Multiple sequence alignment - TraesCS2D01G120100

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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 TraesCS2D01G120100 chr2D 100.000 4325 0 0 1 4325 69501005 69505329 0.000000e+00 7987
1 TraesCS2D01G120100 chr2A 91.530 1523 77 25 886 2385 69322206 69323699 0.000000e+00 2050
2 TraesCS2D01G120100 chr2A 90.798 1228 82 20 2381 3582 69323792 69325014 0.000000e+00 1613
3 TraesCS2D01G120100 chr2A 94.598 833 30 7 3505 4325 69325005 69325834 0.000000e+00 1275
4 TraesCS2D01G120100 chr2A 80.682 352 31 21 164 514 69321447 69321762 5.590000e-59 239
5 TraesCS2D01G120100 chr2A 86.598 97 8 4 31 123 69319235 69319330 7.650000e-18 102
6 TraesCS2D01G120100 chr2B 92.773 1356 53 10 1059 2385 105906231 105907570 0.000000e+00 1919
7 TraesCS2D01G120100 chr2B 92.491 1345 70 10 2992 4325 105908330 105909654 0.000000e+00 1895
8 TraesCS2D01G120100 chr2B 90.446 628 32 11 2381 2982 105907658 105908283 0.000000e+00 802
9 TraesCS2D01G120100 chr2B 90.702 527 25 10 1 513 105904957 105905473 0.000000e+00 680
10 TraesCS2D01G120100 chr4B 84.267 928 77 27 999 1899 527925996 527925111 0.000000e+00 841
11 TraesCS2D01G120100 chr5A 81.519 1093 110 29 842 1887 274973192 274974239 0.000000e+00 815
12 TraesCS2D01G120100 chr5A 90.769 195 18 0 2381 2575 423175591 423175397 1.190000e-65 261
13 TraesCS2D01G120100 chr7B 80.291 1101 120 40 848 1899 257238908 257237856 0.000000e+00 741
14 TraesCS2D01G120100 chr5B 90.000 200 19 1 2377 2575 377535836 377535637 1.540000e-64 257
15 TraesCS2D01G120100 chr5B 80.392 204 37 3 2374 2575 694256833 694256631 7.490000e-33 152
16 TraesCS2D01G120100 chr5B 71.375 531 147 5 1664 2192 377536777 377536250 2.710000e-27 134
17 TraesCS2D01G120100 chr5D 89.231 195 21 0 2381 2575 325086146 325085952 1.200000e-60 244
18 TraesCS2D01G120100 chr5D 72.016 511 138 5 1664 2172 325087084 325086577 3.490000e-31 147


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 TraesCS2D01G120100 chr2D 69501005 69505329 4324 False 7987.0 7987 100.0000 1 4325 1 chr2D.!!$F1 4324
1 TraesCS2D01G120100 chr2A 69319235 69325834 6599 False 1055.8 2050 88.8412 31 4325 5 chr2A.!!$F1 4294
2 TraesCS2D01G120100 chr2B 105904957 105909654 4697 False 1324.0 1919 91.6030 1 4325 4 chr2B.!!$F1 4324
3 TraesCS2D01G120100 chr4B 527925111 527925996 885 True 841.0 841 84.2670 999 1899 1 chr4B.!!$R1 900
4 TraesCS2D01G120100 chr5A 274973192 274974239 1047 False 815.0 815 81.5190 842 1887 1 chr5A.!!$F1 1045
5 TraesCS2D01G120100 chr7B 257237856 257238908 1052 True 741.0 741 80.2910 848 1899 1 chr7B.!!$R1 1051

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
651 2844 0.029300 ATTCGCGGATTTGCAATCGG 59.971 50.0 6.13 6.08 34.15 4.18 F
1001 3460 0.241749 CCAACATTCGCAGTGCACAT 59.758 50.0 21.04 2.81 0.00 3.21 F
1598 4078 0.179137 CAGCTCCAGTACGCGATCAA 60.179 55.0 15.93 0.00 0.00 2.57 F
2818 5452 0.036765 TTCGCCTTCAAGTACGGCAT 60.037 50.0 9.07 0.00 43.95 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1593 4073 0.468029 ATGGCGGATGGGGTTTGATC 60.468 55.000 0.00 0.0 0.0 2.92 R
2599 5214 1.200020 GCAATGGAGTGAAGGAAACGG 59.800 52.381 0.00 0.0 0.0 4.44 R
3192 5871 0.889306 CTTCCCGGAGAACGAAGTCT 59.111 55.000 0.73 0.0 45.0 3.24 R
4232 6998 0.825425 TTTTCCCGCTTGCCATGTCA 60.825 50.000 0.00 0.0 0.0 3.58 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
30 31 7.493320 AGTGACTTCTATCGTGTTGTGTTAAAA 59.507 33.333 0.00 0.00 0.00 1.52
32 33 9.478768 TGACTTCTATCGTGTTGTGTTAAAATA 57.521 29.630 0.00 0.00 0.00 1.40
142 2237 4.303282 GCGGGTTACATGTGTGAAAATTT 58.697 39.130 9.11 0.00 0.00 1.82
153 2248 9.814899 ACATGTGTGAAAATTTAAAGTCAATCA 57.185 25.926 0.00 0.00 0.00 2.57
196 2291 1.924320 CTCGAACCGACTCGCCTTCT 61.924 60.000 0.00 0.00 38.73 2.85
297 2397 1.602237 GGCTCATTCGTCTTCCCCA 59.398 57.895 0.00 0.00 0.00 4.96
343 2443 3.471244 GATCCGCCGTCCACTCTCG 62.471 68.421 0.00 0.00 0.00 4.04
360 2460 2.750637 GTCTCCGGGCAGACTCGA 60.751 66.667 14.50 0.00 39.91 4.04
439 2539 2.332362 CTACGTACGTGCCGGATGCT 62.332 60.000 30.25 1.85 42.00 3.79
501 2608 2.689553 TGCTTCCTTGCATGATCGTA 57.310 45.000 0.00 0.00 38.12 3.43
513 2625 1.939974 TGATCGTAATGCACAGGAGC 58.060 50.000 0.00 0.00 0.00 4.70
514 2626 0.855349 GATCGTAATGCACAGGAGCG 59.145 55.000 0.00 0.00 37.31 5.03
530 2701 1.451927 GCGGAATCATGGCTGGTCA 60.452 57.895 0.00 0.00 0.00 4.02
552 2736 2.180769 CGCAACTGATCGGACGGA 59.819 61.111 9.00 0.00 0.00 4.69
554 2738 2.158959 GCAACTGATCGGACGGACG 61.159 63.158 9.00 0.00 0.00 4.79
563 2747 2.762234 CGGACGGACGGAGAGAAGG 61.762 68.421 0.00 0.00 0.00 3.46
600 2792 5.482163 AGAAGAAGAAGAAGAAGACTGGG 57.518 43.478 0.00 0.00 0.00 4.45
624 2817 1.144936 GAGAAGGGATCAGGGCACG 59.855 63.158 0.00 0.00 0.00 5.34
634 2827 4.039092 AGGGCACGGCAGCAGATT 62.039 61.111 0.00 0.00 35.83 2.40
638 2831 4.214383 CACGGCAGCAGATTCGCG 62.214 66.667 0.00 0.00 36.85 5.87
651 2844 0.029300 ATTCGCGGATTTGCAATCGG 59.971 50.000 6.13 6.08 34.15 4.18
678 2871 5.883503 AACGAAATTCCACCGCTAATTAA 57.116 34.783 0.00 0.00 0.00 1.40
679 2872 6.445357 AACGAAATTCCACCGCTAATTAAT 57.555 33.333 0.00 0.00 0.00 1.40
681 2874 7.556733 ACGAAATTCCACCGCTAATTAATAA 57.443 32.000 0.00 0.00 0.00 1.40
683 2876 6.854381 CGAAATTCCACCGCTAATTAATAACC 59.146 38.462 0.00 0.00 0.00 2.85
684 2877 7.255001 CGAAATTCCACCGCTAATTAATAACCT 60.255 37.037 0.00 0.00 0.00 3.50
686 2879 8.983702 AATTCCACCGCTAATTAATAACCTAA 57.016 30.769 0.00 0.00 0.00 2.69
687 2880 7.790823 TTCCACCGCTAATTAATAACCTAAC 57.209 36.000 0.00 0.00 0.00 2.34
688 2881 6.290605 TCCACCGCTAATTAATAACCTAACC 58.709 40.000 0.00 0.00 0.00 2.85
689 2882 6.056884 CCACCGCTAATTAATAACCTAACCA 58.943 40.000 0.00 0.00 0.00 3.67
690 2883 6.543100 CCACCGCTAATTAATAACCTAACCAA 59.457 38.462 0.00 0.00 0.00 3.67
715 2908 4.635699 AAGAATCTGTTTAACTCCCGGT 57.364 40.909 0.00 0.00 0.00 5.28
716 2909 3.939066 AGAATCTGTTTAACTCCCGGTG 58.061 45.455 0.00 0.00 0.00 4.94
717 2910 2.109425 ATCTGTTTAACTCCCGGTGC 57.891 50.000 0.00 0.00 0.00 5.01
718 2911 0.759959 TCTGTTTAACTCCCGGTGCA 59.240 50.000 0.00 0.00 0.00 4.57
719 2912 1.349688 TCTGTTTAACTCCCGGTGCAT 59.650 47.619 0.00 0.00 0.00 3.96
720 2913 1.468520 CTGTTTAACTCCCGGTGCATG 59.531 52.381 0.00 0.00 0.00 4.06
721 2914 1.072489 TGTTTAACTCCCGGTGCATGA 59.928 47.619 0.00 0.00 0.00 3.07
722 2915 2.290641 TGTTTAACTCCCGGTGCATGAT 60.291 45.455 0.00 0.00 0.00 2.45
723 2916 2.036958 TTAACTCCCGGTGCATGATG 57.963 50.000 0.00 0.00 0.00 3.07
724 2917 0.908910 TAACTCCCGGTGCATGATGT 59.091 50.000 0.00 0.00 0.00 3.06
725 2918 0.908910 AACTCCCGGTGCATGATGTA 59.091 50.000 0.00 0.00 0.00 2.29
726 2919 1.131638 ACTCCCGGTGCATGATGTAT 58.868 50.000 0.00 0.00 0.00 2.29
727 2920 1.490490 ACTCCCGGTGCATGATGTATT 59.510 47.619 0.00 0.00 0.00 1.89
728 2921 2.703536 ACTCCCGGTGCATGATGTATTA 59.296 45.455 0.00 0.00 0.00 0.98
729 2922 3.327757 ACTCCCGGTGCATGATGTATTAT 59.672 43.478 0.00 0.00 0.00 1.28
730 2923 3.935203 CTCCCGGTGCATGATGTATTATC 59.065 47.826 0.00 0.00 0.00 1.75
745 2942 5.575157 TGTATTATCCAGGGTTTGCTTTGA 58.425 37.500 0.00 0.00 0.00 2.69
748 2945 1.923356 TCCAGGGTTTGCTTTGATCC 58.077 50.000 0.00 0.00 0.00 3.36
753 2950 2.043526 AGGGTTTGCTTTGATCCAGGAT 59.956 45.455 0.00 0.00 0.00 3.24
795 3241 0.737219 CAATTCCTGCTGCTAGTGCC 59.263 55.000 0.00 0.00 38.71 5.01
796 3242 0.329261 AATTCCTGCTGCTAGTGCCA 59.671 50.000 0.00 0.00 38.71 4.92
798 3244 1.194121 TTCCTGCTGCTAGTGCCAGA 61.194 55.000 0.00 2.44 38.71 3.86
799 3245 0.979709 TCCTGCTGCTAGTGCCAGAT 60.980 55.000 0.00 0.00 38.71 2.90
802 3248 0.325933 TGCTGCTAGTGCCAGATTGT 59.674 50.000 0.00 0.00 38.71 2.71
803 3249 1.554617 TGCTGCTAGTGCCAGATTGTA 59.445 47.619 0.00 0.00 38.71 2.41
804 3250 2.027285 TGCTGCTAGTGCCAGATTGTAA 60.027 45.455 0.00 0.00 38.71 2.41
805 3251 2.611292 GCTGCTAGTGCCAGATTGTAAG 59.389 50.000 0.51 0.00 38.71 2.34
807 3253 4.256920 CTGCTAGTGCCAGATTGTAAGTT 58.743 43.478 0.00 0.00 38.71 2.66
808 3254 4.002982 TGCTAGTGCCAGATTGTAAGTTG 58.997 43.478 0.00 0.00 38.71 3.16
809 3255 4.003648 GCTAGTGCCAGATTGTAAGTTGT 58.996 43.478 0.00 0.00 0.00 3.32
810 3256 4.142816 GCTAGTGCCAGATTGTAAGTTGTG 60.143 45.833 0.00 0.00 0.00 3.33
811 3257 3.149196 AGTGCCAGATTGTAAGTTGTGG 58.851 45.455 0.00 0.00 0.00 4.17
812 3258 2.636768 GCCAGATTGTAAGTTGTGGC 57.363 50.000 0.00 0.00 43.43 5.01
813 3259 2.162681 GCCAGATTGTAAGTTGTGGCT 58.837 47.619 3.89 0.00 45.78 4.75
814 3260 3.343617 GCCAGATTGTAAGTTGTGGCTA 58.656 45.455 3.89 0.00 45.78 3.93
815 3261 3.127030 GCCAGATTGTAAGTTGTGGCTAC 59.873 47.826 3.89 0.00 45.78 3.58
816 3262 4.323417 CCAGATTGTAAGTTGTGGCTACA 58.677 43.478 0.00 0.00 34.31 2.74
817 3263 4.943705 CCAGATTGTAAGTTGTGGCTACAT 59.056 41.667 2.83 0.00 36.53 2.29
818 3264 5.415701 CCAGATTGTAAGTTGTGGCTACATT 59.584 40.000 2.83 0.00 36.53 2.71
819 3265 6.317088 CAGATTGTAAGTTGTGGCTACATTG 58.683 40.000 2.83 0.00 36.53 2.82
820 3266 6.003950 AGATTGTAAGTTGTGGCTACATTGT 58.996 36.000 2.83 0.00 36.53 2.71
821 3267 7.119116 CAGATTGTAAGTTGTGGCTACATTGTA 59.881 37.037 2.83 0.00 36.53 2.41
822 3268 6.795098 TTGTAAGTTGTGGCTACATTGTAG 57.205 37.500 17.76 17.76 36.53 2.74
823 3269 5.860611 TGTAAGTTGTGGCTACATTGTAGT 58.139 37.500 21.70 5.40 36.53 2.73
824 3270 5.929992 TGTAAGTTGTGGCTACATTGTAGTC 59.070 40.000 19.29 19.29 36.53 2.59
825 3271 3.939066 AGTTGTGGCTACATTGTAGTCC 58.061 45.455 22.27 21.56 36.53 3.85
826 3272 3.326588 AGTTGTGGCTACATTGTAGTCCA 59.673 43.478 24.14 24.14 36.53 4.02
827 3273 4.019321 AGTTGTGGCTACATTGTAGTCCAT 60.019 41.667 27.56 17.02 36.53 3.41
828 3274 3.872696 TGTGGCTACATTGTAGTCCATG 58.127 45.455 27.56 8.12 0.00 3.66
829 3275 2.614057 GTGGCTACATTGTAGTCCATGC 59.386 50.000 27.56 18.65 0.00 4.06
830 3276 2.222027 GGCTACATTGTAGTCCATGCC 58.778 52.381 21.70 14.17 0.00 4.40
831 3277 2.421388 GGCTACATTGTAGTCCATGCCA 60.421 50.000 21.70 0.00 37.91 4.92
832 3278 2.614057 GCTACATTGTAGTCCATGCCAC 59.386 50.000 21.70 2.07 0.00 5.01
833 3279 3.682718 GCTACATTGTAGTCCATGCCACT 60.683 47.826 21.70 1.57 0.00 4.00
834 3280 2.715046 ACATTGTAGTCCATGCCACTG 58.285 47.619 5.93 0.00 0.00 3.66
835 3281 1.402968 CATTGTAGTCCATGCCACTGC 59.597 52.381 5.93 5.30 38.26 4.40
836 3282 0.692476 TTGTAGTCCATGCCACTGCT 59.308 50.000 10.90 0.00 38.71 4.24
837 3283 1.567357 TGTAGTCCATGCCACTGCTA 58.433 50.000 10.90 0.00 38.71 3.49
838 3284 1.905894 TGTAGTCCATGCCACTGCTAA 59.094 47.619 10.90 0.00 38.71 3.09
839 3285 2.280628 GTAGTCCATGCCACTGCTAAC 58.719 52.381 5.93 0.00 38.71 2.34
840 3286 0.692476 AGTCCATGCCACTGCTAACA 59.308 50.000 0.00 0.00 38.71 2.41
843 3289 2.614057 GTCCATGCCACTGCTAACATAC 59.386 50.000 0.00 0.00 38.71 2.39
846 3292 2.401583 TGCCACTGCTAACATACTGG 57.598 50.000 0.00 0.00 38.71 4.00
882 3328 5.576563 TGGAACGGGGTCATAATAATGAT 57.423 39.130 0.00 0.00 43.87 2.45
890 3336 5.416952 GGGGTCATAATAATGATCAGGCTTG 59.583 44.000 0.09 0.00 43.91 4.01
940 3386 4.413495 TGCAGCTCCGTTTAATTACAAC 57.587 40.909 0.00 0.00 0.00 3.32
941 3387 3.120477 TGCAGCTCCGTTTAATTACAACG 60.120 43.478 18.11 18.11 45.35 4.10
942 3388 3.413558 CAGCTCCGTTTAATTACAACGC 58.586 45.455 18.97 11.00 44.59 4.84
943 3389 2.093152 AGCTCCGTTTAATTACAACGCG 59.907 45.455 18.97 3.53 44.59 6.01
944 3390 2.159801 GCTCCGTTTAATTACAACGCGT 60.160 45.455 5.58 5.58 44.59 6.01
946 3392 3.316283 TCCGTTTAATTACAACGCGTCT 58.684 40.909 14.44 2.87 44.59 4.18
949 3395 4.448005 CGTTTAATTACAACGCGTCTGTT 58.552 39.130 24.58 13.79 40.49 3.16
954 3407 2.093972 TACAACGCGTCTGTTTTTGC 57.906 45.000 24.58 0.00 0.00 3.68
962 3415 2.053627 CGTCTGTTTTTGCTTGCATCC 58.946 47.619 0.00 0.00 0.00 3.51
986 3445 4.915704 TCGAAACAACAATCTTCACCAAC 58.084 39.130 0.00 0.00 0.00 3.77
997 3456 0.310543 TTCACCAACATTCGCAGTGC 59.689 50.000 4.58 4.58 0.00 4.40
998 3457 0.817229 TCACCAACATTCGCAGTGCA 60.817 50.000 16.83 0.00 0.00 4.57
999 3458 0.661187 CACCAACATTCGCAGTGCAC 60.661 55.000 16.83 9.40 0.00 4.57
1000 3459 1.100463 ACCAACATTCGCAGTGCACA 61.100 50.000 21.04 0.00 0.00 4.57
1001 3460 0.241749 CCAACATTCGCAGTGCACAT 59.758 50.000 21.04 2.81 0.00 3.21
1002 3461 1.333115 CAACATTCGCAGTGCACATG 58.667 50.000 21.04 17.49 0.00 3.21
1032 3491 4.892345 TCAACATCACACTCCCAAAATCAA 59.108 37.500 0.00 0.00 0.00 2.57
1036 3495 5.539574 ACATCACACTCCCAAAATCAATCAA 59.460 36.000 0.00 0.00 0.00 2.57
1037 3496 6.211986 ACATCACACTCCCAAAATCAATCAAT 59.788 34.615 0.00 0.00 0.00 2.57
1038 3497 6.271488 TCACACTCCCAAAATCAATCAATC 57.729 37.500 0.00 0.00 0.00 2.67
1039 3498 5.774184 TCACACTCCCAAAATCAATCAATCA 59.226 36.000 0.00 0.00 0.00 2.57
1052 3513 5.818887 TCAATCAATCAGAGTTCCATCCAA 58.181 37.500 0.00 0.00 0.00 3.53
1053 3514 6.429151 TCAATCAATCAGAGTTCCATCCAAT 58.571 36.000 0.00 0.00 0.00 3.16
1055 3516 4.785301 TCAATCAGAGTTCCATCCAATCC 58.215 43.478 0.00 0.00 0.00 3.01
1056 3517 4.227982 TCAATCAGAGTTCCATCCAATCCA 59.772 41.667 0.00 0.00 0.00 3.41
1057 3518 4.868172 ATCAGAGTTCCATCCAATCCAA 57.132 40.909 0.00 0.00 0.00 3.53
1058 3519 3.955471 TCAGAGTTCCATCCAATCCAAC 58.045 45.455 0.00 0.00 0.00 3.77
1060 3521 3.693085 CAGAGTTCCATCCAATCCAACAG 59.307 47.826 0.00 0.00 0.00 3.16
1061 3522 3.588842 AGAGTTCCATCCAATCCAACAGA 59.411 43.478 0.00 0.00 0.00 3.41
1062 3523 3.690460 AGTTCCATCCAATCCAACAGAC 58.310 45.455 0.00 0.00 0.00 3.51
1063 3524 3.331889 AGTTCCATCCAATCCAACAGACT 59.668 43.478 0.00 0.00 0.00 3.24
1066 3527 1.747355 CATCCAATCCAACAGACTGGC 59.253 52.381 7.51 0.00 36.32 4.85
1069 3530 2.173519 CCAATCCAACAGACTGGCAAT 58.826 47.619 7.51 0.00 36.32 3.56
1072 3533 2.093306 TCCAACAGACTGGCAATACG 57.907 50.000 7.51 0.00 36.32 3.06
1086 3547 4.576053 TGGCAATACGATTTCAAGATGAGG 59.424 41.667 0.00 0.00 0.00 3.86
1090 3551 2.544685 ACGATTTCAAGATGAGGAGCG 58.455 47.619 0.00 0.00 32.29 5.03
1091 3552 1.863454 CGATTTCAAGATGAGGAGCGG 59.137 52.381 0.00 0.00 0.00 5.52
1120 3587 1.961277 CTTCTTCTTGCCGTGGCGT 60.961 57.895 6.37 0.00 45.51 5.68
1122 3589 0.249953 TTCTTCTTGCCGTGGCGTTA 60.250 50.000 6.37 0.00 45.51 3.18
1191 3667 2.249309 TCTCCTCCTCTAAACCCACC 57.751 55.000 0.00 0.00 0.00 4.61
1593 4073 2.507102 CACCAGCTCCAGTACGCG 60.507 66.667 3.53 3.53 0.00 6.01
1598 4078 0.179137 CAGCTCCAGTACGCGATCAA 60.179 55.000 15.93 0.00 0.00 2.57
1600 4080 0.645868 GCTCCAGTACGCGATCAAAC 59.354 55.000 15.93 2.45 0.00 2.93
1603 4083 1.087771 CCAGTACGCGATCAAACCCC 61.088 60.000 15.93 0.00 0.00 4.95
1969 4477 3.474570 GGGCAGGAGGAGATGCGT 61.475 66.667 0.00 0.00 43.49 5.24
1971 4479 2.894387 GCAGGAGGAGATGCGTGC 60.894 66.667 0.00 0.00 38.49 5.34
2034 4542 4.925861 GCTGGGCGAGGAGATGGC 62.926 72.222 0.00 0.00 0.00 4.40
2171 4679 0.241213 CAAGTCGCTCGAGAACCAGA 59.759 55.000 18.75 3.77 0.00 3.86
2175 4683 2.185608 GCTCGAGAACCAGAGGGC 59.814 66.667 18.75 0.00 37.90 5.19
2185 4693 4.399395 CAGAGGGCGCTGCTGGAA 62.399 66.667 8.56 0.00 0.00 3.53
2474 5082 3.649277 CTGGTGGAGTCCCGCTTCG 62.649 68.421 6.74 0.00 42.54 3.79
2495 5103 3.056465 CGTCAAGGCCTTCTTCTTCTACT 60.056 47.826 17.29 0.00 32.41 2.57
2599 5214 3.510388 TCTTCACACTCATCCGATCAC 57.490 47.619 0.00 0.00 0.00 3.06
2610 5225 0.970640 TCCGATCACCGTTTCCTTCA 59.029 50.000 0.00 0.00 36.31 3.02
2655 5289 0.518636 CATCAAACCAGGTCTGTGCG 59.481 55.000 0.00 0.00 0.00 5.34
2659 5293 0.108585 AAACCAGGTCTGTGCGTCAT 59.891 50.000 0.00 0.00 0.00 3.06
2666 5300 1.444383 TCTGTGCGTCATGCTCGTC 60.444 57.895 10.67 5.34 46.63 4.20
2716 5350 2.640989 CGACGACGACCTCACCAA 59.359 61.111 0.00 0.00 42.66 3.67
2738 5372 1.219522 CGTTCTGGGTCGTGTCCAAC 61.220 60.000 0.00 0.00 33.36 3.77
2818 5452 0.036765 TTCGCCTTCAAGTACGGCAT 60.037 50.000 9.07 0.00 43.95 4.40
2875 5512 2.231478 ACAGTACGTTGGTCTCATCTGG 59.769 50.000 0.00 0.00 0.00 3.86
2879 5516 2.767505 ACGTTGGTCTCATCTGGTTTC 58.232 47.619 0.00 0.00 0.00 2.78
2906 5543 2.526304 TATGCTGCAGGGATTACGAC 57.474 50.000 17.12 0.00 0.00 4.34
2918 5555 1.389106 GATTACGACGTGCTGAACCAC 59.611 52.381 11.56 0.00 0.00 4.16
3105 5784 0.323725 ACAAGATGTGTCCATGGGGC 60.324 55.000 13.02 6.08 34.38 5.80
3192 5871 1.445410 CGACAGCGAAATCGACCCA 60.445 57.895 7.06 0.00 40.86 4.51
3201 5880 2.685100 GAAATCGACCCAGACTTCGTT 58.315 47.619 0.00 0.00 36.60 3.85
3226 5905 1.476471 GGGAAGATGACATCTGCAGGG 60.476 57.143 22.56 9.34 40.13 4.45
3230 5909 1.126488 GATGACATCTGCAGGGAGGA 58.874 55.000 15.13 0.00 0.00 3.71
3261 5940 1.400494 CGGGAAGAAATCGGCGAAAAT 59.600 47.619 15.93 2.30 0.00 1.82
3270 5949 1.346365 TCGGCGAAAATTCACTCTCG 58.654 50.000 7.35 0.00 0.00 4.04
3273 5952 0.796312 GCGAAAATTCACTCTCGGCA 59.204 50.000 0.00 0.00 0.00 5.69
3277 5956 1.009829 AAATTCACTCTCGGCATCGC 58.990 50.000 0.00 0.00 36.13 4.58
3314 5993 0.393808 AACCTTCGGGCACGCATTAT 60.394 50.000 1.67 0.00 40.69 1.28
3413 6092 4.553323 CATTTTGCTGAAGAACTGAAGGG 58.447 43.478 0.00 0.00 0.00 3.95
3425 6104 1.761784 ACTGAAGGGCAATGCAACAAA 59.238 42.857 7.79 0.00 0.00 2.83
3426 6105 2.170187 ACTGAAGGGCAATGCAACAAAA 59.830 40.909 7.79 0.00 0.00 2.44
3427 6106 3.204526 CTGAAGGGCAATGCAACAAAAA 58.795 40.909 7.79 0.00 0.00 1.94
3485 6167 7.732025 TCTACAACTTGTGAAGTCATAAAGGA 58.268 34.615 4.57 0.00 41.91 3.36
3523 6206 8.243961 TGGACCAAACATCAGATTTAAGAAAA 57.756 30.769 0.00 0.00 0.00 2.29
3604 6359 7.146648 ACTGCAGTAAGAGTTAACAGTAAGTC 58.853 38.462 20.16 0.00 39.19 3.01
3605 6360 7.046292 TGCAGTAAGAGTTAACAGTAAGTCA 57.954 36.000 8.61 0.00 40.72 3.41
3610 6365 8.693625 AGTAAGAGTTAACAGTAAGTCACAGTT 58.306 33.333 8.61 0.00 40.72 3.16
3628 6383 2.571653 AGTTGCATGCCAAGTAGACCTA 59.428 45.455 16.68 0.00 35.35 3.08
3679 6434 9.645059 GAATCTAACATGACATATAGCTGCTTA 57.355 33.333 7.79 0.56 0.00 3.09
3949 6714 0.511653 GTTGTTTCGAAGAGCGTCCC 59.488 55.000 0.00 0.00 41.80 4.46
4060 6825 0.518636 TACTGAACGAAGACGGGTCG 59.481 55.000 0.00 3.50 44.46 4.79
4232 6998 2.095567 CAGATTAGCGTTTGCAACAGCT 60.096 45.455 25.09 25.09 46.23 4.24
4247 7013 3.818787 GCTGACATGGCAAGCGGG 61.819 66.667 1.11 0.00 0.00 6.13
4270 7036 4.877378 AAAAAGGCTCATGCAGAAATGA 57.123 36.364 0.00 0.00 41.91 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 7.773864 TTTTAACACAACACGATAGAAGTCA 57.226 32.000 0.00 0.00 41.38 3.41
160 2255 5.231357 GGTTCGAGCGATTTTTGTTCTTTTT 59.769 36.000 0.00 0.00 0.00 1.94
165 2260 2.096614 TCGGTTCGAGCGATTTTTGTTC 60.097 45.455 5.31 0.00 43.66 3.18
196 2291 1.959226 GTTCGCGCCAAGACAGGAA 60.959 57.895 0.00 0.00 0.00 3.36
290 2390 1.065126 AGAAGAAAGGCGATGGGGAAG 60.065 52.381 0.00 0.00 0.00 3.46
297 2397 0.107459 GCAGGGAGAAGAAAGGCGAT 60.107 55.000 0.00 0.00 0.00 4.58
343 2443 2.750637 TCGAGTCTGCCCGGAGAC 60.751 66.667 14.05 14.05 42.45 3.36
439 2539 3.547054 ACGGAACAGAAACCAGTTACA 57.453 42.857 0.00 0.00 0.00 2.41
501 2608 0.035152 TGATTCCGCTCCTGTGCATT 60.035 50.000 0.00 0.00 0.00 3.56
507 2614 1.147824 AGCCATGATTCCGCTCCTG 59.852 57.895 0.00 0.00 0.00 3.86
513 2625 1.097547 GGTGACCAGCCATGATTCCG 61.098 60.000 0.00 0.00 0.00 4.30
514 2626 1.097547 CGGTGACCAGCCATGATTCC 61.098 60.000 1.11 0.00 0.00 3.01
538 2709 1.654954 CTCCGTCCGTCCGATCAGTT 61.655 60.000 0.00 0.00 0.00 3.16
552 2736 3.069318 GGCGGTCCTTCTCTCCGT 61.069 66.667 0.00 0.00 45.11 4.69
554 2738 3.839432 CCGGCGGTCCTTCTCTCC 61.839 72.222 19.97 0.00 0.00 3.71
563 2747 0.458716 CTTCTTCTTCTCCGGCGGTC 60.459 60.000 27.32 0.00 0.00 4.79
600 2792 1.704007 CCTGATCCCTTCTCCCAGGC 61.704 65.000 0.00 0.00 38.07 4.85
624 2817 1.718757 AAATCCGCGAATCTGCTGCC 61.719 55.000 8.23 0.00 0.00 4.85
634 2827 1.701545 GACCGATTGCAAATCCGCGA 61.702 55.000 8.23 0.00 33.35 5.87
638 2831 2.661195 CGTTTTGACCGATTGCAAATCC 59.339 45.455 1.71 0.00 34.36 3.01
651 2844 2.048498 GCGGTGGAATTTCGTTTTGAC 58.952 47.619 0.00 0.00 0.00 3.18
710 2903 3.009723 GGATAATACATCATGCACCGGG 58.990 50.000 6.32 0.00 0.00 5.73
712 2905 3.686241 CCTGGATAATACATCATGCACCG 59.314 47.826 0.00 0.00 0.00 4.94
715 2908 4.999469 ACCCTGGATAATACATCATGCA 57.001 40.909 0.00 0.00 0.00 3.96
716 2909 5.565439 GCAAACCCTGGATAATACATCATGC 60.565 44.000 0.00 0.00 0.00 4.06
717 2910 5.771666 AGCAAACCCTGGATAATACATCATG 59.228 40.000 0.00 0.00 0.00 3.07
718 2911 5.957132 AGCAAACCCTGGATAATACATCAT 58.043 37.500 0.00 0.00 0.00 2.45
719 2912 5.387113 AGCAAACCCTGGATAATACATCA 57.613 39.130 0.00 0.00 0.00 3.07
720 2913 6.321181 TCAAAGCAAACCCTGGATAATACATC 59.679 38.462 0.00 0.00 0.00 3.06
721 2914 6.194235 TCAAAGCAAACCCTGGATAATACAT 58.806 36.000 0.00 0.00 0.00 2.29
722 2915 5.575157 TCAAAGCAAACCCTGGATAATACA 58.425 37.500 0.00 0.00 0.00 2.29
723 2916 6.239036 GGATCAAAGCAAACCCTGGATAATAC 60.239 42.308 0.00 0.00 0.00 1.89
724 2917 5.833131 GGATCAAAGCAAACCCTGGATAATA 59.167 40.000 0.00 0.00 0.00 0.98
725 2918 4.651045 GGATCAAAGCAAACCCTGGATAAT 59.349 41.667 0.00 0.00 0.00 1.28
726 2919 4.023291 GGATCAAAGCAAACCCTGGATAA 58.977 43.478 0.00 0.00 0.00 1.75
727 2920 3.011144 TGGATCAAAGCAAACCCTGGATA 59.989 43.478 0.00 0.00 0.00 2.59
728 2921 2.225343 TGGATCAAAGCAAACCCTGGAT 60.225 45.455 0.00 0.00 0.00 3.41
729 2922 1.146774 TGGATCAAAGCAAACCCTGGA 59.853 47.619 0.00 0.00 0.00 3.86
730 2923 1.547372 CTGGATCAAAGCAAACCCTGG 59.453 52.381 0.00 0.00 0.00 4.45
771 2968 4.336433 GCACTAGCAGCAGGAATTGATTTA 59.664 41.667 0.00 0.00 41.58 1.40
772 2969 3.129988 GCACTAGCAGCAGGAATTGATTT 59.870 43.478 0.00 0.00 41.58 2.17
774 2971 2.295885 GCACTAGCAGCAGGAATTGAT 58.704 47.619 0.00 0.00 41.58 2.57
775 2972 1.679944 GGCACTAGCAGCAGGAATTGA 60.680 52.381 9.64 0.00 44.61 2.57
776 2973 0.737219 GGCACTAGCAGCAGGAATTG 59.263 55.000 9.64 0.00 44.61 2.32
777 2974 0.329261 TGGCACTAGCAGCAGGAATT 59.671 50.000 9.64 0.00 44.61 2.17
781 3227 0.107312 AATCTGGCACTAGCAGCAGG 60.107 55.000 9.64 2.52 44.61 4.85
795 3241 6.072508 ACAATGTAGCCACAACTTACAATCTG 60.073 38.462 0.00 0.00 38.42 2.90
796 3242 6.003950 ACAATGTAGCCACAACTTACAATCT 58.996 36.000 0.00 0.00 38.42 2.40
798 3244 6.940298 ACTACAATGTAGCCACAACTTACAAT 59.060 34.615 19.38 0.00 38.42 2.71
799 3245 6.292923 ACTACAATGTAGCCACAACTTACAA 58.707 36.000 19.38 0.00 38.42 2.41
802 3248 5.012251 TGGACTACAATGTAGCCACAACTTA 59.988 40.000 23.14 7.61 38.42 2.24
803 3249 4.202419 TGGACTACAATGTAGCCACAACTT 60.202 41.667 23.14 4.56 38.42 2.66
804 3250 3.326588 TGGACTACAATGTAGCCACAACT 59.673 43.478 23.14 5.17 38.42 3.16
805 3251 3.670625 TGGACTACAATGTAGCCACAAC 58.329 45.455 23.14 9.64 38.42 3.32
807 3253 3.872696 CATGGACTACAATGTAGCCACA 58.127 45.455 26.72 19.98 39.52 4.17
808 3254 2.614057 GCATGGACTACAATGTAGCCAC 59.386 50.000 26.72 17.16 0.00 5.01
809 3255 2.421388 GGCATGGACTACAATGTAGCCA 60.421 50.000 26.52 26.52 39.35 4.75
810 3256 2.222027 GGCATGGACTACAATGTAGCC 58.778 52.381 19.38 19.62 0.00 3.93
811 3257 2.614057 GTGGCATGGACTACAATGTAGC 59.386 50.000 19.38 12.15 0.00 3.58
812 3258 3.873361 CAGTGGCATGGACTACAATGTAG 59.127 47.826 18.03 18.03 0.00 2.74
813 3259 3.872696 CAGTGGCATGGACTACAATGTA 58.127 45.455 0.00 0.00 0.00 2.29
814 3260 2.715046 CAGTGGCATGGACTACAATGT 58.285 47.619 0.00 0.00 0.00 2.71
815 3261 1.402968 GCAGTGGCATGGACTACAATG 59.597 52.381 0.00 0.00 40.72 2.82
816 3262 1.283029 AGCAGTGGCATGGACTACAAT 59.717 47.619 0.00 0.00 44.61 2.71
817 3263 0.692476 AGCAGTGGCATGGACTACAA 59.308 50.000 0.00 0.00 44.61 2.41
818 3264 1.567357 TAGCAGTGGCATGGACTACA 58.433 50.000 0.00 0.00 44.61 2.74
819 3265 2.280628 GTTAGCAGTGGCATGGACTAC 58.719 52.381 0.00 0.00 44.61 2.73
820 3266 1.905894 TGTTAGCAGTGGCATGGACTA 59.094 47.619 0.00 0.00 44.61 2.59
821 3267 0.692476 TGTTAGCAGTGGCATGGACT 59.308 50.000 0.00 0.00 44.61 3.85
822 3268 1.755179 ATGTTAGCAGTGGCATGGAC 58.245 50.000 0.00 0.00 44.61 4.02
823 3269 2.505407 AGTATGTTAGCAGTGGCATGGA 59.495 45.455 0.00 0.00 44.61 3.41
824 3270 2.615447 CAGTATGTTAGCAGTGGCATGG 59.385 50.000 0.00 0.00 44.61 3.66
825 3271 2.615447 CCAGTATGTTAGCAGTGGCATG 59.385 50.000 0.00 0.00 44.61 4.06
826 3272 2.239654 ACCAGTATGTTAGCAGTGGCAT 59.760 45.455 0.00 0.00 44.61 4.40
827 3273 1.628340 ACCAGTATGTTAGCAGTGGCA 59.372 47.619 5.59 0.00 44.61 4.92
828 3274 2.403252 ACCAGTATGTTAGCAGTGGC 57.597 50.000 5.59 0.00 41.61 5.01
829 3275 3.684788 GTGAACCAGTATGTTAGCAGTGG 59.315 47.826 4.45 4.45 32.90 4.00
830 3276 4.314961 TGTGAACCAGTATGTTAGCAGTG 58.685 43.478 0.00 0.00 0.00 3.66
831 3277 4.569943 CTGTGAACCAGTATGTTAGCAGT 58.430 43.478 0.00 0.00 36.37 4.40
832 3278 3.372206 GCTGTGAACCAGTATGTTAGCAG 59.628 47.826 0.00 0.00 43.55 4.24
833 3279 3.007940 AGCTGTGAACCAGTATGTTAGCA 59.992 43.478 0.00 0.00 43.55 3.49
834 3280 3.600388 AGCTGTGAACCAGTATGTTAGC 58.400 45.455 0.00 0.00 43.55 3.09
835 3281 4.393062 CCAAGCTGTGAACCAGTATGTTAG 59.607 45.833 0.00 0.00 43.55 2.34
836 3282 4.041075 TCCAAGCTGTGAACCAGTATGTTA 59.959 41.667 0.00 0.00 43.55 2.41
837 3283 3.149196 CCAAGCTGTGAACCAGTATGTT 58.851 45.455 0.00 0.00 43.55 2.71
838 3284 2.371841 TCCAAGCTGTGAACCAGTATGT 59.628 45.455 0.00 0.00 43.55 2.29
839 3285 3.057969 TCCAAGCTGTGAACCAGTATG 57.942 47.619 0.00 0.00 43.55 2.39
840 3286 3.614092 CATCCAAGCTGTGAACCAGTAT 58.386 45.455 0.00 0.00 43.55 2.12
843 3289 1.171308 CCATCCAAGCTGTGAACCAG 58.829 55.000 0.00 0.00 44.53 4.00
846 3292 1.197721 CGTTCCATCCAAGCTGTGAAC 59.802 52.381 0.00 0.00 0.00 3.18
890 3336 2.101415 AGACCAAAGCAGGCAAGTTTTC 59.899 45.455 0.00 0.00 0.00 2.29
940 3386 0.865218 TGCAAGCAAAAACAGACGCG 60.865 50.000 3.53 3.53 0.00 6.01
941 3387 1.453148 GATGCAAGCAAAAACAGACGC 59.547 47.619 0.00 0.00 0.00 5.19
942 3388 2.053627 GGATGCAAGCAAAAACAGACG 58.946 47.619 0.00 0.00 0.00 4.18
943 3389 3.096489 TGGATGCAAGCAAAAACAGAC 57.904 42.857 0.00 0.00 0.00 3.51
944 3390 3.612241 CGATGGATGCAAGCAAAAACAGA 60.612 43.478 0.00 0.00 0.00 3.41
946 3392 2.295629 TCGATGGATGCAAGCAAAAACA 59.704 40.909 0.00 0.00 0.00 2.83
949 3395 3.243670 TGTTTCGATGGATGCAAGCAAAA 60.244 39.130 0.00 0.00 0.00 2.44
954 3407 3.557577 TGTTGTTTCGATGGATGCAAG 57.442 42.857 0.00 0.00 0.00 4.01
962 3415 5.107109 TGGTGAAGATTGTTGTTTCGATG 57.893 39.130 0.00 0.00 0.00 3.84
986 3445 4.066769 GCATGTGCACTGCGAATG 57.933 55.556 19.41 13.61 41.59 2.67
997 3456 0.454600 GATGTTGAGGCCTGCATGTG 59.545 55.000 12.00 0.00 0.00 3.21
998 3457 0.038599 TGATGTTGAGGCCTGCATGT 59.961 50.000 12.00 0.00 0.00 3.21
999 3458 0.454600 GTGATGTTGAGGCCTGCATG 59.545 55.000 12.00 0.00 0.00 4.06
1000 3459 0.038599 TGTGATGTTGAGGCCTGCAT 59.961 50.000 12.00 12.21 0.00 3.96
1001 3460 0.890542 GTGTGATGTTGAGGCCTGCA 60.891 55.000 12.00 6.89 0.00 4.41
1002 3461 0.607489 AGTGTGATGTTGAGGCCTGC 60.607 55.000 12.00 1.89 0.00 4.85
1010 3469 4.852134 TGATTTTGGGAGTGTGATGTTG 57.148 40.909 0.00 0.00 0.00 3.33
1032 3491 5.103813 TGGATTGGATGGAACTCTGATTGAT 60.104 40.000 0.00 0.00 0.00 2.57
1036 3495 4.018141 TGTTGGATTGGATGGAACTCTGAT 60.018 41.667 0.00 0.00 0.00 2.90
1037 3496 3.330405 TGTTGGATTGGATGGAACTCTGA 59.670 43.478 0.00 0.00 0.00 3.27
1038 3497 3.689347 TGTTGGATTGGATGGAACTCTG 58.311 45.455 0.00 0.00 0.00 3.35
1039 3498 3.588842 TCTGTTGGATTGGATGGAACTCT 59.411 43.478 0.00 0.00 0.00 3.24
1052 3513 2.236146 TCGTATTGCCAGTCTGTTGGAT 59.764 45.455 0.00 0.00 40.87 3.41
1053 3514 1.621317 TCGTATTGCCAGTCTGTTGGA 59.379 47.619 0.00 0.00 40.87 3.53
1055 3516 4.154015 TGAAATCGTATTGCCAGTCTGTTG 59.846 41.667 0.00 0.00 0.00 3.33
1056 3517 4.323417 TGAAATCGTATTGCCAGTCTGTT 58.677 39.130 0.00 0.00 0.00 3.16
1057 3518 3.937814 TGAAATCGTATTGCCAGTCTGT 58.062 40.909 0.00 0.00 0.00 3.41
1058 3519 4.631377 TCTTGAAATCGTATTGCCAGTCTG 59.369 41.667 0.00 0.00 0.00 3.51
1060 3521 5.294306 TCATCTTGAAATCGTATTGCCAGTC 59.706 40.000 0.00 0.00 0.00 3.51
1061 3522 5.185454 TCATCTTGAAATCGTATTGCCAGT 58.815 37.500 0.00 0.00 0.00 4.00
1062 3523 5.277683 CCTCATCTTGAAATCGTATTGCCAG 60.278 44.000 0.00 0.00 0.00 4.85
1063 3524 4.576053 CCTCATCTTGAAATCGTATTGCCA 59.424 41.667 0.00 0.00 0.00 4.92
1066 3527 5.332883 CGCTCCTCATCTTGAAATCGTATTG 60.333 44.000 0.00 0.00 0.00 1.90
1069 3530 3.490933 CCGCTCCTCATCTTGAAATCGTA 60.491 47.826 0.00 0.00 0.00 3.43
1072 3533 3.129871 CTCCGCTCCTCATCTTGAAATC 58.870 50.000 0.00 0.00 0.00 2.17
1086 3547 0.531753 GAAGAAGATGGCCTCCGCTC 60.532 60.000 3.32 0.00 34.44 5.03
1090 3551 3.277715 CAAGAAGAAGAAGATGGCCTCC 58.722 50.000 3.32 0.00 0.00 4.30
1091 3552 2.682352 GCAAGAAGAAGAAGATGGCCTC 59.318 50.000 3.32 0.00 0.00 4.70
1120 3587 1.534163 CGACGGCGATAGGATCACTAA 59.466 52.381 16.62 0.00 40.82 2.24
1122 3589 1.950007 CGACGGCGATAGGATCACT 59.050 57.895 16.62 0.00 40.82 3.41
1253 3732 1.221414 GCCTTCCATCGAGAAATCGG 58.779 55.000 0.00 0.00 0.00 4.18
1257 3736 1.449601 GCCGCCTTCCATCGAGAAA 60.450 57.895 0.00 0.00 0.00 2.52
1593 4073 0.468029 ATGGCGGATGGGGTTTGATC 60.468 55.000 0.00 0.00 0.00 2.92
1598 4078 1.151450 GATCATGGCGGATGGGGTT 59.849 57.895 0.00 0.00 32.26 4.11
1600 4080 2.359107 CGATCATGGCGGATGGGG 60.359 66.667 0.00 0.00 32.26 4.96
1603 4083 1.143305 GAAGACGATCATGGCGGATG 58.857 55.000 12.30 0.00 0.00 3.51
1748 4256 2.902846 CCTCTCCTCGATCGCCGT 60.903 66.667 11.09 0.00 39.75 5.68
2034 4542 3.087666 GCCTCCTCCTTCAGCCTCG 62.088 68.421 0.00 0.00 0.00 4.63
2161 4669 3.764466 AGCGCCCTCTGGTTCTCG 61.764 66.667 2.29 0.00 0.00 4.04
2175 4683 2.435586 CCTGACCTTCCAGCAGCG 60.436 66.667 0.00 0.00 32.97 5.18
2185 4693 4.719369 GTCGCGTTCGCCTGACCT 62.719 66.667 5.77 0.00 35.26 3.85
2376 4884 3.672295 CTGAACTCCTCCTGCGCCC 62.672 68.421 4.18 0.00 0.00 6.13
2474 5082 4.249661 CAGTAGAAGAAGAAGGCCTTGAC 58.750 47.826 26.25 9.77 34.68 3.18
2495 5103 2.258591 GAGGAAGACGACGCAGCA 59.741 61.111 0.00 0.00 0.00 4.41
2599 5214 1.200020 GCAATGGAGTGAAGGAAACGG 59.800 52.381 0.00 0.00 0.00 4.44
2610 5225 3.160679 AGCCAAGTAAAGCAATGGAGT 57.839 42.857 0.00 0.00 34.82 3.85
2655 5289 1.517257 CCTCCACGACGAGCATGAC 60.517 63.158 0.00 0.00 0.00 3.06
2659 5293 3.733960 CGACCTCCACGACGAGCA 61.734 66.667 0.00 0.00 0.00 4.26
2666 5300 4.498520 ATGAGCGCGACCTCCACG 62.499 66.667 12.10 0.00 0.00 4.94
2716 5350 3.222354 GACACGACCCAGAACGGCT 62.222 63.158 0.00 0.00 0.00 5.52
2836 5470 3.428870 ACTGTGACGTTTTAGCGATTCAG 59.571 43.478 0.00 0.00 34.99 3.02
2875 5512 3.934579 CCTGCAGCATAAAAATGGGAAAC 59.065 43.478 8.66 0.00 0.00 2.78
2879 5516 2.109774 TCCCTGCAGCATAAAAATGGG 58.890 47.619 8.66 7.22 34.98 4.00
2906 5543 2.356313 AGCTCGTGGTTCAGCACG 60.356 61.111 22.35 22.35 45.09 5.34
2918 5555 4.127040 AGCGTCTGGAGCAGCTCG 62.127 66.667 16.47 6.20 34.48 5.03
3192 5871 0.889306 CTTCCCGGAGAACGAAGTCT 59.111 55.000 0.73 0.00 45.00 3.24
3201 5880 2.034878 CAGATGTCATCTTCCCGGAGA 58.965 52.381 12.88 0.00 37.58 3.71
3226 5905 2.047560 CCGGAAACCGTGGTCCTC 60.048 66.667 0.00 0.00 46.80 3.71
3230 5909 1.698067 TTCTTCCCGGAAACCGTGGT 61.698 55.000 0.73 0.00 46.80 4.16
3261 5940 1.139734 GAGCGATGCCGAGAGTGAA 59.860 57.895 0.00 0.00 38.22 3.18
3273 5952 1.184322 ATCTCCTCATGGCGAGCGAT 61.184 55.000 0.00 0.00 40.78 4.58
3277 5956 2.546795 GGTTGTATCTCCTCATGGCGAG 60.547 54.545 0.00 0.00 41.89 5.03
3338 6017 9.956720 GGCAATATTTCTGCATATATATGTTCC 57.043 33.333 21.10 7.93 41.78 3.62
3485 6167 5.983540 TGTTTGGTCCAGCTTTATGTTTTT 58.016 33.333 0.00 0.00 0.00 1.94
3604 6359 2.095567 GTCTACTTGGCATGCAACTGTG 60.096 50.000 21.36 5.34 0.00 3.66
3605 6360 2.154462 GTCTACTTGGCATGCAACTGT 58.846 47.619 21.36 12.26 0.00 3.55
3610 6365 3.712016 TTTAGGTCTACTTGGCATGCA 57.288 42.857 21.36 2.54 0.00 3.96
3628 6383 7.066525 TCGTTTGAGTGAGTAATGGAACTTTTT 59.933 33.333 0.00 0.00 0.00 1.94
3814 6571 5.954153 AGCTGGGGAGATCTGATTATATG 57.046 43.478 0.00 0.00 0.00 1.78
3815 6572 5.428131 GGAAGCTGGGGAGATCTGATTATAT 59.572 44.000 0.00 0.00 0.00 0.86
3949 6714 2.286184 CCAGAAACGGAAACACAAGTCG 60.286 50.000 0.00 0.00 0.00 4.18
4232 6998 0.825425 TTTTCCCGCTTGCCATGTCA 60.825 50.000 0.00 0.00 0.00 3.58
4263 7029 7.162082 CCTACCAGTTACAGTTTCTCATTTCT 58.838 38.462 0.00 0.00 0.00 2.52
4264 7030 6.371825 CCCTACCAGTTACAGTTTCTCATTTC 59.628 42.308 0.00 0.00 0.00 2.17
4265 7031 6.043938 TCCCTACCAGTTACAGTTTCTCATTT 59.956 38.462 0.00 0.00 0.00 2.32
4266 7032 5.546499 TCCCTACCAGTTACAGTTTCTCATT 59.454 40.000 0.00 0.00 0.00 2.57
4267 7033 5.091552 TCCCTACCAGTTACAGTTTCTCAT 58.908 41.667 0.00 0.00 0.00 2.90
4268 7034 4.485875 TCCCTACCAGTTACAGTTTCTCA 58.514 43.478 0.00 0.00 0.00 3.27
4269 7035 5.236282 GTTCCCTACCAGTTACAGTTTCTC 58.764 45.833 0.00 0.00 0.00 2.87
4270 7036 4.041321 GGTTCCCTACCAGTTACAGTTTCT 59.959 45.833 0.00 0.00 46.92 2.52
4271 7037 4.321718 GGTTCCCTACCAGTTACAGTTTC 58.678 47.826 0.00 0.00 46.92 2.78
4272 7038 4.362470 GGTTCCCTACCAGTTACAGTTT 57.638 45.455 0.00 0.00 46.92 2.66


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

AutoCloner maintained by Alex Coulton.