Multiple sequence alignment - TraesCS4A01G420600

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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 TraesCS4A01G420600 chr4A 100.000 3143 0 0 1 3143 691122920 691126062 0.000000e+00 5805.0
1 TraesCS4A01G420600 chr4A 98.485 198 3 0 523 720 691118517 691118714 1.790000e-92 350.0
2 TraesCS4A01G420600 chr4A 73.333 315 82 2 3 316 471722631 471722944 7.120000e-22 115.0
3 TraesCS4A01G420600 chr7A 90.777 2266 114 33 932 3143 34708505 34706281 0.000000e+00 2939.0
4 TraesCS4A01G420600 chr7A 88.889 171 16 3 722 890 711462135 711461966 1.140000e-49 207.0
5 TraesCS4A01G420600 chr7D 89.474 2223 122 44 971 3143 34303317 34301157 0.000000e+00 2706.0
6 TraesCS4A01G420600 chr7D 89.163 203 21 1 722 924 42383028 42383229 5.200000e-63 252.0
7 TraesCS4A01G420600 chr4B 95.833 720 30 0 1 720 67378100 67377381 0.000000e+00 1164.0
8 TraesCS4A01G420600 chr4B 94.444 198 11 0 523 720 67382280 67382083 3.940000e-79 305.0
9 TraesCS4A01G420600 chr5D 91.358 729 53 4 1 720 204178112 204177385 0.000000e+00 989.0
10 TraesCS4A01G420600 chr5D 90.404 198 7 6 519 713 204182548 204182360 1.870000e-62 250.0
11 TraesCS4A01G420600 chr6B 94.340 636 34 2 1 636 436707482 436708115 0.000000e+00 974.0
12 TraesCS4A01G420600 chr6B 96.610 177 5 1 523 699 436672254 436672429 3.070000e-75 292.0
13 TraesCS4A01G420600 chr6B 83.696 92 3 1 628 719 436708273 436708352 3.360000e-10 76.8
14 TraesCS4A01G420600 chr2D 86.815 493 53 8 1 493 267280666 267281146 9.920000e-150 540.0
15 TraesCS4A01G420600 chr3D 90.148 203 19 1 722 924 22552731 22552932 2.400000e-66 263.0
16 TraesCS4A01G420600 chr4D 92.308 39 3 0 886 924 3310817 3310855 4.380000e-04 56.5


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 TraesCS4A01G420600 chr4A 691122920 691126062 3142 False 5805.0 5805 100.0000 1 3143 1 chr4A.!!$F3 3142
1 TraesCS4A01G420600 chr7A 34706281 34708505 2224 True 2939.0 2939 90.7770 932 3143 1 chr7A.!!$R1 2211
2 TraesCS4A01G420600 chr7D 34301157 34303317 2160 True 2706.0 2706 89.4740 971 3143 1 chr7D.!!$R1 2172
3 TraesCS4A01G420600 chr4B 67377381 67382280 4899 True 734.5 1164 95.1385 1 720 2 chr4B.!!$R1 719
4 TraesCS4A01G420600 chr5D 204177385 204178112 727 True 989.0 989 91.3580 1 720 1 chr5D.!!$R1 719
5 TraesCS4A01G420600 chr6B 436707482 436708352 870 False 525.4 974 89.0180 1 719 2 chr6B.!!$F2 718

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
861 5217 0.106708 TGAGAGTTTTGAGGTGCGCT 59.893 50.0 9.73 0.0 0.0 5.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2280 6682 0.616964 ATCCAGACCAGAGCTGAGCA 60.617 55.0 7.39 0.0 35.39 4.26 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
27 4208 0.452184 TCACGGAAGATGCTCTCGAC 59.548 55.000 0.00 0.00 0.00 4.20
71 4252 0.669318 GTCTTCCGGTTGCATCACGA 60.669 55.000 0.00 0.00 0.00 4.35
114 4295 1.072332 TGGCGTACAACCAGTGCAT 59.928 52.632 0.46 0.00 32.52 3.96
233 4414 2.110213 TGTTGAAGAACCGGCGCT 59.890 55.556 7.64 0.00 0.00 5.92
394 4575 1.383109 ATCAGGGAGGATGGCGTCA 60.383 57.895 9.27 0.00 0.00 4.35
395 4576 1.690219 ATCAGGGAGGATGGCGTCAC 61.690 60.000 9.27 1.97 32.57 3.67
472 4653 1.038130 CGTGGGAGGAACGAGGAGAT 61.038 60.000 0.00 0.00 43.68 2.75
556 4737 4.820897 AGAGATCGAACACACTTTGCATA 58.179 39.130 0.00 0.00 0.00 3.14
706 5062 7.751793 TCGTACAATACACAGTACAATACACAG 59.248 37.037 0.00 0.00 40.37 3.66
707 5063 7.539710 CGTACAATACACAGTACAATACACAGT 59.460 37.037 0.00 0.00 40.37 3.55
727 5083 9.587772 ACACAGTAGTATTCTAACATGATTGAC 57.412 33.333 0.00 0.00 0.00 3.18
728 5084 9.035607 CACAGTAGTATTCTAACATGATTGACC 57.964 37.037 0.00 0.00 0.00 4.02
729 5085 8.758829 ACAGTAGTATTCTAACATGATTGACCA 58.241 33.333 0.00 0.00 0.00 4.02
730 5086 9.770097 CAGTAGTATTCTAACATGATTGACCAT 57.230 33.333 0.00 0.00 0.00 3.55
731 5087 9.770097 AGTAGTATTCTAACATGATTGACCATG 57.230 33.333 0.00 0.00 46.90 3.66
746 5102 1.133253 CATGTTCTGGAGCGTTGCG 59.867 57.895 0.00 0.00 0.00 4.85
772 5128 2.998668 CGAACACCGCTATCATTGTC 57.001 50.000 0.00 0.00 0.00 3.18
773 5129 1.255342 CGAACACCGCTATCATTGTCG 59.745 52.381 0.00 0.00 0.00 4.35
774 5130 1.593006 GAACACCGCTATCATTGTCGG 59.407 52.381 0.00 0.00 46.61 4.79
777 5133 3.659850 CCGCTATCATTGTCGGTGA 57.340 52.632 0.00 0.00 37.33 4.02
778 5134 1.491670 CCGCTATCATTGTCGGTGAG 58.508 55.000 0.00 0.00 37.33 3.51
779 5135 1.491670 CGCTATCATTGTCGGTGAGG 58.508 55.000 0.00 0.00 0.00 3.86
780 5136 1.869754 CGCTATCATTGTCGGTGAGGG 60.870 57.143 0.00 0.00 0.00 4.30
781 5137 1.139058 GCTATCATTGTCGGTGAGGGT 59.861 52.381 0.00 0.00 0.00 4.34
782 5138 2.826428 CTATCATTGTCGGTGAGGGTG 58.174 52.381 0.00 0.00 0.00 4.61
783 5139 0.253044 ATCATTGTCGGTGAGGGTGG 59.747 55.000 0.00 0.00 0.00 4.61
784 5140 2.040544 CATTGTCGGTGAGGGTGGC 61.041 63.158 0.00 0.00 0.00 5.01
785 5141 2.525124 ATTGTCGGTGAGGGTGGCA 61.525 57.895 0.00 0.00 0.00 4.92
786 5142 2.063015 ATTGTCGGTGAGGGTGGCAA 62.063 55.000 0.00 0.00 0.00 4.52
787 5143 2.358737 GTCGGTGAGGGTGGCAAG 60.359 66.667 0.00 0.00 0.00 4.01
788 5144 3.636231 TCGGTGAGGGTGGCAAGG 61.636 66.667 0.00 0.00 0.00 3.61
789 5145 3.636231 CGGTGAGGGTGGCAAGGA 61.636 66.667 0.00 0.00 0.00 3.36
790 5146 2.352805 GGTGAGGGTGGCAAGGAG 59.647 66.667 0.00 0.00 0.00 3.69
791 5147 2.360475 GTGAGGGTGGCAAGGAGC 60.360 66.667 0.00 0.00 44.65 4.70
800 5156 4.972875 GCAAGGAGCATAGGCAGT 57.027 55.556 0.67 0.00 44.61 4.40
802 5158 2.332063 GCAAGGAGCATAGGCAGTAA 57.668 50.000 0.67 0.00 44.61 2.24
803 5159 2.643551 GCAAGGAGCATAGGCAGTAAA 58.356 47.619 0.67 0.00 44.61 2.01
804 5160 2.615912 GCAAGGAGCATAGGCAGTAAAG 59.384 50.000 0.67 0.00 44.61 1.85
805 5161 3.209410 CAAGGAGCATAGGCAGTAAAGG 58.791 50.000 0.67 0.00 44.61 3.11
806 5162 2.482494 AGGAGCATAGGCAGTAAAGGT 58.518 47.619 0.67 0.00 44.61 3.50
807 5163 2.171448 AGGAGCATAGGCAGTAAAGGTG 59.829 50.000 0.67 0.00 44.61 4.00
808 5164 2.565841 GAGCATAGGCAGTAAAGGTGG 58.434 52.381 0.67 0.00 44.61 4.61
809 5165 1.212935 AGCATAGGCAGTAAAGGTGGG 59.787 52.381 0.67 0.00 44.61 4.61
810 5166 1.750682 GCATAGGCAGTAAAGGTGGGG 60.751 57.143 0.00 0.00 40.72 4.96
811 5167 1.564348 CATAGGCAGTAAAGGTGGGGT 59.436 52.381 0.00 0.00 0.00 4.95
812 5168 0.988832 TAGGCAGTAAAGGTGGGGTG 59.011 55.000 0.00 0.00 0.00 4.61
813 5169 0.770557 AGGCAGTAAAGGTGGGGTGA 60.771 55.000 0.00 0.00 0.00 4.02
814 5170 0.608308 GGCAGTAAAGGTGGGGTGAC 60.608 60.000 0.00 0.00 0.00 3.67
815 5171 0.953960 GCAGTAAAGGTGGGGTGACG 60.954 60.000 0.00 0.00 0.00 4.35
816 5172 0.395312 CAGTAAAGGTGGGGTGACGT 59.605 55.000 0.00 0.00 0.00 4.34
817 5173 0.395312 AGTAAAGGTGGGGTGACGTG 59.605 55.000 0.00 0.00 0.00 4.49
818 5174 0.107268 GTAAAGGTGGGGTGACGTGT 59.893 55.000 0.00 0.00 0.00 4.49
819 5175 0.838608 TAAAGGTGGGGTGACGTGTT 59.161 50.000 0.00 0.00 0.00 3.32
820 5176 0.750182 AAAGGTGGGGTGACGTGTTG 60.750 55.000 0.00 0.00 0.00 3.33
821 5177 1.628238 AAGGTGGGGTGACGTGTTGA 61.628 55.000 0.00 0.00 0.00 3.18
822 5178 1.153127 GGTGGGGTGACGTGTTGAA 60.153 57.895 0.00 0.00 0.00 2.69
823 5179 0.748729 GGTGGGGTGACGTGTTGAAA 60.749 55.000 0.00 0.00 0.00 2.69
824 5180 1.314730 GTGGGGTGACGTGTTGAAAT 58.685 50.000 0.00 0.00 0.00 2.17
825 5181 2.496111 GTGGGGTGACGTGTTGAAATA 58.504 47.619 0.00 0.00 0.00 1.40
826 5182 3.078837 GTGGGGTGACGTGTTGAAATAT 58.921 45.455 0.00 0.00 0.00 1.28
827 5183 4.255301 GTGGGGTGACGTGTTGAAATATA 58.745 43.478 0.00 0.00 0.00 0.86
828 5184 4.879545 GTGGGGTGACGTGTTGAAATATAT 59.120 41.667 0.00 0.00 0.00 0.86
829 5185 4.878971 TGGGGTGACGTGTTGAAATATATG 59.121 41.667 0.00 0.00 0.00 1.78
830 5186 5.120399 GGGGTGACGTGTTGAAATATATGA 58.880 41.667 0.00 0.00 0.00 2.15
831 5187 5.007332 GGGGTGACGTGTTGAAATATATGAC 59.993 44.000 0.00 0.00 0.00 3.06
832 5188 5.583061 GGGTGACGTGTTGAAATATATGACA 59.417 40.000 0.00 0.00 0.00 3.58
833 5189 6.260050 GGGTGACGTGTTGAAATATATGACAT 59.740 38.462 0.00 0.00 0.00 3.06
834 5190 7.345192 GGTGACGTGTTGAAATATATGACATC 58.655 38.462 0.00 0.00 0.00 3.06
835 5191 7.057402 GTGACGTGTTGAAATATATGACATCG 58.943 38.462 0.00 0.85 0.00 3.84
836 5192 6.975772 TGACGTGTTGAAATATATGACATCGA 59.024 34.615 0.00 0.00 0.00 3.59
837 5193 7.043656 TGACGTGTTGAAATATATGACATCGAC 60.044 37.037 0.00 9.16 0.00 4.20
838 5194 6.200286 ACGTGTTGAAATATATGACATCGACC 59.800 38.462 0.00 0.00 0.00 4.79
839 5195 6.420903 CGTGTTGAAATATATGACATCGACCT 59.579 38.462 0.00 0.00 0.00 3.85
840 5196 7.567571 GTGTTGAAATATATGACATCGACCTG 58.432 38.462 0.00 0.00 0.00 4.00
841 5197 7.224753 GTGTTGAAATATATGACATCGACCTGT 59.775 37.037 0.00 0.00 0.00 4.00
842 5198 7.768582 TGTTGAAATATATGACATCGACCTGTT 59.231 33.333 0.00 0.00 0.00 3.16
843 5199 7.713764 TGAAATATATGACATCGACCTGTTG 57.286 36.000 0.00 0.00 0.00 3.33
844 5200 7.496747 TGAAATATATGACATCGACCTGTTGA 58.503 34.615 0.00 0.00 0.00 3.18
845 5201 7.653311 TGAAATATATGACATCGACCTGTTGAG 59.347 37.037 0.00 0.00 0.00 3.02
846 5202 6.901081 ATATATGACATCGACCTGTTGAGA 57.099 37.500 0.00 0.00 0.00 3.27
847 5203 3.516981 ATGACATCGACCTGTTGAGAG 57.483 47.619 0.00 0.00 0.00 3.20
848 5204 2.239400 TGACATCGACCTGTTGAGAGT 58.761 47.619 0.00 0.00 0.00 3.24
849 5205 2.628178 TGACATCGACCTGTTGAGAGTT 59.372 45.455 0.00 0.00 0.00 3.01
850 5206 3.069586 TGACATCGACCTGTTGAGAGTTT 59.930 43.478 0.00 0.00 0.00 2.66
851 5207 4.058817 GACATCGACCTGTTGAGAGTTTT 58.941 43.478 0.00 0.00 0.00 2.43
852 5208 3.809832 ACATCGACCTGTTGAGAGTTTTG 59.190 43.478 0.00 0.00 0.00 2.44
853 5209 3.812156 TCGACCTGTTGAGAGTTTTGA 57.188 42.857 0.00 0.00 0.00 2.69
854 5210 3.717707 TCGACCTGTTGAGAGTTTTGAG 58.282 45.455 0.00 0.00 0.00 3.02
855 5211 2.802816 CGACCTGTTGAGAGTTTTGAGG 59.197 50.000 0.00 0.00 0.00 3.86
856 5212 3.741388 CGACCTGTTGAGAGTTTTGAGGT 60.741 47.826 0.00 0.00 35.01 3.85
857 5213 3.545703 ACCTGTTGAGAGTTTTGAGGTG 58.454 45.455 0.00 0.00 31.05 4.00
858 5214 2.291741 CCTGTTGAGAGTTTTGAGGTGC 59.708 50.000 0.00 0.00 0.00 5.01
859 5215 1.939934 TGTTGAGAGTTTTGAGGTGCG 59.060 47.619 0.00 0.00 0.00 5.34
860 5216 0.944386 TTGAGAGTTTTGAGGTGCGC 59.056 50.000 0.00 0.00 0.00 6.09
861 5217 0.106708 TGAGAGTTTTGAGGTGCGCT 59.893 50.000 9.73 0.00 0.00 5.92
862 5218 1.230324 GAGAGTTTTGAGGTGCGCTT 58.770 50.000 9.73 0.00 0.00 4.68
863 5219 2.224185 TGAGAGTTTTGAGGTGCGCTTA 60.224 45.455 9.73 0.00 0.00 3.09
864 5220 3.003480 GAGAGTTTTGAGGTGCGCTTAT 58.997 45.455 9.73 0.00 0.00 1.73
865 5221 3.412386 AGAGTTTTGAGGTGCGCTTATT 58.588 40.909 9.73 0.00 0.00 1.40
866 5222 3.189287 AGAGTTTTGAGGTGCGCTTATTG 59.811 43.478 9.73 0.00 0.00 1.90
867 5223 2.884639 AGTTTTGAGGTGCGCTTATTGT 59.115 40.909 9.73 0.00 0.00 2.71
868 5224 3.058224 AGTTTTGAGGTGCGCTTATTGTC 60.058 43.478 9.73 0.00 0.00 3.18
869 5225 1.448985 TTGAGGTGCGCTTATTGTCC 58.551 50.000 9.73 0.00 0.00 4.02
870 5226 0.323302 TGAGGTGCGCTTATTGTCCA 59.677 50.000 9.73 0.00 0.00 4.02
871 5227 1.271108 TGAGGTGCGCTTATTGTCCAA 60.271 47.619 9.73 0.00 0.00 3.53
872 5228 1.398390 GAGGTGCGCTTATTGTCCAAG 59.602 52.381 9.73 0.00 0.00 3.61
873 5229 1.003118 AGGTGCGCTTATTGTCCAAGA 59.997 47.619 9.73 0.00 0.00 3.02
874 5230 1.398390 GGTGCGCTTATTGTCCAAGAG 59.602 52.381 9.73 0.00 0.00 2.85
875 5231 1.398390 GTGCGCTTATTGTCCAAGAGG 59.602 52.381 9.73 0.00 0.00 3.69
876 5232 0.378610 GCGCTTATTGTCCAAGAGGC 59.621 55.000 0.00 0.00 32.31 4.70
877 5233 1.737838 CGCTTATTGTCCAAGAGGCA 58.262 50.000 9.02 0.00 34.82 4.75
878 5234 2.083774 CGCTTATTGTCCAAGAGGCAA 58.916 47.619 9.02 0.00 34.82 4.52
879 5235 2.096496 CGCTTATTGTCCAAGAGGCAAG 59.904 50.000 9.02 0.00 34.82 4.01
880 5236 3.347216 GCTTATTGTCCAAGAGGCAAGA 58.653 45.455 4.18 0.00 35.17 3.02
881 5237 3.376546 GCTTATTGTCCAAGAGGCAAGAG 59.623 47.826 4.18 0.00 35.17 2.85
882 5238 4.836825 CTTATTGTCCAAGAGGCAAGAGA 58.163 43.478 0.00 0.00 35.44 3.10
883 5239 2.550830 TTGTCCAAGAGGCAAGAGAC 57.449 50.000 0.00 0.00 33.74 3.36
884 5240 1.423584 TGTCCAAGAGGCAAGAGACA 58.576 50.000 0.00 0.00 33.74 3.41
885 5241 1.980765 TGTCCAAGAGGCAAGAGACAT 59.019 47.619 0.00 0.00 33.74 3.06
886 5242 2.027745 TGTCCAAGAGGCAAGAGACATC 60.028 50.000 0.00 0.00 33.74 3.06
887 5243 2.235898 GTCCAAGAGGCAAGAGACATCT 59.764 50.000 0.00 0.00 33.60 2.90
889 5245 3.328931 TCCAAGAGGCAAGAGACATCTTT 59.671 43.478 0.00 0.00 44.15 2.52
890 5246 4.077822 CCAAGAGGCAAGAGACATCTTTT 58.922 43.478 0.00 0.00 43.45 2.27
891 5247 4.522022 CCAAGAGGCAAGAGACATCTTTTT 59.478 41.667 0.00 0.00 43.45 1.94
907 5263 1.634702 TTTTTCCTGTTGCAACGCAC 58.365 45.000 23.79 1.83 38.71 5.34
908 5264 0.524392 TTTTCCTGTTGCAACGCACG 60.524 50.000 23.79 12.07 38.71 5.34
909 5265 1.649390 TTTCCTGTTGCAACGCACGT 61.649 50.000 23.79 0.00 38.71 4.49
910 5266 0.810426 TTCCTGTTGCAACGCACGTA 60.810 50.000 23.79 5.01 38.71 3.57
911 5267 1.083015 CCTGTTGCAACGCACGTAC 60.083 57.895 23.79 0.00 38.71 3.67
912 5268 1.639000 CTGTTGCAACGCACGTACA 59.361 52.632 23.79 4.25 38.71 2.90
913 5269 0.234625 CTGTTGCAACGCACGTACAT 59.765 50.000 23.79 0.00 38.71 2.29
914 5270 1.457683 CTGTTGCAACGCACGTACATA 59.542 47.619 23.79 2.06 38.71 2.29
915 5271 2.070028 TGTTGCAACGCACGTACATAT 58.930 42.857 23.79 0.00 38.71 1.78
916 5272 2.480802 TGTTGCAACGCACGTACATATT 59.519 40.909 23.79 0.00 38.71 1.28
917 5273 3.058846 TGTTGCAACGCACGTACATATTT 60.059 39.130 23.79 0.00 38.71 1.40
918 5274 3.110593 TGCAACGCACGTACATATTTG 57.889 42.857 0.00 0.00 31.71 2.32
919 5275 1.837747 GCAACGCACGTACATATTTGC 59.162 47.619 0.00 0.00 0.00 3.68
920 5276 2.475519 GCAACGCACGTACATATTTGCT 60.476 45.455 0.00 0.00 35.95 3.91
921 5277 3.242155 GCAACGCACGTACATATTTGCTA 60.242 43.478 0.00 0.00 35.95 3.49
922 5278 4.505300 CAACGCACGTACATATTTGCTAG 58.495 43.478 0.00 0.00 32.56 3.42
923 5279 3.777478 ACGCACGTACATATTTGCTAGT 58.223 40.909 0.00 0.00 32.56 2.57
924 5280 3.795101 ACGCACGTACATATTTGCTAGTC 59.205 43.478 0.00 0.00 32.56 2.59
925 5281 3.794564 CGCACGTACATATTTGCTAGTCA 59.205 43.478 0.00 0.00 32.56 3.41
926 5282 4.085568 CGCACGTACATATTTGCTAGTCAG 60.086 45.833 0.00 0.00 32.56 3.51
927 5283 4.209288 GCACGTACATATTTGCTAGTCAGG 59.791 45.833 0.00 0.00 32.00 3.86
928 5284 4.209288 CACGTACATATTTGCTAGTCAGGC 59.791 45.833 0.00 0.00 0.00 4.85
929 5285 4.099573 ACGTACATATTTGCTAGTCAGGCT 59.900 41.667 0.00 0.00 0.00 4.58
930 5286 4.681942 CGTACATATTTGCTAGTCAGGCTC 59.318 45.833 0.00 0.00 0.00 4.70
934 5290 5.587844 ACATATTTGCTAGTCAGGCTCAAAG 59.412 40.000 3.66 0.00 31.33 2.77
942 5298 3.185203 AGGCTCAAAGGTGGCCCA 61.185 61.111 0.00 0.00 40.22 5.36
946 5302 1.303643 CTCAAAGGTGGCCCAGTCC 60.304 63.158 0.00 0.00 0.00 3.85
953 5309 3.636231 TGGCCCAGTCCCGTGAAG 61.636 66.667 0.00 0.00 0.00 3.02
954 5310 3.319198 GGCCCAGTCCCGTGAAGA 61.319 66.667 0.00 0.00 0.00 2.87
959 5316 1.271379 CCCAGTCCCGTGAAGAATTGT 60.271 52.381 0.00 0.00 0.00 2.71
966 5323 3.328343 TCCCGTGAAGAATTGTAGGGAAA 59.672 43.478 0.00 0.00 42.83 3.13
967 5324 3.439129 CCCGTGAAGAATTGTAGGGAAAC 59.561 47.826 0.00 0.00 39.71 2.78
969 5326 4.154195 CCGTGAAGAATTGTAGGGAAACAG 59.846 45.833 0.00 0.00 0.00 3.16
974 5331 4.911390 AGAATTGTAGGGAAACAGTCCTG 58.089 43.478 0.00 0.00 46.92 3.86
983 5340 6.051179 AGGGAAACAGTCCTGATTAGTAAC 57.949 41.667 0.40 0.00 46.92 2.50
990 5347 6.971340 ACAGTCCTGATTAGTAACTCCTCTA 58.029 40.000 0.40 0.00 0.00 2.43
1168 5525 2.574399 GTCCCGTGCCACTCTCTC 59.426 66.667 0.00 0.00 0.00 3.20
1172 5529 2.716017 CCGTGCCACTCTCTCTCCC 61.716 68.421 0.00 0.00 0.00 4.30
1173 5530 1.979155 CGTGCCACTCTCTCTCCCA 60.979 63.158 0.00 0.00 0.00 4.37
1174 5531 1.594310 GTGCCACTCTCTCTCCCAC 59.406 63.158 0.00 0.00 0.00 4.61
1175 5532 1.979155 TGCCACTCTCTCTCCCACG 60.979 63.158 0.00 0.00 0.00 4.94
1176 5533 2.888863 CCACTCTCTCTCCCACGC 59.111 66.667 0.00 0.00 0.00 5.34
1177 5534 2.716017 CCACTCTCTCTCCCACGCC 61.716 68.421 0.00 0.00 0.00 5.68
1178 5535 2.363147 ACTCTCTCTCCCACGCCC 60.363 66.667 0.00 0.00 0.00 6.13
1179 5536 2.363018 CTCTCTCTCCCACGCCCA 60.363 66.667 0.00 0.00 0.00 5.36
1180 5537 2.680352 TCTCTCTCCCACGCCCAC 60.680 66.667 0.00 0.00 0.00 4.61
1181 5538 2.681778 CTCTCTCCCACGCCCACT 60.682 66.667 0.00 0.00 0.00 4.00
1182 5539 2.680352 TCTCTCCCACGCCCACTC 60.680 66.667 0.00 0.00 0.00 3.51
1183 5540 3.775654 CTCTCCCACGCCCACTCC 61.776 72.222 0.00 0.00 0.00 3.85
1594 5951 3.083997 GGGTCGCTGTCCATCCCT 61.084 66.667 0.00 0.00 35.63 4.20
1601 5958 3.083349 TGTCCATCCCTCTGGCCG 61.083 66.667 0.00 0.00 36.16 6.13
2087 6444 1.348594 GCCTCGTCGTAGCAAATGC 59.651 57.895 0.00 0.00 42.49 3.56
2109 6466 4.127171 CGTTCATCATAGACCGGGATTTT 58.873 43.478 6.32 0.00 0.00 1.82
2142 6505 9.569122 TGTAGAGTGTAGCTAATACATGTATCA 57.431 33.333 18.52 8.48 45.94 2.15
2176 6552 0.798776 CTCGGTGGTTCAAGCATGAC 59.201 55.000 0.00 0.00 34.61 3.06
2182 6558 2.096218 GTGGTTCAAGCATGACTCGTTC 60.096 50.000 0.00 0.00 34.61 3.95
2183 6559 2.224281 TGGTTCAAGCATGACTCGTTCT 60.224 45.455 0.00 0.00 34.61 3.01
2184 6560 2.808543 GGTTCAAGCATGACTCGTTCTT 59.191 45.455 0.00 0.00 34.61 2.52
2210 6586 1.630244 ATCGTGCTGCGTCAAAGCTC 61.630 55.000 0.00 0.00 41.42 4.09
2218 6594 1.868997 CGTCAAAGCTCGGCATTGT 59.131 52.632 11.65 0.00 38.23 2.71
2242 6618 6.096001 GTGCCATGAGTTTCTTCTTGGATAAT 59.904 38.462 10.94 0.00 42.19 1.28
2256 6632 4.038271 TGGATAATGGAGGAATGCCATC 57.962 45.455 0.00 0.00 45.11 3.51
2257 6633 3.398629 TGGATAATGGAGGAATGCCATCA 59.601 43.478 0.00 0.00 45.11 3.07
2285 6687 1.839354 TGGACATCCTAGCATTGCTCA 59.161 47.619 15.81 1.12 40.44 4.26
2297 6699 0.252479 ATTGCTCAGCTCTGGTCTGG 59.748 55.000 0.00 0.00 32.63 3.86
2321 6723 1.271934 CCAGTGGACTCAGAGTCAGTG 59.728 57.143 28.26 23.60 46.79 3.66
2322 6724 2.234143 CAGTGGACTCAGAGTCAGTGA 58.766 52.381 28.26 9.30 46.79 3.41
2323 6725 2.228582 CAGTGGACTCAGAGTCAGTGAG 59.771 54.545 28.26 12.39 46.79 3.51
2324 6726 2.107378 AGTGGACTCAGAGTCAGTGAGA 59.893 50.000 28.26 5.46 46.79 3.27
2325 6727 2.887783 GTGGACTCAGAGTCAGTGAGAA 59.112 50.000 28.26 5.42 46.79 2.87
2326 6728 2.887783 TGGACTCAGAGTCAGTGAGAAC 59.112 50.000 28.26 11.53 46.79 3.01
2327 6729 3.153919 GGACTCAGAGTCAGTGAGAACT 58.846 50.000 28.26 0.00 46.79 3.01
2348 6750 1.227205 GGAGATGTGGAGCAGAGCG 60.227 63.158 0.00 0.00 0.00 5.03
2363 6770 0.026803 GAGCGGCTGCAGATAAAACG 59.973 55.000 21.93 11.92 46.23 3.60
2491 6904 3.760035 CAGTGTCCTCCCCGTCCG 61.760 72.222 0.00 0.00 0.00 4.79
2492 6905 4.296729 AGTGTCCTCCCCGTCCGT 62.297 66.667 0.00 0.00 0.00 4.69
2502 6915 4.675029 CCGTCCGTCCGCAACCTT 62.675 66.667 0.00 0.00 0.00 3.50
2812 7249 0.107752 GAGGCCAAGAAGAGGAGCAG 60.108 60.000 5.01 0.00 0.00 4.24
2814 7251 0.326264 GGCCAAGAAGAGGAGCAGAA 59.674 55.000 0.00 0.00 0.00 3.02
2991 7428 0.674895 CCTCCACAAGCACCAGTAGC 60.675 60.000 0.00 0.00 0.00 3.58
2996 7433 0.182537 ACAAGCACCAGTAGCAACCA 59.817 50.000 0.00 0.00 0.00 3.67
3000 7437 1.028905 GCACCAGTAGCAACCACAAA 58.971 50.000 0.00 0.00 0.00 2.83
3001 7438 1.407258 GCACCAGTAGCAACCACAAAA 59.593 47.619 0.00 0.00 0.00 2.44
3007 7444 4.487948 CAGTAGCAACCACAAAATCATGG 58.512 43.478 0.00 0.00 42.13 3.66
3076 7531 3.843240 CGGCGAAGAAGCGTGCTC 61.843 66.667 0.00 0.00 38.18 4.26
3130 7586 4.015084 AGACAGCTCTGCTTTTTATGCAT 58.985 39.130 3.79 3.79 39.86 3.96
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
89 4270 0.398696 TGGTTGTACGCCACCATCTT 59.601 50.000 7.18 0.00 0.00 2.40
114 4295 1.207811 ACATGGTCGATCACTGCATCA 59.792 47.619 0.00 0.00 0.00 3.07
151 4332 3.444805 GCTCCTCTCCGTCAGCGT 61.445 66.667 0.00 0.00 36.15 5.07
233 4414 1.294138 GCGGCAACTACACCCAGTA 59.706 57.895 0.00 0.00 0.00 2.74
451 4632 1.000019 TCCTCGTTCCTCCCACGAT 60.000 57.895 0.00 0.00 45.26 3.73
472 4653 2.513259 GGACACCAACCCCGTCTCA 61.513 63.158 0.00 0.00 0.00 3.27
556 4737 1.227853 GTTCAGCCGAACCCTGTGT 60.228 57.895 1.04 0.00 44.92 3.72
728 5084 1.133253 CGCAACGCTCCAGAACATG 59.867 57.895 0.00 0.00 0.00 3.21
729 5085 3.566261 CGCAACGCTCCAGAACAT 58.434 55.556 0.00 0.00 0.00 2.71
753 5109 1.255342 CGACAATGATAGCGGTGTTCG 59.745 52.381 0.00 0.00 42.76 3.95
754 5110 1.593006 CCGACAATGATAGCGGTGTTC 59.407 52.381 0.00 0.00 38.99 3.18
755 5111 1.651987 CCGACAATGATAGCGGTGTT 58.348 50.000 0.00 0.00 38.99 3.32
756 5112 3.362581 CCGACAATGATAGCGGTGT 57.637 52.632 0.00 0.00 38.99 4.16
760 5116 1.491670 CCTCACCGACAATGATAGCG 58.508 55.000 0.00 0.00 0.00 4.26
761 5117 1.139058 ACCCTCACCGACAATGATAGC 59.861 52.381 0.00 0.00 0.00 2.97
762 5118 2.483714 CCACCCTCACCGACAATGATAG 60.484 54.545 0.00 0.00 0.00 2.08
763 5119 1.484653 CCACCCTCACCGACAATGATA 59.515 52.381 0.00 0.00 0.00 2.15
764 5120 0.253044 CCACCCTCACCGACAATGAT 59.747 55.000 0.00 0.00 0.00 2.45
765 5121 1.676968 CCACCCTCACCGACAATGA 59.323 57.895 0.00 0.00 0.00 2.57
766 5122 2.040544 GCCACCCTCACCGACAATG 61.041 63.158 0.00 0.00 0.00 2.82
767 5123 2.063015 TTGCCACCCTCACCGACAAT 62.063 55.000 0.00 0.00 0.00 2.71
768 5124 2.674563 CTTGCCACCCTCACCGACAA 62.675 60.000 0.00 0.00 0.00 3.18
769 5125 3.164977 TTGCCACCCTCACCGACA 61.165 61.111 0.00 0.00 0.00 4.35
770 5126 2.358737 CTTGCCACCCTCACCGAC 60.359 66.667 0.00 0.00 0.00 4.79
771 5127 3.636231 CCTTGCCACCCTCACCGA 61.636 66.667 0.00 0.00 0.00 4.69
772 5128 3.612247 CTCCTTGCCACCCTCACCG 62.612 68.421 0.00 0.00 0.00 4.94
773 5129 2.352805 CTCCTTGCCACCCTCACC 59.647 66.667 0.00 0.00 0.00 4.02
774 5130 2.360475 GCTCCTTGCCACCCTCAC 60.360 66.667 0.00 0.00 35.15 3.51
775 5131 0.913934 TATGCTCCTTGCCACCCTCA 60.914 55.000 0.00 0.00 42.00 3.86
776 5132 0.179034 CTATGCTCCTTGCCACCCTC 60.179 60.000 0.00 0.00 42.00 4.30
777 5133 1.639635 CCTATGCTCCTTGCCACCCT 61.640 60.000 0.00 0.00 42.00 4.34
778 5134 1.152881 CCTATGCTCCTTGCCACCC 60.153 63.158 0.00 0.00 42.00 4.61
779 5135 1.825622 GCCTATGCTCCTTGCCACC 60.826 63.158 0.00 0.00 42.00 4.61
780 5136 1.077501 TGCCTATGCTCCTTGCCAC 60.078 57.895 0.00 0.00 42.00 5.01
781 5137 1.225426 CTGCCTATGCTCCTTGCCA 59.775 57.895 0.00 0.00 42.00 4.92
782 5138 0.469917 TACTGCCTATGCTCCTTGCC 59.530 55.000 0.00 0.00 42.00 4.52
783 5139 2.332063 TTACTGCCTATGCTCCTTGC 57.668 50.000 0.00 0.00 43.25 4.01
784 5140 3.209410 CCTTTACTGCCTATGCTCCTTG 58.791 50.000 0.00 0.00 38.71 3.61
785 5141 2.846827 ACCTTTACTGCCTATGCTCCTT 59.153 45.455 0.00 0.00 38.71 3.36
786 5142 2.171448 CACCTTTACTGCCTATGCTCCT 59.829 50.000 0.00 0.00 38.71 3.69
787 5143 2.565841 CACCTTTACTGCCTATGCTCC 58.434 52.381 0.00 0.00 38.71 4.70
788 5144 2.565841 CCACCTTTACTGCCTATGCTC 58.434 52.381 0.00 0.00 38.71 4.26
789 5145 1.212935 CCCACCTTTACTGCCTATGCT 59.787 52.381 0.00 0.00 38.71 3.79
790 5146 1.680338 CCCACCTTTACTGCCTATGC 58.320 55.000 0.00 0.00 38.26 3.14
791 5147 1.564348 ACCCCACCTTTACTGCCTATG 59.436 52.381 0.00 0.00 0.00 2.23
792 5148 1.564348 CACCCCACCTTTACTGCCTAT 59.436 52.381 0.00 0.00 0.00 2.57
793 5149 0.988832 CACCCCACCTTTACTGCCTA 59.011 55.000 0.00 0.00 0.00 3.93
794 5150 0.770557 TCACCCCACCTTTACTGCCT 60.771 55.000 0.00 0.00 0.00 4.75
795 5151 0.608308 GTCACCCCACCTTTACTGCC 60.608 60.000 0.00 0.00 0.00 4.85
796 5152 0.953960 CGTCACCCCACCTTTACTGC 60.954 60.000 0.00 0.00 0.00 4.40
797 5153 0.395312 ACGTCACCCCACCTTTACTG 59.605 55.000 0.00 0.00 0.00 2.74
798 5154 0.395312 CACGTCACCCCACCTTTACT 59.605 55.000 0.00 0.00 0.00 2.24
799 5155 0.107268 ACACGTCACCCCACCTTTAC 59.893 55.000 0.00 0.00 0.00 2.01
800 5156 0.838608 AACACGTCACCCCACCTTTA 59.161 50.000 0.00 0.00 0.00 1.85
801 5157 0.750182 CAACACGTCACCCCACCTTT 60.750 55.000 0.00 0.00 0.00 3.11
802 5158 1.153046 CAACACGTCACCCCACCTT 60.153 57.895 0.00 0.00 0.00 3.50
803 5159 1.628238 TTCAACACGTCACCCCACCT 61.628 55.000 0.00 0.00 0.00 4.00
804 5160 0.748729 TTTCAACACGTCACCCCACC 60.749 55.000 0.00 0.00 0.00 4.61
805 5161 1.314730 ATTTCAACACGTCACCCCAC 58.685 50.000 0.00 0.00 0.00 4.61
806 5162 2.932855 TATTTCAACACGTCACCCCA 57.067 45.000 0.00 0.00 0.00 4.96
807 5163 5.007332 GTCATATATTTCAACACGTCACCCC 59.993 44.000 0.00 0.00 0.00 4.95
808 5164 5.583061 TGTCATATATTTCAACACGTCACCC 59.417 40.000 0.00 0.00 0.00 4.61
809 5165 6.656314 TGTCATATATTTCAACACGTCACC 57.344 37.500 0.00 0.00 0.00 4.02
810 5166 7.043656 TCGATGTCATATATTTCAACACGTCAC 60.044 37.037 0.00 0.00 0.00 3.67
811 5167 6.975772 TCGATGTCATATATTTCAACACGTCA 59.024 34.615 0.00 0.00 0.00 4.35
812 5168 7.274367 GTCGATGTCATATATTTCAACACGTC 58.726 38.462 0.00 0.00 0.00 4.34
813 5169 6.200286 GGTCGATGTCATATATTTCAACACGT 59.800 38.462 0.00 0.00 0.00 4.49
814 5170 6.420903 AGGTCGATGTCATATATTTCAACACG 59.579 38.462 0.00 0.00 0.00 4.49
815 5171 7.224753 ACAGGTCGATGTCATATATTTCAACAC 59.775 37.037 0.00 0.00 0.00 3.32
816 5172 7.272244 ACAGGTCGATGTCATATATTTCAACA 58.728 34.615 0.00 0.00 0.00 3.33
817 5173 7.715265 ACAGGTCGATGTCATATATTTCAAC 57.285 36.000 0.00 0.00 0.00 3.18
818 5174 7.984617 TCAACAGGTCGATGTCATATATTTCAA 59.015 33.333 0.00 0.00 31.50 2.69
819 5175 7.496747 TCAACAGGTCGATGTCATATATTTCA 58.503 34.615 0.00 0.00 31.50 2.69
820 5176 7.867909 TCTCAACAGGTCGATGTCATATATTTC 59.132 37.037 0.00 0.00 31.50 2.17
821 5177 7.726216 TCTCAACAGGTCGATGTCATATATTT 58.274 34.615 0.00 0.00 31.50 1.40
822 5178 7.014711 ACTCTCAACAGGTCGATGTCATATATT 59.985 37.037 0.00 0.00 31.50 1.28
823 5179 6.491745 ACTCTCAACAGGTCGATGTCATATAT 59.508 38.462 0.00 0.00 31.50 0.86
824 5180 5.828328 ACTCTCAACAGGTCGATGTCATATA 59.172 40.000 0.00 0.00 31.50 0.86
825 5181 4.646945 ACTCTCAACAGGTCGATGTCATAT 59.353 41.667 0.00 0.00 31.50 1.78
826 5182 4.017126 ACTCTCAACAGGTCGATGTCATA 58.983 43.478 0.00 0.00 31.50 2.15
827 5183 2.828520 ACTCTCAACAGGTCGATGTCAT 59.171 45.455 0.00 0.00 31.50 3.06
828 5184 2.239400 ACTCTCAACAGGTCGATGTCA 58.761 47.619 0.00 0.00 31.50 3.58
829 5185 3.305398 AACTCTCAACAGGTCGATGTC 57.695 47.619 0.00 0.00 31.50 3.06
830 5186 3.753294 AAACTCTCAACAGGTCGATGT 57.247 42.857 0.00 0.00 33.96 3.06
831 5187 4.058124 TCAAAACTCTCAACAGGTCGATG 58.942 43.478 0.00 0.00 0.00 3.84
832 5188 4.310769 CTCAAAACTCTCAACAGGTCGAT 58.689 43.478 0.00 0.00 0.00 3.59
833 5189 3.492656 CCTCAAAACTCTCAACAGGTCGA 60.493 47.826 0.00 0.00 0.00 4.20
834 5190 2.802816 CCTCAAAACTCTCAACAGGTCG 59.197 50.000 0.00 0.00 0.00 4.79
835 5191 3.561725 CACCTCAAAACTCTCAACAGGTC 59.438 47.826 0.00 0.00 30.02 3.85
836 5192 3.545703 CACCTCAAAACTCTCAACAGGT 58.454 45.455 0.00 0.00 32.81 4.00
837 5193 2.291741 GCACCTCAAAACTCTCAACAGG 59.708 50.000 0.00 0.00 0.00 4.00
838 5194 2.032549 CGCACCTCAAAACTCTCAACAG 60.033 50.000 0.00 0.00 0.00 3.16
839 5195 1.939934 CGCACCTCAAAACTCTCAACA 59.060 47.619 0.00 0.00 0.00 3.33
840 5196 1.334149 GCGCACCTCAAAACTCTCAAC 60.334 52.381 0.30 0.00 0.00 3.18
841 5197 0.944386 GCGCACCTCAAAACTCTCAA 59.056 50.000 0.30 0.00 0.00 3.02
842 5198 0.106708 AGCGCACCTCAAAACTCTCA 59.893 50.000 11.47 0.00 0.00 3.27
843 5199 1.230324 AAGCGCACCTCAAAACTCTC 58.770 50.000 11.47 0.00 0.00 3.20
844 5200 2.543777 TAAGCGCACCTCAAAACTCT 57.456 45.000 11.47 0.00 0.00 3.24
845 5201 3.058224 ACAATAAGCGCACCTCAAAACTC 60.058 43.478 11.47 0.00 0.00 3.01
846 5202 2.884639 ACAATAAGCGCACCTCAAAACT 59.115 40.909 11.47 0.00 0.00 2.66
847 5203 3.234386 GACAATAAGCGCACCTCAAAAC 58.766 45.455 11.47 0.00 0.00 2.43
848 5204 2.227865 GGACAATAAGCGCACCTCAAAA 59.772 45.455 11.47 0.00 0.00 2.44
849 5205 1.810151 GGACAATAAGCGCACCTCAAA 59.190 47.619 11.47 0.00 0.00 2.69
850 5206 1.271108 TGGACAATAAGCGCACCTCAA 60.271 47.619 11.47 0.00 0.00 3.02
851 5207 0.323302 TGGACAATAAGCGCACCTCA 59.677 50.000 11.47 0.00 0.00 3.86
852 5208 1.398390 CTTGGACAATAAGCGCACCTC 59.602 52.381 11.47 0.00 0.00 3.85
853 5209 1.003118 TCTTGGACAATAAGCGCACCT 59.997 47.619 11.47 0.00 0.00 4.00
854 5210 1.398390 CTCTTGGACAATAAGCGCACC 59.602 52.381 11.47 1.58 0.00 5.01
855 5211 1.398390 CCTCTTGGACAATAAGCGCAC 59.602 52.381 11.47 0.00 34.57 5.34
856 5212 1.737838 CCTCTTGGACAATAAGCGCA 58.262 50.000 11.47 0.00 34.57 6.09
857 5213 0.378610 GCCTCTTGGACAATAAGCGC 59.621 55.000 0.00 0.00 34.57 5.92
858 5214 1.737838 TGCCTCTTGGACAATAAGCG 58.262 50.000 0.00 0.00 34.57 4.68
859 5215 3.347216 TCTTGCCTCTTGGACAATAAGC 58.653 45.455 0.00 0.00 34.57 3.09
860 5216 4.633565 GTCTCTTGCCTCTTGGACAATAAG 59.366 45.833 0.00 0.00 34.57 1.73
861 5217 4.041567 TGTCTCTTGCCTCTTGGACAATAA 59.958 41.667 0.00 0.00 34.57 1.40
862 5218 3.582647 TGTCTCTTGCCTCTTGGACAATA 59.417 43.478 0.00 0.00 34.57 1.90
863 5219 2.373169 TGTCTCTTGCCTCTTGGACAAT 59.627 45.455 0.00 0.00 34.57 2.71
864 5220 1.768275 TGTCTCTTGCCTCTTGGACAA 59.232 47.619 0.00 0.00 34.57 3.18
865 5221 1.423584 TGTCTCTTGCCTCTTGGACA 58.576 50.000 0.00 0.00 34.57 4.02
866 5222 2.235898 AGATGTCTCTTGCCTCTTGGAC 59.764 50.000 0.00 0.00 34.57 4.02
867 5223 2.544721 AGATGTCTCTTGCCTCTTGGA 58.455 47.619 0.00 0.00 34.57 3.53
868 5224 3.347077 AAGATGTCTCTTGCCTCTTGG 57.653 47.619 0.00 0.00 40.28 3.61
869 5225 5.702349 AAAAAGATGTCTCTTGCCTCTTG 57.298 39.130 0.00 0.00 40.93 3.02
888 5244 1.634702 GTGCGTTGCAACAGGAAAAA 58.365 45.000 28.01 3.37 41.47 1.94
889 5245 0.524392 CGTGCGTTGCAACAGGAAAA 60.524 50.000 28.01 4.75 41.47 2.29
890 5246 1.063327 CGTGCGTTGCAACAGGAAA 59.937 52.632 28.01 6.49 41.47 3.13
891 5247 0.810426 TACGTGCGTTGCAACAGGAA 60.810 50.000 28.01 5.70 41.47 3.36
892 5248 1.227292 TACGTGCGTTGCAACAGGA 60.227 52.632 28.01 18.68 41.47 3.86
893 5249 1.083015 GTACGTGCGTTGCAACAGG 60.083 57.895 28.01 17.31 41.47 4.00
894 5250 0.234625 ATGTACGTGCGTTGCAACAG 59.765 50.000 28.01 20.60 41.47 3.16
895 5251 1.499049 TATGTACGTGCGTTGCAACA 58.501 45.000 28.01 8.05 41.47 3.33
896 5252 2.798834 ATATGTACGTGCGTTGCAAC 57.201 45.000 19.89 19.89 41.47 4.17
897 5253 3.483734 CAAATATGTACGTGCGTTGCAA 58.516 40.909 3.00 0.00 41.47 4.08
898 5254 2.726373 GCAAATATGTACGTGCGTTGCA 60.726 45.455 20.67 3.55 39.65 4.08
899 5255 1.837747 GCAAATATGTACGTGCGTTGC 59.162 47.619 3.00 10.49 33.85 4.17
900 5256 3.383546 AGCAAATATGTACGTGCGTTG 57.616 42.857 3.00 4.45 41.90 4.10
901 5257 4.178540 ACTAGCAAATATGTACGTGCGTT 58.821 39.130 3.00 0.00 41.90 4.84
902 5258 3.777478 ACTAGCAAATATGTACGTGCGT 58.223 40.909 3.27 3.27 41.90 5.24
903 5259 3.794564 TGACTAGCAAATATGTACGTGCG 59.205 43.478 0.00 0.00 41.90 5.34
904 5260 4.209288 CCTGACTAGCAAATATGTACGTGC 59.791 45.833 0.00 0.00 37.26 5.34
905 5261 4.209288 GCCTGACTAGCAAATATGTACGTG 59.791 45.833 0.00 0.00 0.00 4.49
906 5262 4.099573 AGCCTGACTAGCAAATATGTACGT 59.900 41.667 0.00 0.00 0.00 3.57
907 5263 4.621991 AGCCTGACTAGCAAATATGTACG 58.378 43.478 0.00 0.00 0.00 3.67
908 5264 5.601662 TGAGCCTGACTAGCAAATATGTAC 58.398 41.667 0.00 0.00 0.00 2.90
909 5265 5.869649 TGAGCCTGACTAGCAAATATGTA 57.130 39.130 0.00 0.00 0.00 2.29
910 5266 4.760530 TGAGCCTGACTAGCAAATATGT 57.239 40.909 0.00 0.00 0.00 2.29
911 5267 5.008415 CCTTTGAGCCTGACTAGCAAATATG 59.992 44.000 0.00 0.00 0.00 1.78
912 5268 5.128919 CCTTTGAGCCTGACTAGCAAATAT 58.871 41.667 0.00 0.00 0.00 1.28
913 5269 4.019321 ACCTTTGAGCCTGACTAGCAAATA 60.019 41.667 0.00 0.00 0.00 1.40
914 5270 3.245052 ACCTTTGAGCCTGACTAGCAAAT 60.245 43.478 0.00 0.00 0.00 2.32
915 5271 2.106511 ACCTTTGAGCCTGACTAGCAAA 59.893 45.455 0.00 0.00 0.00 3.68
916 5272 1.699634 ACCTTTGAGCCTGACTAGCAA 59.300 47.619 0.00 0.00 0.00 3.91
917 5273 1.002430 CACCTTTGAGCCTGACTAGCA 59.998 52.381 0.00 0.00 0.00 3.49
918 5274 1.677217 CCACCTTTGAGCCTGACTAGC 60.677 57.143 0.00 0.00 0.00 3.42
919 5275 1.677217 GCCACCTTTGAGCCTGACTAG 60.677 57.143 0.00 0.00 0.00 2.57
920 5276 0.324943 GCCACCTTTGAGCCTGACTA 59.675 55.000 0.00 0.00 0.00 2.59
921 5277 1.073897 GCCACCTTTGAGCCTGACT 59.926 57.895 0.00 0.00 0.00 3.41
922 5278 1.973812 GGCCACCTTTGAGCCTGAC 60.974 63.158 0.00 0.00 43.62 3.51
923 5279 2.436109 GGCCACCTTTGAGCCTGA 59.564 61.111 0.00 0.00 43.62 3.86
924 5280 2.677875 GGGCCACCTTTGAGCCTG 60.678 66.667 4.39 0.00 46.31 4.85
925 5281 3.185203 TGGGCCACCTTTGAGCCT 61.185 61.111 0.00 0.00 46.31 4.58
926 5282 2.677875 CTGGGCCACCTTTGAGCC 60.678 66.667 0.00 0.00 46.37 4.70
927 5283 1.973812 GACTGGGCCACCTTTGAGC 60.974 63.158 0.00 0.00 37.76 4.26
928 5284 1.303643 GGACTGGGCCACCTTTGAG 60.304 63.158 0.00 0.00 37.76 3.02
929 5285 2.840753 GGGACTGGGCCACCTTTGA 61.841 63.158 0.00 0.00 37.76 2.69
930 5286 2.283173 GGGACTGGGCCACCTTTG 60.283 66.667 0.00 0.00 37.76 2.77
942 5298 2.236395 CCCTACAATTCTTCACGGGACT 59.764 50.000 0.00 0.00 31.85 3.85
946 5302 4.069304 TGTTTCCCTACAATTCTTCACGG 58.931 43.478 0.00 0.00 0.00 4.94
949 5305 5.313712 GGACTGTTTCCCTACAATTCTTCA 58.686 41.667 0.00 0.00 38.70 3.02
950 5306 5.881777 GGACTGTTTCCCTACAATTCTTC 57.118 43.478 0.00 0.00 38.70 2.87
966 5323 5.833340 AGAGGAGTTACTAATCAGGACTGT 58.167 41.667 0.00 0.00 0.00 3.55
967 5324 7.013846 CCTTAGAGGAGTTACTAATCAGGACTG 59.986 44.444 0.00 0.00 37.67 3.51
969 5326 6.265876 CCCTTAGAGGAGTTACTAATCAGGAC 59.734 46.154 0.00 0.00 37.67 3.85
974 5331 9.234827 GATAGACCCTTAGAGGAGTTACTAATC 57.765 40.741 0.00 0.00 37.67 1.75
983 5340 4.186077 TGTGGATAGACCCTTAGAGGAG 57.814 50.000 0.00 0.00 37.67 3.69
990 5347 3.774734 GGGTTTTTGTGGATAGACCCTT 58.225 45.455 2.20 0.00 42.69 3.95
1120 5477 3.151022 GAGTGGAGGCGGGAGAGG 61.151 72.222 0.00 0.00 0.00 3.69
1172 5529 4.767255 GAGCTGGGAGTGGGCGTG 62.767 72.222 0.00 0.00 0.00 5.34
1576 5933 4.176752 GGGATGGACAGCGACCCC 62.177 72.222 0.00 0.00 35.00 4.95
1729 6086 2.363018 TCCAGGCTCTCCAGGTCG 60.363 66.667 0.00 0.00 39.81 4.79
2070 6427 1.076533 ACGCATTTGCTACGACGAGG 61.077 55.000 0.00 0.00 39.32 4.63
2087 6444 3.386768 AATCCCGGTCTATGATGAACG 57.613 47.619 0.00 0.00 45.65 3.95
2090 6447 7.745717 AGAATAAAAATCCCGGTCTATGATGA 58.254 34.615 0.00 0.00 0.00 2.92
2142 6505 5.262804 ACCACCGAGAGATTAGAGTTTACT 58.737 41.667 0.00 0.00 0.00 2.24
2176 6552 2.410262 GCACGATGACAACAAGAACGAG 60.410 50.000 0.00 0.00 0.00 4.18
2182 6558 3.373020 GCAGCACGATGACAACAAG 57.627 52.632 0.00 0.00 0.00 3.16
2218 6594 3.507162 TCCAAGAAGAAACTCATGGCA 57.493 42.857 0.00 0.00 34.76 4.92
2242 6618 0.928505 ATGGTGATGGCATTCCTCCA 59.071 50.000 18.56 15.04 38.09 3.86
2269 6645 2.144730 GAGCTGAGCAATGCTAGGATG 58.855 52.381 8.12 0.00 39.88 3.51
2270 6646 2.048601 AGAGCTGAGCAATGCTAGGAT 58.951 47.619 8.12 2.09 39.88 3.24
2271 6647 1.138464 CAGAGCTGAGCAATGCTAGGA 59.862 52.381 8.12 0.00 39.88 2.94
2272 6648 1.584175 CAGAGCTGAGCAATGCTAGG 58.416 55.000 8.12 5.08 39.88 3.02
2274 6650 0.907486 ACCAGAGCTGAGCAATGCTA 59.093 50.000 8.12 0.00 39.88 3.49
2280 6682 0.616964 ATCCAGACCAGAGCTGAGCA 60.617 55.000 7.39 0.00 35.39 4.26
2285 6687 1.614525 TGGCATCCAGACCAGAGCT 60.615 57.895 0.00 0.00 0.00 4.09
2297 6699 0.901124 ACTCTGAGTCCACTGGCATC 59.099 55.000 4.06 0.00 0.00 3.91
2321 6723 2.159114 GCTCCACATCTCCTCAGTTCTC 60.159 54.545 0.00 0.00 0.00 2.87
2322 6724 1.830477 GCTCCACATCTCCTCAGTTCT 59.170 52.381 0.00 0.00 0.00 3.01
2323 6725 1.552337 TGCTCCACATCTCCTCAGTTC 59.448 52.381 0.00 0.00 0.00 3.01
2324 6726 1.554160 CTGCTCCACATCTCCTCAGTT 59.446 52.381 0.00 0.00 0.00 3.16
2325 6727 1.193323 CTGCTCCACATCTCCTCAGT 58.807 55.000 0.00 0.00 0.00 3.41
2326 6728 1.409790 CTCTGCTCCACATCTCCTCAG 59.590 57.143 0.00 0.00 0.00 3.35
2327 6729 1.482954 CTCTGCTCCACATCTCCTCA 58.517 55.000 0.00 0.00 0.00 3.86
2348 6750 1.398390 CACTCCGTTTTATCTGCAGCC 59.602 52.381 9.47 0.00 0.00 4.85
2363 6770 2.619177 TCGACTATAAGCAGAGCACTCC 59.381 50.000 0.00 0.00 0.00 3.85
2404 6811 3.069289 TGCATTATCTTCAGCATAGCCG 58.931 45.455 0.00 0.00 31.05 5.52
2666 7079 2.400158 CGGCTCGTCTTCCTCGTCT 61.400 63.158 0.00 0.00 0.00 4.18
2996 7433 5.776173 TTAACCAACGACCATGATTTTGT 57.224 34.783 0.00 0.00 0.00 2.83
3000 7437 4.156008 GCTCTTTAACCAACGACCATGATT 59.844 41.667 0.00 0.00 0.00 2.57
3001 7438 3.689649 GCTCTTTAACCAACGACCATGAT 59.310 43.478 0.00 0.00 0.00 2.45
3007 7444 3.391049 ACAGAGCTCTTTAACCAACGAC 58.609 45.455 15.27 0.00 0.00 4.34
3010 7447 5.948992 ATCAACAGAGCTCTTTAACCAAC 57.051 39.130 15.27 0.00 0.00 3.77
3076 7531 8.922676 CCAAGAATCAAAATTCAACAGATTCAG 58.077 33.333 13.80 7.30 44.22 3.02


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

AutoCloner maintained by Alex Coulton.