Multiple sequence alignment - TraesCS3A01G045000

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 TraesCS3A01G045000 chr3A 100.000 3245 0 0 1 3245 24193090 24189846 0.000000e+00 5993.0
1 TraesCS3A01G045000 chr3A 98.707 2939 37 1 1 2939 516243030 516240093 0.000000e+00 5216.0
2 TraesCS3A01G045000 chr3A 97.297 222 6 0 2715 2936 24195772 24195993 8.500000e-101 377.0
3 TraesCS3A01G045000 chr3A 100.000 28 0 0 3146 3173 24180859 24180832 6.000000e-03 52.8
4 TraesCS3A01G045000 chr5A 97.020 2987 47 20 1 2948 519533221 519536204 0.000000e+00 4985.0
5 TraesCS3A01G045000 chr5A 98.539 2054 28 2 1 2054 374079359 374081410 0.000000e+00 3626.0
6 TraesCS3A01G045000 chr5A 98.113 1007 19 0 1933 2939 374081361 374082367 0.000000e+00 1755.0
7 TraesCS3A01G045000 chr2D 96.939 2254 51 1 463 2716 165489227 165486992 0.000000e+00 3764.0
8 TraesCS3A01G045000 chr2D 96.444 225 7 1 2715 2939 165491481 165491704 1.420000e-98 370.0
9 TraesCS3A01G045000 chr2D 94.515 237 9 3 2715 2949 165486143 165485909 2.380000e-96 363.0
10 TraesCS3A01G045000 chr7A 98.393 2054 32 1 1 2054 732734746 732732694 0.000000e+00 3609.0
11 TraesCS3A01G045000 chr7A 98.933 1875 20 0 1 1875 25055246 25053372 0.000000e+00 3352.0
12 TraesCS3A01G045000 chr7A 98.312 1007 17 0 1933 2939 732732761 732731755 0.000000e+00 1766.0
13 TraesCS3A01G045000 chr7A 78.327 1638 297 36 2 1602 115522460 115524076 0.000000e+00 1005.0
14 TraesCS3A01G045000 chr7A 98.333 300 5 0 2640 2939 25053359 25053060 7.970000e-146 527.0
15 TraesCS3A01G045000 chr7A 96.889 225 7 0 2715 2939 732735451 732735675 8.500000e-101 377.0
16 TraesCS3A01G045000 chr7D 98.046 1945 38 0 39 1983 46771932 46773876 0.000000e+00 3382.0
17 TraesCS3A01G045000 chr7D 97.251 582 16 0 2135 2716 46783321 46783902 0.000000e+00 987.0
18 TraesCS3A01G045000 chr7D 95.327 214 10 0 1928 2141 46774166 46774379 1.120000e-89 340.0
19 TraesCS3A01G045000 chr2B 86.824 1275 138 17 730 1982 708808197 708806931 0.000000e+00 1397.0
20 TraesCS3A01G045000 chr2B 89.595 346 33 2 1 346 708820430 708820088 1.380000e-118 436.0
21 TraesCS3A01G045000 chr2B 84.580 441 54 8 2155 2588 708806858 708806425 2.990000e-115 425.0
22 TraesCS3A01G045000 chr2B 86.111 324 28 3 342 665 708820052 708819746 1.870000e-87 333.0
23 TraesCS3A01G045000 chr2B 97.590 83 2 0 2474 2556 276080626 276080544 3.370000e-30 143.0
24 TraesCS3A01G045000 chr2B 100.000 51 0 0 2392 2442 276082098 276082048 9.580000e-16 95.3
25 TraesCS3A01G045000 chr3D 91.696 289 14 4 2957 3245 13110977 13111255 3.040000e-105 392.0
26 TraesCS3A01G045000 chr3D 100.000 28 0 0 3146 3173 13134331 13134358 6.000000e-03 52.8
27 TraesCS3A01G045000 chr1B 96.825 126 1 3 2433 2556 430784881 430785005 1.180000e-49 207.0
28 TraesCS3A01G045000 chr1B 100.000 51 0 0 2392 2442 12442298 12442348 9.580000e-16 95.3
29 TraesCS3A01G045000 chr7B 96.032 126 2 3 2433 2556 346880582 346880706 5.490000e-48 202.0
30 TraesCS3A01G045000 chr3B 89.535 86 3 4 3087 3167 18785524 18785608 1.590000e-18 104.0
31 TraesCS3A01G045000 chr3B 90.698 43 1 2 3132 3173 18790972 18791012 2.000000e-03 54.7
32 TraesCS3A01G045000 chrUn 73.188 276 70 4 2 275 308301887 308301614 2.660000e-16 97.1
33 TraesCS3A01G045000 chrUn 73.188 276 70 4 2 275 308310087 308309814 2.660000e-16 97.1
34 TraesCS3A01G045000 chr5B 96.552 58 1 1 2392 2448 389988790 389988733 9.580000e-16 95.3


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 TraesCS3A01G045000 chr3A 24189846 24193090 3244 True 5993.0 5993 100.0000 1 3245 1 chr3A.!!$R2 3244
1 TraesCS3A01G045000 chr3A 516240093 516243030 2937 True 5216.0 5216 98.7070 1 2939 1 chr3A.!!$R3 2938
2 TraesCS3A01G045000 chr5A 519533221 519536204 2983 False 4985.0 4985 97.0200 1 2948 1 chr5A.!!$F1 2947
3 TraesCS3A01G045000 chr5A 374079359 374082367 3008 False 2690.5 3626 98.3260 1 2939 2 chr5A.!!$F2 2938
4 TraesCS3A01G045000 chr2D 165485909 165489227 3318 True 2063.5 3764 95.7270 463 2949 2 chr2D.!!$R1 2486
5 TraesCS3A01G045000 chr7A 732731755 732734746 2991 True 2687.5 3609 98.3525 1 2939 2 chr7A.!!$R2 2938
6 TraesCS3A01G045000 chr7A 25053060 25055246 2186 True 1939.5 3352 98.6330 1 2939 2 chr7A.!!$R1 2938
7 TraesCS3A01G045000 chr7A 115522460 115524076 1616 False 1005.0 1005 78.3270 2 1602 1 chr7A.!!$F1 1600
8 TraesCS3A01G045000 chr7D 46771932 46774379 2447 False 1861.0 3382 96.6865 39 2141 2 chr7D.!!$F2 2102
9 TraesCS3A01G045000 chr7D 46783321 46783902 581 False 987.0 987 97.2510 2135 2716 1 chr7D.!!$F1 581
10 TraesCS3A01G045000 chr2B 708806425 708808197 1772 True 911.0 1397 85.7020 730 2588 2 chr2B.!!$R2 1858
11 TraesCS3A01G045000 chr2B 708819746 708820430 684 True 384.5 436 87.8530 1 665 2 chr2B.!!$R3 664

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
40 41 0.332293 TGCATGCAAGAGGGGATTCA 59.668 50.000 20.30 0.00 0.00 2.57 F
1173 1261 1.307647 GCCAATGAGGGACCCACAT 59.692 57.895 17.06 17.06 36.43 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1539 1649 1.606668 GATCGAGCTGAGGGTAGACTG 59.393 57.143 0.0 0.0 0.0 3.51 R
3063 4401 0.027194 CGAGCCAAAGTGCATCATCG 59.973 55.000 0.0 0.0 0.0 3.84 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
40 41 0.332293 TGCATGCAAGAGGGGATTCA 59.668 50.000 20.30 0.00 0.00 2.57
252 253 4.365514 AATGAACACCTCACCATACACA 57.634 40.909 0.00 0.00 36.69 3.72
813 901 5.647658 GTCAATGTTGGACCAGATAATGTGA 59.352 40.000 0.00 0.00 0.00 3.58
1173 1261 1.307647 GCCAATGAGGGACCCACAT 59.692 57.895 17.06 17.06 36.43 3.21
1539 1649 1.401931 GCAGAACATCATGCCACACAC 60.402 52.381 0.00 0.00 36.41 3.82
1690 1813 9.569122 ACCTTTTTATATTGTACTTGTGTGAGT 57.431 29.630 0.00 0.00 0.00 3.41
1709 1832 8.688151 GTGTGAGTAGGAGAAGTTTACATATCT 58.312 37.037 0.00 0.00 0.00 1.98
1726 1849 9.610104 TTACATATCTAGCACCTAGGGAATTTA 57.390 33.333 14.81 0.00 35.03 1.40
2218 2686 2.905415 TGATGAAGGTTGGCCTGATT 57.095 45.000 3.32 0.00 46.33 2.57
2581 3069 4.157840 GTCCAACTTGGTCAAAAGAGTTGT 59.842 41.667 7.72 0.00 44.54 3.32
2784 4122 1.077930 GAATCAGAGGCTGCCAGCA 60.078 57.895 22.65 0.14 44.75 4.41
2939 4277 5.506317 GCAAGTTTTGTGACTGCTAGTGATT 60.506 40.000 0.00 0.00 0.00 2.57
2940 4278 6.293407 GCAAGTTTTGTGACTGCTAGTGATTA 60.293 38.462 0.00 0.00 0.00 1.75
2942 4280 7.602517 AGTTTTGTGACTGCTAGTGATTATC 57.397 36.000 0.00 0.00 0.00 1.75
2943 4281 7.390027 AGTTTTGTGACTGCTAGTGATTATCT 58.610 34.615 0.00 0.00 0.00 1.98
2945 4283 6.530019 TTGTGACTGCTAGTGATTATCTCA 57.470 37.500 0.00 0.00 0.00 3.27
2946 4284 6.530019 TGTGACTGCTAGTGATTATCTCAA 57.470 37.500 0.00 0.00 35.07 3.02
2947 4285 7.117285 TGTGACTGCTAGTGATTATCTCAAT 57.883 36.000 0.00 0.00 35.07 2.57
2948 4286 7.559486 TGTGACTGCTAGTGATTATCTCAATT 58.441 34.615 0.00 0.00 35.07 2.32
2951 4289 9.453572 TGACTGCTAGTGATTATCTCAATTTTT 57.546 29.630 0.00 0.00 35.07 1.94
2973 4311 3.936372 TTGTACTCTGAAGACTTCGGG 57.064 47.619 21.33 14.95 36.68 5.14
2974 4312 2.872732 TGTACTCTGAAGACTTCGGGT 58.127 47.619 21.33 18.92 36.68 5.28
2975 4313 2.557056 TGTACTCTGAAGACTTCGGGTG 59.443 50.000 21.33 16.65 36.68 4.61
2976 4314 0.318762 ACTCTGAAGACTTCGGGTGC 59.681 55.000 21.33 0.00 36.68 5.01
2977 4315 0.605589 CTCTGAAGACTTCGGGTGCT 59.394 55.000 21.33 0.00 36.68 4.40
2978 4316 1.001406 CTCTGAAGACTTCGGGTGCTT 59.999 52.381 21.33 0.00 36.68 3.91
2979 4317 1.151668 CTGAAGACTTCGGGTGCTTG 58.848 55.000 15.25 0.00 32.30 4.01
2980 4318 0.250295 TGAAGACTTCGGGTGCTTGG 60.250 55.000 10.56 0.00 0.00 3.61
2981 4319 0.955919 GAAGACTTCGGGTGCTTGGG 60.956 60.000 0.00 0.00 0.00 4.12
2982 4320 1.705997 AAGACTTCGGGTGCTTGGGT 61.706 55.000 0.00 0.00 0.00 4.51
2983 4321 1.671379 GACTTCGGGTGCTTGGGTC 60.671 63.158 0.00 0.00 0.00 4.46
2984 4322 2.391724 GACTTCGGGTGCTTGGGTCA 62.392 60.000 0.00 0.00 0.00 4.02
2985 4323 1.228124 CTTCGGGTGCTTGGGTCAA 60.228 57.895 0.00 0.00 0.00 3.18
2986 4324 0.821711 CTTCGGGTGCTTGGGTCAAA 60.822 55.000 0.00 0.00 0.00 2.69
2987 4325 0.821711 TTCGGGTGCTTGGGTCAAAG 60.822 55.000 0.00 0.00 0.00 2.77
2988 4326 2.268076 CGGGTGCTTGGGTCAAAGG 61.268 63.158 0.00 0.00 0.00 3.11
2989 4327 1.152546 GGGTGCTTGGGTCAAAGGT 60.153 57.895 0.00 0.00 0.00 3.50
2990 4328 1.463553 GGGTGCTTGGGTCAAAGGTG 61.464 60.000 0.00 0.00 0.00 4.00
2991 4329 0.755327 GGTGCTTGGGTCAAAGGTGT 60.755 55.000 0.00 0.00 0.00 4.16
2992 4330 1.111277 GTGCTTGGGTCAAAGGTGTT 58.889 50.000 0.00 0.00 0.00 3.32
2993 4331 1.067060 GTGCTTGGGTCAAAGGTGTTC 59.933 52.381 0.00 0.00 0.00 3.18
2994 4332 0.673985 GCTTGGGTCAAAGGTGTTCC 59.326 55.000 0.00 0.00 0.00 3.62
2995 4333 2.026905 GCTTGGGTCAAAGGTGTTCCA 61.027 52.381 0.00 0.00 35.89 3.53
2996 4334 2.383855 CTTGGGTCAAAGGTGTTCCAA 58.616 47.619 0.00 0.00 36.85 3.53
2997 4335 2.065899 TGGGTCAAAGGTGTTCCAAG 57.934 50.000 0.00 0.00 35.89 3.61
2998 4336 1.328279 GGGTCAAAGGTGTTCCAAGG 58.672 55.000 0.00 0.00 35.89 3.61
2999 4337 0.673985 GGTCAAAGGTGTTCCAAGGC 59.326 55.000 0.00 0.00 35.89 4.35
3000 4338 0.673985 GTCAAAGGTGTTCCAAGGCC 59.326 55.000 0.00 0.00 35.89 5.19
3001 4339 0.555769 TCAAAGGTGTTCCAAGGCCT 59.444 50.000 0.00 0.00 35.89 5.19
3002 4340 1.063266 TCAAAGGTGTTCCAAGGCCTT 60.063 47.619 13.78 13.78 42.54 4.35
3003 4341 1.069049 CAAAGGTGTTCCAAGGCCTTG 59.931 52.381 34.60 34.60 40.78 3.61
3004 4342 0.555769 AAGGTGTTCCAAGGCCTTGA 59.444 50.000 41.10 25.94 42.93 3.02
3005 4343 0.111253 AGGTGTTCCAAGGCCTTGAG 59.889 55.000 41.10 30.42 42.93 3.02
3006 4344 1.527433 GGTGTTCCAAGGCCTTGAGC 61.527 60.000 41.10 27.82 42.93 4.26
3015 4353 2.899339 GCCTTGAGCCTCGGCATC 60.899 66.667 11.02 5.69 43.25 3.91
3016 4354 2.906458 CCTTGAGCCTCGGCATCT 59.094 61.111 11.02 0.00 44.88 2.90
3017 4355 1.222936 CCTTGAGCCTCGGCATCTT 59.777 57.895 11.02 0.00 44.88 2.40
3018 4356 0.813210 CCTTGAGCCTCGGCATCTTC 60.813 60.000 11.02 0.00 44.88 2.87
3019 4357 1.150567 CTTGAGCCTCGGCATCTTCG 61.151 60.000 11.02 0.00 44.88 3.79
3020 4358 1.604147 TTGAGCCTCGGCATCTTCGA 61.604 55.000 11.02 0.00 44.88 3.71
3021 4359 1.141881 GAGCCTCGGCATCTTCGAA 59.858 57.895 11.02 0.00 44.88 3.71
3022 4360 0.873743 GAGCCTCGGCATCTTCGAAG 60.874 60.000 19.35 19.35 44.88 3.79
3023 4361 2.529619 GCCTCGGCATCTTCGAAGC 61.530 63.158 20.56 9.81 41.49 3.86
3024 4362 1.884926 CCTCGGCATCTTCGAAGCC 60.885 63.158 20.56 17.56 42.21 4.35
3025 4363 1.142748 CTCGGCATCTTCGAAGCCT 59.857 57.895 20.56 7.25 43.28 4.58
3026 4364 1.150567 CTCGGCATCTTCGAAGCCTG 61.151 60.000 20.56 19.05 43.28 4.85
3027 4365 1.153568 CGGCATCTTCGAAGCCTGA 60.154 57.895 20.56 3.64 43.28 3.86
3028 4366 0.740868 CGGCATCTTCGAAGCCTGAA 60.741 55.000 20.56 2.93 43.28 3.02
3029 4367 1.673168 GGCATCTTCGAAGCCTGAAT 58.327 50.000 20.56 5.39 42.34 2.57
3030 4368 2.803133 CGGCATCTTCGAAGCCTGAATA 60.803 50.000 20.56 1.35 43.28 1.75
3031 4369 3.406764 GGCATCTTCGAAGCCTGAATAT 58.593 45.455 20.56 3.89 42.34 1.28
3032 4370 4.569943 GGCATCTTCGAAGCCTGAATATA 58.430 43.478 20.56 0.00 42.34 0.86
3033 4371 5.181748 GGCATCTTCGAAGCCTGAATATAT 58.818 41.667 20.56 2.39 42.34 0.86
3034 4372 6.341316 GGCATCTTCGAAGCCTGAATATATA 58.659 40.000 20.56 0.00 42.34 0.86
3035 4373 6.256757 GGCATCTTCGAAGCCTGAATATATAC 59.743 42.308 20.56 0.30 42.34 1.47
3036 4374 6.813649 GCATCTTCGAAGCCTGAATATATACA 59.186 38.462 20.56 0.00 0.00 2.29
3037 4375 7.331934 GCATCTTCGAAGCCTGAATATATACAA 59.668 37.037 20.56 0.00 0.00 2.41
3038 4376 9.376075 CATCTTCGAAGCCTGAATATATACAAT 57.624 33.333 20.56 0.00 0.00 2.71
3039 4377 8.988064 TCTTCGAAGCCTGAATATATACAATC 57.012 34.615 20.56 0.00 0.00 2.67
3040 4378 8.807118 TCTTCGAAGCCTGAATATATACAATCT 58.193 33.333 20.56 0.00 0.00 2.40
3041 4379 8.988064 TTCGAAGCCTGAATATATACAATCTC 57.012 34.615 0.00 0.00 0.00 2.75
3042 4380 7.251281 TCGAAGCCTGAATATATACAATCTCG 58.749 38.462 0.00 0.00 0.00 4.04
3043 4381 7.030165 CGAAGCCTGAATATATACAATCTCGT 58.970 38.462 0.00 0.00 0.00 4.18
3044 4382 7.542477 CGAAGCCTGAATATATACAATCTCGTT 59.458 37.037 0.00 0.00 0.00 3.85
3045 4383 9.209175 GAAGCCTGAATATATACAATCTCGTTT 57.791 33.333 0.00 0.00 0.00 3.60
3046 4384 9.561069 AAGCCTGAATATATACAATCTCGTTTT 57.439 29.630 0.00 0.00 0.00 2.43
3058 4396 7.424227 ACAATCTCGTTTTATTTTACCGTGA 57.576 32.000 0.00 0.00 0.00 4.35
3059 4397 7.293018 ACAATCTCGTTTTATTTTACCGTGAC 58.707 34.615 0.00 0.00 0.00 3.67
3060 4398 7.041916 ACAATCTCGTTTTATTTTACCGTGACA 60.042 33.333 0.00 0.00 0.00 3.58
3061 4399 6.456447 TCTCGTTTTATTTTACCGTGACAG 57.544 37.500 0.00 0.00 0.00 3.51
3062 4400 5.406175 TCTCGTTTTATTTTACCGTGACAGG 59.594 40.000 0.00 0.00 37.30 4.00
3063 4401 4.083908 TCGTTTTATTTTACCGTGACAGGC 60.084 41.667 0.00 0.00 33.69 4.85
3064 4402 4.153256 GTTTTATTTTACCGTGACAGGCG 58.847 43.478 0.00 0.00 33.69 5.52
3065 4403 3.316071 TTATTTTACCGTGACAGGCGA 57.684 42.857 0.00 0.00 33.69 5.54
3066 4404 2.396590 ATTTTACCGTGACAGGCGAT 57.603 45.000 0.00 0.00 33.69 4.58
3067 4405 1.434555 TTTTACCGTGACAGGCGATG 58.565 50.000 0.00 0.00 33.69 3.84
3068 4406 0.604073 TTTACCGTGACAGGCGATGA 59.396 50.000 0.00 0.00 33.69 2.92
3069 4407 0.821517 TTACCGTGACAGGCGATGAT 59.178 50.000 0.00 0.00 33.69 2.45
3070 4408 0.102300 TACCGTGACAGGCGATGATG 59.898 55.000 0.00 0.00 33.69 3.07
3071 4409 2.528743 CCGTGACAGGCGATGATGC 61.529 63.158 0.00 0.00 0.00 3.91
3072 4410 1.810853 CGTGACAGGCGATGATGCA 60.811 57.895 0.00 0.00 36.28 3.96
3073 4411 1.717937 GTGACAGGCGATGATGCAC 59.282 57.895 0.00 0.00 36.28 4.57
3074 4412 0.742281 GTGACAGGCGATGATGCACT 60.742 55.000 0.00 0.00 36.28 4.40
3075 4413 0.036105 TGACAGGCGATGATGCACTT 60.036 50.000 0.00 0.00 36.28 3.16
3076 4414 1.089920 GACAGGCGATGATGCACTTT 58.910 50.000 0.00 0.00 36.28 2.66
3077 4415 0.806868 ACAGGCGATGATGCACTTTG 59.193 50.000 0.00 0.00 36.28 2.77
3078 4416 0.099968 CAGGCGATGATGCACTTTGG 59.900 55.000 0.00 0.00 36.28 3.28
3079 4417 1.226773 GGCGATGATGCACTTTGGC 60.227 57.895 0.00 0.00 36.28 4.52
3080 4418 1.660560 GGCGATGATGCACTTTGGCT 61.661 55.000 0.00 0.00 36.28 4.75
3081 4419 0.248377 GCGATGATGCACTTTGGCTC 60.248 55.000 0.00 0.00 34.15 4.70
3082 4420 0.027194 CGATGATGCACTTTGGCTCG 59.973 55.000 0.00 0.00 34.04 5.03
3083 4421 1.089920 GATGATGCACTTTGGCTCGT 58.910 50.000 0.00 0.00 34.04 4.18
3084 4422 0.806868 ATGATGCACTTTGGCTCGTG 59.193 50.000 0.00 0.00 34.04 4.35
3085 4423 0.534877 TGATGCACTTTGGCTCGTGT 60.535 50.000 0.00 0.00 33.78 4.49
3086 4424 1.270571 TGATGCACTTTGGCTCGTGTA 60.271 47.619 0.00 0.00 33.78 2.90
3087 4425 2.009774 GATGCACTTTGGCTCGTGTAT 58.990 47.619 0.00 5.15 38.80 2.29
3088 4426 2.753055 TGCACTTTGGCTCGTGTATA 57.247 45.000 0.00 0.00 33.78 1.47
3089 4427 2.343101 TGCACTTTGGCTCGTGTATAC 58.657 47.619 0.00 0.00 33.78 1.47
3090 4428 2.028476 TGCACTTTGGCTCGTGTATACT 60.028 45.455 4.17 0.00 33.78 2.12
3091 4429 2.603560 GCACTTTGGCTCGTGTATACTC 59.396 50.000 4.17 0.00 33.78 2.59
3092 4430 3.845178 CACTTTGGCTCGTGTATACTCA 58.155 45.455 4.17 0.00 0.00 3.41
3093 4431 3.859961 CACTTTGGCTCGTGTATACTCAG 59.140 47.826 4.17 2.90 0.00 3.35
3094 4432 2.579207 TTGGCTCGTGTATACTCAGC 57.421 50.000 15.20 15.20 32.45 4.26
3095 4433 0.744874 TGGCTCGTGTATACTCAGCC 59.255 55.000 25.41 25.41 44.72 4.85
3096 4434 0.744874 GGCTCGTGTATACTCAGCCA 59.255 55.000 26.29 0.51 44.26 4.75
3097 4435 1.136305 GGCTCGTGTATACTCAGCCAA 59.864 52.381 26.29 0.00 44.26 4.52
3098 4436 2.194271 GCTCGTGTATACTCAGCCAAC 58.806 52.381 4.17 0.00 0.00 3.77
3099 4437 2.416836 GCTCGTGTATACTCAGCCAACA 60.417 50.000 4.17 0.00 0.00 3.33
3100 4438 3.845178 CTCGTGTATACTCAGCCAACAA 58.155 45.455 4.17 0.00 0.00 2.83
3101 4439 3.581755 TCGTGTATACTCAGCCAACAAC 58.418 45.455 4.17 0.00 0.00 3.32
3102 4440 2.344441 CGTGTATACTCAGCCAACAACG 59.656 50.000 4.17 0.00 0.00 4.10
3103 4441 3.581755 GTGTATACTCAGCCAACAACGA 58.418 45.455 4.17 0.00 0.00 3.85
3104 4442 3.991773 GTGTATACTCAGCCAACAACGAA 59.008 43.478 4.17 0.00 0.00 3.85
3105 4443 4.091509 GTGTATACTCAGCCAACAACGAAG 59.908 45.833 4.17 0.00 0.00 3.79
3106 4444 3.678056 ATACTCAGCCAACAACGAAGA 57.322 42.857 0.00 0.00 0.00 2.87
3107 4445 1.871080 ACTCAGCCAACAACGAAGAG 58.129 50.000 0.00 0.00 0.00 2.85
3108 4446 1.139058 ACTCAGCCAACAACGAAGAGT 59.861 47.619 0.00 0.00 0.00 3.24
3109 4447 1.528586 CTCAGCCAACAACGAAGAGTG 59.471 52.381 0.00 0.00 0.00 3.51
3110 4448 0.588252 CAGCCAACAACGAAGAGTGG 59.412 55.000 0.00 0.00 0.00 4.00
3111 4449 0.468226 AGCCAACAACGAAGAGTGGA 59.532 50.000 0.00 0.00 0.00 4.02
3112 4450 1.134220 AGCCAACAACGAAGAGTGGAA 60.134 47.619 0.00 0.00 0.00 3.53
3113 4451 1.002792 GCCAACAACGAAGAGTGGAAC 60.003 52.381 0.00 0.00 0.00 3.62
3132 4470 8.675040 GTGGAACTGAAAAAGCTGTAATATTC 57.325 34.615 0.00 0.00 0.00 1.75
3133 4471 7.755373 GTGGAACTGAAAAAGCTGTAATATTCC 59.245 37.037 0.00 0.00 0.00 3.01
3134 4472 7.450014 TGGAACTGAAAAAGCTGTAATATTCCA 59.550 33.333 10.72 10.72 0.00 3.53
3135 4473 7.755373 GGAACTGAAAAAGCTGTAATATTCCAC 59.245 37.037 0.00 0.00 0.00 4.02
3136 4474 7.759489 ACTGAAAAAGCTGTAATATTCCACA 57.241 32.000 0.00 0.00 0.00 4.17
3137 4475 8.353423 ACTGAAAAAGCTGTAATATTCCACAT 57.647 30.769 0.00 0.00 0.00 3.21
3138 4476 8.246180 ACTGAAAAAGCTGTAATATTCCACATG 58.754 33.333 0.00 0.00 0.00 3.21
3139 4477 7.035004 TGAAAAAGCTGTAATATTCCACATGC 58.965 34.615 0.00 0.00 0.00 4.06
3140 4478 5.520376 AAAGCTGTAATATTCCACATGCC 57.480 39.130 0.00 0.00 0.00 4.40
3141 4479 4.169059 AGCTGTAATATTCCACATGCCA 57.831 40.909 0.00 0.00 0.00 4.92
3142 4480 3.885297 AGCTGTAATATTCCACATGCCAC 59.115 43.478 0.00 0.00 0.00 5.01
3143 4481 3.885297 GCTGTAATATTCCACATGCCACT 59.115 43.478 0.00 0.00 0.00 4.00
3144 4482 4.339247 GCTGTAATATTCCACATGCCACTT 59.661 41.667 0.00 0.00 0.00 3.16
3145 4483 5.163519 GCTGTAATATTCCACATGCCACTTT 60.164 40.000 0.00 0.00 0.00 2.66
3146 4484 6.627953 GCTGTAATATTCCACATGCCACTTTT 60.628 38.462 0.00 0.00 0.00 2.27
3147 4485 7.238486 TGTAATATTCCACATGCCACTTTTT 57.762 32.000 0.00 0.00 0.00 1.94
3148 4486 7.095910 TGTAATATTCCACATGCCACTTTTTG 58.904 34.615 0.00 0.00 0.00 2.44
3163 4501 3.900941 CTTTTTGGATCCACAAAGTCCG 58.099 45.455 32.13 16.72 40.97 4.79
3164 4502 1.904287 TTTGGATCCACAAAGTCCGG 58.096 50.000 15.91 0.00 35.57 5.14
3165 4503 0.608035 TTGGATCCACAAAGTCCGGC 60.608 55.000 15.91 0.00 34.72 6.13
3166 4504 1.749258 GGATCCACAAAGTCCGGCC 60.749 63.158 6.95 0.00 0.00 6.13
3167 4505 2.046314 ATCCACAAAGTCCGGCCG 60.046 61.111 21.04 21.04 0.00 6.13
3168 4506 2.515996 GATCCACAAAGTCCGGCCGA 62.516 60.000 30.73 10.38 0.00 5.54
3169 4507 2.119484 ATCCACAAAGTCCGGCCGAA 62.119 55.000 30.73 1.10 0.00 4.30
3170 4508 1.894756 CCACAAAGTCCGGCCGAAA 60.895 57.895 30.73 12.10 0.00 3.46
3171 4509 1.281656 CACAAAGTCCGGCCGAAAC 59.718 57.895 30.73 23.88 0.00 2.78
3172 4510 1.153127 ACAAAGTCCGGCCGAAACA 60.153 52.632 30.73 3.99 0.00 2.83
3173 4511 0.748729 ACAAAGTCCGGCCGAAACAA 60.749 50.000 30.73 3.03 0.00 2.83
3174 4512 0.317519 CAAAGTCCGGCCGAAACAAC 60.318 55.000 30.73 15.93 0.00 3.32
3175 4513 0.464916 AAAGTCCGGCCGAAACAACT 60.465 50.000 30.73 17.96 0.00 3.16
3176 4514 0.464916 AAGTCCGGCCGAAACAACTT 60.465 50.000 30.73 22.39 0.00 2.66
3177 4515 0.464916 AGTCCGGCCGAAACAACTTT 60.465 50.000 30.73 5.10 0.00 2.66
3178 4516 0.040692 GTCCGGCCGAAACAACTTTC 60.041 55.000 30.73 0.00 33.58 2.62
3179 4517 0.464013 TCCGGCCGAAACAACTTTCA 60.464 50.000 30.73 0.00 36.32 2.69
3180 4518 0.382515 CCGGCCGAAACAACTTTCAA 59.617 50.000 30.73 0.00 36.32 2.69
3181 4519 1.599419 CCGGCCGAAACAACTTTCAAG 60.599 52.381 30.73 0.00 36.32 3.02
3182 4520 1.332375 CGGCCGAAACAACTTTCAAGA 59.668 47.619 24.07 0.00 36.32 3.02
3183 4521 2.602217 CGGCCGAAACAACTTTCAAGAG 60.602 50.000 24.07 0.00 36.32 2.85
3184 4522 2.287608 GGCCGAAACAACTTTCAAGAGG 60.288 50.000 0.00 0.00 36.32 3.69
3185 4523 2.287608 GCCGAAACAACTTTCAAGAGGG 60.288 50.000 0.00 0.00 36.32 4.30
3186 4524 3.211045 CCGAAACAACTTTCAAGAGGGA 58.789 45.455 0.00 0.00 36.32 4.20
3187 4525 3.821033 CCGAAACAACTTTCAAGAGGGAT 59.179 43.478 0.00 0.00 36.32 3.85
3188 4526 5.001232 CCGAAACAACTTTCAAGAGGGATA 58.999 41.667 0.00 0.00 36.32 2.59
3189 4527 5.106673 CCGAAACAACTTTCAAGAGGGATAC 60.107 44.000 0.00 0.00 36.32 2.24
3190 4528 5.701290 CGAAACAACTTTCAAGAGGGATACT 59.299 40.000 0.00 0.00 36.32 2.12
3191 4529 6.872020 CGAAACAACTTTCAAGAGGGATACTA 59.128 38.462 0.00 0.00 36.32 1.82
3192 4530 7.148623 CGAAACAACTTTCAAGAGGGATACTAC 60.149 40.741 0.00 0.00 36.32 2.73
3193 4531 6.936968 ACAACTTTCAAGAGGGATACTACT 57.063 37.500 0.00 0.00 0.00 2.57
3194 4532 8.431910 AACAACTTTCAAGAGGGATACTACTA 57.568 34.615 0.00 0.00 0.00 1.82
3195 4533 7.838884 ACAACTTTCAAGAGGGATACTACTAC 58.161 38.462 0.00 0.00 0.00 2.73
3196 4534 6.696441 ACTTTCAAGAGGGATACTACTACG 57.304 41.667 0.00 0.00 0.00 3.51
3197 4535 6.186234 ACTTTCAAGAGGGATACTACTACGT 58.814 40.000 0.00 0.00 0.00 3.57
3198 4536 7.341805 ACTTTCAAGAGGGATACTACTACGTA 58.658 38.462 0.00 0.00 0.00 3.57
3199 4537 7.498570 ACTTTCAAGAGGGATACTACTACGTAG 59.501 40.741 20.97 20.97 41.43 3.51
3200 4538 6.737720 TCAAGAGGGATACTACTACGTAGA 57.262 41.667 28.74 11.46 38.29 2.59
3201 4539 7.129457 TCAAGAGGGATACTACTACGTAGAA 57.871 40.000 28.74 11.21 38.29 2.10
3202 4540 6.989169 TCAAGAGGGATACTACTACGTAGAAC 59.011 42.308 28.74 11.82 38.29 3.01
3203 4541 6.745794 AGAGGGATACTACTACGTAGAACT 57.254 41.667 28.74 9.45 38.29 3.01
3204 4542 6.523840 AGAGGGATACTACTACGTAGAACTG 58.476 44.000 28.74 16.02 38.29 3.16
3205 4543 6.326064 AGAGGGATACTACTACGTAGAACTGA 59.674 42.308 28.74 10.03 38.29 3.41
3206 4544 6.893583 AGGGATACTACTACGTAGAACTGAA 58.106 40.000 28.74 9.19 38.29 3.02
3207 4545 7.341805 AGGGATACTACTACGTAGAACTGAAA 58.658 38.462 28.74 7.71 38.29 2.69
3208 4546 7.831193 AGGGATACTACTACGTAGAACTGAAAA 59.169 37.037 28.74 6.21 38.29 2.29
3209 4547 8.462016 GGGATACTACTACGTAGAACTGAAAAA 58.538 37.037 28.74 4.84 38.29 1.94
3210 4548 9.500864 GGATACTACTACGTAGAACTGAAAAAG 57.499 37.037 28.74 12.40 38.29 2.27
3235 4573 9.965902 AGATATATTCAACCAACTTTCAAGACT 57.034 29.630 0.00 0.00 0.00 3.24
3237 4575 9.965902 ATATATTCAACCAACTTTCAAGACTCT 57.034 29.630 0.00 0.00 0.00 3.24
3238 4576 8.697507 ATATTCAACCAACTTTCAAGACTCTT 57.302 30.769 0.00 0.00 0.00 2.85
3239 4577 9.793259 ATATTCAACCAACTTTCAAGACTCTTA 57.207 29.630 0.00 0.00 0.00 2.10
3240 4578 7.931578 TTCAACCAACTTTCAAGACTCTTAA 57.068 32.000 0.00 0.00 0.00 1.85
3241 4579 8.519799 TTCAACCAACTTTCAAGACTCTTAAT 57.480 30.769 0.00 0.00 0.00 1.40
3242 4580 9.621629 TTCAACCAACTTTCAAGACTCTTAATA 57.378 29.630 0.00 0.00 0.00 0.98
3243 4581 9.621629 TCAACCAACTTTCAAGACTCTTAATAA 57.378 29.630 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 9.136323 GAAAATGATTGGTCTACATCCCTTAAT 57.864 33.333 0.00 0.00 0.00 1.40
252 253 5.564550 ACCTTCTGCTTGTCACTCATAATT 58.435 37.500 0.00 0.00 0.00 1.40
724 812 7.709269 ATAGTACCAAATATGTAAGCACACG 57.291 36.000 0.00 0.00 37.54 4.49
813 901 5.128663 ACCAACAATCCTGTTTGTTAGCTTT 59.871 36.000 0.00 0.00 45.54 3.51
1539 1649 1.606668 GATCGAGCTGAGGGTAGACTG 59.393 57.143 0.00 0.00 0.00 3.51
1642 1752 5.883673 GGTGGGTATGTAAGCACTTAAATGA 59.116 40.000 3.73 0.00 0.00 2.57
1690 1813 8.005388 AGGTGCTAGATATGTAAACTTCTCCTA 58.995 37.037 0.00 0.00 0.00 2.94
1709 1832 3.050835 GGGGTAAATTCCCTAGGTGCTA 58.949 50.000 8.29 0.00 46.27 3.49
2800 4138 0.806102 CCTTCATACGACGTGCTGGG 60.806 60.000 11.56 2.79 0.00 4.45
2951 4289 4.100498 ACCCGAAGTCTTCAGAGTACAAAA 59.900 41.667 12.99 0.00 0.00 2.44
2952 4290 3.640029 ACCCGAAGTCTTCAGAGTACAAA 59.360 43.478 12.99 0.00 0.00 2.83
2953 4291 3.005472 CACCCGAAGTCTTCAGAGTACAA 59.995 47.826 12.99 0.00 0.00 2.41
2954 4292 2.557056 CACCCGAAGTCTTCAGAGTACA 59.443 50.000 12.99 0.00 0.00 2.90
2955 4293 2.671632 GCACCCGAAGTCTTCAGAGTAC 60.672 54.545 12.99 0.00 0.00 2.73
2956 4294 1.544691 GCACCCGAAGTCTTCAGAGTA 59.455 52.381 12.99 0.00 0.00 2.59
2957 4295 0.318762 GCACCCGAAGTCTTCAGAGT 59.681 55.000 12.99 3.72 0.00 3.24
2958 4296 0.605589 AGCACCCGAAGTCTTCAGAG 59.394 55.000 12.99 3.55 0.00 3.35
2959 4297 1.048601 AAGCACCCGAAGTCTTCAGA 58.951 50.000 12.99 0.00 0.00 3.27
2960 4298 1.151668 CAAGCACCCGAAGTCTTCAG 58.848 55.000 12.99 5.82 0.00 3.02
2961 4299 0.250295 CCAAGCACCCGAAGTCTTCA 60.250 55.000 12.99 0.00 0.00 3.02
2962 4300 0.955919 CCCAAGCACCCGAAGTCTTC 60.956 60.000 2.18 2.18 0.00 2.87
2963 4301 1.073199 CCCAAGCACCCGAAGTCTT 59.927 57.895 0.00 0.00 0.00 3.01
2964 4302 2.113243 GACCCAAGCACCCGAAGTCT 62.113 60.000 0.00 0.00 0.00 3.24
2965 4303 1.671379 GACCCAAGCACCCGAAGTC 60.671 63.158 0.00 0.00 0.00 3.01
2966 4304 1.990160 TTGACCCAAGCACCCGAAGT 61.990 55.000 0.00 0.00 0.00 3.01
2967 4305 0.821711 TTTGACCCAAGCACCCGAAG 60.822 55.000 0.00 0.00 0.00 3.79
2968 4306 0.821711 CTTTGACCCAAGCACCCGAA 60.822 55.000 0.00 0.00 0.00 4.30
2969 4307 1.228124 CTTTGACCCAAGCACCCGA 60.228 57.895 0.00 0.00 0.00 5.14
2970 4308 2.268076 CCTTTGACCCAAGCACCCG 61.268 63.158 0.00 0.00 0.00 5.28
2971 4309 1.152546 ACCTTTGACCCAAGCACCC 60.153 57.895 0.00 0.00 0.00 4.61
2972 4310 0.755327 ACACCTTTGACCCAAGCACC 60.755 55.000 0.00 0.00 0.00 5.01
2973 4311 1.067060 GAACACCTTTGACCCAAGCAC 59.933 52.381 0.00 0.00 0.00 4.40
2974 4312 1.398692 GAACACCTTTGACCCAAGCA 58.601 50.000 0.00 0.00 0.00 3.91
2975 4313 0.673985 GGAACACCTTTGACCCAAGC 59.326 55.000 0.00 0.00 0.00 4.01
2976 4314 2.065899 TGGAACACCTTTGACCCAAG 57.934 50.000 0.00 0.00 0.00 3.61
2977 4315 2.383855 CTTGGAACACCTTTGACCCAA 58.616 47.619 0.00 0.00 39.29 4.12
2978 4316 1.410932 CCTTGGAACACCTTTGACCCA 60.411 52.381 0.00 0.00 39.29 4.51
2979 4317 1.328279 CCTTGGAACACCTTTGACCC 58.672 55.000 0.00 0.00 39.29 4.46
2980 4318 0.673985 GCCTTGGAACACCTTTGACC 59.326 55.000 0.00 0.00 39.29 4.02
2981 4319 0.673985 GGCCTTGGAACACCTTTGAC 59.326 55.000 0.00 0.00 39.29 3.18
2982 4320 0.555769 AGGCCTTGGAACACCTTTGA 59.444 50.000 0.00 0.00 39.29 2.69
2983 4321 1.069049 CAAGGCCTTGGAACACCTTTG 59.931 52.381 34.08 7.94 38.92 2.77
2984 4322 1.063266 TCAAGGCCTTGGAACACCTTT 60.063 47.619 38.60 2.07 38.92 3.11
2985 4323 0.555769 TCAAGGCCTTGGAACACCTT 59.444 50.000 38.60 2.67 42.07 3.50
2986 4324 0.111253 CTCAAGGCCTTGGAACACCT 59.889 55.000 38.60 3.51 39.29 4.00
2987 4325 1.527433 GCTCAAGGCCTTGGAACACC 61.527 60.000 38.60 19.69 40.78 4.16
2988 4326 1.959848 GCTCAAGGCCTTGGAACAC 59.040 57.895 38.60 22.28 40.78 3.32
2989 4327 4.500265 GCTCAAGGCCTTGGAACA 57.500 55.556 38.60 22.36 40.78 3.18
2999 4337 0.813210 GAAGATGCCGAGGCTCAAGG 60.813 60.000 15.95 9.70 42.51 3.61
3000 4338 1.150567 CGAAGATGCCGAGGCTCAAG 61.151 60.000 15.95 6.23 42.51 3.02
3001 4339 1.153568 CGAAGATGCCGAGGCTCAA 60.154 57.895 15.95 0.00 42.51 3.02
3002 4340 1.604147 TTCGAAGATGCCGAGGCTCA 61.604 55.000 15.95 0.00 42.51 4.26
3003 4341 0.873743 CTTCGAAGATGCCGAGGCTC 60.874 60.000 20.74 3.87 42.51 4.70
3004 4342 1.142748 CTTCGAAGATGCCGAGGCT 59.857 57.895 20.74 0.69 42.51 4.58
3005 4343 3.711348 CTTCGAAGATGCCGAGGC 58.289 61.111 20.74 7.26 37.35 4.70
3012 4350 8.763049 TTGTATATATTCAGGCTTCGAAGATG 57.237 34.615 28.95 23.39 35.04 2.90
3013 4351 9.593134 GATTGTATATATTCAGGCTTCGAAGAT 57.407 33.333 28.95 14.60 35.04 2.40
3014 4352 8.807118 AGATTGTATATATTCAGGCTTCGAAGA 58.193 33.333 28.95 7.70 0.00 2.87
3015 4353 8.994429 AGATTGTATATATTCAGGCTTCGAAG 57.006 34.615 21.02 21.02 0.00 3.79
3016 4354 7.755373 CGAGATTGTATATATTCAGGCTTCGAA 59.245 37.037 0.00 0.00 0.00 3.71
3017 4355 7.094334 ACGAGATTGTATATATTCAGGCTTCGA 60.094 37.037 16.54 0.00 0.00 3.71
3018 4356 7.030165 ACGAGATTGTATATATTCAGGCTTCG 58.970 38.462 0.00 11.92 0.00 3.79
3019 4357 8.764524 AACGAGATTGTATATATTCAGGCTTC 57.235 34.615 0.00 0.00 0.00 3.86
3020 4358 9.561069 AAAACGAGATTGTATATATTCAGGCTT 57.439 29.630 0.00 0.00 0.00 4.35
3032 4370 9.153721 TCACGGTAAAATAAAACGAGATTGTAT 57.846 29.630 0.00 0.00 0.00 2.29
3033 4371 8.434661 GTCACGGTAAAATAAAACGAGATTGTA 58.565 33.333 0.00 0.00 0.00 2.41
3034 4372 7.041916 TGTCACGGTAAAATAAAACGAGATTGT 60.042 33.333 0.00 0.00 0.00 2.71
3035 4373 7.292292 TGTCACGGTAAAATAAAACGAGATTG 58.708 34.615 0.00 0.00 0.00 2.67
3036 4374 7.360607 CCTGTCACGGTAAAATAAAACGAGATT 60.361 37.037 0.00 0.00 0.00 2.40
3037 4375 6.091713 CCTGTCACGGTAAAATAAAACGAGAT 59.908 38.462 0.00 0.00 0.00 2.75
3038 4376 5.406175 CCTGTCACGGTAAAATAAAACGAGA 59.594 40.000 0.00 0.00 0.00 4.04
3039 4377 5.614760 CCTGTCACGGTAAAATAAAACGAG 58.385 41.667 0.00 0.00 0.00 4.18
3040 4378 4.083908 GCCTGTCACGGTAAAATAAAACGA 60.084 41.667 0.00 0.00 0.00 3.85
3041 4379 4.153256 GCCTGTCACGGTAAAATAAAACG 58.847 43.478 0.00 0.00 0.00 3.60
3042 4380 4.083908 TCGCCTGTCACGGTAAAATAAAAC 60.084 41.667 0.00 0.00 0.00 2.43
3043 4381 4.063689 TCGCCTGTCACGGTAAAATAAAA 58.936 39.130 0.00 0.00 0.00 1.52
3044 4382 3.661944 TCGCCTGTCACGGTAAAATAAA 58.338 40.909 0.00 0.00 0.00 1.40
3045 4383 3.316071 TCGCCTGTCACGGTAAAATAA 57.684 42.857 0.00 0.00 0.00 1.40
3046 4384 3.119065 TCATCGCCTGTCACGGTAAAATA 60.119 43.478 0.00 0.00 0.00 1.40
3047 4385 2.006888 CATCGCCTGTCACGGTAAAAT 58.993 47.619 0.00 0.00 0.00 1.82
3048 4386 1.001068 TCATCGCCTGTCACGGTAAAA 59.999 47.619 0.00 0.00 0.00 1.52
3049 4387 0.604073 TCATCGCCTGTCACGGTAAA 59.396 50.000 0.00 0.00 0.00 2.01
3050 4388 0.821517 ATCATCGCCTGTCACGGTAA 59.178 50.000 0.00 0.00 0.00 2.85
3051 4389 0.102300 CATCATCGCCTGTCACGGTA 59.898 55.000 0.00 0.00 0.00 4.02
3052 4390 1.153568 CATCATCGCCTGTCACGGT 60.154 57.895 0.00 0.00 0.00 4.83
3053 4391 2.528743 GCATCATCGCCTGTCACGG 61.529 63.158 0.00 0.00 0.00 4.94
3054 4392 1.810853 TGCATCATCGCCTGTCACG 60.811 57.895 0.00 0.00 0.00 4.35
3055 4393 0.742281 AGTGCATCATCGCCTGTCAC 60.742 55.000 0.00 0.00 0.00 3.67
3056 4394 0.036105 AAGTGCATCATCGCCTGTCA 60.036 50.000 0.00 0.00 0.00 3.58
3057 4395 1.089920 AAAGTGCATCATCGCCTGTC 58.910 50.000 0.00 0.00 0.00 3.51
3058 4396 0.806868 CAAAGTGCATCATCGCCTGT 59.193 50.000 0.00 0.00 0.00 4.00
3059 4397 0.099968 CCAAAGTGCATCATCGCCTG 59.900 55.000 0.00 0.00 0.00 4.85
3060 4398 1.660560 GCCAAAGTGCATCATCGCCT 61.661 55.000 0.00 0.00 0.00 5.52
3061 4399 1.226773 GCCAAAGTGCATCATCGCC 60.227 57.895 0.00 0.00 0.00 5.54
3062 4400 0.248377 GAGCCAAAGTGCATCATCGC 60.248 55.000 0.00 0.00 0.00 4.58
3063 4401 0.027194 CGAGCCAAAGTGCATCATCG 59.973 55.000 0.00 0.00 0.00 3.84
3064 4402 1.089920 ACGAGCCAAAGTGCATCATC 58.910 50.000 0.00 0.00 0.00 2.92
3065 4403 0.806868 CACGAGCCAAAGTGCATCAT 59.193 50.000 0.00 0.00 0.00 2.45
3066 4404 0.534877 ACACGAGCCAAAGTGCATCA 60.535 50.000 0.00 0.00 41.72 3.07
3067 4405 1.438651 TACACGAGCCAAAGTGCATC 58.561 50.000 0.00 0.00 41.72 3.91
3068 4406 2.113860 ATACACGAGCCAAAGTGCAT 57.886 45.000 0.00 0.00 41.72 3.96
3069 4407 2.028476 AGTATACACGAGCCAAAGTGCA 60.028 45.455 5.50 0.00 41.72 4.57
3070 4408 2.603560 GAGTATACACGAGCCAAAGTGC 59.396 50.000 5.50 0.00 41.72 4.40
3071 4409 3.845178 TGAGTATACACGAGCCAAAGTG 58.155 45.455 5.50 0.00 43.46 3.16
3072 4410 3.676324 GCTGAGTATACACGAGCCAAAGT 60.676 47.826 5.50 0.00 32.02 2.66
3073 4411 2.860735 GCTGAGTATACACGAGCCAAAG 59.139 50.000 5.50 0.00 32.02 2.77
3074 4412 2.418197 GGCTGAGTATACACGAGCCAAA 60.418 50.000 24.38 0.00 46.59 3.28
3075 4413 1.136305 GGCTGAGTATACACGAGCCAA 59.864 52.381 24.38 0.00 46.59 4.52
3076 4414 0.744874 GGCTGAGTATACACGAGCCA 59.255 55.000 24.38 6.49 46.59 4.75
3077 4415 3.571741 GGCTGAGTATACACGAGCC 57.428 57.895 18.61 18.61 43.59 4.70
3078 4416 2.194271 GTTGGCTGAGTATACACGAGC 58.806 52.381 5.50 8.69 35.44 5.03
3079 4417 3.503827 TGTTGGCTGAGTATACACGAG 57.496 47.619 5.50 0.00 0.00 4.18
3080 4418 3.581755 GTTGTTGGCTGAGTATACACGA 58.418 45.455 5.50 0.00 0.00 4.35
3081 4419 2.344441 CGTTGTTGGCTGAGTATACACG 59.656 50.000 5.50 0.00 0.00 4.49
3082 4420 3.581755 TCGTTGTTGGCTGAGTATACAC 58.418 45.455 5.50 0.00 0.00 2.90
3083 4421 3.945981 TCGTTGTTGGCTGAGTATACA 57.054 42.857 5.50 0.00 0.00 2.29
3084 4422 4.491676 TCTTCGTTGTTGGCTGAGTATAC 58.508 43.478 0.00 0.00 0.00 1.47
3085 4423 4.219944 ACTCTTCGTTGTTGGCTGAGTATA 59.780 41.667 0.00 0.00 32.44 1.47
3086 4424 3.006967 ACTCTTCGTTGTTGGCTGAGTAT 59.993 43.478 0.00 0.00 32.44 2.12
3087 4425 2.364324 ACTCTTCGTTGTTGGCTGAGTA 59.636 45.455 0.00 0.00 32.44 2.59
3088 4426 1.139058 ACTCTTCGTTGTTGGCTGAGT 59.861 47.619 0.00 0.00 0.00 3.41
3089 4427 1.528586 CACTCTTCGTTGTTGGCTGAG 59.471 52.381 0.00 0.00 0.00 3.35
3090 4428 1.581934 CACTCTTCGTTGTTGGCTGA 58.418 50.000 0.00 0.00 0.00 4.26
3091 4429 0.588252 CCACTCTTCGTTGTTGGCTG 59.412 55.000 0.00 0.00 0.00 4.85
3092 4430 0.468226 TCCACTCTTCGTTGTTGGCT 59.532 50.000 0.00 0.00 0.00 4.75
3093 4431 1.002792 GTTCCACTCTTCGTTGTTGGC 60.003 52.381 0.00 0.00 0.00 4.52
3094 4432 2.287915 CAGTTCCACTCTTCGTTGTTGG 59.712 50.000 0.00 0.00 0.00 3.77
3095 4433 3.194861 TCAGTTCCACTCTTCGTTGTTG 58.805 45.455 0.00 0.00 0.00 3.33
3096 4434 3.536956 TCAGTTCCACTCTTCGTTGTT 57.463 42.857 0.00 0.00 0.00 2.83
3097 4435 3.536956 TTCAGTTCCACTCTTCGTTGT 57.463 42.857 0.00 0.00 0.00 3.32
3098 4436 4.875544 TTTTCAGTTCCACTCTTCGTTG 57.124 40.909 0.00 0.00 0.00 4.10
3099 4437 4.201920 GCTTTTTCAGTTCCACTCTTCGTT 60.202 41.667 0.00 0.00 0.00 3.85
3100 4438 3.312697 GCTTTTTCAGTTCCACTCTTCGT 59.687 43.478 0.00 0.00 0.00 3.85
3101 4439 3.561725 AGCTTTTTCAGTTCCACTCTTCG 59.438 43.478 0.00 0.00 0.00 3.79
3102 4440 4.336713 ACAGCTTTTTCAGTTCCACTCTTC 59.663 41.667 0.00 0.00 0.00 2.87
3103 4441 4.273318 ACAGCTTTTTCAGTTCCACTCTT 58.727 39.130 0.00 0.00 0.00 2.85
3104 4442 3.891049 ACAGCTTTTTCAGTTCCACTCT 58.109 40.909 0.00 0.00 0.00 3.24
3105 4443 5.751243 TTACAGCTTTTTCAGTTCCACTC 57.249 39.130 0.00 0.00 0.00 3.51
3106 4444 8.409358 AATATTACAGCTTTTTCAGTTCCACT 57.591 30.769 0.00 0.00 0.00 4.00
3107 4445 7.755373 GGAATATTACAGCTTTTTCAGTTCCAC 59.245 37.037 0.00 0.00 32.57 4.02
3108 4446 7.450014 TGGAATATTACAGCTTTTTCAGTTCCA 59.550 33.333 0.00 9.02 38.21 3.53
3109 4447 7.755373 GTGGAATATTACAGCTTTTTCAGTTCC 59.245 37.037 0.00 0.00 0.00 3.62
3110 4448 8.296713 TGTGGAATATTACAGCTTTTTCAGTTC 58.703 33.333 0.00 0.00 0.00 3.01
3111 4449 8.177119 TGTGGAATATTACAGCTTTTTCAGTT 57.823 30.769 0.00 0.00 0.00 3.16
3112 4450 7.759489 TGTGGAATATTACAGCTTTTTCAGT 57.241 32.000 0.00 0.00 0.00 3.41
3113 4451 7.221452 GCATGTGGAATATTACAGCTTTTTCAG 59.779 37.037 0.00 0.00 0.00 3.02
3114 4452 7.035004 GCATGTGGAATATTACAGCTTTTTCA 58.965 34.615 0.00 0.00 0.00 2.69
3115 4453 6.476706 GGCATGTGGAATATTACAGCTTTTTC 59.523 38.462 0.00 0.00 0.00 2.29
3116 4454 6.070881 TGGCATGTGGAATATTACAGCTTTTT 60.071 34.615 0.00 0.00 0.00 1.94
3117 4455 5.421693 TGGCATGTGGAATATTACAGCTTTT 59.578 36.000 0.00 0.00 0.00 2.27
3118 4456 4.955450 TGGCATGTGGAATATTACAGCTTT 59.045 37.500 0.00 0.00 0.00 3.51
3119 4457 4.339247 GTGGCATGTGGAATATTACAGCTT 59.661 41.667 0.00 0.00 0.00 3.74
3120 4458 3.885297 GTGGCATGTGGAATATTACAGCT 59.115 43.478 0.00 0.00 0.00 4.24
3121 4459 3.885297 AGTGGCATGTGGAATATTACAGC 59.115 43.478 0.00 1.01 0.00 4.40
3122 4460 6.455360 AAAGTGGCATGTGGAATATTACAG 57.545 37.500 0.00 0.00 0.00 2.74
3123 4461 6.849085 AAAAGTGGCATGTGGAATATTACA 57.151 33.333 0.00 0.00 0.00 2.41
3124 4462 6.534793 CCAAAAAGTGGCATGTGGAATATTAC 59.465 38.462 0.00 0.00 41.72 1.89
3125 4463 6.638610 CCAAAAAGTGGCATGTGGAATATTA 58.361 36.000 0.00 0.00 41.72 0.98
3126 4464 5.490159 CCAAAAAGTGGCATGTGGAATATT 58.510 37.500 0.00 0.00 41.72 1.28
3127 4465 5.088680 CCAAAAAGTGGCATGTGGAATAT 57.911 39.130 0.00 0.00 41.72 1.28
3128 4466 4.533919 CCAAAAAGTGGCATGTGGAATA 57.466 40.909 0.00 0.00 41.72 1.75
3129 4467 3.405823 CCAAAAAGTGGCATGTGGAAT 57.594 42.857 0.00 0.00 41.72 3.01
3130 4468 2.906691 CCAAAAAGTGGCATGTGGAA 57.093 45.000 0.00 0.00 41.72 3.53
3143 4481 2.625790 CCGGACTTTGTGGATCCAAAAA 59.374 45.455 25.50 25.50 34.15 1.94
3144 4482 2.235016 CCGGACTTTGTGGATCCAAAA 58.765 47.619 18.20 15.83 34.15 2.44
3145 4483 1.904287 CCGGACTTTGTGGATCCAAA 58.096 50.000 18.20 8.75 33.50 3.28
3146 4484 0.608035 GCCGGACTTTGTGGATCCAA 60.608 55.000 18.20 4.13 32.35 3.53
3147 4485 1.002624 GCCGGACTTTGTGGATCCA 60.003 57.895 11.44 11.44 32.35 3.41
3148 4486 1.749258 GGCCGGACTTTGTGGATCC 60.749 63.158 5.05 4.20 0.00 3.36
3149 4487 2.106683 CGGCCGGACTTTGTGGATC 61.107 63.158 20.10 0.00 0.00 3.36
3150 4488 2.046314 CGGCCGGACTTTGTGGAT 60.046 61.111 20.10 0.00 0.00 3.41
3151 4489 2.326773 TTTCGGCCGGACTTTGTGGA 62.327 55.000 27.83 0.00 0.00 4.02
3152 4490 1.894756 TTTCGGCCGGACTTTGTGG 60.895 57.895 27.83 0.00 0.00 4.17
3153 4491 1.281656 GTTTCGGCCGGACTTTGTG 59.718 57.895 27.83 0.00 0.00 3.33
3154 4492 0.748729 TTGTTTCGGCCGGACTTTGT 60.749 50.000 27.83 0.00 0.00 2.83
3155 4493 0.317519 GTTGTTTCGGCCGGACTTTG 60.318 55.000 27.83 0.00 0.00 2.77
3156 4494 0.464916 AGTTGTTTCGGCCGGACTTT 60.465 50.000 27.83 10.96 0.00 2.66
3157 4495 0.464916 AAGTTGTTTCGGCCGGACTT 60.465 50.000 27.83 22.04 0.00 3.01
3158 4496 0.464916 AAAGTTGTTTCGGCCGGACT 60.465 50.000 27.83 17.75 0.00 3.85
3159 4497 0.040692 GAAAGTTGTTTCGGCCGGAC 60.041 55.000 27.83 23.70 33.03 4.79
3160 4498 0.464013 TGAAAGTTGTTTCGGCCGGA 60.464 50.000 27.83 16.16 44.51 5.14
3161 4499 0.382515 TTGAAAGTTGTTTCGGCCGG 59.617 50.000 27.83 6.80 44.51 6.13
3162 4500 1.332375 TCTTGAAAGTTGTTTCGGCCG 59.668 47.619 22.12 22.12 44.51 6.13
3163 4501 2.287608 CCTCTTGAAAGTTGTTTCGGCC 60.288 50.000 0.00 0.00 44.51 6.13
3164 4502 2.287608 CCCTCTTGAAAGTTGTTTCGGC 60.288 50.000 0.00 0.00 44.51 5.54
3165 4503 3.211045 TCCCTCTTGAAAGTTGTTTCGG 58.789 45.455 0.00 0.00 44.51 4.30
3166 4504 5.701290 AGTATCCCTCTTGAAAGTTGTTTCG 59.299 40.000 0.00 0.00 44.51 3.46
3167 4505 7.878644 AGTAGTATCCCTCTTGAAAGTTGTTTC 59.121 37.037 0.00 0.00 42.27 2.78
3168 4506 7.746703 AGTAGTATCCCTCTTGAAAGTTGTTT 58.253 34.615 0.00 0.00 0.00 2.83
3169 4507 7.317722 AGTAGTATCCCTCTTGAAAGTTGTT 57.682 36.000 0.00 0.00 0.00 2.83
3170 4508 6.936968 AGTAGTATCCCTCTTGAAAGTTGT 57.063 37.500 0.00 0.00 0.00 3.32
3171 4509 6.973474 CGTAGTAGTATCCCTCTTGAAAGTTG 59.027 42.308 0.00 0.00 0.00 3.16
3172 4510 6.662663 ACGTAGTAGTATCCCTCTTGAAAGTT 59.337 38.462 0.00 0.00 41.94 2.66
3173 4511 6.186234 ACGTAGTAGTATCCCTCTTGAAAGT 58.814 40.000 0.00 0.00 41.94 2.66
3174 4512 6.696441 ACGTAGTAGTATCCCTCTTGAAAG 57.304 41.667 0.00 0.00 41.94 2.62
3209 4547 9.965902 AGTCTTGAAAGTTGGTTGAATATATCT 57.034 29.630 0.00 0.00 0.00 1.98
3211 4549 9.965902 AGAGTCTTGAAAGTTGGTTGAATATAT 57.034 29.630 0.00 0.00 0.00 0.86
3212 4550 9.793259 AAGAGTCTTGAAAGTTGGTTGAATATA 57.207 29.630 4.10 0.00 0.00 0.86
3213 4551 8.697507 AAGAGTCTTGAAAGTTGGTTGAATAT 57.302 30.769 4.10 0.00 0.00 1.28
3214 4552 9.621629 TTAAGAGTCTTGAAAGTTGGTTGAATA 57.378 29.630 15.90 0.00 0.00 1.75
3215 4553 8.519799 TTAAGAGTCTTGAAAGTTGGTTGAAT 57.480 30.769 15.90 0.00 0.00 2.57
3216 4554 7.931578 TTAAGAGTCTTGAAAGTTGGTTGAA 57.068 32.000 15.90 0.00 0.00 2.69
3217 4555 9.621629 TTATTAAGAGTCTTGAAAGTTGGTTGA 57.378 29.630 15.90 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.