGCGATCTTTTTACTGTGCTCTT 58.935 39.130 0.00 0.00 0.00 2.85
916 917 3.433615 GTGCGATCTTTTTACTGTGCTCT 59.566 43.478 0.00 0.00 0.00 4.09
917 918 3.722082 CGTGCGATCTTTTTACTGTGCTC 60.722 47.826 0.00 0.00 0.00 4.26
918 919 2.157668 CGTGCGATCTTTTTACTGTGCT 59.842 45.455 0.00 0.00 0.00 4.40
919 920 2.495939 CGTGCGATCTTTTTACTGTGC 58.504 47.619 0.00 0.00 0.00 4.57
920 921 2.724839 GCCGTGCGATCTTTTTACTGTG 60.725 50.000 0.00 0.00 0.00 3.66
921 922 1.463444 GCCGTGCGATCTTTTTACTGT 59.537 47.619 0.00 0.00 0.00 3.55
922 923 1.202031 GGCCGTGCGATCTTTTTACTG 60.202 52.381 0.00 0.00 0.00 2.74
923 924 1.084289 GGCCGTGCGATCTTTTTACT 58.916 50.000 0.00 0.00 0.00 2.24
924 925 0.098200 GGGCCGTGCGATCTTTTTAC 59.902 55.000 0.00 0.00 0.00 2.01
925 926 0.321741 TGGGCCGTGCGATCTTTTTA 60.322 50.000 0.00 0.00 0.00 1.52
926 927 1.175983 TTGGGCCGTGCGATCTTTTT 61.176 50.000 0.00 0.00 0.00 1.94
927 928 1.602323 TTGGGCCGTGCGATCTTTT 60.602 52.632 0.00 0.00 0.00 2.27
928 929 2.033448 TTGGGCCGTGCGATCTTT 59.967 55.556 0.00 0.00 0.00 2.52
929 930 2.746277 GTTGGGCCGTGCGATCTT 60.746 61.111 0.00 0.00 0.00 2.40
959 960 4.821589 GAACCTGAGGCCTCCGCG 62.822 72.222 29.95 18.44 35.02 6.46
960 961 4.821589 CGAACCTGAGGCCTCCGC 62.822 72.222 29.95 12.97 0.00 5.54
961 962 4.821589 GCGAACCTGAGGCCTCCG 62.822 72.222 29.95 24.46 0.00 4.63
962 963 4.821589 CGCGAACCTGAGGCCTCC 62.822 72.222 29.95 12.95 0.00 4.30
963 964 4.821589 CCGCGAACCTGAGGCCTC 62.822 72.222 26.78 26.78 0.00 4.70
966 967 3.718210 CTACCCGCGAACCTGAGGC 62.718 68.421 8.23 0.00 0.00 4.70
967 968 2.494918 CTACCCGCGAACCTGAGG 59.505 66.667 8.23 0.00 0.00 3.86
968 969 2.202756 GCTACCCGCGAACCTGAG 60.203 66.667 8.23 0.00 0.00 3.35
969 970 2.842188 TAGGCTACCCGCGAACCTGA 62.842 60.000 8.23 0.00 40.44 3.86
970 971 2.351336 CTAGGCTACCCGCGAACCTG 62.351 65.000 8.23 0.00 40.44 4.00
971 972 2.043652 TAGGCTACCCGCGAACCT 60.044 61.111 8.23 9.16 40.44 3.50
972 973 2.416260 CTAGGCTACCCGCGAACC 59.584 66.667 8.23 0.51 40.44 3.62
973 974 2.073037 CTCCTAGGCTACCCGCGAAC 62.073 65.000 8.23 0.00 40.44 3.95
974 975 1.826921 CTCCTAGGCTACCCGCGAA 60.827 63.158 8.23 0.00 40.44 4.70
975 976 2.203308 CTCCTAGGCTACCCGCGA 60.203 66.667 8.23 0.00 40.44 5.87
976 977 3.979739 GCTCCTAGGCTACCCGCG 61.980 72.222 2.96 0.00 40.44 6.46
977 978 3.979739 CGCTCCTAGGCTACCCGC 61.980 72.222 2.96 0.00 35.76 6.13
978 979 1.673808 AAACGCTCCTAGGCTACCCG 61.674 60.000 2.96 4.48 35.76 5.28
979 980 1.406903 TAAACGCTCCTAGGCTACCC 58.593 55.000 2.96 0.00 0.00 3.69
980 981 4.220163 ACATATAAACGCTCCTAGGCTACC 59.780 45.833 2.96 0.00 0.00 3.18
981 982 5.388408 ACATATAAACGCTCCTAGGCTAC 57.612 43.478 2.96 0.00 0.00 3.58
982 983 6.944290 TCTAACATATAAACGCTCCTAGGCTA 59.056 38.462 2.96 0.00 0.00 3.93
983 984 4.957684 AACATATAAACGCTCCTAGGCT 57.042 40.909 2.96 0.00 0.00 4.58
984 985 6.022163 TCTAACATATAAACGCTCCTAGGC 57.978 41.667 2.96 0.00 0.00 3.93
985 986 9.490379 AAAATCTAACATATAAACGCTCCTAGG 57.510 33.333 0.82 0.82 0.00 3.02
988 989 8.837389 GGAAAAATCTAACATATAAACGCTCCT 58.163 33.333 0.00 0.00 0.00 3.69
989 990 7.797123 CGGAAAAATCTAACATATAAACGCTCC 59.203 37.037 0.00 0.00 0.00 4.70
990 991 8.333186 ACGGAAAAATCTAACATATAAACGCTC 58.667 33.333 0.00 0.00 0.00 5.03
991 992 8.205131 ACGGAAAAATCTAACATATAAACGCT 57.795 30.769 0.00 0.00 0.00 5.07
992 993 8.333186 AGACGGAAAAATCTAACATATAAACGC 58.667 33.333 0.00 0.00 0.00 4.84
993 994 9.632969 CAGACGGAAAAATCTAACATATAAACG 57.367 33.333 0.00 0.00 0.00 3.60
994 995 9.434559 GCAGACGGAAAAATCTAACATATAAAC 57.565 33.333 0.00 0.00 0.00 2.01
995 996 9.391006 AGCAGACGGAAAAATCTAACATATAAA 57.609 29.630 0.00 0.00 0.00 1.40
996 997 8.958119 AGCAGACGGAAAAATCTAACATATAA 57.042 30.769 0.00 0.00 0.00 0.98
997 998 7.656137 GGAGCAGACGGAAAAATCTAACATATA 59.344 37.037 0.00 0.00 0.00 0.86
998 999 6.483640 GGAGCAGACGGAAAAATCTAACATAT 59.516 38.462 0.00 0.00 0.00 1.78
999 1000 5.815740 GGAGCAGACGGAAAAATCTAACATA 59.184 40.000 0.00 0.00 0.00 2.29
1000 1001 4.636206 GGAGCAGACGGAAAAATCTAACAT 59.364 41.667 0.00 0.00 0.00 2.71
1001 1002 4.000988 GGAGCAGACGGAAAAATCTAACA 58.999 43.478 0.00 0.00 0.00 2.41
1002 1003 3.374367 GGGAGCAGACGGAAAAATCTAAC 59.626 47.826 0.00 0.00 0.00 2.34
1003 1004 3.606687 GGGAGCAGACGGAAAAATCTAA 58.393 45.455 0.00 0.00 0.00 2.10
1004 1005 2.093128 GGGGAGCAGACGGAAAAATCTA 60.093 50.000 0.00 0.00 0.00 1.98
1005 1006 1.340114 GGGGAGCAGACGGAAAAATCT 60.340 52.381 0.00 0.00 0.00 2.40
1006 1007 1.095600 GGGGAGCAGACGGAAAAATC 58.904 55.000 0.00 0.00 0.00 2.17
1015 1016 3.386237 AGAGCACGGGGAGCAGAC 61.386 66.667 0.00 0.00 0.00 3.51
1093 1113 2.454941 GGGAGGAGTGGAAGGGGA 59.545 66.667 0.00 0.00 0.00 4.81
1163 1183 1.986757 GAGGAGCAGGTGCAGGAGA 60.987 63.158 4.48 0.00 45.16 3.71
1164 1184 2.583520 GAGGAGCAGGTGCAGGAG 59.416 66.667 4.48 0.00 45.16 3.69
1169 1189 3.005539 TGGAGGAGGAGCAGGTGC 61.006 66.667 0.00 0.00 42.49 5.01
1616 1662 1.565305 GCAGACGAGTGATGCCTAAG 58.435 55.000 0.00 0.00 33.81 2.18
1680 1726 1.287730 GCTGAGCACGAGTCAACAGG 61.288 60.000 0.00 0.00 0.00 4.00
1779 1867 6.982724 ACTACCCGCAGATTTGTAATTAGTAC 59.017 38.462 0.00 0.00 0.00 2.73
1907 2036 6.485648 AGTTTTAGTATCCAGTGAACACAACC 59.514 38.462 7.68 0.00 0.00 3.77
1916 2045 4.569719 ACCCCAGTTTTAGTATCCAGTG 57.430 45.455 0.00 0.00 0.00 3.66
2048 2177 7.283329 ACCAGGTATGAATTAGGATCTGTTTC 58.717 38.462 0.00 0.00 0.00 2.78
2085 2214 4.510711 AGCGACTCATAAGCATCAATCTTG 59.489 41.667 0.00 0.00 0.00 3.02
2119 2248 6.095160 AGGCACATGAAATTCAGAGATTCTTC 59.905 38.462 0.00 0.00 0.00 2.87
2124 2259 6.421485 ACTAAGGCACATGAAATTCAGAGAT 58.579 36.000 0.00 0.00 0.00 2.75
2127 2262 5.412594 GTGACTAAGGCACATGAAATTCAGA 59.587 40.000 0.00 0.00 36.31 3.27
2150 2364 7.100458 ACTTAAACTTGAGCAGTTGATTTGT 57.900 32.000 0.00 0.00 45.77 2.83
2389 2607 9.851686 AAAATCAAGAATAGCCACATATACTGA 57.148 29.630 0.00 0.00 0.00 3.41
2493 2713 5.659079 TGTTTAAGTTTGGGAATGAACTGGT 59.341 36.000 0.00 0.00 0.00 4.00
2499 2719 4.651503 TGGCTTGTTTAAGTTTGGGAATGA 59.348 37.500 0.00 0.00 36.27 2.57
2535 2756 1.604278 GAAGGACAAACTCTGCACCAC 59.396 52.381 0.00 0.00 0.00 4.16
2686 2907 9.237187 TCATGTATGGCTCAGTTTATTTAAACA 57.763 29.630 13.93 0.00 45.97 2.83
2739 2960 1.632422 GTGCTGCCAAATCATTTCGG 58.368 50.000 0.00 0.00 0.00 4.30
2859 3080 3.641434 AAGCAGAGCAGTATGATTGGT 57.359 42.857 0.00 0.00 39.69 3.67
3081 3303 5.768980 TCTGAGTTCTTCATCCATTTCCT 57.231 39.130 0.00 0.00 34.68 3.36
3206 3428 1.832912 GAGGCACCCGATCAGGAAT 59.167 57.895 0.76 0.00 45.00 3.01
3995 4217 9.621629 TTATTATAGGACCATCAACAACGAATT 57.378 29.630 0.00 0.00 0.00 2.17
4022 4244 1.491668 TAAATAGGCCCGAGTCTGCA 58.508 50.000 0.00 0.00 0.00 4.41
4053 4275 5.544650 ACATATGATGTGAGCGATCAATGA 58.455 37.500 15.47 3.30 43.01 2.57
4067 4289 7.822822 TGATCTTCAAGGAGCATACATATGATG 59.177 37.037 10.38 9.82 35.75 3.07
4101 4326 4.142513 GCTTTGATTCATCAAGTCCCAGAC 60.143 45.833 2.57 0.00 46.34 3.51
4107 4332 5.450137 CCTCATGGCTTTGATTCATCAAGTC 60.450 44.000 2.57 0.00 46.34 3.01
4124 4349 2.602257 TTGATCGTGTAGCCTCATGG 57.398 50.000 0.00 0.00 0.00 3.66
4130 4355 1.661112 GACAGCTTTGATCGTGTAGCC 59.339 52.381 0.00 0.00 34.19 3.93
4141 4366 1.817357 TGATGCAGGAGACAGCTTTG 58.183 50.000 0.00 0.00 44.30 2.77
4160 4388 4.350245 CAATTGGCTCCATCCATCCATAT 58.650 43.478 0.00 0.00 35.77 1.78
4181 4409 2.520020 AAGGCTTGCTGCACTGCA 60.520 55.556 22.39 3.11 45.15 4.41
4186 4414 0.386476 CAAACTGAAGGCTTGCTGCA 59.614 50.000 3.46 0.00 45.15 4.41
4188 4416 0.316204 CCCAAACTGAAGGCTTGCTG 59.684 55.000 3.46 3.40 0.00 4.41
4298 4526 1.137872 CCTCAGCTCGCTCCATAAAGT 59.862 52.381 0.00 0.00 0.00 2.66
4302 4530 3.133014 GCCTCAGCTCGCTCCATA 58.867 61.111 0.00 0.00 35.50 2.74
4403 4662 1.601419 TAGCACGAGGGGAGAAACGG 61.601 60.000 0.00 0.00 0.00 4.44
4425 4684 2.050351 CTGACGCGACGAGTTGGT 60.050 61.111 15.93 0.00 0.00 3.67
4429 4688 4.104417 GAGGCTGACGCGACGAGT 62.104 66.667 15.93 3.17 36.88 4.18
4447 4707 2.923121 ACATCATTGTCCATTCCCTCG 58.077 47.619 0.00 0.00 0.00 4.63
4454 4714 6.823689 GGAGTTACAACTACATCATTGTCCAT 59.176 38.462 0.00 0.00 39.74 3.41
4468 4728 0.602905 GCAGCACCGGAGTTACAACT 60.603 55.000 9.46 0.00 43.16 3.16
4474 4734 1.376424 CATCTGCAGCACCGGAGTT 60.376 57.895 9.46 0.00 0.00 3.01
4492 4752 1.522580 GTCCCGAAGCTCAGGCATC 60.523 63.158 2.10 0.00 41.70 3.91
4510 4770 0.396811 GAACCGGATCCCCACATAGG 59.603 60.000 9.46 1.76 37.03 2.57
4513 4773 2.742116 CGGAACCGGATCCCCACAT 61.742 63.158 23.87 0.00 36.00 3.21
4521 4781 3.470888 CAGGAGGCGGAACCGGAT 61.471 66.667 9.46 0.00 46.52 4.18
4530 4790 1.721664 TATTCGACGGACAGGAGGCG 61.722 60.000 0.00 0.00 0.00 5.52
4535 4795 0.452987 TCGGTTATTCGACGGACAGG 59.547 55.000 0.00 0.00 33.92 4.00
4595 4855 2.280628 CTAAACTTCCGAGGTGATGCC 58.719 52.381 0.00 0.00 37.58 4.40
4604 4864 4.464951 TCAAGTATCTGGCTAAACTTCCGA 59.535 41.667 0.00 0.00 29.93 4.55
4606 4866 6.116126 ACATCAAGTATCTGGCTAAACTTCC 58.884 40.000 0.00 0.00 29.93 3.46
4608 4868 5.812642 CGACATCAAGTATCTGGCTAAACTT 59.187 40.000 0.00 0.00 32.52 2.66
4612 4872 5.301805 TCATCGACATCAAGTATCTGGCTAA 59.698 40.000 0.00 0.00 0.00 3.09
4630 4890 1.358877 CAAATCACCACGCTCATCGA 58.641 50.000 0.00 0.00 41.67 3.59
4638 4898 1.269174 TGCAACATCCAAATCACCACG 59.731 47.619 0.00 0.00 0.00 4.94
4666 4926 2.233922 CACCCAATGGACTTAGACGAGT 59.766 50.000 0.00 0.00 34.81 4.18
4671 4931 2.571653 CCTGACACCCAATGGACTTAGA 59.428 50.000 0.00 0.00 34.81 2.10
4727 4987 2.159517 GGCAGCAACATCTAAAACTCCG 60.160 50.000 0.00 0.00 0.00 4.63
4785 5045 3.332919 GCTCAGTGTTCATGTCACTCAT 58.667 45.455 18.11 2.36 43.14 2.90


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

AutoCloner maintained by Alex Coulton.