Multiple sequence alignment - TraesCS1B01G217200

Loading Multiple Alignment...

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 TraesCS1B01G217200 chr1B 100.000 2903 0 0 1 2903 393540644 393543546 0.000000e+00 5361
1 TraesCS1B01G217200 chr1B 98.742 159 2 0 734 892 12757151 12756993 1.700000e-72 283
2 TraesCS1B01G217200 chr1D 89.305 2029 112 28 926 2901 292575108 292577084 0.000000e+00 2447
3 TraesCS1B01G217200 chr1D 94.164 377 21 1 83 458 292547535 292547911 9.020000e-160 573
4 TraesCS1B01G217200 chr1D 92.607 257 11 5 482 734 292574376 292574628 2.130000e-96 363
5 TraesCS1B01G217200 chr1A 89.940 1839 98 35 998 2796 364655784 364657575 0.000000e+00 2290
6 TraesCS1B01G217200 chr1A 91.476 657 37 5 1 649 364653670 364654315 0.000000e+00 885
7 TraesCS1B01G217200 chr1A 92.045 88 7 0 647 734 364654861 364654948 1.090000e-24 124
8 TraesCS1B01G217200 chr4B 80.711 394 59 13 1521 1904 618159101 618159487 1.020000e-74 291
9 TraesCS1B01G217200 chr4B 84.646 254 34 3 1651 1903 617766470 617766719 6.210000e-62 248
10 TraesCS1B01G217200 chr4B 86.777 121 16 0 1203 1323 617765555 617765675 5.050000e-28 135
11 TraesCS1B01G217200 chr7B 98.750 160 2 0 733 892 449544495 449544336 4.730000e-73 285
12 TraesCS1B01G217200 chr3A 98.742 159 2 0 734 892 746151305 746151147 1.700000e-72 283
13 TraesCS1B01G217200 chr2D 98.742 159 2 0 734 892 574926924 574927082 1.700000e-72 283
14 TraesCS1B01G217200 chr6A 97.561 164 3 1 730 892 485754929 485754766 2.200000e-71 279
15 TraesCS1B01G217200 chr6A 94.444 180 7 3 715 892 571189105 571189283 1.020000e-69 274
16 TraesCS1B01G217200 chr3B 96.450 169 5 1 725 892 727161450 727161282 7.920000e-71 278
17 TraesCS1B01G217200 chr3B 77.622 286 35 13 2632 2903 540091244 540090974 2.330000e-31 147
18 TraesCS1B01G217200 chr3B 81.871 171 17 7 2723 2879 756765031 756765201 6.530000e-27 132
19 TraesCS1B01G217200 chr3B 81.871 171 17 7 2723 2879 756810861 756811031 6.530000e-27 132
20 TraesCS1B01G217200 chr3B 81.871 171 17 7 2723 2879 757148063 757148233 6.530000e-27 132
21 TraesCS1B01G217200 chr3B 82.803 157 13 7 2723 2865 756850151 756850307 8.440000e-26 128
22 TraesCS1B01G217200 chr3B 82.803 157 13 7 2723 2865 756981181 756981337 8.440000e-26 128
23 TraesCS1B01G217200 chr3B 82.803 157 13 7 2723 2865 757075345 757075501 8.440000e-26 128
24 TraesCS1B01G217200 chr3B 81.287 171 18 7 2723 2879 757010628 757010798 3.040000e-25 126
25 TraesCS1B01G217200 chr3B 82.166 157 14 7 2723 2865 756906460 756906616 3.930000e-24 122
26 TraesCS1B01G217200 chr2B 96.970 165 5 0 728 892 776250768 776250604 7.920000e-71 278
27 TraesCS1B01G217200 chr2B 92.473 186 11 3 735 917 43807729 43807544 2.220000e-66 263
28 TraesCS1B01G217200 chr5A 84.646 254 34 3 1651 1903 665817375 665817624 6.210000e-62 248
29 TraesCS1B01G217200 chrUn 82.803 157 13 7 2723 2865 451115349 451115193 8.440000e-26 128


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 TraesCS1B01G217200 chr1B 393540644 393543546 2902 False 5361.000000 5361 100.000000 1 2903 1 chr1B.!!$F1 2902
1 TraesCS1B01G217200 chr1D 292574376 292577084 2708 False 1405.000000 2447 90.956000 482 2901 2 chr1D.!!$F2 2419
2 TraesCS1B01G217200 chr1A 364653670 364657575 3905 False 1099.666667 2290 91.153667 1 2796 3 chr1A.!!$F1 2795

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
813 2038 0.035152 TCAAATCCTGGTGCTCGCAT 60.035 50.0 0.0 0.0 0.0 4.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2129 3430 0.25316 ATCTTGCACCCTACTCCCCA 60.253 55.0 0.0 0.0 0.0 4.96 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
57 58 5.518848 TGGCATTAATGTGTCATCCATTC 57.481 39.130 16.61 0.00 34.51 2.67
83 90 4.301505 CGTAGGGCATGCAGTTGT 57.698 55.556 21.36 0.74 0.00 3.32
153 160 1.403679 CGGTTTGCACCAGACAAAGAA 59.596 47.619 0.00 0.00 44.53 2.52
182 189 5.317733 GAGAATTTGTTCTCTCTCTCCGA 57.682 43.478 10.15 0.00 43.06 4.55
200 207 1.310904 GAACCAAAACCAGGCGTGTA 58.689 50.000 5.57 0.00 0.00 2.90
270 278 5.809001 ACCAAGAACTATTGATTGAGCTGA 58.191 37.500 0.00 0.00 31.55 4.26
275 283 4.226427 ACTATTGATTGAGCTGAGCCAA 57.774 40.909 0.00 5.78 0.00 4.52
279 287 0.942962 GATTGAGCTGAGCCAATCCG 59.057 55.000 25.19 0.00 38.75 4.18
282 290 0.036732 TGAGCTGAGCCAATCCGTTT 59.963 50.000 0.00 0.00 0.00 3.60
283 291 1.277842 TGAGCTGAGCCAATCCGTTTA 59.722 47.619 0.00 0.00 0.00 2.01
315 323 1.004745 CAAGGCACTGGTGGTTATCCT 59.995 52.381 2.84 0.00 40.86 3.24
319 327 2.084546 GCACTGGTGGTTATCCTGAAC 58.915 52.381 2.84 0.00 34.23 3.18
356 364 1.795768 GCTTGACGTGTCCAGATCAA 58.204 50.000 0.00 0.00 0.00 2.57
358 366 2.341257 CTTGACGTGTCCAGATCAAGG 58.659 52.381 0.00 0.00 42.79 3.61
386 394 8.279800 CGATGCGGACTAAATGAATAAACAATA 58.720 33.333 0.00 0.00 0.00 1.90
395 403 9.941664 CTAAATGAATAAACAATAGGAGCACAG 57.058 33.333 0.00 0.00 0.00 3.66
417 425 1.870055 GACCTGCCACGTAGGACGAA 61.870 60.000 9.86 0.00 46.05 3.85
428 436 1.659098 GTAGGACGAATTGTGAAGGCG 59.341 52.381 0.00 0.00 0.00 5.52
440 448 4.988598 AAGGCGGCGTCCACACAG 62.989 66.667 19.61 0.00 0.00 3.66
510 519 4.353437 GTCGACGGCCGTGGTTCT 62.353 66.667 39.65 10.24 39.75 3.01
568 577 1.479323 TCTCGTCCCCTATTCAAACCG 59.521 52.381 0.00 0.00 0.00 4.44
569 578 1.206371 CTCGTCCCCTATTCAAACCGT 59.794 52.381 0.00 0.00 0.00 4.83
570 579 1.066716 TCGTCCCCTATTCAAACCGTG 60.067 52.381 0.00 0.00 0.00 4.94
571 580 1.092348 GTCCCCTATTCAAACCGTGC 58.908 55.000 0.00 0.00 0.00 5.34
572 581 0.693622 TCCCCTATTCAAACCGTGCA 59.306 50.000 0.00 0.00 0.00 4.57
573 582 1.074084 TCCCCTATTCAAACCGTGCAA 59.926 47.619 0.00 0.00 0.00 4.08
632 647 1.616159 ACCCAAATCCCACTCGTTTG 58.384 50.000 0.00 0.00 33.72 2.93
644 659 3.047877 CGTTTGCCCGTCACCTCC 61.048 66.667 0.00 0.00 0.00 4.30
675 1238 1.379642 CCTCCTTGATCGGCAAAGGC 61.380 60.000 4.95 0.00 35.74 4.35
712 1275 6.062258 TCAGGAATTACTACCTTCCCTTTG 57.938 41.667 0.00 0.00 41.59 2.77
725 1288 1.351017 TCCCTTTGGAGGTAACAGCAG 59.649 52.381 0.00 0.00 41.85 4.24
734 1297 0.872388 GGTAACAGCAGGTGGAAACG 59.128 55.000 4.26 0.00 0.00 3.60
736 1299 1.225376 TAACAGCAGGTGGAAACGCG 61.225 55.000 3.53 3.53 43.50 6.01
737 1300 2.664851 CAGCAGGTGGAAACGCGA 60.665 61.111 15.93 0.00 43.50 5.87
738 1301 2.110213 AGCAGGTGGAAACGCGAA 59.890 55.556 15.93 0.00 43.50 4.70
739 1302 1.302511 AGCAGGTGGAAACGCGAAT 60.303 52.632 15.93 0.00 43.50 3.34
740 1303 1.134694 GCAGGTGGAAACGCGAATC 59.865 57.895 15.93 10.50 43.50 2.52
742 1305 0.871722 CAGGTGGAAACGCGAATCAA 59.128 50.000 15.93 0.00 43.50 2.57
743 1306 0.872388 AGGTGGAAACGCGAATCAAC 59.128 50.000 15.93 13.92 43.50 3.18
745 1308 0.872388 GTGGAAACGCGAATCAACCT 59.128 50.000 15.93 0.00 0.00 3.50
749 1312 0.591170 AAACGCGAATCAACCTGTGG 59.409 50.000 15.93 0.00 0.00 4.17
750 1313 0.534203 AACGCGAATCAACCTGTGGT 60.534 50.000 15.93 0.00 37.65 4.16
760 1323 2.525105 AACCTGTGGTTGAGTTGGTT 57.475 45.000 0.71 0.00 45.07 3.67
762 1325 3.208747 ACCTGTGGTTGAGTTGGTTAG 57.791 47.619 0.00 0.00 27.29 2.34
764 1327 2.158667 CCTGTGGTTGAGTTGGTTAGGT 60.159 50.000 0.00 0.00 0.00 3.08
765 1328 2.878406 CTGTGGTTGAGTTGGTTAGGTG 59.122 50.000 0.00 0.00 0.00 4.00
766 1329 2.227194 GTGGTTGAGTTGGTTAGGTGG 58.773 52.381 0.00 0.00 0.00 4.61
767 1330 2.128535 TGGTTGAGTTGGTTAGGTGGA 58.871 47.619 0.00 0.00 0.00 4.02
768 1331 2.158726 TGGTTGAGTTGGTTAGGTGGAC 60.159 50.000 0.00 0.00 0.00 4.02
769 1332 2.158726 GGTTGAGTTGGTTAGGTGGACA 60.159 50.000 0.00 0.00 0.00 4.02
770 1333 3.139077 GTTGAGTTGGTTAGGTGGACAG 58.861 50.000 0.00 0.00 0.00 3.51
771 1334 2.404559 TGAGTTGGTTAGGTGGACAGT 58.595 47.619 0.00 0.00 0.00 3.55
773 1336 1.420138 AGTTGGTTAGGTGGACAGTGG 59.580 52.381 0.00 0.00 0.00 4.00
774 1337 1.142262 GTTGGTTAGGTGGACAGTGGT 59.858 52.381 0.00 0.00 0.00 4.16
775 1338 2.369532 GTTGGTTAGGTGGACAGTGGTA 59.630 50.000 0.00 0.00 0.00 3.25
776 1339 2.910544 TGGTTAGGTGGACAGTGGTAT 58.089 47.619 0.00 0.00 0.00 2.73
777 1340 2.835764 TGGTTAGGTGGACAGTGGTATC 59.164 50.000 0.00 0.00 0.00 2.24
778 1341 2.169978 GGTTAGGTGGACAGTGGTATCC 59.830 54.545 0.00 0.00 35.37 2.59
780 1343 0.620700 AGGTGGACAGTGGTATCCCC 60.621 60.000 0.00 0.00 33.69 4.81
781 1344 0.912487 GGTGGACAGTGGTATCCCCA 60.912 60.000 0.00 0.00 42.51 4.96
788 1351 3.844063 TGGTATCCCCAACCCACC 58.156 61.111 0.00 0.00 41.50 4.61
789 1352 1.151565 TGGTATCCCCAACCCACCA 60.152 57.895 0.00 0.00 41.50 4.17
790 1353 1.211567 TGGTATCCCCAACCCACCAG 61.212 60.000 0.00 0.00 41.50 4.00
813 2038 0.035152 TCAAATCCTGGTGCTCGCAT 60.035 50.000 0.00 0.00 0.00 4.73
814 2039 0.813184 CAAATCCTGGTGCTCGCATT 59.187 50.000 0.00 0.00 0.00 3.56
816 2041 2.620115 CAAATCCTGGTGCTCGCATTAT 59.380 45.455 0.00 0.00 0.00 1.28
820 2045 1.475751 CCTGGTGCTCGCATTATTCCT 60.476 52.381 0.00 0.00 0.00 3.36
821 2046 1.600957 CTGGTGCTCGCATTATTCCTG 59.399 52.381 0.00 0.00 0.00 3.86
822 2047 0.947244 GGTGCTCGCATTATTCCTGG 59.053 55.000 0.00 0.00 0.00 4.45
823 2048 1.475034 GGTGCTCGCATTATTCCTGGA 60.475 52.381 0.00 0.00 0.00 3.86
825 2050 2.880890 GTGCTCGCATTATTCCTGGATT 59.119 45.455 0.00 0.00 0.00 3.01
827 2052 4.515191 GTGCTCGCATTATTCCTGGATTTA 59.485 41.667 0.00 0.00 0.00 1.40
828 2053 5.182001 GTGCTCGCATTATTCCTGGATTTAT 59.818 40.000 0.00 0.00 0.00 1.40
830 2055 6.265196 TGCTCGCATTATTCCTGGATTTATTT 59.735 34.615 0.00 0.00 0.00 1.40
831 2056 6.803807 GCTCGCATTATTCCTGGATTTATTTC 59.196 38.462 0.00 0.00 0.00 2.17
832 2057 7.522073 GCTCGCATTATTCCTGGATTTATTTCA 60.522 37.037 0.00 0.00 0.00 2.69
833 2058 7.874940 TCGCATTATTCCTGGATTTATTTCAG 58.125 34.615 0.00 0.00 0.00 3.02
834 2059 7.040478 TCGCATTATTCCTGGATTTATTTCAGG 60.040 37.037 0.00 0.00 46.91 3.86
843 2068 6.469782 TGGATTTATTTCAGGATTTCTGGC 57.530 37.500 0.00 0.00 43.53 4.85
844 2069 5.067674 TGGATTTATTTCAGGATTTCTGGCG 59.932 40.000 0.00 0.00 43.53 5.69
845 2070 5.299279 GGATTTATTTCAGGATTTCTGGCGA 59.701 40.000 0.00 0.00 43.53 5.54
846 2071 6.015940 GGATTTATTTCAGGATTTCTGGCGAT 60.016 38.462 0.00 0.00 43.53 4.58
847 2072 5.756195 TTATTTCAGGATTTCTGGCGATG 57.244 39.130 0.00 0.00 43.53 3.84
848 2073 1.382522 TTCAGGATTTCTGGCGATGC 58.617 50.000 0.00 0.00 43.53 3.91
849 2074 0.811219 TCAGGATTTCTGGCGATGCG 60.811 55.000 0.00 0.00 43.53 4.73
860 2085 2.787249 CGATGCGCTTTCAGTGGG 59.213 61.111 9.73 0.00 0.00 4.61
861 2086 1.741401 CGATGCGCTTTCAGTGGGA 60.741 57.895 9.73 0.00 0.00 4.37
862 2087 1.699656 CGATGCGCTTTCAGTGGGAG 61.700 60.000 9.73 0.00 0.00 4.30
863 2088 1.372087 GATGCGCTTTCAGTGGGAGG 61.372 60.000 9.73 0.00 0.00 4.30
864 2089 1.841302 ATGCGCTTTCAGTGGGAGGA 61.841 55.000 9.73 0.00 0.00 3.71
865 2090 1.743252 GCGCTTTCAGTGGGAGGAG 60.743 63.158 0.00 0.00 0.00 3.69
866 2091 1.975327 CGCTTTCAGTGGGAGGAGA 59.025 57.895 0.00 0.00 0.00 3.71
867 2092 0.390472 CGCTTTCAGTGGGAGGAGAC 60.390 60.000 0.00 0.00 0.00 3.36
868 2093 0.390472 GCTTTCAGTGGGAGGAGACG 60.390 60.000 0.00 0.00 0.00 4.18
869 2094 0.969894 CTTTCAGTGGGAGGAGACGT 59.030 55.000 0.00 0.00 0.00 4.34
870 2095 1.344763 CTTTCAGTGGGAGGAGACGTT 59.655 52.381 0.00 0.00 0.00 3.99
871 2096 1.420430 TTCAGTGGGAGGAGACGTTT 58.580 50.000 0.00 0.00 0.00 3.60
872 2097 0.966920 TCAGTGGGAGGAGACGTTTC 59.033 55.000 0.00 0.00 0.00 2.78
873 2098 0.037232 CAGTGGGAGGAGACGTTTCC 60.037 60.000 17.16 17.16 37.52 3.13
874 2099 1.080025 GTGGGAGGAGACGTTTCCG 60.080 63.158 18.59 0.00 42.29 4.30
894 2119 4.539881 GACGACGAGGCGCCTCTC 62.540 72.222 44.11 36.43 40.69 3.20
896 2121 4.244802 CGACGAGGCGCCTCTCTC 62.245 72.222 44.11 35.73 40.69 3.20
900 2125 3.591835 GAGGCGCCTCTCTCGGAG 61.592 72.222 42.50 0.00 39.80 4.63
907 2132 2.487428 CTCTCTCGGAGGTGTGCG 59.513 66.667 4.96 0.00 38.35 5.34
908 2133 2.282251 TCTCTCGGAGGTGTGCGT 60.282 61.111 4.96 0.00 38.89 5.24
909 2134 2.126307 CTCTCGGAGGTGTGCGTG 60.126 66.667 4.96 0.00 38.89 5.34
910 2135 2.910479 TCTCGGAGGTGTGCGTGT 60.910 61.111 4.96 0.00 38.89 4.49
911 2136 2.734723 CTCGGAGGTGTGCGTGTG 60.735 66.667 0.00 0.00 38.89 3.82
912 2137 3.499929 CTCGGAGGTGTGCGTGTGT 62.500 63.158 0.00 0.00 38.89 3.72
913 2138 3.337889 CGGAGGTGTGCGTGTGTG 61.338 66.667 0.00 0.00 31.86 3.82
914 2139 3.649986 GGAGGTGTGCGTGTGTGC 61.650 66.667 0.00 0.00 0.00 4.57
915 2140 4.000557 GAGGTGTGCGTGTGTGCG 62.001 66.667 0.00 0.00 37.81 5.34
916 2141 4.830765 AGGTGTGCGTGTGTGCGT 62.831 61.111 0.00 0.00 37.81 5.24
917 2142 4.589700 GGTGTGCGTGTGTGCGTG 62.590 66.667 0.00 0.00 37.81 5.34
918 2143 3.860125 GTGTGCGTGTGTGCGTGT 61.860 61.111 0.00 0.00 37.81 4.49
919 2144 3.121676 TGTGCGTGTGTGCGTGTT 61.122 55.556 0.00 0.00 37.81 3.32
920 2145 2.350760 GTGCGTGTGTGCGTGTTC 60.351 61.111 0.00 0.00 37.81 3.18
921 2146 2.510464 TGCGTGTGTGCGTGTTCT 60.510 55.556 0.00 0.00 37.81 3.01
922 2147 2.053116 GCGTGTGTGCGTGTTCTG 60.053 61.111 0.00 0.00 0.00 3.02
923 2148 2.053116 CGTGTGTGCGTGTTCTGC 60.053 61.111 0.00 0.00 0.00 4.26
924 2149 2.327940 GTGTGTGCGTGTTCTGCC 59.672 61.111 0.00 0.00 0.00 4.85
934 2159 0.179018 GTGTTCTGCCCTGTCCTGTT 60.179 55.000 0.00 0.00 0.00 3.16
950 2175 5.243060 TGTCCTGTTCTGTTCGATCTTCTAA 59.757 40.000 0.00 0.00 0.00 2.10
951 2176 5.802956 GTCCTGTTCTGTTCGATCTTCTAAG 59.197 44.000 0.00 0.00 0.00 2.18
954 2179 6.529829 CCTGTTCTGTTCGATCTTCTAAGAAG 59.470 42.308 0.00 0.00 38.77 2.85
955 2180 6.982852 TGTTCTGTTCGATCTTCTAAGAAGT 58.017 36.000 1.09 0.00 38.77 3.01
956 2181 7.434492 TGTTCTGTTCGATCTTCTAAGAAGTT 58.566 34.615 1.09 0.00 38.77 2.66
1027 2269 2.288013 GCTCGATCGCGTTTGATCA 58.712 52.632 11.09 0.00 44.02 2.92
1178 2420 1.130938 ACGGTTTGTTGTTCGTGGTTC 59.869 47.619 0.00 0.00 34.40 3.62
1181 2423 0.099082 TTTGTTGTTCGTGGTTCGGC 59.901 50.000 0.00 0.00 40.32 5.54
1197 2439 2.006888 TCGGCTGATTGATTCGGTTTC 58.993 47.619 0.00 0.00 32.85 2.78
1198 2440 2.009774 CGGCTGATTGATTCGGTTTCT 58.990 47.619 0.00 0.00 32.85 2.52
1329 2582 2.203728 TGCTACCAGGTCCGGTGT 60.204 61.111 13.67 2.84 40.39 4.16
1755 3035 2.954684 GCTCCGGATGGTGGTCACA 61.955 63.158 3.57 0.00 36.30 3.58
1905 3185 1.293498 CCGGGAGTGGAAGTGACAG 59.707 63.158 0.00 0.00 0.00 3.51
1974 3258 1.411041 ACTACTCGTGCTAATCCCCC 58.589 55.000 0.00 0.00 0.00 5.40
2019 3303 5.570288 GATTAACGAAGCGAAACGAATTG 57.430 39.130 0.00 0.00 0.00 2.32
2020 3304 2.309898 AACGAAGCGAAACGAATTGG 57.690 45.000 0.00 0.00 0.00 3.16
2021 3305 1.223187 ACGAAGCGAAACGAATTGGT 58.777 45.000 0.00 0.00 0.00 3.67
2022 3306 1.070175 ACGAAGCGAAACGAATTGGTG 60.070 47.619 0.00 0.00 0.00 4.17
2025 3309 0.536460 AGCGAAACGAATTGGTGGGT 60.536 50.000 0.00 0.00 0.00 4.51
2075 3368 1.078214 TCCGGCCTTGCTGATTGAG 60.078 57.895 0.00 0.00 37.02 3.02
2145 3446 0.253160 AGATGGGGAGTAGGGTGCAA 60.253 55.000 0.00 0.00 0.00 4.08
2260 3561 3.488090 CTTCCCCTTTCGCGCGTC 61.488 66.667 30.98 0.00 0.00 5.19
2261 3562 3.934391 CTTCCCCTTTCGCGCGTCT 62.934 63.158 30.98 0.00 0.00 4.18
2262 3563 3.927163 TTCCCCTTTCGCGCGTCTC 62.927 63.158 30.98 0.00 0.00 3.36
2267 3568 3.055905 CTTTCGCGCGTCTCGGTTC 62.056 63.158 30.98 0.00 38.94 3.62
2268 3569 3.547249 TTTCGCGCGTCTCGGTTCT 62.547 57.895 30.98 0.00 38.94 3.01
2269 3570 3.940975 TTCGCGCGTCTCGGTTCTC 62.941 63.158 30.98 0.00 38.94 2.87
2272 3573 3.796443 CGCGTCTCGGTTCTCGGA 61.796 66.667 0.00 0.00 39.77 4.55
2273 3574 2.799371 GCGTCTCGGTTCTCGGAT 59.201 61.111 0.00 0.00 39.77 4.18
2274 3575 1.586564 GCGTCTCGGTTCTCGGATG 60.587 63.158 0.00 0.00 39.77 3.51
2275 3576 1.586564 CGTCTCGGTTCTCGGATGC 60.587 63.158 0.00 0.00 39.77 3.91
2276 3577 1.586564 GTCTCGGTTCTCGGATGCG 60.587 63.158 0.00 0.00 39.77 4.73
2277 3578 2.956964 CTCGGTTCTCGGATGCGC 60.957 66.667 0.00 0.00 39.77 6.09
2278 3579 4.847516 TCGGTTCTCGGATGCGCG 62.848 66.667 0.00 0.00 39.77 6.86
2280 3581 2.813908 GGTTCTCGGATGCGCGTT 60.814 61.111 8.43 0.00 0.00 4.84
2281 3582 2.395690 GTTCTCGGATGCGCGTTG 59.604 61.111 8.43 0.00 0.00 4.10
2282 3583 3.487202 TTCTCGGATGCGCGTTGC 61.487 61.111 8.43 0.00 46.70 4.17
2342 3652 1.500396 GCGTTTCGTGTGATTCCCC 59.500 57.895 0.00 0.00 0.00 4.81
2343 3653 1.918868 GCGTTTCGTGTGATTCCCCC 61.919 60.000 0.00 0.00 0.00 5.40
2344 3654 1.632046 CGTTTCGTGTGATTCCCCCG 61.632 60.000 0.00 0.00 0.00 5.73
2345 3655 1.003112 TTTCGTGTGATTCCCCCGG 60.003 57.895 0.00 0.00 0.00 5.73
2346 3656 3.615509 TTCGTGTGATTCCCCCGGC 62.616 63.158 0.00 0.00 0.00 6.13
2348 3658 4.404098 GTGTGATTCCCCCGGCGT 62.404 66.667 6.01 0.00 0.00 5.68
2349 3659 4.402528 TGTGATTCCCCCGGCGTG 62.403 66.667 6.01 0.00 0.00 5.34
2350 3660 4.090588 GTGATTCCCCCGGCGTGA 62.091 66.667 6.01 0.00 0.00 4.35
2351 3661 4.090588 TGATTCCCCCGGCGTGAC 62.091 66.667 6.01 0.00 0.00 3.67
2407 3727 2.913054 GATCTGCCTGCTGCGCACTA 62.913 60.000 5.66 0.00 45.60 2.74
2443 3763 1.742411 CGTTCCGGTAACTGGCATGAT 60.742 52.381 0.00 0.00 35.81 2.45
2468 3788 1.616374 GGGTAGAGTGATAGGAGCTGC 59.384 57.143 0.00 0.00 0.00 5.25
2533 3853 0.671251 AACCGCCGCAAAAGATTTGA 59.329 45.000 6.99 0.00 0.00 2.69
2591 3911 6.686630 TCTTAATTAACACAAAGCATGGTGG 58.313 36.000 0.00 0.00 39.31 4.61
2616 3937 3.949113 ACCATCACAAACAGTTAAACGGT 59.051 39.130 0.00 0.00 0.00 4.83
2624 3946 5.982516 ACAAACAGTTAAACGGTATACACGA 59.017 36.000 17.12 0.00 34.93 4.35
2641 3963 2.917971 CACGAGATGTCCGAGAAAGAAC 59.082 50.000 0.00 0.00 0.00 3.01
2644 3966 3.987868 CGAGATGTCCGAGAAAGAACAAA 59.012 43.478 0.00 0.00 0.00 2.83
2683 4005 7.110155 AGGATTTCGGTACAATGAACATAGTT 58.890 34.615 0.00 0.00 0.00 2.24
2701 4023 5.194473 TAGTTGTGACTCAGGAGGATACT 57.806 43.478 0.83 0.00 43.91 2.12
2714 4036 2.376808 GGATACTGATGCATCCGAGG 57.623 55.000 23.67 13.09 31.87 4.63
2715 4037 1.620819 GGATACTGATGCATCCGAGGT 59.379 52.381 23.67 17.54 31.87 3.85
2716 4038 2.037772 GGATACTGATGCATCCGAGGTT 59.962 50.000 23.67 7.35 31.87 3.50
2717 4039 3.495100 GGATACTGATGCATCCGAGGTTT 60.495 47.826 23.67 11.74 31.87 3.27
2718 4040 2.496899 ACTGATGCATCCGAGGTTTT 57.503 45.000 23.67 0.00 0.00 2.43
2719 4041 2.795329 ACTGATGCATCCGAGGTTTTT 58.205 42.857 23.67 0.00 0.00 1.94
2744 4066 4.025979 GCCGAGGTTTTATGAAGTATCACG 60.026 45.833 0.00 0.00 38.69 4.35
2754 4076 4.884668 TGAAGTATCACGAAGGAAAGGT 57.115 40.909 0.00 0.00 0.00 3.50
2758 4080 4.741342 AGTATCACGAAGGAAAGGTAACG 58.259 43.478 0.00 0.00 46.39 3.18
2761 4083 2.624838 TCACGAAGGAAAGGTAACGTCT 59.375 45.455 0.00 0.00 46.39 4.18
2807 4142 7.099120 TCGAATATCATTCGATTGACATGGAT 58.901 34.615 17.43 0.00 44.76 3.41
2813 4148 7.744375 TATCATTCGATTGACATGGATGTCCAT 60.744 37.037 15.54 8.73 43.35 3.41
2838 4173 0.247145 CGCTGTCGGTTATTGAACGC 60.247 55.000 0.00 0.00 36.32 4.84
2842 4177 0.094046 GTCGGTTATTGAACGCACGG 59.906 55.000 0.00 0.00 36.32 4.94
2847 4182 2.227556 GTTATTGAACGCACGGTTTCG 58.772 47.619 0.00 0.00 39.50 3.46
2866 4201 6.812160 GGTTTCGTTCATATCTGTGAGTTACT 59.188 38.462 0.00 0.00 0.00 2.24
2870 4205 7.027760 TCGTTCATATCTGTGAGTTACTGAAC 58.972 38.462 0.00 6.91 40.11 3.18
2879 4214 1.479730 GAGTTACTGAACCTACGGGGG 59.520 57.143 0.00 0.00 40.03 5.40
2882 4217 0.325860 TACTGAACCTACGGGGGCAT 60.326 55.000 1.95 0.00 40.03 4.40
2889 4224 0.535102 CCTACGGGGGCATAAGCTTG 60.535 60.000 9.86 0.00 41.70 4.01
2897 4232 1.758862 GGGCATAAGCTTGAGGCAATT 59.241 47.619 21.95 0.00 44.79 2.32
2901 4236 4.279169 GGCATAAGCTTGAGGCAATTATGA 59.721 41.667 9.86 0.00 44.79 2.15
2902 4237 5.047519 GGCATAAGCTTGAGGCAATTATGAT 60.048 40.000 9.86 0.00 44.79 2.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 1.142465 AGCCAGTCATGCTAATCCCAG 59.858 52.381 0.00 0.00 37.28 4.45
30 31 2.093890 TGACACATTAATGCCAGCCAG 58.906 47.619 15.48 0.28 0.00 4.85
57 58 0.806102 CATGCCCTACGGTCTTGTCG 60.806 60.000 0.00 0.00 0.00 4.35
83 90 2.998480 TTTCGTGCGCCCCTCCTA 60.998 61.111 4.18 0.00 0.00 2.94
122 129 1.804151 GTGCAAACCGCTCATGAGTTA 59.196 47.619 23.38 0.00 43.06 2.24
129 136 1.891919 GTCTGGTGCAAACCGCTCA 60.892 57.895 0.00 0.00 43.06 4.26
130 137 1.444119 TTGTCTGGTGCAAACCGCTC 61.444 55.000 0.00 0.00 43.06 5.03
182 189 1.679153 CTTACACGCCTGGTTTTGGTT 59.321 47.619 0.00 0.00 0.00 3.67
200 207 0.475044 TACCAAACAAGGGTCGGCTT 59.525 50.000 0.00 0.00 39.85 4.35
270 278 1.459450 ACGCAATAAACGGATTGGCT 58.541 45.000 8.47 0.00 37.31 4.75
275 283 1.325338 GCACGTACGCAATAAACGGAT 59.675 47.619 16.72 0.00 40.81 4.18
375 383 5.880332 TCCACTGTGCTCCTATTGTTTATTC 59.120 40.000 1.29 0.00 0.00 1.75
377 385 5.186198 GTCCACTGTGCTCCTATTGTTTAT 58.814 41.667 1.29 0.00 0.00 1.40
386 394 3.476386 CAGGTCCACTGTGCTCCT 58.524 61.111 13.54 13.54 42.42 3.69
417 425 2.746277 GGACGCCGCCTTCACAAT 60.746 61.111 0.00 0.00 0.00 2.71
446 454 1.943340 TCTCGTCTCATCTCATCGGTG 59.057 52.381 0.00 0.00 0.00 4.94
447 455 2.217750 CTCTCGTCTCATCTCATCGGT 58.782 52.381 0.00 0.00 0.00 4.69
510 519 1.406341 CGTTTCCTTGGGGCTTATCGA 60.406 52.381 0.00 0.00 0.00 3.59
570 579 2.880648 GGCTAGGCTTGCACTTGC 59.119 61.111 21.83 0.97 42.50 4.01
571 580 3.044059 GCGGCTAGGCTTGCACTTG 62.044 63.158 21.83 9.73 32.24 3.16
572 581 2.747855 GCGGCTAGGCTTGCACTT 60.748 61.111 21.83 0.00 32.24 3.16
573 582 4.785453 GGCGGCTAGGCTTGCACT 62.785 66.667 21.83 0.00 42.90 4.40
632 647 1.004679 TTTAACGGAGGTGACGGGC 60.005 57.895 0.00 0.00 35.23 6.13
644 659 1.076332 CAAGGAGGAGGCGTTTAACG 58.924 55.000 13.57 13.57 45.88 3.18
675 1238 5.886960 AATTCCTGAGGAAAGAATCAACG 57.113 39.130 19.14 0.00 45.41 4.10
679 1242 7.797062 AGGTAGTAATTCCTGAGGAAAGAATC 58.203 38.462 19.14 7.46 45.41 2.52
712 1275 0.690762 TTCCACCTGCTGTTACCTCC 59.309 55.000 0.00 0.00 0.00 4.30
725 1288 0.109919 GGTTGATTCGCGTTTCCACC 60.110 55.000 5.77 11.80 0.00 4.61
742 1305 2.158667 CCTAACCAACTCAACCACAGGT 60.159 50.000 0.00 0.00 37.65 4.00
743 1306 2.158667 ACCTAACCAACTCAACCACAGG 60.159 50.000 0.00 0.00 0.00 4.00
745 1308 2.422235 CCACCTAACCAACTCAACCACA 60.422 50.000 0.00 0.00 0.00 4.17
749 1312 3.139077 CTGTCCACCTAACCAACTCAAC 58.861 50.000 0.00 0.00 0.00 3.18
750 1313 2.775384 ACTGTCCACCTAACCAACTCAA 59.225 45.455 0.00 0.00 0.00 3.02
752 1315 2.550208 CCACTGTCCACCTAACCAACTC 60.550 54.545 0.00 0.00 0.00 3.01
753 1316 1.420138 CCACTGTCCACCTAACCAACT 59.580 52.381 0.00 0.00 0.00 3.16
755 1318 1.513858 ACCACTGTCCACCTAACCAA 58.486 50.000 0.00 0.00 0.00 3.67
756 1319 2.402182 TACCACTGTCCACCTAACCA 57.598 50.000 0.00 0.00 0.00 3.67
757 1320 2.169978 GGATACCACTGTCCACCTAACC 59.830 54.545 0.00 0.00 34.57 2.85
773 1336 1.613061 CCTGGTGGGTTGGGGATAC 59.387 63.158 0.00 0.00 0.00 2.24
774 1337 4.179896 CCTGGTGGGTTGGGGATA 57.820 61.111 0.00 0.00 0.00 2.59
784 1347 1.549203 CAGGATTTGAACCCTGGTGG 58.451 55.000 0.00 0.00 44.68 4.61
789 1352 0.779997 AGCACCAGGATTTGAACCCT 59.220 50.000 0.00 0.00 0.00 4.34
790 1353 1.177401 GAGCACCAGGATTTGAACCC 58.823 55.000 0.00 0.00 0.00 4.11
793 2018 0.250684 TGCGAGCACCAGGATTTGAA 60.251 50.000 0.00 0.00 0.00 2.69
796 2021 2.418368 TAATGCGAGCACCAGGATTT 57.582 45.000 0.00 0.00 31.11 2.17
798 2023 2.498167 GAATAATGCGAGCACCAGGAT 58.502 47.619 0.00 0.00 0.00 3.24
799 2024 1.475034 GGAATAATGCGAGCACCAGGA 60.475 52.381 0.00 0.00 0.00 3.86
802 2027 1.667236 CAGGAATAATGCGAGCACCA 58.333 50.000 0.00 0.00 0.00 4.17
804 2029 1.953559 TCCAGGAATAATGCGAGCAC 58.046 50.000 0.00 0.00 0.00 4.40
820 2045 5.067674 CGCCAGAAATCCTGAAATAAATCCA 59.932 40.000 0.00 0.00 45.78 3.41
821 2046 5.299279 TCGCCAGAAATCCTGAAATAAATCC 59.701 40.000 0.00 0.00 45.78 3.01
822 2047 6.377327 TCGCCAGAAATCCTGAAATAAATC 57.623 37.500 0.00 0.00 45.78 2.17
823 2048 6.736794 GCATCGCCAGAAATCCTGAAATAAAT 60.737 38.462 0.00 0.00 45.78 1.40
825 2050 4.036734 GCATCGCCAGAAATCCTGAAATAA 59.963 41.667 0.00 0.00 45.78 1.40
827 2052 2.360165 GCATCGCCAGAAATCCTGAAAT 59.640 45.455 0.00 0.00 45.78 2.17
828 2053 1.745087 GCATCGCCAGAAATCCTGAAA 59.255 47.619 0.00 0.00 45.78 2.69
830 2055 0.811219 CGCATCGCCAGAAATCCTGA 60.811 55.000 0.00 0.00 45.78 3.86
831 2056 1.645455 CGCATCGCCAGAAATCCTG 59.355 57.895 0.00 0.00 42.55 3.86
832 2057 4.131376 CGCATCGCCAGAAATCCT 57.869 55.556 0.00 0.00 0.00 3.24
843 2068 1.699656 CTCCCACTGAAAGCGCATCG 61.700 60.000 11.47 6.82 37.60 3.84
844 2069 1.372087 CCTCCCACTGAAAGCGCATC 61.372 60.000 11.47 8.39 37.60 3.91
845 2070 1.377725 CCTCCCACTGAAAGCGCAT 60.378 57.895 11.47 0.00 37.60 4.73
846 2071 2.032528 CCTCCCACTGAAAGCGCA 59.967 61.111 11.47 0.00 37.60 6.09
847 2072 1.743252 CTCCTCCCACTGAAAGCGC 60.743 63.158 0.00 0.00 37.60 5.92
848 2073 0.390472 GTCTCCTCCCACTGAAAGCG 60.390 60.000 0.00 0.00 37.60 4.68
849 2074 0.390472 CGTCTCCTCCCACTGAAAGC 60.390 60.000 0.00 0.00 37.60 3.51
850 2075 0.969894 ACGTCTCCTCCCACTGAAAG 59.030 55.000 0.00 0.00 42.29 2.62
851 2076 1.420430 AACGTCTCCTCCCACTGAAA 58.580 50.000 0.00 0.00 0.00 2.69
852 2077 1.343465 GAAACGTCTCCTCCCACTGAA 59.657 52.381 0.00 0.00 0.00 3.02
853 2078 0.966920 GAAACGTCTCCTCCCACTGA 59.033 55.000 0.00 0.00 0.00 3.41
854 2079 0.037232 GGAAACGTCTCCTCCCACTG 60.037 60.000 0.00 0.00 32.21 3.66
855 2080 2.363297 GGAAACGTCTCCTCCCACT 58.637 57.895 0.00 0.00 32.21 4.00
877 2102 4.539881 GAGAGGCGCCTCGTCGTC 62.540 72.222 42.47 32.50 46.90 4.20
879 2104 4.244802 GAGAGAGGCGCCTCGTCG 62.245 72.222 42.47 0.00 46.90 5.12
880 2105 4.244802 CGAGAGAGGCGCCTCGTC 62.245 72.222 42.47 38.12 46.90 4.20
883 2108 3.591835 CTCCGAGAGAGGCGCCTC 61.592 72.222 43.08 43.08 43.03 4.70
890 2115 2.336478 ACGCACACCTCCGAGAGAG 61.336 63.158 0.00 0.00 42.83 3.20
891 2116 2.282251 ACGCACACCTCCGAGAGA 60.282 61.111 0.00 0.00 0.00 3.10
892 2117 2.126307 CACGCACACCTCCGAGAG 60.126 66.667 0.00 0.00 0.00 3.20
893 2118 2.910479 ACACGCACACCTCCGAGA 60.910 61.111 0.00 0.00 0.00 4.04
894 2119 2.734723 CACACGCACACCTCCGAG 60.735 66.667 0.00 0.00 0.00 4.63
895 2120 3.533105 ACACACGCACACCTCCGA 61.533 61.111 0.00 0.00 0.00 4.55
896 2121 3.337889 CACACACGCACACCTCCG 61.338 66.667 0.00 0.00 0.00 4.63
897 2122 3.649986 GCACACACGCACACCTCC 61.650 66.667 0.00 0.00 0.00 4.30
898 2123 4.000557 CGCACACACGCACACCTC 62.001 66.667 0.00 0.00 0.00 3.85
899 2124 4.830765 ACGCACACACGCACACCT 62.831 61.111 0.00 0.00 36.19 4.00
900 2125 4.589700 CACGCACACACGCACACC 62.590 66.667 0.00 0.00 36.19 4.16
901 2126 3.375500 AACACGCACACACGCACAC 62.375 57.895 0.00 0.00 36.19 3.82
902 2127 3.089729 GAACACGCACACACGCACA 62.090 57.895 0.00 0.00 36.19 4.57
903 2128 2.350760 GAACACGCACACACGCAC 60.351 61.111 0.00 0.00 36.19 5.34
904 2129 2.510464 AGAACACGCACACACGCA 60.510 55.556 0.00 0.00 36.19 5.24
905 2130 2.053116 CAGAACACGCACACACGC 60.053 61.111 0.00 0.00 36.19 5.34
906 2131 2.053116 GCAGAACACGCACACACG 60.053 61.111 0.00 0.00 39.50 4.49
907 2132 2.327940 GGCAGAACACGCACACAC 59.672 61.111 0.00 0.00 0.00 3.82
908 2133 2.899838 GGGCAGAACACGCACACA 60.900 61.111 0.00 0.00 31.27 3.72
909 2134 2.591715 AGGGCAGAACACGCACAC 60.592 61.111 0.00 0.00 34.28 3.82
910 2135 2.591429 CAGGGCAGAACACGCACA 60.591 61.111 0.00 0.00 34.28 4.57
911 2136 2.591715 ACAGGGCAGAACACGCAC 60.592 61.111 0.00 0.00 0.00 5.34
912 2137 2.280797 GACAGGGCAGAACACGCA 60.281 61.111 0.00 0.00 0.00 5.24
913 2138 3.050275 GGACAGGGCAGAACACGC 61.050 66.667 0.00 0.00 0.00 5.34
914 2139 1.669115 CAGGACAGGGCAGAACACG 60.669 63.158 0.00 0.00 0.00 4.49
915 2140 0.179018 AACAGGACAGGGCAGAACAC 60.179 55.000 0.00 0.00 0.00 3.32
916 2141 0.108585 GAACAGGACAGGGCAGAACA 59.891 55.000 0.00 0.00 0.00 3.18
917 2142 0.398318 AGAACAGGACAGGGCAGAAC 59.602 55.000 0.00 0.00 0.00 3.01
918 2143 0.397941 CAGAACAGGACAGGGCAGAA 59.602 55.000 0.00 0.00 0.00 3.02
919 2144 0.764369 ACAGAACAGGACAGGGCAGA 60.764 55.000 0.00 0.00 0.00 4.26
920 2145 0.109342 AACAGAACAGGACAGGGCAG 59.891 55.000 0.00 0.00 0.00 4.85
921 2146 0.108585 GAACAGAACAGGACAGGGCA 59.891 55.000 0.00 0.00 0.00 5.36
922 2147 0.951040 CGAACAGAACAGGACAGGGC 60.951 60.000 0.00 0.00 0.00 5.19
923 2148 0.679505 TCGAACAGAACAGGACAGGG 59.320 55.000 0.00 0.00 0.00 4.45
924 2149 2.232452 AGATCGAACAGAACAGGACAGG 59.768 50.000 0.00 0.00 0.00 4.00
934 2159 6.982852 ACAACTTCTTAGAAGATCGAACAGA 58.017 36.000 26.49 0.00 34.49 3.41
950 2175 2.820787 CTCGGAGTGGTCTACAACTTCT 59.179 50.000 0.00 0.00 0.00 2.85
951 2176 2.557490 ACTCGGAGTGGTCTACAACTTC 59.443 50.000 10.41 0.00 0.00 3.01
954 2179 3.669023 CGTTACTCGGAGTGGTCTACAAC 60.669 52.174 20.58 13.03 35.71 3.32
955 2180 2.485426 CGTTACTCGGAGTGGTCTACAA 59.515 50.000 20.58 2.11 35.71 2.41
956 2181 2.079158 CGTTACTCGGAGTGGTCTACA 58.921 52.381 20.58 0.00 35.71 2.74
1027 2269 2.010582 GCGAGGAAGACGAGCAGGAT 62.011 60.000 0.00 0.00 0.00 3.24
1155 2397 2.944349 ACCACGAACAACAAACCGTAAT 59.056 40.909 0.00 0.00 33.62 1.89
1178 2420 2.009774 AGAAACCGAATCAATCAGCCG 58.990 47.619 0.00 0.00 0.00 5.52
1181 2423 4.033817 GCAGAGAGAAACCGAATCAATCAG 59.966 45.833 0.00 0.00 0.00 2.90
1278 2531 4.162690 CCTCCCCTGTACAGCGCC 62.163 72.222 17.86 0.00 0.00 6.53
1623 2903 4.429212 TCCACCGCCACGATGTCG 62.429 66.667 0.11 0.11 46.33 4.35
1885 3165 2.203182 TCACTTCCACTCCCGGGT 59.797 61.111 22.86 0.00 0.00 5.28
1905 3185 2.740714 GCGGGATTCGTGTCTGCAC 61.741 63.158 0.00 0.00 41.72 4.57
1974 3258 5.105310 TCGTTATCCAAGAAGAAAGGAGAGG 60.105 44.000 0.00 0.00 34.40 3.69
1976 3260 5.995565 TCGTTATCCAAGAAGAAAGGAGA 57.004 39.130 0.00 0.00 34.40 3.71
2010 3294 2.074729 TCCAACCCACCAATTCGTTT 57.925 45.000 0.00 0.00 0.00 3.60
2013 3297 1.812571 CTCTTCCAACCCACCAATTCG 59.187 52.381 0.00 0.00 0.00 3.34
2018 3302 0.764890 CTGACTCTTCCAACCCACCA 59.235 55.000 0.00 0.00 0.00 4.17
2019 3303 1.056660 TCTGACTCTTCCAACCCACC 58.943 55.000 0.00 0.00 0.00 4.61
2020 3304 1.605712 CGTCTGACTCTTCCAACCCAC 60.606 57.143 6.21 0.00 0.00 4.61
2021 3305 0.679505 CGTCTGACTCTTCCAACCCA 59.320 55.000 6.21 0.00 0.00 4.51
2022 3306 0.680061 ACGTCTGACTCTTCCAACCC 59.320 55.000 6.21 0.00 0.00 4.11
2025 3309 0.318699 CGCACGTCTGACTCTTCCAA 60.319 55.000 6.21 0.00 0.00 3.53
2129 3430 0.253160 ATCTTGCACCCTACTCCCCA 60.253 55.000 0.00 0.00 0.00 4.96
2145 3446 4.742201 AAGACGCGCCGCACATCT 62.742 61.111 10.75 5.73 0.00 2.90
2245 3546 4.430765 GAGACGCGCGAAAGGGGA 62.431 66.667 39.36 0.00 45.27 4.81
2260 3561 2.956964 GCGCATCCGAGAACCGAG 60.957 66.667 0.30 0.00 41.76 4.63
2261 3562 4.847516 CGCGCATCCGAGAACCGA 62.848 66.667 8.75 0.00 41.76 4.69
2274 3575 0.974836 GTACAGAAAATGCAACGCGC 59.025 50.000 5.73 0.00 42.89 6.86
2275 3576 2.233355 CAGTACAGAAAATGCAACGCG 58.767 47.619 3.53 3.53 0.00 6.01
2276 3577 2.584791 CCAGTACAGAAAATGCAACGC 58.415 47.619 0.00 0.00 0.00 4.84
2277 3578 2.668279 GCCCAGTACAGAAAATGCAACG 60.668 50.000 0.00 0.00 0.00 4.10
2278 3579 2.295909 TGCCCAGTACAGAAAATGCAAC 59.704 45.455 0.00 0.00 0.00 4.17
2279 3580 2.591923 TGCCCAGTACAGAAAATGCAA 58.408 42.857 0.00 0.00 0.00 4.08
2280 3581 2.284754 TGCCCAGTACAGAAAATGCA 57.715 45.000 0.00 0.00 0.00 3.96
2281 3582 3.514645 CATTGCCCAGTACAGAAAATGC 58.485 45.455 0.00 0.00 0.00 3.56
2282 3583 3.511146 ACCATTGCCCAGTACAGAAAATG 59.489 43.478 0.00 0.00 0.00 2.32
2283 3584 3.511146 CACCATTGCCCAGTACAGAAAAT 59.489 43.478 0.00 0.00 0.00 1.82
2284 3585 2.890311 CACCATTGCCCAGTACAGAAAA 59.110 45.455 0.00 0.00 0.00 2.29
2349 3659 4.324991 AAGGGAACACCGGGCGTC 62.325 66.667 6.32 0.00 46.96 5.19
2350 3660 4.636435 CAAGGGAACACCGGGCGT 62.636 66.667 6.32 0.00 46.96 5.68
2354 3664 4.636435 ACGGCAAGGGAACACCGG 62.636 66.667 0.00 0.00 46.96 5.28
2355 3665 3.047877 GACGGCAAGGGAACACCG 61.048 66.667 0.00 0.00 46.96 4.94
2356 3666 2.438951 TACGACGGCAAGGGAACACC 62.439 60.000 0.00 0.00 40.67 4.16
2360 3670 1.474332 AACCTACGACGGCAAGGGAA 61.474 55.000 11.22 0.00 34.52 3.97
2407 3727 2.481449 GGAACGACGAGCATATTGGAGT 60.481 50.000 0.00 0.00 0.00 3.85
2443 3763 1.573857 TCCTATCACTCTACCCCTGCA 59.426 52.381 0.00 0.00 0.00 4.41
2533 3853 7.066766 CCTCTTCTGCTTAATTAACAGCTGAAT 59.933 37.037 23.35 7.87 46.56 2.57
2568 3888 6.586082 GTCCACCATGCTTTGTGTTAATTAAG 59.414 38.462 0.00 0.00 0.00 1.85
2591 3911 4.967575 CGTTTAACTGTTTGTGATGGTGTC 59.032 41.667 0.00 0.00 0.00 3.67
2606 3927 6.199937 ACATCTCGTGTATACCGTTTAACT 57.800 37.500 11.74 0.00 39.91 2.24
2616 3937 5.121105 TCTTTCTCGGACATCTCGTGTATA 58.879 41.667 0.00 0.00 42.36 1.47
2644 3966 4.093850 CCGAAATCCTCGTTATCGGTTTTT 59.906 41.667 4.45 0.00 46.65 1.94
2670 3992 5.934043 TCCTGAGTCACAACTATGTTCATTG 59.066 40.000 0.00 0.00 37.82 2.82
2676 3998 3.779444 TCCTCCTGAGTCACAACTATGT 58.221 45.455 0.00 0.00 41.61 2.29
2683 4005 3.739401 TCAGTATCCTCCTGAGTCACA 57.261 47.619 0.00 0.00 34.12 3.58
2716 4038 5.523438 ACTTCATAAAACCTCGGCAAAAA 57.477 34.783 0.00 0.00 0.00 1.94
2717 4039 6.431543 TGATACTTCATAAAACCTCGGCAAAA 59.568 34.615 0.00 0.00 0.00 2.44
2718 4040 5.941058 TGATACTTCATAAAACCTCGGCAAA 59.059 36.000 0.00 0.00 0.00 3.68
2719 4041 5.353123 GTGATACTTCATAAAACCTCGGCAA 59.647 40.000 0.00 0.00 33.56 4.52
2720 4042 4.873827 GTGATACTTCATAAAACCTCGGCA 59.126 41.667 0.00 0.00 33.56 5.69
2721 4043 4.025979 CGTGATACTTCATAAAACCTCGGC 60.026 45.833 0.00 0.00 33.56 5.54
2732 4054 5.422214 ACCTTTCCTTCGTGATACTTCAT 57.578 39.130 0.00 0.00 33.56 2.57
2744 4066 4.817517 TCATGAGACGTTACCTTTCCTTC 58.182 43.478 0.00 0.00 0.00 3.46
2754 4076 6.045072 ACCTTTGGTTATCATGAGACGTTA 57.955 37.500 0.09 0.00 27.29 3.18
2758 4080 5.940470 AGTGAACCTTTGGTTATCATGAGAC 59.060 40.000 0.09 2.41 46.95 3.36
2761 4083 4.935205 CGAGTGAACCTTTGGTTATCATGA 59.065 41.667 0.00 0.00 46.95 3.07
2807 4142 2.927856 ACAGCGGGACCATGGACA 60.928 61.111 21.47 0.00 0.00 4.02
2829 4164 1.500108 ACGAAACCGTGCGTTCAATA 58.500 45.000 0.00 0.00 39.04 1.90
2838 4173 3.924073 TCACAGATATGAACGAAACCGTG 59.076 43.478 0.00 0.00 40.55 4.94
2842 4177 7.541091 TCAGTAACTCACAGATATGAACGAAAC 59.459 37.037 0.00 0.00 0.00 2.78
2847 4182 7.324178 AGGTTCAGTAACTCACAGATATGAAC 58.676 38.462 0.00 6.25 42.71 3.18
2853 4188 5.312120 CGTAGGTTCAGTAACTCACAGAT 57.688 43.478 0.00 0.00 35.81 2.90
2870 4205 0.535102 CAAGCTTATGCCCCCGTAGG 60.535 60.000 0.00 0.00 45.10 3.18
2879 4214 5.443185 TCATAATTGCCTCAAGCTTATGC 57.557 39.130 0.00 2.63 44.23 3.14


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

AutoCloner maintained by Alex Coulton.