Multiple sequence alignment - TraesCS4D01G092500

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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 TraesCS4D01G092500 chr4D 100.000 3138 0 0 1757 4894 67334978 67331841 0.000000e+00 5795.0
1 TraesCS4D01G092500 chr4D 100.000 1186 0 0 1 1186 67336734 67335549 0.000000e+00 2191.0
2 TraesCS4D01G092500 chr4D 94.578 166 9 0 902 1067 67335716 67335551 1.750000e-64 257.0
3 TraesCS4D01G092500 chr4D 94.578 166 9 0 1019 1184 67335833 67335668 1.750000e-64 257.0
4 TraesCS4D01G092500 chr4B 97.527 1496 37 0 1757 3252 99435423 99436918 0.000000e+00 2558.0
5 TraesCS4D01G092500 chr4B 96.040 1288 31 5 3626 4894 99437498 99438784 0.000000e+00 2078.0
6 TraesCS4D01G092500 chr4B 94.465 813 37 3 206 1016 99434550 99435356 0.000000e+00 1245.0
7 TraesCS4D01G092500 chr4B 95.288 382 15 2 3250 3630 99437041 99437420 1.950000e-168 603.0
8 TraesCS4D01G092500 chr4B 93.780 209 13 0 2 210 99434306 99434514 1.020000e-81 315.0
9 TraesCS4D01G092500 chr4B 97.414 116 3 0 1018 1133 99435241 99435356 1.070000e-46 198.0
10 TraesCS4D01G092500 chr1A 88.395 517 42 5 206 722 171022644 171022146 1.510000e-169 606.0
11 TraesCS4D01G092500 chr3B 76.190 861 171 23 1847 2699 14046519 14045685 1.630000e-114 424.0
12 TraesCS4D01G092500 chr3B 74.444 900 180 32 1812 2699 14053311 14052450 4.690000e-90 342.0
13 TraesCS4D01G092500 chr3B 76.881 545 97 21 2611 3139 13809862 13809331 1.040000e-71 281.0
14 TraesCS4D01G092500 chr3B 76.782 491 88 16 2839 3323 28277968 28277498 8.130000e-63 252.0
15 TraesCS4D01G092500 chr3B 83.663 202 26 5 3771 3970 13803607 13803411 3.010000e-42 183.0
16 TraesCS4D01G092500 chr3B 85.235 149 9 2 252 400 640536561 640536696 1.840000e-29 141.0
17 TraesCS4D01G092500 chr3B 89.412 85 8 1 3427 3511 28367940 28367857 6.700000e-19 106.0
18 TraesCS4D01G092500 chr3B 84.270 89 14 0 2611 2699 28370836 28370748 2.430000e-13 87.9
19 TraesCS4D01G092500 chr3A 76.979 682 114 27 2767 3422 11551295 11551959 2.800000e-92 350.0
20 TraesCS4D01G092500 chr3A 77.715 534 97 17 2617 3140 11536418 11536939 1.710000e-79 307.0
21 TraesCS4D01G092500 chr3A 73.615 758 160 26 2573 3315 11528104 11528836 6.290000e-64 255.0
22 TraesCS4D01G092500 chr3A 74.093 386 78 11 2909 3292 10873928 10874293 6.610000e-29 139.0
23 TraesCS4D01G092500 chr3D 76.532 669 135 14 2632 3296 5059640 5060290 3.630000e-91 346.0
24 TraesCS4D01G092500 chr3D 75.333 827 145 34 2633 3422 9620031 9619227 4.690000e-90 342.0
25 TraesCS4D01G092500 chr3D 74.369 753 163 20 2575 3320 4844185 4844914 1.330000e-75 294.0
26 TraesCS4D01G092500 chr3D 76.879 519 101 13 2632 3140 5052510 5053019 4.830000e-70 276.0
27 TraesCS4D01G092500 chr3D 82.090 201 34 2 3763 3961 9762777 9762577 2.340000e-38 171.0
28 TraesCS4D01G092500 chr3D 80.597 201 36 3 3763 3961 4812497 4812696 8.480000e-33 152.0
29 TraesCS4D01G092500 chr3D 79.412 170 30 5 2787 2954 4872615 4872449 1.110000e-21 115.0
30 TraesCS4D01G092500 chrUn 76.084 669 138 13 2632 3296 36499350 36500000 3.650000e-86 329.0
31 TraesCS4D01G092500 chrUn 73.828 768 157 29 2573 3323 290169090 290169830 1.040000e-66 265.0
32 TraesCS4D01G092500 chrUn 82.320 181 31 1 3763 3942 225566417 225566237 6.560000e-34 156.0
33 TraesCS4D01G092500 chrUn 82.320 181 31 1 3763 3942 237457953 237458133 6.560000e-34 156.0
34 TraesCS4D01G092500 chrUn 82.320 181 31 1 3763 3942 257669669 257669849 6.560000e-34 156.0
35 TraesCS4D01G092500 chrUn 79.602 201 39 2 3763 3961 36001966 36002166 5.110000e-30 143.0
36 TraesCS4D01G092500 chrUn 74.515 361 73 16 2767 3122 35360182 35359836 6.610000e-29 139.0
37 TraesCS4D01G092500 chrUn 74.515 361 73 16 2767 3122 263318421 263318075 6.610000e-29 139.0
38 TraesCS4D01G092500 chr7B 74.315 292 58 12 2844 3122 745661655 745661368 1.860000e-19 108.0
39 TraesCS4D01G092500 chr6B 85.938 64 8 1 3821 3884 66498769 66498707 3.160000e-07 67.6


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 TraesCS4D01G092500 chr4D 67331841 67336734 4893 True 2125.000000 5795 97.289000 1 4894 4 chr4D.!!$R1 4893
1 TraesCS4D01G092500 chr4B 99434306 99438784 4478 False 1166.166667 2558 95.752333 2 4894 6 chr4B.!!$F1 4892
2 TraesCS4D01G092500 chr3B 14045685 14046519 834 True 424.000000 424 76.190000 1847 2699 1 chr3B.!!$R3 852
3 TraesCS4D01G092500 chr3B 14052450 14053311 861 True 342.000000 342 74.444000 1812 2699 1 chr3B.!!$R4 887
4 TraesCS4D01G092500 chr3B 13809331 13809862 531 True 281.000000 281 76.881000 2611 3139 1 chr3B.!!$R2 528
5 TraesCS4D01G092500 chr3A 11551295 11551959 664 False 350.000000 350 76.979000 2767 3422 1 chr3A.!!$F4 655
6 TraesCS4D01G092500 chr3A 11536418 11536939 521 False 307.000000 307 77.715000 2617 3140 1 chr3A.!!$F3 523
7 TraesCS4D01G092500 chr3A 11528104 11528836 732 False 255.000000 255 73.615000 2573 3315 1 chr3A.!!$F2 742
8 TraesCS4D01G092500 chr3D 5059640 5060290 650 False 346.000000 346 76.532000 2632 3296 1 chr3D.!!$F4 664
9 TraesCS4D01G092500 chr3D 9619227 9620031 804 True 342.000000 342 75.333000 2633 3422 1 chr3D.!!$R2 789
10 TraesCS4D01G092500 chr3D 4844185 4844914 729 False 294.000000 294 74.369000 2575 3320 1 chr3D.!!$F2 745
11 TraesCS4D01G092500 chr3D 5052510 5053019 509 False 276.000000 276 76.879000 2632 3140 1 chr3D.!!$F3 508
12 TraesCS4D01G092500 chrUn 36499350 36500000 650 False 329.000000 329 76.084000 2632 3296 1 chrUn.!!$F2 664
13 TraesCS4D01G092500 chrUn 290169090 290169830 740 False 265.000000 265 73.828000 2573 3323 1 chrUn.!!$F5 750

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
941 984 0.108472 GAAGAGGGCAGCAAATTGGC 60.108 55.0 0.00 0.00 42.44 4.52 F
1839 1894 0.033504 CCGCTACAACACACACCTCT 59.966 55.0 0.00 0.00 0.00 3.69 F
1867 1922 0.046242 ATCCACCCCATTGAGGAGGA 59.954 55.0 5.86 5.86 41.22 3.71 F
2720 2789 0.249398 ATGGTTGTCGTAGCACCCTC 59.751 55.0 0.00 0.00 0.00 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1962 2018 0.549902 TGGATCTGGGAAAGGAGGCA 60.550 55.00 0.00 0.00 0.00 4.75 R
2720 2789 2.095263 CCAGTAAAGGACATTGCCAACG 60.095 50.00 0.00 0.00 0.00 4.10 R
3745 4069 3.687212 TCGAAACTGCAGAAACAAAGTGA 59.313 39.13 23.35 2.54 0.00 3.41 R
4557 4881 0.032403 GCAGCAGCCAACATCAACAA 59.968 50.00 0.00 0.00 33.58 2.83 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
18 19 1.754745 ACACGAGGCTGATGTTGGT 59.245 52.632 0.00 0.00 0.00 3.67
39 40 1.302192 GGCTCCTGTTGGCGTACAA 60.302 57.895 0.00 0.00 36.54 2.41
180 181 1.305930 GGCCTCATGGTGAAACGGTC 61.306 60.000 0.00 0.00 38.12 4.79
190 191 1.225376 TGAAACGGTCGCGCTCAATT 61.225 50.000 5.56 0.00 0.00 2.32
230 271 6.014584 AGTGTTTCCAAAAGGAAATCCATACC 60.015 38.462 12.32 0.00 39.57 2.73
245 286 3.943137 TACCAGGAGGGGTGGCAGG 62.943 68.421 0.00 0.00 42.39 4.85
247 288 3.721706 CAGGAGGGGTGGCAGGAC 61.722 72.222 0.00 0.00 0.00 3.85
248 289 4.270153 AGGAGGGGTGGCAGGACA 62.270 66.667 0.00 0.00 0.00 4.02
249 290 3.721706 GGAGGGGTGGCAGGACAG 61.722 72.222 0.00 0.00 0.00 3.51
309 350 2.903855 CACCGCCATGGCTCCATC 60.904 66.667 33.07 4.87 43.94 3.51
355 396 0.676736 GAAGCAGAGATACGGGGGAG 59.323 60.000 0.00 0.00 0.00 4.30
384 425 7.060383 TGAAGCCAAAATCCAATTTACTGAA 57.940 32.000 0.00 0.00 0.00 3.02
414 455 7.565323 AACTACAACTACGTATAGAAGAGGG 57.435 40.000 7.72 0.00 32.23 4.30
474 515 4.547367 GATGGGAAGGGCCGACGG 62.547 72.222 10.29 10.29 37.63 4.79
490 531 1.819632 CGGCGAGGAATTTGGGAGG 60.820 63.158 0.00 0.00 0.00 4.30
497 538 1.641192 AGGAATTTGGGAGGGGTTCTC 59.359 52.381 0.00 0.00 41.71 2.87
543 584 7.182060 AGGGAAGCAGAAATTTCCAAAGTATA 58.818 34.615 14.61 0.00 35.35 1.47
573 614 2.946990 GTTTCGGGTGTCTTCTCCAAAA 59.053 45.455 0.00 0.00 0.00 2.44
577 618 4.211920 TCGGGTGTCTTCTCCAAAATTTT 58.788 39.130 0.00 0.00 0.00 1.82
578 619 4.037446 TCGGGTGTCTTCTCCAAAATTTTG 59.963 41.667 21.65 21.65 37.90 2.44
579 620 4.202111 CGGGTGTCTTCTCCAAAATTTTGT 60.202 41.667 25.25 0.00 36.45 2.83
581 622 5.069119 GGGTGTCTTCTCCAAAATTTTGTCT 59.931 40.000 25.25 0.00 36.45 3.41
586 627 7.068593 TGTCTTCTCCAAAATTTTGTCTGATGT 59.931 33.333 25.25 0.00 36.45 3.06
623 664 0.617820 AATGTGCTCGGGGACTACCT 60.618 55.000 8.88 0.00 40.03 3.08
678 719 5.721232 ACGGTTAATATAGCATAGAGGCAC 58.279 41.667 0.00 0.00 35.83 5.01
693 734 0.523072 GGCACACACACCATCATCAC 59.477 55.000 0.00 0.00 0.00 3.06
700 741 2.294233 ACACACCATCATCACAAACTGC 59.706 45.455 0.00 0.00 0.00 4.40
731 772 9.463902 TTTATAGGAGTAGAGATTTAGATCGGG 57.536 37.037 0.00 0.00 37.37 5.14
736 777 2.307768 AGAGATTTAGATCGGGCGTGA 58.692 47.619 0.00 0.00 37.37 4.35
827 868 2.160813 GTGTCACGAAACAAACCACACT 59.839 45.455 0.00 0.00 31.84 3.55
833 876 2.943033 CGAAACAAACCACACTCCTCTT 59.057 45.455 0.00 0.00 0.00 2.85
834 877 3.377172 CGAAACAAACCACACTCCTCTTT 59.623 43.478 0.00 0.00 0.00 2.52
909 952 4.749310 CTGCAACGCGCTCCTCCT 62.749 66.667 5.73 0.00 43.06 3.69
910 953 4.314440 TGCAACGCGCTCCTCCTT 62.314 61.111 5.73 0.00 43.06 3.36
911 954 3.050275 GCAACGCGCTCCTCCTTT 61.050 61.111 5.73 0.00 37.77 3.11
912 955 3.028366 GCAACGCGCTCCTCCTTTC 62.028 63.158 5.73 0.00 37.77 2.62
913 956 1.374758 CAACGCGCTCCTCCTTTCT 60.375 57.895 5.73 0.00 0.00 2.52
914 957 1.079750 AACGCGCTCCTCCTTTCTC 60.080 57.895 5.73 0.00 0.00 2.87
915 958 2.202810 CGCGCTCCTCCTTTCTCC 60.203 66.667 5.56 0.00 0.00 3.71
916 959 2.982130 GCGCTCCTCCTTTCTCCA 59.018 61.111 0.00 0.00 0.00 3.86
917 960 1.448717 GCGCTCCTCCTTTCTCCAC 60.449 63.158 0.00 0.00 0.00 4.02
918 961 1.219393 CGCTCCTCCTTTCTCCACC 59.781 63.158 0.00 0.00 0.00 4.61
919 962 1.544825 CGCTCCTCCTTTCTCCACCA 61.545 60.000 0.00 0.00 0.00 4.17
920 963 0.915364 GCTCCTCCTTTCTCCACCAT 59.085 55.000 0.00 0.00 0.00 3.55
921 964 1.283321 GCTCCTCCTTTCTCCACCATT 59.717 52.381 0.00 0.00 0.00 3.16
922 965 2.943199 GCTCCTCCTTTCTCCACCATTG 60.943 54.545 0.00 0.00 0.00 2.82
923 966 2.573462 CTCCTCCTTTCTCCACCATTGA 59.427 50.000 0.00 0.00 0.00 2.57
924 967 2.986019 TCCTCCTTTCTCCACCATTGAA 59.014 45.455 0.00 0.00 0.00 2.69
925 968 3.009473 TCCTCCTTTCTCCACCATTGAAG 59.991 47.826 0.00 0.00 0.00 3.02
926 969 3.009473 CCTCCTTTCTCCACCATTGAAGA 59.991 47.826 0.00 0.00 0.00 2.87
927 970 4.260170 CTCCTTTCTCCACCATTGAAGAG 58.740 47.826 0.00 0.00 0.00 2.85
928 971 3.009473 TCCTTTCTCCACCATTGAAGAGG 59.991 47.826 0.00 0.00 0.00 3.69
929 972 3.350833 CTTTCTCCACCATTGAAGAGGG 58.649 50.000 0.00 0.00 34.64 4.30
930 973 0.620556 TCTCCACCATTGAAGAGGGC 59.379 55.000 0.00 0.00 30.38 5.19
931 974 0.329261 CTCCACCATTGAAGAGGGCA 59.671 55.000 0.00 0.00 30.38 5.36
932 975 0.329261 TCCACCATTGAAGAGGGCAG 59.671 55.000 0.00 0.00 30.38 4.85
933 976 1.318158 CCACCATTGAAGAGGGCAGC 61.318 60.000 0.00 0.00 30.38 5.25
934 977 0.609957 CACCATTGAAGAGGGCAGCA 60.610 55.000 0.00 0.00 30.38 4.41
935 978 0.112995 ACCATTGAAGAGGGCAGCAA 59.887 50.000 0.00 0.00 30.38 3.91
936 979 1.259609 CCATTGAAGAGGGCAGCAAA 58.740 50.000 0.00 0.00 0.00 3.68
937 980 1.829222 CCATTGAAGAGGGCAGCAAAT 59.171 47.619 0.00 0.00 0.00 2.32
938 981 2.235402 CCATTGAAGAGGGCAGCAAATT 59.765 45.455 0.00 0.00 0.00 1.82
939 982 3.259064 CATTGAAGAGGGCAGCAAATTG 58.741 45.455 0.00 0.00 0.00 2.32
940 983 1.259609 TGAAGAGGGCAGCAAATTGG 58.740 50.000 0.00 0.00 0.00 3.16
941 984 0.108472 GAAGAGGGCAGCAAATTGGC 60.108 55.000 0.00 0.00 42.44 4.52
945 988 2.992164 GGCAGCAAATTGGCCCAT 59.008 55.556 0.00 0.00 41.90 4.00
946 989 1.153309 GGCAGCAAATTGGCCCATC 60.153 57.895 0.00 0.00 41.90 3.51
947 990 1.153309 GCAGCAAATTGGCCCATCC 60.153 57.895 0.00 0.00 0.00 3.51
948 991 1.901654 GCAGCAAATTGGCCCATCCA 61.902 55.000 0.00 0.00 44.85 3.41
955 998 2.839836 TGGCCCATCCAAACGACA 59.160 55.556 0.00 0.00 43.21 4.35
956 999 1.602323 TGGCCCATCCAAACGACAC 60.602 57.895 0.00 0.00 43.21 3.67
957 1000 2.686816 GGCCCATCCAAACGACACG 61.687 63.158 0.00 0.00 34.01 4.49
958 1001 2.867472 CCCATCCAAACGACACGC 59.133 61.111 0.00 0.00 0.00 5.34
959 1002 2.686816 CCCATCCAAACGACACGCC 61.687 63.158 0.00 0.00 0.00 5.68
960 1003 2.686816 CCATCCAAACGACACGCCC 61.687 63.158 0.00 0.00 0.00 6.13
961 1004 2.359478 ATCCAAACGACACGCCCC 60.359 61.111 0.00 0.00 0.00 5.80
962 1005 2.890766 ATCCAAACGACACGCCCCT 61.891 57.895 0.00 0.00 0.00 4.79
963 1006 2.798148 ATCCAAACGACACGCCCCTC 62.798 60.000 0.00 0.00 0.00 4.30
964 1007 3.047877 CAAACGACACGCCCCTCC 61.048 66.667 0.00 0.00 0.00 4.30
965 1008 4.675029 AAACGACACGCCCCTCCG 62.675 66.667 0.00 0.00 0.00 4.63
975 1018 2.844839 CCCCTCCGTCCCCAGATC 60.845 72.222 0.00 0.00 0.00 2.75
976 1019 2.844839 CCCTCCGTCCCCAGATCC 60.845 72.222 0.00 0.00 0.00 3.36
977 1020 3.227276 CCTCCGTCCCCAGATCCG 61.227 72.222 0.00 0.00 0.00 4.18
978 1021 3.917760 CTCCGTCCCCAGATCCGC 61.918 72.222 0.00 0.00 0.00 5.54
985 1028 4.227134 CCCAGATCCGCCCGAGTG 62.227 72.222 0.00 0.00 0.00 3.51
986 1029 3.147595 CCAGATCCGCCCGAGTGA 61.148 66.667 0.00 0.00 0.00 3.41
987 1030 2.415010 CAGATCCGCCCGAGTGAG 59.585 66.667 0.00 0.00 0.00 3.51
988 1031 2.835431 AGATCCGCCCGAGTGAGG 60.835 66.667 0.00 0.00 0.00 3.86
996 1039 4.379243 CCGAGTGAGGCGGTTGCT 62.379 66.667 0.00 0.00 43.66 3.91
997 1040 3.114616 CGAGTGAGGCGGTTGCTG 61.115 66.667 0.00 0.00 42.25 4.41
998 1041 2.743928 GAGTGAGGCGGTTGCTGG 60.744 66.667 0.00 0.00 42.25 4.85
999 1042 3.240134 GAGTGAGGCGGTTGCTGGA 62.240 63.158 0.00 0.00 42.25 3.86
1000 1043 2.281484 GTGAGGCGGTTGCTGGAA 60.281 61.111 0.00 0.00 42.25 3.53
1001 1044 1.675641 GTGAGGCGGTTGCTGGAAT 60.676 57.895 0.00 0.00 42.25 3.01
1002 1045 1.675310 TGAGGCGGTTGCTGGAATG 60.675 57.895 0.00 0.00 42.25 2.67
1003 1046 2.361610 AGGCGGTTGCTGGAATGG 60.362 61.111 0.00 0.00 42.25 3.16
1004 1047 4.133796 GGCGGTTGCTGGAATGGC 62.134 66.667 0.00 0.00 42.25 4.40
1005 1048 4.133796 GCGGTTGCTGGAATGGCC 62.134 66.667 0.00 0.00 38.39 5.36
1006 1049 2.676121 CGGTTGCTGGAATGGCCA 60.676 61.111 8.56 8.56 46.96 5.36
1032 1075 1.911471 CCCTGCTCCTCCTTTCTCC 59.089 63.158 0.00 0.00 0.00 3.71
1052 1095 0.609131 ACCATTGAAGAGGGCAACGG 60.609 55.000 0.00 0.00 34.93 4.44
1142 1185 4.598894 CCATCGCCCTGCTCCTCG 62.599 72.222 0.00 0.00 0.00 4.63
1143 1186 3.842923 CATCGCCCTGCTCCTCGT 61.843 66.667 0.00 0.00 0.00 4.18
1147 1190 2.665603 GCCCTGCTCCTCGTTTCT 59.334 61.111 0.00 0.00 0.00 2.52
1148 1191 1.448717 GCCCTGCTCCTCGTTTCTC 60.449 63.158 0.00 0.00 0.00 2.87
1149 1192 1.219393 CCCTGCTCCTCGTTTCTCC 59.781 63.158 0.00 0.00 0.00 3.71
1153 1208 1.118965 TGCTCCTCGTTTCTCCACCA 61.119 55.000 0.00 0.00 0.00 4.17
1158 1213 2.370519 TCCTCGTTTCTCCACCATTGAA 59.629 45.455 0.00 0.00 0.00 2.69
1159 1214 2.744202 CCTCGTTTCTCCACCATTGAAG 59.256 50.000 0.00 0.00 0.00 3.02
1164 1219 0.620556 TCTCCACCATTGAAGAGGGC 59.379 55.000 0.00 0.00 30.38 5.19
1165 1220 0.329261 CTCCACCATTGAAGAGGGCA 59.671 55.000 0.00 0.00 30.38 5.36
1171 1226 1.683011 CCATTGAAGAGGGCAACGGAT 60.683 52.381 0.00 0.00 30.57 4.18
1173 1228 1.533625 TTGAAGAGGGCAACGGATTG 58.466 50.000 0.00 0.00 38.99 2.67
1182 1237 3.585428 AACGGATTGGCCCACCCA 61.585 61.111 0.00 0.00 43.51 4.51
1801 1856 2.358737 CGGTGAGGAGGTTGGTGC 60.359 66.667 0.00 0.00 0.00 5.01
1810 1865 3.351416 GGTTGGTGCCGTCGGAAC 61.351 66.667 17.49 15.99 0.00 3.62
1839 1894 0.033504 CCGCTACAACACACACCTCT 59.966 55.000 0.00 0.00 0.00 3.69
1867 1922 0.046242 ATCCACCCCATTGAGGAGGA 59.954 55.000 5.86 5.86 41.22 3.71
1878 1933 1.639722 TGAGGAGGACAACGGATTGA 58.360 50.000 0.00 0.00 39.30 2.57
2031 2087 2.334181 CCATGTGGCATGTGCGTCA 61.334 57.895 8.11 1.53 43.26 4.35
2174 2230 1.990060 CTTTCTCCGCCTCCCCTCA 60.990 63.158 0.00 0.00 0.00 3.86
2188 2244 2.856864 TCCCCTCAGACCTGTACTCATA 59.143 50.000 0.00 0.00 0.00 2.15
2189 2245 3.467483 TCCCCTCAGACCTGTACTCATAT 59.533 47.826 0.00 0.00 0.00 1.78
2340 2397 2.034999 TGTTCACCCCCATTCCGC 59.965 61.111 0.00 0.00 0.00 5.54
2361 2418 2.032620 CCCTAGTTGCCGACTACATCT 58.967 52.381 0.00 0.00 39.86 2.90
2387 2444 2.657237 CGCTTCTCCCTTGGACGT 59.343 61.111 0.00 0.00 0.00 4.34
2441 2499 2.370515 GGTCGCGTACTTATCGAAGAC 58.629 52.381 5.77 0.00 42.51 3.01
2720 2789 0.249398 ATGGTTGTCGTAGCACCCTC 59.751 55.000 0.00 0.00 0.00 4.30
3265 3479 4.215185 TGTTTTCTACATGATTGCTCGCAA 59.785 37.500 6.80 6.80 40.47 4.85
3266 3480 4.340894 TTTCTACATGATTGCTCGCAAC 57.659 40.909 6.46 2.38 38.88 4.17
3270 3484 1.265568 CATGATTGCTCGCAACTTGC 58.734 50.000 6.46 3.44 38.88 4.01
3271 3485 0.883153 ATGATTGCTCGCAACTTGCA 59.117 45.000 14.10 4.01 45.36 4.08
3272 3486 0.667453 TGATTGCTCGCAACTTGCAA 59.333 45.000 14.10 0.00 45.36 4.08
3472 3714 4.081406 TCATTTGTTCATGACCCCTTCTG 58.919 43.478 0.00 0.00 0.00 3.02
3577 3819 5.059833 ACTTCCATCGAATCTATGCTTTCC 58.940 41.667 0.00 0.00 0.00 3.13
3616 3858 1.004277 GTCACTTGCCAATGACCCCTA 59.996 52.381 8.09 0.00 39.49 3.53
3640 3964 7.966339 ACACCTGGTGACTAGTATATTTGTA 57.034 36.000 32.30 0.00 36.96 2.41
3684 4008 4.308526 TCTTGTCTCTTGAGCTCCTCTA 57.691 45.455 12.15 0.00 0.00 2.43
3691 4015 8.083828 TGTCTCTTGAGCTCCTCTATTTAAAT 57.916 34.615 12.15 5.89 0.00 1.40
3694 4018 8.762645 TCTCTTGAGCTCCTCTATTTAAATCAA 58.237 33.333 12.15 0.00 0.00 2.57
3697 4021 9.558396 CTTGAGCTCCTCTATTTAAATCAAGAT 57.442 33.333 12.15 2.60 42.19 2.40
3745 4069 8.518702 ACAGTTTGTTGTTTTGGCATAATTTTT 58.481 25.926 0.00 0.00 0.00 1.94
3758 4082 8.140677 TGGCATAATTTTTCACTTTGTTTCTG 57.859 30.769 0.00 0.00 0.00 3.02
3912 4236 3.950397 TGACTGCCTGGTTCGATATTTT 58.050 40.909 0.00 0.00 0.00 1.82
4075 4399 7.008332 TGTCAATCGGTAATTCCTAGGAGATA 58.992 38.462 12.26 6.54 0.00 1.98
4281 4605 1.593296 GAAGAAAGGGCTGCTGCAGG 61.593 60.000 29.05 12.50 41.91 4.85
4441 4765 8.078596 GTCAGATTTCAAGATGTTTTTACTGCT 58.921 33.333 0.00 0.00 0.00 4.24
4467 4791 0.036577 TGCTTGGCTGCTCTTCTCTC 60.037 55.000 0.00 0.00 0.00 3.20
4490 4814 4.035208 CGAGCCAAAAGAGTTTTGTGTAGT 59.965 41.667 10.41 0.00 46.53 2.73
4492 4816 3.796717 GCCAAAAGAGTTTTGTGTAGTGC 59.203 43.478 10.41 3.23 46.53 4.40
4511 4835 4.754114 AGTGCTGAGAGTTTTTGAGATGTC 59.246 41.667 0.00 0.00 0.00 3.06
4553 4877 4.893829 AGGAACTAGAACCCTGAAACTC 57.106 45.455 0.00 0.00 36.02 3.01
4557 4881 7.210055 AGGAACTAGAACCCTGAAACTCAGAT 61.210 42.308 5.22 0.00 42.22 2.90
4572 4896 3.504906 ACTCAGATTGTTGATGTTGGCTG 59.495 43.478 0.00 0.00 0.00 4.85
4683 5007 4.106197 TGGTTTCGTTTGCATGTTTGTAC 58.894 39.130 0.00 0.00 0.00 2.90
4726 5066 2.029918 GCTGAAACCAGGAATGTCAACC 60.030 50.000 0.00 0.00 32.40 3.77
4794 5134 7.899178 TCTGACTGAAAATTCGCAGTAATTA 57.101 32.000 11.73 0.00 44.77 1.40
4848 5191 2.029110 TGAATGCTTAAGTGCCAAAGCC 60.029 45.455 4.02 0.00 46.01 4.35
4857 5200 0.613012 GTGCCAAAGCCCAGAGGAAT 60.613 55.000 0.00 0.00 38.69 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.320771 GACCAACATCAGCCTCGTGT 60.321 55.000 0.00 0.00 0.00 4.49
42 43 2.741985 TGAATGCTGTCGGTGCCG 60.742 61.111 3.94 3.94 41.35 5.69
49 50 2.327343 TGGCGTGCTGAATGCTGTC 61.327 57.895 0.00 0.00 43.37 3.51
156 157 0.400213 TTTCACCATGAGGCCTTCGT 59.600 50.000 6.77 0.00 39.06 3.85
166 167 2.474266 CGCGACCGTTTCACCATG 59.526 61.111 0.00 0.00 0.00 3.66
230 271 3.721706 GTCCTGCCACCCCTCCTG 61.722 72.222 0.00 0.00 0.00 3.86
245 286 1.662438 CTCTGCTCTCCCGTCCTGTC 61.662 65.000 0.00 0.00 0.00 3.51
246 287 1.680651 CTCTGCTCTCCCGTCCTGT 60.681 63.158 0.00 0.00 0.00 4.00
247 288 2.422231 CCTCTGCTCTCCCGTCCTG 61.422 68.421 0.00 0.00 0.00 3.86
248 289 2.043450 CCTCTGCTCTCCCGTCCT 60.043 66.667 0.00 0.00 0.00 3.85
249 290 3.151022 CCCTCTGCTCTCCCGTCC 61.151 72.222 0.00 0.00 0.00 4.79
323 364 0.665835 CTGCTTCTAGATCTCGCCGT 59.334 55.000 0.00 0.00 0.00 5.68
327 368 4.092821 CCGTATCTCTGCTTCTAGATCTCG 59.907 50.000 0.00 0.00 34.36 4.04
355 396 3.665745 TTGGATTTTGGCTTCAAGCTC 57.334 42.857 9.83 0.00 41.99 4.09
384 425 8.807948 TTCTATACGTAGTTGTAGTTAGGGTT 57.192 34.615 0.08 0.00 37.78 4.11
414 455 4.162690 AGTTGCGCGAGGGATCCC 62.163 66.667 24.59 24.59 0.00 3.85
424 465 4.090057 GCCGGAGTTGAGTTGCGC 62.090 66.667 5.05 0.00 0.00 6.09
450 491 1.072159 GCCCTTCCCATCTCATCCG 59.928 63.158 0.00 0.00 0.00 4.18
474 515 1.453928 CCCCTCCCAAATTCCTCGC 60.454 63.158 0.00 0.00 0.00 5.03
520 561 7.484140 CCTATACTTTGGAAATTTCTGCTTCC 58.516 38.462 17.42 1.39 41.37 3.46
543 584 0.395173 ACACCCGAAACACAAAGCCT 60.395 50.000 0.00 0.00 0.00 4.58
556 597 4.202111 ACAAAATTTTGGAGAAGACACCCG 60.202 41.667 29.37 5.01 42.34 5.28
573 614 2.892852 CACCCCACACATCAGACAAAAT 59.107 45.455 0.00 0.00 0.00 1.82
577 618 0.843309 AACACCCCACACATCAGACA 59.157 50.000 0.00 0.00 0.00 3.41
578 619 1.880027 GAAACACCCCACACATCAGAC 59.120 52.381 0.00 0.00 0.00 3.51
579 620 1.774254 AGAAACACCCCACACATCAGA 59.226 47.619 0.00 0.00 0.00 3.27
581 622 1.979855 CAGAAACACCCCACACATCA 58.020 50.000 0.00 0.00 0.00 3.07
586 627 1.561643 TTTTGCAGAAACACCCCACA 58.438 45.000 0.00 0.00 0.00 4.17
623 664 1.419762 TGTAAGGCTGAAACTGAGGCA 59.580 47.619 0.00 0.00 38.46 4.75
660 701 6.455647 GTGTGTGTGCCTCTATGCTATATTA 58.544 40.000 0.00 0.00 0.00 0.98
666 707 0.036010 GGTGTGTGTGCCTCTATGCT 60.036 55.000 0.00 0.00 0.00 3.79
678 719 3.854414 GCAGTTTGTGATGATGGTGTGTG 60.854 47.826 0.00 0.00 0.00 3.82
693 734 8.506168 TCTACTCCTATAAAAATGGCAGTTTG 57.494 34.615 14.18 1.04 0.00 2.93
731 772 7.694388 AAACTTTTTCTTCCTTATTTCACGC 57.306 32.000 0.00 0.00 0.00 5.34
827 868 0.625849 GGAAGGCATGGGAAAGAGGA 59.374 55.000 0.00 0.00 0.00 3.71
833 876 0.323725 GAAGCAGGAAGGCATGGGAA 60.324 55.000 0.00 0.00 35.83 3.97
834 877 1.304282 GAAGCAGGAAGGCATGGGA 59.696 57.895 0.00 0.00 35.83 4.37
898 941 2.202810 GGAGAAAGGAGGAGCGCG 60.203 66.667 0.00 0.00 0.00 6.86
900 943 1.219393 GGTGGAGAAAGGAGGAGCG 59.781 63.158 0.00 0.00 0.00 5.03
901 944 0.915364 ATGGTGGAGAAAGGAGGAGC 59.085 55.000 0.00 0.00 0.00 4.70
902 945 2.573462 TCAATGGTGGAGAAAGGAGGAG 59.427 50.000 0.00 0.00 0.00 3.69
903 946 2.631384 TCAATGGTGGAGAAAGGAGGA 58.369 47.619 0.00 0.00 0.00 3.71
904 947 3.009473 TCTTCAATGGTGGAGAAAGGAGG 59.991 47.826 0.00 0.00 36.36 4.30
905 948 4.260170 CTCTTCAATGGTGGAGAAAGGAG 58.740 47.826 0.00 0.00 39.01 3.69
906 949 3.009473 CCTCTTCAATGGTGGAGAAAGGA 59.991 47.826 0.00 0.00 39.01 3.36
907 950 3.350833 CCTCTTCAATGGTGGAGAAAGG 58.649 50.000 0.00 0.00 39.01 3.11
908 951 3.350833 CCCTCTTCAATGGTGGAGAAAG 58.649 50.000 0.00 0.00 39.01 2.62
909 952 2.555227 GCCCTCTTCAATGGTGGAGAAA 60.555 50.000 0.00 0.00 39.01 2.52
910 953 1.004745 GCCCTCTTCAATGGTGGAGAA 59.995 52.381 0.00 0.00 39.01 2.87
911 954 0.620556 GCCCTCTTCAATGGTGGAGA 59.379 55.000 0.00 0.00 37.01 3.71
912 955 0.329261 TGCCCTCTTCAATGGTGGAG 59.671 55.000 0.00 0.00 0.00 3.86
913 956 0.329261 CTGCCCTCTTCAATGGTGGA 59.671 55.000 0.00 0.00 0.00 4.02
914 957 1.318158 GCTGCCCTCTTCAATGGTGG 61.318 60.000 0.00 0.00 0.00 4.61
915 958 0.609957 TGCTGCCCTCTTCAATGGTG 60.610 55.000 0.00 0.00 0.00 4.17
916 959 0.112995 TTGCTGCCCTCTTCAATGGT 59.887 50.000 0.00 0.00 0.00 3.55
917 960 1.259609 TTTGCTGCCCTCTTCAATGG 58.740 50.000 0.00 0.00 0.00 3.16
918 961 3.259064 CAATTTGCTGCCCTCTTCAATG 58.741 45.455 0.00 0.00 0.00 2.82
919 962 2.235402 CCAATTTGCTGCCCTCTTCAAT 59.765 45.455 0.00 0.00 0.00 2.57
920 963 1.619827 CCAATTTGCTGCCCTCTTCAA 59.380 47.619 0.00 0.00 0.00 2.69
921 964 1.259609 CCAATTTGCTGCCCTCTTCA 58.740 50.000 0.00 0.00 0.00 3.02
922 965 0.108472 GCCAATTTGCTGCCCTCTTC 60.108 55.000 0.00 0.00 0.00 2.87
923 966 1.547472 GGCCAATTTGCTGCCCTCTT 61.547 55.000 0.00 0.00 39.30 2.85
924 967 1.986210 GGCCAATTTGCTGCCCTCT 60.986 57.895 0.00 0.00 39.30 3.69
925 968 2.580815 GGCCAATTTGCTGCCCTC 59.419 61.111 0.00 0.00 39.30 4.30
928 971 1.153309 GATGGGCCAATTTGCTGCC 60.153 57.895 11.89 7.85 44.59 4.85
929 972 1.153309 GGATGGGCCAATTTGCTGC 60.153 57.895 11.89 0.00 36.34 5.25
930 973 2.288834 TGGATGGGCCAATTTGCTG 58.711 52.632 11.89 0.00 45.87 4.41
931 974 4.892461 TGGATGGGCCAATTTGCT 57.108 50.000 11.89 0.00 45.87 3.91
939 982 2.686816 CGTGTCGTTTGGATGGGCC 61.687 63.158 0.00 0.00 37.10 5.80
940 983 2.867472 CGTGTCGTTTGGATGGGC 59.133 61.111 0.00 0.00 0.00 5.36
941 984 2.686816 GGCGTGTCGTTTGGATGGG 61.687 63.158 0.00 0.00 0.00 4.00
942 985 2.686816 GGGCGTGTCGTTTGGATGG 61.687 63.158 0.00 0.00 0.00 3.51
943 986 2.686816 GGGGCGTGTCGTTTGGATG 61.687 63.158 0.00 0.00 0.00 3.51
944 987 2.359478 GGGGCGTGTCGTTTGGAT 60.359 61.111 0.00 0.00 0.00 3.41
945 988 3.524648 GAGGGGCGTGTCGTTTGGA 62.525 63.158 0.00 0.00 0.00 3.53
946 989 3.047877 GAGGGGCGTGTCGTTTGG 61.048 66.667 0.00 0.00 0.00 3.28
947 990 3.047877 GGAGGGGCGTGTCGTTTG 61.048 66.667 0.00 0.00 0.00 2.93
948 991 4.675029 CGGAGGGGCGTGTCGTTT 62.675 66.667 0.00 0.00 0.00 3.60
968 1011 4.227134 CACTCGGGCGGATCTGGG 62.227 72.222 3.14 0.00 0.00 4.45
969 1012 3.144120 CTCACTCGGGCGGATCTGG 62.144 68.421 3.14 0.00 0.00 3.86
970 1013 2.415010 CTCACTCGGGCGGATCTG 59.585 66.667 0.00 0.00 0.00 2.90
971 1014 2.835431 CCTCACTCGGGCGGATCT 60.835 66.667 0.00 0.00 0.00 2.75
972 1015 4.593864 GCCTCACTCGGGCGGATC 62.594 72.222 0.00 0.00 40.19 3.36
980 1023 3.114616 CAGCAACCGCCTCACTCG 61.115 66.667 0.00 0.00 39.83 4.18
981 1024 2.731691 TTCCAGCAACCGCCTCACTC 62.732 60.000 0.00 0.00 39.83 3.51
982 1025 2.129555 ATTCCAGCAACCGCCTCACT 62.130 55.000 0.00 0.00 39.83 3.41
983 1026 1.675641 ATTCCAGCAACCGCCTCAC 60.676 57.895 0.00 0.00 39.83 3.51
984 1027 1.675310 CATTCCAGCAACCGCCTCA 60.675 57.895 0.00 0.00 39.83 3.86
985 1028 2.409870 CCATTCCAGCAACCGCCTC 61.410 63.158 0.00 0.00 39.83 4.70
986 1029 2.361610 CCATTCCAGCAACCGCCT 60.362 61.111 0.00 0.00 39.83 5.52
987 1030 4.133796 GCCATTCCAGCAACCGCC 62.134 66.667 0.00 0.00 39.83 6.13
988 1031 4.133796 GGCCATTCCAGCAACCGC 62.134 66.667 0.00 0.00 38.99 5.68
989 1032 2.676121 TGGCCATTCCAGCAACCG 60.676 61.111 0.00 0.00 40.72 4.44
1007 1050 4.925861 GAGGAGCAGGGCGATGGC 62.926 72.222 0.00 0.00 38.90 4.40
1008 1051 4.247380 GGAGGAGCAGGGCGATGG 62.247 72.222 0.00 0.00 0.00 3.51
1009 1052 2.262774 AAAGGAGGAGCAGGGCGATG 62.263 60.000 0.00 0.00 0.00 3.84
1010 1053 1.977293 GAAAGGAGGAGCAGGGCGAT 61.977 60.000 0.00 0.00 0.00 4.58
1011 1054 2.607750 AAAGGAGGAGCAGGGCGA 60.608 61.111 0.00 0.00 0.00 5.54
1012 1055 2.124942 GAAAGGAGGAGCAGGGCG 60.125 66.667 0.00 0.00 0.00 6.13
1013 1056 1.223211 GAGAAAGGAGGAGCAGGGC 59.777 63.158 0.00 0.00 0.00 5.19
1014 1057 0.911525 TGGAGAAAGGAGGAGCAGGG 60.912 60.000 0.00 0.00 0.00 4.45
1015 1058 0.251634 GTGGAGAAAGGAGGAGCAGG 59.748 60.000 0.00 0.00 0.00 4.85
1016 1059 0.251634 GGTGGAGAAAGGAGGAGCAG 59.748 60.000 0.00 0.00 0.00 4.24
1032 1075 0.523072 CGTTGCCCTCTTCAATGGTG 59.477 55.000 0.00 0.00 0.00 4.17
1052 1095 3.451894 CGCTTGGGTGGGCCAATC 61.452 66.667 8.40 3.74 36.17 2.67
1081 1124 4.731853 TGGGCGGATCTGGGGACA 62.732 66.667 3.14 0.00 39.59 4.02
1133 1176 0.390472 GGTGGAGAAACGAGGAGCAG 60.390 60.000 0.00 0.00 0.00 4.24
1134 1177 1.118965 TGGTGGAGAAACGAGGAGCA 61.119 55.000 0.00 0.00 0.00 4.26
1135 1178 0.250513 ATGGTGGAGAAACGAGGAGC 59.749 55.000 0.00 0.00 0.00 4.70
1136 1179 2.028112 TCAATGGTGGAGAAACGAGGAG 60.028 50.000 0.00 0.00 0.00 3.69
1137 1180 1.974957 TCAATGGTGGAGAAACGAGGA 59.025 47.619 0.00 0.00 0.00 3.71
1138 1181 2.472695 TCAATGGTGGAGAAACGAGG 57.527 50.000 0.00 0.00 0.00 4.63
1139 1182 3.664107 TCTTCAATGGTGGAGAAACGAG 58.336 45.455 0.00 0.00 36.36 4.18
1140 1183 3.557054 CCTCTTCAATGGTGGAGAAACGA 60.557 47.826 0.00 0.00 39.01 3.85
1142 1185 3.084786 CCCTCTTCAATGGTGGAGAAAC 58.915 50.000 0.00 0.00 39.01 2.78
1143 1186 2.555227 GCCCTCTTCAATGGTGGAGAAA 60.555 50.000 0.00 0.00 39.01 2.52
1147 1190 0.776810 TTGCCCTCTTCAATGGTGGA 59.223 50.000 0.00 0.00 0.00 4.02
1148 1191 0.890683 GTTGCCCTCTTCAATGGTGG 59.109 55.000 0.00 0.00 0.00 4.61
1149 1192 0.523072 CGTTGCCCTCTTCAATGGTG 59.477 55.000 0.00 0.00 0.00 4.17
1153 1208 2.094675 CAATCCGTTGCCCTCTTCAAT 58.905 47.619 0.00 0.00 0.00 2.57
1158 1213 2.044946 GCCAATCCGTTGCCCTCT 60.045 61.111 0.00 0.00 33.90 3.69
1159 1214 3.140814 GGCCAATCCGTTGCCCTC 61.141 66.667 0.00 0.00 30.33 4.30
1164 1219 3.068064 GGGTGGGCCAATCCGTTG 61.068 66.667 8.40 0.00 36.17 4.10
1165 1220 2.664835 TTTGGGTGGGCCAATCCGTT 62.665 55.000 8.40 0.00 36.17 4.44
1768 1823 2.851102 CGGCCTGGATCTGGGGAT 60.851 66.667 0.00 0.00 34.45 3.85
1773 1828 2.503061 CTCACCGGCCTGGATCTG 59.497 66.667 18.74 8.15 42.00 2.90
1839 1894 3.333381 TCAATGGGGTGGATCTCAGAAAA 59.667 43.478 0.00 0.00 0.00 2.29
1867 1922 1.074248 GGGTGGGTCAATCCGTTGT 59.926 57.895 0.00 0.00 36.69 3.32
1898 1953 1.475403 GGTGGATCTGAGGACGAAGA 58.525 55.000 0.00 0.00 0.00 2.87
1925 1981 1.384191 GGCCATTCCACCAACCTCT 59.616 57.895 0.00 0.00 34.01 3.69
1962 2018 0.549902 TGGATCTGGGAAAGGAGGCA 60.550 55.000 0.00 0.00 0.00 4.75
2031 2087 1.692042 CAGCCTGGATCTGGGGACT 60.692 63.158 0.00 1.01 0.00 3.85
2174 2230 2.445905 TCGGGGATATGAGTACAGGTCT 59.554 50.000 0.00 0.00 0.00 3.85
2282 2339 1.299773 CTCGAAGATGCCGAGGAGC 60.300 63.158 0.00 0.00 46.85 4.70
2340 2397 1.068741 GATGTAGTCGGCAACTAGGGG 59.931 57.143 0.00 0.00 41.17 4.79
2387 2444 1.117150 GCACATAGGTAAGTCGGGGA 58.883 55.000 0.00 0.00 0.00 4.81
2441 2499 3.853355 ATGAGGTATTTCTGCTCCAGG 57.147 47.619 0.00 0.00 31.51 4.45
2720 2789 2.095263 CCAGTAAAGGACATTGCCAACG 60.095 50.000 0.00 0.00 0.00 4.10
3472 3714 6.255887 GTGCTATGACTGTAACAATCACCTAC 59.744 42.308 0.00 0.00 0.00 3.18
3548 3790 6.480320 AGCATAGATTCGATGGAAGTTGTAAC 59.520 38.462 8.57 0.00 35.19 2.50
3616 3858 6.869206 ACAAATATACTAGTCACCAGGTGT 57.131 37.500 19.65 3.57 34.79 4.16
3684 4008 9.927081 AGTGAGATTGGGTATCTTGATTTAAAT 57.073 29.630 0.00 0.00 43.75 1.40
3691 4015 6.126863 ACAAAGTGAGATTGGGTATCTTGA 57.873 37.500 0.00 0.00 43.75 3.02
3694 4018 6.784031 AGAAACAAAGTGAGATTGGGTATCT 58.216 36.000 0.00 0.00 46.41 1.98
3697 4021 6.833041 TGTAGAAACAAAGTGAGATTGGGTA 58.167 36.000 0.00 0.00 30.91 3.69
3745 4069 3.687212 TCGAAACTGCAGAAACAAAGTGA 59.313 39.130 23.35 2.54 0.00 3.41
3758 4082 4.410492 ACATGAGACAATTCGAAACTGC 57.590 40.909 0.00 0.05 0.00 4.40
3912 4236 5.278907 CCTGTTGAACCATTTCAGCACATTA 60.279 40.000 0.37 0.00 45.09 1.90
3990 4314 2.437413 GTGGGGGAGTTGAAAGATGTC 58.563 52.381 0.00 0.00 0.00 3.06
4281 4605 6.257849 TGATGTGACAAAGTGACAACTAACTC 59.742 38.462 0.00 0.00 32.93 3.01
4354 4678 4.760878 AGCTTAGCTAGACTAAAAGCCAC 58.239 43.478 4.30 0.00 39.75 5.01
4441 4765 3.225798 GCAGCCAAGCACAACCCA 61.226 61.111 0.00 0.00 0.00 4.51
4490 4814 3.742882 CGACATCTCAAAAACTCTCAGCA 59.257 43.478 0.00 0.00 0.00 4.41
4492 4816 5.914085 AACGACATCTCAAAAACTCTCAG 57.086 39.130 0.00 0.00 0.00 3.35
4511 4835 5.122239 TCCTTCAGCATCAGTCATTTAAACG 59.878 40.000 0.00 0.00 0.00 3.60
4553 4877 2.230508 AGCAGCCAACATCAACAATCTG 59.769 45.455 0.00 0.00 0.00 2.90
4557 4881 0.032403 GCAGCAGCCAACATCAACAA 59.968 50.000 0.00 0.00 33.58 2.83
4561 4885 0.325933 AGTAGCAGCAGCCAACATCA 59.674 50.000 0.00 0.00 43.56 3.07
4683 5007 6.305877 CAGCTATATTTAGTTAAGAGTCGGCG 59.694 42.308 0.00 0.00 0.00 6.46
4726 5066 6.847400 AGTATTATAGACAGTAGCAGCATCG 58.153 40.000 0.00 0.00 0.00 3.84
4759 5099 6.773976 ATTTTCAGTCAGAAACAGAACCAA 57.226 33.333 0.00 0.00 45.48 3.67
4761 5101 5.909610 CGAATTTTCAGTCAGAAACAGAACC 59.090 40.000 0.00 0.00 45.48 3.62
4794 5134 1.141254 CAGCTGAGAATCCAGGCAGAT 59.859 52.381 8.42 0.00 34.82 2.90
4828 5171 2.610433 GGCTTTGGCACTTAAGCATTC 58.390 47.619 20.47 3.73 44.27 2.67
4839 5182 0.114954 AATTCCTCTGGGCTTTGGCA 59.885 50.000 0.00 0.00 40.87 4.92
4848 5191 3.760151 TGCAAGAATGACAATTCCTCTGG 59.240 43.478 0.00 0.00 42.84 3.86
4857 5200 7.587629 CAGAGAAATAACTGCAAGAATGACAA 58.412 34.615 0.00 0.00 37.43 3.18


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

AutoCloner maintained by Alex Coulton.