Multiple sequence alignment - TraesCS2A01G179000

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS2A01G179000 chr2A 100.000 1823 0 0 1 1823 137935087 137936909 0.000000e+00 3367.0
1 TraesCS2A01G179000 chr2A 100.000 546 0 0 2211 2756 137937297 137937842 0.000000e+00 1009.0
2 TraesCS2A01G179000 chr2A 83.157 849 116 14 992 1823 137951283 137952121 0.000000e+00 750.0
3 TraesCS2A01G179000 chr2A 80.435 644 98 14 1198 1823 137942599 137943232 1.490000e-127 466.0
4 TraesCS2A01G179000 chr2A 92.713 247 18 0 991 1237 137942350 137942596 9.390000e-95 357.0
5 TraesCS2A01G179000 chr2A 84.878 205 31 0 1418 1622 137942861 137943065 1.000000e-49 207.0
6 TraesCS2A01G179000 chr2A 85.556 90 9 4 116 202 115452894 115452806 1.050000e-14 91.6
7 TraesCS2A01G179000 chr2B 94.964 834 41 1 991 1823 184877028 184877861 0.000000e+00 1306.0
8 TraesCS2A01G179000 chr2B 91.379 696 30 11 830 1506 184789203 184789887 0.000000e+00 926.0
9 TraesCS2A01G179000 chr2B 81.573 852 128 17 990 1823 184909675 184910515 0.000000e+00 676.0
10 TraesCS2A01G179000 chr2B 83.453 556 78 6 1279 1823 184900043 184900595 3.170000e-139 505.0
11 TraesCS2A01G179000 chr2B 82.334 617 58 14 915 1481 184930555 184931170 3.190000e-134 488.0
12 TraesCS2A01G179000 chr2B 83.333 528 53 18 1321 1823 184789580 184790097 3.240000e-124 455.0
13 TraesCS2A01G179000 chr2B 81.019 569 81 14 991 1541 184899836 184900395 7.050000e-116 427.0
14 TraesCS2A01G179000 chr2B 80.917 545 63 20 1314 1822 184800627 184801166 2.570000e-105 392.0
15 TraesCS2A01G179000 chr2B 81.212 495 50 8 220 686 184777078 184777557 2.610000e-95 359.0
16 TraesCS2A01G179000 chr2B 92.181 243 16 2 2516 2756 184796472 184796713 9.450000e-90 340.0
17 TraesCS2A01G179000 chr2B 90.661 257 13 3 2221 2477 184790148 184790393 5.690000e-87 331.0
18 TraesCS2A01G179000 chr2B 89.069 247 23 3 2512 2756 184879748 184879992 1.240000e-78 303.0
19 TraesCS2A01G179000 chr2B 84.962 266 31 5 1437 1693 184930961 184931226 7.570000e-66 261.0
20 TraesCS2A01G179000 chr2B 84.091 264 9 11 2221 2477 184877916 184878153 9.930000e-55 224.0
21 TraesCS2A01G179000 chr2B 94.595 111 1 4 670 779 184787232 184787338 1.700000e-37 167.0
22 TraesCS2A01G179000 chr2B 96.970 33 0 1 562 594 184876683 184876714 1.000000e-03 54.7
23 TraesCS2A01G179000 chr2D 81.842 1162 96 28 200 1269 131283387 131284525 0.000000e+00 870.0
24 TraesCS2A01G179000 chr2D 83.882 850 106 19 993 1823 131316800 131317637 0.000000e+00 782.0
25 TraesCS2A01G179000 chr2D 84.805 691 74 13 1132 1800 131284454 131285135 0.000000e+00 665.0
26 TraesCS2A01G179000 chr2D 87.701 374 44 2 1418 1790 131303490 131303862 4.220000e-118 435.0
27 TraesCS2A01G179000 chr2D 82.371 329 50 4 1198 1519 131360511 131360838 2.090000e-71 279.0
28 TraesCS2A01G179000 chr1A 86.364 88 9 3 116 202 568396162 568396077 2.920000e-15 93.5
29 TraesCS2A01G179000 chr5A 85.882 85 12 0 123 207 624795590 624795506 1.050000e-14 91.6
30 TraesCS2A01G179000 chr1B 84.337 83 10 3 123 202 44952166 44952248 8.180000e-11 78.7
31 TraesCS2A01G179000 chr3D 83.333 84 9 2 123 206 463535590 463535668 3.810000e-09 73.1
32 TraesCS2A01G179000 chr7D 91.304 46 4 0 120 165 515477332 515477377 2.290000e-06 63.9
33 TraesCS2A01G179000 chr6B 84.058 69 6 1 123 191 606964597 606964660 8.240000e-06 62.1
34 TraesCS2A01G179000 chr4B 80.952 84 11 5 83 162 25010286 25010204 8.240000e-06 62.1
35 TraesCS2A01G179000 chr6A 81.250 80 9 2 123 202 551089793 551089866 2.960000e-05 60.2


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 TraesCS2A01G179000 chr2A 137935087 137937842 2755 False 2188.000000 3367 100.000000 1 2756 2 chr2A.!!$F2 2755
1 TraesCS2A01G179000 chr2A 137951283 137952121 838 False 750.000000 750 83.157000 992 1823 1 chr2A.!!$F1 831
2 TraesCS2A01G179000 chr2A 137942350 137943232 882 False 343.333333 466 86.008667 991 1823 3 chr2A.!!$F3 832
3 TraesCS2A01G179000 chr2B 184909675 184910515 840 False 676.000000 676 81.573000 990 1823 1 chr2B.!!$F2 833
4 TraesCS2A01G179000 chr2B 184876683 184879992 3309 False 471.925000 1306 91.273500 562 2756 4 chr2B.!!$F5 2194
5 TraesCS2A01G179000 chr2B 184787232 184790393 3161 False 469.750000 926 89.992000 670 2477 4 chr2B.!!$F3 1807
6 TraesCS2A01G179000 chr2B 184899836 184900595 759 False 466.000000 505 82.236000 991 1823 2 chr2B.!!$F6 832
7 TraesCS2A01G179000 chr2B 184930555 184931226 671 False 374.500000 488 83.648000 915 1693 2 chr2B.!!$F7 778
8 TraesCS2A01G179000 chr2B 184796472 184801166 4694 False 366.000000 392 86.549000 1314 2756 2 chr2B.!!$F4 1442
9 TraesCS2A01G179000 chr2D 131316800 131317637 837 False 782.000000 782 83.882000 993 1823 1 chr2D.!!$F2 830
10 TraesCS2A01G179000 chr2D 131283387 131285135 1748 False 767.500000 870 83.323500 200 1800 2 chr2D.!!$F4 1600

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
281 282 0.178964 ATCAACCACAACCCCCACAG 60.179 55.0 0.0 0.0 0.0 3.66 F
1251 3162 0.096976 CAAAGCATGAACTACCGCCG 59.903 55.0 0.0 0.0 0.0 6.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1295 3206 0.035317 TGCTACCTCAGGCACAACTG 59.965 55.0 0.0 0.0 39.84 3.16 R
2733 7658 0.254178 CCAAGCTAGACCACCAGCAT 59.746 55.0 0.0 0.0 40.36 3.79 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
29 30 6.985188 ACAACGAGAGCATAATTTGTACAT 57.015 33.333 0.00 0.00 0.00 2.29
31 32 5.991328 ACGAGAGCATAATTTGTACATGG 57.009 39.130 0.00 0.00 0.00 3.66
32 33 4.816385 ACGAGAGCATAATTTGTACATGGG 59.184 41.667 0.00 0.00 0.00 4.00
33 34 4.816385 CGAGAGCATAATTTGTACATGGGT 59.184 41.667 0.00 0.00 0.00 4.51
34 35 5.277490 CGAGAGCATAATTTGTACATGGGTG 60.277 44.000 0.00 0.00 0.00 4.61
36 37 5.590259 AGAGCATAATTTGTACATGGGTGAC 59.410 40.000 0.00 0.00 0.00 3.67
38 39 4.497340 GCATAATTTGTACATGGGTGACGG 60.497 45.833 0.00 0.00 0.00 4.79
39 40 3.426787 AATTTGTACATGGGTGACGGA 57.573 42.857 0.00 0.00 0.00 4.69
40 41 2.465860 TTTGTACATGGGTGACGGAG 57.534 50.000 0.00 0.00 0.00 4.63
41 42 1.634960 TTGTACATGGGTGACGGAGA 58.365 50.000 0.00 0.00 0.00 3.71
42 43 1.860641 TGTACATGGGTGACGGAGAT 58.139 50.000 0.00 0.00 0.00 2.75
43 44 1.754803 TGTACATGGGTGACGGAGATC 59.245 52.381 0.00 0.00 0.00 2.75
44 45 2.032620 GTACATGGGTGACGGAGATCT 58.967 52.381 0.00 0.00 0.00 2.75
46 47 1.114627 CATGGGTGACGGAGATCTCA 58.885 55.000 23.85 1.41 0.00 3.27
48 49 1.114627 TGGGTGACGGAGATCTCATG 58.885 55.000 23.85 17.21 0.00 3.07
49 50 0.390860 GGGTGACGGAGATCTCATGG 59.609 60.000 23.85 14.30 0.00 3.66
50 51 0.390860 GGTGACGGAGATCTCATGGG 59.609 60.000 23.85 11.97 0.00 4.00
52 53 2.307768 GTGACGGAGATCTCATGGGTA 58.692 52.381 23.85 2.65 0.00 3.69
53 54 2.693591 GTGACGGAGATCTCATGGGTAA 59.306 50.000 23.85 6.72 0.00 2.85
54 55 2.693591 TGACGGAGATCTCATGGGTAAC 59.306 50.000 23.85 3.37 0.00 2.50
56 57 1.603172 CGGAGATCTCATGGGTAACGC 60.603 57.143 23.85 1.95 37.60 4.84
60 61 3.567397 AGATCTCATGGGTAACGCTACT 58.433 45.455 0.00 0.00 37.60 2.57
62 63 2.730382 TCTCATGGGTAACGCTACTGA 58.270 47.619 0.00 0.00 37.60 3.41
63 64 3.296854 TCTCATGGGTAACGCTACTGAT 58.703 45.455 0.00 0.00 37.60 2.90
64 65 3.318275 TCTCATGGGTAACGCTACTGATC 59.682 47.826 0.00 0.00 37.60 2.92
66 67 3.068165 TCATGGGTAACGCTACTGATCTG 59.932 47.826 0.00 0.00 37.60 2.90
67 68 1.136305 TGGGTAACGCTACTGATCTGC 59.864 52.381 0.00 0.00 37.60 4.26
68 69 1.136305 GGGTAACGCTACTGATCTGCA 59.864 52.381 0.00 0.00 37.60 4.41
69 70 2.799917 GGGTAACGCTACTGATCTGCAG 60.800 54.545 7.63 7.63 44.81 4.41
80 81 3.661944 CTGATCTGCAGTCTTTGTCTGT 58.338 45.455 14.67 0.00 39.85 3.41
82 83 2.988010 TCTGCAGTCTTTGTCTGTGT 57.012 45.000 14.67 0.00 35.60 3.72
84 85 3.609853 TCTGCAGTCTTTGTCTGTGTTT 58.390 40.909 14.67 0.00 35.60 2.83
85 86 4.009675 TCTGCAGTCTTTGTCTGTGTTTT 58.990 39.130 14.67 0.00 35.60 2.43
86 87 4.458989 TCTGCAGTCTTTGTCTGTGTTTTT 59.541 37.500 14.67 0.00 35.60 1.94
87 88 4.732784 TGCAGTCTTTGTCTGTGTTTTTC 58.267 39.130 0.00 0.00 35.60 2.29
88 89 4.217334 TGCAGTCTTTGTCTGTGTTTTTCA 59.783 37.500 0.00 0.00 35.60 2.69
89 90 5.105797 TGCAGTCTTTGTCTGTGTTTTTCAT 60.106 36.000 0.00 0.00 35.60 2.57
90 91 5.456822 GCAGTCTTTGTCTGTGTTTTTCATC 59.543 40.000 0.00 0.00 35.60 2.92
92 93 6.690098 CAGTCTTTGTCTGTGTTTTTCATCTG 59.310 38.462 0.00 0.00 0.00 2.90
95 96 4.898829 TGTCTGTGTTTTTCATCTGTGG 57.101 40.909 0.00 0.00 0.00 4.17
96 97 4.269183 TGTCTGTGTTTTTCATCTGTGGT 58.731 39.130 0.00 0.00 0.00 4.16
97 98 4.704540 TGTCTGTGTTTTTCATCTGTGGTT 59.295 37.500 0.00 0.00 0.00 3.67
98 99 5.184864 TGTCTGTGTTTTTCATCTGTGGTTT 59.815 36.000 0.00 0.00 0.00 3.27
99 100 6.099341 GTCTGTGTTTTTCATCTGTGGTTTT 58.901 36.000 0.00 0.00 0.00 2.43
128 129 7.472334 TCTTTAAGTATGTACTTTCCTCCGT 57.528 36.000 10.40 0.00 43.57 4.69
129 130 8.579850 TCTTTAAGTATGTACTTTCCTCCGTA 57.420 34.615 10.40 0.00 43.57 4.02
130 131 9.023962 TCTTTAAGTATGTACTTTCCTCCGTAA 57.976 33.333 10.40 0.00 43.57 3.18
131 132 9.643693 CTTTAAGTATGTACTTTCCTCCGTAAA 57.356 33.333 10.40 2.98 43.57 2.01
135 136 7.444299 AGTATGTACTTTCCTCCGTAAACAAA 58.556 34.615 0.00 0.00 31.13 2.83
136 137 8.098912 AGTATGTACTTTCCTCCGTAAACAAAT 58.901 33.333 0.00 0.00 31.13 2.32
137 138 9.369904 GTATGTACTTTCCTCCGTAAACAAATA 57.630 33.333 0.00 0.00 0.00 1.40
140 141 9.941325 TGTACTTTCCTCCGTAAACAAATATAA 57.059 29.630 0.00 0.00 0.00 0.98
143 144 9.159364 ACTTTCCTCCGTAAACAAATATAAGAC 57.841 33.333 0.00 0.00 0.00 3.01
144 145 7.760131 TTCCTCCGTAAACAAATATAAGACG 57.240 36.000 0.00 0.00 0.00 4.18
146 147 7.322664 TCCTCCGTAAACAAATATAAGACGTT 58.677 34.615 0.00 0.00 0.00 3.99
147 148 7.818930 TCCTCCGTAAACAAATATAAGACGTTT 59.181 33.333 0.00 0.00 34.40 3.60
148 149 8.445493 CCTCCGTAAACAAATATAAGACGTTTT 58.555 33.333 0.00 0.00 32.42 2.43
166 167 9.715121 AGACGTTTTAGGTCATTAAAATAGTGA 57.285 29.630 0.00 0.00 35.61 3.41
167 168 9.750882 GACGTTTTAGGTCATTAAAATAGTGAC 57.249 33.333 0.00 4.89 42.58 3.67
168 169 9.498176 ACGTTTTAGGTCATTAAAATAGTGACT 57.502 29.630 11.27 0.00 42.81 3.41
212 213 3.280295 CAGAGGGAGTACTACACACGAT 58.720 50.000 7.57 0.00 0.00 3.73
244 245 3.953542 ATGTCCCTAATTTCCAGTCCC 57.046 47.619 0.00 0.00 0.00 4.46
247 248 0.465642 CCCTAATTTCCAGTCCCGGC 60.466 60.000 0.00 0.00 0.00 6.13
248 249 0.814010 CCTAATTTCCAGTCCCGGCG 60.814 60.000 0.00 0.00 0.00 6.46
275 276 1.288752 CGCCAATCAACCACAACCC 59.711 57.895 0.00 0.00 0.00 4.11
278 279 0.470833 CCAATCAACCACAACCCCCA 60.471 55.000 0.00 0.00 0.00 4.96
281 282 0.178964 ATCAACCACAACCCCCACAG 60.179 55.000 0.00 0.00 0.00 3.66
286 287 1.978617 CACAACCCCCACAGATGCC 60.979 63.158 0.00 0.00 0.00 4.40
294 295 1.547372 CCCCACAGATGCCAGAAAAAG 59.453 52.381 0.00 0.00 0.00 2.27
325 347 1.067354 GTCCAGGCTTGCTTCCATTTG 60.067 52.381 0.00 0.00 0.00 2.32
339 361 3.916761 TCCATTTGCAGCATCTCAAAAC 58.083 40.909 0.00 0.00 36.02 2.43
343 365 3.374220 TTGCAGCATCTCAAAACAAGG 57.626 42.857 0.00 0.00 0.00 3.61
344 366 1.000060 TGCAGCATCTCAAAACAAGGC 60.000 47.619 0.00 0.00 0.00 4.35
366 388 2.679716 GGGCTGCTTCCTGACCAT 59.320 61.111 0.00 0.00 37.97 3.55
397 419 5.242838 TGAAATTAACTTCCATCAGCCGTTT 59.757 36.000 0.00 0.00 0.00 3.60
419 441 0.244450 TGGTTAGCGGTGACCTAACG 59.756 55.000 26.30 0.00 41.29 3.18
470 492 2.278596 CCGACACCGCGGTATGAG 60.279 66.667 33.70 21.51 46.07 2.90
471 493 2.278596 CGACACCGCGGTATGAGG 60.279 66.667 33.70 21.09 44.31 3.86
472 494 2.585247 GACACCGCGGTATGAGGC 60.585 66.667 33.70 18.15 42.11 4.70
482 504 3.214123 TATGAGGCGACGGACGGG 61.214 66.667 1.66 0.00 42.83 5.28
516 538 4.553101 CGTGCGCGCGTAATCCAC 62.553 66.667 33.47 26.49 0.00 4.02
531 553 3.623906 ATCCACCAACTCTGACTGATG 57.376 47.619 0.00 0.00 0.00 3.07
533 555 2.037641 TCCACCAACTCTGACTGATGTG 59.962 50.000 0.00 0.00 0.00 3.21
618 642 2.146342 ACCAATCGCCGAATCATCATC 58.854 47.619 0.00 0.00 0.00 2.92
740 771 4.911514 AACCAAGTTAACCACACATGAC 57.088 40.909 0.00 0.00 0.00 3.06
741 772 4.164843 ACCAAGTTAACCACACATGACT 57.835 40.909 0.00 0.00 0.00 3.41
742 773 5.298989 ACCAAGTTAACCACACATGACTA 57.701 39.130 0.00 0.00 0.00 2.59
743 774 5.305585 ACCAAGTTAACCACACATGACTAG 58.694 41.667 0.00 0.00 0.00 2.57
820 2676 2.798145 CGAACCCACCAAAAGTTTCAGC 60.798 50.000 0.00 0.00 0.00 4.26
826 2685 0.752054 CCAAAAGTTTCAGCCAGGCA 59.248 50.000 15.80 0.00 0.00 4.75
885 2744 3.736483 CATGTCTACCCGCATGCC 58.264 61.111 13.15 0.00 36.49 4.40
1182 3093 4.355720 CTGCCCAAGCCTGAGCCA 62.356 66.667 0.00 0.00 41.25 4.75
1191 3102 4.320456 CCTGAGCCACCGCACACT 62.320 66.667 0.00 0.00 37.52 3.55
1192 3103 2.740055 CTGAGCCACCGCACACTC 60.740 66.667 0.00 0.00 37.52 3.51
1193 3104 3.231889 CTGAGCCACCGCACACTCT 62.232 63.158 0.00 0.00 37.52 3.24
1194 3105 2.433318 GAGCCACCGCACACTCTC 60.433 66.667 0.00 0.00 37.52 3.20
1195 3106 4.363990 AGCCACCGCACACTCTCG 62.364 66.667 0.00 0.00 37.52 4.04
1196 3107 4.664677 GCCACCGCACACTCTCGT 62.665 66.667 0.00 0.00 34.03 4.18
1203 3114 2.338620 CACACTCTCGTGCCCGAA 59.661 61.111 0.00 0.00 45.10 4.30
1205 3116 2.201022 ACACTCTCGTGCCCGAAGT 61.201 57.895 0.00 0.00 45.10 3.01
1206 3117 1.734477 CACTCTCGTGCCCGAAGTG 60.734 63.158 15.09 15.09 43.69 3.16
1207 3118 2.811317 CTCTCGTGCCCGAAGTGC 60.811 66.667 0.00 0.00 43.69 4.40
1208 3119 4.373116 TCTCGTGCCCGAAGTGCC 62.373 66.667 0.00 0.00 43.69 5.01
1209 3120 4.680237 CTCGTGCCCGAAGTGCCA 62.680 66.667 0.00 0.00 43.69 4.92
1212 3123 3.660111 GTGCCCGAAGTGCCACAC 61.660 66.667 0.00 0.00 34.10 3.82
1216 3127 4.263572 CCGAAGTGCCACACCCCA 62.264 66.667 0.00 0.00 34.49 4.96
1217 3128 2.034066 CGAAGTGCCACACCCCAT 59.966 61.111 0.00 0.00 34.49 4.00
1219 3130 1.978617 GAAGTGCCACACCCCATGG 60.979 63.158 4.14 4.14 40.50 3.66
1248 3159 1.164411 TGCCAAAGCATGAACTACCG 58.836 50.000 0.00 0.00 46.52 4.02
1249 3160 0.179163 GCCAAAGCATGAACTACCGC 60.179 55.000 0.00 0.00 39.53 5.68
1250 3161 0.451783 CCAAAGCATGAACTACCGCC 59.548 55.000 0.00 0.00 0.00 6.13
1251 3162 0.096976 CAAAGCATGAACTACCGCCG 59.903 55.000 0.00 0.00 0.00 6.46
1252 3163 1.644786 AAAGCATGAACTACCGCCGC 61.645 55.000 0.00 0.00 0.00 6.53
1253 3164 2.796483 AAGCATGAACTACCGCCGCA 62.796 55.000 0.00 0.00 0.00 5.69
1254 3165 3.089784 CATGAACTACCGCCGCAC 58.910 61.111 0.00 0.00 0.00 5.34
1255 3166 2.125269 ATGAACTACCGCCGCACC 60.125 61.111 0.00 0.00 0.00 5.01
1256 3167 3.675619 ATGAACTACCGCCGCACCC 62.676 63.158 0.00 0.00 0.00 4.61
1258 3169 4.388499 AACTACCGCCGCACCCTG 62.388 66.667 0.00 0.00 0.00 4.45
1278 3189 4.821589 GTGCCCGAGCTCCCGAAG 62.822 72.222 8.47 0.00 40.80 3.79
1286 3197 2.665603 GCTCCCGAAGCCTGAAGT 59.334 61.111 0.00 0.00 45.92 3.01
1287 3198 1.743252 GCTCCCGAAGCCTGAAGTG 60.743 63.158 0.00 0.00 45.92 3.16
1288 3199 1.743252 CTCCCGAAGCCTGAAGTGC 60.743 63.158 0.00 0.00 0.00 4.40
1289 3200 2.747855 CCCGAAGCCTGAAGTGCC 60.748 66.667 0.00 0.00 0.00 5.01
1290 3201 3.121030 CCGAAGCCTGAAGTGCCG 61.121 66.667 0.00 0.00 0.00 5.69
1291 3202 3.793144 CGAAGCCTGAAGTGCCGC 61.793 66.667 0.00 0.00 0.00 6.53
1292 3203 2.669569 GAAGCCTGAAGTGCCGCA 60.670 61.111 0.00 0.00 0.00 5.69
1293 3204 2.034687 AAGCCTGAAGTGCCGCAT 59.965 55.556 0.00 0.00 0.00 4.73
1294 3205 1.986575 GAAGCCTGAAGTGCCGCATC 61.987 60.000 0.00 0.00 0.00 3.91
1295 3206 3.512516 GCCTGAAGTGCCGCATCC 61.513 66.667 0.00 0.00 0.00 3.51
1296 3207 2.046023 CCTGAAGTGCCGCATCCA 60.046 61.111 0.00 0.00 0.00 3.41
1298 3209 1.376424 CTGAAGTGCCGCATCCAGT 60.376 57.895 0.00 0.00 0.00 4.00
1299 3210 0.957395 CTGAAGTGCCGCATCCAGTT 60.957 55.000 0.00 0.00 0.00 3.16
1300 3211 1.236616 TGAAGTGCCGCATCCAGTTG 61.237 55.000 0.00 0.00 0.00 3.16
1301 3212 1.228245 AAGTGCCGCATCCAGTTGT 60.228 52.632 0.00 0.00 0.00 3.32
1302 3213 1.518056 AAGTGCCGCATCCAGTTGTG 61.518 55.000 0.00 0.00 0.00 3.33
1303 3214 3.364441 TGCCGCATCCAGTTGTGC 61.364 61.111 0.00 0.00 37.97 4.57
1304 3215 4.120331 GCCGCATCCAGTTGTGCC 62.120 66.667 0.00 0.00 38.08 5.01
1305 3216 2.360350 CCGCATCCAGTTGTGCCT 60.360 61.111 0.00 0.00 38.08 4.75
1308 3219 1.642037 CGCATCCAGTTGTGCCTGAG 61.642 60.000 0.00 0.00 38.08 3.35
1309 3220 1.310933 GCATCCAGTTGTGCCTGAGG 61.311 60.000 0.00 0.00 35.35 3.86
1310 3221 0.037303 CATCCAGTTGTGCCTGAGGT 59.963 55.000 0.00 0.00 34.23 3.85
1311 3222 1.278985 CATCCAGTTGTGCCTGAGGTA 59.721 52.381 0.00 0.00 34.23 3.08
1312 3223 0.976641 TCCAGTTGTGCCTGAGGTAG 59.023 55.000 0.00 0.00 34.23 3.18
1314 3225 0.035317 CAGTTGTGCCTGAGGTAGCA 59.965 55.000 0.00 0.00 34.23 3.49
1315 3226 0.764890 AGTTGTGCCTGAGGTAGCAA 59.235 50.000 0.00 0.45 41.48 3.91
1316 3227 1.142870 AGTTGTGCCTGAGGTAGCAAA 59.857 47.619 0.00 0.00 41.48 3.68
1317 3228 1.537202 GTTGTGCCTGAGGTAGCAAAG 59.463 52.381 0.00 0.00 41.48 2.77
1371 4478 2.490991 GTGCCAAAGAACGAACTACCT 58.509 47.619 0.00 0.00 0.00 3.08
1459 4566 3.469863 GAAGTGCCACACCCCGTCA 62.470 63.158 0.00 0.00 34.49 4.35
1555 4866 0.620556 CCCTGCCATACCAGAGTTGT 59.379 55.000 0.00 0.00 34.77 3.32
1712 5041 2.035312 CAAAGCTGAGCTGCCCCT 59.965 61.111 8.16 0.00 39.62 4.79
1772 5102 1.621992 TGATCGGACTAGCTCATCCC 58.378 55.000 9.96 0.00 0.00 3.85
2235 5593 4.752879 TGTGCCGTTAGAGCCCGC 62.753 66.667 0.00 0.00 0.00 6.13
2312 5677 7.665559 ACTGCTCAATCTGTTCCTTTTATGTAA 59.334 33.333 0.00 0.00 0.00 2.41
2337 5702 5.477510 TGCACGATGTATATGATATGCACA 58.522 37.500 5.36 0.00 36.94 4.57
2398 5763 7.234384 CAGTTGTGTTCCGATTTACTTATGTC 58.766 38.462 0.00 0.00 0.00 3.06
2410 5775 9.529325 CGATTTACTTATGTCCATCACTAAAGA 57.471 33.333 0.00 0.00 0.00 2.52
2416 5781 9.877178 ACTTATGTCCATCACTAAAGAGTAAAG 57.123 33.333 0.00 0.00 33.32 1.85
2522 7446 5.501156 ACTATTCCCTTCATGTCTTTGGAC 58.499 41.667 0.00 0.00 42.42 4.02
2543 7467 5.856455 GGACATTAATTGACAGTCCAAAACG 59.144 40.000 14.14 0.00 46.15 3.60
2544 7468 6.293735 GGACATTAATTGACAGTCCAAAACGA 60.294 38.462 14.14 0.00 46.15 3.85
2546 7470 3.626028 AATTGACAGTCCAAAACGAGC 57.374 42.857 0.00 0.00 0.00 5.03
2547 7471 2.325583 TTGACAGTCCAAAACGAGCT 57.674 45.000 0.00 0.00 0.00 4.09
2548 7472 1.865865 TGACAGTCCAAAACGAGCTC 58.134 50.000 2.73 2.73 0.00 4.09
2549 7473 0.784778 GACAGTCCAAAACGAGCTCG 59.215 55.000 33.45 33.45 46.33 5.03
2551 7475 1.202486 ACAGTCCAAAACGAGCTCGAA 60.202 47.619 40.58 15.98 43.02 3.71
2552 7476 1.864711 CAGTCCAAAACGAGCTCGAAA 59.135 47.619 40.58 16.32 43.02 3.46
2553 7477 2.096713 CAGTCCAAAACGAGCTCGAAAG 60.097 50.000 40.58 24.83 43.02 2.62
2584 7509 2.825861 TTGTGTTACCGGACTCTTCC 57.174 50.000 9.46 0.00 38.77 3.46
2609 7534 6.095432 CAAAGTTTGGTTGGATGGTTATGA 57.905 37.500 7.78 0.00 0.00 2.15
2647 7572 2.383855 CTTGGTTTTCAACAGGGGTCA 58.616 47.619 0.00 0.00 0.00 4.02
2681 7606 4.594136 GGCGACGTTATTTTCCTTATTGG 58.406 43.478 0.00 0.00 37.10 3.16
2692 7617 2.718563 TCCTTATTGGAGGCGTTTTCC 58.281 47.619 0.00 0.00 40.56 3.13
2708 7633 3.685139 TTTCCGAAGATTCTGCTCACT 57.315 42.857 0.00 0.00 0.00 3.41
2749 7674 1.065854 GTTGATGCTGGTGGTCTAGCT 60.066 52.381 0.00 0.00 46.17 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 7.735500 TGTACAAATTATGCTCTCGTTGTAAC 58.264 34.615 0.00 0.00 34.31 2.50
4 5 7.892778 TGTACAAATTATGCTCTCGTTGTAA 57.107 32.000 0.00 0.00 34.31 2.41
5 6 7.011016 CCATGTACAAATTATGCTCTCGTTGTA 59.989 37.037 0.00 0.00 31.95 2.41
9 10 4.816385 CCCATGTACAAATTATGCTCTCGT 59.184 41.667 0.00 0.00 0.00 4.18
10 11 4.816385 ACCCATGTACAAATTATGCTCTCG 59.184 41.667 0.00 0.00 0.00 4.04
11 12 5.822519 TCACCCATGTACAAATTATGCTCTC 59.177 40.000 0.00 0.00 0.00 3.20
13 14 5.504010 CGTCACCCATGTACAAATTATGCTC 60.504 44.000 0.00 0.00 0.00 4.26
14 15 4.335315 CGTCACCCATGTACAAATTATGCT 59.665 41.667 0.00 0.00 0.00 3.79
16 17 4.878971 TCCGTCACCCATGTACAAATTATG 59.121 41.667 0.00 0.00 0.00 1.90
17 18 5.104693 TCTCCGTCACCCATGTACAAATTAT 60.105 40.000 0.00 0.00 0.00 1.28
18 19 4.223255 TCTCCGTCACCCATGTACAAATTA 59.777 41.667 0.00 0.00 0.00 1.40
19 20 3.008594 TCTCCGTCACCCATGTACAAATT 59.991 43.478 0.00 0.00 0.00 1.82
20 21 2.569853 TCTCCGTCACCCATGTACAAAT 59.430 45.455 0.00 0.00 0.00 2.32
21 22 1.972075 TCTCCGTCACCCATGTACAAA 59.028 47.619 0.00 0.00 0.00 2.83
22 23 1.634960 TCTCCGTCACCCATGTACAA 58.365 50.000 0.00 0.00 0.00 2.41
23 24 1.754803 GATCTCCGTCACCCATGTACA 59.245 52.381 0.00 0.00 0.00 2.90
24 25 2.032620 AGATCTCCGTCACCCATGTAC 58.967 52.381 0.00 0.00 0.00 2.90
25 26 2.307768 GAGATCTCCGTCACCCATGTA 58.692 52.381 12.00 0.00 0.00 2.29
26 27 1.115467 GAGATCTCCGTCACCCATGT 58.885 55.000 12.00 0.00 0.00 3.21
27 28 1.114627 TGAGATCTCCGTCACCCATG 58.885 55.000 20.03 0.00 0.00 3.66
29 30 1.114627 CATGAGATCTCCGTCACCCA 58.885 55.000 20.03 0.00 0.00 4.51
31 32 0.390860 CCCATGAGATCTCCGTCACC 59.609 60.000 20.03 0.00 0.00 4.02
32 33 1.115467 ACCCATGAGATCTCCGTCAC 58.885 55.000 20.03 0.00 0.00 3.67
33 34 2.693591 GTTACCCATGAGATCTCCGTCA 59.306 50.000 20.03 2.36 0.00 4.35
34 35 2.287668 CGTTACCCATGAGATCTCCGTC 60.288 54.545 20.03 0.00 0.00 4.79
36 37 1.603172 GCGTTACCCATGAGATCTCCG 60.603 57.143 20.03 13.69 0.00 4.63
38 39 3.570550 AGTAGCGTTACCCATGAGATCTC 59.429 47.826 16.21 16.21 0.00 2.75
39 40 3.319405 CAGTAGCGTTACCCATGAGATCT 59.681 47.826 5.74 0.00 0.00 2.75
40 41 3.318275 TCAGTAGCGTTACCCATGAGATC 59.682 47.826 5.74 0.00 0.00 2.75
41 42 3.296854 TCAGTAGCGTTACCCATGAGAT 58.703 45.455 5.74 0.00 0.00 2.75
42 43 2.730382 TCAGTAGCGTTACCCATGAGA 58.270 47.619 5.74 0.00 0.00 3.27
43 44 3.319405 AGATCAGTAGCGTTACCCATGAG 59.681 47.826 5.74 0.00 0.00 2.90
44 45 3.068165 CAGATCAGTAGCGTTACCCATGA 59.932 47.826 5.74 4.22 0.00 3.07
46 47 2.224066 GCAGATCAGTAGCGTTACCCAT 60.224 50.000 5.74 0.00 0.00 4.00
48 49 1.136305 TGCAGATCAGTAGCGTTACCC 59.864 52.381 5.74 0.00 0.00 3.69
49 50 2.464865 CTGCAGATCAGTAGCGTTACC 58.535 52.381 8.42 0.00 38.02 2.85
60 61 3.181462 ACACAGACAAAGACTGCAGATCA 60.181 43.478 23.35 0.00 38.74 2.92
62 63 3.482156 ACACAGACAAAGACTGCAGAT 57.518 42.857 23.35 5.42 38.74 2.90
63 64 2.988010 ACACAGACAAAGACTGCAGA 57.012 45.000 23.35 0.00 38.74 4.26
64 65 4.361451 AAAACACAGACAAAGACTGCAG 57.639 40.909 13.48 13.48 38.74 4.41
66 67 4.732784 TGAAAAACACAGACAAAGACTGC 58.267 39.130 0.00 0.00 38.74 4.40
67 68 6.690098 CAGATGAAAAACACAGACAAAGACTG 59.310 38.462 0.00 0.00 40.68 3.51
68 69 6.375455 ACAGATGAAAAACACAGACAAAGACT 59.625 34.615 0.00 0.00 0.00 3.24
69 70 6.470235 CACAGATGAAAAACACAGACAAAGAC 59.530 38.462 0.00 0.00 0.00 3.01
70 71 6.404623 CCACAGATGAAAAACACAGACAAAGA 60.405 38.462 0.00 0.00 0.00 2.52
72 73 5.184864 ACCACAGATGAAAAACACAGACAAA 59.815 36.000 0.00 0.00 0.00 2.83
73 74 4.704540 ACCACAGATGAAAAACACAGACAA 59.295 37.500 0.00 0.00 0.00 3.18
74 75 4.269183 ACCACAGATGAAAAACACAGACA 58.731 39.130 0.00 0.00 0.00 3.41
75 76 4.900635 ACCACAGATGAAAAACACAGAC 57.099 40.909 0.00 0.00 0.00 3.51
76 77 5.913137 AAACCACAGATGAAAAACACAGA 57.087 34.783 0.00 0.00 0.00 3.41
77 78 6.966435 AAAAACCACAGATGAAAAACACAG 57.034 33.333 0.00 0.00 0.00 3.66
102 103 8.370182 ACGGAGGAAAGTACATACTTAAAGAAA 58.630 33.333 4.75 0.00 45.17 2.52
103 104 7.899973 ACGGAGGAAAGTACATACTTAAAGAA 58.100 34.615 4.75 0.00 45.17 2.52
104 105 7.472334 ACGGAGGAAAGTACATACTTAAAGA 57.528 36.000 4.75 0.00 45.17 2.52
105 106 9.643693 TTTACGGAGGAAAGTACATACTTAAAG 57.356 33.333 4.75 0.00 45.17 1.85
106 107 9.423061 GTTTACGGAGGAAAGTACATACTTAAA 57.577 33.333 4.75 0.00 45.17 1.52
108 109 8.121305 TGTTTACGGAGGAAAGTACATACTTA 57.879 34.615 4.75 0.00 45.17 2.24
111 112 7.656707 TTTGTTTACGGAGGAAAGTACATAC 57.343 36.000 0.00 0.00 0.00 2.39
117 118 9.159364 GTCTTATATTTGTTTACGGAGGAAAGT 57.841 33.333 0.00 0.00 0.00 2.66
118 119 8.325997 CGTCTTATATTTGTTTACGGAGGAAAG 58.674 37.037 0.00 0.00 0.00 2.62
140 141 9.715121 TCACTATTTTAATGACCTAAAACGTCT 57.285 29.630 0.00 0.00 34.46 4.18
141 142 9.750882 GTCACTATTTTAATGACCTAAAACGTC 57.249 33.333 0.00 0.00 37.39 4.34
142 143 9.498176 AGTCACTATTTTAATGACCTAAAACGT 57.502 29.630 3.14 0.00 43.10 3.99
186 187 5.048504 CGTGTGTAGTACTCCCTCTGTAAAA 60.049 44.000 0.00 0.00 0.00 1.52
188 189 4.005650 CGTGTGTAGTACTCCCTCTGTAA 58.994 47.826 0.00 0.00 0.00 2.41
189 190 3.261643 TCGTGTGTAGTACTCCCTCTGTA 59.738 47.826 0.00 0.00 0.00 2.74
190 191 2.039480 TCGTGTGTAGTACTCCCTCTGT 59.961 50.000 0.00 0.00 0.00 3.41
193 194 3.442977 ACAATCGTGTGTAGTACTCCCTC 59.557 47.826 0.00 0.00 36.31 4.30
194 195 3.428532 ACAATCGTGTGTAGTACTCCCT 58.571 45.455 0.00 0.00 36.31 4.20
195 196 3.863142 ACAATCGTGTGTAGTACTCCC 57.137 47.619 0.00 0.00 36.31 4.30
218 219 7.611855 GGGACTGGAAATTAGGGACATTATATG 59.388 40.741 0.00 0.00 0.00 1.78
223 224 3.371595 CGGGACTGGAAATTAGGGACATT 60.372 47.826 0.00 0.00 0.00 2.71
224 225 2.172717 CGGGACTGGAAATTAGGGACAT 59.827 50.000 0.00 0.00 0.00 3.06
258 259 1.671166 GGGGTTGTGGTTGATTGGC 59.329 57.895 0.00 0.00 0.00 4.52
275 276 1.547372 CCTTTTTCTGGCATCTGTGGG 59.453 52.381 0.00 0.00 0.00 4.61
286 287 1.876156 ACGCTTCTGAGCCTTTTTCTG 59.124 47.619 0.00 0.00 46.42 3.02
294 295 2.125350 CCTGGACGCTTCTGAGCC 60.125 66.667 0.00 0.00 46.42 4.70
325 347 1.670967 GGCCTTGTTTTGAGATGCTGC 60.671 52.381 0.00 0.00 0.00 5.25
352 374 0.179034 GGGCTATGGTCAGGAAGCAG 60.179 60.000 0.00 0.00 39.11 4.24
355 377 0.471617 CAGGGGCTATGGTCAGGAAG 59.528 60.000 0.00 0.00 0.00 3.46
366 388 4.938575 TGGAAGTTAATTTCAGGGGCTA 57.061 40.909 12.19 0.00 0.00 3.93
400 422 0.244450 CGTTAGGTCACCGCTAACCA 59.756 55.000 0.00 0.00 38.06 3.67
404 426 2.713967 GGGCGTTAGGTCACCGCTA 61.714 63.158 0.00 0.00 46.23 4.26
505 527 0.999406 CAGAGTTGGTGGATTACGCG 59.001 55.000 3.53 3.53 0.00 6.01
509 531 4.532126 ACATCAGTCAGAGTTGGTGGATTA 59.468 41.667 1.27 0.00 29.66 1.75
515 537 2.224378 CCACACATCAGTCAGAGTTGGT 60.224 50.000 0.00 0.00 0.00 3.67
516 538 2.420642 CCACACATCAGTCAGAGTTGG 58.579 52.381 0.00 0.00 0.00 3.77
531 553 0.247736 ATCTCCTGAAGACGCCACAC 59.752 55.000 0.00 0.00 36.65 3.82
533 555 0.532573 TGATCTCCTGAAGACGCCAC 59.467 55.000 0.00 0.00 36.65 5.01
605 629 1.691196 TTTGGGGATGATGATTCGGC 58.309 50.000 0.00 0.00 0.00 5.54
618 642 0.457851 TGAACGCAACTGTTTTGGGG 59.542 50.000 6.09 0.00 36.77 4.96
653 677 9.823647 TTTCAATCTCTAACCTGAACAGATATC 57.176 33.333 3.19 0.00 0.00 1.63
740 771 7.868415 ACTTACTTCTGTTTTGTGTCTAGCTAG 59.132 37.037 15.01 15.01 0.00 3.42
741 772 7.723324 ACTTACTTCTGTTTTGTGTCTAGCTA 58.277 34.615 0.00 0.00 0.00 3.32
742 773 6.583562 ACTTACTTCTGTTTTGTGTCTAGCT 58.416 36.000 0.00 0.00 0.00 3.32
743 774 6.846325 ACTTACTTCTGTTTTGTGTCTAGC 57.154 37.500 0.00 0.00 0.00 3.42
800 2656 2.483013 GGCTGAAACTTTTGGTGGGTTC 60.483 50.000 0.00 0.00 0.00 3.62
820 2676 0.687354 AGTGGACAGTAGTTGCCTGG 59.313 55.000 0.00 0.00 34.16 4.45
826 2685 6.229936 TGTAACTTTCAGTGGACAGTAGTT 57.770 37.500 0.00 0.00 33.01 2.24
861 2720 1.168407 GCGGGTAGACATGCATGCAT 61.168 55.000 27.46 27.46 37.08 3.96
862 2721 1.819208 GCGGGTAGACATGCATGCA 60.819 57.895 26.53 25.04 0.00 3.96
863 2722 1.168407 ATGCGGGTAGACATGCATGC 61.168 55.000 26.53 18.25 45.64 4.06
904 2789 6.310197 GCTGATATTTATAGCGCTCCAAAAG 58.690 40.000 16.34 10.48 0.00 2.27
924 2809 3.052566 TCTTGGAGATAGGAGAAGGCTGA 60.053 47.826 0.00 0.00 0.00 4.26
1176 3087 3.226429 GAGAGTGTGCGGTGGCTCA 62.226 63.158 0.00 0.00 40.10 4.26
1177 3088 2.433318 GAGAGTGTGCGGTGGCTC 60.433 66.667 0.00 0.00 40.82 4.70
1178 3089 4.363990 CGAGAGTGTGCGGTGGCT 62.364 66.667 0.00 0.00 40.82 4.75
1179 3090 4.664677 ACGAGAGTGTGCGGTGGC 62.665 66.667 0.00 0.00 46.97 5.01
1196 3107 4.947147 GGTGTGGCACTTCGGGCA 62.947 66.667 19.83 0.00 41.50 5.36
1200 3111 2.034066 ATGGGGTGTGGCACTTCG 59.966 61.111 19.83 0.00 34.40 3.79
1201 3112 1.978617 CCATGGGGTGTGGCACTTC 60.979 63.158 19.83 11.58 34.40 3.01
1202 3113 2.118076 CCATGGGGTGTGGCACTT 59.882 61.111 19.83 0.00 34.40 3.16
1219 3130 4.025401 CTTTGGCACGTCGGGCAC 62.025 66.667 22.95 11.34 43.63 5.01
1233 3144 1.644786 GCGGCGGTAGTTCATGCTTT 61.645 55.000 9.78 0.00 0.00 3.51
1234 3145 2.106683 GCGGCGGTAGTTCATGCTT 61.107 57.895 9.78 0.00 0.00 3.91
1235 3146 2.511600 GCGGCGGTAGTTCATGCT 60.512 61.111 9.78 0.00 0.00 3.79
1238 3149 2.125269 GGTGCGGCGGTAGTTCAT 60.125 61.111 9.78 0.00 0.00 2.57
1239 3150 4.382320 GGGTGCGGCGGTAGTTCA 62.382 66.667 9.78 0.00 0.00 3.18
1240 3151 4.078516 AGGGTGCGGCGGTAGTTC 62.079 66.667 9.78 0.00 0.00 3.01
1241 3152 4.388499 CAGGGTGCGGCGGTAGTT 62.388 66.667 9.78 0.00 0.00 2.24
1270 3181 1.743252 GCACTTCAGGCTTCGGGAG 60.743 63.158 0.00 0.00 0.00 4.30
1271 3182 2.347490 GCACTTCAGGCTTCGGGA 59.653 61.111 0.00 0.00 0.00 5.14
1274 3185 3.793144 GCGGCACTTCAGGCTTCG 61.793 66.667 0.00 0.00 0.00 3.79
1275 3186 1.986575 GATGCGGCACTTCAGGCTTC 61.987 60.000 4.03 0.00 0.00 3.86
1276 3187 2.034687 ATGCGGCACTTCAGGCTT 59.965 55.556 4.03 0.00 0.00 4.35
1277 3188 2.437359 GATGCGGCACTTCAGGCT 60.437 61.111 4.03 0.00 0.00 4.58
1278 3189 3.512516 GGATGCGGCACTTCAGGC 61.513 66.667 4.03 0.00 0.00 4.85
1280 3191 0.957395 AACTGGATGCGGCACTTCAG 60.957 55.000 20.21 20.21 0.00 3.02
1282 3193 1.237285 ACAACTGGATGCGGCACTTC 61.237 55.000 4.03 0.00 0.00 3.01
1283 3194 1.228245 ACAACTGGATGCGGCACTT 60.228 52.632 4.03 0.00 0.00 3.16
1284 3195 1.968017 CACAACTGGATGCGGCACT 60.968 57.895 4.03 0.00 0.00 4.40
1285 3196 2.562912 CACAACTGGATGCGGCAC 59.437 61.111 4.03 0.00 0.00 5.01
1286 3197 3.364441 GCACAACTGGATGCGGCA 61.364 61.111 4.58 4.58 30.97 5.69
1287 3198 4.120331 GGCACAACTGGATGCGGC 62.120 66.667 0.00 0.00 43.02 6.53
1288 3199 2.360350 AGGCACAACTGGATGCGG 60.360 61.111 0.00 0.00 43.02 5.69
1289 3200 1.642037 CTCAGGCACAACTGGATGCG 61.642 60.000 0.00 0.00 43.02 4.73
1290 3201 1.310933 CCTCAGGCACAACTGGATGC 61.311 60.000 0.00 0.00 41.29 3.91
1291 3202 0.037303 ACCTCAGGCACAACTGGATG 59.963 55.000 0.00 0.00 38.98 3.51
1292 3203 1.556911 CTACCTCAGGCACAACTGGAT 59.443 52.381 0.00 0.00 38.98 3.41
1293 3204 0.976641 CTACCTCAGGCACAACTGGA 59.023 55.000 0.00 0.00 38.98 3.86
1294 3205 0.674895 GCTACCTCAGGCACAACTGG 60.675 60.000 0.00 0.00 38.98 4.00
1295 3206 0.035317 TGCTACCTCAGGCACAACTG 59.965 55.000 0.00 0.00 39.84 3.16
1296 3207 0.764890 TTGCTACCTCAGGCACAACT 59.235 50.000 0.00 0.00 38.23 3.16
1298 3209 1.545428 CCTTTGCTACCTCAGGCACAA 60.545 52.381 0.00 0.00 38.23 3.33
1299 3210 0.036732 CCTTTGCTACCTCAGGCACA 59.963 55.000 0.00 0.00 38.23 4.57
1300 3211 0.324943 TCCTTTGCTACCTCAGGCAC 59.675 55.000 0.00 0.00 38.23 5.01
1301 3212 0.615331 CTCCTTTGCTACCTCAGGCA 59.385 55.000 0.00 0.00 36.62 4.75
1302 3213 0.746204 GCTCCTTTGCTACCTCAGGC 60.746 60.000 0.00 0.00 0.00 4.85
1303 3214 0.107459 GGCTCCTTTGCTACCTCAGG 60.107 60.000 0.00 0.00 0.00 3.86
1304 3215 0.107459 GGGCTCCTTTGCTACCTCAG 60.107 60.000 0.00 0.00 0.00 3.35
1305 3216 1.899437 CGGGCTCCTTTGCTACCTCA 61.899 60.000 0.00 0.00 0.00 3.86
1308 3219 0.744771 CTTCGGGCTCCTTTGCTACC 60.745 60.000 0.00 0.00 0.00 3.18
1309 3220 0.036294 ACTTCGGGCTCCTTTGCTAC 60.036 55.000 0.00 0.00 0.00 3.58
1310 3221 0.036388 CACTTCGGGCTCCTTTGCTA 60.036 55.000 0.00 0.00 0.00 3.49
1311 3222 1.302832 CACTTCGGGCTCCTTTGCT 60.303 57.895 0.00 0.00 0.00 3.91
1312 3223 2.982744 GCACTTCGGGCTCCTTTGC 61.983 63.158 0.00 0.00 0.00 3.68
1314 3225 2.034221 GGCACTTCGGGCTCCTTT 59.966 61.111 0.00 0.00 0.00 3.11
1315 3226 3.249189 TGGCACTTCGGGCTCCTT 61.249 61.111 0.00 0.00 0.00 3.36
1316 3227 4.021925 GTGGCACTTCGGGCTCCT 62.022 66.667 11.13 0.00 0.00 3.69
1317 3228 3.628646 ATGTGGCACTTCGGGCTCC 62.629 63.158 19.83 0.00 0.00 4.70
1459 4566 2.361610 CTTTGGCACCTCCGGCAT 60.362 61.111 0.00 0.00 41.62 4.40
1464 4571 2.436109 TGCTCCTTTGGCACCTCC 59.564 61.111 0.00 0.00 34.56 4.30
1555 4866 0.250684 TGTGGCATTTCAGGCTTCGA 60.251 50.000 0.00 0.00 34.73 3.71
1712 5041 2.159382 GAAAATGGAACTCGGGCTTCA 58.841 47.619 0.00 0.00 0.00 3.02
2222 5554 1.381928 TAGAGTGCGGGCTCTAACGG 61.382 60.000 9.20 0.00 42.96 4.44
2235 5593 2.096819 GCTCTCGTCAGGAACTAGAGTG 59.903 54.545 0.00 0.00 45.29 3.51
2312 5677 6.594937 TGTGCATATCATATACATCGTGCATT 59.405 34.615 0.00 0.00 42.42 3.56
2349 5714 5.754890 GCAATCTGAAACTCCAAACACAAAT 59.245 36.000 0.00 0.00 0.00 2.32
2493 7402 7.839680 AAGACATGAAGGGAATAGTTTGTTT 57.160 32.000 0.00 0.00 0.00 2.83
2522 7446 5.569059 GCTCGTTTTGGACTGTCAATTAATG 59.431 40.000 10.38 2.40 0.00 1.90
2533 7457 2.135933 CTTTCGAGCTCGTTTTGGACT 58.864 47.619 33.33 0.00 40.80 3.85
2541 7465 2.029844 GCCAAGCTTTCGAGCTCGT 61.030 57.895 33.33 13.27 45.54 4.18
2542 7466 1.739562 AGCCAAGCTTTCGAGCTCG 60.740 57.895 30.03 30.03 45.54 5.03
2543 7467 4.292784 AGCCAAGCTTTCGAGCTC 57.707 55.556 2.73 2.73 45.54 4.09
2562 7487 3.878699 GGAAGAGTCCGGTAACACAAAAA 59.121 43.478 0.00 0.00 33.05 1.94
2596 7521 4.264253 CTGAACTGCTCATAACCATCCAA 58.736 43.478 0.00 0.00 32.14 3.53
2608 7533 1.916697 GCTTTCGCCCTGAACTGCTC 61.917 60.000 0.00 0.00 35.97 4.26
2609 7534 1.968540 GCTTTCGCCCTGAACTGCT 60.969 57.895 0.00 0.00 35.97 4.24
2647 7572 2.314647 CGTCGCCGTCACCAACATT 61.315 57.895 0.00 0.00 0.00 2.71
2670 7595 5.870571 CGGAAAACGCCTCCAATAAGGAAA 61.871 45.833 0.00 0.00 40.51 3.13
2676 7601 2.027929 TCTTCGGAAAACGCCTCCAATA 60.028 45.455 0.00 0.00 43.86 1.90
2681 7606 2.094417 CAGAATCTTCGGAAAACGCCTC 59.906 50.000 0.00 0.00 43.86 4.70
2692 7617 3.380004 AGGAGTAGTGAGCAGAATCTTCG 59.620 47.826 0.00 0.00 0.00 3.79
2708 7633 1.153086 GACCGTAGCCCGAGGAGTA 60.153 63.158 0.00 0.00 39.56 2.59
2733 7658 0.254178 CCAAGCTAGACCACCAGCAT 59.746 55.000 0.00 0.00 40.36 3.79
2736 7661 0.976641 TGACCAAGCTAGACCACCAG 59.023 55.000 0.00 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.