Multiple sequence alignment - TraesCS2D01G097200

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 TraesCS2D01G097200 chr2D 100.000 5101 0 0 1 5101 49620184 49615084 0.000000e+00 9420.0
1 TraesCS2D01G097200 chr2B 91.835 2915 170 29 674 3542 76920632 76917740 0.000000e+00 4002.0
2 TraesCS2D01G097200 chr2B 91.024 791 34 12 3540 4317 76917308 76916542 0.000000e+00 1033.0
3 TraesCS2D01G097200 chr2B 88.430 363 25 6 4738 5100 76915588 76915243 6.110000e-114 422.0
4 TraesCS2D01G097200 chr2B 82.201 427 44 16 2 410 76921340 76920928 6.330000e-89 339.0
5 TraesCS2D01G097200 chr2B 93.889 180 8 2 4474 4653 76915940 76915764 8.420000e-68 268.0
6 TraesCS2D01G097200 chr2A 92.696 2355 103 27 2323 4669 51564449 51562156 0.000000e+00 3332.0
7 TraesCS2D01G097200 chr2A 88.505 1679 116 38 674 2322 51566160 51564529 0.000000e+00 1960.0
8 TraesCS2D01G097200 chr2A 90.110 455 28 5 4663 5100 51562098 51561644 4.430000e-160 575.0
9 TraesCS2D01G097200 chr2A 84.360 422 37 18 1 413 51566837 51566436 2.230000e-103 387.0
10 TraesCS2D01G097200 chr7A 86.813 91 11 1 237 326 526789818 526789728 3.250000e-17 100.0
11 TraesCS2D01G097200 chr5D 75.978 179 32 8 234 410 416874528 416874697 1.180000e-11 82.4
12 TraesCS2D01G097200 chr1A 88.571 70 4 4 237 304 550316246 550316313 1.180000e-11 82.4
13 TraesCS2D01G097200 chr6D 77.869 122 21 5 225 346 328961437 328961322 2.550000e-08 71.3
14 TraesCS2D01G097200 chr5A 84.848 66 8 1 225 290 689157404 689157341 1.190000e-06 65.8
15 TraesCS2D01G097200 chr3A 89.091 55 3 2 222 276 71211807 71211858 1.190000e-06 65.8
16 TraesCS2D01G097200 chr4A 81.176 85 10 3 246 329 51374341 51374420 4.260000e-06 63.9
17 TraesCS2D01G097200 chr3D 93.023 43 2 1 243 285 3006155 3006114 1.530000e-05 62.1
18 TraesCS2D01G097200 chr4B 97.222 36 0 1 294 329 508442789 508442755 5.520000e-05 60.2
19 TraesCS2D01G097200 chr7D 96.875 32 0 1 245 276 613776180 613776150 9.000000e-03 52.8


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 TraesCS2D01G097200 chr2D 49615084 49620184 5100 True 9420.0 9420 100.00000 1 5101 1 chr2D.!!$R1 5100
1 TraesCS2D01G097200 chr2B 76915243 76921340 6097 True 1212.8 4002 89.47580 2 5100 5 chr2B.!!$R1 5098
2 TraesCS2D01G097200 chr2A 51561644 51566837 5193 True 1563.5 3332 88.91775 1 5100 4 chr2A.!!$R1 5099

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
902 1055 0.189822 GAGCCATACCCTCTCTCCCT 59.810 60.0 0.0 0.0 0.00 4.20 F
1844 2033 0.322456 TTCTTGATGCAAGGGACCCG 60.322 55.0 4.4 0.0 41.33 5.28 F
2609 2880 0.250338 ACAGTTTGAAGAGGTCCCGC 60.250 55.0 0.0 0.0 0.00 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2519 2790 0.822811 TTGCCAACTTGAGCTGCAAA 59.177 45.0 1.02 0.00 38.83 3.68 R
3452 3723 0.036022 AGGAAGACCACTGAAGCTGC 59.964 55.0 0.00 0.00 38.94 5.25 R
4515 5682 0.035152 CCATTGGCTGACACTGCCTA 60.035 55.0 17.55 12.13 46.43 3.93 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
77 80 4.123497 AGTTGAGTTTGTTTTTCTGGGC 57.877 40.909 0.00 0.00 0.00 5.36
121 124 8.075593 TGCAATTCTAGCAAATTTGAGAAAAC 57.924 30.769 22.31 14.45 39.39 2.43
146 149 8.308207 ACTTTCAAAGTTTAAAAAGTGCCACTA 58.692 29.630 19.69 0.00 39.72 2.74
155 158 7.575414 TTAAAAAGTGCCACTACAATTCTCA 57.425 32.000 0.00 0.00 0.00 3.27
182 185 8.721705 GTATGTCCATACAGTCGATACGACCG 62.722 50.000 18.29 12.24 43.77 4.79
189 192 3.285838 TCGATACGACCGAGGAGAG 57.714 57.895 0.00 0.00 0.00 3.20
204 216 0.616111 GAGAGGGAGTCAGGGAGCAA 60.616 60.000 0.00 0.00 0.00 3.91
219 231 3.891977 GGGAGCAAGAGAGGTTTTCTTTT 59.108 43.478 0.00 0.00 35.87 2.27
220 232 4.342378 GGGAGCAAGAGAGGTTTTCTTTTT 59.658 41.667 0.00 0.00 35.87 1.94
373 409 9.790389 TGAATGTCATGTAACGTTTTAAAAACT 57.210 25.926 5.91 0.00 0.00 2.66
381 417 8.273780 TGTAACGTTTTAAAAACTTAGTGGGA 57.726 30.769 5.91 0.00 0.00 4.37
383 419 9.009327 GTAACGTTTTAAAAACTTAGTGGGAAC 57.991 33.333 5.91 0.00 0.00 3.62
384 420 7.155655 ACGTTTTAAAAACTTAGTGGGAACA 57.844 32.000 1.31 0.00 38.70 3.18
385 421 7.774134 ACGTTTTAAAAACTTAGTGGGAACAT 58.226 30.769 1.31 0.00 46.14 2.71
445 491 6.452494 TCTTTTGAAACCCGTGAACATTTA 57.548 33.333 0.00 0.00 0.00 1.40
447 493 8.167605 TCTTTTGAAACCCGTGAACATTTATA 57.832 30.769 0.00 0.00 0.00 0.98
526 591 9.953697 TTATTTTACATTGTACGGGCATTTATC 57.046 29.630 0.00 0.00 0.00 1.75
527 592 7.633193 TTTTACATTGTACGGGCATTTATCT 57.367 32.000 0.00 0.00 0.00 1.98
528 593 8.734218 TTTTACATTGTACGGGCATTTATCTA 57.266 30.769 0.00 0.00 0.00 1.98
529 594 8.734218 TTTACATTGTACGGGCATTTATCTAA 57.266 30.769 0.00 0.00 0.00 2.10
651 723 7.214467 TGTGTGACATCCCTTTTAAAGATTC 57.786 36.000 6.24 0.00 0.00 2.52
656 728 9.010029 GTGACATCCCTTTTAAAGATTCAACTA 57.990 33.333 6.24 0.00 0.00 2.24
702 844 6.091713 ACGCAATCTAACAAATTAACGCTACT 59.908 34.615 0.00 0.00 0.00 2.57
749 891 2.126110 GGGAAAACGGGCGCATTG 60.126 61.111 10.83 0.00 0.00 2.82
760 902 2.652530 CGCATTGCTGTTTGGGCT 59.347 55.556 7.12 0.00 0.00 5.19
763 905 1.135024 CGCATTGCTGTTTGGGCTAAT 60.135 47.619 7.12 0.00 0.00 1.73
764 906 2.674747 CGCATTGCTGTTTGGGCTAATT 60.675 45.455 7.12 0.00 0.00 1.40
765 907 3.428725 CGCATTGCTGTTTGGGCTAATTA 60.429 43.478 7.12 0.00 0.00 1.40
766 908 4.696455 GCATTGCTGTTTGGGCTAATTAT 58.304 39.130 0.16 0.00 0.00 1.28
770 912 2.224042 GCTGTTTGGGCTAATTATGGGC 60.224 50.000 0.00 0.00 0.00 5.36
771 913 2.028130 TGTTTGGGCTAATTATGGGCG 58.972 47.619 0.00 0.00 32.98 6.13
772 914 2.028876 GTTTGGGCTAATTATGGGCGT 58.971 47.619 0.00 0.00 32.98 5.68
773 915 1.975660 TTGGGCTAATTATGGGCGTC 58.024 50.000 0.00 0.00 32.98 5.19
774 916 0.840617 TGGGCTAATTATGGGCGTCA 59.159 50.000 0.00 0.00 32.98 4.35
775 917 1.423541 TGGGCTAATTATGGGCGTCAT 59.576 47.619 0.00 0.00 39.78 3.06
777 919 1.812571 GGCTAATTATGGGCGTCATGG 59.187 52.381 0.00 0.00 37.30 3.66
778 920 1.200020 GCTAATTATGGGCGTCATGGC 59.800 52.381 0.00 0.00 43.88 4.40
802 955 4.424711 GGTCCCTCGCAATGGCCA 62.425 66.667 8.56 8.56 36.38 5.36
803 956 2.825836 GTCCCTCGCAATGGCCAG 60.826 66.667 13.05 0.00 36.38 4.85
808 961 1.672030 CTCGCAATGGCCAGACACA 60.672 57.895 13.05 0.00 36.38 3.72
817 970 2.372690 GCCAGACACACAGCGTACG 61.373 63.158 11.84 11.84 0.00 3.67
831 984 0.742505 CGTACGTCAAGGCCCATCTA 59.257 55.000 7.22 0.00 0.00 1.98
835 988 1.146263 GTCAAGGCCCATCTACCGG 59.854 63.158 0.00 0.00 0.00 5.28
838 991 2.444256 AAGGCCCATCTACCGGCTC 61.444 63.158 0.00 0.00 45.01 4.70
869 1022 1.919600 GCACCTCTCCCCTGCTTCAT 61.920 60.000 0.00 0.00 0.00 2.57
890 1043 3.865383 CCAGCCGCCAGAGCCATA 61.865 66.667 0.00 0.00 34.57 2.74
892 1045 3.866582 AGCCGCCAGAGCCATACC 61.867 66.667 0.00 0.00 34.57 2.73
893 1046 4.937431 GCCGCCAGAGCCATACCC 62.937 72.222 0.00 0.00 34.57 3.69
894 1047 3.164269 CCGCCAGAGCCATACCCT 61.164 66.667 0.00 0.00 34.57 4.34
896 1049 2.136878 CGCCAGAGCCATACCCTCT 61.137 63.158 0.00 0.00 40.17 3.69
897 1050 1.751563 GCCAGAGCCATACCCTCTC 59.248 63.158 0.00 0.00 37.57 3.20
902 1055 0.189822 GAGCCATACCCTCTCTCCCT 59.810 60.000 0.00 0.00 0.00 4.20
928 1084 1.106944 GCTCTCCTCTCCCTTCCTCG 61.107 65.000 0.00 0.00 0.00 4.63
1035 1214 1.134281 GAAGAGCAAGAGCAAGCGC 59.866 57.895 0.00 0.00 45.49 5.92
1251 1430 1.219393 GGAGGACAAGAAGGAGGCG 59.781 63.158 0.00 0.00 0.00 5.52
1270 1449 2.501610 GCAGGGAGAGGGTAAGCG 59.498 66.667 0.00 0.00 0.00 4.68
1399 1583 9.907576 CTTATTATTTCTCAGTGTCAAACGATC 57.092 33.333 0.00 0.00 0.00 3.69
1441 1625 3.561725 GGTGTCATTAGATGCTTGCCTAC 59.438 47.826 0.00 0.00 0.00 3.18
1504 1691 2.217510 ACTCTGCCTTCGGAAGTCTA 57.782 50.000 16.07 2.03 0.00 2.59
1507 1694 3.118956 ACTCTGCCTTCGGAAGTCTATTG 60.119 47.826 16.07 1.54 0.00 1.90
1512 1699 3.619038 GCCTTCGGAAGTCTATTGTTGAG 59.381 47.826 16.07 0.00 0.00 3.02
1521 1708 3.834813 AGTCTATTGTTGAGGCTGTCTGA 59.165 43.478 0.00 0.00 0.00 3.27
1554 1743 7.086376 AGTTGAACACTGATCAAATATTGTGC 58.914 34.615 9.69 2.45 38.44 4.57
1561 1750 5.132648 ACTGATCAAATATTGTGCCCTCCTA 59.867 40.000 0.00 0.00 0.00 2.94
1585 1774 3.177228 TCAGGCTAGGAAGAGAAAGCTT 58.823 45.455 0.00 0.00 35.30 3.74
1687 1876 2.168496 GGTTAGCTTCTTTTCCCCCAC 58.832 52.381 0.00 0.00 0.00 4.61
1694 1883 4.986708 TTTTCCCCCACTGCCGGC 62.987 66.667 22.73 22.73 0.00 6.13
1722 1911 1.374758 GCCTACTGCTTGCGTGAGT 60.375 57.895 0.00 0.00 36.87 3.41
1729 1918 4.864916 ACTGCTTGCGTGAGTATTATTG 57.135 40.909 0.00 0.00 0.00 1.90
1752 1941 4.392940 ACTAAAGCTGCTGAATGTGTCTT 58.607 39.130 1.35 0.00 0.00 3.01
1844 2033 0.322456 TTCTTGATGCAAGGGACCCG 60.322 55.000 4.40 0.00 41.33 5.28
1847 2036 2.044946 GATGCAAGGGACCCGCTT 60.045 61.111 4.40 1.38 37.10 4.68
1935 2124 8.870116 TGCTGCTTCTCAATAAGATAGGTATAA 58.130 33.333 0.00 0.00 32.82 0.98
1938 2127 9.658799 TGCTTCTCAATAAGATAGGTATAATGC 57.341 33.333 0.00 0.00 32.82 3.56
1949 2138 8.930846 AGATAGGTATAATGCAGCTTTTGATT 57.069 30.769 0.00 0.00 0.00 2.57
1955 2144 9.023967 GGTATAATGCAGCTTTTGATTACTTTG 57.976 33.333 0.00 0.00 0.00 2.77
1958 2147 7.790823 AATGCAGCTTTTGATTACTTTGTTT 57.209 28.000 0.00 0.00 0.00 2.83
1959 2148 8.885494 AATGCAGCTTTTGATTACTTTGTTTA 57.115 26.923 0.00 0.00 0.00 2.01
1960 2149 9.492973 AATGCAGCTTTTGATTACTTTGTTTAT 57.507 25.926 0.00 0.00 0.00 1.40
1961 2150 8.519492 TGCAGCTTTTGATTACTTTGTTTATC 57.481 30.769 0.00 0.00 0.00 1.75
1962 2151 8.140628 TGCAGCTTTTGATTACTTTGTTTATCA 58.859 29.630 0.00 0.00 0.00 2.15
1965 2154 9.559958 AGCTTTTGATTACTTTGTTTATCATCG 57.440 29.630 0.00 0.00 0.00 3.84
1967 2156 9.840427 CTTTTGATTACTTTGTTTATCATCGGT 57.160 29.630 0.00 0.00 0.00 4.69
1968 2157 9.619316 TTTTGATTACTTTGTTTATCATCGGTG 57.381 29.630 0.00 0.00 0.00 4.94
1969 2158 7.915293 TGATTACTTTGTTTATCATCGGTGT 57.085 32.000 0.00 0.00 0.00 4.16
1970 2159 9.438228 TTGATTACTTTGTTTATCATCGGTGTA 57.562 29.630 0.00 0.00 0.00 2.90
1971 2160 8.875803 TGATTACTTTGTTTATCATCGGTGTAC 58.124 33.333 0.00 0.00 0.00 2.90
1974 2163 5.873164 ACTTTGTTTATCATCGGTGTACCTC 59.127 40.000 0.00 0.00 0.00 3.85
1979 2168 3.878237 ATCATCGGTGTACCTCTCCTA 57.122 47.619 0.00 0.00 0.00 2.94
2042 2231 1.764571 TTGTCCCCAAGGAGTCGGTG 61.765 60.000 0.00 0.00 45.21 4.94
2210 2399 5.353400 TGCTGAGAATCTGATTAAACTGCTG 59.647 40.000 20.75 0.00 35.94 4.41
2213 2402 7.606858 TGAGAATCTGATTAAACTGCTGAAG 57.393 36.000 2.28 0.00 34.92 3.02
2246 2435 5.652014 CAGGAGTCATGAGGTATCCTATCTC 59.348 48.000 14.97 6.33 38.34 2.75
2284 2473 7.605691 AGATGATAGAAGACTGTCTTTGTTTGG 59.394 37.037 22.80 0.00 36.73 3.28
2336 2604 7.661437 AGTTTCACTTGTACTTCATGCTATTGA 59.339 33.333 0.00 0.00 0.00 2.57
2353 2621 5.934043 GCTATTGAATTTTGTCCTTTTGCCT 59.066 36.000 0.00 0.00 0.00 4.75
2354 2622 6.427853 GCTATTGAATTTTGTCCTTTTGCCTT 59.572 34.615 0.00 0.00 0.00 4.35
2355 2623 6.622833 ATTGAATTTTGTCCTTTTGCCTTG 57.377 33.333 0.00 0.00 0.00 3.61
2393 2664 4.498682 GGAAGCCATATCAACATTGACAGC 60.499 45.833 0.00 0.00 40.49 4.40
2504 2775 4.649218 ACAGTGGTCTTGTGCCTAAATTTT 59.351 37.500 0.00 0.00 0.00 1.82
2519 2790 7.233757 TGCCTAAATTTTACTATTGGGTTGTGT 59.766 33.333 0.00 0.00 0.00 3.72
2552 2823 4.270008 AGTTGGCAATTACTGTGGGTATC 58.730 43.478 1.92 0.00 0.00 2.24
2609 2880 0.250338 ACAGTTTGAAGAGGTCCCGC 60.250 55.000 0.00 0.00 0.00 6.13
2657 2928 4.141482 GGGGTTACTAGATCAATGCAGGAA 60.141 45.833 0.00 0.00 0.00 3.36
2774 3045 5.132502 TGCAAAAGAGTTGAGAAGATGGAA 58.867 37.500 0.00 0.00 0.00 3.53
2798 3069 2.500098 TGTAATCACTCCTGGTAGGTGC 59.500 50.000 10.55 0.00 36.53 5.01
2803 3074 2.245028 TCACTCCTGGTAGGTGCTATCT 59.755 50.000 10.55 0.00 36.53 1.98
2806 3077 3.034635 CTCCTGGTAGGTGCTATCTTGT 58.965 50.000 0.00 0.00 36.53 3.16
2808 3079 4.816126 TCCTGGTAGGTGCTATCTTGTAT 58.184 43.478 0.00 0.00 36.53 2.29
2809 3080 5.216622 TCCTGGTAGGTGCTATCTTGTATT 58.783 41.667 0.00 0.00 36.53 1.89
2810 3081 5.070446 TCCTGGTAGGTGCTATCTTGTATTG 59.930 44.000 0.00 0.00 36.53 1.90
2811 3082 5.163301 CCTGGTAGGTGCTATCTTGTATTGT 60.163 44.000 0.00 0.00 0.00 2.71
2812 3083 6.308015 TGGTAGGTGCTATCTTGTATTGTT 57.692 37.500 0.00 0.00 0.00 2.83
2813 3084 6.717289 TGGTAGGTGCTATCTTGTATTGTTT 58.283 36.000 0.00 0.00 0.00 2.83
2814 3085 7.172342 TGGTAGGTGCTATCTTGTATTGTTTT 58.828 34.615 0.00 0.00 0.00 2.43
2902 3173 8.932945 TTACTTTGCTGATACTAATCTGACAG 57.067 34.615 0.00 0.00 33.98 3.51
2914 3185 7.118496 ACTAATCTGACAGCAAAGCTAGTAT 57.882 36.000 0.00 0.00 36.40 2.12
2916 3187 5.604758 ATCTGACAGCAAAGCTAGTATGA 57.395 39.130 0.00 0.00 36.40 2.15
2921 3192 6.276091 TGACAGCAAAGCTAGTATGATAGTG 58.724 40.000 0.00 0.00 36.40 2.74
2937 3208 5.368145 TGATAGTGTACCTGGAAATGCATC 58.632 41.667 0.00 0.00 0.00 3.91
2938 3209 2.632377 AGTGTACCTGGAAATGCATCG 58.368 47.619 0.00 0.00 0.00 3.84
2940 3211 2.095853 GTGTACCTGGAAATGCATCGTG 59.904 50.000 0.00 0.00 0.00 4.35
2962 3233 7.223971 TCGTGCAATGACTTACTCCATATTTAC 59.776 37.037 0.00 0.00 0.00 2.01
2989 3260 9.077885 TGTATTCTTGCAGTTAAAGAAATCCTT 57.922 29.630 2.08 0.00 44.49 3.36
2990 3261 9.346725 GTATTCTTGCAGTTAAAGAAATCCTTG 57.653 33.333 2.08 0.00 44.49 3.61
3004 3275 0.260230 TCCTTGGTCTTTGCCCACAA 59.740 50.000 0.00 0.00 0.00 3.33
3127 3398 2.758089 GGATGTGGAAGCTGCTGCG 61.758 63.158 1.35 0.00 45.42 5.18
3307 3578 7.412853 CCAATGCAGTAATTATCACAGAAGAC 58.587 38.462 0.00 0.00 0.00 3.01
3394 3665 9.607333 AAATCTATGGAGGAGTTCAGTCATATA 57.393 33.333 0.00 0.00 0.00 0.86
3404 3675 8.428063 AGGAGTTCAGTCATATAGAAATTCCAG 58.572 37.037 0.00 0.00 33.30 3.86
3452 3723 2.219674 GCGATGCTCGAGGTATTTCTTG 59.780 50.000 15.58 0.00 43.74 3.02
3458 3730 3.265791 CTCGAGGTATTTCTTGCAGCTT 58.734 45.455 3.91 0.00 0.00 3.74
3478 3750 5.474876 AGCTTCAGTGGTCTTCCTTTAATTG 59.525 40.000 0.00 0.00 34.23 2.32
3480 3752 6.568653 GCTTCAGTGGTCTTCCTTTAATTGAC 60.569 42.308 0.00 0.00 34.23 3.18
3481 3753 4.994852 TCAGTGGTCTTCCTTTAATTGACG 59.005 41.667 0.00 0.00 34.23 4.35
3483 3755 2.739913 TGGTCTTCCTTTAATTGACGCG 59.260 45.455 3.53 3.53 34.23 6.01
3490 3762 2.184448 CTTTAATTGACGCGGCAATGG 58.816 47.619 38.77 24.09 38.42 3.16
3512 3784 9.533253 AATGGTATTATTGTAGATTTTTGCAGC 57.467 29.630 0.00 0.00 0.00 5.25
3547 4253 8.499162 CCTTTCTTGACAGTATTCTACACTTTG 58.501 37.037 0.00 0.00 0.00 2.77
3634 4340 4.469657 TGTCAAAGGCTTTTGGTAGACAT 58.530 39.130 19.84 0.00 43.11 3.06
3638 4344 6.861572 GTCAAAGGCTTTTGGTAGACATAAAC 59.138 38.462 19.84 4.42 43.11 2.01
3713 4423 8.969267 CAAGTTGCATATTACTAGTAGTACAGC 58.031 37.037 9.62 17.65 28.93 4.40
3714 4424 8.466617 AGTTGCATATTACTAGTAGTACAGCT 57.533 34.615 21.66 14.64 28.93 4.24
3715 4425 9.570468 AGTTGCATATTACTAGTAGTACAGCTA 57.430 33.333 21.66 15.98 28.93 3.32
3736 4446 6.259608 AGCTATAGATGACATTTGTCTTGCAC 59.740 38.462 11.67 0.40 44.99 4.57
3758 4468 2.075355 AACAGGATCCCCCAACGCAA 62.075 55.000 8.55 0.00 37.41 4.85
3793 4503 0.247974 GACGAATCGATGTCGGACGT 60.248 55.000 23.88 17.05 42.82 4.34
3857 4567 0.389391 AGCACGACAAGCTGTACACT 59.611 50.000 0.00 0.00 41.61 3.55
4017 4727 2.586079 ACGAAGATGGCGATGGCG 60.586 61.111 0.00 0.00 41.24 5.69
4107 4820 1.600957 CCATGACGAGTTGATGATGCC 59.399 52.381 0.00 0.00 0.00 4.40
4109 4822 2.014335 TGACGAGTTGATGATGCCTG 57.986 50.000 0.00 0.00 0.00 4.85
4111 4824 2.200067 GACGAGTTGATGATGCCTGAG 58.800 52.381 0.00 0.00 0.00 3.35
4113 4826 1.134580 CGAGTTGATGATGCCTGAGGT 60.135 52.381 0.00 0.00 0.00 3.85
4114 4827 2.101415 CGAGTTGATGATGCCTGAGGTA 59.899 50.000 0.00 0.00 0.00 3.08
4116 4829 4.517285 GAGTTGATGATGCCTGAGGTAAA 58.483 43.478 0.00 0.00 0.00 2.01
4118 4831 4.702131 AGTTGATGATGCCTGAGGTAAAAC 59.298 41.667 0.00 0.00 0.00 2.43
4138 4853 2.919494 GCAGGTTTTGGGAGTGCGG 61.919 63.158 0.00 0.00 0.00 5.69
4148 4864 0.680061 GGGAGTGCGGATTAGTAGGG 59.320 60.000 0.00 0.00 0.00 3.53
4149 4865 1.700955 GGAGTGCGGATTAGTAGGGA 58.299 55.000 0.00 0.00 0.00 4.20
4150 4866 1.614413 GGAGTGCGGATTAGTAGGGAG 59.386 57.143 0.00 0.00 0.00 4.30
4151 4867 1.614413 GAGTGCGGATTAGTAGGGAGG 59.386 57.143 0.00 0.00 0.00 4.30
4152 4868 0.680061 GTGCGGATTAGTAGGGAGGG 59.320 60.000 0.00 0.00 0.00 4.30
4437 5159 4.273724 GTGTCTTCAAACTTCTGAACCCTC 59.726 45.833 0.00 0.00 32.00 4.30
4441 5163 5.590259 TCTTCAAACTTCTGAACCCTCAAAG 59.410 40.000 0.00 0.00 32.00 2.77
4445 5167 5.373812 AACTTCTGAACCCTCAAAGAGAA 57.626 39.130 0.00 0.00 0.00 2.87
4463 5185 1.814394 GAATGCATTCACCTGTCAGCA 59.186 47.619 30.15 0.00 36.80 4.41
4479 5646 0.324091 AGCAAAGCCATAGCCAAGCT 60.324 50.000 0.00 0.00 43.41 3.74
4506 5673 3.025322 TCACCTCTCCTCTCCTGAATC 57.975 52.381 0.00 0.00 0.00 2.52
4507 5674 2.584965 TCACCTCTCCTCTCCTGAATCT 59.415 50.000 0.00 0.00 0.00 2.40
4508 5675 2.694628 CACCTCTCCTCTCCTGAATCTG 59.305 54.545 0.00 0.00 0.00 2.90
4509 5676 2.584965 ACCTCTCCTCTCCTGAATCTGA 59.415 50.000 0.00 0.00 0.00 3.27
4510 5677 3.012274 ACCTCTCCTCTCCTGAATCTGAA 59.988 47.826 0.00 0.00 0.00 3.02
4511 5678 4.225573 CCTCTCCTCTCCTGAATCTGAAT 58.774 47.826 0.00 0.00 0.00 2.57
4512 5679 4.281688 CCTCTCCTCTCCTGAATCTGAATC 59.718 50.000 0.00 0.00 0.00 2.52
4513 5680 4.876580 TCTCCTCTCCTGAATCTGAATCA 58.123 43.478 0.00 0.00 0.00 2.57
4514 5681 5.275630 TCTCCTCTCCTGAATCTGAATCAA 58.724 41.667 0.00 0.00 0.00 2.57
4515 5682 5.904169 TCTCCTCTCCTGAATCTGAATCAAT 59.096 40.000 0.00 0.00 0.00 2.57
4516 5683 7.071917 TCTCCTCTCCTGAATCTGAATCAATA 58.928 38.462 0.00 0.00 0.00 1.90
4517 5684 7.233144 TCTCCTCTCCTGAATCTGAATCAATAG 59.767 40.741 0.00 0.00 0.00 1.73
4518 5685 6.269538 TCCTCTCCTGAATCTGAATCAATAGG 59.730 42.308 0.00 2.45 0.00 2.57
4660 5844 1.341467 CATCGTGATGACGTGCGTG 59.659 57.895 4.24 0.00 46.20 5.34
4661 5845 1.080772 ATCGTGATGACGTGCGTGT 60.081 52.632 4.24 0.00 46.20 4.49
4665 5914 1.080772 TGATGACGTGCGTGTCTCC 60.081 57.895 0.67 2.69 39.64 3.71
4727 6021 5.752864 TCCCTATAGGAGAGAAGGAAACT 57.247 43.478 21.07 0.00 40.93 2.66
4829 6135 2.146342 AGTGGAGCGAAAGTCACAATG 58.854 47.619 0.00 0.00 33.51 2.82
4985 6293 3.509575 TGAAATTATGGAGTGCAACCCAC 59.490 43.478 10.16 0.00 39.43 4.61
4997 6305 2.070650 AACCCACGCTATCCCTCCC 61.071 63.158 0.00 0.00 0.00 4.30
5012 6320 2.969950 CCCTCCCGTACTCCAAATATGA 59.030 50.000 0.00 0.00 0.00 2.15
5016 6324 4.035112 TCCCGTACTCCAAATATGAAGGT 58.965 43.478 0.00 0.00 0.00 3.50
5074 6382 3.884895 TGGCGATTTTGACAGGTATGAT 58.115 40.909 0.00 0.00 0.00 2.45
5075 6383 3.627123 TGGCGATTTTGACAGGTATGATG 59.373 43.478 0.00 0.00 0.00 3.07
5081 6389 7.203218 CGATTTTGACAGGTATGATGACTCTA 58.797 38.462 0.00 0.00 0.00 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 7.221838 CGTCTCATTGTACACCAATTTGTTTTT 59.778 33.333 0.00 0.00 41.93 1.94
31 34 0.376852 CAACCCCATACGTTCATGCG 59.623 55.000 0.00 0.00 37.94 4.73
121 124 7.595311 AGTGGCACTTTTTAAACTTTGAAAG 57.405 32.000 15.88 2.89 35.72 2.62
140 143 5.237344 GGACATACATGAGAATTGTAGTGGC 59.763 44.000 0.00 0.00 33.36 5.01
177 180 1.820481 GACTCCCTCTCCTCGGTCG 60.820 68.421 0.00 0.00 0.00 4.79
182 185 0.106217 CTCCCTGACTCCCTCTCCTC 60.106 65.000 0.00 0.00 0.00 3.71
189 192 0.616111 TCTCTTGCTCCCTGACTCCC 60.616 60.000 0.00 0.00 0.00 4.30
310 346 9.737427 TCAACGTGTATTTGAAACAATGTTTAT 57.263 25.926 11.71 4.72 29.96 1.40
416 461 4.927422 TCACGGGTTTCAAAAGAAATGTC 58.073 39.130 0.00 0.00 0.00 3.06
502 567 8.232913 AGATAAATGCCCGTACAATGTAAAAT 57.767 30.769 0.00 0.00 0.00 1.82
506 571 8.734218 TTTTAGATAAATGCCCGTACAATGTA 57.266 30.769 0.00 0.00 0.00 2.29
507 572 7.633193 TTTTAGATAAATGCCCGTACAATGT 57.367 32.000 0.00 0.00 0.00 2.71
508 573 8.967218 CATTTTTAGATAAATGCCCGTACAATG 58.033 33.333 0.00 0.00 38.31 2.82
509 574 8.691797 ACATTTTTAGATAAATGCCCGTACAAT 58.308 29.630 8.54 0.00 45.20 2.71
510 575 8.057536 ACATTTTTAGATAAATGCCCGTACAA 57.942 30.769 8.54 0.00 45.20 2.41
511 576 7.337184 TGACATTTTTAGATAAATGCCCGTACA 59.663 33.333 8.54 0.00 45.20 2.90
512 577 7.699566 TGACATTTTTAGATAAATGCCCGTAC 58.300 34.615 8.54 0.00 45.20 3.67
513 578 7.867305 TGACATTTTTAGATAAATGCCCGTA 57.133 32.000 8.54 0.00 45.20 4.02
514 579 6.767524 TGACATTTTTAGATAAATGCCCGT 57.232 33.333 8.54 0.00 45.20 5.28
515 580 9.743057 TTTATGACATTTTTAGATAAATGCCCG 57.257 29.630 8.54 0.00 45.20 6.13
621 693 9.757227 CTTTAAAAGGGATGTCACACATTTAAA 57.243 29.630 0.00 0.00 39.27 1.52
622 694 9.137459 TCTTTAAAAGGGATGTCACACATTTAA 57.863 29.630 0.00 0.00 39.27 1.52
623 695 8.698973 TCTTTAAAAGGGATGTCACACATTTA 57.301 30.769 0.00 0.00 39.27 1.40
624 696 7.595819 TCTTTAAAAGGGATGTCACACATTT 57.404 32.000 0.00 0.00 39.27 2.32
625 697 7.781324 ATCTTTAAAAGGGATGTCACACATT 57.219 32.000 0.00 0.00 39.27 2.71
626 698 7.451255 TGAATCTTTAAAAGGGATGTCACACAT 59.549 33.333 0.00 0.00 42.43 3.21
627 699 6.775142 TGAATCTTTAAAAGGGATGTCACACA 59.225 34.615 0.00 0.00 0.00 3.72
628 700 7.214467 TGAATCTTTAAAAGGGATGTCACAC 57.786 36.000 0.00 0.00 0.00 3.82
629 701 7.505585 AGTTGAATCTTTAAAAGGGATGTCACA 59.494 33.333 0.00 0.00 0.00 3.58
630 702 7.886338 AGTTGAATCTTTAAAAGGGATGTCAC 58.114 34.615 0.00 0.00 0.00 3.67
631 703 9.581289 TTAGTTGAATCTTTAAAAGGGATGTCA 57.419 29.630 0.00 0.00 0.00 3.58
683 825 4.632688 GCCCAGTAGCGTTAATTTGTTAGA 59.367 41.667 0.00 0.00 0.00 2.10
720 862 3.268103 TTTTCCCCTCCCGCAGAGC 62.268 63.158 0.00 0.00 41.74 4.09
721 863 1.377333 GTTTTCCCCTCCCGCAGAG 60.377 63.158 0.00 0.00 42.83 3.35
722 864 2.754375 GTTTTCCCCTCCCGCAGA 59.246 61.111 0.00 0.00 0.00 4.26
749 891 2.224042 GCCCATAATTAGCCCAAACAGC 60.224 50.000 0.00 0.00 0.00 4.40
760 902 1.904287 GGCCATGACGCCCATAATTA 58.096 50.000 0.00 0.00 43.66 1.40
788 930 2.825836 GTCTGGCCATTGCGAGGG 60.826 66.667 5.51 0.00 42.94 4.30
789 931 2.046023 TGTCTGGCCATTGCGAGG 60.046 61.111 5.51 0.00 42.94 4.63
790 932 1.672030 TGTGTCTGGCCATTGCGAG 60.672 57.895 5.51 0.00 43.97 5.03
791 933 1.965930 GTGTGTCTGGCCATTGCGA 60.966 57.895 5.51 0.00 38.85 5.10
792 934 2.191354 CTGTGTGTCTGGCCATTGCG 62.191 60.000 5.51 0.00 38.85 4.85
794 936 1.582968 GCTGTGTGTCTGGCCATTG 59.417 57.895 5.51 0.00 0.00 2.82
795 937 1.968017 CGCTGTGTGTCTGGCCATT 60.968 57.895 5.51 0.00 0.00 3.16
796 938 1.826340 TACGCTGTGTGTCTGGCCAT 61.826 55.000 5.51 0.00 0.00 4.40
797 939 2.503382 TACGCTGTGTGTCTGGCCA 61.503 57.895 4.71 4.71 0.00 5.36
802 955 0.382873 TTGACGTACGCTGTGTGTCT 59.617 50.000 16.72 0.00 0.00 3.41
803 956 0.776451 CTTGACGTACGCTGTGTGTC 59.224 55.000 16.72 3.89 0.00 3.67
808 961 2.048503 GGCCTTGACGTACGCTGT 60.049 61.111 16.72 0.00 0.00 4.40
817 970 1.146263 CCGGTAGATGGGCCTTGAC 59.854 63.158 4.53 0.00 0.00 3.18
831 984 0.690077 CTAGGGTTTAGGGAGCCGGT 60.690 60.000 1.90 0.00 42.00 5.28
835 988 0.180642 GGTGCTAGGGTTTAGGGAGC 59.819 60.000 0.00 0.00 0.00 4.70
838 991 1.763545 GAGAGGTGCTAGGGTTTAGGG 59.236 57.143 0.00 0.00 0.00 3.53
890 1043 2.781406 GGTGGAGGGAGAGAGGGT 59.219 66.667 0.00 0.00 0.00 4.34
892 1045 2.443016 CCGGTGGAGGGAGAGAGG 60.443 72.222 0.00 0.00 0.00 3.69
893 1046 3.151022 GCCGGTGGAGGGAGAGAG 61.151 72.222 1.90 0.00 0.00 3.20
894 1047 3.663815 GAGCCGGTGGAGGGAGAGA 62.664 68.421 1.90 0.00 0.00 3.10
896 1049 3.663815 GAGAGCCGGTGGAGGGAGA 62.664 68.421 1.90 0.00 0.00 3.71
897 1050 3.151022 GAGAGCCGGTGGAGGGAG 61.151 72.222 1.90 0.00 0.00 4.30
902 1055 2.043852 GAGAGGAGAGCCGGTGGA 60.044 66.667 1.90 0.00 39.96 4.02
928 1084 2.365768 GGTGGAGGGAGGGAGGAC 60.366 72.222 0.00 0.00 0.00 3.85
955 1124 4.779733 GGTGGCGAGGAGGAGGGA 62.780 72.222 0.00 0.00 0.00 4.20
1251 1430 2.501610 CTTACCCTCTCCCTGCGC 59.498 66.667 0.00 0.00 0.00 6.09
1274 1453 1.331399 AAGTAAGAGGAGAGGCGGGC 61.331 60.000 0.00 0.00 0.00 6.13
1399 1583 3.700038 ACCTACGGAACTATGGAAGAGTG 59.300 47.826 0.00 0.00 0.00 3.51
1441 1625 5.533528 TCATCATCTAGCCAACAAATCCATG 59.466 40.000 0.00 0.00 0.00 3.66
1504 1691 2.490903 GCAATCAGACAGCCTCAACAAT 59.509 45.455 0.00 0.00 0.00 2.71
1507 1694 1.467734 CTGCAATCAGACAGCCTCAAC 59.532 52.381 0.00 0.00 42.95 3.18
1521 1708 4.823442 TGATCAGTGTTCAACTTCTGCAAT 59.177 37.500 1.26 0.21 36.83 3.56
1561 1750 4.227073 AGCTTTCTCTTCCTAGCCTGAAAT 59.773 41.667 0.00 0.00 34.19 2.17
1585 1774 2.100252 GTCTTCATCGTCGGGTATTCCA 59.900 50.000 0.00 0.00 34.36 3.53
1717 1906 7.492669 TCAGCAGCTTTAGTCAATAATACTCAC 59.507 37.037 0.00 0.00 0.00 3.51
1722 1911 8.615211 CACATTCAGCAGCTTTAGTCAATAATA 58.385 33.333 0.00 0.00 0.00 0.98
1729 1918 3.999663 AGACACATTCAGCAGCTTTAGTC 59.000 43.478 0.00 0.00 0.00 2.59
1752 1941 1.107114 GCTCTCTCCGAATGGTCTGA 58.893 55.000 0.00 0.00 36.30 3.27
1790 1979 2.337583 TCGGAAGCTTCGATGACTTTG 58.662 47.619 19.91 1.96 0.00 2.77
1935 2124 9.143631 GATAAACAAAGTAATCAAAAGCTGCAT 57.856 29.630 1.02 0.00 0.00 3.96
1949 2138 6.938507 AGGTACACCGATGATAAACAAAGTA 58.061 36.000 0.00 0.00 42.08 2.24
1955 2144 4.341520 AGGAGAGGTACACCGATGATAAAC 59.658 45.833 0.00 0.00 42.08 2.01
1957 2146 4.180377 AGGAGAGGTACACCGATGATAA 57.820 45.455 0.00 0.00 42.08 1.75
1958 2147 3.878237 AGGAGAGGTACACCGATGATA 57.122 47.619 0.00 0.00 42.08 2.15
1959 2148 2.757894 AGGAGAGGTACACCGATGAT 57.242 50.000 0.00 0.00 42.08 2.45
1960 2149 3.394940 AGATAGGAGAGGTACACCGATGA 59.605 47.826 0.00 0.00 42.08 2.92
1961 2150 3.757270 AGATAGGAGAGGTACACCGATG 58.243 50.000 0.00 0.00 42.08 3.84
1962 2151 4.456662 AAGATAGGAGAGGTACACCGAT 57.543 45.455 0.00 0.00 42.08 4.18
1964 2153 4.036971 CAGAAAGATAGGAGAGGTACACCG 59.963 50.000 0.00 0.00 42.08 4.94
1965 2154 4.202172 GCAGAAAGATAGGAGAGGTACACC 60.202 50.000 0.00 0.00 0.00 4.16
1967 2156 4.610333 TGCAGAAAGATAGGAGAGGTACA 58.390 43.478 0.00 0.00 0.00 2.90
1968 2157 5.538433 AGATGCAGAAAGATAGGAGAGGTAC 59.462 44.000 0.00 0.00 0.00 3.34
1969 2158 5.710646 AGATGCAGAAAGATAGGAGAGGTA 58.289 41.667 0.00 0.00 0.00 3.08
1970 2159 4.555689 AGATGCAGAAAGATAGGAGAGGT 58.444 43.478 0.00 0.00 0.00 3.85
1971 2160 5.549742 AAGATGCAGAAAGATAGGAGAGG 57.450 43.478 0.00 0.00 0.00 3.69
1974 2163 6.767456 ACCATAAGATGCAGAAAGATAGGAG 58.233 40.000 0.00 0.00 0.00 3.69
1979 2168 6.839454 AGATGACCATAAGATGCAGAAAGAT 58.161 36.000 0.00 0.00 0.00 2.40
2042 2231 5.994668 CCTTAGATATGAAAGCCACTTCTCC 59.005 44.000 0.00 0.00 0.00 3.71
2210 2399 6.709846 CCTCATGACTCCTGGAATAATTCTTC 59.290 42.308 0.00 0.00 0.00 2.87
2213 2402 5.934781 ACCTCATGACTCCTGGAATAATTC 58.065 41.667 5.02 0.00 0.00 2.17
2246 2435 9.743057 AGTCTTCTATCATCTCTAAAAACATCG 57.257 33.333 0.00 0.00 0.00 3.84
2265 2454 3.947834 CACCCAAACAAAGACAGTCTTCT 59.052 43.478 16.44 4.45 35.27 2.85
2284 2473 9.998106 TCCTAAATGAAGCTAGATAAATACACC 57.002 33.333 0.00 0.00 0.00 4.16
2336 2604 5.252547 ACAACAAGGCAAAAGGACAAAATT 58.747 33.333 0.00 0.00 0.00 1.82
2353 2621 3.221771 CTTCCATGGAACAGGACAACAA 58.778 45.455 23.63 0.00 46.40 2.83
2354 2622 2.862541 CTTCCATGGAACAGGACAACA 58.137 47.619 23.63 0.00 46.40 3.33
2355 2623 1.541588 GCTTCCATGGAACAGGACAAC 59.458 52.381 23.63 0.00 46.40 3.32
2393 2664 2.403698 GCGTGCGTGAAAATAAAACTGG 59.596 45.455 0.00 0.00 0.00 4.00
2504 2775 3.254657 GCTGCAAACACAACCCAATAGTA 59.745 43.478 0.00 0.00 0.00 1.82
2519 2790 0.822811 TTGCCAACTTGAGCTGCAAA 59.177 45.000 1.02 0.00 38.83 3.68
2552 2823 1.472480 CCAACATTAGGAAGGCCAACG 59.528 52.381 5.01 0.00 36.29 4.10
2609 2880 3.841643 AGTAGAACCGACATTAACCACG 58.158 45.455 0.00 0.00 0.00 4.94
2657 2928 5.871396 TCACCTTCTTGTCTAACTGAACT 57.129 39.130 0.00 0.00 0.00 3.01
2774 3045 4.651503 CACCTACCAGGAGTGATTACATCT 59.348 45.833 0.00 0.00 37.67 2.90
2812 3083 4.957954 AGCTGGCTGGAATGATGATAAAAA 59.042 37.500 0.00 0.00 0.00 1.94
2813 3084 4.539726 AGCTGGCTGGAATGATGATAAAA 58.460 39.130 0.00 0.00 0.00 1.52
2814 3085 4.174704 AGCTGGCTGGAATGATGATAAA 57.825 40.909 0.00 0.00 0.00 1.40
2824 3095 5.743636 AATTATCAAAAAGCTGGCTGGAA 57.256 34.783 0.00 0.00 0.00 3.53
2902 3173 6.642950 CAGGTACACTATCATACTAGCTTTGC 59.357 42.308 0.00 0.00 0.00 3.68
2904 3175 7.067421 TCCAGGTACACTATCATACTAGCTTT 58.933 38.462 0.00 0.00 0.00 3.51
2914 3185 4.835284 TGCATTTCCAGGTACACTATCA 57.165 40.909 0.00 0.00 0.00 2.15
2916 3187 4.141711 ACGATGCATTTCCAGGTACACTAT 60.142 41.667 0.00 0.00 0.00 2.12
2921 3192 1.064060 GCACGATGCATTTCCAGGTAC 59.936 52.381 0.00 0.00 44.26 3.34
2937 3208 5.991328 AATATGGAGTAAGTCATTGCACG 57.009 39.130 0.00 0.00 0.00 5.34
2938 3209 8.338259 CAGTAAATATGGAGTAAGTCATTGCAC 58.662 37.037 0.00 0.00 0.00 4.57
2940 3211 8.438676 ACAGTAAATATGGAGTAAGTCATTGC 57.561 34.615 0.00 0.00 0.00 3.56
2962 3233 8.734386 AGGATTTCTTTAACTGCAAGAATACAG 58.266 33.333 0.00 0.00 39.46 2.74
2989 3260 0.843309 TCTCTTGTGGGCAAAGACCA 59.157 50.000 0.00 0.00 39.14 4.02
2990 3261 1.981256 TTCTCTTGTGGGCAAAGACC 58.019 50.000 0.00 0.00 33.73 3.85
3127 3398 8.896744 TCATTCCAGTCATGAATCACTATTTTC 58.103 33.333 0.00 0.00 30.16 2.29
3307 3578 8.741101 TTTCATCAACATTAAATTCACTTCCG 57.259 30.769 0.00 0.00 0.00 4.30
3394 3665 2.024080 TGGGGCATTAGCTGGAATTTCT 60.024 45.455 0.00 0.00 41.70 2.52
3404 3675 0.475906 ATCTCTGGTGGGGCATTAGC 59.524 55.000 0.00 0.00 41.10 3.09
3452 3723 0.036022 AGGAAGACCACTGAAGCTGC 59.964 55.000 0.00 0.00 38.94 5.25
3458 3730 4.994852 CGTCAATTAAAGGAAGACCACTGA 59.005 41.667 0.00 0.00 38.94 3.41
3478 3750 2.289547 ACAATAATACCATTGCCGCGTC 59.710 45.455 4.92 0.00 39.13 5.19
3480 3752 3.743911 TCTACAATAATACCATTGCCGCG 59.256 43.478 0.00 0.00 39.13 6.46
3481 3753 5.880054 ATCTACAATAATACCATTGCCGC 57.120 39.130 0.00 0.00 39.13 6.53
3483 3755 8.764287 GCAAAAATCTACAATAATACCATTGCC 58.236 33.333 0.00 0.00 39.13 4.52
3490 3762 7.168135 GCTGGCTGCAAAAATCTACAATAATAC 59.832 37.037 11.80 0.00 42.31 1.89
3512 3784 1.351017 TGTCAAGAAAGGGGTAGCTGG 59.649 52.381 0.00 0.00 0.00 4.85
3547 4253 3.632145 CCAACCAAGCATATGTAGGAACC 59.368 47.826 14.48 0.00 0.00 3.62
3634 4340 0.109723 ACCCAAGCCTGCTTCGTTTA 59.890 50.000 0.42 0.00 33.42 2.01
3638 4344 0.179000 AGATACCCAAGCCTGCTTCG 59.821 55.000 0.42 0.00 33.42 3.79
3723 4433 3.316029 TCCTGTTCAGTGCAAGACAAATG 59.684 43.478 0.00 0.00 0.00 2.32
3736 4446 0.392998 CGTTGGGGGATCCTGTTCAG 60.393 60.000 12.58 0.00 36.20 3.02
3758 4468 1.598130 GTCCTTCACAGGCGCACTT 60.598 57.895 10.83 0.00 40.58 3.16
3793 4503 0.599204 GCTTCCTTCACGGTCGTTCA 60.599 55.000 0.00 0.00 0.00 3.18
3860 4570 2.308722 GGGGTCAAGGATGCCCTCA 61.309 63.158 0.00 0.00 43.48 3.86
3872 4582 0.250727 CTTTCTTCTTGCGGGGGTCA 60.251 55.000 0.00 0.00 0.00 4.02
4037 4747 1.671379 GTCGTCTTCACCCTTGGGC 60.671 63.158 5.46 0.00 0.00 5.36
4118 4831 2.919494 GCACTCCCAAAACCTGCGG 61.919 63.158 0.00 0.00 0.00 5.69
4138 4853 7.607615 TGTAATACAACCCTCCCTACTAATC 57.392 40.000 0.00 0.00 0.00 1.75
4412 5134 3.546218 GGTTCAGAAGTTTGAAGACACGC 60.546 47.826 2.09 0.00 37.72 5.34
4437 5159 4.216902 TGACAGGTGAATGCATTCTCTTTG 59.783 41.667 33.23 29.17 37.67 2.77
4441 5163 2.097142 GCTGACAGGTGAATGCATTCTC 59.903 50.000 33.23 29.59 37.67 2.87
4445 5167 1.913778 TTGCTGACAGGTGAATGCAT 58.086 45.000 4.26 0.00 0.00 3.96
4463 5185 0.612732 TGCAGCTTGGCTATGGCTTT 60.613 50.000 0.00 0.00 36.40 3.51
4479 5646 0.616964 AGAGGAGAGGTGATGCTGCA 60.617 55.000 4.13 4.13 0.00 4.41
4506 5673 3.311871 GCTGACACTGCCTATTGATTCAG 59.688 47.826 0.00 0.00 33.78 3.02
4507 5674 3.273434 GCTGACACTGCCTATTGATTCA 58.727 45.455 0.00 0.00 0.00 2.57
4508 5675 2.615912 GGCTGACACTGCCTATTGATTC 59.384 50.000 11.37 0.00 43.62 2.52
4509 5676 2.025981 TGGCTGACACTGCCTATTGATT 60.026 45.455 17.55 0.00 46.43 2.57
4510 5677 1.561076 TGGCTGACACTGCCTATTGAT 59.439 47.619 17.55 0.00 46.43 2.57
4511 5678 0.983467 TGGCTGACACTGCCTATTGA 59.017 50.000 17.55 0.00 46.43 2.57
4512 5679 1.825090 TTGGCTGACACTGCCTATTG 58.175 50.000 17.55 0.00 46.43 1.90
4513 5680 2.372264 CATTGGCTGACACTGCCTATT 58.628 47.619 17.55 3.54 46.43 1.73
4514 5681 1.409241 CCATTGGCTGACACTGCCTAT 60.409 52.381 17.55 13.57 46.43 2.57
4515 5682 0.035152 CCATTGGCTGACACTGCCTA 60.035 55.000 17.55 12.13 46.43 3.93
4516 5683 1.303888 CCATTGGCTGACACTGCCT 60.304 57.895 17.55 0.00 46.43 4.75
4517 5684 2.345760 CCCATTGGCTGACACTGCC 61.346 63.158 11.66 11.66 46.46 4.85
4518 5685 0.322456 TACCCATTGGCTGACACTGC 60.322 55.000 0.00 0.00 33.59 4.40
4615 5795 8.898792 CCAATTAACACGCTTTAAACTTACTTC 58.101 33.333 0.00 0.00 0.00 3.01
4660 5844 6.518208 AGTAACTTCACTACTCATGGAGAC 57.482 41.667 0.00 0.00 33.32 3.36
4661 5845 6.948886 AGAAGTAACTTCACTACTCATGGAGA 59.051 38.462 0.00 0.00 42.37 3.71
4665 5914 8.012241 GCAAAAGAAGTAACTTCACTACTCATG 58.988 37.037 0.00 0.00 42.37 3.07
4727 6021 7.095060 ACGATTCTACTAGAGTTTGTGTCGTTA 60.095 37.037 0.00 0.00 34.26 3.18
4829 6135 7.328493 GTGAAATATGAAGGTTGTGTTTTAGCC 59.672 37.037 0.00 0.00 0.00 3.93
4865 6173 5.357032 GGTATCCAATGACAAACGAAATCCT 59.643 40.000 0.00 0.00 0.00 3.24
4871 6179 5.670792 AGTAGGTATCCAATGACAAACGA 57.329 39.130 0.00 0.00 0.00 3.85
4985 6293 1.242665 GGAGTACGGGAGGGATAGCG 61.243 65.000 0.00 0.00 0.00 4.26
4987 6295 2.376695 TTGGAGTACGGGAGGGATAG 57.623 55.000 0.00 0.00 0.00 2.08
4997 6305 5.424757 TCCAACCTTCATATTTGGAGTACG 58.575 41.667 2.28 0.00 43.13 3.67
5016 6324 4.156455 GAGCTCCATATTTGGTCTCCAA 57.844 45.455 0.87 0.00 44.06 3.53
5049 6357 6.764379 TCATACCTGTCAAAATCGCCATATA 58.236 36.000 0.00 0.00 0.00 0.86


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

AutoCloner maintained by Alex Coulton.