Multiple sequence alignment - TraesCS5B01G206700

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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 TraesCS5B01G206700 chr5B 100.000 2711 0 0 1 2711 375796611 375799321 0.000000e+00 5007.0
1 TraesCS5B01G206700 chr5D 93.945 1734 66 6 981 2711 324372372 324374069 0.000000e+00 2584.0
2 TraesCS5B01G206700 chr5D 94.030 737 28 7 1 732 324369174 324369899 0.000000e+00 1103.0
3 TraesCS5B01G206700 chr5D 73.882 425 70 24 265 658 466592632 466592218 6.090000e-27 132.0
4 TraesCS5B01G206700 chr5D 100.000 56 0 0 886 941 324372306 324372361 1.330000e-18 104.0
5 TraesCS5B01G206700 chr4D 81.657 169 22 8 382 544 97421529 97421364 6.090000e-27 132.0
6 TraesCS5B01G206700 chr6B 87.719 114 7 4 781 887 705488207 705488094 2.830000e-25 126.0
7 TraesCS5B01G206700 chr2D 95.238 42 2 0 1135 1176 437642969 437643010 1.740000e-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 TraesCS5B01G206700 chr5B 375796611 375799321 2710 False 5007.000000 5007 100.000000 1 2711 1 chr5B.!!$F1 2710
1 TraesCS5B01G206700 chr5D 324369174 324374069 4895 False 1263.666667 2584 95.991667 1 2711 3 chr5D.!!$F1 2710

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 3316 0.042731 TCCTTCTCCCCTGGTTCGAT 59.957 55.0 0.0 0.0 0.0 3.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1922 4297 0.457851 CAAGAGACCGCCTCCAGTAG 59.542 60.0 0.0 0.0 42.97 2.57 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
132 137 2.100916 GAGCCAACGAACTAGCTCCATA 59.899 50.000 0.00 0.00 44.76 2.74
145 150 4.620589 AGCTCCATATGATGAACTCCTG 57.379 45.455 3.65 0.00 0.00 3.86
205 210 2.152016 GAGCCCAGTTAGGTTGTTGTC 58.848 52.381 0.00 0.00 34.66 3.18
239 244 2.355007 GCCACAAAATTTCCTCCATGGG 60.355 50.000 13.02 2.26 36.20 4.00
244 249 3.840078 CAAAATTTCCTCCATGGGTTCCT 59.160 43.478 13.02 0.00 36.20 3.36
249 254 2.478292 TCCTCCATGGGTTCCTCTTAC 58.522 52.381 13.02 0.00 36.20 2.34
266 271 4.304110 TCTTACGCGTCATGTTCTTTTCT 58.696 39.130 18.63 0.00 0.00 2.52
299 304 6.487299 AATGGGAGTTAGTATGTTCTCCTC 57.513 41.667 9.43 2.15 43.97 3.71
314 319 1.768077 CCTCATCTCCTCCCCCACC 60.768 68.421 0.00 0.00 0.00 4.61
409 414 8.508601 TCTTATCCTACTAGAAACCATGTCCTA 58.491 37.037 0.00 0.00 0.00 2.94
503 508 8.561738 TCAAACCTCAAGTATATCAAAACTCC 57.438 34.615 0.00 0.00 0.00 3.85
517 522 4.340950 TCAAAACTCCCATTGTGTTTCTCC 59.659 41.667 0.00 0.00 39.16 3.71
536 541 6.078456 TCTCCACCCATACTCAAATCAAAT 57.922 37.500 0.00 0.00 0.00 2.32
632 637 4.394729 ACCACTAAAATATGTATGCCCCG 58.605 43.478 0.00 0.00 0.00 5.73
662 668 4.437390 GCATGTACAATTAGCCAGTGTGTC 60.437 45.833 0.00 0.00 0.00 3.67
732 738 3.507233 TGATTGAGAGTTGGACAAATGGC 59.493 43.478 0.00 0.00 0.00 4.40
733 739 2.655090 TGAGAGTTGGACAAATGGCA 57.345 45.000 0.00 0.00 0.00 4.92
734 740 2.942804 TGAGAGTTGGACAAATGGCAA 58.057 42.857 0.00 0.00 0.00 4.52
735 741 3.499338 TGAGAGTTGGACAAATGGCAAT 58.501 40.909 0.00 0.00 0.00 3.56
736 742 3.256383 TGAGAGTTGGACAAATGGCAATG 59.744 43.478 0.00 0.00 0.00 2.82
738 744 4.091549 AGAGTTGGACAAATGGCAATGAT 58.908 39.130 10.22 0.00 0.00 2.45
740 746 5.895534 AGAGTTGGACAAATGGCAATGATAT 59.104 36.000 10.22 0.00 0.00 1.63
757 3132 7.523380 GCAATGATATTTCCTCTCCATTTCCAG 60.523 40.741 0.00 0.00 0.00 3.86
779 3154 1.610967 TGAGCCCACCCGTCATACA 60.611 57.895 0.00 0.00 0.00 2.29
780 3155 1.144057 GAGCCCACCCGTCATACAG 59.856 63.158 0.00 0.00 0.00 2.74
781 3156 2.189521 GCCCACCCGTCATACAGG 59.810 66.667 0.00 0.00 0.00 4.00
782 3157 2.666098 GCCCACCCGTCATACAGGT 61.666 63.158 0.00 0.00 0.00 4.00
783 3158 1.988015 CCCACCCGTCATACAGGTT 59.012 57.895 0.00 0.00 0.00 3.50
784 3159 1.196911 CCCACCCGTCATACAGGTTA 58.803 55.000 0.00 0.00 0.00 2.85
785 3160 1.555992 CCCACCCGTCATACAGGTTAA 59.444 52.381 0.00 0.00 0.00 2.01
786 3161 2.419574 CCCACCCGTCATACAGGTTAAG 60.420 54.545 0.00 0.00 0.00 1.85
787 3162 2.498481 CCACCCGTCATACAGGTTAAGA 59.502 50.000 0.00 0.00 0.00 2.10
788 3163 3.134081 CCACCCGTCATACAGGTTAAGAT 59.866 47.826 0.00 0.00 0.00 2.40
789 3164 4.369182 CACCCGTCATACAGGTTAAGATC 58.631 47.826 0.00 0.00 0.00 2.75
790 3165 3.387050 ACCCGTCATACAGGTTAAGATCC 59.613 47.826 0.00 0.00 0.00 3.36
791 3166 3.641906 CCCGTCATACAGGTTAAGATCCT 59.358 47.826 0.00 0.00 35.45 3.24
792 3167 4.262079 CCCGTCATACAGGTTAAGATCCTC 60.262 50.000 0.00 0.00 32.37 3.71
793 3168 4.585162 CCGTCATACAGGTTAAGATCCTCT 59.415 45.833 0.00 0.00 32.37 3.69
794 3169 5.508153 CCGTCATACAGGTTAAGATCCTCTG 60.508 48.000 0.00 0.00 32.37 3.35
795 3170 5.293560 GTCATACAGGTTAAGATCCTCTGC 58.706 45.833 0.00 0.00 32.37 4.26
796 3171 4.962362 TCATACAGGTTAAGATCCTCTGCA 59.038 41.667 0.00 0.00 32.37 4.41
797 3172 3.902881 ACAGGTTAAGATCCTCTGCAG 57.097 47.619 7.63 7.63 32.37 4.41
798 3173 3.177228 ACAGGTTAAGATCCTCTGCAGT 58.823 45.455 14.67 0.00 32.37 4.40
799 3174 4.353777 ACAGGTTAAGATCCTCTGCAGTA 58.646 43.478 14.67 0.81 32.37 2.74
800 3175 4.160626 ACAGGTTAAGATCCTCTGCAGTAC 59.839 45.833 14.67 2.25 32.37 2.73
801 3176 3.707102 AGGTTAAGATCCTCTGCAGTACC 59.293 47.826 14.67 8.25 0.00 3.34
802 3177 3.491104 GGTTAAGATCCTCTGCAGTACCG 60.491 52.174 14.67 0.99 0.00 4.02
803 3178 1.853963 AAGATCCTCTGCAGTACCGT 58.146 50.000 14.67 0.00 0.00 4.83
804 3179 2.730934 AGATCCTCTGCAGTACCGTA 57.269 50.000 14.67 0.00 0.00 4.02
805 3180 3.231207 AGATCCTCTGCAGTACCGTAT 57.769 47.619 14.67 0.23 0.00 3.06
806 3181 2.887783 AGATCCTCTGCAGTACCGTATG 59.112 50.000 14.67 0.00 0.00 2.39
807 3182 2.139323 TCCTCTGCAGTACCGTATGT 57.861 50.000 14.67 0.00 0.00 2.29
808 3183 1.749063 TCCTCTGCAGTACCGTATGTG 59.251 52.381 14.67 0.00 0.00 3.21
809 3184 1.560923 CTCTGCAGTACCGTATGTGC 58.439 55.000 14.67 8.31 36.42 4.57
810 3185 1.135139 CTCTGCAGTACCGTATGTGCT 59.865 52.381 14.67 0.00 40.97 4.40
816 3191 3.777465 AGTACCGTATGTGCTGTAGTG 57.223 47.619 0.00 0.00 38.61 2.74
817 3192 3.087031 AGTACCGTATGTGCTGTAGTGT 58.913 45.455 0.00 0.00 38.61 3.55
818 3193 2.649331 ACCGTATGTGCTGTAGTGTC 57.351 50.000 0.00 0.00 0.00 3.67
819 3194 1.135489 ACCGTATGTGCTGTAGTGTCG 60.135 52.381 0.00 0.00 0.00 4.35
820 3195 1.131693 CCGTATGTGCTGTAGTGTCGA 59.868 52.381 0.00 0.00 0.00 4.20
821 3196 2.223502 CCGTATGTGCTGTAGTGTCGAT 60.224 50.000 0.00 0.00 0.00 3.59
822 3197 2.783832 CGTATGTGCTGTAGTGTCGATG 59.216 50.000 0.00 0.00 0.00 3.84
823 3198 3.486875 CGTATGTGCTGTAGTGTCGATGA 60.487 47.826 0.00 0.00 0.00 2.92
824 3199 2.347697 TGTGCTGTAGTGTCGATGAC 57.652 50.000 0.00 0.00 0.00 3.06
825 3200 1.611491 TGTGCTGTAGTGTCGATGACA 59.389 47.619 0.00 0.00 40.50 3.58
826 3201 2.231235 TGTGCTGTAGTGTCGATGACAT 59.769 45.455 2.62 0.00 44.63 3.06
827 3202 2.600420 GTGCTGTAGTGTCGATGACATG 59.400 50.000 2.62 0.00 44.63 3.21
828 3203 2.231235 TGCTGTAGTGTCGATGACATGT 59.769 45.455 0.00 0.00 44.63 3.21
829 3204 3.442273 TGCTGTAGTGTCGATGACATGTA 59.558 43.478 0.00 0.00 44.63 2.29
830 3205 4.038361 GCTGTAGTGTCGATGACATGTAG 58.962 47.826 0.00 2.01 44.63 2.74
831 3206 4.602006 CTGTAGTGTCGATGACATGTAGG 58.398 47.826 0.00 0.00 44.63 3.18
832 3207 3.380320 TGTAGTGTCGATGACATGTAGGG 59.620 47.826 0.00 0.00 44.63 3.53
833 3208 1.137086 AGTGTCGATGACATGTAGGGC 59.863 52.381 0.00 0.00 44.63 5.19
834 3209 0.464036 TGTCGATGACATGTAGGGCC 59.536 55.000 0.00 0.00 37.67 5.80
835 3210 0.464036 GTCGATGACATGTAGGGCCA 59.536 55.000 6.18 0.00 32.09 5.36
836 3211 1.134521 GTCGATGACATGTAGGGCCAA 60.135 52.381 6.18 0.00 32.09 4.52
837 3212 1.138859 TCGATGACATGTAGGGCCAAG 59.861 52.381 6.18 0.00 0.00 3.61
838 3213 1.134401 CGATGACATGTAGGGCCAAGT 60.134 52.381 6.18 0.00 0.00 3.16
839 3214 2.565841 GATGACATGTAGGGCCAAGTC 58.434 52.381 6.18 6.60 34.51 3.01
840 3215 0.618458 TGACATGTAGGGCCAAGTCC 59.382 55.000 6.18 0.00 33.32 3.85
841 3216 0.107165 GACATGTAGGGCCAAGTCCC 60.107 60.000 6.18 0.00 46.93 4.46
847 3222 2.362889 GGGCCAAGTCCCACATGG 60.363 66.667 4.39 0.00 45.82 3.66
850 3225 4.007457 CCAAGTCCCACATGGCAG 57.993 61.111 0.00 0.00 29.63 4.85
851 3226 1.075482 CCAAGTCCCACATGGCAGT 59.925 57.895 0.00 0.00 29.63 4.40
852 3227 1.246056 CCAAGTCCCACATGGCAGTG 61.246 60.000 0.00 9.29 39.21 3.66
853 3228 0.250858 CAAGTCCCACATGGCAGTGA 60.251 55.000 15.61 0.00 42.05 3.41
854 3229 0.700564 AAGTCCCACATGGCAGTGAT 59.299 50.000 15.61 0.75 42.05 3.06
855 3230 0.700564 AGTCCCACATGGCAGTGATT 59.299 50.000 15.61 0.00 42.05 2.57
856 3231 0.813184 GTCCCACATGGCAGTGATTG 59.187 55.000 15.61 1.51 42.05 2.67
857 3232 0.405198 TCCCACATGGCAGTGATTGT 59.595 50.000 15.61 2.12 42.05 2.71
858 3233 1.632920 TCCCACATGGCAGTGATTGTA 59.367 47.619 15.61 0.00 42.05 2.41
859 3234 1.745087 CCCACATGGCAGTGATTGTAC 59.255 52.381 15.61 0.00 42.05 2.90
860 3235 2.435422 CCACATGGCAGTGATTGTACA 58.565 47.619 15.61 0.00 42.05 2.90
861 3236 2.819019 CCACATGGCAGTGATTGTACAA 59.181 45.455 11.41 11.41 42.05 2.41
862 3237 3.366273 CCACATGGCAGTGATTGTACAAC 60.366 47.826 11.22 5.88 42.05 3.32
863 3238 3.252944 CACATGGCAGTGATTGTACAACA 59.747 43.478 11.22 8.49 42.05 3.33
864 3239 3.253188 ACATGGCAGTGATTGTACAACAC 59.747 43.478 22.82 22.82 35.15 3.32
865 3240 2.924421 TGGCAGTGATTGTACAACACA 58.076 42.857 27.66 20.83 37.05 3.72
866 3241 3.485394 TGGCAGTGATTGTACAACACAT 58.515 40.909 27.66 17.34 36.90 3.21
867 3242 4.646572 TGGCAGTGATTGTACAACACATA 58.353 39.130 27.66 15.94 36.90 2.29
868 3243 4.454161 TGGCAGTGATTGTACAACACATAC 59.546 41.667 27.66 20.70 36.90 2.39
869 3244 4.695455 GGCAGTGATTGTACAACACATACT 59.305 41.667 27.66 18.07 36.90 2.12
870 3245 5.390885 GGCAGTGATTGTACAACACATACTG 60.391 44.000 27.66 24.90 41.77 2.74
871 3246 5.179368 GCAGTGATTGTACAACACATACTGT 59.821 40.000 27.66 13.70 41.37 3.55
872 3247 6.367695 GCAGTGATTGTACAACACATACTGTA 59.632 38.462 27.66 0.00 41.37 2.74
873 3248 7.411912 GCAGTGATTGTACAACACATACTGTAG 60.412 40.741 27.66 12.96 41.37 2.74
874 3249 7.812669 CAGTGATTGTACAACACATACTGTAGA 59.187 37.037 27.66 1.52 38.19 2.59
875 3250 8.029522 AGTGATTGTACAACACATACTGTAGAG 58.970 37.037 27.66 0.00 36.90 2.43
876 3251 7.275779 GTGATTGTACAACACATACTGTAGAGG 59.724 40.741 24.20 0.00 36.90 3.69
877 3252 6.904463 TTGTACAACACATACTGTAGAGGA 57.096 37.500 3.59 0.00 36.90 3.71
878 3253 7.476540 TTGTACAACACATACTGTAGAGGAT 57.523 36.000 3.59 0.00 36.90 3.24
879 3254 7.096884 TGTACAACACATACTGTAGAGGATC 57.903 40.000 0.00 0.00 30.51 3.36
880 3255 5.599999 ACAACACATACTGTAGAGGATCC 57.400 43.478 2.48 2.48 28.25 3.36
881 3256 5.273208 ACAACACATACTGTAGAGGATCCT 58.727 41.667 16.13 16.13 28.25 3.24
882 3257 6.432581 ACAACACATACTGTAGAGGATCCTA 58.567 40.000 16.16 0.00 28.25 2.94
883 3258 6.895756 ACAACACATACTGTAGAGGATCCTAA 59.104 38.462 16.16 2.74 28.25 2.69
884 3259 6.963083 ACACATACTGTAGAGGATCCTAAC 57.037 41.667 16.16 16.40 33.66 2.34
885 3260 5.834204 ACACATACTGTAGAGGATCCTAACC 59.166 44.000 16.16 1.92 33.66 2.85
886 3261 5.244178 CACATACTGTAGAGGATCCTAACCC 59.756 48.000 16.16 1.49 33.66 4.11
887 3262 3.331718 ACTGTAGAGGATCCTAACCCC 57.668 52.381 16.16 1.05 33.66 4.95
888 3263 2.240279 CTGTAGAGGATCCTAACCCCG 58.760 57.143 16.16 4.16 33.66 5.73
889 3264 1.572415 TGTAGAGGATCCTAACCCCGT 59.428 52.381 16.16 0.00 33.66 5.28
890 3265 2.237643 GTAGAGGATCCTAACCCCGTC 58.762 57.143 16.16 0.00 33.66 4.79
891 3266 0.635009 AGAGGATCCTAACCCCGTCA 59.365 55.000 16.16 0.00 33.66 4.35
892 3267 1.220750 AGAGGATCCTAACCCCGTCAT 59.779 52.381 16.16 0.00 33.66 3.06
893 3268 2.449730 AGAGGATCCTAACCCCGTCATA 59.550 50.000 16.16 0.00 33.66 2.15
894 3269 2.561858 GAGGATCCTAACCCCGTCATAC 59.438 54.545 16.16 0.00 0.00 2.39
937 3312 1.359130 CCATTTCCTTCTCCCCTGGTT 59.641 52.381 0.00 0.00 0.00 3.67
938 3313 2.621668 CCATTTCCTTCTCCCCTGGTTC 60.622 54.545 0.00 0.00 0.00 3.62
939 3314 0.690762 TTTCCTTCTCCCCTGGTTCG 59.309 55.000 0.00 0.00 0.00 3.95
940 3315 0.178915 TTCCTTCTCCCCTGGTTCGA 60.179 55.000 0.00 0.00 0.00 3.71
941 3316 0.042731 TCCTTCTCCCCTGGTTCGAT 59.957 55.000 0.00 0.00 0.00 3.59
942 3317 0.466124 CCTTCTCCCCTGGTTCGATC 59.534 60.000 0.00 0.00 0.00 3.69
943 3318 0.466124 CTTCTCCCCTGGTTCGATCC 59.534 60.000 5.52 5.52 0.00 3.36
944 3319 0.252513 TTCTCCCCTGGTTCGATCCA 60.253 55.000 14.41 14.41 36.00 3.41
945 3320 0.976073 TCTCCCCTGGTTCGATCCAC 60.976 60.000 11.25 0.00 33.55 4.02
946 3321 0.978146 CTCCCCTGGTTCGATCCACT 60.978 60.000 11.25 0.00 33.55 4.00
947 3322 0.976073 TCCCCTGGTTCGATCCACTC 60.976 60.000 11.25 0.00 33.55 3.51
967 3342 1.514228 TCGATCGAGCGAACTGTGC 60.514 57.895 25.09 0.00 37.35 4.57
968 3343 2.508891 CGATCGAGCGAACTGTGCC 61.509 63.158 20.02 0.00 0.00 5.01
969 3344 1.446099 GATCGAGCGAACTGTGCCA 60.446 57.895 0.00 0.00 0.00 4.92
970 3345 1.687494 GATCGAGCGAACTGTGCCAC 61.687 60.000 0.00 0.00 0.00 5.01
971 3346 2.159819 ATCGAGCGAACTGTGCCACT 62.160 55.000 0.00 0.00 0.00 4.00
972 3347 2.661566 CGAGCGAACTGTGCCACTG 61.662 63.158 0.00 0.00 0.00 3.66
973 3348 1.300931 GAGCGAACTGTGCCACTGA 60.301 57.895 8.84 0.00 0.00 3.41
974 3349 0.880278 GAGCGAACTGTGCCACTGAA 60.880 55.000 8.84 0.00 0.00 3.02
975 3350 1.160329 AGCGAACTGTGCCACTGAAC 61.160 55.000 8.84 1.56 0.00 3.18
976 3351 1.941812 CGAACTGTGCCACTGAACC 59.058 57.895 8.84 0.00 0.00 3.62
977 3352 0.813610 CGAACTGTGCCACTGAACCA 60.814 55.000 8.84 0.00 0.00 3.67
978 3353 1.388547 GAACTGTGCCACTGAACCAA 58.611 50.000 8.84 0.00 0.00 3.67
979 3354 1.748493 GAACTGTGCCACTGAACCAAA 59.252 47.619 8.84 0.00 0.00 3.28
1007 3382 2.511600 CGGAGGGGCGATGACAAC 60.512 66.667 0.00 0.00 0.00 3.32
1393 3768 0.338120 CCTCCACTCCTCCCTCTTCT 59.662 60.000 0.00 0.00 0.00 2.85
1416 3791 3.357079 GCCCAACTCACGCACCTG 61.357 66.667 0.00 0.00 0.00 4.00
1423 3798 1.301244 CTCACGCACCTGAAGCTGT 60.301 57.895 0.00 0.00 0.00 4.40
1424 3799 1.563435 CTCACGCACCTGAAGCTGTG 61.563 60.000 0.00 0.00 37.63 3.66
1428 3803 4.410225 CACCTGAAGCTGTGCCAT 57.590 55.556 0.00 0.00 0.00 4.40
1481 3856 0.552848 GGATTCCCCATGCTCAAGGA 59.447 55.000 0.00 0.00 34.14 3.36
1492 3867 5.188434 CCATGCTCAAGGATCTAAAACTCA 58.812 41.667 0.00 0.00 0.00 3.41
1495 3870 4.019860 TGCTCAAGGATCTAAAACTCAGCT 60.020 41.667 0.00 0.00 0.00 4.24
1503 3878 5.408604 GGATCTAAAACTCAGCTTTGTCGAA 59.591 40.000 0.00 0.00 0.00 3.71
1508 3883 3.409026 ACTCAGCTTTGTCGAATTCCT 57.591 42.857 0.00 0.00 0.00 3.36
1554 3929 0.246635 CGATTCTTGTCGGGTCACCT 59.753 55.000 0.00 0.00 37.94 4.00
1588 3963 5.014123 ACCCTGAATCTTCACTTTGTGGATA 59.986 40.000 0.00 0.00 33.87 2.59
1599 3974 2.702592 TTGTGGATATCCGTGGGAAC 57.297 50.000 17.04 8.78 39.43 3.62
1602 3977 1.343465 GTGGATATCCGTGGGAACGAT 59.657 52.381 17.04 0.00 39.43 3.73
1603 3978 1.616865 TGGATATCCGTGGGAACGATC 59.383 52.381 17.04 0.00 39.43 3.69
1658 4033 1.684983 CCTCCGGAGCCTAACGATAAA 59.315 52.381 26.87 0.00 0.00 1.40
1665 4040 5.230942 CGGAGCCTAACGATAAATTCTGAT 58.769 41.667 0.00 0.00 0.00 2.90
1671 4046 8.616076 AGCCTAACGATAAATTCTGATTTTGAG 58.384 33.333 7.57 2.76 36.82 3.02
1700 4075 2.643551 GCAAGTTAAGGAGCTGCCATA 58.356 47.619 0.00 0.00 40.02 2.74
1702 4077 2.945668 CAAGTTAAGGAGCTGCCATACC 59.054 50.000 0.00 0.00 40.02 2.73
1708 4083 0.394565 GGAGCTGCCATACCTCGATT 59.605 55.000 0.00 0.00 36.34 3.34
1712 4087 1.801178 GCTGCCATACCTCGATTAAGC 59.199 52.381 0.00 0.00 0.00 3.09
1715 4090 1.000506 GCCATACCTCGATTAAGCCGA 59.999 52.381 3.28 3.28 34.61 5.54
1725 4100 2.153817 CGATTAAGCCGACATCGATGTG 59.846 50.000 34.48 23.88 41.96 3.21
1740 4115 2.609459 CGATGTGGGAAACTATGTGAGC 59.391 50.000 0.00 0.00 0.00 4.26
1741 4116 3.679917 CGATGTGGGAAACTATGTGAGCT 60.680 47.826 0.00 0.00 0.00 4.09
1742 4117 3.334583 TGTGGGAAACTATGTGAGCTC 57.665 47.619 6.82 6.82 0.00 4.09
1749 4124 6.100279 TGGGAAACTATGTGAGCTCTATCAAT 59.900 38.462 16.19 4.10 0.00 2.57
1780 4155 1.592131 CTTGCCAGCTTTGCGCAAA 60.592 52.632 31.75 31.75 41.63 3.68
1790 4165 2.672195 GCTTTGCGCAAATTAGGAAGCT 60.672 45.455 33.64 0.00 38.92 3.74
1791 4166 2.919666 TTGCGCAAATTAGGAAGCTC 57.080 45.000 22.78 0.00 0.00 4.09
1792 4167 2.113860 TGCGCAAATTAGGAAGCTCT 57.886 45.000 8.16 0.00 0.00 4.09
1793 4168 2.009774 TGCGCAAATTAGGAAGCTCTC 58.990 47.619 8.16 0.00 0.00 3.20
1794 4169 2.284190 GCGCAAATTAGGAAGCTCTCT 58.716 47.619 0.30 0.00 0.00 3.10
1795 4170 2.286563 GCGCAAATTAGGAAGCTCTCTC 59.713 50.000 0.30 0.00 0.00 3.20
1803 4178 3.287867 AGGAAGCTCTCTCTCTCTCTG 57.712 52.381 0.00 0.00 0.00 3.35
1816 4191 1.067743 CTCTCTGTGTGCGTGCTACG 61.068 60.000 4.61 4.61 45.88 3.51
1877 4252 9.293404 CCAATTATGAATAGTTCTGATCCACAT 57.707 33.333 0.00 0.00 0.00 3.21
1939 4314 0.394625 GTCTACTGGAGGCGGTCTCT 60.395 60.000 9.80 0.00 42.10 3.10
1994 4369 0.393077 AGTTTGACCCTCTGGACACG 59.607 55.000 0.00 0.00 36.01 4.49
1998 4373 0.834612 TGACCCTCTGGACACGTTTT 59.165 50.000 0.00 0.00 31.12 2.43
2001 4376 3.071892 TGACCCTCTGGACACGTTTTTAT 59.928 43.478 0.00 0.00 31.12 1.40
2004 4379 3.684788 CCCTCTGGACACGTTTTTATGAG 59.315 47.826 0.00 0.00 0.00 2.90
2009 4384 3.124466 TGGACACGTTTTTATGAGATGCG 59.876 43.478 0.00 0.00 0.00 4.73
2011 4386 4.378046 GGACACGTTTTTATGAGATGCGTT 60.378 41.667 0.00 0.00 0.00 4.84
2016 4391 5.106317 ACGTTTTTATGAGATGCGTTCCATT 60.106 36.000 0.32 0.00 33.29 3.16
2032 4407 3.971150 TCCATTGTGTTAACCTTTTGCG 58.029 40.909 2.48 0.00 0.00 4.85
2044 4419 7.877097 TGTTAACCTTTTGCGTACTAAGGAATA 59.123 33.333 17.05 9.00 40.71 1.75
2148 4526 7.035004 GTCATCATTGCTATTTTTGGTGCTTA 58.965 34.615 0.00 0.00 0.00 3.09
2152 4530 7.385267 TCATTGCTATTTTTGGTGCTTAACAT 58.615 30.769 0.00 0.00 0.00 2.71
2213 4591 4.685924 CACCTGAAACAAATGCAGAGTTT 58.314 39.130 12.09 12.09 38.10 2.66
2617 4995 7.368198 TGTGCTACCATTATTGTCTATACCA 57.632 36.000 0.00 0.00 0.00 3.25
2629 5007 3.792114 TGTCTATACCAGAGAGGAGGGAA 59.208 47.826 0.00 0.00 41.22 3.97
2633 5011 7.186268 GTCTATACCAGAGAGGAGGGAATATT 58.814 42.308 0.00 0.00 41.22 1.28
2656 5034 7.395190 TTGATGGAAATAGGATGAACACTTG 57.605 36.000 0.00 0.00 0.00 3.16
2663 5041 6.808008 AATAGGATGAACACTTGTGTCAAG 57.192 37.500 6.88 7.78 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
64 69 7.194607 TGAAAAGTAGAAGAATCTTGCACTG 57.805 36.000 0.00 0.00 37.10 3.66
132 137 2.089980 GTTGCAGCAGGAGTTCATCAT 58.910 47.619 0.00 0.00 0.00 2.45
145 150 1.064060 AGTTTGACAACGAGTTGCAGC 59.936 47.619 15.09 6.52 44.03 5.25
221 226 3.582647 GGAACCCATGGAGGAAATTTTGT 59.417 43.478 15.22 0.00 41.22 2.83
239 244 1.992170 ACATGACGCGTAAGAGGAAC 58.008 50.000 13.97 0.00 43.56 3.62
244 249 4.304110 AGAAAAGAACATGACGCGTAAGA 58.696 39.130 13.97 0.00 43.02 2.10
249 254 3.921021 AGTAGAGAAAAGAACATGACGCG 59.079 43.478 3.53 3.53 0.00 6.01
280 285 6.015772 GGAGATGAGGAGAACATACTAACTCC 60.016 46.154 0.00 0.00 46.28 3.85
299 304 2.774351 GGGGTGGGGGAGGAGATG 60.774 72.222 0.00 0.00 0.00 2.90
387 392 6.441222 TGTAGGACATGGTTTCTAGTAGGAT 58.559 40.000 0.00 0.00 0.00 3.24
477 482 9.178758 GGAGTTTTGATATACTTGAGGTTTGAT 57.821 33.333 0.00 0.00 0.00 2.57
478 483 7.610305 GGGAGTTTTGATATACTTGAGGTTTGA 59.390 37.037 0.00 0.00 0.00 2.69
479 484 7.393234 TGGGAGTTTTGATATACTTGAGGTTTG 59.607 37.037 0.00 0.00 0.00 2.93
480 485 7.466804 TGGGAGTTTTGATATACTTGAGGTTT 58.533 34.615 0.00 0.00 0.00 3.27
489 494 8.739972 AGAAACACAATGGGAGTTTTGATATAC 58.260 33.333 0.00 0.00 35.77 1.47
503 508 1.993956 TGGGTGGAGAAACACAATGG 58.006 50.000 0.00 0.00 43.08 3.16
517 522 8.472413 AGATTTGATTTGATTTGAGTATGGGTG 58.528 33.333 0.00 0.00 0.00 4.61
536 541 9.112725 CATATTGTAGATTGTGGTGAGATTTGA 57.887 33.333 0.00 0.00 0.00 2.69
592 597 6.959639 AGTGGTTTAACAACAATCATGTCT 57.040 33.333 5.34 0.00 39.40 3.41
632 637 3.354397 GCTAATTGTACATGCTTGCGAC 58.646 45.455 0.00 0.00 0.00 5.19
662 668 7.970061 AGAATTGAACATGTGACATTTTATCCG 59.030 33.333 0.00 0.00 0.00 4.18
700 706 5.827267 TCCAACTCTCAATCAAACATGTCAA 59.173 36.000 0.00 0.00 0.00 3.18
732 738 7.039923 CCTGGAAATGGAGAGGAAATATCATTG 60.040 40.741 0.00 0.00 0.00 2.82
733 739 7.008941 CCTGGAAATGGAGAGGAAATATCATT 58.991 38.462 0.00 0.00 0.00 2.57
734 740 6.103797 ACCTGGAAATGGAGAGGAAATATCAT 59.896 38.462 0.00 0.00 0.00 2.45
735 741 5.433051 ACCTGGAAATGGAGAGGAAATATCA 59.567 40.000 0.00 0.00 0.00 2.15
736 742 5.946486 ACCTGGAAATGGAGAGGAAATATC 58.054 41.667 0.00 0.00 0.00 1.63
738 744 5.039645 AGACCTGGAAATGGAGAGGAAATA 58.960 41.667 0.00 0.00 0.00 1.40
740 746 3.009473 CAGACCTGGAAATGGAGAGGAAA 59.991 47.826 0.00 0.00 0.00 3.13
757 3132 4.083862 GACGGGTGGGCTCAGACC 62.084 72.222 0.00 0.00 0.00 3.85
786 3161 2.623889 ACATACGGTACTGCAGAGGATC 59.376 50.000 23.35 4.41 0.00 3.36
787 3162 2.362397 CACATACGGTACTGCAGAGGAT 59.638 50.000 23.35 7.89 0.00 3.24
788 3163 1.749063 CACATACGGTACTGCAGAGGA 59.251 52.381 23.35 5.65 0.00 3.71
789 3164 1.802880 GCACATACGGTACTGCAGAGG 60.803 57.143 23.35 8.56 0.00 3.69
790 3165 1.135139 AGCACATACGGTACTGCAGAG 59.865 52.381 23.35 10.96 31.71 3.35
791 3166 1.135112 CAGCACATACGGTACTGCAGA 60.135 52.381 23.35 0.48 34.26 4.26
792 3167 1.280982 CAGCACATACGGTACTGCAG 58.719 55.000 13.48 13.48 34.26 4.41
793 3168 0.606096 ACAGCACATACGGTACTGCA 59.394 50.000 17.41 0.00 43.49 4.41
794 3169 2.159282 ACTACAGCACATACGGTACTGC 60.159 50.000 0.23 10.33 43.49 4.40
795 3170 3.119602 ACACTACAGCACATACGGTACTG 60.120 47.826 0.00 0.00 44.92 2.74
796 3171 3.087031 ACACTACAGCACATACGGTACT 58.913 45.455 0.00 0.00 0.00 2.73
797 3172 3.432782 GACACTACAGCACATACGGTAC 58.567 50.000 0.00 0.00 0.00 3.34
798 3173 2.096335 CGACACTACAGCACATACGGTA 59.904 50.000 0.00 0.00 0.00 4.02
799 3174 1.135489 CGACACTACAGCACATACGGT 60.135 52.381 0.00 0.00 0.00 4.83
800 3175 1.131693 TCGACACTACAGCACATACGG 59.868 52.381 0.00 0.00 0.00 4.02
801 3176 2.537639 TCGACACTACAGCACATACG 57.462 50.000 0.00 0.00 0.00 3.06
802 3177 3.791887 GTCATCGACACTACAGCACATAC 59.208 47.826 0.00 0.00 32.09 2.39
803 3178 3.442273 TGTCATCGACACTACAGCACATA 59.558 43.478 0.00 0.00 37.67 2.29
804 3179 2.231235 TGTCATCGACACTACAGCACAT 59.769 45.455 0.00 0.00 37.67 3.21
805 3180 1.611491 TGTCATCGACACTACAGCACA 59.389 47.619 0.00 0.00 37.67 4.57
806 3181 2.347697 TGTCATCGACACTACAGCAC 57.652 50.000 0.00 0.00 37.67 4.40
807 3182 2.231235 ACATGTCATCGACACTACAGCA 59.769 45.455 0.00 0.00 45.65 4.41
808 3183 2.881074 ACATGTCATCGACACTACAGC 58.119 47.619 0.00 0.00 45.65 4.40
809 3184 4.498177 CCCTACATGTCATCGACACTACAG 60.498 50.000 0.00 0.00 45.65 2.74
810 3185 3.380320 CCCTACATGTCATCGACACTACA 59.620 47.826 0.00 0.00 45.65 2.74
811 3186 3.795826 GCCCTACATGTCATCGACACTAC 60.796 52.174 0.00 0.00 45.65 2.73
812 3187 2.361119 GCCCTACATGTCATCGACACTA 59.639 50.000 0.00 0.00 45.65 2.74
813 3188 1.137086 GCCCTACATGTCATCGACACT 59.863 52.381 0.00 0.00 45.65 3.55
814 3189 1.571919 GCCCTACATGTCATCGACAC 58.428 55.000 0.00 0.00 45.65 3.67
815 3190 0.464036 GGCCCTACATGTCATCGACA 59.536 55.000 0.00 0.00 46.90 4.35
816 3191 0.464036 TGGCCCTACATGTCATCGAC 59.536 55.000 0.00 0.00 0.00 4.20
817 3192 1.138859 CTTGGCCCTACATGTCATCGA 59.861 52.381 0.00 0.00 0.00 3.59
818 3193 1.134401 ACTTGGCCCTACATGTCATCG 60.134 52.381 0.00 0.00 0.00 3.84
819 3194 2.565841 GACTTGGCCCTACATGTCATC 58.434 52.381 0.00 0.00 42.10 2.92
820 3195 1.212935 GGACTTGGCCCTACATGTCAT 59.787 52.381 0.00 0.00 43.44 3.06
821 3196 0.618458 GGACTTGGCCCTACATGTCA 59.382 55.000 0.00 0.00 43.44 3.58
822 3197 0.107165 GGGACTTGGCCCTACATGTC 60.107 60.000 0.00 0.00 45.12 3.06
823 3198 1.999346 GGGACTTGGCCCTACATGT 59.001 57.895 3.84 2.69 45.12 3.21
824 3199 4.986467 GGGACTTGGCCCTACATG 57.014 61.111 3.84 0.00 45.12 3.21
833 3208 1.075482 ACTGCCATGTGGGACTTGG 59.925 57.895 0.54 4.63 43.88 3.61
834 3209 0.250858 TCACTGCCATGTGGGACTTG 60.251 55.000 0.54 0.00 40.01 3.16
835 3210 0.700564 ATCACTGCCATGTGGGACTT 59.299 50.000 0.54 0.00 40.01 3.01
836 3211 0.700564 AATCACTGCCATGTGGGACT 59.299 50.000 0.54 0.00 40.01 3.85
837 3212 0.813184 CAATCACTGCCATGTGGGAC 59.187 55.000 0.54 0.00 40.01 4.46
838 3213 0.405198 ACAATCACTGCCATGTGGGA 59.595 50.000 0.54 0.00 40.01 4.37
839 3214 1.745087 GTACAATCACTGCCATGTGGG 59.255 52.381 0.54 0.00 38.40 4.61
840 3215 2.435422 TGTACAATCACTGCCATGTGG 58.565 47.619 0.00 0.00 38.40 4.17
841 3216 3.252944 TGTTGTACAATCACTGCCATGTG 59.747 43.478 12.26 0.00 39.15 3.21
842 3217 3.253188 GTGTTGTACAATCACTGCCATGT 59.747 43.478 22.93 0.00 0.00 3.21
843 3218 3.252944 TGTGTTGTACAATCACTGCCATG 59.747 43.478 26.76 0.00 36.06 3.66
844 3219 3.485394 TGTGTTGTACAATCACTGCCAT 58.515 40.909 26.76 0.00 36.06 4.40
845 3220 2.924421 TGTGTTGTACAATCACTGCCA 58.076 42.857 26.76 13.07 36.06 4.92
846 3221 4.695455 AGTATGTGTTGTACAATCACTGCC 59.305 41.667 26.76 18.85 43.77 4.85
847 3222 5.621422 CAGTATGTGTTGTACAATCACTGC 58.379 41.667 26.76 20.11 43.77 4.40
864 3239 4.773149 GGGGTTAGGATCCTCTACAGTATG 59.227 50.000 20.22 0.00 46.00 2.39
865 3240 4.508763 CGGGGTTAGGATCCTCTACAGTAT 60.509 50.000 20.22 0.00 0.00 2.12
866 3241 3.181436 CGGGGTTAGGATCCTCTACAGTA 60.181 52.174 20.22 0.00 0.00 2.74
867 3242 2.424523 CGGGGTTAGGATCCTCTACAGT 60.425 54.545 20.22 0.00 0.00 3.55
868 3243 2.240279 CGGGGTTAGGATCCTCTACAG 58.760 57.143 20.22 9.23 0.00 2.74
869 3244 1.572415 ACGGGGTTAGGATCCTCTACA 59.428 52.381 20.22 0.00 0.00 2.74
870 3245 2.237643 GACGGGGTTAGGATCCTCTAC 58.762 57.143 20.22 17.23 0.00 2.59
871 3246 1.854939 TGACGGGGTTAGGATCCTCTA 59.145 52.381 20.22 4.78 0.00 2.43
872 3247 0.635009 TGACGGGGTTAGGATCCTCT 59.365 55.000 20.22 0.00 0.00 3.69
873 3248 1.718280 ATGACGGGGTTAGGATCCTC 58.282 55.000 20.22 4.44 0.00 3.71
874 3249 2.179424 AGTATGACGGGGTTAGGATCCT 59.821 50.000 20.48 20.48 0.00 3.24
875 3250 2.299297 CAGTATGACGGGGTTAGGATCC 59.701 54.545 2.48 2.48 39.69 3.36
876 3251 2.288886 GCAGTATGACGGGGTTAGGATC 60.289 54.545 0.00 0.00 39.69 3.36
877 3252 1.692519 GCAGTATGACGGGGTTAGGAT 59.307 52.381 0.00 0.00 39.69 3.24
878 3253 1.117150 GCAGTATGACGGGGTTAGGA 58.883 55.000 0.00 0.00 39.69 2.94
879 3254 1.068741 GAGCAGTATGACGGGGTTAGG 59.931 57.143 0.00 0.00 39.69 2.69
880 3255 2.032620 AGAGCAGTATGACGGGGTTAG 58.967 52.381 0.00 0.00 39.69 2.34
881 3256 1.754803 CAGAGCAGTATGACGGGGTTA 59.245 52.381 0.00 0.00 39.69 2.85
882 3257 0.537188 CAGAGCAGTATGACGGGGTT 59.463 55.000 0.00 0.00 39.69 4.11
883 3258 1.330655 CCAGAGCAGTATGACGGGGT 61.331 60.000 0.00 0.00 39.69 4.95
884 3259 1.043116 TCCAGAGCAGTATGACGGGG 61.043 60.000 0.00 0.00 39.69 5.73
885 3260 1.043816 ATCCAGAGCAGTATGACGGG 58.956 55.000 0.00 0.00 39.69 5.28
886 3261 1.683385 TCATCCAGAGCAGTATGACGG 59.317 52.381 0.00 0.00 39.69 4.79
887 3262 3.657015 ATCATCCAGAGCAGTATGACG 57.343 47.619 0.00 0.00 39.69 4.35
888 3263 5.587844 ACAAAATCATCCAGAGCAGTATGAC 59.412 40.000 0.00 0.00 39.69 3.06
889 3264 5.748402 ACAAAATCATCCAGAGCAGTATGA 58.252 37.500 0.00 0.00 39.69 2.15
890 3265 7.281774 AGTTACAAAATCATCCAGAGCAGTATG 59.718 37.037 0.00 0.00 40.87 2.39
891 3266 7.341805 AGTTACAAAATCATCCAGAGCAGTAT 58.658 34.615 0.00 0.00 0.00 2.12
892 3267 6.711277 AGTTACAAAATCATCCAGAGCAGTA 58.289 36.000 0.00 0.00 0.00 2.74
893 3268 5.564550 AGTTACAAAATCATCCAGAGCAGT 58.435 37.500 0.00 0.00 0.00 4.40
894 3269 5.065731 GGAGTTACAAAATCATCCAGAGCAG 59.934 44.000 0.00 0.00 0.00 4.24
947 3322 1.226046 ACAGTTCGCTCGATCGACG 60.226 57.895 24.43 24.43 38.30 5.12
948 3323 1.734359 GCACAGTTCGCTCGATCGAC 61.734 60.000 15.15 10.43 38.30 4.20
949 3324 1.514228 GCACAGTTCGCTCGATCGA 60.514 57.895 18.32 18.32 36.60 3.59
950 3325 2.508891 GGCACAGTTCGCTCGATCG 61.509 63.158 9.36 9.36 0.00 3.69
951 3326 1.446099 TGGCACAGTTCGCTCGATC 60.446 57.895 0.00 0.00 0.00 3.69
952 3327 1.738099 GTGGCACAGTTCGCTCGAT 60.738 57.895 13.86 0.00 41.80 3.59
962 3337 0.670162 CCTTTGGTTCAGTGGCACAG 59.330 55.000 21.41 12.62 41.80 3.66
967 3342 2.154462 CTGTAGCCTTTGGTTCAGTGG 58.846 52.381 0.00 0.00 34.02 4.00
968 3343 2.154462 CCTGTAGCCTTTGGTTCAGTG 58.846 52.381 0.00 0.00 36.12 3.66
969 3344 1.073923 CCCTGTAGCCTTTGGTTCAGT 59.926 52.381 0.00 0.00 36.12 3.41
970 3345 1.826385 CCCTGTAGCCTTTGGTTCAG 58.174 55.000 0.00 0.00 37.20 3.02
971 3346 0.251165 GCCCTGTAGCCTTTGGTTCA 60.251 55.000 0.00 0.00 0.00 3.18
972 3347 1.305930 CGCCCTGTAGCCTTTGGTTC 61.306 60.000 0.00 0.00 0.00 3.62
973 3348 1.303317 CGCCCTGTAGCCTTTGGTT 60.303 57.895 0.00 0.00 0.00 3.67
974 3349 2.351276 CGCCCTGTAGCCTTTGGT 59.649 61.111 0.00 0.00 0.00 3.67
975 3350 2.438434 CCGCCCTGTAGCCTTTGG 60.438 66.667 0.00 0.00 0.00 3.28
976 3351 1.450312 CTCCGCCCTGTAGCCTTTG 60.450 63.158 0.00 0.00 0.00 2.77
977 3352 2.670148 CCTCCGCCCTGTAGCCTTT 61.670 63.158 0.00 0.00 0.00 3.11
978 3353 3.083997 CCTCCGCCCTGTAGCCTT 61.084 66.667 0.00 0.00 0.00 4.35
1088 3463 4.227134 CGAGGCGGGTGAGGATGG 62.227 72.222 0.00 0.00 0.00 3.51
1340 3715 0.179000 GCATCGGAGGTTGATGGACT 59.821 55.000 5.25 0.00 42.73 3.85
1393 3768 3.883462 CGTGAGTTGGGCGCATAA 58.117 55.556 10.83 0.00 0.00 1.90
1449 3824 2.058593 GGAATCCAGTGAATCCCACC 57.941 55.000 0.00 0.00 46.87 4.61
1481 3856 7.361286 GGAATTCGACAAAGCTGAGTTTTAGAT 60.361 37.037 0.00 0.00 0.00 1.98
1492 3867 2.303022 TCTCCAGGAATTCGACAAAGCT 59.697 45.455 0.00 0.00 0.00 3.74
1495 3870 3.064207 CGTTCTCCAGGAATTCGACAAA 58.936 45.455 0.00 0.00 36.24 2.83
1503 3878 0.042731 TCTCCCCGTTCTCCAGGAAT 59.957 55.000 0.00 0.00 36.24 3.01
1508 3883 2.683933 GGCTCTCCCCGTTCTCCA 60.684 66.667 0.00 0.00 0.00 3.86
1554 3929 4.648762 TGAAGATTCAGGGTTTCAAGCAAA 59.351 37.500 0.00 0.00 32.50 3.68
1599 3974 3.561310 CCCACACATTTGAGTATGGATCG 59.439 47.826 0.00 0.00 0.00 3.69
1602 3977 3.329225 TCACCCACACATTTGAGTATGGA 59.671 43.478 0.00 0.00 0.00 3.41
1603 3978 3.684908 TCACCCACACATTTGAGTATGG 58.315 45.455 0.00 0.00 0.00 2.74
1605 3980 4.635765 CGAATCACCCACACATTTGAGTAT 59.364 41.667 0.00 0.00 0.00 2.12
1614 3989 2.358125 CCGCGAATCACCCACACA 60.358 61.111 8.23 0.00 0.00 3.72
1616 3991 4.402528 CCCCGCGAATCACCCACA 62.403 66.667 8.23 0.00 0.00 4.17
1658 4033 6.182627 TGCCAGTCATACTCAAAATCAGAAT 58.817 36.000 0.00 0.00 0.00 2.40
1665 4040 6.206634 CCTTAACTTGCCAGTCATACTCAAAA 59.793 38.462 0.00 0.00 30.45 2.44
1671 4046 3.623510 GCTCCTTAACTTGCCAGTCATAC 59.376 47.826 0.00 0.00 30.45 2.39
1700 4075 1.269102 CGATGTCGGCTTAATCGAGGT 60.269 52.381 2.34 0.00 44.57 3.85
1702 4077 2.401017 TCGATGTCGGCTTAATCGAG 57.599 50.000 6.81 0.00 45.18 4.04
1708 4083 0.104120 CCCACATCGATGTCGGCTTA 59.896 55.000 26.07 0.00 39.39 3.09
1712 4087 1.006832 GTTTCCCACATCGATGTCGG 58.993 55.000 29.91 29.91 39.96 4.79
1715 4090 4.081142 TCACATAGTTTCCCACATCGATGT 60.081 41.667 25.18 25.18 42.84 3.06
1725 4100 5.537300 TGATAGAGCTCACATAGTTTCCC 57.463 43.478 17.77 0.00 0.00 3.97
1740 4115 8.344098 GCAAGAAATCCTCTGAAATTGATAGAG 58.656 37.037 6.81 6.81 38.10 2.43
1741 4116 7.284034 GGCAAGAAATCCTCTGAAATTGATAGA 59.716 37.037 0.00 0.00 33.37 1.98
1742 4117 7.067859 TGGCAAGAAATCCTCTGAAATTGATAG 59.932 37.037 0.00 0.00 33.37 2.08
1749 4124 2.821969 GCTGGCAAGAAATCCTCTGAAA 59.178 45.455 0.00 0.00 33.37 2.69
1780 4155 5.103940 ACAGAGAGAGAGAGAGCTTCCTAAT 60.104 44.000 0.00 0.00 0.00 1.73
1790 4165 1.271108 ACGCACACAGAGAGAGAGAGA 60.271 52.381 0.00 0.00 0.00 3.10
1791 4166 1.135717 CACGCACACAGAGAGAGAGAG 60.136 57.143 0.00 0.00 0.00 3.20
1792 4167 0.877743 CACGCACACAGAGAGAGAGA 59.122 55.000 0.00 0.00 0.00 3.10
1793 4168 0.732196 GCACGCACACAGAGAGAGAG 60.732 60.000 0.00 0.00 0.00 3.20
1794 4169 1.175347 AGCACGCACACAGAGAGAGA 61.175 55.000 0.00 0.00 0.00 3.10
1795 4170 0.523519 TAGCACGCACACAGAGAGAG 59.476 55.000 0.00 0.00 0.00 3.20
1816 4191 6.128117 TGGTAAGAACAGAAAATTACCGATGC 60.128 38.462 8.09 0.00 46.67 3.91
1863 4238 5.244402 TCAATGCAAAATGTGGATCAGAACT 59.756 36.000 0.00 0.00 37.29 3.01
1877 4252 5.142061 AGCATGTGAATCTCAATGCAAAA 57.858 34.783 17.81 0.00 40.24 2.44
1922 4297 0.457851 CAAGAGACCGCCTCCAGTAG 59.542 60.000 0.00 0.00 42.97 2.57
1994 4369 6.033831 CACAATGGAACGCATCTCATAAAAAC 59.966 38.462 0.00 0.00 0.00 2.43
1998 4373 4.260985 ACACAATGGAACGCATCTCATAA 58.739 39.130 0.00 0.00 0.00 1.90
2001 4376 2.183478 ACACAATGGAACGCATCTCA 57.817 45.000 0.00 0.00 0.00 3.27
2004 4379 3.190535 AGGTTAACACAATGGAACGCATC 59.809 43.478 8.10 0.00 0.00 3.91
2009 4384 4.208253 CGCAAAAGGTTAACACAATGGAAC 59.792 41.667 8.10 0.00 0.00 3.62
2011 4386 3.381908 ACGCAAAAGGTTAACACAATGGA 59.618 39.130 8.10 0.00 0.00 3.41
2016 4391 5.236911 CCTTAGTACGCAAAAGGTTAACACA 59.763 40.000 8.10 0.00 35.95 3.72
2053 4428 9.932207 TCATACCGTAATTTCAAGTTCTTCTAA 57.068 29.630 0.00 0.00 0.00 2.10
2119 4497 5.954150 ACCAAAAATAGCAATGATGACCTCT 59.046 36.000 0.00 0.00 0.00 3.69
2167 4545 1.846439 CCCCATCACCATAGGTCTTGT 59.154 52.381 0.00 0.00 31.02 3.16
2168 4546 2.126882 TCCCCATCACCATAGGTCTTG 58.873 52.381 0.00 0.00 31.02 3.02
2169 4547 2.587060 TCCCCATCACCATAGGTCTT 57.413 50.000 0.00 0.00 31.02 3.01
2170 4548 2.342659 CATCCCCATCACCATAGGTCT 58.657 52.381 0.00 0.00 31.02 3.85
2171 4549 1.271597 GCATCCCCATCACCATAGGTC 60.272 57.143 0.00 0.00 31.02 3.85
2172 4550 0.773644 GCATCCCCATCACCATAGGT 59.226 55.000 0.00 0.00 35.62 3.08
2173 4551 0.773014 TGCATCCCCATCACCATAGG 59.227 55.000 0.00 0.00 0.00 2.57
2174 4552 1.901591 GTGCATCCCCATCACCATAG 58.098 55.000 0.00 0.00 0.00 2.23
2213 4591 5.822519 GGCATCAGTCCATTGTGTATTTAGA 59.177 40.000 0.00 0.00 0.00 2.10
2257 4635 7.388500 ACCAGCCAATATTTTTCATTTTCACAG 59.612 33.333 0.00 0.00 0.00 3.66
2572 4950 5.418840 CACATAATATATCAACCCAAGGGCC 59.581 44.000 4.70 0.00 39.32 5.80
2617 4995 5.098575 TCCATCAATATTCCCTCCTCTCT 57.901 43.478 0.00 0.00 0.00 3.10
2629 5007 9.872684 AAGTGTTCATCCTATTTCCATCAATAT 57.127 29.630 0.00 0.00 0.00 1.28
2633 5011 6.375174 CACAAGTGTTCATCCTATTTCCATCA 59.625 38.462 0.00 0.00 0.00 3.07
2656 5034 5.929697 TCACATGTGATTTCTCTTGACAC 57.070 39.130 24.56 0.00 34.14 3.67


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

AutoCloner maintained by Alex Coulton.